PDB Entry (5yp2) |
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PDB ID: 5yp2 | Resolution: 2.13 Å | Exp. Method: X-RAY DIFFRACTION |
PMID: 29426867 | DOI: 10.1038/s41598-018-21056-y | |
Protein |
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Protein Name: Dipeptidyl aminopeptidase 4 | |
Uniprot ID/ACC: Q6F3I7 (DAP4_PSEMX) | Organism: Pseudoxanthomonas mexicana |
Gene Symbol: dap4 | Gene ID: - |
Protein Class: HYDROLASE |
Ligand |
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Ligand Name: (2S,5R)-1-[2-[[1-(hydroxymethyl)cyclopentyl]amino]ethanoyl]pyrrolidine-2,5-dicarbonitrile | ||
Canonical SMILES: OCC1(CCCC1)NCC(=O)N1[C@@H](CC[C@@H]1C#N)C#N | ||
Standard InChI: InChI=1S/C14H20N4O2/c15-7-11-3-4-12(8-16)18(11)13(20)9-17-14(10-19)5-1-2-6-14/h11-12,17,19H,1-6,9-10H2/t11-,12+ | ||
HET Code: 8YC | PubChem: 11381416 | |
DrugBank: - | ChEMBL: CHEMBL379522 | |
Molecular Formula: C14H20N4O2 | Mol. Weight: 276.15863 | logP: 0.28786 |
HBD: 2 | HBA: 5 | |
#Rotatable Bonds: 4 | TPSA: 100.15 |
Covalent Mechanism |
Reaction Name | Residue | Chain ID | SASA | pKa | Warhead Name | Warhead Structure |
Nucleophilic Addition to a Triple Bond | SER 613 | A | 20.11 | - | Nitrile |
Binding Affinity |
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