Molecule image



Full name3-methylcytidine
Short namem3C
New Nomenclature3C
RNAMods abbreviation'
Enzymes Trm140 (Saccharomyces cerevisiae)
Found in phylogenyEukaryota
Found in RNAtRNA
PubChem ID159649
SMILES (no stereochemical information)C[N+]1=C(N)C=CN([C@@H]2O[C@H](CO)[C@H](O)C2O)C1=O

LC-MS Information

Sum formulaC10O5N3H15
Monoisotopic mass257.1012
Average mass257.2467
Product ions126
Normalized LC elution time *0,55 (Kellner 2014); 0,54 (Kellner 2014)
LC elution order/characteristicsbetween C and U (Kellner 2014, 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 -
Absolute and relative quantification of RNA modifications via biosynthetic isotopomers. Kellner S, Ochel A, Thuring K, Spenkuch F, Neumann J, Sharma S, Entian KD, Schneider D, Helm M... Nucleic Acids Res [details] 25129236 -

3D Molecule representation

Download [.mol file for m3C]


m3C has a positive charge at neutral pH.

Chemical groups contained

methyl groupmethyl at aromatic N

Reactions producing 3-methylcytidine


Occurrence in PDB structures

PDB-ID chain residue
1b5k A EDC/6
1b60 A EDC/6
1b6x A EDC/6
1b6y A EDC/6
1n5c A EDC/21

Last modification of this entry: Oct. 6, 2017

Copyright © Genesilico - All rights reserved
If you have any advice or suggestions for corrections or improvements, please contact: Pietro Boccaletto