PDB Chemical Component UPS

Ideal Model

Chemical Description

Name 2'-deoxy-5'-O-thiophosphonouridine
Formula C9 H13 N2 O7 P S
Formal charge 0
Molecular weight 324.247 g/mol
Component type DNA linking
Nonstandard Parent Id DU

Chemical features

Atom count 33
Chiral atom count 3
Chiral atoms C4' C1' C3'
Observed leaving atoms OP3 HOP3 HO3'
Bond count 34
Aromatic bond count 0

Chemical Identifiers

Systematic name (ACDLabs) 2'-deoxy-5'-O-thiophosphonouridine
Systematic name (OpenEye OEToolkits) 1-[(2R,4S,5R)-5-(dihydroxyphosphinothioyloxymethyl)-4-hydroxy-oxolan-2-yl]pyrimidine-2,4-dione

Chemical Descriptors

Stereo SMILES (CACTVS) O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(O)=S)N2C=CC(=O)NC2=O
SMILES (CACTVS) O[CH]1C[CH](O[CH]1CO[P](O)(O)=S)N2C=CC(=O)NC2=O
Stereo SMILES (OpenEye) C1[C@@H]([C@H](O[C@H]1N2C=CC(=O)NC2=O)COP(=S)(O)O)O
InChI descriptor InChI=1S/C9H13N2O7PS/c12-5-3-8(11-2-1-7(13)10-9(11)14)18-6(5)4-17-19(15,16)20/h1-2,5-6,8,12H,3-4H2,(H,10,13,14)(H2,15,16,20)/t5-,6+,8+/m0/s1
InChIKey descriptor LGZBLTPUGKWVDT-SHYZEUOFSA-N

Status Information

Last modified 2011-06-04
Created 2009-02-10
Release status REL
Model PDB code 3G3C
Processing site PDBJ