SMTL ID : 3h0c.1

Crystal Structure of Human Dipeptidyl Peptidase IV (CD26) in Complex with a Reversed Amide Inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.66 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: R.109, I.110, N.112 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:R.109 Hydrogen bonds: A:R.109, A:N.112, A:N.112 NAG.2: 6 residues within 4Å: Chain A: E.29, V.40, N.42, N.47, S.48, S.49 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.40 Hydrogen bonds: A:N.47 Water bridges: A:E.29 NAG.3: 2 residues within 4Å: Chain A: W.149, N.243 No protein-ligand interaction detected (PLIP) NAG.4: 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.6: 3 residues within 4Å: Chain B: H.62, N.81, N.112 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.81 NAG.7: 5 residues within 4Å: Chain B: V.40, N.42, N.47, S.48, S.49 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.47 Water bridges: B:S.49 NAG.8: 6 residues within 4Å: Chain B: I.156, Q.189, N.191, T.193, E.194, K.229 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.191, B:T.193 NAG.9: 4 residues within 4Å: Chain B: E.35, N.36, N.37, N.54 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.35, B:N.37

2 x PS4: N-({(2S)-1-[(3R)-3-amino-4-(3-chlorophenyl)butanoyl]pyrrolidin-2-yl}methyl)-3-(methylsulfonyl)benzamide(Non-covalent)

PS4.5: 17 residues within 4Å: Chain A: E.167, E.168, S.171, F.319, Y.509, S.514, Q.515, K.516, S.592, Y.593, V.618, W.621, Y.624, Y.628, N.672, V.673, H.702 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.319, A:Y.509, A:Y.624, A:V.673 Hydrogen bonds: A:E.167, A:E.167, A:Y.624 Water bridges: A:Y.509 pi-Stacking: A:Y.628 PS4.10: 16 residues within 4Å: Chain B: E.167, E.168, S.171, F.319, Y.509, S.514, Q.515, K.516, S.592, Y.593, V.618, Y.624, Y.628, N.672, V.673, H.702 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.319, B:Y.624, B:V.673 Hydrogen bonds: B:E.167 pi-Stacking: B:Y.509, B:Y.628

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nordhoff, S. et al., Discovery of b-homophenylalanine based pyrrolidin-2-ylmethyl amides and sulfonamides as highly potent and selective inhibitors of dipeptidyl peptidase IV. To be Published

Release Date

2009-06-09

Peptides

Dipeptidyl peptidase 4: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dipeptidyl peptidase 4

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