PDB Entry (6i9a) |
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PDB ID: 6i9a | Resolution: 1.2 Å | Exp. Method: X-RAY DIFFRACTION |
PMID: 30894633 | DOI: 10.1038/s41598-019-41354-3 | |
Protein |
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Protein Name: Lys-gingipain W83 | |
Uniprot ID/ACC: Q51817 (KGP83_PORGN) | Organism: Porphyromonas gingivalis |
Gene Symbol: kgp | Gene ID: - |
Protein Class: HYDROLASE |
Ligand |
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Ligand Name: KYT-36 | ||
Canonical SMILES: CN(NC(=O)CC[C@H](NC(=O)OCc1ccccc1)C(=O)N[C@@H](CCCCN)C(=O)C(=O)NCc1ccccc1)c1ccccc1 | ||
Standard InChI: InChI=1S/C34H42N6O6/c1-40(27-17-9-4-10-18-27)39-30(41)21-20-29(38-34(45)46-24-26-15-7-3-8-16-26)32(43)37-28(19-11-12-22-35)31(42)33(44)36-23-25-13-5-2-6-14-25/h2-10,13-18,28-29H,11-12,19-24,35H2,1H3,(H,36,44)(H,37,43)(H,38,45)(H,39,41)/t28-,29-/m0/s1 | ||
HET Code: H8E | PubChem: 11273632 | |
DrugBank: - | ChEMBL: - | |
Molecular Formula: C34H42N6O6 | Mol. Weight: 630.3166 | logP: 2.7285 |
HBD: 5 | HBA: 8 | |
#Rotatable Bonds: 18 | TPSA: 171.96 |
Covalent Mechanism |
Reaction Name | Residue | Chain ID | SASA | pKa | Warhead Name | Warhead Structure |
Hemi(thio)acetalization | CYS 477 | A | 32.43 | - | Ketone |
Binding Affinity |
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