PDB Chemical Component XC5

Ideal Model

Chemical Description

Name 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]cytidine
Formula C10 H18 N3 O12 P3
Formal charge 0
Molecular weight 465.184 g/mol
Component type NON-POLYMER

Chemical features

Atom count 46
Chiral atom count 3
Chiral atoms C1' C3' C4'
Bond count 47
Aromatic bond count 0

Chemical Identifiers

Systematic name (ACDLabs) 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]cytidine
Systematic name (OpenEye OEToolkits) [(2~{R},3~{S},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanyl-oxolan-2-yl]methoxy-[[oxidanyl(phosphonooxy)phosphoryl]methyl]phosphinic acid

Chemical Descriptors

Stereo SMILES (CACTVS) NC1=NC(=O)N(C=C1)[C@H]2C[C@H](O)[C@@H](CO[P](O)(=O)C[P](O)(=O)O[P](O)(O)=O)O2
SMILES (CACTVS) NC1=NC(=O)N(C=C1)[CH]2C[CH](O)[CH](CO[P](O)(=O)C[P](O)(=O)O[P](O)(O)=O)O2
Stereo SMILES (OpenEye) C1[C@@H]([C@H](O[C@H]1N2C=CC(=NC2=O)N)COP(=O)(CP(=O)(O)OP(=O)(O)O)O)O
InChI descriptor InChI=1S/C10H18N3O12P3/c11-8-1-2-13(10(15)12-8)9-3-6(14)7(24-9)4-23-26(16,17)5-27(18,19)25-28(20,21)22/h1-2,6-7,9,14H,3-5H2,(H,16,17)(H,18,19)(H2,11,12,15)(H2,20,21,22)/t6-,7+,9+/m0/s1
InChIKey descriptor YSCOIIOUWFAHFY-LKEWCRSYSA-N

Status Information

Last modified 2017-05-05
Created 2017-03-06
Release status REL
Model PDB code 5V1P
Processing site RCSB