SMTL ID : 3rko.2 (1 other biounit)

Crystal structure of the membrane domain of respiratory complex I from E. coli at 3.0 angstrom resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-oligomer

Ligands

9 x LFA: EICOSANE(Non-covalent)

LFA.1: 6 residues within 4Å: Chain A: K.169, V.172, V.173, L.235, F.549, V.550 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.172, A:V.173, A:L.235, A:F.549, A:F.549, A:V.550 LFA.2: 11 residues within 4Å: Chain A: A.19, R.22, Y.119, L.148 Chain B: W.378, A.386, L.389, V.393, M.398, P.399 Ligands: LFA.7 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:W.378, B:A.386, B:L.389, B:V.393, A:R.22, A:L.148 LFA.3: 4 residues within 4Å: Chain A: S.90, M.336, F.340, L.463 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.340, A:L.463 LFA.5: 8 residues within 4Å: Chain B: Y.221, F.228, A.232, V.237, V.238, L.240, I.289, L.293 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.228, B:A.232, B:V.237, B:L.240, B:I.289, B:L.293 LFA.6: 4 residues within 4Å: Chain B: L.222, L.223 Chain C: H.406, W.408 No protein-ligand interaction detected (PLIP) LFA.7: 8 residues within 4Å: Chain A: L.12, V.16, F.20 Chain B: W.383, A.386, L.387, F.480 Ligands: LFA.2 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:L.12, A:L.12, A:V.16, B:A.386, B:L.387, B:F.480 LFA.8: 6 residues within 4Å: Chain C: V.42, I.43, N.46, C.88, T.89, Y.92 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:I.43, C:Y.92 LFA.9: 6 residues within 4Å: Chain C: M.74, L.75, G.78, L.79, L.480, A.481 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:M.74, C:L.79 LFA.10: 2 residues within 4Å: Chain C: W.408, G.412 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:W.408

1 x CA7: 7-CYCLOHEXYLHEPTYL 4-O-ALPHA-D-GLUCOPYRANOSYL-BETA-D-GLUCOPYRANOSIDE(Non-covalent)

CA7.4: 11 residues within 4Å: Chain A: M.168, F.549, F.553, L.554 Chain B: F.306, V.434, H.441, R.442, F.445, G.446, K.447 9 PLIP interactions: 4 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:F.306, B:V.434, A:F.549, A:F.553, A:F.553, A:F.553, A:L.554 Hydrogen bonds: B:R.442, B:K.447

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Efremov, R.G. et al., Structure of the membrane domain of respiratory complex I. Nature (2011)

Release Date

2011-08-03

Peptides

NADH-QUINONE OXIDOREDUCTASE SUBUNIT L: A
NADH-QUINONE OXIDOREDUCTASE SUBUNIT M: B
NADH-QUINONE OXIDOREDUCTASE SUBUNIT N: C
NADH-QUINONE OXIDOREDUCTASE SUBUNIT K: D
NADH-QUINONE OXIDOREDUCTASE SUBUNIT A: E
NADH-QUINONE OXIDOREDUCTASE SUBUNIT J: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

D
G

E
E

F
F

Membrane

We predict this structure to be a membrane protein.
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NADH-QUINONE OXIDOREDUCTASE SUBUNIT L

NADH-QUINONE OXIDOREDUCTASE SUBUNIT M

NADH-QUINONE OXIDOREDUCTASE SUBUNIT N

NADH-QUINONE OXIDOREDUCTASE SUBUNIT K

NADH-QUINONE OXIDOREDUCTASE SUBUNIT A

NADH-QUINONE OXIDOREDUCTASE SUBUNIT J

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