SMTL ID : 3kwf.1

human DPP-IV with carmegliptin (S)-1-((2S,3S,11bS)-2-Amino-9,10-dimethoxy-1,3,4,6,7,11b-hexahydro-2H-pyrido[2,1-a]isoquinolin-3-yl)-4-fluoromethyl-pyrrolidin-2-one

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 6 residues within 4Å: Chain A: E.29, V.40, N.42, N.47, S.48, S.49 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.47 NAG.2: 4 residues within 4Å: Chain A: I.156, N.191, T.193, E.194 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.156 Hydrogen bonds: A:N.191, A:E.194 NAG.4: 7 residues within 4Å: Chain B: E.29, V.40, F.41, N.42, N.47, S.48, S.49 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.47 NAG.5: 4 residues within 4Å: Chain B: I.156, N.191, T.193, E.194 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.156 Hydrogen bonds: B:N.191, B:T.193, B:E.194 Water bridges: B:Q.189

2 x B1Q: (4S)-1-[(2S,3S,11bS)-2-amino-9,10-dimethoxy-1,3,4,6,7,11b-hexahydro-2H-pyrido[2,1-a]isoquinolin-3-yl]-4-(fluoromethyl)pyrrolidin-2-one(Non-covalent)

B1Q.3: 16 residues within 4Å: Chain A: R.87, E.167, E.168, V.169, S.171, F.319, Y.509, S.592, Y.593, V.618, W.621, Y.624, Y.628, N.672, V.673, H.702 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.319, A:Y.624, A:V.673 Hydrogen bonds: A:R.87, A:E.167, A:E.168, A:S.171, A:Y.624, A:N.672 Water bridges: A:S.592 pi-Stacking: A:F.319 B1Q.6: 15 residues within 4Å: Chain B: R.87, E.167, E.168, S.171, F.319, Y.509, S.592, Y.593, V.618, W.621, Y.624, Y.628, N.672, V.673, H.702 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:F.319, B:Y.624, B:V.673 Hydrogen bonds: B:R.87, B:Y.624, B:Y.624, B:N.672 Water bridges: B:R.87, B:S.592 pi-Stacking: B:F.319

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mattei, P. et al., Discovery of carmegliptin: A potent and long-acting dipeptidyl peptidase IV inhibitor for the treatment of type 2 diabetes. Bioorg.Med.Chem.Lett. (2010)

Release Date

2010-01-12

Peptides

Dipeptidyl peptidase 4: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dipeptidyl peptidase 4

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