SMTL ID : 8gxu.1

1 ATP-bound V1EG of V/A-ATPase from Thermus thermophilus

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-1-1-2-2-mer

Ligands

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 8 residues within 4Å: Chain A: P.229, F.230, G.231, A.232, G.233, K.234, S.235 Chain F: R.360 9 PLIP interactions: 8 interactions with chain A, 1 interactions with chain F Hydrogen bonds: A:G.231, A:A.232, A:G.233, A:K.234, A:S.235, A:S.235, A:R.258 Salt bridges: A:K.234, F:R.360 SO4.3: 7 residues within 4Å: Chain C: F.230, G.231, A.232, G.233, K.234, S.235 Chain E: R.360 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain E Hydrogen bonds: C:G.231, C:A.232, C:G.233, C:K.234, C:S.235, C:S.235, C:R.258 Salt bridges: C:K.234, E:R.360

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

ATP.2: 12 residues within 4Å: Chain B: P.229, G.231, A.232, G.233, K.234, S.235, V.236, F.419, Q.497, N.498, A.499, Y.500 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:P.229, B:G.231, B:A.232, B:G.233, B:K.234, B:S.235, B:Q.497, B:A.499 Salt bridges: B:K.234 pi-Stacking: B:F.419, B:Y.500

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakanishi, A. et al., Cryo-EM analysis of V/A-ATPase intermediates reveals the transition of the ground-state structure to steady-state structures by sequential ATP binding. J.Biol.Chem. (2023)

Release Date

2023-01-25

Peptides

V-type ATP synthase alpha chain: ABC
V-type ATP synthase beta chain: DEF
V-type ATP synthase subunit D: G
V-type ATP synthase subunit F: H
V-type ATP synthase, subunit (VAPC-THERM): IK
V-type ATP synthase subunit E: JL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

K
K

J
J

L
L

V-type ATP synthase alpha chain

V-type ATP synthase beta chain

V-type ATP synthase subunit D

V-type ATP synthase subunit F

V-type ATP synthase, subunit (VAPC-THERM)

V-type ATP synthase subunit E

Related Entries With Identical Sequence