PDB Entry (5yp2)
PDB ID: 5yp2 Resolution: 2.13 Å Exp. Method: X-RAY DIFFRACTION
PMID: 29426867 DOI: 10.1038/s41598-018-21056-y
Protein
Protein Name: Dipeptidyl aminopeptidase 4
Uniprot ID/ACC: Q6F3I7 (DAP4_PSEMX) Organism: Pseudoxanthomonas mexicana
Gene Symbol: dap4 Gene ID: -
Protein Class: HYDROLASE
Ligand
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
-