SMTL ID : 7koe.1

Electron bifurcating flavoprotein Fix/EtfABCX

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-2-mer

Ligands

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

FAD.1: 29 residues within 4Å: Chain A: C.17, I.18, K.19, N.46, D.49, I.70, T.71, M.72, A.103, D.104, T.105, T.108, L.112, T.131, G.132, Q.134, A.135, D.137, G.138, T.140, G.141, Q.142, V.143 Chain B: L.120, T.121, R.140, T.142, A.149, I.151 21 PLIP interactions: 17 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:N.46, A:D.49, A:M.72, A:M.72, A:A.103, A:D.104, A:D.104, A:T.105, A:T.105, A:T.108, A:G.132, A:A.135, A:T.140, A:G.141, A:Q.142, A:V.143, B:L.120, B:R.140 Salt bridges: A:K.19 Hydrophobic interactions: B:T.142, B:A.149 FAD.2: 28 residues within 4Å: Chain B: G.219, K.220, G.221, S.245, R.246, A.247, Q.259, V.260, G.261, Q.262, T.263, G.264, G.276, I.277, S.278, A.280, Q.282, H.283, N.297, I.298, D.299, G.314, D.315, L.316 Chain D: Y.12, T.14, E.59, G.60 22 PLIP interactions: 20 interactions with chain B, 2 interactions with chain D Hydrophobic interactions: B:T.263, B:Q.282, D:Y.12, D:E.59 Hydrogen bonds: B:S.245, B:R.246, B:A.247, B:Q.259, B:V.260, B:T.263, B:G.264, B:S.278, B:S.278, B:S.278, B:S.278, B:Q.282, B:H.283, B:N.297, B:I.298, B:D.299, B:D.315, B:L.316 FAD.3: 38 residues within 4Å: Chain C: V.10, G.11, A.12, G.13, P.14, S.15, G.16, V.33, E.34, K.35, K.42, N.43, V.44, M.45, G.46, V.48, Y.50, R.109, T.131, K.132, V.133, A.164, E.165, G.166, A.190, F.231, Y.233, H.287, I.289, D.310, V.315, R.320, E.321, G.322, S.323, N.324, A.326 Chain D: Y.80 25 PLIP interactions: 25 interactions with chain C Hydrophobic interactions: C:F.231, C:H.287, C:I.289 Hydrogen bonds: C:A.12, C:S.15, C:S.15, C:G.16, C:K.35, C:N.43, C:N.43, C:G.46, C:V.48, C:V.48, C:R.109, C:R.109, C:V.133, C:V.133, C:Y.233, C:D.310, C:R.320, C:G.322, C:S.323, C:N.324 Salt bridges: C:R.109 pi-Cation interactions: C:K.35 FAD.7: 29 residues within 4Å: Chain E: C.17, I.18, K.19, N.46, D.49, I.70, T.71, M.72, A.103, D.104, T.105, T.108, L.112, T.131, G.132, Q.134, A.135, D.137, G.138, T.140, G.141, Q.142, V.143 Chain F: L.120, T.121, R.140, T.142, A.149, I.151 21 PLIP interactions: 4 interactions with chain F, 17 interactions with chain E Hydrophobic interactions: F:T.142, F:A.149 Hydrogen bonds: F:L.120, F:R.140, E:N.46, E:D.49, E:M.72, E:M.72, E:A.103, E:D.104, E:D.104, E:T.105, E:T.105, E:T.108, E:G.132, E:A.135, E:T.140, E:G.141, E:Q.142, E:V.143 Salt bridges: E:K.19 FAD.8: 28 residues within 4Å: Chain F: G.219, K.220, G.221, S.245, R.246, A.247, Q.259, V.260, G.261, Q.262, T.263, G.264, G.276, I.277, S.278, A.280, Q.282, H.283, N.297, I.298, D.299, G.314, D.315, L.316 Chain H: Y.12, T.14, E.59, G.60 22 PLIP interactions: 20 interactions with chain F, 2 interactions with chain H Hydrophobic interactions: F:T.263, F:Q.282, H:Y.12, H:E.59 Hydrogen bonds: F:S.245, F:R.246, F:A.247, F:Q.259, F:V.260, F:T.263, F:G.264, F:S.278, F:S.278, F:S.278, F:S.278, F:Q.282, F:H.283, F:N.297, F:I.298, F:D.299, F:D.315, F:L.316 FAD.9: 38 residues within 4Å: Chain G: V.10, G.11, A.12, G.13, P.14, S.15, G.16, V.33, E.34, K.35, K.42, N.43, V.44, M.45, G.46, V.48, Y.50, R.109, T.131, K.132, V.133, A.164, E.165, G.166, A.190, F.231, Y.233, H.287, I.289, D.310, V.315, R.320, E.321, G.322, S.323, N.324, A.326 Chain H: Y.80 25 PLIP interactions: 25 interactions with chain G Hydrophobic interactions: G:F.231, G:H.287, G:I.289 Hydrogen bonds: G:A.12, G:S.15, G:S.15, G:G.16, G:K.35, G:N.43, G:N.43, G:G.46, G:V.48, G:V.48, G:R.109, G:R.109, G:V.133, G:V.133, G:Y.233, G:D.310, G:R.320, G:G.322, G:S.323, G:N.324 Salt bridges: G:R.109 pi-Cation interactions: G:K.35

2 x MQ7: MENAQUINONE-7(Non-covalent)

MQ7.4: 17 residues within 4Å: Chain C: Q.78, N.79, L.80, I.91, E.217, M.229, I.318, H.319, R.320, F.433, V.437 Chain G: L.82, A.391, A.394, L.395, F.398, L.399 12 PLIP interactions: 6 interactions with chain G, 6 interactions with chain C Hydrophobic interactions: G:A.391, G:A.394, G:F.398, G:F.398, G:F.398, G:L.399, C:L.80, C:L.80, C:I.91, C:E.217, C:F.433, C:V.437 MQ7.10: 17 residues within 4Å: Chain C: L.82, A.391, A.394, L.395, F.398, L.399 Chain G: Q.78, N.79, L.80, I.91, E.217, M.229, I.318, H.319, R.320, F.433, V.437 12 PLIP interactions: 6 interactions with chain C, 6 interactions with chain G Hydrophobic interactions: C:A.391, C:A.394, C:F.398, C:F.398, C:F.398, C:L.399, G:L.80, G:L.80, G:I.91, G:E.217, G:F.433, G:V.437

4 x SF4: IRON/SULFUR CLUSTER(Covalent)

SF4.5: 13 residues within 4Å: Chain D: L.21, C.42, P.43, V.46, Y.47, C.61, L.62, E.63, C.64, G.65, T.66, C.67, W.78 4 PLIP interactions: 4 interactions with chain D, Metal complexes: D:C.42, D:C.61, D:C.64, D:C.67 SF4.6: 11 residues within 4Å: Chain D: C.29, C.33, R.36, P.37, C.38, M.54, C.71, P.72, F.73, N.75, I.76 4 PLIP interactions: 4 interactions with chain D, Metal complexes: D:C.29, D:C.33, D:C.38, D:C.71 SF4.11: 13 residues within 4Å: Chain H: L.21, C.42, P.43, V.46, Y.47, C.61, L.62, E.63, C.64, G.65, T.66, C.67, W.78 4 PLIP interactions: 4 interactions with chain H, Metal complexes: H:C.42, H:C.61, H:C.64, H:C.67 SF4.12: 11 residues within 4Å: Chain H: C.29, C.33, R.36, P.37, C.38, M.54, C.71, P.72, F.73, N.75, I.76 4 PLIP interactions: 4 interactions with chain H, Metal complexes: H:C.29, H:C.33, H:C.38, H:C.71

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Feng, X. et al., Cryoelectron microscopy structure and mechanism of the membrane-associated electron-bifurcating flavoprotein Fix/EtfABCX. Proc.Natl.Acad.Sci.USA (2021)

Release Date

2021-01-20

Peptides

Electron transfer flavoprotein, beta subunit: AE
Electron transfer flavoprotein, alpha subunit: BF
Electron transfer flavoprotein-quinone oxidoreductase FixC: CG
Ferredoxin-like protein: DH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
E

B
B

F
F

C
C

G
G

D
D

H
H

Electron transfer flavoprotein, beta subunit

Electron transfer flavoprotein, alpha subunit

Electron transfer flavoprotein-quinone oxidoreductase FixC

Ferredoxin-like protein