Summary

Full nameundermodified hydroxywybutosine
IUPAC name2-amino-4-[3-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]-4,6-dimethyl-9-oxoimidazo[1,2-a]purin-7-yl]-3-hydroxybutanoic acid
Short nameOHyWx
MODOMICS code3470G
Synonyms
2-Amino-3-hydroxy-4-[3-(beta-D-ribofuranosyl)-4,6-dimethyl-9-oxo-4,9-dihydro-3H-imidazo[1,2-a]purine-7-yl]butyric acid

Nature of the modified residueNatural
RNAMods codeš
Residue unique ID93
Found in RNAYes
Related nucleotides424

Chemical information

Sum formulaC18H24N6O8
Type of moietynucleoside
Degeneracynot applicable
SMILESC[n]1c2c(nc[n]2[C@@H]2O[C@H](CO)[C@@H](O)[C@H]2O)c(=O)[n]2c1nc(C)c2CC(O)C(N)C(O)=O
logP-2.6818
TPSA210.59
Number of atoms32
Number of Hydrogen Bond Acceptors 1 (HBA1)11
Number of Hydrogen Bond Acceptors 2 (HBA2)14
Number of Hydrogen Bond Donors (HBD)6
PDB no exac match , link to the most similar ligand YG
HMDB (Human Metabolome Database) no exac match, link to the most similar ligand HMDB0039126
InChIInChI=1S/C18H24N6O8/c1-6-7(3-8(26)10(19)17(30)31)24-15(29)11-14(22(2)18(24)21-6)23(5-20-11)16-13(28)12(27)9(4-25)32-16/h5,8-10,12-13,16,25-28H,3-4,19H2,1-2H3,(H,30,31)/t8?,9-,10?,12-,13-,16-/m1/s1
InChIKeyCWZGXBPVGJVJRZ-HVTQDKDVSA-N
Search the molecule in external databases ChEMBL  ChemAgora  ChEBI  PubChem Compound Database  Ligand Expo  ChemSpider  WIPO 
PubChem CID
PubChem SIDs

* Chemical properties calculated with Open Babel - O'Boyle et al. Open Babel: An open chemical toolbox. J Cheminform 3, 33 (2011) (link)


Download Structures

2D   .png .mol .mol2 .sdf .pdb .smi
3D   .mol .mol2 .sdf .pdb

Tautomers

Tautomers SMILES
Cn1c2c(ncn2C3OC(CO)C(O)C3O)c(=O)n4c1nc(C)c4CC(O)C(N)C(=O)O tautomer #0
Cn1c2c(ncn2C3OC(CO)C(O)C3O)c(=O)n4c1nc(C)c4CC(=O)C(N)C(O)O tautomer #1
Cn1c2c(ncn2C3OC(CO)C(O)C3O)c(=O)n4c1nc(C)c4CC(O)C(=N)C(O)O tautomer #2
Cn1c2c(ncn2C3OC(CO)C(O)C3O)c(=O)n4c1nc(C)c4C=C(O)C(N)C(O)O tautomer #3
Cn1c2c(ncn2C3OC(CO)C(O)C3O)c(=O)n4c1nc(C)c4CC(O)=C(N)C(O)O tautomer #4
CN1c2c(ncn2C3OC(CO)C(O)C3O)C(=O)N4C1=NC(C)C4=CC(=O)C(N)C(O)O tautomer #5
Cn1c2c(ncn2C3OC(CO)C(O)C3O)c(=O)n4c1nc(C)c4CC(O)C(N)=C(O)O tautomer #6

Tautomer image Show Image

Predicted CYP Metabolic Sites

CYP3A4 CYP2D6 CYP2C9
OHyWx OHyWx OHyWx

* CYP Metabolic sites predicted with SMARTCyp. SMARTCyp is a method for prediction of which sites in a molecule that are most liable to metabolism by Cytochrome P450. It has been shown to be applicable to metabolism by the isoforms 1A2, 2A6, 2B6, 2C8, 2C19, 2E1, and 3A4 (CYP3A4), and specific models for the isoform 2C9 (CYP2C9) and isoform 2D6 (CYP2D6). CYP3A4, CYP2D6, and CYP2C9 are the three of the most important enzymes in drug metabolism since they are involved in the metabolism of more than half of the drugs used today. The three top-ranked atoms are highlighted. See: SmartCYP and SmartCYP - background; Patrik Rydberg, David E. Gloriam, Lars Olsen, The SMARTCyp cytochrome P450 metabolism prediction server, Bioinformatics, Volume 26, Issue 23, 1 December 2010, Pages 2988–2989 (link)


LC-MS Information

Monoisotopic mass452.1655
Average mass452.419
[M+H]+453.1733
Product ions321
Normalized LC elution time * not available
LC elution order/characteristics not available

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

Chemical groups contained

TypeSubtype
aminoacyl groupglutamyl
otherhydroxyl
ring modificationwyosine

Reactions producing undermodified hydroxywybutosine

Name
yW-72:OHyWx

Reactions starting from undermodified hydroxywybutosine

Name
OHyWx:OHyWy

Last modification of this entry: Sept. 29, 2021


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