Modification Summary


[show modification pathway]


Full name5-methoxycarbonylmethyl-2-thiouridine
Short namemcm5s2U
New Nomenclature2521U
RNAMods abbreviation3
HTML abbreviation3
Enzymes ALKBH8 (Homo sapiens)
Ncs6 (Saccharomyces cerevisiae)
Trm9 (Saccharomyces cerevisiae)
Ncs2 (Saccharomyces cerevisiae)
TrmU (Homo sapiens)
Found in phylogenyEukaryota
Found in RNAtRNA
SMILES codeO=C(OC)CC1=CN(C(=S)NC1=O)[C@@H]2O[C@H](CO)[C@H](O)C2O

LC-MS Information

Sum formulaC12O7N2H16S1
Monoisotopic mass332.0678
Average mass332.333
Product ions201/169/141
Normalized LC elution time *1,78 (Kellner 2014)
LC elution order/characteristicsbetween A and m6A (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 -
Quantitative analysis of ribonucleoside modifications in tRNA by HPLC-coupled mass spectrometry. Su D, Chan CT, Gu C, Lim KS, Chionh YH, McBee ME, Russell BS, Babu IR, Begley TJ, Dedon PC... Nat Protoc [details] 24625781 -

Download [.mol file for mcm5s2U]

Chemical groups contained

heavy atomsulfur

Reactions producing 5-methoxycarbonylmethyl-2-thiouridine


Occurrence in PDB structures

PDB-ID chain residue
1fir A 70U /34

Last modification of this entry: 2017-10-06 16:38:16.518018
Edited by a user: pboccaletto
Edited content: Changed mass_prot.