PDB Chemical Component Z

Ideal Model

Chemical Description

Name 1-(2-DEOXY-5-O-PHOSPHONO-BETA-D-ERYTHRO-PENTOFURANOSYL)PYRIMIDIN-2(1H)-ONE
Synonyms 2'-DEOXYZEBULARINE-5'-MONOPHOSPHATE
Formula C9 H13 N2 O7 P
Formal charge 0
Molecular weight 292.182 g/mol
Component type DNA LINKING
Nonstandard Parent Id DC

Chemical features

Atom count 32
Chiral atom count 3
Chiral atoms C4' C3' C1'
Observed leaving atoms OP3 HO3'
Bond count 33
Aromatic bond count 0

Chemical Identifiers

Systematic name (ACDLabs) 1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)pyrimidin-2(1H)-one
Systematic name (OpenEye OEToolkits) [(2R,3S,5R)-3-hydroxy-5-(2-oxopyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate

Chemical Descriptors

Stereo SMILES (CACTVS) O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=CC=NC2=O
SMILES (CACTVS) O[CH]1C[CH](O[CH]1CO[P](O)(O)=O)N2C=CC=NC2=O
Stereo SMILES (OpenEye) C1[C@@H]([C@H](O[C@H]1N2C=CC=NC2=O)COP(=O)(O)O)O
InChI descriptor InChI=1S/C9H13N2O7P/c12-6-4-8(11-3-1-2-10-9(11)13)18-7(6)5-17-19(14,15)16/h1-3,6-8,12H,4-5H2,(H2,14,15,16)/t6-,7+,8+/m0/s1
InChIKey descriptor KOQACCDGALTLCX-XLPZGREQSA-N

Status Information

Last modified 2011-06-04
Created 2002-09-09
Release status REL
Model PDB code 1M0E
Processing site EBI