- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 0.95 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x XYL: Xylitol(Non-covalent)
- 8 x MN: MANGANESE (II) ION(Non-covalent)
MN.2: 7 residues within 4Å:- Chain A: E.180, E.216, H.219, D.244, D.286
- Ligands: XYL.1, OH.6
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:E.180, A:E.216, A:D.244, A:D.286
MN.3: 8 residues within 4Å:- Chain A: K.182, E.216, H.219, N.246, D.254, D.256
- Ligands: XYL.1, OH.6
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Ligand interactions- Metal complexes: A:E.216, A:H.219, A:D.254, A:D.256, OH.6
MN.8: 7 residues within 4Å:- Chain B: E.180, E.216, H.219, D.244, D.286
- Ligands: XYL.7, OH.12
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:E.180, B:E.216, B:D.244, B:D.286
MN.9: 8 residues within 4Å:- Chain B: K.182, E.216, H.219, N.246, D.254, D.256
- Ligands: XYL.7, OH.12
5 PLIP interactions:4 interactions with chain B, 1 Ligand-Ligand interactions- Metal complexes: B:E.216, B:H.219, B:D.254, B:D.256, OH.12
MN.14: 7 residues within 4Å:- Chain C: E.180, E.216, H.219, D.244, D.286
- Ligands: XYL.13, OH.18
4 PLIP interactions:4 interactions with chain C- Metal complexes: C:E.180, C:E.216, C:D.244, C:D.286
MN.15: 8 residues within 4Å:- Chain C: K.182, E.216, H.219, N.246, D.254, D.256
- Ligands: XYL.13, OH.18
5 PLIP interactions:4 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:E.216, C:H.219, C:D.254, C:D.256, H2O.58
MN.20: 7 residues within 4Å:- Chain D: E.180, E.216, H.219, D.244, D.286
- Ligands: XYL.19, OH.24
4 PLIP interactions:4 interactions with chain D- Metal complexes: D:E.180, D:E.216, D:D.244, D:D.286
MN.21: 8 residues within 4Å:- Chain D: K.182, E.216, H.219, N.246, D.254, D.256
- Ligands: XYL.19, OH.24
5 PLIP interactions:4 interactions with chain D, 1 Ligand-Ligand interactions- Metal complexes: D:E.216, D:H.219, D:D.254, D:D.256, OH.24
- 8 x NA: SODIUM ION(Non-functional Binders)
NA.4: 6 residues within 4Å:- Chain A: D.162, G.165, L.205, E.206, R.207, Y.211
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.162, A:D.162, A:E.206, A:R.207
NA.5: 4 residues within 4Å:- Chain A: P.35, L.57, H.70, R.73
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:L.57, A:H.70
- Water bridges: A:R.73
NA.10: 6 residues within 4Å:- Chain B: D.162, G.165, L.205, E.206, R.207, Y.211
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:D.162, B:E.206, B:R.207, B:Y.211
NA.11: 4 residues within 4Å:- Chain B: P.35, L.57, H.70, R.73
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:H.70
- Water bridges: B:L.57, B:R.73
NA.16: 6 residues within 4Å:- Chain C: D.162, G.165, L.205, E.206, R.207, Y.211
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:E.206, C:R.207, C:Y.211
NA.17: 4 residues within 4Å:- Chain C: P.35, L.57, H.70, R.73
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:H.70
- Water bridges: C:D.34, C:L.57, C:R.73
NA.22: 6 residues within 4Å:- Chain D: D.162, G.165, L.205, E.206, R.207, Y.211
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:D.162, D:E.206, D:R.207
NA.23: 4 residues within 4Å:- Chain D: P.35, L.57, H.70, R.73
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:H.70
- Water bridges: D:D.34, D:H.70, D:R.73
- 4 x OH: HYDROXIDE ION(Non-covalent)
OH.6: 8 residues within 4Å:- Chain A: E.216, D.254, D.256, D.286, K.288
- Ligands: XYL.1, MN.2, MN.3
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.216
- Water bridges: A:K.288
OH.12: 8 residues within 4Å:- Chain B: E.216, D.254, D.256, D.286, K.288
- Ligands: XYL.7, MN.8, MN.9
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:E.216
- Water bridges: B:K.288
OH.18: 8 residues within 4Å:- Chain C: E.216, D.254, D.256, D.286, K.288
- Ligands: XYL.13, MN.14, MN.15
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:D.286
- Water bridges: C:K.288
OH.24: 8 residues within 4Å:- Chain D: E.216, D.254, D.256, D.286, K.288
- Ligands: XYL.19, MN.20, MN.21
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:E.216
- Water bridges: D:K.288
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Fenn, T.D. et al., Xylose isomerase in substrate and inhibitor michaelis States: atomic resolution studies of a metal-mediated hydride shift(,). Biochemistry (2004)
- Release Date
- 2004-02-10
- Peptides
- Xylose isomerase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 0.95 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x XYL: Xylitol(Non-covalent)
- 8 x MN: MANGANESE (II) ION(Non-covalent)
- 8 x NA: SODIUM ION(Non-functional Binders)
- 4 x OH: HYDROXIDE ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Fenn, T.D. et al., Xylose isomerase in substrate and inhibitor michaelis States: atomic resolution studies of a metal-mediated hydride shift(,). Biochemistry (2004)
- Release Date
- 2004-02-10
- Peptides
- Xylose isomerase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A