SMTL ID : 6n30.1

Bacillus PS3 ATP synthase class 3

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-10-3-3-1-1-1-mer

Ligands

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

ATP.1: 17 residues within 4Å: Chain N: R.171, Q.172, T.173, G.174, K.175, T.176, S.177, Q.200, F.349, R.354, P.355, Q.422, L.424 Chain Q: R.352, A.355, E.357 Ligands: MG.2 12 PLIP interactions: 11 interactions with chain N, 1 interactions with chain Q Hydrogen bonds: N:Q.172, N:T.173, N:G.174, N:K.175, N:T.176, N:S.177, N:S.177, N:R.354, N:Q.422, Q:E.357 Salt bridges: N:K.175, N:K.175 ATP.3: 12 residues within 4Å: Chain O: Q.172, T.173, G.174, K.175, T.176, S.177, F.349, R.354, Q.422, D.423, L.424 Ligands: MG.4 14 PLIP interactions: 14 interactions with chain O Hydrogen bonds: O:Q.172, O:Q.172, O:T.173, O:G.174, O:K.175, O:T.176, O:S.177, O:S.177, O:Q.200, O:R.354, O:Q.422, O:L.424 Salt bridges: O:K.175, O:K.175 ATP.5: 16 residues within 4Å: Chain P: R.171, Q.172, T.173, G.174, K.175, T.176, S.177, F.349, R.354, Q.422, D.423, L.424 Chain S: R.352, Y.364, R.368 Ligands: MG.6 12 PLIP interactions: 2 interactions with chain S, 10 interactions with chain P Hydrogen bonds: S:Y.364, P:Q.172, P:T.173, P:G.174, P:K.175, P:T.176, P:S.177, P:S.177, P:Q.422 Salt bridges: S:R.352, P:K.175, P:K.175

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain N: T.176, Q.200 Ligands: ATP.1 1 PLIP interactions: 1 interactions with chain N Metal complexes: N:T.176 MG.4: 3 residues within 4Å: Chain O: T.176, D.261 Ligands: ATP.3 1 PLIP interactions: 1 interactions with chain O Metal complexes: O:T.176 MG.6: 2 residues within 4Å: Chain P: T.176 Ligands: ATP.5 1 PLIP interactions: 1 interactions with chain P Metal complexes: P:T.176 MG.9: 4 residues within 4Å: Chain S: T.165, R.191, E.194 Ligands: ADP.8 1 PLIP interactions: 1 interactions with chain S Metal complexes: S:T.165

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

PO4.7: 6 residues within 4Å: Chain R: G.159, A.160, G.161, V.162, K.164, T.165 5 PLIP interactions: 5 interactions with chain R Hydrogen bonds: R:G.161, R:V.162, R:G.163, R:K.164, R:T.165

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

ADP.8: 14 residues within 4Å: Chain O: V.363, R.365 Chain S: G.161, V.162, G.163, K.164, T.165, V.166, E.194, Y.341, F.414, A.417, F.420 Ligands: MG.9 13 PLIP interactions: 11 interactions with chain S, 2 interactions with chain O Hydrogen bonds: S:G.161, S:V.162, S:G.163, S:K.164, S:T.165, S:T.165, S:V.166, O:R.365 Salt bridges: S:K.164, S:R.191, O:R.365 pi-Stacking: S:Y.341, S:Y.341

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guo, H. et al., Structure of a bacterial ATP synthase. Elife (2019)

Release Date

2019-02-20

Peptides

Bacillus PS3 ATP synthase subunit b: A
Bacillus PS3 ATP synthase subunit b: B
Bacillus PS3 ATP synthase subunit a: C
ATP synthase subunit c: DEFGHIJKLM
ATP synthase subunit alpha: NOP
ATP synthase subunit beta: QRS
ATP synthase gamma chain: T
ATP synthase epsilon chain: U
Bacillus PS3 ATP synthase subunit delta: V

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
b2

B
b1

C
a

D
c3

E
c4

F
c5

G
c6

H
c7

I
c8

J
c9

K
c0

L
c1

M
c2

N
C

O
A

P
B

Q
F

R
D

S
E

T
G

U
H

V
I

Membrane

We predict this structure to be a membrane protein.
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Bacillus PS3 ATP synthase subunit b

Bacillus PS3 ATP synthase subunit b

Bacillus PS3 ATP synthase subunit a

ATP synthase subunit c

ATP synthase subunit alpha

ATP synthase subunit beta

ATP synthase gamma chain

ATP synthase epsilon chain

Bacillus PS3 ATP synthase subunit delta

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