PDB Chemical Component XPB

Ideal Model

Chemical Description

Name O6-[4-oxo-4-(3-pyridyl)butyl]-2'-deoxyguanosine-5'-monophosphate
Formula C19 H23 N6 O8 P
Formal charge 0
Molecular weight 494.395 g/mol
Component type DNA LINKING
Nonstandard Parent Id DG

Chemical features

Atom count 57
Chiral atom count 3
Chiral atoms C4' C3' C1'
Observed leaving atoms H3 OP3 H1
Bond count 60
Aromatic bond count 16

Chemical Identifiers

Systematic name (ACDLabs) 9-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-[4-oxo-4-(pyridin-3-yl)butoxy]-9H-purin-2-amine
Systematic name (OpenEye OEToolkits) [(2R,3S,5R)-5-[2-azanyl-6-(4-oxidanylidene-4-pyridin-3-yl-butoxy)purin-9-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate

Chemical Descriptors

Stereo SMILES (CACTVS) Nc1nc(OCCCC(=O)c2cccnc2)c3ncn([C@H]4C[C@H](O)[C@@H](CO[P](O)(O)=O)O4)c3n1
SMILES (CACTVS) Nc1nc(OCCCC(=O)c2cccnc2)c3ncn([CH]4C[CH](O)[CH](CO[P](O)(O)=O)O4)c3n1
Stereo SMILES (OpenEye) c1cc(cnc1)C(=O)CCCOc2c3c(nc(n2)N)n(cn3)[C@H]4C[C@@H]([C@H](O4)COP(=O)(O)O)O
InChI descriptor InChI=1S/C19H23N6O8P/c20-19-23-17-16(18(24-19)31-6-2-4-12(26)11-3-1-5-21-8-11)22-10-25(17)15-7-13(27)14(33-15)9-32-34(28,29)30/h1,3,5,8,10,13-15,27H,2,4,6-7,9H2,(H2,20,23,24)(H2,28,29,30)/t13-,14+,15+/m0/s1
InChIKey descriptor YYZAHCOFAHEYAN-RRFJBIMHSA-N

Status Information

Last modified 2014-08-01
Created 2014-07-30
Release status REL
Model PDB code 1PYJ
Processing site RCSB