PDB Entry (1w31)
PDB ID: 1w31 Resolution: 1.9 Å Exp. Method: X-RAY DIFFRACTION
PMID: 16131755 DOI: 10.1107/S0907444905018834
Protein
Protein Name: Delta-aminolevulinic acid dehydratase
Uniprot ID/ACC: P05373 (HEM2_YEAST) Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Gene Symbol: HEM2 Gene ID: 852842
Protein Class: LYASE
Ligand
Ligand Name:   5-HYDROXYLAEVULINIC ACID
Canonical SMILES:   OCC(=O)CCC(O)=O
Standard InChI:   InChI=1S/C5H8O4/c6-3-4(7)1-2-5(8)9/h6H,1-3H2,(H,8,9)
HET Code:   SHO PubChem:   10080438
DrugBank:   - ChEMBL:   -
Molecular Formula:   C5H8O4 Mol. Weight:   132.04225 logP:   -0.5874
HBD:   2 HBA:   3
#Rotatable Bonds:   4 TPSA:   74.6
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Imine Condensation LYS 263 A 13.6 4.22 Ketone
Binding Affinity
Database Name Value
PDBBind Ki : 250000 nM
Binding MOAD Ki : 250000 nM