PDB Chemical Component PDU

Ideal Model

Chemical Description

Name 5(1-PROPYNYL)-2'-DEOXYURIDINE-5-MONOPHOSPHATE
Formula C12 H15 N2 O8 P
Formal charge 0
Molecular weight 346.230 g/mol
Component type DNA linking

Chemical features

Atom count 38
Chiral atom count 3
Chiral atoms C4' C3' C1'
Observed leaving atoms OP3 HOP3
Bond count 39
Aromatic bond count 0

Chemical Identifiers

Systematic name (OpenEye OEToolkits) [(2~{R},3~{S},5~{R})-5-[2,4-bis(oxidanylidene)-5-prop-1-ynyl-pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate

Chemical Descriptors

Stereo SMILES (CACTVS) CC#CC1=CN([C@H]2C[C@H](O)[C@@H](CO[P](O)(O)=O)O2)C(=O)NC1=O
SMILES (CACTVS) CC#CC1=CN([CH]2C[CH](O)[CH](CO[P](O)(O)=O)O2)C(=O)NC1=O
Stereo SMILES (OpenEye) CC#CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O
InChI descriptor InChI=1S/C12H15N2O8P/c1-2-3-7-5-14(12(17)13-11(7)16)10-4-8(15)9(22-10)6-21-23(18,19)20/h5,8-10,15H,4,6H2,1H3,(H,13,16,17)(H2,18,19,20)/t8-,9+,10+/m0/s1
InChIKey descriptor NUOBVCABUBRVOG-IVZWLZJFSA-N

Status Information

Last modified 2021-07-21
Created 1999-07-08
Release status REL
Model PDB code 1P3X
Processing site RCSB