PDB Entry (3g3d)
PDB ID: 3g3d Resolution: 1.7 Å Exp. Method: X-RAY DIFFRACTION
PMID: 19260677 DOI: 10.1021/jm801224t
Protein
Protein Name: Uridine 5'-monophosphate synthase
Uniprot ID/ACC: P11172 (UMPS_HUMAN) Organism: Homo sapiens (Human)
Gene Symbol: UMPS Gene ID: 7372
Protein Class: LYASE
Ligand
Ligand Name:   5-FLUORO-UMP
Canonical SMILES:   O[C@H]1[C@@H](O)[C@@H](O[C@@H]1COP(O)(O)=O)n1cc(F)c(=O)[nH]c1=O
Standard InChI:   InChI=1S/C9H12FN2O9P/c10-3-1-12(9(16)11-7(3)15)8-6(14)5(13)4(21-8)2-20-22(17,18)19/h1,4-6,8,13-14H,2H2,(H,11,15,16)(H2,17,18,19)/t4-,5-,6-,8-/m1/s1
HET Code:   5FU PubChem:   150856
DrugBank:   - ChEMBL:   CHEMBL474163
Molecular Formula:   C9H12FN2O9P Mol. Weight:   342.02646 logP:   -2.5958
HBD:   5 HBA:   8
#Rotatable Bonds:   4 TPSA:   171.31
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Nucleophilic Aromatic Substitution LYS 125 A 20.4 8.93 Aryl Halide
Binding Affinity
Database Name Value
PDBBind Ki : 18200 nM
BindingDB Ki : 98000 nM