SMTL ID : 9bt4.2 (1 other biounit)

Pyruvate:Ferredoxin Oxidoreductase from Methanosarcina acetivorans

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.92 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

3 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.1: 12 residues within 4Å: Chain B: G.16, C.17, C.20, C.21, D.22, C.45, N.126, M.130, C.210, P.211, T.212 Chain D: R.42 5 PLIP interactions: 5 interactions with chain B, Salt bridges: B:D.22 Metal complexes: B:C.17, B:C.20, B:C.45, B:C.210 SF4.4: 11 residues within 4Å: Chain C: P.26, C.43, P.44, V.48, Y.58, C.63, K.64, G.65, C.66, G.67, C.69 5 PLIP interactions: 5 interactions with chain C, Salt bridges: C:D.45 Metal complexes: C:C.43, C:C.63, C:C.66, C:C.69 SF4.5: 14 residues within 4Å: Chain C: Y.28, C.33, T.34, K.35, C.36, G.37, I.38, C.39, F.56, C.73, P.74, A.75, A.77, I.78 4 PLIP interactions: 4 interactions with chain C, Metal complexes: C:C.33, C:C.36, C:C.39, C:C.73

1 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)

TPP.2: 24 residues within 4Å: Chain A: Y.35, P.36, I.37, E.67, Q.91, L.95 Chain B: D.22, T.43, G.44, C.45, F.67, E.68, G.97, D.98, G.99, S.100, I.104, N.126, A.128, Y.129, M.130, N.131, T.132 Ligands: MG.3 24 PLIP interactions: 22 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.67, B:F.67, B:F.67, B:I.104, B:Y.129, B:T.132, A:I.37, A:L.95 Hydrogen bonds: B:C.45, B:G.97, B:D.98, B:G.99, B:S.100, B:N.126, B:A.128, B:M.130, B:N.131 Water bridges: B:D.22, B:T.43, B:L.46, B:F.67, B:D.98, B:D.98 pi-Stacking: B:F.67

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain B: D.98, N.126, A.128 Ligands: TPP.2 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.98, B:A.128, H2O.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cossu, M. et al., Structural organization of pyruvate: ferredoxin oxidoreductase from the methanogenic archaeon Methanosarcina acetivorans. Structure (2024)

Release Date

2024-10-09

Peptides

Pyruvate:Ferredoxin Oxidoreductase, subunit alpha: A
Pyruvate:Ferredoxin Oxidoreductase, subunit beta: B
Pyruvate:Ferredoxin Oxidoreductase, subunit delta: C
Pyruvate:Ferredoxin Oxidoreductase, subunit gamma: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
G

D
E

Pyruvate:Ferredoxin Oxidoreductase, subunit alpha

Pyruvate:Ferredoxin Oxidoreductase, subunit beta

Pyruvate:Ferredoxin Oxidoreductase, subunit delta

Pyruvate:Ferredoxin Oxidoreductase, subunit gamma

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