- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.79 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- 2 x K: POTASSIUM ION(Non-covalent)
K.3: 6 residues within 4Å:- Chain A: V.298, D.300, F.303, G.337, P.341
- Ligands: ADP.1
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:V.298
K.11: 6 residues within 4Å:- Chain B: V.298, D.300, F.303, G.337, P.341
- Ligands: ADP.9
1 PLIP interactions:1 interactions with chain B- Metal complexes: B:V.298
- 2 x XGT: (2M)-2-[2-(4-methylphenyl)-1,3-thiazol-4-yl]benzoic acid(Non-covalent)
XGT.4: 12 residues within 4Å:- Chain A: L.128, L.129, H.132, K.133, V.136, L.164, R.167, I.170, R.171, Y.241, T.342, Y.346
13 PLIP interactions:13 interactions with chain A- Hydrophobic interactions: A:L.128, A:L.129, A:H.132, A:R.167, A:I.170, A:R.171, A:Y.241
- Hydrogen bonds: A:R.167
- Water bridges: A:R.171, A:Y.346, A:Y.346
- Salt bridges: A:R.167
- pi-Cation interactions: A:R.167
XGT.12: 12 residues within 4Å:- Chain B: L.128, L.129, H.132, K.133, V.136, L.164, R.167, I.170, R.171, Y.241, T.342, Y.346
14 PLIP interactions:14 interactions with chain B- Hydrophobic interactions: B:L.128, B:L.129, B:H.132, B:R.167, B:I.170, B:R.171, B:Y.241
- Hydrogen bonds: B:R.167
- Water bridges: B:R.171, B:Y.346, B:Y.346, B:Y.346
- Salt bridges: B:R.167
- pi-Cation interactions: B:R.167
- 8 x SO4: SULFATE ION(Non-functional Binders)
SO4.5: 2 residues within 4Å:- Chain A: R.209, R.221
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.210
- Salt bridges: A:R.209, A:R.221
SO4.6: 4 residues within 4Å:- Chain A: S.37, R.39, R.71, H.74
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:S.37, A:S.37
- Salt bridges: A:R.39, A:R.71, A:H.74
SO4.7: 5 residues within 4Å:- Chain A: D.186, R.194, S.196, K.199, R.231
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:D.186, A:R.194, A:S.196
- Salt bridges: A:K.199, A:R.231
SO4.8: 3 residues within 4Å:- Chain A: R.286
- Chain B: N.225, G.226
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain B- Salt bridges: A:R.286
- Hydrogen bonds: B:G.226
SO4.13: 2 residues within 4Å:- Chain B: R.209, R.221
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:R.210
- Salt bridges: B:R.209, B:R.221
SO4.14: 4 residues within 4Å:- Chain B: S.37, R.39, R.71, H.74
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:S.37, B:S.37
- Salt bridges: B:R.39, B:R.71, B:H.74
SO4.15: 5 residues within 4Å:- Chain B: D.186, R.194, S.196, K.199, R.231
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:R.194, B:S.196
- Salt bridges: B:K.199, B:R.231
SO4.16: 3 residues within 4Å:- Chain A: N.225, G.226
- Chain B: R.286
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain A- Salt bridges: B:R.286
- Hydrogen bonds: A:G.226
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Roth Flach, R.J. et al., Small molecule branched-chain ketoacid dehydrogenase kinase (BDK) inhibitors with opposing effects on BDK protein levels. Nat Commun (2023)
- Release Date
- 2023-07-05
- Peptides
- [3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.79 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- 2 x K: POTASSIUM ION(Non-covalent)
- 2 x XGT: (2M)-2-[2-(4-methylphenyl)-1,3-thiazol-4-yl]benzoic acid(Non-covalent)
- 8 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Roth Flach, R.J. et al., Small molecule branched-chain ketoacid dehydrogenase kinase (BDK) inhibitors with opposing effects on BDK protein levels. Nat Commun (2023)
- Release Date
- 2023-07-05
- Peptides
- [3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A