SMTL ID : 2jiz.1 (1 other biounit)

The Structure of F1-ATPase inhibited by resveratrol.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-3-3-1-mer

Ligands

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

ANP.1: 15 residues within 4Å: Chain A: R.171, Q.172, T.173, G.174, K.175, T.176, S.177, F.357, R.362, P.363, Q.430, G.431, Q.432 Chain D: Y.372 Ligands: MG.2 27 PLIP interactions: 25 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:Q.172, A:T.173, A:T.173, A:G.174, A:K.175, A:K.175, A:T.176, A:S.177, A:S.177, A:Q.430, A:Q.432, A:Q.432 Water bridges: A:Q.172, A:Q.172, A:K.175, A:T.176, A:T.176, A:T.176, A:T.176, A:S.177, A:D.181, A:D.269, A:Q.432, A:Y.433, A:Y.433, D:S.359, D:Y.372 ANP.5: 16 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 Chain E: R.360, D.363 Ligands: MG.6 19 PLIP interactions: 18 interactions with chain B, 1 interactions with chain E Hydrogen bonds: B:Q.172, B:Q.172, B:Q.172, B:T.173, B:G.174, B:K.175, B:K.175, B:T.176, B:S.177, B:S.177, B:R.362, B:Q.430 Water bridges: B:K.175, B:T.176, B:T.176, B:D.270, B:E.328, B:Q.432, E:R.360 ANP.9: 17 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, P.363, Q.430, G.431, Q.432 Chain F: M.362, Y.372 Ligands: MG.10 15 PLIP interactions: 14 interactions with chain C, 1 interactions with chain F 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:Q.430, C:Q.432 Water bridges: C:T.176, C:D.270, C:E.328, F:D.363 ANP.17: 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.18 24 PLIP interactions: 19 interactions with chain F, 5 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:V.168, F:E.192, F:R.193, F:R.193, B:R.373, B:R.373 Water bridges: F:K.166, F:T.167, F:E.192, F:E.192, F:Y.349, F:Y.349, F:Q.420, B:S.344, B:S.344 pi-Stacking: F:Y.349, F:Y.349 Salt bridges: B:R.373

5 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: T.176, D.269 Ligands: ANP.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.176, H2O.6, H2O.13, H2O.14 MG.6: 2 residues within 4Å: Chain B: T.176 Ligands: ANP.5 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:T.176, H2O.19, H2O.20, H2O.24 MG.10: 2 residues within 4Å: Chain C: T.176 Ligands: ANP.9 4 PLIP interactions: 1 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:T.176, H2O.30, H2O.30, H2O.38 MG.13: 5 residues within 4Å: Chain D: T.167, E.192, R.193, D.260 Ligands: ADP.12 5 PLIP interactions: 1 interactions with chain D, 4 Ligand-Water interactions Metal complexes: D:T.167, H2O.43, H2O.45, H2O.50, H2O.50 MG.18: 3 residues within 4Å: Chain F: T.167, D.260 Ligands: ANP.17 4 PLIP interactions: 1 interactions with chain F, 3 Ligand-Water interactions Metal complexes: F:T.167, H2O.63, H2O.65, H2O.70

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: G.130, Y.244, L.245, Y.248, R.304 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.50, A:Y.244, A:R.304 GOL.4: 9 residues within 4Å: Chain A: G.290, R.291, Y.294, P.295, G.296, Y.337 Chain E: Q.267, S.270, E.271 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain E Hydrogen bonds: A:R.291, A:P.295, E:Q.267 Water bridges: E:Q.267, E:S.270, E:E.271 GOL.7: 5 residues within 4Å: Chain B: V.129, G.130, Y.244, Y.248, R.304 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.244, B:Y.244, B:R.304 Water bridges: B:G.130, B:R.304 GOL.8: 10 residues within 4Å: Chain B: G.290, R.291, Y.294, P.295, G.296, Y.337 Chain F: S.270, V.283, G.284, Y.285 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain F Hydrogen bonds: B:R.291, B:P.295, B:Y.337, F:S.270, F:S.270 Water bridges: B:G.296, F:Y.285 GOL.11: 6 residues within 4Å: Chain C: M.62, V.129, G.130, Y.244, Y.248, R.304 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.304, C:R.304 Water bridges: C:E.50 GOL.15: 6 residues within 4Å: Chain D: R.235, G.269, V.272, L.276, R.278, D.292 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:R.235, D:R.278, D:R.278, D:T.288, D:D.292 Water bridges: D:R.235, D:D.292

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

ADP.12: 16 residues within 4Å: Chain C: S.372, R.373 Chain D: G.161, G.163, V.164, G.165, K.166, T.167, V.168, Y.349, F.422, A.425, F.428, T.429 Ligands: MG.13, AZI.14 22 PLIP interactions: 16 interactions with chain D, 6 interactions with chain C Hydrogen bonds: D:G.163, D:V.164, D:G.165, D:K.166, D:T.167, D:V.168, D:Y.349, C:S.372 Water bridges: D:T.167, D:T.167, D:L.169, D:R.193, D:E.196, D:Q.420, C:R.373, C:R.373, C:R.373 Salt bridges: D:K.166, C:R.373, C:R.373 pi-Stacking: D:Y.349, D:Y.349

1 x AZI: AZIDE ION(Non-covalent)

AZI.14: 9 residues within 4Å: Chain C: I.343, S.344, R.373 Chain D: A.162, G.163, K.166, R.193, Y.315 Ligands: ADP.12 12 PLIP interactions: 3 interactions with chain C, 9 interactions with chain D Hydrogen bonds: C:I.343, C:R.373, C:R.373, D:G.163, D:K.166, D:R.193 Water bridges: D:R.193, D:R.193, D:R.193, D:R.264, D:R.264, D:R.264

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.16: 7 residues within 4Å: Chain E: G.161, A.162, G.163, V.164, G.165, K.166, T.167 7 PLIP interactions: 7 interactions with chain E Hydrogen bonds: E:G.161, E:G.163, E:V.164, E:G.165, E:K.166, E:T.167 Water bridges: E:V.168

1 x STL: RESVERATROL(Non-covalent)

STL.19: 9 residues within 4Å: Chain B: E.292 Chain C: E.292 Chain F: A.282, V.283 Chain G: A.256, T.259, K.260, I.263, E.264 16 PLIP interactions: 3 interactions with chain B, 1 interactions with chain C, 11 interactions with chain G, 1 interactions with chain F Hydrogen bonds: B:E.292, C:E.292 Water bridges: B:R.291, B:E.292, G:A.256, G:S.267, G:S.267, G:S.267, G:S.267, F:S.281 Hydrophobic interactions: G:A.256, G:T.259, G:K.260, G:K.260, G:I.263, G:E.264

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gledhill, J.R. et al., Mechanism of Inhibition of Bovine F1-ATPase by Resveratrol and Related Polyphenols. Proc.Natl.Acad.Sci.USA (2007)

Release Date

2007-08-21

Peptides

ATP SYNTHASE SUBUNIT ALPHA HEART ISOFORM: ABC
ATP SYNTHASE SUBUNIT BETA: DEF
ATP SYNTHASE GAMMA CHAIN: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

ATP SYNTHASE SUBUNIT ALPHA HEART ISOFORM

ATP SYNTHASE SUBUNIT BETA

ATP SYNTHASE GAMMA CHAIN

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