SMTL ID : 8u1h.1

Axle-less Bacillus sp. PS3 F1 ATPase mutant

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-1-mer

Ligands

4 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER

ANP.1: 14 residues within 4Å: Chain A: D.170, R.171, Q.172, T.173, G.174, K.175, T.176, S.177, F.349, R.354, P.355, Q.422, L.424 Ligands: MG.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:R.171, A:T.173, A:G.174, A:K.175, A:K.175, A:T.176, A:T.176, A:T.176, A:S.177, A:S.177, A:R.354, A:Q.422, A:L.424 ANP.3: 13 residues within 4Å: Chain B: R.171, Q.172, G.174, K.175, T.176, S.177, Q.200, F.349, R.354, P.355, D.423, L.424 Chain E: R.363 14 PLIP interactions: 11 interactions with chain B, 3 interactions with chain E Hydrogen bonds: B:Q.172, B:Q.172, B:G.174, B:K.175, B:K.175, B:T.176, B:T.176, B:S.177, B:S.177, B:Q.200, B:D.423, E:R.363, E:R.363, E:R.363 ANP.4: 16 residues within 4Å: Chain C: Q.172, T.173, G.174, K.175, T.176, S.177, F.349, R.354, P.355, Q.422, D.423, L.424 Chain F: R.363, L.365, Y.375 Ligands: MG.5 15 PLIP interactions: 12 interactions with chain C, 3 interactions with chain F Hydrogen bonds: C:Q.172, C:T.173, C:G.174, C:K.175, C:K.175, C:K.175, C:T.176, C:T.176, C:S.177, C:S.177, C:Q.422, F:R.363, F:Y.375 pi-Stacking: C:F.349 Salt bridges: F:R.363 ANP.10: 20 residues within 4Å: Chain B: S.336, V.363, R.365 Chain F: G.170, A.171, G.172, V.173, G.174, K.175, T.176, V.177, R.202, E.205, Y.352, Q.423, F.425, A.428, F.431, T.432 Ligands: MG.11 15 PLIP interactions: 14 interactions with chain F, 1 interactions with chain B Hydrogen bonds: F:G.172, F:V.173, F:G.174, F:K.175, F:K.175, F:T.176, F:T.176, F:V.177, F:R.202, F:R.202, F:Q.423, F:F.425 pi-Stacking: F:Y.352, F:Y.352 Salt bridges: B:R.365

4 x MG: MAGNESIUM ION

MG.2: 4 residues within 4Å: Chain A: T.176, Q.200, D.261 Ligands: ANP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.176 MG.5: 3 residues within 4Å: Chain C: T.176, D.261 Ligands: ANP.4 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.176 MG.7: 5 residues within 4Å: Chain D: T.176, R.202, E.205 Ligands: ADP.6, PO4.8 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:T.176 MG.11: 4 residues within 4Å: Chain F: T.176, R.202, E.205 Ligands: ANP.10 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:T.176, F:E.205

1 x ADP: ADENOSINE-5'-DIPHOSPHATE

ADP.6: 16 residues within 4Å: Chain C: R.365 Chain D: G.170, A.171, G.172, V.173, G.174, K.175, T.176, V.177, E.205, Y.352, F.425, A.428, F.431 Ligands: MG.7, PO4.8 11 PLIP interactions: 10 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:G.174, D:K.175, D:T.176, D:T.176, D:T.176, D:V.177, D:Y.352 Salt bridges: D:K.175, C:R.365 pi-Stacking: D:Y.352, D:Y.352

2 x PO4: PHOSPHATE ION

PO4.8: 10 residues within 4Å: Chain C: R.365 Chain D: G.170, A.171, K.175, R.202, N.264, R.267, Y.318 Ligands: ADP.6, MG.7 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:N.264 Salt bridges: D:K.175, D:R.202, D:R.267, C:R.365 PO4.9: 3 residues within 4Å: Chain E: G.172, V.173, T.176 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:V.173, E:K.175, E:T.176

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Furlong, E.J. et al., The molecular structure of an axle-less F 1 -ATPase. Biochim Biophys Acta Bioenerg (2024)

Release Date

2024-09-11

Peptides

ATP synthase subunit alpha: 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

ATP synthase subunit beta

ATP synthase gamma chain

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