SMTL ID : 1efr.1

BOVINE MITOCHONDRIAL F1-ATPASE COMPLEXED WITH THE PEPTIDE ANTIBIOTIC EFRAPEPTIN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-3-3-1-1-mer

Ligands

5 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: T.176 Ligands: ANP.2 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.176, H2O.2 MG.3: 4 residues within 4Å: Chain B: T.176, Q.208, D.269 Ligands: ANP.4 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.176, H2O.6 MG.5: 2 residues within 4Å: Chain C: T.176 Ligands: ANP.6 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.176 MG.7: 5 residues within 4Å: Chain D: T.167, E.192, R.193, E.196 Ligands: ADP.8 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:T.167 MG.9: 5 residues within 4Å: Chain F: T.167, E.192, R.193, E.196 Ligands: ANP.10 1 PLIP interactions: 1 interactions with chain F Metal complexes: F:T.167

4 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.2: 14 residues within 4Å: Chain A: D.170, R.171, Q.172, T.173, G.174, K.175, T.176, S.177, F.357, R.362, P.363, Q.430, Q.432 Ligands: MG.1 15 PLIP interactions: 14 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:Q.172, A:T.173, A:G.174, A:K.175, A:K.175, A:K.175, A:T.176, A:S.177, A:S.177, A:Q.430, A:Q.432 Water bridges: A:Q.172, A:Q.172, A:Y.433, D:Y.372 ANP.4: 14 residues within 4Å: Chain B: D.170, R.171, Q.172, T.173, G.174, K.175, T.176, S.177, F.357, R.362, Q.430, G.431, Q.432 Ligands: MG.3 12 PLIP interactions: 2 interactions with chain E, 10 interactions with chain B Hydrogen bonds: E:R.360, E:R.360, B:Q.172, B:Q.172, B:T.173, B:G.174, B:K.175, B:T.176, B:S.177, B:S.177, B:R.362, B:Q.430 ANP.6: 15 residues within 4Å: Chain C: D.170, R.171, Q.172, T.173, G.174, K.175, T.176, S.177, F.357, R.362, Q.430, G.431, Q.432 Chain F: Y.372 Ligands: MG.5 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:Q.172, C:Q.172, C:T.173, C:G.174, C:K.175, C:K.175, C:T.176, C:S.177, C:S.177, C:E.328, C:Q.430 Water bridges: C:Q.172 ANP.10: 21 residues within 4Å: Chain B: I.343, S.344, V.371, R.373 Chain F: G.161, A.162, G.163, V.164, G.165, K.166, T.167, V.168, E.192, R.193, Y.315, Y.349, F.422, A.425, F.428, T.429 Ligands: MG.9 16 PLIP interactions: 12 interactions with chain F, 4 interactions with chain B Hydrogen bonds: F:G.163, F:V.164, F:G.165, F:K.166, F:K.166, F:T.167, F:T.167, F:V.168, F:R.193, F:R.193, B:S.344, B:R.373, B:R.373 Water bridges: F:Q.420 pi-Stacking: F:Y.349 Salt bridges: B:R.373

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.8: 16 residues within 4Å: Chain C: S.372, R.373 Chain D: G.161, A.162, G.163, V.164, G.165, K.166, T.167, V.168, Y.349, F.422, A.425, F.428, T.429 Ligands: MG.7 18 PLIP interactions: 13 interactions with chain D, 5 interactions with chain C Hydrogen bonds: D:G.163, D:V.164, D:G.165, D:K.166, D:T.167, D:V.168, C:S.372 Water bridges: D:K.166, D:K.166, D:R.193, D:Q.420, C:S.372, C:R.373 Salt bridges: D:K.166, C:R.373, C:R.373 pi-Stacking: D:Y.349, D:Y.349

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abrahams, J.P. et al., The Structure of Bovine F1-ATPase Complexed with the Peptide Antibiotic Efrapeptin. Proc.Natl.Acad.Sci.USA (1996)

Release Date

1997-02-12

Peptides

BOVINE MITOCHONDRIAL F1-ATPASE SUBUNIT ALPHA: ABC
BOVINE MITOCHONDRIAL F1-ATPASE SUBUNIT BETA: DEF
BOVINE MITOCHONDRIAL F1-ATPASE SUBUNIT GAMMA: G
EFRAPEPTIN C: H

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
Q

BOVINE MITOCHONDRIAL F1-ATPASE SUBUNIT ALPHA

BOVINE MITOCHONDRIAL F1-ATPASE SUBUNIT BETA

BOVINE MITOCHONDRIAL F1-ATPASE SUBUNIT GAMMA

EFRAPEPTIN C

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