SMTL ID : 6vq9.1

Mammalian V-ATPase from rat brain soluble V1 region rotational state 1 with SidK and ADP (from focused refinement)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

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

ADP.1: 17 residues within 4Å: Chain C: A.251, F.252, G.253, C.254, G.255, K.256, T.257, V.258, F.445, P.446, Q.522, N.523, G.524, Y.525 Chain F: L.398, R.400 Ligands: MG.2 12 PLIP interactions: 10 interactions with chain C, 2 interactions with chain F Hydrogen bonds: C:A.251, C:G.253, C:C.254, C:G.255, C:K.256, C:T.257, C:T.257, C:V.258, C:G.524 pi-Stacking: C:F.445 Salt bridges: F:R.400, F:R.400

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain C: T.257, E.279, D.349 Ligands: ADP.1 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.257

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abbas, Y.M. et al., Structure of V-ATPase from the mammalian brain. Science (2020)

Release Date

2020-03-18

Peptides

ATPase H+-transporting V1 subunit A: ABC
V-type proton ATPase subunit B, brain isoform: DEF
ATPase H+-transporting V1 subunit D: G
V-type proton ATPase subunit E 1: HIJ
V-type proton ATPase subunit G: KLM
Effector protein SidK: NOP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
H

H
I

I
J

J
K

K
M

L
N

M
O

N
Q

O
R

P
S

ATPase H+-transporting V1 subunit A

V-type proton ATPase subunit B, brain isoform

ATPase H+-transporting V1 subunit D

V-type proton ATPase subunit E 1

V-type proton ATPase subunit G

Effector protein SidK

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