PDB Chemical Component 5SE

Ideal Model

Chemical Description

Name 2'-deoxy-5-(methylselanyl)cytidine 5'-(dihydrogen phosphate)
Formula C10 H16 N3 O7 P Se
Formal charge 0
Molecular weight 400.184 g/mol
Component type DNA LINKING
Nonstandard Parent Id DU

Chemical features

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

Chemical Identifiers

Systematic name (ACDLabs) 2'-deoxy-5-(methylselanyl)cytidine 5'-(dihydrogen phosphate)
Systematic name (OpenEye OEToolkits) [(2R,3S,5R)-5-(4-azanyl-5-methylselanyl-2-oxo-pyrimidin-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate

Chemical Descriptors

Stereo SMILES (CACTVS) C[Se]C1=CN([C@H]2C[C@H](O)[C@@H](CO[P](O)(O)=O)O2)C(=O)N=C1N
SMILES (CACTVS) C[Se]C1=CN([CH]2C[CH](O)[CH](CO[P](O)(O)=O)O2)C(=O)N=C1N
Stereo SMILES (OpenEye) C[Se]C1=CN(C(=O)N=C1N)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O
InChI descriptor InChI=1S/C10H16N3O7PSe/c1-22-7-3-13(10(15)12-9(7)11)8-2-5(14)6(20-8)4-19-21(16,17)18/h3,5-6,8,14H,2,4H2,1H3,(H2,11,12,15)(H2,16,17,18)/t5-,6+,8+/m0/s1
InChIKey descriptor NLUQHLNACKOXLS-SHYZEUOFSA-N

Status Information

Last modified 2011-06-04
Created 2009-08-07
Release status REL
Model PDB code 3IJN
Processing site RCSB