SMTL ID : 6cer.2 (1 other biounit)

Human pyruvate dehydrogenase complex E1 component V138M mutation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.69 Å

Oligo State

hetero-2-2-mer

Ligands

2 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)

TPP.1: 15 residues within 4Å: Chain A: Y.93, R.94, G.140, I.141, M.142, R.263 Chain D: E.30, E.31, I.59, E.61, M.83, F.87, Q.90, H.130 Ligands: MG.2 9 PLIP interactions: 1 interactions with chain D, 8 interactions with chain A pi-Stacking: D:F.87 Hydrophobic interactions: A:I.141, A:M.142 Hydrogen bonds: A:G.140, A:M.142 Salt bridges: A:R.94, A:R.94, A:R.263, A:R.263 TPP.3: 14 residues within 4Å: Chain B: E.30, E.31, I.59, E.61, M.83, F.87, Q.90, H.130 Chain C: H.67, Y.93, R.94, G.140, M.142 Ligands: MG.4 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain C Hydrophobic interactions: B:I.59 pi-Stacking: B:F.87 Hydrogen bonds: C:Y.93, C:R.94, C:G.140, C:M.142 Salt bridges: C:R.94

2 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.2: 4 residues within 4Å: Chain A: R.94, R.263, H.265 Ligands: TPP.1 No protein-ligand interaction detected (PLIP) MG.4: 1 residues within 4Å: Ligands: TPP.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Whitley, M.J. et al., Pyruvate dehydrogenase complex deficiency is linked to regulatory loop disorder in the alpha V138M variant of human pyruvate dehydrogenase. J. Biol. Chem. (2018)

Release Date

2018-07-11

Peptides

Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial: AC
Pyruvate dehydrogenase E1 component subunit beta, mitochondrial: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

C
G

B
F

D
H

Pyruvate dehydrogenase E1 component subunit alpha, somatic form, mitochondrial

Pyruvate dehydrogenase E1 component subunit beta, mitochondrial

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