SMTL ID : 2xok.1

Refined structure of yeast F1c10 ATPase complex to 3 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.01 Å

Oligo State

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

Ligands

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

ANP.1: 14 residues within 4Å: Chain A: R.208, Q.209, T.210, G.211, K.212, T.213, A.214, F.394, R.399, P.400, Q.467, Q.469 Chain D: Y.401 Ligands: MG.2 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:Q.209, A:T.210, A:G.211, A:K.212, A:K.212, A:T.213, A:T.213, A:A.214, A:Q.467, A:Q.469 ANP.3: 14 residues within 4Å: Chain B: D.207, R.208, Q.209, T.210, G.211, K.212, T.213, A.214, E.365, F.394, R.399, Q.467, Q.469 Ligands: MG.4 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:Q.209, B:Q.209, B:T.210, B:T.210, B:G.211, B:K.212, B:K.212, B:T.213, B:A.214, B:E.365, B:R.399, B:Q.467, B:Q.469 pi-Stacking: B:F.394 pi-Cation interactions: B:R.399 ANP.5: 15 residues within 4Å: Chain C: R.208, Q.209, T.210, G.211, K.212, T.213, A.214, E.365, F.394, R.399, Q.467, N.468, Q.469 Chain F: Y.401 Ligands: MG.6 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:Q.209, C:T.210, C:G.211, C:K.212, C:K.212, C:T.213, C:A.214, C:E.365, C:E.365, C:Q.467, C:Q.469 ANP.7: 17 residues within 4Å: Chain C: S.381, R.410 Chain D: G.191, A.192, G.193, V.194, G.195, K.196, T.197, V.198, E.222, R.223, Y.378, F.451, A.454, F.457 Ligands: MG.8 15 PLIP interactions: 12 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:G.193, D:V.194, D:G.195, D:K.196, D:K.196, D:T.197, D:V.198, D:R.223, D:R.223, D:Y.378, C:R.410, C:R.410 pi-Stacking: D:Y.378, D:Y.378 Salt bridges: C:R.410 ANP.9: 19 residues within 4Å: Chain B: I.380, S.381, V.408, R.410 Chain F: G.191, A.192, G.193, V.194, G.195, K.196, T.197, V.198, E.222, R.223, Y.378, F.451, A.454, F.457 Ligands: MG.10 13 PLIP interactions: 10 interactions with chain F, 3 interactions with chain B Hydrogen bonds: F:G.193, F:V.194, F:G.195, F:K.196, F:K.196, F:K.196, F:T.197, F:V.198, F:R.223, F:R.223, B:R.410, B:R.410 Salt bridges: B:R.410

5 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: T.213 Ligands: ANP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.213 MG.4: 2 residues within 4Å: Chain B: T.213 Ligands: ANP.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.213 MG.6: 2 residues within 4Å: Chain C: T.213 Ligands: ANP.5 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.213 MG.8: 5 residues within 4Å: Chain D: T.197, E.222, R.223, E.226 Ligands: ANP.7 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:T.197 MG.10: 5 residues within 4Å: Chain F: T.197, E.222, R.223, E.226 Ligands: ANP.9 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:T.197, F:E.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stock, D. et al., Molecular architecture of the rotary motor in ATP synthase. Science (1999)

Release Date

2010-09-22

Peptides

ATP SYNTHASE SUBUNIT ALPHA, MITOCHONDRIAL: ABC
ATP SYNTHASE SUBUNIT BETA, MITOCHONDRIAL: DEF
ATP SYNTHASE SUBUNIT GAMMA, MITOCHONDRIAL: G
ATP SYNTHASE: H
ATP SYNTHASE CATALYTIC SECTOR F1 EPSILON SUBUNIT: I
ATP SYNTHASE SUBUNIT 9, MITOCHONDRIAL: JKLMNOPQRS

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

J
K

K
L

L
M

M
N

N
O

O
P

P
Q

Q
R

R
S

S
T

Membrane

We predict this structure to be a membrane protein.
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ATP SYNTHASE SUBUNIT ALPHA, MITOCHONDRIAL

ATP SYNTHASE SUBUNIT BETA, MITOCHONDRIAL

ATP SYNTHASE SUBUNIT GAMMA, MITOCHONDRIAL

ATP SYNTHASE

ATP SYNTHASE CATALYTIC SECTOR F1 EPSILON SUBUNIT

ATP SYNTHASE SUBUNIT 9, MITOCHONDRIAL

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