PDB Chemical Component ME6

Ideal Model

Chemical Description

Name [(2R,3S,5R)-5-(4-azanyl-3-methyl-2-oxo-pyrimidin-3-ium-1-yl)-3-hydroxy-oxolan-2-yl]methyl dihydrogen phosphate
Formula C10 H17 N3 O7 P
Formal charge 1
Molecular weight 322.232 g/mol
Component type DNA linking
Nonstandard Parent Id DC

Chemical features

Atom count 38
Chiral atom count 3
Chiral atoms C1' C3' C4'
Observed leaving atoms O3P HO3' HO3P
Bond count 39
Aromatic bond count 0

Chemical Identifiers

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

Chemical Descriptors

Stereo SMILES (CACTVS) C[N+]1=C(N)C=CN([C@H]2C[C@H](O)[C@@H](CO[P](O)(O)=O)O2)C1=O
SMILES (CACTVS) C[N+]1=C(N)C=CN([CH]2C[CH](O)[CH](CO[P](O)(O)=O)O2)C1=O
Stereo SMILES (OpenEye) C[N+]1=C(C=CN(C1=O)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O)N
InChI descriptor InChI=1S/C10H16N3O7P/c1-12-8(11)2-3-13(10(12)15)9-4-6(14)7(20-9)5-19-21(16,17)18/h2-3,6-7,9,11,14H,4-5H2,1H3,(H2,16,17,18)/p+1/t6-,7+,9+/m0/s1
InChIKey descriptor SXDBYGVVLMSJDZ-LKEWCRSYSA-O

Status Information

Last modified 2011-06-04
Created 2009-05-21
Release status REL
Model PDB code 3H8X
Processing site RCSB