PDB Entry (6i0x)
PDB ID: 6i0x Resolution: 1.6 Å Exp. Method: X-RAY DIFFRACTION
PMID: 30638292 DOI: 10.1002/pro.3571
Protein
Protein Name: Peptidylarginine deiminase
Uniprot ID/ACC: Q9RQJ2 (PAD_PORGI) Organism: Porphyromonas gingivalis (strain ATCC BAA-308 / W83)
Gene Symbol: PG_1424 Gene ID: 29256112
Protein Class: HYDROLASE
Ligand
Ligand Name:   Cl-amidine
Canonical SMILES:   NC(=O)[C@H](CCCNC(=N)CCl)NC(=O)c1ccccc1
Standard InChI:   InChI=1S/C14H19ClN4O2/c15-9-12(16)18-8-4-7-11(13(17)20)19-14(21)10-5-2-1-3-6-10/h1-3,5-6,11H,4,7-9H2,(H2,16,18)(H2,17,20)(H,19,21)/t11-/m0/s1
HET Code:   BFB PubChem:   24970878
DrugBank:   - ChEMBL:   CHEMBL1962361
Molecular Formula:   C14H19ClN4O2 Mol. Weight:   310.11966 logP:   0.85617
HBD:   4 HBA:   3
#Rotatable Bonds:   8 TPSA:   108.07
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Nucleophilic Aliphatic Subsititution CYS 351 A 4.18 21.6 Halomethyl Amidine
Binding Affinity
-