SMTL ID : 1olx.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 2.25 Å

Oligo State

hetero-2-2-mer

Ligands

4 x K: POTASSIUM ION(Non-covalent)

K.1: 4 residues within 4Å: Chain A: 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.3 K.6: 6 residues within 4Å: Chain B: G.128, L.130, T.131, C.178, D.181, N.183 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:G.128, B:L.130, B:C.178, B:N.183 K.7: 4 residues within 4Å: Chain C: 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.17 K.12: 6 residues within 4Å: Chain D: G.128, L.130, T.131, C.178, D.181, N.183 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:G.128, D:L.130, D:C.178, D:N.183

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.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.9 MN.8: 4 residues within 4Å: Chain C: E.193, N.222, Y.224 Ligands: TPP.9 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.193, C:E.193, C:Y.224, H2O.23

2 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)

TPP.3: 23 residues within 4Å: Chain A: Q.112, Y.113, 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, H.291 Chain D: E.46, L.74, E.76, Q.98, Y.102 Ligands: MN.2 19 PLIP interactions: 16 interactions with chain A, 3 interactions with chain D Hydrophobic interactions: A:I.226, A:I.226, D:Y.102 Hydrogen bonds: A:Q.112, A:Y.113, A:Y.113, A:S.162, A:G.192, A:G.194, A:A.195 Water bridges: A:R.114, A:E.193, A:N.222, A:H.291, D:Y.102 Salt bridges: A:R.114, A:R.220, A:H.291 pi-Stacking: D:Y.102 TPP.9: 23 residues within 4Å: Chain B: E.46, L.74, E.76, Q.98, Y.102 Chain C: Q.112, Y.113, 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, H.291 Ligands: MN.8 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:Q.112, C:Y.113, C:Y.113, C:S.162, C:G.192, C:G.194, C:A.195, C:E.198, C:N.222 Water bridges: C:R.114, C:E.193, C:N.222 Salt bridges: C:R.114, C:R.220, C:H.291 pi-Stacking: B:Y.102

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: Q.374 Chain B: W.260, E.290, T.294 Chain D: T.284, R.309 9 PLIP interactions: 2 interactions with chain D, 6 interactions with chain B, 1 interactions with chain A Hydrogen bonds: D:T.284, D:R.309, B:E.290 Water bridges: B:W.260, B:W.260, B:E.297, B:E.297, B:E.298, A:Q.374 GOL.5: 4 residues within 4Å: Chain A: Q.369 Chain B: R.118, D.123, N.126 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.118, B:R.118, B:D.123, B:N.126, A:Q.369 Water bridges: B:V.88, B:V.88, B:N.126 GOL.10: 6 residues within 4Å: Chain B: T.284, R.309 Chain C: Q.374 Chain D: W.260, E.290, T.294 9 PLIP interactions: 5 interactions with chain D, 3 interactions with chain B, 1 interactions with chain C Hydrogen bonds: D:T.294, B:T.284, B:T.284, B:R.309 Water bridges: D:W.260, D:W.260, D:E.297, D:E.298, C:Q.374 GOL.11: 4 residues within 4Å: Chain C: Q.369 Chain D: R.118, D.123, N.126 8 PLIP interactions: 7 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:R.118, D:R.118, D:D.123, D:N.126, C:Q.369 Water bridges: D:V.88, D:V.88, D:N.126

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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