- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.10 Å
- Oligo State
- homo-12-mer
- Ligands
- 12 x NDY: (1R,4R,5R)-1,4,5-trihydroxy-3-[(1R)-1-hydroxy-2-phenyl]ethylcyclohex-2-ene-1-carboxylic acid(Non-covalent)
- 12 x SO4: SULFATE ION(Non-functional Binders)
SO4.2: 8 residues within 4Å:- Chain A: S.54, A.56
- Chain K: S.54, A.56
- Chain L: S.54, A.56
- Ligands: SO4.62, SO4.68
8 PLIP interactions:3 interactions with chain K, 2 interactions with chain L, 3 interactions with chain A- Hydrogen bonds: K:S.54, A:S.54
- Water bridges: K:A.56, K:A.56, L:A.56, L:A.56, A:S.54, A:A.56
SO4.8: 8 residues within 4Å:- Chain B: S.54, A.56
- Chain G: S.54, A.56
- Chain I: S.54, A.56
- Ligands: SO4.38, SO4.50
8 PLIP interactions:3 interactions with chain B, 2 interactions with chain G, 3 interactions with chain I- Hydrogen bonds: B:S.54, I:S.54
- Water bridges: B:S.54, B:A.56, G:A.56, G:A.56, I:A.56, I:A.56
SO4.14: 8 residues within 4Å:- Chain C: S.54, A.56
- Chain D: S.54, A.56
- Chain H: S.54, A.56
- Ligands: SO4.20, SO4.44
8 PLIP interactions:3 interactions with chain C, 3 interactions with chain D, 2 interactions with chain H- Hydrogen bonds: C:S.54, D:S.54
- Water bridges: C:S.54, C:A.56, D:A.56, D:A.56, H:A.56, H:A.56
SO4.20: 8 residues within 4Å:- Chain C: S.54, A.56
- Chain D: S.54, A.56
- Chain H: S.54, A.56
- Ligands: SO4.14, SO4.44
8 PLIP interactions:2 interactions with chain C, 3 interactions with chain D, 3 interactions with chain H- Water bridges: C:A.56, C:A.56, D:S.54, D:A.56, H:A.56, H:A.56
- Hydrogen bonds: D:S.54, H:S.54
SO4.26: 8 residues within 4Å:- Chain E: S.54, A.56
- Chain F: S.54, A.56
- Chain J: S.54, A.56
- Ligands: SO4.32, SO4.56
8 PLIP interactions:3 interactions with chain E, 3 interactions with chain J, 2 interactions with chain F- Hydrogen bonds: E:S.54, J:S.54
- Water bridges: E:S.54, E:A.56, J:A.56, J:A.56, F:A.56, F:A.56
SO4.32: 8 residues within 4Å:- Chain E: S.54, A.56
- Chain F: S.54, A.56
- Chain J: S.54, A.56
- Ligands: SO4.26, SO4.56
8 PLIP interactions:3 interactions with chain F, 2 interactions with chain J, 3 interactions with chain E- Hydrogen bonds: F:S.54, E:S.54
- Water bridges: F:S.54, F:A.56, J:A.56, J:A.56, E:A.56, E:A.56
SO4.38: 8 residues within 4Å:- Chain B: S.54, A.56
- Chain G: S.54, A.56
- Chain I: S.54, A.56
- Ligands: SO4.8, SO4.50
8 PLIP interactions:3 interactions with chain B, 3 interactions with chain G, 2 interactions with chain I- Hydrogen bonds: B:S.54, G:S.54
- Water bridges: B:A.56, B:A.56, G:S.54, G:A.56, I:A.56, I:A.56
SO4.44: 8 residues within 4Å:- Chain C: S.54, A.56
- Chain D: S.54, A.56
- Chain H: S.54, A.56
- Ligands: SO4.14, SO4.20
8 PLIP interactions:3 interactions with chain H, 3 interactions with chain C, 2 interactions with chain D- Hydrogen bonds: H:S.54, C:S.54
- Water bridges: H:S.54, H:A.56, C:A.56, C:A.56, D:A.56, D:A.56
SO4.50: 8 residues within 4Å:- Chain B: S.54, A.56
- Chain G: S.54, A.56
- Chain I: S.54, A.56
- Ligands: SO4.8, SO4.38
8 PLIP interactions:2 interactions with chain B, 3 interactions with chain G, 3 interactions with chain I- Water bridges: B:A.56, B:A.56, G:A.56, G:A.56, I:S.54, I:A.56
- Hydrogen bonds: G:S.54, I:S.54
SO4.56: 8 residues within 4Å:- Chain E: S.54, A.56
- Chain F: S.54, A.56
- Chain J: S.54, A.56
- Ligands: SO4.26, SO4.32
8 PLIP interactions:3 interactions with chain F, 3 interactions with chain J, 2 interactions with chain E- Hydrogen bonds: F:S.54, J:S.54
- Water bridges: F:A.56, F:A.56, J:S.54, J:A.56, E:A.56, E:A.56
SO4.62: 8 residues within 4Å:- Chain A: S.54, A.56
- Chain K: S.54, A.56
- Chain L: S.54, A.56
- Ligands: SO4.2, SO4.68
8 PLIP interactions:3 interactions with chain K, 3 interactions with chain L, 2 interactions with chain A- Hydrogen bonds: K:S.54, L:S.54
- Water bridges: K:S.54, K:A.56, L:A.56, L:A.56, A:A.56, A:A.56
SO4.68: 8 residues within 4Å:- Chain A: S.54, A.56
- Chain K: S.54, A.56
- Chain L: S.54, A.56
- Ligands: SO4.2, SO4.62
8 PLIP interactions:2 interactions with chain K, 3 interactions with chain A, 3 interactions with chain L- Water bridges: K:A.56, K:A.56, A:A.56, A:A.56, L:S.54, L:A.56
- Hydrogen bonds: A:S.54, L:S.54
- 12 x CL: CHLORIDE ION(Non-functional Binders)
CL.3: 4 residues within 4Å:- Chain A: R.87, H.114, P.119
- Chain G: R.113
Ligand excluded by PLIPCL.9: 4 residues within 4Å:- Chain B: R.87, H.114, P.119
- Chain D: R.113
Ligand excluded by PLIPCL.15: 4 residues within 4Å:- Chain C: R.87, H.114, P.119
- Chain F: R.113
Ligand excluded by PLIPCL.21: 4 residues within 4Å:- Chain B: R.113
- Chain D: R.87, H.114, P.119
Ligand excluded by PLIPCL.27: 4 residues within 4Å:- Chain E: R.87, H.114, P.119
- Chain K: R.113
Ligand excluded by PLIPCL.33: 4 residues within 4Å:- Chain C: R.113
- Chain F: R.87, H.114, P.119
Ligand excluded by PLIPCL.39: 4 residues within 4Å:- Chain A: R.113
- Chain G: R.87, H.114, P.119
Ligand excluded by PLIPCL.45: 4 residues within 4Å:- Chain H: R.87, H.114, P.119
- Chain L: R.113
Ligand excluded by PLIPCL.51: 4 residues within 4Å:- Chain I: R.87, H.114, P.119
- Chain J: R.113
Ligand excluded by PLIPCL.57: 4 residues within 4Å:- Chain I: R.113
- Chain J: R.87, H.114, P.119
Ligand excluded by PLIPCL.63: 4 residues within 4Å:- Chain E: R.113
- Chain K: R.87, H.114, P.119
Ligand excluded by PLIPCL.69: 4 residues within 4Å:- Chain H: R.113
- Chain L: R.87, H.114, P.119
Ligand excluded by PLIP- 36 x NA: SODIUM ION(Non-functional Binders)
NA.4: 2 residues within 4Å:- Chain A: A.91, L.93
Ligand excluded by PLIPNA.5: 5 residues within 4Å:- Chain A: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.6: 5 residues within 4Å:- Chain A: L.128, G.129, I.130, Q.131
- Chain G: H.143
Ligand excluded by PLIPNA.10: 2 residues within 4Å:- Chain B: A.91, L.93
Ligand excluded by PLIPNA.11: 5 residues within 4Å:- Chain B: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.12: 5 residues within 4Å:- Chain B: L.128, G.129, I.130, Q.131
- Chain D: H.143
Ligand excluded by PLIPNA.16: 2 residues within 4Å:- Chain C: A.91, L.93
Ligand excluded by PLIPNA.17: 5 residues within 4Å:- Chain C: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.18: 5 residues within 4Å:- Chain C: L.128, G.129, I.130, Q.131
- Chain F: H.143
Ligand excluded by PLIPNA.22: 2 residues within 4Å:- Chain D: A.91, L.93
Ligand excluded by PLIPNA.23: 5 residues within 4Å:- Chain D: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.24: 5 residues within 4Å:- Chain B: H.143
- Chain D: L.128, G.129, I.130, Q.131
Ligand excluded by PLIPNA.28: 2 residues within 4Å:- Chain E: A.91, L.93
Ligand excluded by PLIPNA.29: 5 residues within 4Å:- Chain E: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.30: 5 residues within 4Å:- Chain E: L.128, G.129, I.130, Q.131
- Chain K: H.143
Ligand excluded by PLIPNA.34: 2 residues within 4Å:- Chain F: A.91, L.93
Ligand excluded by PLIPNA.35: 5 residues within 4Å:- Chain F: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.36: 5 residues within 4Å:- Chain C: H.143
- Chain F: L.128, G.129, I.130, Q.131
Ligand excluded by PLIPNA.40: 2 residues within 4Å:- Chain G: A.91, L.93
Ligand excluded by PLIPNA.41: 5 residues within 4Å:- Chain G: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.42: 5 residues within 4Å:- Chain A: H.143
- Chain G: L.128, G.129, I.130, Q.131
Ligand excluded by PLIPNA.46: 2 residues within 4Å:- Chain H: A.91, L.93
Ligand excluded by PLIPNA.47: 5 residues within 4Å:- Chain H: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.48: 5 residues within 4Å:- Chain H: L.128, G.129, I.130, Q.131
- Chain L: H.143
Ligand excluded by PLIPNA.52: 2 residues within 4Å:- Chain I: A.91, L.93
Ligand excluded by PLIPNA.53: 5 residues within 4Å:- Chain I: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.54: 5 residues within 4Å:- Chain I: L.128, G.129, I.130, Q.131
- Chain J: H.143
Ligand excluded by PLIPNA.58: 2 residues within 4Å:- Chain J: A.91, L.93
Ligand excluded by PLIPNA.59: 5 residues within 4Å:- Chain J: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.60: 5 residues within 4Å:- Chain I: H.143
- Chain J: L.128, G.129, I.130, Q.131
Ligand excluded by PLIPNA.64: 2 residues within 4Å:- Chain K: A.91, L.93
Ligand excluded by PLIPNA.65: 5 residues within 4Å:- Chain K: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.66: 5 residues within 4Å:- Chain E: H.143
- Chain K: L.128, G.129, I.130, Q.131
Ligand excluded by PLIPNA.70: 2 residues within 4Å:- Chain L: A.91, L.93
Ligand excluded by PLIPNA.71: 5 residues within 4Å:- Chain L: I.4, N.6, V.48, R.50, E.70
Ligand excluded by PLIPNA.72: 5 residues within 4Å:- Chain H: H.143
- Chain L: L.128, G.129, I.130, Q.131
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Blanco, B. et al., Exploring the water-binding pocket of the type II dehydroquinase enzyme in the structure-based design of inhibitors. J. Med. Chem. (2014)
- Release Date
- 2014-04-16
- Peptides
- 3-DEHYDROQUINATE DEHYDRATASE: ABCDEFGHIJKL
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
AI
AJ
AK
AL
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.10 Å
- Oligo State
- homo-12-mer
- Ligands
- 12 x NDY: (1R,4R,5R)-1,4,5-trihydroxy-3-[(1R)-1-hydroxy-2-phenyl]ethylcyclohex-2-ene-1-carboxylic acid(Non-covalent)
- 12 x SO4: SULFATE ION(Non-functional Binders)
- 12 x CL: CHLORIDE ION(Non-functional Binders)
- 36 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Blanco, B. et al., Exploring the water-binding pocket of the type II dehydroquinase enzyme in the structure-based design of inhibitors. J. Med. Chem. (2014)
- Release Date
- 2014-04-16
- Peptides
- 3-DEHYDROQUINATE DEHYDRATASE: ABCDEFGHIJKL
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
AI
AJ
AK
AL
A