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

dipepdyl peptidase IV in complex with inhibitor PZF

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

5 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: 6 residues within 4Å: Chain A: E.37, V.48, N.50, N.55, S.56, S.57 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 6 residues within 4Å: Chain A: I.289, N.291, M.318, S.319, T.320, E.647 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 6 residues within 4Å: Chain B: E.37, V.48, N.50, N.55, S.56, S.57 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 7 residues within 4Å: Chain B: N.189, T.191, N.242, Q.278, E.279, Y.300, E.302 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.300 Hydrogen bonds: B:N.242, B:E.302, B:E.302 NAG-NAG.6: 7 residues within 4Å: Chain B: N.291, M.318, S.319, T.320, R.566, E.647, D.648 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- LGU- MAN: alpha-D-mannopyranose-(1-3)-alpha-L-gulopyranuronic acid-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-LGU-MAN.2: 7 residues within 4Å: Chain A: I.164, Q.197, N.199, T.201, E.202, K.237 Ligands: LGU.9 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.201

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

NAG.7: 4 residues within 4Å: Chain A: N.189, T.191, Q.278, E.279 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.191, A:E.279, A:E.279 NAG.10: 5 residues within 4Å: Chain B: I.164, Q.197, N.199, T.201, E.202 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.164 Hydrogen bonds: B:N.199, B:T.201, B:E.202, B:E.202

2 x PZF: (3R,4S)-1-[6-(6-METHOXYPYRIDIN-3-YL)PYRIMIDIN-4-YL]-4-(2,4,5-TRIFLUOROPHENYL)PYRROLIDIN-3-AMINE(Non-covalent)

PZF.8: 16 residues within 4Å: Chain A: R.95, E.175, E.176, S.179, F.327, R.328, Y.517, S.600, Y.601, V.626, W.629, Y.632, Y.636, N.680, V.681, H.710 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.327, A:F.327, A:V.681 Hydrogen bonds: A:E.175, A:S.179, A:R.328, A:Y.632, A:Y.632 pi-Stacking: A:F.327, A:Y.632, A:Y.636 PZF.11: 16 residues within 4Å: Chain B: R.95, E.175, E.176, S.179, F.327, R.328, Y.517, S.600, Y.601, V.626, W.629, Y.632, Y.636, N.680, V.681, H.710 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.327, B:F.327, B:V.681 Hydrogen bonds: B:E.176, B:S.179, B:R.328 pi-Stacking: B:F.327, B:Y.632, B:Y.636

1 x LGU: alpha-L-gulopyranuronic acid(Non-functional Binders)

LGU.9: 2 residues within 4Å: Ligands: NAG-NAG-LGU-MAN.2, NAG-NAG-LGU-MAN.2 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wright, S.W. et al., (3R,4S)-4-(2,4,5-Trifluorophenyl)-pyrrolidin-3-ylamine inhibitors of dipeptidyl peptidase IV: synthesis, in vitro, in vivo, and X-ray crystallographic characterization. Bioorg.Med.Chem.Lett. (2007)

Release Date

2008-07-29

Peptides

Dipeptidyl peptidase 4 membrane form: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dipeptidyl peptidase 4 membrane form

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