- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.56 Å
- Oligo State
- homo-tetramer
- Ligands
- 7 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 15 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.10: 5 residues within 4Å:- Chain A: L.40, N.42, N.47, S.48, S.49
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:L.40
- Hydrogen bonds: A:N.42, A:N.47
NAG.11: 4 residues within 4Å:- Chain A: E.35, N.36, N.37, N.54
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.37, A:N.54
NAG.12: 3 residues within 4Å:- Chain A: N.241
- Chain C: Y.247, V.250
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:N.241
NAG.13: 4 residues within 4Å:- Chain A: N.283, S.311, T.312, R.558
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:T.312
- Hydrogen bonds: A:N.283
NAG.16: 5 residues within 4Å:- Chain B: L.40, Y.45, N.47, S.48, S.49
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:N.47, B:S.49
NAG.17: 5 residues within 4Å:- Chain B: T.150, I.156, N.191, T.193, E.194
7 PLIP interactions:7 interactions with chain B- Hydrophobic interactions: B:T.150, B:I.156
- Hydrogen bonds: B:N.191, B:E.194, B:E.194
- Water bridges: B:Q.189, B:T.193
NAG.18: 6 residues within 4Å:- Chain B: S.239, P.240, N.241
- Chain D: Y.247, V.250, R.298
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain D- Hydrophobic interactions: B:P.240
- Hydrogen bonds: B:N.241, D:Y.247, D:R.298
NAG.19: 3 residues within 4Å:- Chain B: N.283, S.311, T.312
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:N.283
NAG.22: 5 residues within 4Å:- Chain C: L.40, Y.45, N.47, S.48, S.49
2 PLIP interactions:2 interactions with chain C- Hydrophobic interactions: C:L.40
- Hydrogen bonds: C:N.47
NAG.23: 4 residues within 4Å:- Chain C: E.35, N.36, N.37, N.54
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:E.35, C:N.36, C:N.37, C:N.54, C:N.54
NAG.24: 7 residues within 4Å:- Chain C: T.150, I.156, Q.189, N.191, T.193, E.194, K.229
5 PLIP interactions:5 interactions with chain C- Hydrophobic interactions: C:T.150, C:I.156
- Hydrogen bonds: C:N.191, C:T.193, C:E.194
NAG.25: 3 residues within 4Å:- Chain A: Y.247, V.250
- Chain C: N.241
3 PLIP interactions:2 interactions with chain C, 1 interactions with chain A- Hydrogen bonds: C:N.241, A:Y.247
- Water bridges: C:N.241
NAG.26: 5 residues within 4Å:- Chain C: A.281, N.283, S.311, R.558, D.640
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:N.283, C:R.558, C:D.640
NAG.29: 2 residues within 4Å:- Chain D: N.47, S.49
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:N.47
NAG.30: 1 residues within 4Å:- Chain D: N.241
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:N.241
- Water bridges: D:N.241, D:N.241
- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.14: 6 residues within 4Å:- Chain A: A.322, E.323, H.325, I.336, G.368, I.369
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:E.323, A:I.369
- Water bridges: A:I.367, A:I.369
- Salt bridges: A:H.325
SO4.20: 6 residues within 4Å:- Chain B: A.322, E.323, H.325, I.336, G.368, I.369
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:E.323, B:I.369
- Salt bridges: B:H.325
SO4.27: 5 residues within 4Å:- Chain C: A.322, E.323, H.325, G.368, I.369
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:E.323, C:E.323, C:I.369
- Salt bridges: C:H.325
SO4.31: 7 residues within 4Å:- Chain D: A.322, E.323, H.325, I.336, I.367, G.368, I.369
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:E.323, D:I.369
- Salt bridges: D:H.325
- 4 x BPR: (2R)-N-[(2R)-2-(DIHYDROXYBORYL)-1-L-PROLYLPYRROLIDIN-2-YL]-N-[(5R)-5-(DIHYDROXYBORYL)-1-L-PROLYLPYRROLIDIN-2-YL]-L-PROLINAMIDE(Covalent)
BPR.15: 12 residues within 4Å:- Chain A: R.87, E.167, E.168, Y.509, S.592, Y.593, V.618, Y.624, Y.628, N.672, V.673, H.702
10 PLIP interactions:10 interactions with chain A- Hydrophobic interactions: A:V.618, A:Y.628, A:V.673
- Hydrogen bonds: A:R.87, A:E.167, A:Y.509, A:Y.509, A:Y.509, A:Y.593, A:N.672
BPR.21: 12 residues within 4Å:- Chain B: R.87, E.167, E.168, Y.509, S.592, Y.593, V.618, Y.624, Y.628, N.672, V.673, H.702
11 PLIP interactions:11 interactions with chain B- Hydrophobic interactions: B:V.618, B:Y.628, B:Y.628, B:V.673
- Hydrogen bonds: B:R.87, B:E.167, B:Y.509, B:Y.509, B:Y.593, B:Y.624, B:N.672
BPR.28: 12 residues within 4Å:- Chain C: R.87, E.167, E.168, Y.509, S.592, Y.593, V.618, Y.624, Y.628, N.672, V.673, H.702
12 PLIP interactions:12 interactions with chain C- Hydrophobic interactions: C:V.618, C:Y.628, C:V.673
- Hydrogen bonds: C:R.87, C:R.87, C:E.167, C:E.167, C:Y.509, C:Y.509, C:Y.593, C:Y.624, C:N.672
BPR.32: 12 residues within 4Å:- Chain D: R.87, E.167, E.168, Y.509, S.592, Y.593, V.618, Y.624, Y.628, N.672, V.673, H.702
11 PLIP interactions:11 interactions with chain D- Hydrophobic interactions: D:V.618, D:Y.628, D:V.673
- Hydrogen bonds: D:R.87, D:E.167, D:E.167, D:Y.509, D:Y.509, D:Y.593, D:Y.624, D:N.672
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Engel, M. et al., Rigidity and flexibility of dipeptidyl peptidase IV: crystal structures of and docking experiments with DPIV. J.Mol.Biol. (2006)
- Release Date
- 2006-02-28
- Peptides
- Dipeptidyl peptidase 4: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.56 Å
- Oligo State
- homo-tetramer
- Ligands
- 7 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 2 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 15 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 4 x SO4: SULFATE ION(Non-functional Binders)
- 4 x BPR: (2R)-N-[(2R)-2-(DIHYDROXYBORYL)-1-L-PROLYLPYRROLIDIN-2-YL]-N-[(5R)-5-(DIHYDROXYBORYL)-1-L-PROLYLPYRROLIDIN-2-YL]-L-PROLINAMIDE(Covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Engel, M. et al., Rigidity and flexibility of dipeptidyl peptidase IV: crystal structures of and docking experiments with DPIV. J.Mol.Biol. (2006)
- Release Date
- 2006-02-28
- Peptides
- Dipeptidyl peptidase 4: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D