SMTL ID : 3f8s.2 (2 other biounits)

Crystal structure of dipeptidyl peptidase IV in complex with inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.43 Å

Oligo State

monomer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: V.48, N.50, N.55, S.56, S.57 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain A: I.164, Q.197, N.199, T.201 No protein-ligand interaction detected (PLIP)

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)

NAG.3: 4 residues within 4Å: Chain A: N.189, T.191, D.244, E.279 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.189 NAG.4: 5 residues within 4Å: Chain A: I.289, N.291, M.318, S.319, T.320 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.291 Hydrogen bonds: A:N.291, A:R.566

1 x PF2: 2-(4-{(3S,5S)-5-[(3,3-difluoropyrrolidin-1-yl)carbonyl]pyrrolidin-3-yl}piperazin-1-yl)pyrimidine(Non-covalent)

PF2.5: 12 residues within 4Å: Chain A: R.95, E.175, E.176, F.327, Y.517, Y.555, S.600, Y.601, V.626, Y.632, Y.636, N.680 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.632, A:Y.636, A:Y.636 Hydrogen bonds: A:R.95, A:E.175, A:N.680 Salt bridges: A:E.176 pi-Stacking: A:F.327

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ammirati, M.J. et al., (3,3-Difluoro-pyrrolidin-1-yl)-[(2S,4S)-(4-(4-pyrimidin-2-yl-piperazin-1-yl)-pyrrolidin-2-yl]-methanone: a potent, selective, orally active dipeptidyl peptidase IV inhibitor. Bioorg.Med.Chem.Lett. (2009)

Release Date

2009-06-23

Peptides

Dipeptidyl peptidase 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Dipeptidyl peptidase 4

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