PDB Chemical Component A6C

Ideal Model

Chemical Description

Name 2-(4-amino-2-oxopyrimidin-1(2H)-yl)-1,5-anhydro-2-deoxy-6-O-phosphono-D-altritol
Synonyms ((2R,3S,4S,5R)-5-(4-amino-2-oxopyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydro-2H-pyran-2-yl)methyl dihydrogen phosphate
Formula C10 H16 N3 O8 P
Formal charge 0
Molecular weight 337.223 g/mol
Component type RNA linking
Nonstandard Parent Id C

Chemical features

Atom count 38
Chiral atom count 4
Chiral atoms C1' C2' C3' C4'
Observed leaving atoms OP3 HO3' HOP3
Bond count 39
Aromatic bond count 0

Chemical Identifiers

Systematic name (ACDLabs) 2-(4-amino-2-oxopyrimidin-1(2H)-yl)-1,5-anhydro-2-deoxy-6-O-phosphono-D-altritol
Systematic name (OpenEye OEToolkits) [(2R,3S,4S,5R)-5-(4-azanyl-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxan-2-yl]methyl dihydrogen phosphate

Chemical Descriptors

Stereo SMILES (CACTVS) NC1=NC(=O)N(C=C1)[C@@H]2CO[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]2O
SMILES (CACTVS) NC1=NC(=O)N(C=C1)[CH]2CO[CH](CO[P](O)(O)=O)[CH](O)[CH]2O
Stereo SMILES (OpenEye) C1[C@H]([C@@H]([C@@H]([C@H](O1)COP(=O)(O)O)O)O)N2C=CC(=NC2=O)N
InChI descriptor InChI=1S/C10H16N3O8P/c11-7-1-2-13(10(16)12-7)5-3-20-6(9(15)8(5)14)4-21-22(17,18)19/h1-2,5-6,8-9,14-15H,3-4H2,(H2,11,12,16)(H2,17,18,19)/t5-,6-,8+,9-/m1/s1
InChIKey descriptor VRGYQABDDBPVLA-MTSNSDSCSA-N

Status Information

Last modified 2021-03-13
Created 2010-08-26
Release status REL
Model PDB code 3OK2
Processing site RCSB