PDB Chemical Component DPB

Ideal Model

Chemical Description

Name (S)-1-[2'-DEOXY-3',5'-O-(1-PHOSPHONO)BENZYLIDENE-B-D-THREO-PENTOFURANOSYL]THYMINE
Synonyms DPB-T
Formula C17 H19 N2 O8 P
Formal charge 0
Molecular weight 410.315 g/mol
Component type DNA LINKING
Nonstandard Parent Id DT

Chemical features

Atom count 47
Chiral atom count 4
Chiral atoms C1' C4' C3' C6'
Observed leaving atoms OP3
Bond count 50
Aromatic bond count 6

Chemical Identifiers

Systematic name (ACDLabs) 1-{2-deoxy-3,5-O-[phenyl(phosphono)methylidene]-beta-L-threo-pentofuranosyl}-5-methylpyrimidine-2,4(1H,3H)-dione
Systematic name (OpenEye OEToolkits) [(2S,4aS,6S,7aS)-6-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-2-phenyl-4a,6,7,7a-tetrahydro-4H-furo[3,2-d][1,3]dioxin-2-yl]phosphonic acid

Chemical Descriptors

Stereo SMILES (CACTVS) CC1=CN([C@@H]2C[C@@H]3O[C@@](OC[C@@H]3O2)(c4ccccc4)[P](O)(O)=O)C(=O)NC1=O
SMILES (CACTVS) CC1=CN([CH]2C[CH]3O[C](OC[CH]3O2)(c4ccccc4)[P](O)(O)=O)C(=O)NC1=O
Stereo SMILES (OpenEye) CC1=CN(C(=O)NC1=O)[C@@H]2C[C@H]3[C@@H](O2)CO[C@](O3)(c4ccccc4)P(=O)(O)O
InChI descriptor InChI=1S/C17H19N2O8P/c1-10-8-19(16(21)18-15(10)20)14-7-12-13(26-14)9-25-17(27-12,28(22,23)24)11-5-3-2-4-6-11/h2-6,8,12-14H,7,9H2,1H3,(H,18,20,21)(H2,22,23,24)/t12-,13-,14-,17-/m0/s1
InChIKey descriptor WTZFKHNHHRPQOU-WSMBLCCSSA-N

Status Information

Last modified 2020-06-17
Created 2003-09-17
Release status REL
Processing site RCSB