SMTL ID : 3q0t.1

Crystal structure of human dpp-iv in complex withsa-(+)- methyl2-(3-(aminomethyl)-4-(2,4-dichlorophenyl)-2-methyl- 7-oxo-5h-pyrrolo[3,4-b]pyridin-6(7h)-yl)acetate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

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: I.158, Q.191, N.193, T.195, K.231 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain B: I.158, N.193, T.195, E.196 No protein-ligand interaction detected (PLIP)

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

NAG.3: 4 residues within 4Å: Chain A: V.42, N.49, S.50, S.51 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.49 Water bridges: A:E.31 NAG.4: 3 residues within 4Å: Chain A: R.111, I.112, N.114 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:R.111 Water bridges: A:N.114 NAG.5: 4 residues within 4Å: Chain A: N.183, T.185, Q.272, E.273 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.185, A:T.185, A:E.273 NAG.6: 3 residues within 4Å: Chain A: W.151, V.243, N.245 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.245 NAG.7: 6 residues within 4Å: Chain A: L.483, N.484, F.488, R.545, E.568, D.569 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.483, A:F.488 Hydrogen bonds: A:N.484, A:R.545 Water bridges: A:E.568 NAG.9: 7 residues within 4Å: Chain B: E.31, V.42, F.43, N.44, N.49, S.50, S.51 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:V.42 Hydrogen bonds: B:N.49 Water bridges: B:E.31, B:E.31 NAG.10: 3 residues within 4Å: Chain B: E.37, N.39, N.56 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:E.37 Hydrogen bonds: B:N.39 NAG.11: 2 residues within 4Å: Chain B: R.111, N.114 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:R.111 Hydrogen bonds: B:N.114, B:N.114 NAG.12: 4 residues within 4Å: Chain B: N.183, T.185, F.186, E.273 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.185, B:T.185, B:E.273, B:E.273 NAG.13: 6 residues within 4Å: Chain B: L.483, N.484, F.488, R.545, E.568, D.569 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.483, B:F.488 Hydrogen bonds: B:N.484, B:R.545, B:R.545, B:E.568

2 x LGE: methyl [3-(aminomethyl)-4-(2,4-dichlorophenyl)-2-methyl-7-oxo-5,7-dihydro-6H-pyrrolo[3,4-b]pyridin-6-yl]acetate(Non-covalent)

LGE.8: 11 residues within 4Å: Chain A: R.89, E.169, E.170, Y.511, S.594, Y.595, V.620, Y.626, Y.630, N.674, H.704 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.595, A:Y.630 Hydrogen bonds: A:R.89, A:E.169, A:E.169, A:Y.626 Water bridges: A:R.89 Halogen bonds: A:N.674 LGE.14: 12 residues within 4Å: Chain B: R.89, E.169, E.170, Y.511, S.594, Y.595, V.620, Y.626, Y.630, N.674, V.675, H.704 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:V.675 Hydrogen bonds: B:R.89, B:E.169 Water bridges: B:R.89 pi-Stacking: B:Y.630 Halogen bonds: B:N.674

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, W. et al., Discovery of 7-oxo-pyrrolopyridines as potent and selective inhibitors of dpp4. To be Published

Release Date

2012-02-29

Peptides

Dipeptidyl peptidase 4: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dipeptidyl peptidase 4

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