SMTL ID : 3oaa.2 (3 other biounits)

Structure of the E.coli F1-ATP synthase inhibited by subunit Epsilon

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.26 Å

Oligo State

hetero-3-3-1-1-mer

Ligands

3 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 15 residues within 4Å: Chain A: R.171, Q.172, T.173, G.174, K.175, T.176, A.177, E.331, F.360, R.365, Q.433, K.434, Q.435 Chain D: R.342 Ligands: MG.2 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:Q.172, A:T.173, A:T.173, A:G.174, A:K.175, A:K.175, A:T.176, A:A.177, A:Q.433 ANP.3: 18 residues within 4Å: Chain B: Y.150, D.170, Q.172, T.173, G.174, K.175, T.176, A.177, E.331, F.360, R.365, Q.433, K.434, Q.435 Chain E: R.342, D.345, P.346 Ligands: MG.4 14 PLIP interactions: 12 interactions with chain B, 2 interactions with chain E Hydrogen bonds: B:Q.172, B:T.173, B:G.174, B:K.175, B:K.175, B:T.176, B:A.177, B:E.331, B:Q.433, B:K.434, B:Q.435, B:Q.435, E:R.342, E:R.342 ANP.5: 15 residues within 4Å: Chain C: R.171, Q.172, T.173, G.174, K.175, T.176, A.177, E.331, F.360, R.365, Q.433, K.434, Q.435 Chain F: Y.354 Ligands: MG.6 10 PLIP interactions: 9 interactions with chain C, 1 interactions with chain F Hydrogen bonds: C:Q.172, C:T.173, C:G.174, C:K.175, C:T.176, C:A.177, C:E.331, C:Q.433, C:Q.435, F:Y.354

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: T.176, D.261 Ligands: ANP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.176 MG.4: 3 residues within 4Å: Chain B: T.176, Q.200 Ligands: ANP.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.176 MG.6: 2 residues within 4Å: Chain C: T.176 Ligands: ANP.5 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.176 MG.8: 5 residues within 4Å: Chain D: T.156, R.182, E.185 Ligands: ADP.7, SO4.9 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:T.156

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

ADP.7: 16 residues within 4Å: Chain C: R.376 Chain D: G.150, A.151, G.152, V.153, G.154, K.155, T.156, V.157, E.185, Y.331, A.407, F.410, T.411 Ligands: MG.8, SO4.9 14 PLIP interactions: 12 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:G.150, D:G.152, D:V.153, D:G.154, D:K.155, D:T.156, D:T.156, D:V.157, C:R.376 Salt bridges: D:K.155, C:R.376 pi-Stacking: D:Y.331, D:Y.331, D:F.410

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

SO4.9: 9 residues within 4Å: Chain C: R.376 Chain D: K.155, T.156, R.182, E.185, N.243, R.246 Ligands: ADP.7, MG.8 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:N.243 Salt bridges: D:K.155, D:R.182, D:R.246, C:R.376 SO4.10: 7 residues within 4Å: Chain E: G.150, A.151, G.152, V.153, G.154, K.155, T.156 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:G.152, E:V.153, E:G.154, E:K.155, E:T.156 SO4.11: 8 residues within 4Å: Chain B: R.376 Chain F: G.150, G.152, V.153, G.154, K.155, T.156, R.182 7 PLIP interactions: 1 interactions with chain B, 6 interactions with chain F Salt bridges: B:R.376, F:R.182 Hydrogen bonds: F:G.152, F:V.153, F:G.154, F:K.155, F:T.156 SO4.12: 9 residues within 4Å: Chain G: V.80, S.81, T.82, D.83, I.117, G.118, M.139, G.140, V.231 2 PLIP interactions: 2 interactions with chain G Hydrogen bonds: G:S.81, G:D.83 SO4.13: 5 residues within 4Å: Chain H: M.15, Y.63, S.65, D.81, T.82 2 PLIP interactions: 2 interactions with chain H Hydrogen bonds: H:S.65, H:S.65

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cingolani, G. et al., Structural basis for inhibition of bacterial ATP synthase by subunit epsilon of the rotor stalk. To be Published

Release Date

2011-05-25

Peptides

ATP synthase subunit alpha: ABC
ATP synthase subunit beta: DEF
ATP synthase gamma chain: G
ATP synthase epsilon chain: H

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
I

B
J

C
K

D
L

E
M

F
N

G
O

H
P

ATP synthase subunit alpha

ATP synthase subunit beta

ATP synthase gamma chain

ATP synthase epsilon chain

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