SMTL ID : 8zi1.1

Cryo-EM reveals transition states of the Acinetobacter baumannii F1-ATPase rotary subunits gamma and epsilon and novel compound targets - Conformation 2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-3-3-1-mer

Ligands

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

ATP.1: 13 residues within 4Å: Chain B: R.172, Q.173, T.174, G.175, K.176, T.177, A.178, F.361, R.366, Q.434, Q.436 Chain G: R.347 Ligands: MG.2 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain G Hydrogen bonds: B:Q.173, B:T.174, B:G.175, B:K.176, B:T.177, B:A.178, B:Q.434, G:R.347 Salt bridges: B:K.176, B:K.176, G:R.347 ATP.3: 11 residues within 4Å: Chain C: Q.173, T.174, G.175, K.176, T.177, A.178, F.361, R.366, Q.434, Q.436 Ligands: MG.4 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:Q.173, C:T.174, C:G.175, C:K.176, C:T.177, C:A.178, C:R.366, C:Q.434 Salt bridges: C:K.176, C:K.176 ATP.6: 14 residues within 4Å: Chain D: R.172, Q.173, T.174, G.175, K.176, T.177, A.178, F.361, R.366, Q.434, Q.436 Chain F: R.347, D.350 Ligands: MG.5 13 PLIP interactions: 10 interactions with chain D, 3 interactions with chain F Hydrogen bonds: D:Q.173, D:T.174, D:G.175, D:K.176, D:T.177, D:A.178, D:Q.434, D:Q.436, F:R.347, F:R.347, F:D.350 Salt bridges: D:K.176, D:K.176

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain B: T.177, Q.201 Ligands: ATP.1 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.177 MG.4: 2 residues within 4Å: Chain C: T.177 Ligands: ATP.3 No protein-ligand interaction detected (PLIP) MG.5: 2 residues within 4Å: Chain D: T.177 Ligands: ATP.6 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:T.177

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

ADP.7: 12 residues within 4Å: Chain D: S.376, R.377 Chain E: G.151, V.152, G.153, K.154, T.155, V.156, E.184, Y.336, A.412, F.415 12 PLIP interactions: 10 interactions with chain E, 2 interactions with chain D Hydrogen bonds: E:G.151, E:V.152, E:G.153, E:K.154, E:T.155, E:T.155, E:T.155, E:V.156 Salt bridges: E:K.154, D:R.377, D:R.377 pi-Stacking: E:Y.336

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Le, K.C.M. et al., Cryo-EM reveals transition states of the Acinetobacter baumannii F 1 -ATPase rotary subunits gamma and epsilon , unveiling novel compound targets. Faseb J. (2024)

Release Date

2024-11-13

Peptides

ATP synthase epsilon chain: A
ATP synthase subunit alpha: BCD
ATP synthase subunit beta: EFG
ATP synthase gamma chain: H

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
e

B
A

C
B

D
C

E
D

F
E

G
F

H
g

ATP synthase epsilon chain

ATP synthase subunit alpha

ATP synthase subunit beta

ATP synthase gamma chain

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