Modification Summary

uridine 5-oxyacetic acid methyl ester

[show modification pathway]
mcmo5U

Summary

Full nameuridine 5-oxyacetic acid methyl ester
Short namemcmo5U
New Nomenclature503U
RNAMods abbreviationυ
HTML abbreviationυ
Enzymes
Found in phylogenyEubacteria
Found in RNAtRNA
PubChem ID191808
SMILES codeC3(OC(CO)C(O)C(O)3)N1C=C(OCC(=O)OC)C(=O)NC1(=O)

LC-MS Informations

Sum formulaC12O9N2H16
Monoisotopic mass332.085579
Average mass332.267246
HRMS mass332.085031
Normalized LC elution time *1,47 (Kellner 2014)
LC elution order/characteristicsbetween A and m6A (Kellner 2014)
Mass transition-132 (Kellner 2014)

* normalized to guanosine (G), measured with a RP C-18 column with acetonitrile/ammonium acetate as mobile phase.

LC-MS Publications

Title Authors Journal Details PubMed Id DOI
Profiling of RNA modifications by multiplexed stable isotope labelling. Kellner S, Neumann J, Rosenkranz D, Lebedeva S, Ketting RF, Zischler H, Schneider D, Helm M. Chem Commun (Camb). [details] 24567952 -

Download [.mol file for mcmo5U]

Comments

Unstable under usual methods of detection, not easily detectable (Glenn Bjork, personal communication). cmo5U (and mcmo5U) is a modification characteristic for gram negative bacteria (E. coli, Protebacteria). Gram positive bacteria (B. subtilis, Firmicutes) have mo5U in this position.

Chemical groups contained

othercarboxymethyl
othermethoxy
othermethylester

Reactions producing uridine 5-oxyacetic acid methyl ester

Name
cmo5U:mcmo5U

Reactions starting from uridine 5-oxyacetic acid methyl ester

Name
mcmo5U:mcmo5Um

Publications

Title Authors Journal Details PubMed Id DOI
The identification of the tRNA substrates for the supK tRNA methylase. Pope WT, Brown A, Reeves RH Nucleic Acids Res [details] 347399 -

Last modification of this entry: 2017-07-05 16:18:00.807219
Edited by a user: pboccaletto
Edited content: Changed lc_elution_time, lc_elution_comment, lc_reference and mass_trans.