SMTL ID : 5uie.1

Vps4-Vta1 complex

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY 5.70 Å

Oligo State

hetero-6-12-mer

Ligands

1 x ACE- UNK- UNK- UNK- UNK- UNK- UNK- UNK- UNK: DOA4-independent degradation protein 4(Non-covalent)

ACE-UNK-UNK-UNK-UNK-UNK-UNK-UNK-UNK.1: 8 residues within 4Å: Chain A: K.205, W.206 Chain B: K.205, W.206 Chain C: K.205, W.206 Chain D: W.206, E.247 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.206

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

ADP.2: 15 residues within 4Å: Chain A: D.134, V.135, A.136, G.176, G.178, K.179, S.180, Y.181, M.307, G.336, S.337 Chain B: R.288, R.289 Ligands: BEF.3, MG.4 10 PLIP interactions: 2 interactions with chain B, 8 interactions with chain A Salt bridges: B:R.288, B:R.289 Hydrogen bonds: A:A.136, A:A.136, A:G.176, A:G.178, A:S.180, A:S.180, A:Y.181 pi-Stacking: A:Y.181 ADP.5: 15 residues within 4Å: Chain B: D.134, V.135, A.136, G.176, T.177, G.178, K.179, S.180, Y.181, M.307, G.336, S.337 Chain C: R.288 Ligands: MG.6, BEF.7 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:A.136, B:A.136, B:G.176, B:K.179, B:S.180, B:Y.181 Salt bridges: C:R.288, C:R.288 ADP.8: 15 residues within 4Å: Chain C: D.134, V.135, P.175, G.176, G.178, K.179, S.180, Y.181, M.307, G.336, S.337 Chain D: R.288, R.289 Ligands: BEF.9, MG.10 8 PLIP interactions: 6 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:A.136, C:G.176, C:G.178, C:K.179, C:S.180, C:Y.181 Salt bridges: D:R.288, D:R.289 ADP.11: 13 residues within 4Å: Chain D: D.134, V.135, A.136, P.175, G.176, T.177, G.178, K.179, S.180, Y.181, M.307, G.336 Chain E: R.288 10 PLIP interactions: 9 interactions with chain D, 1 interactions with chain E Hydrogen bonds: D:A.136, D:A.136, D:G.176, D:T.177, D:G.178, D:K.179, D:S.180, D:Y.181, E:R.288 Salt bridges: D:K.179 ADP.12: 13 residues within 4Å: Chain E: D.134, V.135, A.136, P.175, G.176, T.177, G.178, K.179, S.180, Y.181, M.307, G.336, S.337 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:A.136, E:A.136, E:G.176, E:T.177, E:T.177, E:G.178, E:K.179, E:S.180, E:Y.181

3 x BEF: BERYLLIUM TRIFLUORIDE ION(Non-covalent)

BEF.3: 10 residues within 4Å: Chain A: P.174, P.175, G.176, K.179, S.180, N.277 Chain B: R.288, R.289 Ligands: ADP.2, MG.4 No protein-ligand interaction detected (PLIP) BEF.7: 7 residues within 4Å: Chain B: P.175, G.176, N.277 Chain C: R.288, R.289 Ligands: ADP.5, MG.6 No protein-ligand interaction detected (PLIP) BEF.9: 9 residues within 4Å: Chain C: P.174, P.175, G.176, K.179, N.277 Chain D: R.288, R.289 Ligands: ADP.8, MG.10 No protein-ligand interaction detected (PLIP)

3 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 4 residues within 4Å: Chain A: S.180, D.232 Ligands: ADP.2, BEF.3 No protein-ligand interaction detected (PLIP) MG.6: 4 residues within 4Å: Chain B: S.180, D.232 Ligands: ADP.5, BEF.7 No protein-ligand interaction detected (PLIP) MG.10: 3 residues within 4Å: Chain C: D.232 Ligands: ADP.8, BEF.9 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Monroe, N. et al., Structural basis of protein translocation by the Vps4-Vta1 AAA ATPase. Elife (2017)

Release Date

2017-04-12

Peptides

Vacuolar protein sorting-associated protein 4: ABCDEF
Vacuolar protein sorting-associated protein VTA1: GHIJKLMNOPQR

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
L

L
M

M
N

N
O

O
P

P
Q

Q
R

R
S

Vacuolar protein sorting-associated protein 4

Vacuolar protein sorting-associated protein VTA1

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