PDB Chemical Component NMT

Ideal Model

Chemical Description

Name 1-(O2-(METHYLCARBAMOYL)-O5-HYDROXYPHOSPHINYL-BETA-D-RIBOFURANOSYL)THYMINE
Formula C12 H20 N3 O10 P
Formal charge 0
Molecular weight 397.275 g/mol
Component type DNA LINKING
Nonstandard Parent Id DT

Chemical features

Atom count 46
Chiral atom count 5
Chiral atoms C2' C4' C1' C3' C7'
Observed leaving atoms OP3 HO3'
Bond count 47
Aromatic bond count 0

Chemical Identifiers

Systematic name (ACDLabs) 2'-O-[(S)-hydroxy(methylamino)methyl]-5-methyluridine 5'-(dihydrogen phosphate)
Systematic name (OpenEye OEToolkits) [(2R,3R,4R,5R)-3-hydroxy-4-(hydroxy-methylamino-methoxy)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl dihydrogen phosphate

Chemical Descriptors

Stereo SMILES (CACTVS) CN[C@@H](O)O[C@@H]1[C@H](O)[C@@H](CO[P](O)(O)=O)O[C@H]1N2C=C(C)C(=O)NC2=O
SMILES (CACTVS) CN[CH](O)O[CH]1[CH](O)[CH](CO[P](O)(O)=O)O[CH]1N2C=C(C)C(=O)NC2=O
Stereo SMILES (OpenEye) CC1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)OC(NC)O
InChI descriptor InChI=1S/C12H20N3O10P/c1-5-3-15(11(18)14-9(5)17)10-8(25-12(19)13-2)7(16)6(24-10)4-23-26(20,21)22/h3,6-8,10,12-13,16,19H,4H2,1-2H3,(H,14,17,18)(H2,20,21,22)/t6-,7-,8-,10-,12+/m1/s1
InChIKey descriptor NBDRJSHPMIOFTH-REKNECKOSA-N

Status Information

Last modified 2011-06-04
Created 2004-11-22
Release status REL
Model PDB code 1XUW
Processing site RCSB