SMTL ID : 8spw.1

PS3 F1 Rotorless, low ATP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-mer

Ligands

4 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 13 residues within 4Å: Chain A: Q.147, T.148, G.149, K.150, T.151, S.152, Q.175, D.236, F.324, R.329, L.399 Chain D: Y.364 Ligands: MG.2 15 PLIP interactions: 14 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:Q.147, A:Q.147, A:T.148, A:G.149, A:K.150, A:T.151, A:T.151, A:S.152, A:S.152, A:Q.175, A:D.236, A:R.329, A:Q.397, D:Y.364 Salt bridges: A:K.150 ATP.3: 12 residues within 4Å: Chain B: Q.147, T.148, G.149, K.150, T.151, S.152, F.324, R.329, P.330, Q.397, L.399 Ligands: MG.4 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:Q.147, B:Q.147, B:T.148, B:T.148, B:G.149, B:K.150, B:T.151, B:T.151, B:S.152, B:S.152, B:R.329, B:Q.397 Salt bridges: B:K.150, B:K.150 pi-Stacking: B:F.324 ATP.5: 12 residues within 4Å: Chain C: R.146, Q.147, T.148, G.149, K.150, T.151, S.152, F.324, R.329, P.330 Chain F: R.352 Ligands: MG.6 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:Q.147, C:T.148, C:G.149, C:K.150, C:T.151, C:T.151, C:S.152, C:S.152, C:R.329 Salt bridges: C:K.150, C:K.150 pi-Stacking: C:F.324 pi-Cation interactions: C:R.329 ATP.7: 15 residues within 4Å: Chain C: S.311, R.340 Chain D: G.159, G.161, V.162, G.163, K.164, T.165, V.166, E.190, R.191, Y.341, F.414, F.420 Ligands: MG.8 16 PLIP interactions: 12 interactions with chain D, 4 interactions with chain C Hydrogen bonds: D:G.161, D:V.162, D:G.163, D:K.164, D:T.165, D:V.166, D:E.190, C:S.311, C:R.340 Salt bridges: D:K.164, D:K.164, D:R.191, C:R.340, C:R.340 pi-Stacking: D:Y.341, D:Y.341

5 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: K.150 Ligands: ATP.1 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain B: T.151 Ligands: ATP.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.151 MG.6: 2 residues within 4Å: Chain C: T.151 Ligands: ATP.5 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.151 MG.8: 2 residues within 4Å: Chain D: T.165 Ligands: ATP.7 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:T.165 MG.11: 4 residues within 4Å: Chain E: K.164, T.165 Ligands: ADP.9, PO4.10 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:T.165

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

ADP.9: 13 residues within 4Å: Chain A: R.340 Chain E: G.159, A.160, G.161, V.162, G.163, K.164, T.165, V.166, Y.341, F.420 Ligands: PO4.10, MG.11 12 PLIP interactions: 1 interactions with chain A, 11 interactions with chain E Hydrogen bonds: A:R.340, E:G.161, E:V.162, E:G.163, E:K.164, E:T.165, E:T.165, E:T.165, E:V.166 Salt bridges: E:K.164 pi-Stacking: E:Y.341, E:Y.341

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

PO4.10: 5 residues within 4Å: Chain E: K.164, T.165, R.256 Ligands: ADP.9, MG.11 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain E Salt bridges: A:R.340, E:K.164, E:R.191 Hydrogen bonds: E:T.165, E:N.253, E:R.256

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sobti, M. et al., The series of conformational states adopted by rotorless F 1 -ATPase during its hydrolysis cycle. Structure (2024)

Release Date

2024-01-24

Peptides

ATP synthase subunit alpha: ABC
ATP synthase subunit beta: DEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

ATP synthase subunit alpha

ATP synthase subunit beta

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