SMTL ID : 9jc1.1

Engineering of ATP synthase

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-1-1-3-3-3-mer

Ligands

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

ADP.1: 11 residues within 4Å: Chain B: G.172, V.173, G.174, K.175, T.176, V.177, R.202, Y.352, F.425 Chain G: V.441, R.443 12 PLIP interactions: 10 interactions with chain B, 2 interactions with chain G Hydrogen bonds: B:G.172, B:V.173, B:G.174, B:K.175, B:T.176, B:V.177, B:R.202, G:R.443 Salt bridges: B:K.175, G:R.443 pi-Stacking: B:Y.352, B:Y.352

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain B: K.175, E.201, D.263, N.264 No protein-ligand interaction detected (PLIP) MG.3: 2 residues within 4Å: Chain F: G.252, K.253 No protein-ligand interaction detected (PLIP) MG.4: 4 residues within 4Å: Chain G: T.254, Q.278, D.339, D.340 1 PLIP interactions: 1 interactions with chain G Metal complexes: G:D.339 MG.5: 1 residues within 4Å: Chain H: T.254 1 PLIP interactions: 1 interactions with chain H Metal complexes: H:T.254

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ueno, H. et al., Engineering of ATP synthase for enhancement of proton-to-ATP ratio. Nat Commun (2025)

Release Date

2025-07-09

Peptides

ATP synthase subunit beta: ABC
ATP synthase gamma chain: D
ATP synthase epsilon chain: E
ATP synthase delta subunit,ATP synthase subunit alpha,ATP synthase subunit alpha: FGH
ATP synthase subunit b: IKM
ATP synthase subunit b: JLN

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

D
G

E
H

F
I

G
J

H
K

I
A

K
C

M
M

J
B

L
L

N
N

ATP synthase subunit beta

ATP synthase gamma chain

ATP synthase epsilon chain

ATP synthase delta subunit,ATP synthase subunit alpha,ATP synthase subunit alpha

ATP synthase subunit b

ATP synthase subunit b

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