SMTL ID : 1olu.1

Roles of His291-alpha and His146-beta' in the reductive acylation reaction catalyzed by human branched-chain alpha-ketoacid dehydrogenase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-2-2-mer

Ligands

4 x K: POTASSIUM ION(Non-covalent)

K.1: 5 residues within 4Å: Chain A: Q.112, S.161, P.163, T.166, Q.167 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.161, A:P.163, H2O.4 K.5: 6 residues within 4Å: Chain B: G.128, L.130, T.131, C.178, D.181, N.183 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:G.128, B:L.130, B:C.178, B:D.181, B:N.183 K.9: 5 residues within 4Å: Chain C: Q.112, S.161, P.163, T.166, Q.167 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:S.161, C:P.163, H2O.24 K.13: 6 residues within 4Å: Chain D: G.128, L.130, T.131, C.178, D.181, N.183 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:G.128, D:L.130, D:C.178, D:D.181, D:N.183

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: E.193, N.222, Y.224 Ligands: TPP.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.193, A:E.193, A:Y.224, H2O.7 MG.10: 4 residues within 4Å: Chain C: E.193, N.222, Y.224 Ligands: TPP.11 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.193, C:E.193, C:Y.224, H2O.28

2 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)

TPP.3: 20 residues within 4Å: Chain A: R.114, S.162, P.163, L.164, G.192, E.193, G.194, A.195, E.198, R.220, N.222, Y.224, A.225, I.226 Chain D: E.46, L.74, E.76, Q.98, Y.102 Ligands: MG.2 19 PLIP interactions: 17 interactions with chain A, 2 interactions with chain D Hydrophobic interactions: A:I.226, A:I.226, D:Y.102 Hydrogen bonds: A:S.162, A:L.164, A:G.192, A:G.194, A:A.195, A:N.222 Water bridges: A:Y.113, A:R.114, A:R.114, A:E.193, A:R.220, A:R.220, A:N.222 Salt bridges: A:R.114, A:R.220 pi-Stacking: D:Y.102 TPP.11: 20 residues within 4Å: Chain B: E.46, L.74, E.76, Q.98, Y.102 Chain C: R.114, S.162, P.163, L.164, G.192, E.193, G.194, A.195, E.198, R.220, N.222, Y.224, A.225, I.226 Ligands: MG.10 19 PLIP interactions: 17 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:I.226, C:I.226, B:Y.102 Hydrogen bonds: C:S.162, C:L.164, C:G.192, C:G.194, C:A.195, C:E.198, C:N.222 Water bridges: C:R.114, C:R.114, C:E.193, C:R.220, C:R.220, C:N.222 Salt bridges: C:R.114, C:R.220 pi-Stacking: B:Y.102

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: N.359, P.360, N.361, Q.379, L.382, A.383, L.386 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.359, A:N.361, A:Q.379 Water bridges: A:N.359, A:A.383 GOL.6: 8 residues within 4Å: Chain A: Q.374 Chain B: W.260, E.290, T.294, E.297 Chain D: L.283, T.284, R.309 7 PLIP interactions: 3 interactions with chain D, 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: D:T.284, D:R.309, B:E.290, B:E.297 Water bridges: D:T.284, A:Q.378, B:E.297 GOL.7: 6 residues within 4Å: Chain A: A.373, Q.374 Chain B: W.260, D.261, V.262, D.263 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Q.374, B:D.261, B:D.263 Water bridges: A:A.373, A:A.373, B:Q.212 GOL.8: 7 residues within 4Å: Chain B: L.283, R.309, V.310, C.311, G.312, Y.313 Chain C: Q.378 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.309, B:C.311, B:G.312 Water bridges: B:K.331 GOL.12: 7 residues within 4Å: Chain C: N.359, P.360, N.361, Q.379, L.382, A.383, L.386 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:N.359, C:N.361, C:Q.379 Water bridges: C:N.359, C:A.383 GOL.14: 8 residues within 4Å: Chain B: L.283, T.284, R.309 Chain C: Q.374 Chain D: W.260, E.290, T.294, E.297 7 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C, 4 interactions with chain B Hydrogen bonds: D:T.294, D:E.297, B:T.284, B:T.284, B:R.309 Water bridges: C:Q.378, B:T.284 GOL.15: 6 residues within 4Å: Chain C: A.373, Q.374 Chain D: W.260, D.261, V.262, D.263 7 PLIP interactions: 4 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:D.261, D:D.261, D:D.263, C:Q.374 Water bridges: D:Q.212, C:A.373, C:A.373 GOL.16: 7 residues within 4Å: Chain A: Q.378 Chain D: L.283, R.309, V.310, C.311, G.312, Y.313 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:R.309, D:C.311, D:G.312 Water bridges: D:K.331

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wynn, R.M. et al., Roles of His291-Alpha and His146-Beta' in the Reductive Acylation Reaction Catalyzed by Human Branched-Chain Alpha-Ketoacid Dehydrogenase: Refined Phosphorylation Loop Structure in the Active Site. J.Biol.Chem. (2003)

Release Date

2003-08-28

Peptides

2-OXOISOVALERATE DEHYDROGENASE ALPHA SUBUNIT: AC
2-OXOISOVALERATE DEHYDROGENASE BETA SUBUNIT: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

2-OXOISOVALERATE DEHYDROGENASE ALPHA SUBUNIT

2-OXOISOVALERATE DEHYDROGENASE BETA SUBUNIT

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