PDB Chemical Component 1RN

Ideal Model

Chemical Description

Name (E)-N-{[4-oxo-1-(5-O-phosphono-beta-D-arabinofuranosyl)-2-thioxo-1,2,3,4-tetrahydropyrimidin-5-yl]methylidene}glycine
Formula C12 H16 N3 O10 P S
Formal charge 0
Molecular weight 425.308 g/mol
Component type RNA LINKING
Nonstandard Parent Id U

Chemical features

Atom count 43
Chiral atom count 4
Chiral atoms C1' C2' C3' C4'
Observed leaving atoms OP3
Bond count 44
Aromatic bond count 0

Chemical Identifiers

Systematic name (ACDLabs) (E)-N-{[4-oxo-1-(5-O-phosphono-beta-D-arabinofuranosyl)-2-thioxo-1,2,3,4-tetrahydropyrimidin-5-yl]methylidene}glycine
Systematic name (OpenEye OEToolkits) 2-[(E)-[1-[(2R,3S,4S,5R)-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]-4-oxidanylidene-2-sulfanylidene-pyrimidin-5-yl]methylideneamino]ethanoic acid

Chemical Descriptors

Stereo SMILES (CACTVS) O[C@H]1[C@H](O)[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=C(C=NCC(O)=O)C(=O)NC2=S
SMILES (CACTVS) O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)N2C=C(C=NCC(O)=O)C(=O)NC2=S
Stereo SMILES (OpenEye) C1=C(C(=O)NC(=S)N1[C@H]2[C@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O)/C=N/CC(=O)O
InChI descriptor InChI=1S/C12H16N3O10PS/c16-7(17)2-13-1-5-3-15(12(27)14-10(5)20)11-9(19)8(18)6(25-11)4-24-26(21,22)23/h1,3,6,8-9,11,18-19H,2,4H2,(H,16,17)(H,14,20,27)(H2,21,22,23)/b13-1+/t6-,8-,9+,11-/m1/s1
InChIKey descriptor OIOFJGQNCGWJPT-PDCDXKGCSA-N

Status Information

Last modified 2013-05-24
Created 2013-05-09
Release status REL
Model PDB code 4JYZ
Processing site RCSB