SMTL ID : 7khr.1

Cryo-EM structure of bafilomycin A1-bound intact V-ATPase from bovine brain

Coordinates
PDB Format
Method
ELECTRON MICROSCOPY
Oligo State
hetero-3-3-1-1-3-1-3-1-1-1-1-1-1-1-9-1-mer
Ligands
1 x NAG- NAG- BMA- MAN- MAN- MAN- GLC- GLC- GLC: alpha-D-glucopyranose-(1-2)-alpha-D-glucopyranose-(1-3)-alpha-D-glucopyranose-(1-3)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
1 x MAN- MAN: alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose(Non-covalent)
1 x MG: MAGNESIUM ION(Non-covalent)
1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
1 x WJP: methyl (3R,6Z,10E,14E)-3,7,11,15,19-pentamethylicosa-6,10,14,18-tetraen-1-yl dihydrogen diphosphate(Non-covalent)
8 x POV: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate(Non-covalent)
7 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)
1 x OLA: OLEIC ACID(Non-covalent)
6 x WEV: (5R)-2,4-dideoxy-1-C-{(2S,3R,4S)-3-hydroxy-4-[(2R,3S,4E,6E,9R,10S,11R,12E,14Z)-10-hydroxy-3,15-dimethoxy-7,9,11,13-tetramethyl-16-oxo-1-oxacyclohexadeca-4,6,12,14-tetraen-2-yl]pentan-2-yl}-4-methyl-5-propan-2-yl-alpha-D-threo-pentopyranose(Non-covalent)(Covalent)
Links
RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP
Citation
Wang, R. et al., Molecular basis of V-ATPase inhibition by bafilomycin A1. Nat Commun (2021)
Release Date
2021-03-17
Peptides
V-type proton ATPase catalytic subunit A: ABC
V-type proton ATPase subunit B, brain isoform: DEF
V-type proton ATPase subunit C 1: G
V-type proton ATPase subunit D: H
V-type proton ATPase subunit E 1: IJK
V-type proton ATPase subunit F: L
V-type proton ATPase subunit G: MNO
V-type proton ATPase subunit H: P
V-type proton ATPase subunit a: Q
V-type proton ATPase 21 kDa proteolipid subunit: R
V-type proton ATPase subunit d 1: S
V-type proton ATPase subunit e 2: T
V-type proton ATPase subunit S1: U
Renin receptor: V
V-type proton ATPase 16 kDa proteolipid subunit: WXYZ01234
Ribonuclease kappa: 5
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
J
K
K
L
L
M
M
N
N
O
O
P
P
Q
a
R
b
S
d
T
e
U
s
V
r
W
c
X
g
Y
k
Z
l
0
m
1
n
2
o
3
p
4
q
5
f
Membrane
We predict this structure to be a membrane protein.

V-type proton ATPase catalytic subunit A

V-type proton ATPase subunit B, brain isoform

Toggle Identical (EF)

V-type proton ATPase subunit C 1

V-type proton ATPase subunit D

V-type proton ATPase subunit E 1

Toggle Identical (IJ)

V-type proton ATPase subunit F

V-type proton ATPase subunit G

Toggle Identical (MNO)

V-type proton ATPase subunit H

V-type proton ATPase subunit a

V-type proton ATPase 21 kDa proteolipid subunit

V-type proton ATPase subunit d 1

V-type proton ATPase subunit e 2

V-type proton ATPase subunit S1

Renin receptor

V-type proton ATPase 16 kDa proteolipid subunit

Toggle Identical (234) Toggle Identical (WXYZ01)

Ribonuclease kappa

Related Entries With Identical Sequence

6wlw.1 | 6wm2.1 | 6wm3.1 | 6wm4.1 | 6xbw.1 | 6xby.1