- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.05 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x IPM: 3-ISOPROPYLMALIC ACID(Non-covalent)
- 2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
NAD.2: 28 residues within 4Å:- Chain A: I.14, S.74, V.75, G.76, G.77, E.90, L.93, L.257, G.258, V.275, H.276, G.277, S.278, A.279, P.280, D.281, I.282, A.288, N.289, D.329
- Chain B: N.190, Y.218, A.221, M.224, H.225
- Ligands: IPM.1, GOL.8, EOH.17
17 PLIP interactions:14 interactions with chain A, 3 interactions with chain B- Hydrogen bonds: A:V.75, A:E.90, A:G.277, A:G.277, A:S.278, A:A.279, A:D.281, A:N.289, A:N.289, B:N.190
- Water bridges: A:R.97, A:R.97, A:R.97, A:P.274, A:A.292, B:Q.217, B:A.221
NAD.16: 26 residues within 4Å:- Chain A: N.190, Y.218, A.221, M.224, H.225
- Chain B: I.14, S.74, V.75, G.76, G.77, E.90, L.93, L.257, G.258, V.275, H.276, G.277, S.278, A.279, P.280, D.281, I.282, A.288, N.289, D.329
- Ligands: IPM.15
24 PLIP interactions:18 interactions with chain B, 6 interactions with chain A- Hydrogen bonds: B:V.75, B:E.90, B:G.277, B:G.277, B:S.278, B:A.279, B:D.281, B:N.289, B:N.289, A:N.190
- Water bridges: B:S.74, B:G.77, B:R.88, B:R.97, B:R.97, B:P.274, B:P.274, B:A.292, B:D.329, A:Q.217, A:Y.218, A:A.221, A:H.225, A:H.225
- 2 x MN: MANGANESE (II) ION(Non-covalent)
MN.3: 4 residues within 4Å:- Chain A: D.244, D.248
- Chain B: D.220
- Ligands: IPM.1
4 PLIP interactions:1 interactions with chain A, 1 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: A:D.244, B:D.220, H2O.2, H2O.2
MN.5: 5 residues within 4Å:- Chain A: K.188, D.220
- Chain B: D.244, D.248
- Ligands: IPM.15
4 PLIP interactions:1 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: B:D.244, A:D.220, H2O.5, H2O.5
- 1 x K: POTASSIUM ION(Non-functional Binders)
- 7 x EOH: ETHANOL(Non-functional Binders)
EOH.6: 6 residues within 4Å:- Chain A: K.110, V.111, F.112, L.115, L.118, P.254
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:F.112, A:P.254
- Hydrogen bonds: A:L.115
EOH.7: 6 residues within 4Å:- Chain A: E.158, V.186, W.198, T.238, G.239, F.242
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:W.198, A:F.242
- Hydrogen bonds: A:E.158, A:E.158
EOH.11: 3 residues within 4Å:- Chain A: M.299, A.311, E.315
No protein-ligand interaction detected (PLIP)EOH.12: 2 residues within 4Å:- Chain A: R.177, G.208
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.177
EOH.13: 6 residues within 4Å:- Chain A: P.108, A.109, K.110, L.259, L.260, P.261
No protein-ligand interaction detected (PLIP)EOH.17: 5 residues within 4Å:- Chain A: S.256, L.257
- Chain B: M.224, R.228
- Ligands: NAD.2
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain B- Hydrophobic interactions: A:L.257
- Hydrogen bonds: B:R.228
EOH.18: 1 residues within 4Å:- Chain B: A.298
1 PLIP interactions:1 interactions with chain B- Hydrophobic interactions: B:A.298
- 4 x GOL: GLYCEROL(Non-functional Binders)
GOL.8: 8 residues within 4Å:- Chain A: G.76, G.77, W.80, D.81, R.88, E.90
- Chain B: Y.218
- Ligands: NAD.2
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:G.77, A:R.88, B:Y.218
GOL.9: 3 residues within 4Å:- Chain A: F.103, G.266
- Ligands: GOL.10
No protein-ligand interaction detected (PLIP)GOL.10: 6 residues within 4Å:- Chain A: G.266, R.267, G.268
- Ligands: K.4, GOL.9, GOL.14
No protein-ligand interaction detected (PLIP)GOL.14: 4 residues within 4Å:- Chain A: H.303, A.304
- Ligands: K.4, GOL.10
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:A.304
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Graczer, E. et al., Glutamate 270 plays an essential role in K(+)-activation and domain closure of Thermus thermophilus isopropylmalate dehydrogenase. Febs Lett. (2015)
- Release Date
- 2014-11-12
- Peptides
- 3-isopropylmalate dehydrogenase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.05 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x IPM: 3-ISOPROPYLMALIC ACID(Non-covalent)
- 2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 2 x MN: MANGANESE (II) ION(Non-covalent)
- 1 x K: POTASSIUM ION(Non-functional Binders)
- 7 x EOH: ETHANOL(Non-functional Binders)
- 4 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Graczer, E. et al., Glutamate 270 plays an essential role in K(+)-activation and domain closure of Thermus thermophilus isopropylmalate dehydrogenase. Febs Lett. (2015)
- Release Date
- 2014-11-12
- Peptides
- 3-isopropylmalate dehydrogenase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B