PDB Entry (3bjm)
PDB ID: 3bjm Resolution: 2.35 Å Exp. Method: X-RAY DIFFRACTION
PMID: 18227430 DOI: 10.1110/ps.073253208
Protein
Protein Name: Dipeptidyl peptidase 4
Uniprot ID/ACC: P27487 (DPP4_HUMAN) Organism: Homo sapiens (Human)
Gene Symbol: DPP4 Gene ID: 1803
Protein Class: HYDROLASE
Ligand
Ligand Name:   Saxagliptin
Canonical SMILES:   N[C@H](C(=O)N1[C@H]2C[C@H]2C[C@H]1C#N)C12CC3CC(CC(O)(C3)C1)C2
Standard InChI:   InChI=1S/C18H25N3O2/c19-8-13-2-12-3-14(12)21(13)16(22)15(20)17-4-10-1-11(5-17)7-18(23,6-10)9-17/h10-15,23H,1-7,9,20H2/t10?,11?,12-,13+,14+,15-,17?,18?/m1/s1
HET Code:   BJM PubChem:   11243969
DrugBank:   DB06335 ChEMBL:   CHEMBL385517
Molecular Formula:   C18H25N3O2 Mol. Weight:   315.19467 logP:   1.15798
HBD:   2 HBA:   4
#Rotatable Bonds:   2 TPSA:   90.35
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Nucleophilic Addition to a Triple Bond SER 630 A 21.32 - Nitrile
Binding Affinity
Database Name Value
PDBBind Kd : 5 nM
BindingDB Ki : 0.6 nM