SMTL ID : 8zi2.1

Cryo-EM reveals transition states of the Acinetobacter baumannii F1-ATPase rotary subunits gamma and epsilon and novel compound targets - Conformation 3

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-1-1-mer

Ligands

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

ATP.1: 12 residues within 4Å: Chain A: Q.173, T.174, G.175, K.176, T.177, A.178, Q.201, D.262, F.361, R.366, Q.436 Ligands: MG.2 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:Q.173, A:T.174, A:G.175, A:K.176, A:T.177, A:A.178, A:Q.201, A:R.366 Salt bridges: A:K.176 ATP.3: 13 residues within 4Å: Chain B: Q.173, T.174, G.175, K.176, T.177, A.178, D.262, F.361, R.366, Q.436 Chain D: D.350, Y.359 Ligands: MG.4 12 PLIP interactions: 10 interactions with chain B, 2 interactions with chain D Hydrogen bonds: B:Q.173, B:T.174, B:G.175, B:K.176, B:T.177, B:T.177, B:A.178, B:D.262, D:R.347, D:D.350 Salt bridges: B:K.176, B:K.176 ATP.6: 16 residues within 4Å: Chain C: R.172, Q.173, T.174, G.175, K.176, T.177, A.178, Q.201, D.262, F.361, R.366, Q.434, Q.436 Chain E: R.347, D.350 Ligands: MG.5 15 PLIP interactions: 12 interactions with chain C, 3 interactions with chain E Hydrogen bonds: C:Q.173, C:T.174, C:G.175, C:K.176, C:T.177, C:T.177, C:Q.201, C:R.366, C:Q.434, E:D.350, E:D.350 Salt bridges: C:K.176, C:K.176, C:K.176, E:R.347

4 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.2: 4 residues within 4Å: Chain A: T.177, Q.201, D.262 Ligands: ATP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.177 MG.4: 1 residues within 4Å: Ligands: ATP.3 No protein-ligand interaction detected (PLIP) MG.5: 2 residues within 4Å: Chain C: Q.201 Ligands: ATP.6 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain D: K.154 Ligands: ADP.7 No protein-ligand interaction detected (PLIP)

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

ADP.7: 13 residues within 4Å: Chain C: S.376, R.377 Chain D: G.151, V.152, G.153, K.154, T.155, V.156, E.184, Y.336, F.409, A.412 Ligands: MG.8 15 PLIP interactions: 12 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:G.151, D:V.152, D:G.153, D:K.154, D:T.155, D:T.155, D:T.155, D:V.156, D:R.181, C:S.376 Salt bridges: D:K.154, C:R.377, C:R.377 pi-Stacking: D:Y.336, D: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 subunit alpha: ABC
ATP synthase subunit beta: DEF
ATP synthase epsilon chain: G
ATP synthase gamma chain: H

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
e

H
g

ATP synthase subunit alpha

ATP synthase subunit beta

ATP synthase epsilon chain

ATP synthase gamma chain

Related Entries With Identical Sequence