Molecule image

yW

Summary

Full namewybutosine
Short nameyW
New Nomenclature3483G
RNAMods abbreviationY
Enzymes TYW4 (Saccharomyces cerevisiae)
Found in phylogenyEukaryota
Found in RNArRNA, tRNA
SMILESC3(OC(CO)C(O)C(O)3)N2C=NC1=C2N(C)C4N(C(CCC(C(=O)OC)NC(=O)OC)=C(C)N=4)C1=O
SMILES (no stereochemical information)C3(OC(CO)C(O)C(O)3)N2C=NC1=C2N(C)C4N(C(CCC(C(=O)OC)NC(=O)OC)=C(C)N=4)C1=O

LC-MS Information

Sum formulaC21O9N6H28
Monoisotopic mass508.1918
Average mass508.4892
[M+H]+509.1996
Product ions377
Normalized LC elution time *2,93 (Kellner 2014)
LC elution order/characteristicsafter 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 -

3D Molecule representation

Download [.mol file for yW]

Chemical groups contained

TypeSubtype
aminoacyl groupglutamyl
otheracetylamide
othermethylester
ring modificationwyosine

Reactions producing wybutosine

Name
yW-58:yW

Occurrence in PDB structures

PDB-ID chain residue
1ehz A YG/37
1evv A YG/37
1fcw A YG/37
1fcw B YG/37
1fcw C YG/37
1fcw D YG/37
1fcw E YG/37
1gix B YG/37
1gix C YG/37
1i9v A YG/37
1jgo B YG/37
1jgo C YG/37
1jgp B YG/37
1jgp C YG/37
1jgq B YG/37
1jgq C YG/37
1mj1 D YG/37
1mj1 C YG/37
1ml5 B YG/37
1ob2 B YG/37
1ob5 B YG/37
1ob5 D YG/37
1ob5 F YG/37
1sz1 E YYG/37
1sz1 F YYG/37
1tn2 YG/37
1tra YG/37
1ttt D YG/37
1ttt E YG/37
1ttt F YG/37
2b64 W YYG/37
2b9m W YYG/37
2b9o W YYG/37
486d A YYG/37
4tna YG/37
4tra YG/37
6tna YG/37

Publications

Title Authors Journal Details PubMed Id DOI
Studies on polynucleotides, lxviii the primary structure of yeast phenylalanine transfer RNA. Rajbhandary UL, Chang SH, Stuart A, Faulkner RD, Hoskinson RM, Khorana HG Proc Natl Acad Sci U S A [details] 16591527 -
A specific modification next to the anticodon of phenylalanine transfer ribonucleic acid. Thiebe R, Zachau HG Eur J Biochem [details] 5698615 -
A fluorescence assay for phenylalanine transfer RNA. Yoshikami D, Katz G, Keller EB, Dudock BS Biochim Biophys Acta [details] 5722700 -

Last modification of this entry: Oct. 6, 2017

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