SMTL ID : 6n2z.1

Bacillus PS3 ATP synthase class 2

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: 18 residues within 4Å: Chain N: R.171, Q.172, T.173, G.174, K.175, T.176, S.177, Q.200, D.262, F.349, R.354, P.355, Q.422, D.423, L.424 Chain Q: R.352, A.355 Ligands: MG.2 12 PLIP interactions: 12 interactions with chain N Hydrogen bonds: N:Q.172, N:T.173, N:G.174, N:K.175, N:T.176, N:S.177, N:S.177, N:S.177, N:Q.200, N:Q.422 Salt bridges: N:K.175, N:K.175 ATP.3: 15 residues within 4Å: Chain O: D.170, 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 R: E.357 Ligands: MG.4 14 PLIP interactions: 13 interactions with chain O, 1 interactions with chain R 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, R:E.357 Salt bridges: O:K.175, O:K.175 ATP.5: 16 residues within 4Å: Chain P: D.170, R.171, Q.172, T.173, G.174, K.175, T.176, S.177, F.349, R.354, P.355, Q.422, L.424 Chain S: R.352, Y.364 Ligands: MG.6 16 PLIP interactions: 13 interactions with chain P, 3 interactions with chain S Hydrogen bonds: P:Q.172, P:Q.172, P:T.173, P:G.174, P:K.175, P:T.176, P:T.176, P:S.177, P:S.177, P:Q.422, S:S.351 Salt bridges: P:K.175, P:K.175, S:R.352, S:R.352 pi-Stacking: P:F.349

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain N: T.176, Q.200, D.261 Ligands: ATP.1 1 PLIP interactions: 1 interactions with chain N Metal complexes: N:T.176 MG.4: 4 residues within 4Å: Chain O: T.176, Q.200, D.261 Ligands: ATP.3 1 PLIP interactions: 1 interactions with chain O Metal complexes: O:T.176 MG.6: 4 residues within 4Å: Chain P: T.176, Q.200, D.261 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, N.253 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: 7 residues within 4Å: Chain R: G.159, A.160, G.161, V.162, G.163, K.164, T.165 6 PLIP interactions: 6 interactions with chain R Hydrogen bonds: R:A.160, 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: 15 residues within 4Å: Chain O: V.363, R.365 Chain S: A.160, 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: 10 interactions with chain S, 3 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, O:R.365, 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
c7

E
c8

F
c9

G
c0

H
c1

I
c2

J
c3

K
c4

L
c5

M
c6

N
B

O
C

P
A

Q
E

R
F

S
D

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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