PDB Chemical Component C5L

Ideal Model

Chemical Description

Name 2'-O-(2-methoxyethyl)-5-methylcytidine 5'-(dihydrogen phosphate)
Formula C13 H22 N3 O9 P
Formal charge 0
Molecular weight 395.302 g/mol
Component type RNA LINKING
Nonstandard Parent Id C

Chemical features

Atom count 48
Chiral atom count 4
Chiral atoms C1' C2' C3' C4'
Observed leaving atoms OP3 HOP3
Bond count 49
Aromatic bond count 0

Chemical Identifiers

Systematic name (ACDLabs) 2'-O-(2-methoxyethyl)-5-methylcytidine 5'-(dihydrogen phosphate)
Systematic name (OpenEye OEToolkits) [(2R,3R,4R,5R)-5-(4-azanyl-5-methyl-2-oxidanylidene-pyrimidin-1-yl)-4-(2-methoxyethoxy)-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate

Chemical Descriptors

Stereo SMILES (CACTVS) COCCO[C@@H]1[C@H](O)[C@@H](CO[P](O)(O)=O)O[C@H]1N2C=C(C)C(=NC2=O)N
SMILES (CACTVS) COCCO[CH]1[CH](O)[CH](CO[P](O)(O)=O)O[CH]1N2C=C(C)C(=NC2=O)N
Stereo SMILES (OpenEye) CC1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)OCCOC
InChI descriptor InChI=1S/C13H22N3O9P/c1-7-5-16(13(18)15-11(7)14)12-10(23-4-3-22-2)9(17)8(25-12)6-24-26(19,20)21/h5,8-10,12,17H,3-4,6H2,1-2H3,(H2,14,15,18)(H2,19,20,21)/t8-,9-,10-,12-/m1/s1
InChIKey descriptor RRWZBUGVTSQGAI-DNRKLUKYSA-N

Status Information

Last modified 2013-11-22
Created 2013-01-22
Release status REL
Model PDB code 2M3F
Processing site RCSB