SMTL ID : 5ol2.1 (1 other biounit)

The electron transferring flavoprotein/butyryl-CoA dehydrogenase complex from Clostridium difficile

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-1-1-1-mer

Ligands

3 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 29 residues within 4Å: Chain A: G.216, R.217, G.218, S.242, R.243, A.244, Q.256, V.257, G.258, Q.259, T.260, G.261, G.273, I.274, S.275, G.276, A.277, Q.279, H.280, N.294, K.295, N.296, G.311, D.312, V.313 Chain C: Y.340, T.343, D.345, Y.346 26 PLIP interactions: 23 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:Q.279, C:Y.340, C:Y.340, C:T.343 Hydrogen bonds: A:R.217, A:S.242, A:S.242, A:R.243, A:A.244, A:Q.256, A:V.257, A:T.260, A:G.261, A:S.275, A:S.275, A:G.276, A:A.277, A:Q.279, A:H.280, A:N.294, A:K.295, A:D.312, A:V.313 Salt bridges: A:R.217 pi-Cation interactions: A:R.243, A:K.295 FAD.3: 32 residues within 4Å: Chain A: L.116, T.117, A.118, R.136, A.138, A.145, I.147 Chain B: C.6, I.7, K.8, N.35, D.38, T.60, M.61, A.92, D.93, T.94, T.97, L.101, A.115, G.116, R.117, Q.118, A.119, G.122, D.123, T.124, A.125, Q.126, V.127, G.128, T.222 23 PLIP interactions: 18 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:K.8, B:N.35, B:D.38, B:M.61, B:M.61, B:A.92, B:T.94, B:G.116, B:A.119, B:G.122, B:T.124, B:T.124, B:A.125, B:Q.126, B:Q.126, B:V.127, B:G.128, A:L.116, A:A.118 Salt bridges: B:K.8 Hydrophobic interactions: A:A.138, A:A.145, A:I.147 FAD.4: 16 residues within 4Å: Chain C: F.122, L.124, T.125, G.130, T.131, F.155, I.156, T.157, T.208, I.357, I.360, Y.361, E.362, T.364, E.366 Ligands: COS.5 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:F.155, C:T.208, C:I.357 Hydrogen bonds: C:F.122, C:L.124, C:T.125, C:T.125, C:T.131, C:T.131, C:T.157, C:E.362, C:T.364 pi-Stacking: C:Y.361

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 3 residues within 4Å: Chain A: E.75, R.111, D.188 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.75, A:D.188 CA.6: 2 residues within 4Å: Chain C: E.29, E.33 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:E.29

1 x COS: COENZYME A PERSULFIDE(Covalent)

COS.5: 12 residues within 4Å: Chain C: L.124, T.125, T.131, S.134, F.231, M.235, L.238, R.242, E.362, G.363, V.367 Ligands: FAD.4 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:F.231 Hydrogen bonds: C:T.131, C:R.242

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Demmer, J.K. et al., The semiquinone swing in the bifurcating electron transferring flavoprotein/butyryl-CoA dehydrogenase complex from Clostridium difficile. Nat Commun (2017)

Release Date

2017-11-29

Peptides

Electron transfer flavoprotein large subunit: A
Electron transfer flavoprotein small subunit: B
Acyl-CoA dehydrogenase: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Electron transfer flavoprotein large subunit

Electron transfer flavoprotein small subunit

Acyl-CoA dehydrogenase

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