SMTL ID : 7tmt.1

V-ATPase from Saccharomyces cerevisiae, State 3

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-3-3-1-1-1-1-1-1-1-1-1-1-8-1-mer

Ligands

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

ADP.1: 17 residues within 4Å: Chain E: F.259, G.260, C.261, G.262, K.263, T.264, V.265, R.287, F.452, P.453, Q.529, N.530, G.531, Y.532 Chain F: S.380, R.381, K.384 15 PLIP interactions: 13 interactions with chain E, 2 interactions with chain F Hydrogen bonds: E:G.260, E:C.261, E:G.262, E:K.263, E:T.264, E:T.264, E:V.265, E:Q.529 Salt bridges: E:K.263, E:K.263, E:R.287, F:R.381, F:R.381 pi-Stacking: E:F.452, E:F.452

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vasanthakumar, T. et al., Coordinated conformational changes in the V 1 complex during V-ATPase reversible dissociation. Nat.Struct.Mol.Biol. (2022)

Release Date

2022-04-20

Peptides

H(+)-transporting two-sector ATPase: ACE
Vacuolar proton pump subunit B: BDF
V-ATPase subunit E: GIK
V-type proton ATPase subunit G: HJL
V-type proton ATPase subunit D: M
V-type proton ATPase subunit F: N
V-type proton ATPase subunit C: O
V-type proton ATPase subunit H: P
V-type proton ATPase subunit a, vacuolar isoform: Q
V0 assembly protein 1: R
V-type proton ATPase subunit c'': S
V-type proton ATPase subunit d: T
V-type proton ATPase subunit e: U
Yeast V-ATPase subunit f: V
V-type proton ATPase subunit c: WXYZ0123
V-type proton ATPase subunit c': 4

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

G
G

I
I

K
K

H
H

J
J

L
L

M
M

N
N

O
O

P
P

Q
a

R
b

S
c

T
d

U
e

V
f

W
g

X
h

Y
i

Z
j

0
k

1
l

2
m

3
n

4
o

Membrane

We predict this structure to be a membrane protein.
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H(+)-transporting two-sector ATPase

Vacuolar proton pump subunit B

V-ATPase subunit E

V-type proton ATPase subunit G

V-type proton ATPase subunit D

V-type proton ATPase subunit F

V-type proton ATPase subunit C

V-type proton ATPase subunit H

V-type proton ATPase subunit a, vacuolar isoform

V0 assembly protein 1

V-type proton ATPase subunit c''

V-type proton ATPase subunit d

V-type proton ATPase subunit e

Yeast V-ATPase subunit f

V-type proton ATPase subunit c

V-type proton ATPase subunit c'

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