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First author Title PubMed ID / DOI
Hausmann S Giardia lamblia RNA cap guanine-N2 methyltransferase (Tgs2). 16046409
Urbonavicius J Identification of a novel gene encoding a flavin-dependent tRNA:m5U methyltransferase in bacteria--evolutionary implications. 16027442
Marmier-Gourrier N A structural, phylogenetic, and functional study of 15.5-kD/Snu13 protein binding on U3 small nucleolar RNA. 12810916
Hager J Substrate binding analysis of the 23S rRNA methyltransferase RrmJ. 15375145
Sunita S Functional specialization of domains tandemly duplicated within 16S rRNA methyltransferase RsmC. 17576679
Kolodrubetz D Sequence and genetic analysis of NHP2: a moderately abundant high mobility group-like nuclear protein with an essential function in Saccharomyces cerevisiae. 2063628
Motorin Y Multisite-specific tRNA:m5C-methyltransferase (Trm4) in yeast Saccharomyces cerevisiae: identification of the gene and substrate specificity of the enzyme. 10445884
Walbott H Cysteine of sequence motif VI is essential for nucleophilic catalysis by yeast tRNA m5C methyltransferase. 17475914
Motorin Y The yeast tRNA:pseudouridine synthase Pus1p displays a multisite substrate specificity. 9671058
Behm-Ansmant I The Saccharomyces cerevisiae U2 snRNA:pseudouridine-synthase Pus7p is a novel multisite-multisubstrate RNA:Psi-synthase also acting on tRNAs. 14561887
Grosjean H Aminoacylation of the anticodon stem by a tRNA-synthetase paralog: relic of an ancient code? 15450604
Behm-Ansmant I The Saccharomyces cerevisiae Pus2 protein encoded by YGL063w ORF is a mitochondrial tRNA:Psi27/28-synthase. 17684231
Kotelawala L Identification of yeast tRNA Um(44) 2'-O-methyltransferase (Trm44) and demonstration of a Trm44 role in sustaining levels of specific tRNA(Ser) species. 18025252
Ikeuchi Y The RNA acetyltransferase driven by ATP hydrolysis synthesizes N4-acetylcytidine of tRNA anticodon. 18668122
Kambampati R IscS is a sulfurtransferase for the in vitro biosynthesis of 4-thiouridine in Escherichia coli tRNA. 10600118
Bujnicki JM Bioinformatic analyses of the tRNA: (guanine 26, N2,N2)-dimethyltransferase (Trm1) family. 12125821
Purushothaman SK Trm11p and Trm112p are both required for the formation of 2-methylguanosine at position 10 in yeast tRNA. 15899842
Hamilton CS Mechanistic investigations of the pseudouridine synthase RluA using RNA containing 5-fluorouridine. 17002302
Bujnicki JM Structure prediction and phylogenetic analysis of a functionally diverse family of proteins homologous to the MT-A70 subunit of the human mRNA:m(6)A methyltransferase. 12355263
de Beus E Yeast NOP2 encodes an essential nucleolar protein with homology to a human proliferation marker. 7806561
Wolfe MD Functional diversity of the rhodanese homology domain: the Escherichia coli ybbB gene encodes a selenophosphate-dependent tRNA 2-selenouridine synthase. 14594807
Jiang W An essential yeast protein, CBF5p, binds in vitro to centromeres and microtubules. 8336724
Salazar JC A truncated aminoacyl-tRNA synthetase modifies RNA. 15096612
Pierrel F MiaB protein is a bifunctional radical-S-adenosylmethionine enzyme involved in thiolation and methylation of tRNA. 15339930
Roovers M A primordial RNA modification enzyme: the case of tRNA (m1A) methyltransferase. 14739239
Hallberg BM The structure of the RNA m5C methyltransferase YebU from Escherichia coli reveals a C-terminal RNA-recruiting PUA domain. 16793063
Pintard L MRM2 encodes a novel yeast mitochondrial 21S rRNA methyltransferase. 11867542
Caldas T The FtsJ/RrmJ heat shock protein of Escherichia coli is a 23 S ribosomal RNA methyltransferase. 10748051
Hausmann S Specificity and mechanism of RNA cap guanine-N2 methyltransferase (Tgs1). 15590684
Frey B New function of vitamin B12: cobamide-dependent reduction of epoxyqueuosine to queuosine in tRNAs of Escherichia coli and Salmonella typhimurium. 3129401
Wrzesinski J Purification, cloning, and properties of the 16S RNA pseudouridine 516 synthase from Escherichia coli. 7612632
Mouaikel J Hypermethylation of the cap structure of both yeast snRNAs and snoRNAs requires a conserved methyltransferase that is localized to the nucleolus. 11983179
Romanowski MJ Crystal structure of the Escherichia coli glucose-inhibited division protein B (GidB) reveals a methyltransferase fold. 12001236
Cabedo H The Escherichia coli trmE (mnmE) gene, involved in tRNA modification, codes for an evolutionarily conserved GTPase with unusual biochemical properties. 10601028
Clery A Analysis of sequence and structural features that identify the B/C motif of U3 small nucleolar RNA as the recognition site for the Snu13p-Rrp9p protein pair. 17145781
Jacq C The nucleotide sequence of Saccharomyces cerevisiae chromosome IV. 9169867
Kato T A novel human tRNA-dihydrouridine synthase involved in pulmonary carcinogenesis. 15994936
Watanabe M Biosynthesis of archaeosine, a novel derivative of 7-deazaguanosine specific to archaeal tRNA, proceeds via a pathway involving base replacement on the tRNA polynucleotide chain. 9242689
Lapeyre B Spb1p-directed formation of Gm2922 in the ribosome catalytic center occurs at a late processing stage. 15546625
Pintard L Trm7p catalyses the formation of two 2'-O-methylriboses in yeast tRNA anticodon loop. 11927565
Agarwalla S Characterization of the 23 S ribosomal RNA m5U1939 methyltransferase from Escherichia coli. 11779873
Massenet S Pseudouridine mapping in the Saccharomyces cerevisiae spliceosomal U small nuclear RNAs (snRNAs) reveals that pseudouridine synthase pus1p exhibits a dual substrate specificity for U2 snRNA and tRNA. 10022901
Hagervall TG Genetic mapping and cloning of the gene (trmC) responsible for the synthesis of tRNA (mnm5s2U)methyltransferase in Escherichia coli K12. 6387395
Lesnyak DV Methyltransferase that modifies guanine 966 of the 16 S rRNA: functional identification and tertiary structure. 17189261
Kalhor HR Novel methyltransferase for modified uridine residues at the wobble position of tRNA. 14645538
Grimm C Crystal structure of Bacillus subtilis S-adenosylmethionine:tRNA ribosyltransferase-isomerase. 17083917
Noma A Biosynthesis of wybutosine, a hyper-modified nucleoside in eukaryotic phenylalanine tRNA. 16642040
Bonnerot C Functional redundancy of Spb1p and a snR52-dependent mechanism for the 2'-O-ribose methylation of a conserved rRNA position in yeast. 14636587
Decoster E MSS1, a nuclear-encoded mitochondrial GTPase involved in the expression of COX1 subunit of cytochrome c oxidase. 8392589
Gu XR Identification of the 16S rRNA m5C967 methyltransferase from Escherichia coli. 10194318
Del Campo M Identification and site of action of the remaining four putative pseudouridine synthases in Escherichia coli. 11720289
Slany RK A new function of S-adenosylmethionine: the ribosyl moiety of AdoMet is the precursor of the cyclopentenediol moiety of the tRNA wobble base queuine. 8347586
Soma A An RNA-modifying enzyme that governs both the codon and amino acid specificities of isoleucine tRNA. 14527414
De Bie LG The yggH gene of Escherichia coli encodes a tRNA (m7G46) methyltransferase. 12730187
Brisson-Noel A Evidence for natural gene transfer from gram-positive cocci to Escherichia coli. 2832378
Michel G The structure of the RlmB 23S rRNA methyltransferase reveals a new methyltransferase fold with a unique knot. 12377117
Watanabe K Functional categorization of the conserved basic amino acid residues in TrmH (tRNA (Gm18) methyltransferase) enzymes. 16963456
Gutgsell N Deletion of the Escherichia coli pseudouridine synthase gene truB blocks formation of pseudouridine 55 in tRNA in vivo, does not affect exponential growth, but confers a strong selective disadvantage in competition with wild-type cells. 11142385
Jager G The conserved Cys-X1-X2-Cys motif present in the TtcA protein is required for the thiolation of cytidine in position 32 of tRNA from Salmonella enterica serovar Typhimurium. 14729701
Bujnicki JM Sequence-structure-function studies of tRNA:m5C methyltransferase Trm4p and its relationship to DNA:m5C and RNA:m5U methyltransferases. 15121902
Hagervall TG Transfer RNA(5-methylaminomethyl-2-thiouridine)-methyltransferase from Escherichia coli K-12 has two enzymatic activities. 3298234
Stengl B Mechanism and substrate specificity of tRNA-guanine transglycosylases (TGTs): tRNA-modifying enzymes from the three different kingdoms of life share a common catalytic mechanism. 16206323
Bussey H The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI. 9169875
Calvo O GCD14p, a repressor of GCN4 translation, cooperates with Gcd10p and Lhp1p in the maturation of initiator methionyl-tRNA in Saccharomyces cerevisiae. 10330157
Tsukamoto T Isolation and characterization of the yeast mRNA capping enzyme beta subunit gene encoding RNA 5'-triphosphatase, which is essential for cell viability. 9345280
Lauhon CT Substitutions in an active site loop of Escherichia coli IscS result in specific defects in Fe-S cluster and thionucleoside biosynthesis in vivo. 14978044
Gutgsell NS A second function for pseudouridine synthases: A point mutant of RluD unable to form pseudouridines 1911, 1915, and 1917 in Escherichia coli 23S ribosomal RNA restores normal growth to an RluD-minus strain. 11453071
Kressler D Spb1p is a putative methyltransferase required for 60S ribosomal subunit biogenesis in Saccharomyces cerevisiae. 10556316
Toh SM The methyltransferase YfgB/RlmN is responsible for modification of adenosine 2503 in 23S rRNA. 18025251
Lesnyak DV Identification of Escherichia coli m2G methyltransferases: I. the ycbY gene encodes a methyltransferase specific for G2445 of the 23 S rRNA. 17010378
Yim L The GTPase activity and C-terminal cysteine of the Escherichia coli MnmE protein are essential for its tRNA modifying function. 12730230
Wolf J tadA, an essential tRNA-specific adenosine deaminase from Escherichia coli. 12110595
Wu P Nop5p is a small nucleolar ribonucleoprotein component required for pre-18 S rRNA processing in yeast. 9632712
Watanabe K Roles of conserved amino acid sequence motifs in the SpoU (TrmH) RNA methyltransferase family. 15637073
Caillet J Molecular cloning of the Escherichia coli miaA gene involved in the formation of delta 2-isopentenyl adenosine in tRNA. 3045085
Waas WF Discovery of a gene family critical to wyosine base formation in a subset of phenylalanine-specific transfer RNAs. 16162496
Gutgsell NS The pseudouridine synthase RluD is required for normal ribosome assembly and function in Escherichia coli. 15928344
Lauhon CT Requirement for IscS in biosynthesis of all thionucleosides in Escherichia coli. 12446632
Hopper AK tRNA transfers to the limelight. 12533506
Baker DL RNA-guided RNA modification: functional organization of the archaeal H/ACA RNP. 15870259
Gustafsson C Identification of the rrmA gene encoding the 23S rRNA m1G745 methyltransferase in Escherichia coli and characterization of an m1G745-deficient mutant. 9440525
Leinfelder W In vitro synthesis of selenocysteinyl-tRNA(UCA) from seryl-tRNA(UCA): involvement and characterization of the selD gene product. 2405383
Basturea GN Identification and characterization of RsmE, the founding member of a new RNA base methyltransferase family. 16431987
Mathews I Crystal structure of S-adenosylmethionine:tRNA ribosyltransferase-isomerase (QueA) from Thermotoga maritima at 2.0 A resolution reveals a new fold. 15822125
Ny T Cloning and restriction mapping of the trmA gene coding for transfer ribonucleic acid (5-methyluridine)-methyltransferase in Escherichia coli K-12. 6247318
Nordlund ME Identification of the TRM2 gene encoding the tRNA(m5U54)methyltransferase of Saccharomyces cerevisiae. 10864043
Appel CD Structural features of the guide:target RNA duplex required for archaeal box C/D sRNA-guided nucleotide 2'-O-methylation. 17438123
Xing F The specificities of four yeast dihydrouridine synthases for cytoplasmic tRNAs. 14970222
Rozenski J The RNA Modification Database: 1999 update. 9847178
Swairjo MA Crystallization and preliminary X-ray characterization of the nitrile reductase QueF: a queuosine-biosynthesis enzyme. 16511203
Campanacci V The Escherichia coli YadB gene product reveals a novel aminoacyl-tRNA synthetase like activity. 15003446
Bishop AC Identification of the tRNA-dihydrouridine synthase family. 11983710
Gerber AP An adenosine deaminase that generates inosine at the wobble position of tRNAs. 10550050
Nakanishi K Structural basis for lysidine formation by ATP pyrophosphatase accompanied by a lysine-specific loop and a tRNA-recognition domain. 15894617
Tettelin H The nucleotide sequence of Saccharomyces cerevisiae chromosome VII. 9169869
Hamma T The Cbf5-Nop10 complex is a molecular bracket that organizes box H/ACA RNPs. 16286935
Blaise M Glu-Q-tRNA(Asp) synthetase coded by the yadB gene, a new paralog of aminoacyl-tRNA synthetase that glutamylates tRNA(Asp) anticodon. 16164993
Yim L Further insights into the tRNA modification process controlled by proteins MnmE and GidA of Escherichia coli. 17062623
Lee TT A unique RNA Fold in the RumA-RNA-cofactor ternary complex contributes to substrate selectivity and enzymatic function. 15766524
Cupp-Vickery JR Crystal structure of IscA, an iron-sulfur cluster assembly protein from Escherichia coli. 15050828
Nasvall SJ The modified wobble nucleoside uridine-5-oxyacetic acid in tRNAPro(cmo5UGG) promotes reading of all four proline codons in vivo. 15383682
Philippsen P The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications. 9169873
Esberg B Identification of the miaB gene, involved in methylthiolation of isopentenylated A37 derivatives in the tRNA of Salmonella typhimurium and Escherichia coli. 10572129
Ollagnier-de-Choudens S Iron-sulfur cluster assembly: characterization of IscA and evidence for a specific and functional complex with ferredoxin. 11319236
Bujnicki JM Sequence analysis and structure prediction of 23S rRNA:m1G methyltransferases reveals a conserved core augmented with a putative Zn-binding domain in the N-terminus and family-specific elaborations in the C-terminus. 11763974
Henras A Nhp2p and Nop10p are essential for the function of H/ACA snoRNPs. 9843512
Girard JP GAR1 is an essential small nucleolar RNP protein required for pre-rRNA processing in yeast. 1531632
Purta E Sequence-structure-function relationships of a tRNA (m7G46) methyltransferase studied by homology modeling and site-directed mutagenesis. 15789416
Alexandrov A Two proteins that form a complex are required for 7-methylguanosine modification of yeast tRNA. 12403464
Zhang X The coiled-coil domain of the Nop56/58 core protein is dispensable for sRNP assembly but is critical for archaeal box C/D sRNP-guided nucleotide methylation. 16601205
Hellmuth K Cloning and characterization of the Schizosaccharomyces pombe tRNA:pseudouridine synthase Pus1p. 11095668
Ozanick S The bipartite structure of the tRNA m1A58 methyltransferase from S. cerevisiae is conserved in humans. 16043508
Ansmant I Identification of the Saccharomyces cerevisiae RNA:pseudouridine synthase responsible for formation of psi(2819) in 21S mitochondrial ribosomal RNA. 10756195
Bujnicki JM In silico analysis of the tRNA:m1A58 methyltransferase family: homology-based fold prediction and identification of new members from Eubacteria and Archaea. 11684083
Anderson J The essential Gcd10p-Gcd14p nuclear complex is required for 1-methyladenosine modification and maturation of initiator methionyl-tRNA. 9851972
Wilkinson ML The 2'-O-methyltransferase responsible for modification of yeast tRNA at position 4. 17242307
Bujnicki JM Phylogenomic analysis of 16S rRNA:(guanine-N2) methyltransferases suggests new family members and reveals highly conserved motifs and a domain structure similar to other nucleic acid amino-methyltransferases. 11053259
Bystrom AS The structural gene (trmD) for the tRNA(m1G)methyltransferase is part of a four polypeptide operon in Escherichia coli K-12. 6298574
Dong X Crystal structure of tRNA pseudouridine synthase TruA from Thermus thermophilus HB8. 17114947
Suzuki Y Crystal structure of the radical SAM enzyme catalyzing tricyclic modified base formation in tRNA. 17727881
Motorin Y Transfer RNA recognition by the Escherichia coli delta2-isopentenyl-pyrophosphate:tRNA delta2-isopentenyl transferase: dependence on the anticodon arm structure. 9214656
Astrom SU Rit1, a tRNA backbone-modifying enzyme that mediates initiator and elongator tRNA discrimination. 7954819
Bjork GR Genetic dissection of synthesis and function of modified nucleosides in bacterial transfer RNA. 7538683
Pan H The crystal structure of E. coli rRNA pseudouridine synthase RluE. 17320904
Dubois DY An aminoacyl-tRNA synthetase-like protein encoded by the Escherichia coli yadB gene glutamylates specifically tRNAAsp. 15096594
Soderberg T Escherichia coli dimethylallyl diphosphate:tRNA dimethylallyltransferase: essential elements for recognition of tRNA substrates within the anticodon stem-loop. 10828971
Lafontaine D The 18S rRNA dimethylase Dim1p is required for pre-ribosomal RNA processing in yeast. 7590228
Hur S How U38, 39, and 40 of many tRNAs become the targets for pseudouridylation by TruA. 17466622
Schubot FD Crystal structure of the transcription factor sc-mtTFB offers insights into mitochondrial transcription. 11567089
Anderson J The Gcd10p/Gcd14p complex is the essential two-subunit tRNA(1-methyladenosine) methyltransferase of Saccharomyces cerevisiae. 10779558
Dihanich ME Isolation and characterization of MOD5, a gene required for isopentenylation of cytoplasmic and mitochondrial tRNAs of Saccharomyces cerevisiae. 3031456
Kaya Y A novel unanticipated type of pseudouridine synthase with homologs in bacteria, archaea, and eukarya. 12756329
Kalhor HR Protein phosphatase methyltransferase 1 (Ppm1p) is the sole activity responsible for modification of the major forms of protein phosphatase 2A in yeast. 11697862
Roovers M Formation of the conserved pseudouridine at position 55 in archaeal tRNA. 16920741
Bujnicki JM Sequence analysis and structure prediction of aminoglycoside-resistance 16S rRNA:m7G methyltransferases. 11518396
Vaidyanathan PP RluD, a highly conserved pseudouridine synthase, modifies 50S subunits more specifically and efficiently than free 23S rRNA. 17872507
Kolman C SPL1-1, a Saccharomyces cerevisiae mutation affecting tRNA splicing. 8444805
Johansson MJ The Saccharomyces cerevisiae TAN1 gene is required for N4-acetylcytidine formation in tRNA. 15037780
Bugl H RNA methylation under heat shock control. 10983982
McCleverty CJ Crystal structure of human Pus10, a novel pseudouridine synthase. 17900615
Basturea GN Substrate specificity and properties of the Escherichia coli 16S rRNA methyltransferase, RsmE. 17872509
Taylor AB The crystal structure of Nep1 reveals an extended SPOUT-class methyltransferase fold and a pre-organized SAM-binding site. 18208838
Persson BC The spoU gene of Escherichia coli, the fourth gene of the spoT operon, is essential for tRNA (Gm18) 2'-O-methyltransferase activity. 9321663
Leipuviene R Formation of thiolated nucleosides present in tRNA from Salmonella enterica serovar Typhimurium occurs in two principally distinct pathways. 14729702
Wachino J Novel plasmid-mediated 16S rRNA m1A1408 methyltransferase, NpmA, found in a clinically isolated Escherichia coli strain resistant to structurally diverse aminoglycosides. 17875999
Pintard L Spb1p is a yeast nucleolar protein associated with Nop1p and Nop58p that is able to bind S-adenosyl-L-methionine in vitro. 10648622
Behm-Ansmant I Pseudouridylation at position 32 of mitochondrial and cytoplasmic tRNAs requires two distinct enzymes in Saccharomyces cerevisiae. 15466869
Kambampati R MnmA and IscS are required for in vitro 2-thiouridine biosynthesis in Escherichia coli. 12549933
Andersen NM YebU is a m5C methyltransferase specific for 16 S rRNA nucleotide 1407. 16678201
Purta E YbeA is the m3Psi methyltransferase RlmH that targets nucleotide 1915 in 23S rRNA. 18755835
Matte A Structure of the pseudouridine synthase RsuA from Haemophilus influenzae. 16511038
Okamoto S Loss of a conserved 7-methylguanosine modification in 16S rRNA confers low-level streptomycin resistance in bacteria. 17238915
Teplova M The structure of the yrdC gene product from Escherichia coli reveals a new fold and suggests a role in RNA binding. 11206077
Caldas T Translational defects of Escherichia coli mutants deficient in the Um(2552) 23S ribosomal RNA methyltransferase RrmJ/FTSJ. 10814528
Conrad J The rluC gene of Escherichia coli codes for a pseudouridine synthase that is solely responsible for synthesis of pseudouridine at positions 955, 2504, and 2580 in 23 S ribosomal RNA. 9660827
Carnahan RH Dim1p is required for efficient splicing and export of mRNA encoding lid1p, a component of the fission yeast anaphase-promoting complex. 15755920
Cupp-Vickery JR Crystal structure of IscS, a cysteine desulfurase from Escherichia coli. 12860127
Xing F A conserved family of Saccharomyces cerevisiae synthases effects dihydrouridine modification of tRNA. 12003496
Kalhor HR A novel methyltransferase required for the formation of the hypermodified nucleoside wybutosine in eucaryotic tRNA. 16005430
Cavaille J The yeast Saccharomyces cerevisiae YDL112w ORF encodes the putative 2'-O-ribose methyltransferase catalyzing the formation of Gm18 in tRNAs. 9917067
Elkins PA Insights into catalysis by a knotted TrmD tRNA methyltransferase. 14583191
Purta E The yfhQ gene of Escherichia coli encodes a tRNA:Cm32/Um32 methyltransferase. 16848900
Na JG Isolation and characterization of SUA5, a novel gene required for normal growth in Saccharomyces cerevisiae. 1325384
Sergiev PV The ybiN gene of Escherichia coli encodes adenine-N6 methyltransferase specific for modification of A1618 of 23 S ribosomal RNA, a methylated residue located close to the ribosomal exit tunnel. 18021804
Bjork GR A primordial tRNA modification required for the evolution of life? 11226173
Colby G MTO1 codes for a mitochondrial protein required for respiration in paromomycin-resistant mutants of Saccharomyces cerevisiae. 9774408
Matsumoto K RNA recognition mechanism of eukaryote tRNA (m7G46) methyltransferase (Trm8-Trm82 complex). 17382321
Tomoyasu T The Escherichia coli FtsH protein is a prokaryotic member of a protein family of putative ATPases involved in membrane functions, cell cycle control, and gene expression. 8444796
Reuter K Structure and organization of Escherichia coli genes involved in biosynthesis of the deazaguanine derivative queuine, a nutrient factor for eukaryotes. 1706703
Madsen CT Identifying the methyltransferases for m(5)U747 and m(5)U1939 in 23S rRNA using MALDI mass spectrometry. 12907714
Pan H Structure of tRNA pseudouridine synthase TruB and its RNA complex: RNA recognition through a combination of rigid docking and induced fit. 14566049
Hong B Nop2p is required for pre-rRNA processing and 60S ribosome subunit synthesis in yeast. 8972218
Reynaud A Disruption and functional analysis of six ORFs of chromosome IV: YDL103c (QRI1), YDL105w (QRI2), YDL112w (TRM3), YDL113c, YDL116w (NUP84) and YDL167c (NRP1). 11180460
Tkaczuk KL Structural and evolutionary bioinformatics of the SPOUT superfamily of methyltransferases. 17338813
Clancy MJ Induction of sporulation in Saccharomyces cerevisiae leads to the formation of N6-methyladenosine in mRNA: a potential mechanism for the activity of the IME4 gene. 12384598
Mueller EG Identification of a gene involved in the generation of 4-thiouridine in tRNA. 9592144
Jablonowski D tRNAGlu wobble uridine methylation by Trm9 identifies Elongator's key role for zymocin-induced cell death in yeast. 16390459
Lecointe F Characterization of yeast protein Deg1 as pseudouridine synthase (Pus3) catalyzing the formation of psi 38 and psi 39 in tRNA anticodon loop. 9430663
Hager J Active site in RrmJ, a heat shock-induced methyltransferase. 12181314
Mathevon C tRNA-modifying MiaE protein from Salmonella typhimurium is a nonheme diiron monooxygenase. 17679698
Sirum-Connolly K Functional requirement of a site-specific ribose methylation in ribosomal RNA. 8266080
Hong B Temperature sensitive nop2 alleles defective in synthesis of 25S rRNA and large ribosomal subunits in Saccharomyces cerevisiae. 11452018
Sergiev PV Ribosomal RNA guanine-(N2)-methyltransferases and their targets. 17389639
Mao X Yeast mRNA cap methyltransferase is a 50-kilodalton protein encoded by an essential gene. 7623811
Bujnicki JM mRNA:guanine-N7 cap methyltransferases: identification of novel members of the family, evolutionary analysis, homology modeling, and analysis of sequence-structure-function relationships. 11472630
Hagervall TG Reduced misreading of asparagine codons by Escherichia coli tRNALys with hypomodified derivatives of 5-methylaminomethyl-2-thiouridine in the wobble position. 9811540
Monleon D Structural insights into the GTPase domain of Escherichia coli MnmE protein. 17143896
Nilsson K The cysteine desulfurase IscS is required for synthesis of all five thiolated nucleosides present in tRNA from Salmonella enterica serovar typhimurium. 12446633
Hoang C Crystal structure of the highly divergent pseudouridine synthase TruD reveals a circular permutation of a conserved fold. 15208439
Bujnicki JM Identification of a bifunctional enzyme MnmC involved in the biosynthesis of a hypermodified uridine in the wobble position of tRNA. 15247431
White J Bud23 methylates G1575 of 18S rRNA and is required for efficient nuclear export of pre-40S subunits. 18332120
Wrzesinski J A dual-specificity pseudouridine synthase: an Escherichia coli synthase purified and cloned on the basis of its specificity for psi 746 in 23S RNA is also specific for psi 32 in tRNA(phe). 7493321
Lee TT Crystal structure of RumA, an iron-sulfur cluster containing E. coli ribosomal RNA 5-methyluridine methyltransferase. 15016356
Henriquez R Isolation and sequencing of NOP1. A yeast gene encoding a nucleolar protein homologous to a human autoimmune antigen. 2298745
O'Farrell HC Recognition of a complex substrate by the KsgA/Dim1 family of enzymes has been conserved throughout evolution. 16540698
Waterman DG Crystal structure of Bacillus anthracis ThiI, a tRNA-modifying enzyme containing the predicted RNA-binding THUMP domain. 16343540
Ansmant I Identification and characterization of the tRNA:Psi 31-synthase (Pus6p) of Saccharomyces cerevisiae. 11406626
Liiv A Analysis of the function of E. coli 23S rRNA helix-loop 69 by mutagenesis. 16053518
Martinez-Vicente M Effects of mutagenesis in the switch I region and conserved arginines of Escherichia coli MnmE protein, a GTPase involved in tRNA modification. 15983041
Guan MX Mutation in TRMU related to transfer RNA modification modulates the phenotypic expression of the deafness-associated mitochondrial 12S ribosomal RNA mutations. 16826519
Rashid R Crystal structure of a Cbf5-Nop10-Gar1 complex and implications in RNA-guided pseudouridylation and dyskeratosis congenita. 16427014
Sergiev PV Identification of Escherichia coli m2G methyltransferases: II. The ygjO gene encodes a methyltransferase specific for G1835 of the 23 S rRNA. 17010380
Corollo D Crystallization and characterization of a fragment of pseudouridine synthase RluC from Escherichia coli. 10089432
Roovers M The YqfN protein of Bacillus subtilis is the tRNA: m1A22 methyltransferase (TrmK). 18420655
Tkaczuk KL Molecular phylogenetics and comparative modeling of HEN1, a methyltransferase involved in plant microRNA biogenesis. 16433904
Lafontaine DL The box H + ACA snoRNAs carry Cbf5p, the putative rRNA pseudouridine synthase. 9472021
Lovgren JM The rlmB gene is essential for formation of Gm2251 in 23S rRNA but not for ribosome maturation in Escherichia coli. 11698387
Nishimura K Identification of the RsmG methyltransferase target as 16S rRNA nucleotide G527 and characterization of Bacillus subtilis rsmG mutants. 17573471
Kaya Y Crystal structure of TruD, a novel pseudouridine synthase with a new protein fold. 14999002
Scrima A The structure of the TrmE GTP-binding protein and its implications for tRNA modification. 15616586
Jackman JE Identification of the yeast gene encoding the tRNA m1G methyltransferase responsible for modification at position 9. 12702816
Gerber A Tad1p, a yeast tRNA-specific adenosine deaminase, is related to the mammalian pre-mRNA editing enzymes ADAR1 and ADAR2. 9707437
Walbott H The carboxyl-terminal extension of yeast tRNA m5C methyltransferase enhances the catalytic efficiency of the amino-terminal domain. 17567576
Bujnicki JM RNA:(guanine-N2) methyltransferases RsmC/RsmD and their homologs revisited--bioinformatic analysis and prediction of the active site based on the uncharacterized Mj0882 protein structure. 11929612
Ellis SR Isolation and characterization of the TRM1 locus, a gene essential for the N2,N2-dimethylguanosine modification of both mitochondrial and cytoplasmic tRNA in Saccharomyces cerevisiae. 2426253
Dabbs ER The ribosomal components responsible for kasugamycin dependence, and its suppression, in a mutant of Escherichia coli. 6988670
Das K Crystal structure of RlmAI: implications for understanding the 23S rRNA G745/G748-methylation at the macrolide antibiotic-binding site. 14999102
Gautier T Nucleolar KKE/D repeat proteins Nop56p and Nop58p interact with Nop1p and are required for ribosome biogenesis. 9372940
Mouaikel J Sequence-structure-function relationships of Tgs1, the yeast snRNA/snoRNA cap hypermethylase. 12907733
Gagnon KT Assembly of the archaeal box C/D sRNP can occur via alternative pathways and requires temperature-facilitated sRNA remodeling. 16949610
Kaminska KH Structural bioinformatics analysis of enzymes involved in the biosynthesis pathway of the hypermodified nucleoside ms(2)io(6)A37 in tRNA. 17910062
Constantinesco F Transfer RNA modification enzymes from Pyrococcus furiosus: detection of the enzymatic activities in vitro. 9973619
Tscherne JS Purification, cloning, and characterization of the 16S RNA m5C967 methyltransferase from Escherichia coli. 10026269
Shibagaki Y mRNA capping enzyme. Isolation and characterization of the gene encoding mRNA guanylytransferase subunit from Saccharomyces cerevisiae. 1315757
Watts JM Ligand-mediated anticodon conformational changes occur during tRNA methylation by a TrmD methyltransferase. 15850396
Hoang C Crystal structure of pseudouridine synthase RluA: indirect sequence readout through protein-induced RNA structure. 17188032
Seidel-Rogol BL Human mitochondrial transcription factor B1 methylates ribosomal RNA at a conserved stem-loop. 12496758
Persson BC Isolation of the gene (miaE) encoding the hydroxylase involved in the synthesis of 2-methylthio-cis-ribozeatin in tRNA of Salmonella typhimurium and characterization of mutants. 8253666
Casamayor A Sequence analysis of a 13.4 kbp fragment from the left arm of chromosome XV reveals a malate dehydrogenase gene, a putative Ser/Thr protein kinase, the ribosomal L25 gene and four new open reading frames. 8896265
Scrima A Dimerisation-dependent GTPase reaction of MnmE: how potassium acts as GTPase-activating element. 16763562
Yan Q Human TRMU encoding the mitochondrial 5-methylaminomethyl-2-thiouridylate-methyltransferase is a putative nuclear modifier gene for the phenotypic expression of the deafness-associated 12S rRNA mutations. 16513084
Nolivos S The K-loop, a general feature of the Pyrococcus C/D guide RNAs, is an RNA structural motif related to the K-turn. 16293637
Raychaudhuri S Functional effect of deletion and mutation of the Escherichia coli ribosomal RNA and tRNA pseudouridine synthase RluA. 10383384
Aravind L THUMP--a predicted RNA-binding domain shared by 4-thiouridine, pseudouridine synthases and RNA methylases. 11295541
Alexandrov A tRNA m7G methyltransferase Trm8p/Trm82p: evidence linking activity to a growth phenotype and implicating Trm82p in maintaining levels of active Trm8p. 15811913
Kammen HO Purification, structure, and properties of Escherichia coli tRNA pseudouridine synthase I. 3276686
Blaise M A minimalist glutamyl-tRNA synthetase dedicated to aminoacylation of the tRNAAsp QUC anticodon. 15150343
Xie W Structure of tRNA dimethylallyltransferase: RNA modification through a channel. 17292915
Sunita S Domain organization and crystal structure of the catalytic domain of E.coli RluF, a pseudouridine synthase that acts on 23S rRNA. 16712869
Van Lanen SG From cyclohydrolase to oxidoreductase: discovery of nitrile reductase activity in a common fold. 15767583
Slany RK Transfer and isomerization of the ribose moiety of AdoMet during the biosynthesis of queuosine tRNAs, a new unique reaction catalyzed by the QueA protein from Escherichia coli. 7849103
Torchet C The complete set of H/ACA snoRNAs that guide rRNA pseudouridylations in Saccharomyces cerevisiae. 15923376
Stengl B Crystal structures of tRNA-guanine transglycosylase (TGT) in complex with novel and potent inhibitors unravel pronounced induced-fit adaptations and suggest dimer formation upon substrate binding. 17524419
Lecointe F Lack of pseudouridine 38/39 in the anticodon arm of yeast cytoplasmic tRNA decreases in vivo recoding efficiency. 12058040
Nishimura K Mutations in rsmG, encoding a 16S rRNA methyltransferase, result in low-level streptomycin resistance and antibiotic overproduction in Streptomyces coelicolor A3(2). 17384192
Tscherne JS Purification, cloning, and characterization of the 16 S RNA m2G1207 methyltransferase from Escherichia coli. 9873033
Becker HF The yeast gene YNL292w encodes a pseudouridine synthase (Pus4) catalyzing the formation of psi55 in both mitochondrial and cytoplasmic tRNAs. 9358157
Conrad J 16S ribosomal RNA pseudouridine synthase RsuA of Escherichia coli: deletion, mutation of the conserved Asp102 residue, and sequence comparison among all other pseudouridine synthases. 10376875
Rodriguez V Chromosome 8 BAC array comparative genomic hybridization and expression analysis identify amplification and overexpression of TRMT12 in breast cancer. 17440925
Singh SK Sequential 2'-O-methylation of archaeal pre-tRNATrp nucleotides is guided by the intron-encoded but trans-acting box C/D ribonucleoprotein of pre-tRNA. 15347671
Veres Z A purified selenophosphate-dependent enzyme from Salmonella typhimurium catalyzes the replacement of sulfur in 2-thiouridine residues in tRNAs with selenium. 7520175
Dobbyn HC Analysis of Snu13p mutations reveals differential interactions with the U4 snRNA and U3 snoRNA. 14730029
Hansen MA Posttranscriptional modifications in the A-loop of 23S rRNAs from selected archaea and eubacteria. 11911366
Kirpekar F The archaeon Haloarcula marismortui has few modifications in the central parts of its 23S ribosomal RNA. 15826654
Kaminska KH Insights into the structure, function and evolution of the radical-SAM 23S rRNA methyltransferase Cfr that confers antibiotic resistance in bacteria. 20007606
Boal AK Structural basis for methyl transfer by a radical SAM enzyme. 21527678
Kehrenberg C A new mechanism for chloramphenicol, florfenicol and clindamycin resistance: methylation of 23S ribosomal RNA at A2503. 16091044
Giessing AM Identification of 8-methyladenosine as the modification catalyzed by the radical SAM methyltransferase Cfr that confers antibiotic resistance in bacteria. 19144912
Yan F RlmN and Cfr are radical SAM enzymes involved in methylation of ribosomal RNA 20184321
Yan F RNA methylation by radical SAM enzymes RlmN and Cfr proceeds via methylene transfer and hydride shift. 21368151
Purta E YgdE is the 2'-O-ribose methyltransferase RlmM specific for nucleotide C2498 in bacterial 23S rRNA. 19400805
Purta E YccW is the m5C methyltransferase specific for 23S rRNA nucleotide 1962. 18786544
Sunita S Crystal structure of the Escherichia coli 23S rRNA:m5C methyltransferase RlmI (YccW) reveals evolutionary links between RNA modification enzymes. 18789337
Roovers M Sequence-structure-function analysis of the bifunctional enzyme MnmC that catalyses the last two steps in the biosynthesis of hypermodified nucleoside mnm5s2U in tRNA. 18186482
Pearson D Assay of both activities of the bifunctional tRNA-modifying enzyme MnmC reveals a kinetic basis for selective full modification of cmnm5s2U to mnm5s2U. 21306992
Kitamura A Crystal structure of the bifunctional tRNA modification enzyme MnmC from Escherichia coli. 21574198
Meyer S Crystal structures of the conserved tRNA-modifying enzyme GidA: implications for its interaction with MnmE and substrate. 18565343
Franke J Hypermethylation of yeast telomerase RNA by the snRNA and snoRNA methyltransferase Tgs1. 18840651
Numata T Snapshots of tRNA sulphuration via an adenylated intermediate. 16871210
Foster PG The first structure of an RNA m5C methyltransferase, Fmu, provides insight into catalytic mechanism and specific binding of RNA substrate. 14656444
Alian A Structure of a TrmA-RNA complex: A consensus RNA fold contributes to substrate selectivity and catalysis in m5U methyltransferases. 18451029
Leulliot N Structure of the yeast tRNA m7G methylation complex. 18184583
Nakanishi K Structural basis for translational fidelity ensured by transfer RNA lysidine synthetase. 19847269
Pulicherla N Structural and functional divergence within the Dim1/KsgA family of rRNA methyltransferases. 19520088
Lima CD Structure and mechanism of yeast RNA triphosphatase: an essential component of the mRNA capping apparatus. 10589681
Ericsson UB X-ray structure of tRNA pseudouridine synthase TruD reveals an inserted domain with a novel fold. 15135053
Kim J Structural and kinetic characterization of Escherichia coli TadA, the wobble-specific tRNA deaminase. 16700551
Wright JR Pre-steady-state kinetic analysis of the three Escherichia coli pseudouridine synthases TruB, TruA, and RluA reveals uniformly slow catalysis. 21998096
Christian T Control of catalytic cycle by a pair of analogous tRNA modification enzymes. 20452364
Gurha P Archaeal Pus10 proteins can produce both pseudouridine 54 and 55 in tRNA. 18952823
Behm-Ansmant I A previously unidentified activity of yeast and mouse RNA:pseudouridine synthases 1 (Pus1p) on tRNAs. 16804160
Arluison V RNA:pseudouridine synthetase Pus1 from Saccharomyces cerevisiae: oligomerization property and stoichiometry of the complex with yeast tRNA(Phe). 10492022
Arluison V Pseudouridine synthetase Pus1 of Saccharomyces cerevisiae: kinetic characterisation, tRNA structural requirement and real-time analysis of its complex with tRNA. 10356324
Arluison V Transfer RNA-pseudouridine synthetase Pus1 of Saccharomyces cerevisiae contains one atom of zinc essential for its native conformation and tRNA recognition. 9585540
Brégeon D Translational misreading: a tRNA modification counteracts a +2 ribosomal frameshift. 11544186
Moukadiri I Evolutionarily conserved proteins MnmE and GidA catalyze the formation of two methyluridine derivatives at tRNA wobble positions. 19767610
Umeda N Mitochondria-specific RNA-modifying enzymes responsible for the biosynthesis of the wobble base in mitochondrial tRNAs. Implications for the molecular pathogenesis of human mitochondrial diseases. 15509579
Gu W tRNAHis maturation: an essential yeast protein catalyzes addition of a guanine nucleotide to the 5' end of tRNAHis. 14633974
Hyde SJ tRNAHis guanylyltransferase (THG1), a unique 3′-5′ nucleotidyl transferase, shares unexpected structural homology with canonical 5′-3′ DNA polymerases. 21059936
Basturea GN YhiQ Is RsmJ, the Methyltransferase Responsible for Methylation of G1516 in 16S rRNA of E. coli. 22079366
Kimura S Fine-tuning of the ribosomal decoding center by conserved methyl-modifications in the Escherichia coli 16S rRNA. 19965768
Havelund JF Identification of 5-hydroxycytidine at position 2501 concludes characterization of modified nucleotides in E. coli 23S rRNA. 21723290
Beauclerk AA Sites of action of two ribosomal RNA methylases responsible for resistance to aminoglycosides. 2441068
Macmaster R Structural insights into the function of aminoglycoside-resistance A1408 16S rRNA methyltransferases from antibiotic-producing and human pathogenic bacteria. 20639535
Husain N Structural basis for the methylation of A1408 in 16S rRNA by a panaminoglycoside resistance methyltransferase NpmA from a clinical isolate and analysis of the NpmA interactions with the 30S ribosomal subunit. 21062819
Miles ZD Discovery of epoxyqueuosine (oQ) reductase reveals parallels between halorespiration and tRNA modification. 21502530
Hausmann S Biochemical and genetic analysis of RNA cap guanine-N2 methyltransferases from Giardia lamblia and Schizosaccharomyces pombe. 17284461
Chen C Unexpected accumulation of ncm(5)U and ncm(5)S(2) (U) in a trm9 mutant suggests an additional step in the synthesis of mcm(5)U and mcm(5)S(2)U. 21687733
Mazauric MH Trm112p is a 15-kDa zinc finger protein essential for the activity of two tRNA and one protein methyltransferases in yeast. 20400505
Golovina AY The yfiC gene of E. coli encodes an adenine-N6 methyltransferase that specifically modifies A37 of tRNA1Val(cmo5UAC). 19383770
Zebarjadian Y Point mutations in yeast CBF5 can abolish in vivo pseudouridylation of rRNA. 10523634
Krog JS 3-(3-amino-3-carboxypropyl)-5,6-Dihydrouridine is one of two novel post-transcriptional modifications in tRNA(Lys) (UUU) from Trypanosoma brucei. 22040320
Meyer B The Bowen-Conradi syndrome protein Nep1 (Emg1) has a dual role in eukaryotic ribosome biogenesis, as an essential assembly factor and in the methylation of Psi1191 in yeast 18S rRNA. 20972225
Kasai H Structure of wye (Yt base) and wyosine (Yt) from Torulopsis utilis phenylalanine transfer ribonucleic acid. 942858
Rajbhandary UL Studies on polynucleotides, lxviii the primary structure of yeast phenylalanine transfer RNA. 16591527
Thiebe R A specific modification next to the anticodon of phenylalanine transfer ribonucleic acid. 5698615
Yoshikami D A fluorescence assay for phenylalanine transfer RNA. 5722700
Christian T Mechanism of N-methylation by the tRNA m1G37 methyltransferase Trm5. 20980671
Lee C Yeast mitochondrial initiator tRNA is methylated at guanosine 37 by the Trm5-encoded tRNA (guanine-N1-)-methyltransferase. 17652090
Brule H Isolation and characterization of the human tRNA-(N1G37) methyltransferase (TRM5) and comparison to the Escherichia coli TrmD protein. 15248782
Suzuki Y Structural basis of tRNA modification with CO2 fixation and methylation by wybutosine synthesizing enzyme TYW4. 19287006
de Crecy-Lagard V Biosynthesis of wyosine derivatives in tRNA: an ancient and highly diverse pathway in Archaea. 20382657
Goto-Ito S Structure of an archaeal TYW1, the enzyme catalyzing the second step of wye-base biosynthesis. 17881823
Umitsu M Structural basis of AdoMet-dependent aminocarboxypropyl transfer reaction catalyzed by tRNA-wybutosine synthesizing enzyme, TYW2. 19717466
Phillips G Biosynthesis and function of tRNA modifications in Archaea. 21470902
Menezes S Formation of m2G6 in Methanocaldococcus jannaschii tRNA catalyzed by the novel methyltransferase Trm14. 21693558
Mandal D Agmatidine, a modified cytidine in the anticodon of archaeal tRNA(Ile), base pairs with adenosine but not with guanosine. 20133752
Ikeuchi Y Agmatine-conjugated cytidine in a tRNA anticodon is essential for AUA decoding in archaea. 20139989
Osawa T Structural basis of tRNA agmatinylation essential for AUA codon decoding. 22002223
Tollervey D The small nucleolar RNP protein NOP1 (fibrillarin) is required for pre-rRNA processing in yeast. 1825809
Jansen R A U3 snoRNP protein with homology to splicing factor PRP4 and G beta domains is required for ribosomal RNA processing. 8508778
Jansen RP Evolutionary conservation of the human nucleolar protein fibrillarin and its functional expression in yeast. 2026646
Baserga SJ An intact Box C sequence in the U3 snRNA is required for binding of fibrillarin, the protein common to the major family of nucleolar snRNPs. 1714385
Yanagida M Human fibrillarin forms a sub-complex with splicing factor 2-associated p32, protein arginine methyltransferases, and tubulins alpha 3 and beta 1 that is independent of its association with preribosomal ribonucleoprotein complexes. 14583623
Aris JP cDNA cloning and sequencing of human fibrillarin, a conserved nucleolar protein recognized by autoimmune antisera. 1846968
Ye K Structural organization of box C/D RNA-guided RNA methyltransferase. 19666563
Lin J Structural basis for site-specific ribose methylation by box C/D RNA protein complexes. 21270896
Wang H Crystal structure of a fibrillarin homologue from Methanococcus jannaschii, a hyperthermophile, at 1.6 A resolution. 10654930
Wang H Expression, purification and preliminary X-ray analysis of a fibrillarin homolog from Methanococcus jannaschii, a hyperthermophile. 10089444
Deng L Structure determination of fibrillarin from the hyperthermophilic archaeon Pyrococcus furiosus. 14975761
Oruganti S Alternative conformations of the archaeal Nop56/58-fibrillarin complex imply flexibility in box C/D RNPs. 17617422
Xue S Structural basis for substrate placement by an archaeal box C/D ribonucleoprotein particle. 20864039
Aittaleb M Structural and thermodynamic evidence for a stabilizing role of Nop5p in S-adenosyl-L-methionine binding to fibrillarin. 15286083
Aittaleb M Structure and function of archaeal box C/D sRNP core proteins. 12598892
Suryadi J The crystal structure of the Methanocaldococcus jannaschii multifunctional L7Ae RNA-binding protein reveals an induced-fit interaction with the box C/D RNAs. 16008351
Hamma T Structure of protein L7Ae bound to a K-turn derived from an archaeal box H/ACA sRNA at 1.8 A resolution. 15130481
Rozhdestvensky TS Binding of L7Ae protein to the K-turn of archaeal snoRNAs: a shared RNA binding motif for C/D and H/ACA box snoRNAs in Archaea. 12560482
Moore T Molecular basis of box C/D RNA-protein interactions; cocrystal structure of archaeal L7Ae and a box C/D RNA. 15130473
Biswas S Comparative analysis of the 15.5kD box C/D snoRNP core protein in the primitive eukaryote Giardia lamblia reveals unique structural and functional features. 21366326
Vidovic I Crystal structure of the spliceosomal 15.5kD protein bound to a U4 snRNA fragment. 11163207
Liu S Binding of the human Prp31 Nop domain to a composite RNA-protein platform in U4 snRNP. 17412961
Nottrott S Functional interaction of a novel 15.5kD [U4/U6.U5] tri-snRNP protein with the 5' stem-loop of U4 snRNA. 10545122
Ghalei H A novel Nop5-sRNA interaction that is required for efficient archaeal box C/D sRNP formation. 20962039
van Nues RW Box C/D snoRNP catalysed methylation is aided by additional pre-rRNA base-pairing. 21556049
Persson BC The ms2io6A37 modification of tRNA in Salmonella typhimurium regulates growth on citric acid cycle intermediates. 9620964
Nasvall SJ The wobble hypothesis revisited: uridine-5-oxyacetic acid is critical for reading of G-ending codons. 17942742
Lis AW Isolation of 5-hydroxyuridine (iso-barbituridine) from yeast ribonucleic acids. 5957714
Murao K 5-methoxyuridine: a new minor constituent located in the first position of the anticodon of tRNAAla, tRNAThr, and tRNAVal from Bacillus subtilis. 825836
Lim K Crystal structure of YecO from Haemophilus influenzae (HI0319) reveals a methyltransferase fold and a bound S-adenosylhomocysteine. 11746687
Pope WT The identification of the tRNA substrates for the supK tRNA methylase. 347399
Ishikura H The presence of N-[9-(beta-D-ribofuranosyl)purin-6-ylcarbamoyl]threonine in serine, methionine and lysine transfer RNA's from Escherichia coli. 4902784
Osawa T Conserved cysteine residues of GidA are essential for biogenesis of 5-carboxymethylaminomethyluridine at tRNA anticodon. 19446527
Meyer S Kissing G domains of MnmE monitored by X-ray crystallography and pulse electron paramagnetic resonance spectroscopy. 19806182
Yamanaka K Characterization of GTPase activity of TrmE, a member of a novel GTPase superfamily, from Thermotoga maritima. 11092873
Wang X Deletion of the MTO2 gene related to tRNA modification causes a failure in mitochondrial RNA metabolism in the yeast Saccharomyces cerevisiae. 17706197
Yan Q Mutations in MTO2 related to tRNA modification impair mitochondrial gene expression and protein synthesis in the presence of a paromomycin resistance mutation in mitochondrial 15 S rRNA. 15944150
Shi R Structural basis for Fe-S cluster assembly and tRNA thiolation mediated by IscS protein-protein interactions. 20404999
Ikeuchi Y Mechanistic insights into sulfur relay by multiple sulfur mediators involved in thiouridine biosynthesis at tRNA wobble positions. 16387657
Katoh E High precision NMR structure of YhhP, a novel Escherichia coli protein implicated in cell division. 11080457
Numata T Structural basis for sulfur relay to RNA mediated by heterohexameric TusBCD complex. 16472754
Nakai Y Yeast Nfs1p is involved in thio-modification of both mitochondrial and cytoplasmic tRNAs. 14722066
Suzuki T Human mitochondrial tRNAs: biogenesis, function, structural aspects, and diseases. 21910628
Suzuki T Human mitochondrial diseases caused by lack of taurine modification in mitochondrial tRNAs. 21957023
Kimura S Base methylations in the double-stranded RNA by a fused methyltransferase bearing unwinding activity. 22210896
Mikhailov SN Chemical incorporation of 1‑methyladenosine into oligonucleotides 11861902
Dewez M The conserved Wobble uridine tRNA thiolase Ctu1-Ctu2 is required to maintain genome integrity. 18391219
Leidel S Ubiquitin-related modifier Urm1 acts as a sulphur carrier in thiolation of eukaryotic transfer RNA. 19145231
Murao K Uridin-5-oxy acetic acid: a new minor constituent from E. coli valine transfer RNA I. 4910247
Karcher D Identification of the chloroplast adenosine-to-inosine tRNA editing enzyme. 19460869
Delannoy E Arabidopsis tRNA adenosine deaminase arginine edits the wobble nucleotide of chloroplast tRNAArg(ACG) and is essential for efficient chloroplast translation. 19602623
Su AA A-to-I and C-to-U editing within transfer RNAs. 22022967
Paris Z Determinants of tRNA editing and modification: Avoiding conundrums, affecting function. 22024020
Randau L A cytidine deaminase edits C to U in transfer RNAs in Archaea. 19407206
Hamdane D Insights into folate/FAD-dependent tRNA methyltransferase mechanism: role of two highly conserved cysteines in catalysis. 21846722
Hamdane D A catalytic intermediate and several flavin redox states stabilized by folate-dependent tRNA methyltransferase from Bacillus subtilis. 21561081
Hamdane D Expression and purification of untagged and histidine-tagged folate-dependent tRNA:m5U54 methyltransferase from Bacillus subtilis. 20412857
Haumont E Enzymatic formation of queuosine and of glycosyl queuosine in yeast tRNAs microinjected into Xenopus laevis oocytes. The effect of the anticodon loop sequence. 3117541
Nishimura S Structure, biosynthesis, and function of queuosine in transfer RNA. 6410456
Okada N Enzymatic synthesis of Q nucleoside containing mannose in the anticodon of tRNA: isolation of a novel mannosyltransferase from a cell-free extract of rat liver. 20603
Costa A Determination of queuosine derivatives by reverse-phase liquid chromatography for the hypomodification study of Q-bearing tRNAs from various mammal liver cells. 14751792
Kasai H Letter: The structure of Q* nucleoside isolated from rabbit liver transfer ribonucleic acid. 950430
Nishimasu H Atomic structure of a folate/FAD-dependent tRNA T54 methyltransferase. 19416846
Li S Reconstitution and structural analysis of the yeast box H/ACA RNA-guided pseudouridine synthase. 22085967
Piekna-Przybylska D New bioinformatic tools for analysis of nucleotide modifications in eukaryotic rRNA. 17283215
Li S Structure of the Shq1-Cbf5-Nop10-Gar1 complex and implications for H/ACA RNP biogenesis and dyskeratosis congenita. 22117216
Khanna M Structural study of the H/ACA snoRNP components Nop10p and the 3' hairpin of U65 snoRNA. 16373493
Kiss T Box H/ACA small ribonucleoproteins. 20227365
Hamma T The box H/ACA ribonucleoprotein complex: interplay of RNA and protein structures in post-transcriptional RNA modification. 19917616
Spears JL A single zinc ion is sufficient for an active Trypanosoma brucei tRNA editing deaminase. 21507956
Ragone FL The C-terminal end of the Trypanosoma brucei editing deaminase plays a critical role in tRNA binding. 21602302
Rubio MA An adenosine-to-inosine tRNA-editing enzyme that can perform C-to-U deamination of DNA. 17483465
Bjork GR A novel link between the biosynthesis of aromatic amino acids and transfer RNA modification in Escherichia coli. 6160251
Chatterjee K The archaeal COG1901/DUF358 SPOUT-methyltransferase members, together with pseudouridine synthase Pus10, catalyze the formation of 1-methylpseudouridine at position 54 of tRNA. 22274953
Wurm JP Identification of the enzyme responsible for N1-methylation of pseudouridine 54 in archaeal tRNAs. 22274954
Chen HY Crystal structure of Mj1640/DUF358 protein reveals a putative SPOUT-class RNA methyltransferase. 21098051
Suzuki T Discovery and characterization of tRNAIle lysidine synthetase (TilS). 19944692
Fabret C Life without the essential bacterial tRNA Ile2-lysidine synthetase TilS: a case of tRNA gene recruitment in Bacillus subtilis. 21435031
Terasaka N Biogenesis of 2-agmatinylcytidine catalyzed by the dual protein and RNA kinase TiaS. 22002222
Shigi N Common thiolation mechanism in the biosynthesis of tRNA thiouridine and sulphur-containing cofactors. 19037260
Shigi N Identification of two tRNA thiolation genes required for cell growth at extremely high temperatures. 16547008
Palenchar PM Evidence that ThiI, an enzyme shared between thiamin and 4-thiouridine biosynthesis, may be a sulfurtransferase that proceeds through a persulfide intermediate. 10722656
Kambampati R Evidence for the transfer of sulfane sulfur from IscS to ThiI during the in vitro biosynthesis of 4-thiouridine in Escherichia coli tRNA. 10753862
Mueller EG The role of the cysteine residues of ThiI in the generation of 4-thiouridine in tRNA. 11443125
Wright CM A paradigm for biological sulfur transfers via persulfide groups: a persulfide-disulfide-thiol cycle in 4-thiouridine biosynthesis. 12510310
Tanaka Y Deduced RNA binding mechanism of ThiI based on structural and binding analyses of a minimal RNA ligand. 19509301
You D Direct evidence that ThiI is an ATP pyrophosphatase for the adenylation of uridine in 4-thiouridine biosynthesis. 18604845
Wright CM Direct evidence for enzyme persulfide and disulfide intermediates during 4-thiouridine biosynthesis. 16855700
Cantara WA Modifications Modulate Anticodon Loop Dynamics and Codon Recognition of E. coli tRNA(Arg1,2). 22240457
Carbon J Thiobases in Escherchia coli Transfer RNA: 2-Thiocytosine and 5-Methylaminomethyl-2-thiouracil. 17812290
Fontecave M Iron-sulfur cluster biosynthesis in bacteria: Mechanisms of cluster assembly and transfer. 18191630
Bjork GR A conserved modified wobble nucleoside (mcm5s2U) in lysyl-tRNA is required for viability in yeast. 17592039
Leulliot N The yeast ribosome synthesis factor Emg1 is a novel member of the superfamily of alpha/beta knot fold methyltransferases. 18063569
Lee HH Overexpression, crystallization and preliminary X-ray crystallographic analysis of Pseudomonas aeruginosa MnmE, a GTPase involved in tRNA modification. 20693664
Chimnaronk S RNA helicase module in an acetyltransferase that modifies a specific tRNA anticodon. 19322199
Porcher S. Synthesis of 2′-O-[(Triisopropylsilyl)oxy]methyl (= tom)-Protected Ribonucleoside Phosphoramidites Containing Various Nucleobase Analogues   10.1002/hlca.200590209
Agris PF. Site-selected introduction of modified purine and pyrimidine ribonucleosides into RNA by automated phosphoramidite chemistry. 7599270
Höbartner, C The synthesis of 2'-O-[(Triisopropylsilyl)oxy] methyl (TOM) phosphoramidites of methylated ribonucleosides (m1G, m2G, m22G, m1I, m3U, m4C, m6A, m62A) for use in automated RNA solid-phase synthesis    
Boudou V. Synthesis of the Anticodon Hairpin tRNAfMet Containing N-{[9-(β-D-Ribofuranosyl)-9H-purin-6-yl]carbamoyl}-L-threonine (=N6-{{[(1S,2R)-1-Carboxy-2-hydroxypropyl]amino}carbonyl}adenosine, t6A)   10.1002/(SICI)1522-2675(20000119)83:1<152::AID-HLC
Clarke L The nucleotide sequence of a threonine transfer ribonucleic acid from Escherichia coli. 4608712
Komine Y Nucleotide sequence of tRNA(Thr1) of Escherichia coli and of the gene (thrV) that encodes it. 1380693
Mallikarjun Sundaram Synthesis and Characterization of the Native Anticodon Domain of E. coli tRNALys:  Simultaneous Incorporation of Modified Nucleosides mnm5s2U, t6A, and Pseudouridine Using Phosphoramidite Chemistry 10970299
Bajji AC Synthesis of the tRNALys,3 Anticodon Stem-Loop Domain Containing the Hypermodified ms2t6A Nucleoside 12126427
Jasenka Matulic-Adamic An Improved Synthesis of Inosine 3′-Phosphoramidite   10.1080/00397910008086956
Chui HM Synthesis of a 3-methyluridine phosphoramidite to investigate the role of methylation in a ribosomal RNA hairpin. 11741781
Chui HM Synthesis of helix 69 of Escherichia coli 23S rRNA containing its natural modified nucleosides, m(3)Psi and Psi. 12467398
O'Connor M Mutagenesis of the peptidyltransferase center of 23S rRNA: the invariant U2449 is dispensable. 11160893
Kumar RK Synthesis and studies on the effect of 2-thiouridine and 4-thiouridine on sugar conformation and RNA duplex stability. 9092639
Chaix C Solid phase synthesis of the 5'-half of the initiator t-RNA from B. subtilis. 2508060
Shibahara S Site-directed cleavage of RNA. 2438655
Inoue H Synthesis and hybridization studies on two complementary nona(2'-O-methyl)ribonucleotides. 3627981
Beier M Synthesis of N-Methylated Ribonucleosides for RNA Synthesis   10.1002/hlca.200390205
Kierzek E The synthesis of oligoribonucleotides containing N6-alkyladenosines and 2-methylthio-N6-alkyladenosines via post-synthetic modification of precursor oligomers. 12888506
Davis DR Introduction of hypermodified nucleotides in RNA. 15333904
Rossa B. S. Synthesis and Incorporation of 2′-O-Methyl-Pseudouridine into Oligonucleotides   10.1080/07328319708006226
Pieles U. New and convenient protection system for pseudouridine, highly suitable for solid-phase oligoribonucleotide synthesis   10.1039/P19940003423
Gasparutto D Chemical synthesis of a biologically active natural tRNA with its minor bases. 1383941
Ogata Chemical synthesis of RNA including 5-taurinomethyluridine   10.1093/nass/nrl005
Meroueh M Unique structural and stabilizing roles for the individual pseudouridine residues in the 1920 region of Escherichia coli 23S rRNA. 10773075
Kowtoniuk WE A chemical screen for biological small molecule-RNA conjugates reveals CoA-linked RNA. 19416889
Chen YG LC/MS analysis of cellular RNA reveals NAD-linked RNA. 19820715
Kato N Nucleotide sequence of nuclear 5.4 S RNA of mouse cells. 6202321
Mao X Mutational analysis of the Saccharomyces cerevisiae ABD1 gene: cap methyltransferase activity is essential for cell growth. 8552073
Wang SP Structure-function analysis of the mRNA cap methyltransferase of Saccharomyces cerevisiae. 9169431
Schroeder SC Dynamic association of capping enzymes with transcribing RNA polymerase II. 11018011
Bellemer C Genetic interactions show the importance of rRNA modification machinery for the role of Rps15p during ribosome biogenesis in S. cerevisiae. 20454621
Figaro S Trm112 Is Required for Bud23-Mediated Methylation of the 18S rRNA at Position G1575. 22493060
Yamagishi M Isolation of temperature-sensitive mutants for mRNA capping enzyme in Saccharomyces cerevisiae. 7500935
Itoh N Messenger RNA guanylyltransferase from Saccharomyces cerevisiae. Large scale purification, subunit functions, and subcellular localization. 3029058
Gu M Structure of the Saccharomyces cerevisiae Cet1-Ceg1 mRNA capping apparatus. 20159466
Takase Y The essential interaction between yeast mRNA capping enzyme subunits is not required for triphosphatase function in vivo. 11094081
Savage DF Molecular determinants of dihydrouridine synthase activity. 16962594
Blaise M Crystal structure of glutamyl-queuosine tRNAAsp synthetase complexed with L-glutamate: structural elements mediating tRNA-independent activation of glutamate and glutamylation of tRNAAsp anticodon. 18602926
Huang Y Structural insights into mechanisms of the small RNA methyltransferase HEN1. 19812675
Vilkaitis G Kinetic and functional analysis of the small RNA methyltransferase HEN1: the catalytic domain is essential for preferential modification of duplex RNA. 20705645
Li J Methylation protects miRNAs and siRNAs from a 3'-end uridylation activity in Arabidopsis. 16111943
Yu B Methylation as a crucial step in plant microRNA biogenesis. 15705854
Yu B siRNAs compete with miRNAs for methylation by HEN1 in Arabidopsis. 20448024
Yang Z HEN1 recognizes 21-24 nt small RNA duplexes and deposits a methyl group onto the 2' OH of the 3' terminal nucleotide. 16449203
Bodi Z Yeast targets for mRNA methylation. 20421205
Chimnaronk S Snapshots of dynamics in synthesizing N(6)-isopentenyladenosine at the tRNA anticodon. 19435325
Seif E RNA-protein mutually induced fit: structure of Escherichia coli isopentenyl-tRNA transferase in complex with tRNA(Phe). 19158097
Moore JA Escherichia coli dimethylallyl diphosphate:tRNA dimethylallyltransferase: a binding mechanism for recombinant enzyme. 9012675
Pierrel F Enzymatic modification of tRNAs: MiaB is an iron-sulfur protein. 11882645
Waller JC Evidence that the folate-dependent proteins YgfZ and MnmEG have opposing effects on growth and on activity of the iron-sulfur enzyme MiaB. 22081392
Anantharaman V TRAM, a predicted RNA-binding domain, common to tRNA uracil methylation and adenine thiolation enzymes. 11313137
Armengod ME Enzymology of tRNA modification in the bacterial MnmEG pathway. 22386868
Tolerico LH Saccharomyces cerevisiae Mod5p-II contains sequences antagonistic for nuclear and cytosolic locations. 9872948
Lamichhane TN Plasticity and diversity of tRNA anticodon determinants of substrate recognition by eukaryotic A37 isopentenyltransferases. 21873461
Feder M Molecular phylogenetics of the RrmJ/fibrillarin superfamily of ribose 2'-O-methyltransferases. 12527203
Sirum-Connolly K Implications of a functional large ribosomal RNA with only three modified nucleotides. 7541254
Noma A Mechanistic characterization of the sulfur-relay system for eukaryotic 2-thiouridine biogenesis at tRNA wobble positions. 19151091
Huang B A genome-wide screen identifies genes required for formation of the wobble nucleoside 5-methoxycarbonylmethyl-2-thiouridine in Saccharomyces cerevisiae. 18755837
Nakai Y Thio-modification of yeast cytosolic tRNA requires a ubiquitin-related system that resembles bacterial sulfur transfer systems. 18664566
Thomas SR Structural insight into the functional mechanism of Nep1/Emg1 N1-specific pseudouridine methyltransferase in ribosome biogenesis. 21087996
Brand RC Biosynthesis of a hypermodified nucleotide in Saccharomyces carlsbergensis 17S and HeLa-cell 18S ribosomal ribonucleic acid. 629754
Pavlopoulou A Phylogenetic analysis of the eukaryotic RNA (cytosine-5)-methyltransferases. 19135144
King MY RNA methyltransferases utilize two cysteine residues in the formation of 5-methylcytosine. 12220187
Yang C Psi35 in the branch site recognition region of U2 small nuclear RNA is important for pre-mRNA splicing in Saccharomyces cerevisiae. 15611063
Lin Y X-ray structures of U2 snRNA-branchpoint duplexes containing conserved pseudouridines. 18435545
Decatur WA Different mechanisms for pseudouridine formation in yeast 5S and 5.8S rRNAs. 18332121
Urban A RNA sequence and two-dimensional structure features required for efficient substrate modification by the Saccharomyces cerevisiae RNA:{Psi}-synthase Pus7p. 19114708
Reader JS Identification of four genes necessary for biosynthesis of the modified nucleoside queuosine. 14660578
Liu M Methylation of 23S rRNA nucleotide G745 is a secondary function of the RlmAI methyltransferase. 15388872
Persaud C Mutagenesis of the modified bases, m(5)U1939 and psi2504, in Escherichia coli 23S rRNA. 20067766
Osterman IA Methylated 23S rRNA nucleotide m2G1835 of Escherichia coli ribosome facilitates subunit association. 21237242
Ero R Identification of pseudouridine methyltransferase in Escherichia coli. 18755836
Ero R Specificity and kinetics of 23S rRNA modification enzymes RlmH and RluD. 20817755
Motorin Y 5-methylcytosine in RNA: detection, enzymatic formation and biological functions. 20007150
Wang KT Structure of the bifunctional methyltransferase YcbY (RlmKL) that adds the m7G2069 and m2G2445 modifications in Escherichia coli 23S rRNA. 22362734
Zhang Q Radical-mediated enzymatic methylation: a tale of two SAMS. 22097883
Grove TL Cfr and RlmN contain a single [4Fe-4S] cluster, which directs two distinct reactivities for S-adenosylmethionine: methyl transfer by SN2 displacement and radical generation. 21916495
Ofengand J Pseudouridines and pseudouridine synthases of the ribosome. 12762017
Mizutani K Crystal structures of the catalytic domains of pseudouridine synthases RluC and RluD from Escherichia coli. 15078091
Huang L Identification of two Escherichia coli pseudouridine synthases that show multisite specificity for 23S RNA. 9843401
Del Campo M Crystal structure of the catalytic domain of RluD, the only rRNA pseudouridine synthase required for normal growth of Escherichia coli. 14730022
Leppik M Substrate specificity of the pseudouridine synthase RluD in Escherichia coli. 17937767
Sivaraman J Crystal structure of the RluD pseudouridine synthase catalytic module, an enzyme that modifies 23S rRNA and is essential for normal cell growth of Escherichia coli. 14659742
Alian A Crystal structure of an RluF-RNA complex: a base-pair rearrangement is the key to selectivity of RluF for U2604 of the ribosome. 19298824
Schmitt E Structural bases for 16 S rRNA methylation catalyzed by ArmA and RmtB methyltransferases. 19303884
Boehringer D Structural insights into methyltransferase KsgA function in 30S ribosomal subunit biogenesis. 22308031
Desai PM Site-directed mutants of 16S rRNA reveal important RNA domains for KsgA function and 30S subunit assembly. 21142019
Connolly K Mechanistic insight into the ribosome biogenesis functions of the ancient protein KsgA. 18990185
O'Farrell HC Control of substrate specificity by a single active site residue of the KsgA methyltransferase. 22142337
Poldermans B Studies on the function of two adjacent N6,N6-dimethyladenosines near the 3' end of 16 S ribosomal RNA of Escherichia coli. III. Purification and properties of the methylating enzyme and methylase-30 S interactions. 383712
Poldermans B Studies on the function of two adjacent N6,N6-dimethyladenosines near the 3' end of 16S ribosomal RNA of Escherichia coli. IV. The effect of the methylgroups on ribosomal subunit interaction. 6986611
Lafontaine D The DIM1 gene responsible for the conserved m6(2)Am6(2)A dimethylation in the 3'-terminal loop of 18 S rRNA is essential in yeast. 8064863
Park AK Comprehensive phylogenetic analysis of evolutionarily conserved rRNA adenine dimethyltransferase suggests diverse bacterial contributions to the nucleus-encoded plastid proteome. 19017544
Vanrobays E Dim2p, a KH-domain protein required for small ribosomal subunit synthesis. 15037774
Lafontaine DL Yeast 18S rRNA dimethylase Dim1p: a quality control mechanism in ribosome synthesis? 9528805
Weitzmann C A paradigm for local conformational control of function in the ribosome: binding of ribosomal protein S19 to Escherichia coli 16S rRNA in the presence of S7 is required for methylation of m2G966 and blocks methylation of m5C967 by their respective methyltransferases. 1766869
Sergeeva OV Properties of small rRNA methyltransferase RsmD: Mutational and kinetic study. 22535590
Cubrilo S The aminoglycoside resistance methyltransferase Sgm impedes RsmF methylation at an adjacent rRNA nucleotide in the ribosomal A site. 19509304
Benitez-Paez A Regulation of expression and catalytic activity of Escherichia coli RsmG methyltransferase. 22337945
Mikheil DM Deletion of gene encoding methyltransferase (gidB) confers high-level antimicrobial resistance in Salmonella. 22318332
Guymon R Influence of phylogeny on posttranscriptional modification of rRNA in thermophilic prokaryotes: the complete modification map of 16S rRNA of Thermus thermophilus. 16605256
Sivaraman J Structure of the 16S rRNA pseudouridine synthase RsuA bound to uracil and UMP. 11953756
El Yacoubi B The universal YrdC/Sua5 family is required for the formation of threonylcarbamoyladenosine in tRNA. 19287007
Lin CA The Sua5 protein is essential for normal translational regulation in yeast. 19884342
Jackman JE Doing it in reverse: 3'-to-5' polymerization by the Thg1 superfamily. 22456265
Ozanick SG Conserved amino acids in each subunit of the heteroligomeric tRNA m1A58 Mtase from Saccharomyces cerevisiae contribute to tRNA binding. 17932071
Guelorget A Structural comparison of tRNA m(1)A58 methyltransferases revealed different molecular strategies to maintain their oligomeric architecture under extreme conditions. 22168821
Sasarman F The 2-thiouridylase function of the human MTU1 (TRMU) enzyme is dispensable for mitochondrial translation. 21890497
Harris KA YrdC exhibits properties expected of a subunit for a tRNA threonylcarbamoyl transferase. 21775474
Deutsch C Biosynthesis of threonylcarbamoyl adenosine (t6A), a universal tRNA nucleoside. 22378793
Brachat A Analysis of deletion phenotypes and GFP fusions of 21 novel Saccharomyces cerevisiae open reading frames. 10649453
Ishitani R Crystal structure of archaeosine tRNA-guanine transglycosylase. 12054814
Ishitani R Alternative tertiary structure of tRNA for recognition by a posttranscriptional modification enzyme. 12732145
Christian T Catalysis by the second class of tRNA(m1G37) methyl transferase requires a conserved proline. 16768442
Goto-Ito S Tertiary structure checkpoint at anticodon loop modification in tRNA functional maturation. 19749755
Kuratani M Crystal structure and mutational study of a unique SpoU family archaeal methylase that forms 2'-O-methylcytidine at position 56 of tRNA. 18068186
Renalier MH The Cm56 tRNA modification in archaea is catalyzed either by a specific 2'-O-methylase, or a C/D sRNP. 15987815
Walbott H The crystal structure of Pyrococcus abyssi tRNA (uracil-54, C5)-methyltransferase provides insights into its tRNA specificity. 18653523
Urbonavicius J Acquisition of a bacterial RumA-type tRNA(uracil-54, C5)-methyltransferase by Archaea through an ancient horizontal gene transfer. 18069966
Hecker A The universal Kae1 protein and the associated Bud32 kinase (PRPK), a mysterious protein couple probably essential for genome maintenance in Archaea and Eukarya. 19143597
Haile JD The activity of an ancient atypical protein kinase is stimulated by ADP-ribose in vitro. 21527241
Facchin S Structure-function analysis of yeast piD261/Bud32, an atypical protein kinase essential for normal cell life. 12023889
Henras AK Cbf5p, the putative pseudouridine synthase of H/ACA-type snoRNPs, can form a complex with Gar1p and Nop10p in absence of Nhp2p and box H/ACA snoRNAs. 15388873
Liang B Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA. 19478803
Mao DY Atomic structure of the KEOPS complex: an ancient protein kinase-containing molecular machine. 18951093
Downey M A genome-wide screen identifies the evolutionarily conserved KEOPS complex as a telomere regulator. 16564010
Jain R Active site mapping and substrate specificity of bacterial Hen1, a manganese-dependent 3' terminal RNA ribose 2'O-methyltransferase. 21205839
Mui Chan C Structural and biochemical insights into 2'-O-methylation at the 3'-terminal nucleotide of RNA by Hen1. 19822745
Jain R Bacterial Hen1 is a 3' terminal RNA ribose 2'-O-methyltransferase component of a bacterial RNA repair cassette. 20007328
Zhang C Probing the substrate specificity of the bacterial Pnkp/Hen1 RNA repair system using synthetic RNAs. 22190744
Chan CM Reconstituting bacterial RNA repair and modification in vitro. 19815768
Hecker A An archaeal orthologue of the universal protein Kae1 is an iron metalloprotein which exhibits atypical DNA-binding properties and apurinic-endonuclease activity in vitro. 17766251
Srinivasan M The highly conserved KEOPS/EKC complex is essential for a universal tRNA modification, t6A. 21183954
El Yacoubi B A role for the universal Kae1/Qri7/YgjD (COG0533) family in tRNA modification. 21285948
Daugeron MC Gcn4 misregulation reveals a direct role for the evolutionary conserved EKC/KEOPS in the t6A modification of tRNAs. 21459853
Hecker A Structure of the archaeal Kae1/Bud32 fusion protein MJ1130: a model for the eukaryotic EKC/KEOPS subcomplex. 19172740
Anton BP Functional characterization of the YmcB and YqeV tRNA methylthiotransferases of Bacillus subtilis. 20472640
Hernandez HL MiaB, a bifunctional radical-S-adenosylmethionine enzyme involved in the thiolation and methylation of tRNA, contains two essential [4Fe-4S] clusters. 17407324
Pierrel F MiaB protein from Thermotoga maritima. Characterization of an extremely thermophilic tRNA-methylthiotransferase. 12766153
Atta M S-Adenosylmethionine-dependent radical-based modification of biological macromolecules. 20951571
Golovko A Identification of a tRNA isopentenyltransferase gene from Arabidopsis thaliana. 11999372
Miyawaki K Roles of Arabidopsis ATP/ADP isopentenyltransferases and tRNA isopentenyltransferases in cytokinin biosynthesis. 17062755
Golovko A Cloning of a human tRNA isopentenyl transferase. 11111046
Arragain S Identification of eukaryotic and prokaryotic methylthiotransferase for biosynthesis of 2-methylthio-N6-threonylcarbamoyladenosine in tRNA. 20584901
Wei FY Deficit of tRNA(Lys) modification by Cdkal1 causes the development of type 2 diabetes in mice. 21841312
Wurm JP Backbone resonance assignments of the 48 kDa dimeric putative 18S rRNA-methyltransferase Nep1 from Methanocaldococcus jannaschii. 19779849
Wurm JP The ribosome assembly factor Nep1 responsible for Bowen-Conradi syndrome is a pseudouridine-N1-specific methyltransferase. 20047967
Auxilien S Specificity shifts in the rRNA and tRNA nucleotide targets of archaeal and bacterial m5U methyltransferases. 21051506
Oberto J Qri7/OSGEPL, the mitochondrial version of the universal Kae1/YgjD protein, is essential for mitochondrial genome maintenance. 19578062
Douthwaite S Interaction of the tylosin-resistance methyltransferase RlmA II at its rRNA target differs from the orthologue RlmA I. 18406425
Lebars I Recognition elements in rRNA for the tylosin resistance methyltransferase RlmA(II). 17673230
Douthwaite S The tylosin-resistance methyltransferase RlmA(II) (TlrB) modifies the N-1 position of 23S rRNA nucleotide G748. 15046978
Desmolaize B A single methyltransferase YefA (RlmCD) catalyses both m5U747 and m5U1939 modifications in Bacillus subtilis 23S rRNA. 21824914
Niu L Cloning and characterization of the 23S RNA pseudouridine 2633 synthase from Bacillus subtilis. 9888802
Tu C Structural basis for binding of RNA and cofactor by a KsgA methyltransferase. 19278652
Richter U A mitochondrial rRNA dimethyladenosine methyltransferase in Arabidopsis. 19929881
Cotney J Evidence for an early gene duplication event in the evolution of the mitochondrial transcription factor B family and maintenance of rRNA methyltransferase activity in human mtTFB1 and mtTFB2. 17031457
O'Farrell HC Binding of adenosine-based ligands to the MjDim1 rRNA methyltransferase: implications for reaction mechanism and drug design. 20163168
Demirci H Structural rearrangements in the active site of the Thermus thermophilus 16S rRNA methyltransferase KsgA in a binary complex with 5'-methylthioadenosine. 19285505
Ochi K Inactivation of KsgA, a 16S rRNA methyltransferase, causes vigorous emergence of mutants with high-level kasugamycin resistance. 19001112
Demirci H Multi-site-specific 16S rRNA methyltransferase RsmF from Thermus thermophilus. 20558545
Demirci H Crystal structure of the Thermus thermophilus 16 S rRNA methyltransferase RsmC in complex with cofactor and substrate guanosine. 18667428
Kumar A Structural and functional characterization of Rv2966c protein reveals an RsmD-like methyltransferase from Mycobacterium tuberculosis and the role of its N-terminal domain in target recognition. 21474448
Gregory ST Structural and functional studies of the Thermus thermophilus 16S rRNA methyltransferase RsmG. 19622680
Kuratani M Crystal structure of Sulfolobus tokodaii Sua5 complexed with L-threonine and AMPPNP. 21538543
Agari Y X-ray crystal structure of a hypothetical Sua5 protein from Sulfolobus tokodaii strain 7. 18004774
Kuratani M Crystal structure of tRNA adenosine deaminase (TadA) from Aquifex aeolicus. 15677468
Losey HC Crystal structure of Staphylococcus aureus tRNA adenosine deaminase TadA in complex with RNA. 16415880
Reuter K Sequence analysis and overexpression of the Zymomonas mobilis tgt gene encoding tRNA-guanine transglycosylase: purification and biochemical characterization of the enzyme. 7665516
Romier C Crystal structure of tRNA-guanine transglycosylase: RNA modification by base exchange. 8654383
Gradler U Mutagenesis and crystallographic studies of Zymomonas mobilis tRNA-guanine transglycosylase to elucidate the role of serine 103 for enzymatic activity. 10413112
Awai T Substrate tRNA recognition mechanism of a multisite-specific tRNA methyltransferase, Aquifex aeolicus Trm1, based on the X-ray crystal structure. 21844194
Awai T Aquifex aeolicus tRNA (N2,N2-guanine)-dimethyltransferase (Trm1) catalyzes transfer of methyl groups not only to guanine 26 but also to guanine 27 in tRNA. 19491098
Ihsanawati Crystal structure of tRNA N2,N2-guanosine dimethyltransferase Trm1 from Pyrococcus horikoshii. 18789948
Kuratani M Crystal structure of Methanocaldococcus jannaschii Trm4 complexed with sinefungin. 20600111
Gabant G THUMP from archaeal tRNA:m22G10 methyltransferase, a genuine autonomously folding domain. 16687654
Armengaud J N2-methylation of guanosine at position 10 in tRNA is catalyzed by a THUMP domain-containing, S-adenosylmethionine-dependent methyltransferase, conserved in Archaea and Eukaryota. 15210688
Benitez-Paez A YibK is the 2'-O-methyltransferase TrmL that modifies the wobble nucleotide in Escherichia coli tRNA(Leu) isoacceptors. 20855540
Roovers M The open reading frame TTC1157 of Thermus thermophilus HB27 encodes the methyltransferase forming N(2)-methylguanosine at position 6 in tRNA. 22337946
Phannachet K Conformational change of pseudouridine 55 synthase upon its association with RNA substrate. 14990747
Handford JI Conserved network of proteins essential for bacterial viability. 19376873
Hashimoto C Effects on transcription of mutations in ygjD, yeaZ, and yjeE genes, which are involved in a universal tRNA modification in Escherichia coli. 21873492
Aydin I Structural analysis of the essential resuscitation promoting factor YeaZ suggests a mechanism of nucleotide regulation through dimer reorganization. 21858042
Xu Q Structure of an essential bacterial protein YeaZ (TM0874) from Thermotoga maritima at 2.5 A resolution. 20944216
Fu TM The structure of the hypothetical protein smu.1377c from Streptococcus mutans suggests a role in tRNA modification. 20606270
Karst JC The ATPase activity of an 'essential' Bacillus subtilis enzyme, YdiB, is required for its cellular function and is modulated by oligomerization. 19246765
Mangat CS Known bioactive small molecules probe the function of a widely conserved but enigmatic bacterial ATPase, YjeE. 19101473
Brown ED Conserved P-loop GTPases of unknown function in bacteria: an emerging and vital ensemble in bacterial physiology. 16333325
Qian Q The methyl group of the N6-methyl-N6-threonylcarbamoyladenosine in tRNA of Escherichia coli modestly improves the efficiency of the tRNA. 9537379
Phillips G Biosynthesis of 7-deazaguanosine-modified tRNA nucleosides: a new role for GTP cyclohydrolase I. 18931107
McCarty RM The deazapurine biosynthetic pathway revealed: in vitro enzymatic synthesis of PreQ(0) from guanosine 5'-triphosphate in four steps. 19354300
Gaur R Genetic analysis identifies a function for the queC (ybaX) gene product at an initial step in the queuosine biosynthetic pathway in Escherichia coli. 16199558
Cicmil N Crystal structure of QueC from Bacillus subtilis: an enzyme involved in preQ1 biosynthesis. 18491386
McCarty RM Escherichia coli QueD is a 6-carboxy-5,6,7,8-tetrahydropterin synthase. 19231875
Phillips G Functional promiscuity of the COG0720 family. 21999246
Cicmil N Crystallization and preliminary X-ray characterization of queD from Bacillus subtilis, an enzyme involved in queuosine biosynthesis. 18259064
Sekiya T Identification of BMP and activin membrane-bound inhibitor (BAMBI), an inhibitor of transforming growth factor-beta signaling, as a target of the beta-catenin pathway in colorectal tumor cells. 14660579
Lee BW Mechanistic studies of Bacillus subtilis QueF, the nitrile oxidoreductase involved in queuosine biosynthesis. 17929836
Droogmans L Cloning and characterization of tRNA (m1A58) methyltransferase (TrmI) from Thermus thermophilus HB27, a protein required for cell growth at extreme temperatures. 12682365
Barraud P Crystal structure of Thermus thermophilus tRNA m1A58 methyltransferase and biophysical characterization of its interaction with tRNA. 18262540
Varshney U Mycobacterium tuberculosis Rv2118c codes for a single-component homotetrameric m1A58 tRNA methyltransferase. 14960715
Gupta A Crystal structure of Rv2118c: an AdoMet-dependent methyltransferase from Mycobacterium tuberculosis H37Rv. 11554794
Pastore C Crystal structure and RNA binding properties of the RNA recognition motif (RRM) and AlkB domains in human AlkB homolog 8 (ABH8), an enzyme catalyzing tRNA hypermodification. 22065580
Fu D Human AlkB homolog ABH8 Is a tRNA methyltransferase required for wobble uridine modification and DNA damage survival. 20308323
van den Born E ALKBH8-mediated formation of a novel diastereomeric pair of wobble nucleosides in mammalian tRNA. 21285950
Fu Y The AlkB domain of mammalian ABH8 catalyzes hydroxylation of 5-methoxycarbonylmethyluridine at the wobble position of tRNA. 20583019
Noma A Actin-binding protein ABP140 is a methyltransferase for 3-methylcytidine at position 32 of tRNAs in Saccharomyces cerevisiae. 21518805
D'Silva S A domain of the actin binding protein Abp140 is the yeast methyltransferase responsible for 3-methylcytidine modification in the tRNA anti-codon loop. 21518804
Zegers I Crystal structure of Bacillus subtilis TrmB, the tRNA (m7G46) methyltransferase. 16600901
Songe-Moller L Mammalian ALKBH8 possesses tRNA methyltransferase activity required for the biogenesis of multiple wobble uridine modifications implicated in translational decoding. 20123966
Huang B An early step in wobble uridine tRNA modification requires the Elongator complex. 15769872
Yamada-Okabe T Isolation and characterization of a human cDNA for mRNA 5'-capping enzyme. 9512541
Tsukamoto T Cloning and characterization of two human cDNAs encoding the mRNA capping enzyme. 9473487
Pillutla RC Recombinant human mRNA cap methyltransferase binds capping enzyme/RNA polymerase IIo complexes. 9705270
Chu C Structure of the guanylyltransferase domain of human mRNA capping enzyme. 21636784
Tsukamoto T Cloning and characterization of three human cDNAs encoding mRNA (guanine-7-)-methyltransferase, an mRNA cap methylase. 9790902
Saha N Characterization of human, Schizosaccharomyces pombe, and Candida albicans mRNA cap methyltransferases and complete replacement of the yeast capping apparatus by mammalian enzymes. 10347220
Wen Y Cap methyltransferase selective binding and methylation of GpppG-RNA are stimulated by importin-alpha. 11114884
Shafer B Human mRNA cap methyltransferase: alternative nuclear localization signal motifs ensure nuclear localization required for viability. 15767670
Gonatopoulos-Pournatzis T RAM/Fam103a1 is required for mRNA cap methylation. 22099306
Hausmann S Genetic and biochemical analysis of yeast and human cap trimethylguanosine synthase: functional overlap of 2,2,7-trimethylguanosine caps, small nuclear ribonucleoprotein components, pre-mRNA splicing factors, and RNA decay pathways. 18775984
Monecke T Structure analysis of the conserved methyltransferase domain of human trimethylguanosine synthase TGS1. 19307714
Belanger F Characterization of hMTr1, a human Cap1 2'-O-ribose methyltransferase. 20713356
Haline-Vaz T The human interferon-regulated ISG95 protein interacts with RNA polymerase II and shows methyltransferase activity. 18533109
Monecke T Structural basis for m7G-cap hypermethylation of small nuclear, small nucleolar and telomerase RNA by the dimethyltransferase TGS1. 19386620
Werner M 2'-O-ribose methylation of cap2 in human: function and evolution in a horizontally mobile family. 21310715
Jeronimo C Systematic analysis of the protein interaction network for the human transcription machinery reveals the identity of the 7SK capping enzyme. 17643375
Xue Y A capping-independent function of MePCE in stabilizing 7SK snRNA and facilitating the assembly of 7SK snRNP. 19906723
Gu M Insights into the structure, mechanism, and regulation of scavenger mRNA decapping activity. 15068804
Liu H The scavenger mRNA decapping enzyme DcpS is a member of the HIT family of pyrophosphatases. 12198172
Kwasnicka DA Coordinate expression of NADPH-dependent flavin reductase, Fre-1, and Hint-related 7meGMP-directed hydrolase, DCS-1. 12871939
Wang Z Functional link between the mammalian exosome and mRNA decapping. 11747811
van Dijk E DcpS can act in the 5'-3' mRNA decay pathway in addition to the 3'-5' pathway. 14523240
Liu SW Functional analysis of mRNA scavenger decapping enzymes. 15273322
Treede I The avilamycin resistance determinants AviRa and AviRb methylate 23S rRNA at the guanosine 2535 base and the uridine 2479 ribose. 12828631
Mosbacher TG Crystal structure of the avilamycin resistance-conferring methyltransferase AviRa from Streptomyces viridochromogenes. 12742024
Weitnauer G An ATP-binding cassette transporter and two rRNA methyltransferases are involved in resistance to avilamycin in the producer organism Streptomyces viridochromogenes Tu57. 11181344
Mosbacher TG Structure and function of the antibiotic resistance-mediating methyltransferase AviRb from Streptomyces viridochromogenes. 15581897
Monod M Sequence and properties of pIM13, a macrolide-lincosamide-streptogramin B resistance plasmid from Bacillus subtilis. 3087948
Zhong P Substrate requirements for ErmC' methyltransferase activity. 7543473
Gath A Family background of children with Down's syndrome and of children with a similar degree of mental retardation. 2946350
Maravic G Alanine-scanning mutagenesis of the predicted rRNA-binding domain of ErmC' redefines the substrate-binding site and suggests a model for protein-RNA interactions. 12907737
Bussiere DE Crystal structure of ErmC', an rRNA methyltransferase which mediates antibiotic resistance in bacteria. 9585521
Schluckebier G The 2.2 A structure of the rRNA methyltransferase ErmC' and its complexes with cofactor and cofactor analogs: implications for the reaction mechanism. 10366505
Trieu-Cuot P Nucleotide sequence of the erythromycin resistance gene of the conjugative transposon Tn1545. 2163525
Yu L Solution structure of an rRNA methyltransferase (ErmAM) that confers macrolide-lincosamide-streptogramin antibiotic resistance. 9187657
Bercot B Plasmid-mediated 16S rRNA methylases among extended-spectrum beta-lactamase-producing Enterobacteriaceae isolates. 18838598
Bibb MJ Nucleotide sequences encoding and promoting expression of three antibiotic resistance genes indigenous to Streptomyces. 2987648
Dunstan MS Structure of the thiostrepton resistance methyltransferase.S-adenosyl-L-methionine complex and its interaction with ribosomal RNA. 19369248
Bechthold A Overexpression of the thiostrepton-resistance gene from Streptomyces azureus in Escherichia coli and characterization of recognition sites of the 23S rRNA A1067 2'-methyltransferase in the guanosine triphosphatase center of 23S ribosomal RNA. 7925357
Husain N Structural basis for the methylation of G1405 in 16S rRNA by aminoglycoside resistance methyltransferase Sgm from an antibiotic producer: a diversity of active sites in m7G methyltransferases. 20194115
Kojic M Cloning and characterization of an aminoglycoside resistance determinant from Micromonospora zionensis. 1447159
Savic M Critical residues for cofactor binding and catalytic activity in the aminoglycoside resistance methyltransferase Sgm. 18586937
Yang H Crystallization and preliminary crystallographic analysis of nosiheptide-resistance methyltransferase from Streptomyces actuosus in complex with SAM. 20445264
Goto-Ito S Crystal structure of archaeal tRNA(m(1)G37)methyltransferase aTrm5. 18384044
Pitsch S. Reliable Chemical Synthesis of Oligoribonucleotides (RNA) with 2′-O-[(Triisopropylsilyl)oxy]methyl(2′-O-tom)-Protected Phosphoramidites   10.1002/1522-2675(20011219)84:12<3773::AID-HLCA377
Chaix C. The use of labilebaseprotectinggroups in oligoribonucleotidesynthesis   10.1016/S0040-4039(01)80326-9
Reddy M.P. Methylaminedeprotectionprovidesincreasedyield of oligoribonucleotides   10.1016/0040-4039(95)01953-F
Bogdan F. M. The Synthesis of Allyl- and Ailyioxycarbonyl-Protected RNA Phosphoramidites. Useful Reagents for Solid-Phase Synthesis of RNAs with Base-Labile Modifications   10.1016/S0040-4039(98)00157-9
Karpeisky A. 2′-O-Methyl Thiomethyl Modifications in Hammerhead Ribozymes   10.1080/07328319708006114
Reddy M.P. Ultrafast Cleavage and Deprotection of Oligonucleotides Synthesis and Use of CAc Derivatives   10.1080/07328319708006236
Martin P. Ein neuer Zugang zu 2’-O-Alkylribonucleosiden und Eigenschaften deren Oligonucleotide   10.1002/hlca.19950780219
Bhattacharya B. K. A Facile Synthesis of the Phosphoramidites of 2-N-Methyl-2′- deoxy (or 2′-O-allyl)-ψ-isocytidine, 1, 3-Dimethyl-2′-deoxy-ψ-uridine and N1- Methyl-2′-O-allyl-ψ-uridine as Synthons Suitable for Oligonuc   10.1080/15257779408009476
Ohgi T A new RNA synthetic method with a 2'-O-(2-cyanoethoxymethyl) protecting group. 16048321
Hyde RM Antiviral amphipathic oligo- and polyribonucleotides: analogue development and biological studies. 12723951
Shohda K Synthesis and properties of 2'-O-methyl-2-thiouridine and oligoribonucleotides containing 2'-O-methyl-2-thiouridine. 10969970
Porcher S. Synthesis of modified nucleosides for the incorporation into tRNAs    
Porcher S. Chemical Approach for the Study of the ‘Kissing Complex’ of Moloney murine leukaemia Virus   10.1002/hlca.200890133
Atta M The methylthiolation reaction mediated by the Radical-SAM enzymes. 22178611
Takeda H Identification of Aquifex aeolicus tRNA (m2(2G26) methyltransferase gene. 12903189
Mitsui T Fluorescent properties of an unnatural nucleobase, 2-amino-6-(2-thienyl)purine, in DNA and RNA fragments. 17150745
Awai T Aquifex aeolicus Trm1[tRNA (m2(2)G26) methyltransferase] has a novel recognition mechanism of the substrate RNA. 17150754
Motorin Y RNA nucleotide methylation. 21823225
McDonald MK The Handling of the Mechanistic Probe 5-Fluorouridine by the Pseudouridine Synthase TruA and Its Consistency with the Handling of the Same Probe by the Pseudouridine Synthases TruB and RluA. 21142053
O'Farrell HC Crystal structure of KsgA, a universally conserved rRNA adenine dimethyltransferase in Escherichia coli. 15136037
Chikwana VM Structural Basis of Biological Nitrile Reduction. 22787148
Duan J Structural mechanism of substrate RNA recruitment in H/ACA RNA-guided pseudouridine synthase. 19481523
Kagawa N cAMP-dependent transcription of the human CYP21B (P-450C21) gene requires a cis-regulatory element distinct from the consensus cAMP-regulatory element. 2162843
Muller S Identification of determinants in the protein partners aCBF5 and aNOP10 necessary for the tRNA:Psi55-synthase and RNA-guided RNA:Psi-synthase activities. 17704128
Gurha P Differential roles of archaeal box H/ACA proteins in guide RNA-dependent and independent pseudouridine formation. 17993784
Blaby IK Pseudouridine formation in archaeal RNAs: The case of Haloferax volcanii. 21628430
Torabi N Variants in SUP45 and TRM10 underlie natural variation in translation termination efficiency in Saccharomyces cerevisiae. 21829385
Noma A Expanding role of the jumonji C domain as an RNA hydroxylase. 20739293
Kato M Crystal structure of a novel JmjC-domain-containing protein, TYW5, involved in tRNA modification. 20972222
Walbott H The H/ACA RNP assembly factor SHQ1 functions as an RNA mimic. 22085966
Sakuno T Decapping reaction of mRNA requires Dcp1 in fission yeast: its characterization in different species from yeast to human. 15671491
Hausmann S An essential function of Saccharomyces cerevisiae RNA triphosphatase Cet1 is to stabilize RNA guanylyltransferase Ceg1 against thermal inactivation. 11463793
Kasprzak JM Molecular evolution of dihydrouridine synthases. 22741570
Rider LW Mechanism of dihydrouridine synthase 2 from yeast and the importance of modifications for efficient tRNA reduction. 19139092
Chen C Elongator complex influences telomeric gene silencing and DNA damage response by its role in wobble uridine tRNA modification. 21912530
Otero G Elongator, a multisubunit component of a novel RNA polymerase II holoenzyme for transcriptional elongation. 10024884
Galimand M Intrinsic resistance to aminoglycosides in Enterococcus faecium is conferred by the 16S rRNA m5C1404-specific methyltransferase EfmM. 21159796
Kato T A novel human tRNA-dihydrouridine synthase involved in pulmonary carcinogenesis 15994936
Rottman FM N6-adenosine methylation in mRNA: substrate specificity and enzyme complexity. 7748945
Leach RA Expression of the mRNA (N6-adenosine)-methyltransferase S-adenosyl-L-methionine binding subunit mRNA in cultured cells. 11470232
Bokar JA Purification and cDNA cloning of the AdoMet-binding subunit of the human mRNA (N6-adenosine)-methyltransferase. 9409616
Maas S Identification and characterization of a human tRNA-specific adenosine deaminase related to the ADAR family of pre-mRNA editing enzymes. 10430867
Liu J The human tRNA(m(2)(2)G(26))dimethyltransferase: functional expression and characterization of a cloned hTRM1 gene. 10982862
Brzezicha B Identification of human tRNA:m5C methyltransferase catalysing intron-dependent m5C formation in the first position of the anticodon of the pre-tRNA Leu (CAA). 17071714
Squires JE Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA. 22344696
Squires JE Function and detection of 5-methylcytosine in eukaryotic RNA. 22122054
Goll MG Methylation of tRNAAsp by the DNA methyltransferase homolog Dnmt2. 16424344
Dong A Structure of human DNMT2, an enigmatic DNA methyltransferase homolog that displays denaturant-resistant binding to DNA. 11139614
Benitez-Paez A The Escherichia coli RlmN methyltransferase is a dual-specificity enzyme that modifies both rRNA and tRNA and controls translational accuracy. 22891362
Yanagawa H A novel minimum ribozyme with oxidoreduction activity. 2271669
Kupfer PA Synthesis, base pairing properties and trans-lesion synthesis by reverse transcriptases of oligoribonucleotides containing the oxidatively damaged base 5-hydroxycytidine. 21852326
Dumelin CE Discovery and biological characterization of geranylated RNA in bacteria. 22983156
Chen P A gain of function mutation in a protein mediates production of novel modified nucleosides. 15861125
Kim IY Escherichia coli mutant SELD enzymes. The cysteine 17 residue is essential for selenophosphate formation from ATP and selenide. 1527085
Veres Z Selenophosphate synthetase. Enzyme properties and catalytic reaction. 8144648
Lacourciere GM Biosynthesis of selenophosphate. 10609888
Li X A human mitochondrial GTP binding protein related to tRNA modification may modulate phenotypic expression of the deafness-associated mitochondrial 12S rRNA mutation. 12370316
Kitamura A Characterization and structure of the Aquifex aeolicus protein DUF752: a bacterial tRNA-methyltransferase (MnmC2) functioning without the usually fused oxidase domain (MnmC1). 23091054
McCusker KP Covalent Intermediate in the Catalytic Mechanism of the Radical S-Adenosyl-l-methionine Methyl Synthase RlmN Trapped by Mutagenesis. 23088750
Auxilien S The Human tRNA m ( 5) C methyltransferase Misu is multisite-specific. 22995836
Xhemalce B Human RNA Methyltransferase BCDIN3D Regulates MicroRNA Processing. 23063121
Hamdane D FAD/Folate-Dependent tRNA Methyltransferase: Flavin as a new methyl-transfer agent. 23157377
Bousquet-Antonelli C Rrp8p is a yeast nucleolar protein functionally linked to Gar1p and involved in pre-rRNA cleavage at site A2. 10864042
Leulliot N The box H/ACA RNP assembly factor Naf1p contains a domain homologous to Gar1p mediating its interaction with Cbf5p. 17612558
Agarwala SD RNA methylation by the MIS complex regulates a cell fate decision in yeast. 22685417
Ollagnier-de-Choudens S SufA/IscA: reactivity studies of a class of scaffold proteins involved in [Fe-S] cluster assembly. 15278785
Lundgren HK Structural alterations of the cysteine desulfurase IscS of Salmonella enterica serovar Typhimurium reveal substrate specificity of IscS in tRNA thiolation. 16585765
Saito H Cloning and mapping of a human novel cDNA (NHP2L1) that encodes a protein highly homologous to yeast nuclear protein NHP2. 8978773
Kiss T Biogenesis and intranuclear trafficking of human box C/D and H/ACA RNPs. 17381323
Muhlenhoff U Functional characterization of the eukaryotic cysteine desulfurase Nfs1p from Saccharomyces cerevisiae. 15220327
Pandey A Isd11p protein activates the mitochondrial cysteine desulfurase Nfs1p protein. 21908622
Koo BK Structure of H/ACA RNP protein Nhp2p reveals cis/trans isomerization of a conserved proline at the RNA and Nop10 binding interface. 21708174
Peifer C Yeast Rrp8p, a novel methyltransferase responsible for m1A 645 base modification of 25S rRNA. 23180764
Yamagami R The tRNA recognition mechanism of folate/FAD-dependent tRNA methyltransferase (TrmFO). 23095745
Guy MP Yeast Trm7 interacts with distinct proteins for critical modifications of the tRNAPhe anticodon loop. 22912484
Zheng G ALKBH5 Is a Mammalian RNA Demethylase that Impacts RNA Metabolism and Mouse Fertility. 23177736
Thalhammer A Human AlkB homologue 5 is a nuclear 2-oxoglutarate dependent oxygenase and a direct target of hypoxia-inducible factor 1alpha (HIF-1alpha). 21264265
Tkaczuk KL Trm13p, the tRNA:Xm4 modification enzyme from Saccharomyces cerevisiae is a member of the Rossmann-fold MTase superfamily: prediction of structure and active site. 19697067
Sorensen MA Over expression of a tRNA(Leu) isoacceptor changes charging pattern of leucine tRNAs and reveals new codon reading. 16236318
Griffey RH 15N-labeled tRNA. Identification of 4-thiouridine in Escherichia coli tRNASer1 and tRNATyr2 by 1H-15N two-dimensional NMR spectroscopy. 3638307
Fislage M Crystal structures of the tRNA:m2G6 methyltransferase Trm14/TrmN from two domains of life. 22362751
Schweizer MP The isolation and characterization of N-[9-(beta-D-ribofuranosyl)-purin-6-ylcarbamoyl]glycine from yeast transfer RNA. 5503779
Patton JR Pseudouridine modification in Caenorhabditis elegans spliceosomal snRNAs: unique modifications are found in regions involved in snRNA-snRNA interactions. 16236171
Meier UT Pseudouridylation goes regulatory. 21206510
Wu G U2 snRNA is inducibly pseudouridylated at novel sites by Pus7p and snR81 RNP. 21131909
Patton JR Caenorhabditis elegans pseudouridine synthase 1 activity in vivo: tRNA is a substrate, but not U2 small nuclear RNA. 12597772
Chujo T Trmt61B is a methyltransferase responsible for 1-methyladenosine at position 58 of human mitochondrial tRNAs. 23097428
Miyauchi K A cyclic form of N(6)-threonylcarbamoyladenosine as a widely distributed tRNA hypermodification. 23242255
Vilardo E A subcomplex of human mitochondrial RNase P is a bifunctional methyltransferase--extensive moonlighting in mitochondrial tRNA biogenesis. 23042678
Ishida K Pseudouridine at position 55 in tRNA controls the contents of other modified nucleotides for low-temperature adaptation in the extreme-thermophilic eubacterium Thermus thermophilus. 21097467
Larsen LH Identification and characterization of the Thermus thermophilus 5-methylcytidine (m5C) methyltransferase modifying 23 S ribosomal RNA (rRNA) base C1942. 22711535
Savic M Determination of the target nucleosides for members of two families of 16S rRNA methyltransferases that confer resistance to partially overlapping groups of aminoglycoside antibiotics. 19589804
Pioszak AA Structures of a putative RNA 5-methyluridine methyltransferase, Thermus thermophilus TTHA1280, and its complex with S-adenosyl-L-homocysteine. 16511182
Shisler KA Emerging themes in radical SAM chemistry. 23141873
Golovina AY The last rRNA methyltransferase of E. coli revealed: the yhiR gene encodes adenine-N6 methyltransferase specific for modification of A2030 of 23S ribosomal RNA. 22847818
Matsugi J Characterization of a B. subtilis minor isoleucine tRNA deduced from tDNA having a methionine anticodon CAT. 8743586
Yamazaki S Characterization of a whole set of tRNA molecules in an aerobic hyper-thermophilic Crenarchaeon, Aeropyrum pernix K1. 16769697
Randau L The complete set of tRNA species in Nanoarchaeum equitans. 15893316
Wang C Loss of a universal tRNA feature. 17172343
Esseiva AC Mitochondrial tRNA import in Toxoplasma gondii. 15280394
Sunny Sharma Identification of a novel methyltransferase, Bmt2, responsible for the N-1-methyl-adenosine base modification of 25S rRNA in Saccharomyces cerevisiae 23558746
Plotnikova A Mechanistic insights into small RNA recognition and modification by the HEN1 methyltransferase. 23621770
Fu Y FTO-mediated formation of N(6)-hydroxymethyladenosine and N(6)-formyladenosine in mammalian RNA. 23653210
Jia G N6-methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO. 22002720
Han Z Crystal structure of the FTO protein reveals basis for its substrate specificity. 20376003
Kim J Structure-guided discovery of the metabolite carboxy-SAM that modulates tRNA function. 23676670
Byrne RT S-Adenosyl-S-carboxymethyl-L-homocysteine: a novel cofactor found in the putative tRNA-modifying enzyme CmoA. 23695253
Voorhees RM The structural basis for specific decoding of AUA by isoleucine tRNA on the ribosome. 23542153
Kamalampeta R tRNA binding, positioning and modification by the pseudouridine synthase Pus10. 23743107
Liu RJ The tRNA recognition mechanism of the minimalist SPOUT methyltransferase, TrmL. 23804755
Swinehart WE Unexpected expansion of tRNA substrate recognition by the yeast m1G9 methyltransferase Trm10. 23793893
Christian T Conservation of structure and mechanism by Trm5 enzymes. 23887145
Hori H Identification and characterization of tRNA (Gm18) methyltransferase from Thermus thermophilus HB8: domain structure and conserved amino acid sequence motifs. 11918670
Hori H Substrate recognition of tRNA (Guanosine-2'-)-methyltransferase from Thermus thermophilus HB27. 9748240
Nureki O Deep knot structure for construction of active site and cofactor binding site of tRNA modification enzyme. 15062082
Ochi A The catalytic domain of topological knot tRNA methyltransferase (TrmH) discriminates between substrate tRNA and non-substrate tRNA via an induced-fit process. 23867454
Chen M Structure of dihydrouridine synthase C (DusC) from Escherichia coli. 23908023
Sharma S Yeast Nop2 and Rcm1 methylate C2870 and C2278 of the 25S rRNA, respectively. 23913415
Sardana R The methyltransferase adaptor protein Trm112 is involved in biogenesis of both ribosomal subunits. 22956767
Punekar AS Structural and functional insights into the molecular mechanism of rRNA m6A methyltransferase RlmJ. 23945937
Noon KR Influence of temperature on tRNA modification in archaea: Methanococcoides burtonii (optimum growth temperature [Topt], 23 degrees C) and Stetteria hydrogenophila (Topt, 95 degrees C). 12949100
Shao Z Crystal structure of tRNA m1G9 methyltransferase Trm10: insight into the catalytic mechanism and recognition of tRNA substrate 24081582
Rodriguez V Structure-function analysis of human TYW2 enzyme required for the biosynthesis of a highly modified Wybutosine (yW) base in phenylalanine-tRNA. 22761755
Rodriguez V Chromosome 8 BAC array comparative genomic hybridization and expression analysis identify amplification and overexpression of TRMT12 in breast cancer. 17440925
Ghosh SK A small RNA derived from RNA coactivator SRA blocks steroid receptor signaling via inhibition of Pus1p-mediated pseudouridylation of SRA: evidence of a novel RNA binding domain in the N-terminus of steroid receptors. 22998747
Sibert BS Pseudouridine synthase 1: a site-specific synthase without strict sequence recognition requirements. 22102571
Sibert BS Partial activity is seen with many substitutions of highly conserved active site residues in human Pseudouridine synthase 1. 18648068
Patton JR Mitochondrial myopathy and sideroblastic anemia (MLASA): missense mutation in the pseudouridine synthase 1 (PUS1) gene is associated with the loss of tRNA pseudouridylation. 15772074
Czudnochowski N In Human Pseudouridine Synthase 1 (hPus1), a C-Terminal Helical Insert Blocks tRNA from Binding in the Same Orientation as in the Pus1 Bacterial Homologue TruA, Consistent with Their Different Target Selectivities. 23707380
Helm M The presence of modified nucleotides is required for cloverleaf folding of a human mitochondrial tRNA. 9512533
Suzuki T Taurine as a constituent of mitochondrial tRNAs: new insights into the functions of taurine and human mitochondrial diseases. 12456664
Yasukawa T Wobble modification deficiency in mutant tRNAs in patients with mitochondrial diseases. 15893315
Brule H Effect of a mutation in the anticodon of human mitochondrial tRNAPro on its post-transcriptional modification pattern. 9421512
Messmer M Tertiary network in mammalian mitochondrial tRNAAsp revealed by solution probing and phylogeny. 19767615
Kirino Y Acquisition of the wobble modification in mitochondrial tRNALeu(CUN) bearing the G12300A mutation suppresses the MELAS molecular defect. 16446307
Jones CN A disease-causing point mutation in human mitochondrial tRNAMet rsults in tRNA misfolding leading to defects in translational initiation and elongation. 18835817
Kim J Structural basis for hypermodification of the wobble uridine in tRNA by bifunctional enzyme MnmC. 23617613
Chan CT Reprogramming of tRNA modifications controls the oxidative stress response by codon-biased translation of proteins. 22760636
Liu J A METTL3-METTL14 complex mediates mammalian nuclear RNA N-adenosine methylation. 24316715
Mandal D Identification and codon reading properties of 5-cyanomethyl uridine, a new modified nucleoside found in the anticodon wobble position of mutant haloarchaeal isoleucine tRNAs. 24344322
Sharma S Identification of novel methyltransferases, Bmt5 and Bmt6, responsible for the m3U methylations of 25S rRNA in Saccharomyces cerevisiae. 24335083
Friedt J An arginine-aspartate network in the active site of bacterial TruB is critical for catalyzing pseudouridine formation. 24371284
Moukadiri I The output of the tRNA modification pathways controlled by the Escherichia coli MnmEG and MnmC enzymes depends on the growth conditions and the tRNA species. 24293650
Aik W Structure of human RNA N6-methyladenine demethylase ALKBH5 provides insights into its mechanisms of nucleic acid recognition and demethylation. 24489119
Buchhaupt M Partial Methylation at Am100 in 18S rRNA of Baker's Yeast Reveals Ribosome Heterogeneity on the Level of Eukaryotic rRNA Modification. 24586927
Feng C Crystal Structures of Human RNA Demethylase Alkbh5 Reveal Basis for Substrate Recognition. 24616105
Nilsen TW Molecular biology. Internal mRNA methylation finally finds functions. 24626918
Fislage M SAXS analysis of the tRNA-modifying enzyme complex MnmE/MnmG reveals a novel interaction mode and GTP-induced oligomerization. 24634441
Dunkle JA Molecular recognition and modification of the 30S ribosome by the aminoglycoside-resistance methyltransferase NpmA. 24717845
Kuchino Y Initiator tRNAs from archaebacteria show common unique sequence characteristics. 6178978
Liu N Probing N6-methyladenosine RNA modification status at single nucleotide resolution in mRNA and long noncoding RNA. 24141618
Xu C Structures of human ALKBH5 demethylase reveal a unique binding mode for specific single stranded m6A RNA demethylation. 24778178
Tomikawa C Distinct tRNA modifications in the thermo-acidophilic archaeon, Thermoplasma acidophilum. 24076028
Young AP Radical mediated ring formation in the biosynthesis of the hypermodified tRNA base wybutosine. 23856057
Young AP Pyruvate is the source of the two carbons that are required for formation of the imidazoline ring of 4-demethylwyosine. 22026549
Perche-Letuvee P 4-Demethylwyosine synthase from Pyrococcus abyssi is a radical-S-adenosyl-L-methionine enzyme with an additional [4Fe-4S](+2) cluster that interacts with the pyruvate co-substrate. 23043105
Suzuki T A complete landscape of post-transcriptional modifications in mammalian mitochondrial tRNAs. 24831542
Nagao A Biogenesis of glutaminyl-mt tRNAGln in human mitochondria. 19805282
Yokogawa T A novel cloverleaf structure found in mammalian mitochondrial tRNA(Ser) (UCN). 1840673
Auxilien S Archease from Pyrococcus abyssi improves substrate specificity and solubility of a tRNA m5C methyltransferase. 17470432
Phillips G Discovery and characterization of an amidinotransferase involved in the modification of archaeal tRNA. 20129918
Lauhon CT Mechanism of N6-threonylcarbamoyladenonsine (t(6)A) biosynthesis: isolation and characterization of the intermediate threonylcarbamoyl-AMP. 23072323
Heyman T Yeast serine isoacceptor tRNAs: variations of their content as a function of growth conditions and primary structure of the minor tRNA(Ser)GCU. 8033992
Sauerwald A N6-Acetyladenosine: a new modified nucleoside from Methanopyrus kandleri tRNA. 15907485
Lartigue C The flavoprotein Mcap0476 (RlmFO) catalyzes m5U1939 modification in Mycoplasma capricolum 23S rRNA. 24939895
Somme J Characterization of two homologous 2'-O-methyltransferases showing different specificities for their tRNA substrates. 24951554
Shanmugam R The Dnmt2 RNA methyltransferase homolog of Geobacter sulfurreducens specifically methylates tRNA-Glu. 24711368
Bouvier D TtcA a new tRNA-thioltransferase with an Fe-S cluster. 24914049
Gillis D TRMT10A dysfunction is associated with abnormalities in glucose homeostasis, short stature and microcephaly. 25053765
Ito S A single acetylation of 18S rRNA is essential for biogenesis of the small ribosomal subunit in Saccharomyces cerevisiae. 25086048
Kuiper EG Binding Induced RNA Conformational Changes Control Substrate Recognition and Catalysis by the Thiostrepton-resistance Methyltransferase (Tsr). 25086036
Lee KW Assignment of 2'-O-methyltransferases to Modification Sites on the Mammalian Mitochondrial Large Subunit 16S rRNA. 25074936
Kimura S Discovery of the beta-barrel-type RNA methyltransferase responsible for N6-methylation of N6-threonylcarbamoyladenosine in tRNAs. 25063302
Urbonavicius J Biosynthesis of wyosine derivatives in tRNA(Phe) of Archaea: role of a remarkable bifunctional tRNA(Phe):m1G/imG2 methyltransferase. 24837075
Gigova A A cluster of methylations in the domain IV of 25S rRNA is required for ribosome stability. 25125595
Moon HJ Trm4 and Nsun2 RNA:mC Methyltransferases Form Metabolite-Dependent, Covalent Adducts with Previously Methylated RNA. 25375641
Yuan S Methylation by NSun2 represses the levels and function of microRNA 125b. 25047833
Tominaga T Structure of Saccharomyces cerevisiae mitochondrial Qri7 in complex with AMP. 25084372
Letoquart J Structural and functional studies of Bud23-Trm112 reveal 18S rRNA N7-G1575 methylation occurs on late 40S precursor ribosomes. 25489090
Wurth L Hypermethylated-capped selenoprotein mRNAs in mammals. 25013170
Zhao X FTO-dependent demethylation of N6-methyladenosine regulates mRNA splicing and is required for adipogenesis. 25412662
Wei Y Crystal and solution structures of methyltransferase RsmH provide basis for methylation of C1402 in 16S rRNA. 22561317
Zhao M Purification, crystallization and preliminary crystallographic analysis of the 16S rRNA methyltransferase RsmI from Escherichia coli. 25195904
Hamdane D Dynamics of RNA modification by a multi-site-specific tRNA methyltransferase. 25217588
Guelorget A Insights into the hyperthermostability and unusual region-specificity of archaeal Pyrococcus abyssi tRNA m1A57/58 methyltransferase. 20483913
Ito S Human NAT10 is an ATP-dependent RNA acetyltransferase responsible for N4-acetylcytidine formation in 18S rRNA. 25411247
Taoka M RNA Cytidine Acetyltransferase of Small-Subunit Ribosomal RNA: Identification of Acetylation Sites and the Responsible Acetyltransferase in Fission Yeast, Schizosaccharomyces pombe. 25402480
Huet T Steroid receptor RNA activator (SRA) modification by the human pseudouridine synthase 1 (hPus1p): RNA binding, activity, and atomic model. 24722331
Glatt S Structure of the Kti11/Kti13 Heterodimer and Its Double Role in Modifications of tRNA and Eukaryotic Elongation Factor 2. 25543256
Sun J Solution structure of Kti11p from Saccharomyces cerevisiae reveals a novel zinc-binding module. 15952786
Reddy DM Structure determination of two new amino acid-containing derivatives of adenosine from tRNA of thermophilic bacteria and archaea. 1280806
Schosserer M Methylation of ribosomal RNA by NSUN5 is a conserved mechanism modulating organismal lifespan. 25635753
Sharma S Yeast Kre33 and human NAT10 are conserved 18S rRNA cytosine acetyltransferases that modify tRNAs assisted by the adaptor Tan1/THUMPD1. 25653167
Glasser AL Presence and coding properties of 2'-O-methyl-5-carbamoylmethyluridine (ncm5Um) in the wobble position of the anticodon of tRNA(Leu) (U*AA) from brewer's yeast. 1468572
Guy MP Conservation of an intricate circuit for crucial modifications of the tRNAPhe anticodon loop in eukaryotes. 25404562
Szweykowska-Kulinska Z Intron-dependent formation of pseudouridines in the anticodon of Saccharomyces cerevisiae minor tRNA(Ile). 7925304
Kim J Determinants of the CmoB carboxymethyl transferase utilized for selective tRNA wobble modification. 25855808
Tyagi K Protein degradation and dynamic tRNA thiolation fine-tune translation at elevated temperatures. 25870413
Johansson MJ Eukaryotic wobble uridine modifications promote a functionally redundant decoding system. 18332122
Wittwer AJ Selenium-containing tRNA(Glu) and tRNA(Lys) from Escherichia coli: purification, codon specificity and translational activity. 2679651
Kim S The Structure of Escherichia coli TcdA (Also Known As CsdL) Reveals a Novel Topology and Provides Insight into the tRNA Binding Surface Required for N-Threonylcarbamoyladenosine Dehydratase Activity. 26101842
Lopez-Estepa M The crystal structure and small-angle X-ray analysis of CsdL/TcdA reveal a new tRNA binding motif in the MoeB/E1 superfamily. 25897750
Bou-Nader C An extended dsRBD is required for post-transcriptional modification in human tRNAs. 26429968
Shaheen R Mutation in WDR4 impairs tRNA m(7)G46 methylation and causes a distinct form of microcephalic primordial dwarfism. 26416026
Finer-Moore J Crystal Structure of the Human tRNA mA58 Methyltransferase-tRNA Complex: Refolding of Substrate tRNA allows Access to the Methylation Target. 26470919
Letoquart J Insights into molecular plasticity in protein complexes from Trm9-Trm112 tRNA modifying enzyme crystal structure. 26438534
Fradejas N Mammalian Trit1 is a tRNA([Ser]Sec)-isopentenyl transferase required for full selenoprotein expression. 23289710
Matuszewski M A hydantoin isoform of cyclic N6-threonylcarbamoyladenosine (ct6A) is present in tRNAs. 27913732
Gunilla Jäger Transfer RNA Bound to MnmH Protein Is Enriched with Geranylated tRNA – A Possible Intermediate in Its Selenation? 4830565
Malgorzata Sierant S-Geranyl-2-thiouridine wobble nucleosides of bacterial tRNAs; chemical and enzymatic synthesis of S-geranylated-RNAs and their physicochemical characterization 5159532
Kang BI Identification of 2-methylthio cyclic N6-threonylcarbamoyladenosine (ms2ct6A) as a novel RNA modification at position 37 of tRNAs. 27913733
Sakai Y. Biogenesis and growth phase-dependent alteration of 5-methoxycarbonylmethoxyuridine in tRNA anticodons. 26681692