SMTL ID : 4f4s.2 (1 other biounit)

Structure of the yeast F1Fo ATPase c10 ring with bound oligomycin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-10-mer

Ligands

8 x EFO: Oligomycin A(Non-covalent)

EFO.1: 14 residues within 4Å: Chain A: L.53, A.56, L.57, A.60, F.64 Chain B: I.52, F.55, A.56, E.59, A.60, L.63, L.66 Ligands: EFO.2, EFO.3 13 PLIP interactions: 8 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:I.52, B:F.55, B:A.56, B:E.59, B:A.60, B:L.63, B:L.63, B:L.66, A:L.53, A:A.56, A:L.57, A:A.60, A:F.64 EFO.2: 14 residues within 4Å: Chain A: I.52, F.55, A.56, E.59, G.62, L.63, L.66 Chain J: L.53, A.56, L.57, A.60, F.64 Ligands: EFO.1, EFO.8 13 PLIP interactions: 7 interactions with chain A, 6 interactions with chain J Hydrophobic interactions: A:I.52, A:F.55, A:E.59, A:L.63, A:L.63, A:L.66, J:L.53, J:A.56, J:L.57, J:A.60, J:F.64, J:F.64 Hydrogen bonds: A:E.59 EFO.3: 13 residues within 4Å: Chain B: L.53, A.56, L.57, A.60, F.64 Chain C: L.19, I.52, F.55, A.56, E.59, A.60, L.63 Ligands: EFO.1 10 PLIP interactions: 6 interactions with chain C, 4 interactions with chain B Hydrophobic interactions: C:L.19, C:I.52, C:A.56, C:E.59, C:A.60, B:L.53, B:A.56, B:F.64, B:F.64 Hydrogen bonds: C:E.59 EFO.4: 12 residues within 4Å: Chain D: L.53, A.56, L.57, A.60, F.64 Chain E: L.19, I.52, F.55, A.56, E.59, L.63 Ligands: EFO.6 11 PLIP interactions: 8 interactions with chain E, 3 interactions with chain D Hydrophobic interactions: E:L.19, E:I.52, E:F.55, E:F.55, E:A.56, E:E.59, E:L.63, D:L.53, D:A.56, D:A.60 Hydrogen bonds: E:E.59 EFO.5: 14 residues within 4Å: Chain F: L.53, A.56, L.57, A.60, F.64 Chain G: I.52, F.55, A.56, E.59, A.60, L.63, L.66 Ligands: EFO.6, EFO.7 13 PLIP interactions: 5 interactions with chain F, 8 interactions with chain G Hydrophobic interactions: F:L.53, F:A.56, F:L.57, F:A.60, F:F.64, G:I.52, G:F.55, G:A.56, G:E.59, G:A.60, G:L.63, G:L.63, G:L.66 EFO.6: 14 residues within 4Å: Chain E: L.53, A.56, L.57, A.60, F.64 Chain F: I.52, F.55, A.56, E.59, G.62, L.63, L.66 Ligands: EFO.4, EFO.5 13 PLIP interactions: 7 interactions with chain F, 6 interactions with chain E Hydrophobic interactions: F:I.52, F:F.55, F:E.59, F:L.63, F:L.63, F:L.66, E:L.53, E:A.56, E:L.57, E:A.60, E:F.64, E:F.64 Hydrogen bonds: F:E.59 EFO.7: 13 residues within 4Å: Chain G: L.53, A.56, L.57, A.60, F.64 Chain H: L.19, I.52, F.55, A.56, E.59, A.60, L.63 Ligands: EFO.5 10 PLIP interactions: 4 interactions with chain G, 6 interactions with chain H Hydrophobic interactions: G:L.53, G:A.56, G:F.64, G:F.64, H:L.19, H:I.52, H:A.56, H:E.59, H:A.60 Hydrogen bonds: H:E.59 EFO.8: 12 residues within 4Å: Chain I: L.53, A.56, L.57, A.60, F.64 Chain J: L.19, I.52, F.55, A.56, E.59, L.63 Ligands: EFO.2 11 PLIP interactions: 3 interactions with chain I, 8 interactions with chain J Hydrophobic interactions: I:L.53, I:A.56, I:A.60, J:L.19, J:I.52, J:F.55, J:F.55, J:A.56, J:E.59, J:L.63 Hydrogen bonds: J:E.59

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Symersky, J. et al., Oligomycin frames a common drug-binding site in the ATP synthase. Proc.Natl.Acad.Sci.USA (2012)

Release Date

2012-08-15

Peptides

ATP synthase subunit 9, mitochondrial: ABCDEFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
L

C
M

D
N

E
O

F
K

G
L

H
M

I
N

J
O

Membrane

We predict this structure to be a membrane protein.
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ATP synthase subunit 9, mitochondrial

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