PDB Entry (3p8e)
PDB ID: 3p8e Resolution: 2.49 Å Exp. Method: X-RAY DIFFRACTION
PMID: 20979083 DOI: 10.1002/cmdc.201000392
Protein
Protein Name: N(G),N(G)-dimethylarginine dimethylaminohydrolase 1
Uniprot ID/ACC: O94760 (DDAH1_HUMAN) Organism: Homo sapiens (Human)
Gene Symbol: DDAH1 Gene ID: 23576
Protein Class: HYDROLASE
Ligand
Ligand Name:   N5-(1-iminopentyl)-L-ornithine
Canonical SMILES:   CCCCC(=N)NCCC[C@H](N)C(O)=O
Standard InChI:   InChI=1S/C10H21N3O2/c1-2-3-6-9(12)13-7-4-5-8(11)10(14)15/h8H,2-7,11H2,1H3,(H2,12,13)(H,14,15)/t8-/m0/s1
HET Code:   LN7 PubChem:   10420835
DrugBank:   - ChEMBL:   CHEMBL1234051
Molecular Formula:   C10H21N3O2 Mol. Weight:   215.16338 logP:   0.93557
HBD:   4 HBA:   3
#Rotatable Bonds:   8 TPSA:   99.2
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Nucleophilic Addition to a Double Bond CYS 274 A 12.54 13.14 Amidine
Binding Affinity
Database Name Value
PDBBind Kd : 7000 nM