SMTL ID : 8qcf.1

yeast cytoplasmic exosome-Ski2 complex degrading a RNA substrate

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 11 residues within 4Å: Chain L: F.328, E.329, L.330, Q.334, T.353, S.354, A.355, G.356, K.357, T.358, R.767 13 PLIP interactions: 13 interactions with chain L Hydrogen bonds: L:E.329, L:D.331, L:Q.334, L:T.353, L:S.354, L:A.355, L:G.356, L:K.357, L:T.358 Salt bridges: L:K.357, L:K.357 pi-Stacking: L:F.328 pi-Cation interactions: L:R.767

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Keidel, A. et al., Concerted structural rearrangements enable RNA channeling into the cytoplasmic Ski238-Ski7-exosome assembly. Mol.Cell (2023)

Release Date

2024-01-10

Peptides

Exosome complex component RRP45: A
Exosome complex component SKI6: B
Exosome complex component RRP43: C
RRP46 isoform 1: D
Exosome complex component RRP42: E
Exosome complex component MTR3: F
Exosome complex component RRP40: G
Exosome complex component RRP4: H
Exosome complex component CSL4: I
Exosome complex exonuclease DIS3: J
Superkiller protein 7: K
Antiviral helicase SKI2: L

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

D
E

E
F

F
G

G
H

H
I

I
J

J
K

K
L

L
M

Exosome complex component RRP45

Exosome complex component SKI6

Exosome complex component RRP43

RRP46 isoform 1

Exosome complex component RRP42

Exosome complex component MTR3

Exosome complex component RRP40

Exosome complex component RRP4

Exosome complex component CSL4

Exosome complex exonuclease DIS3

Superkiller protein 7

Antiviral helicase SKI2

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