SMTL ID : 7y4w.1

The cryo-EM structure of human ERAD retro-translocation complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-6-mer

Ligands

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

ADP.1: 13 residues within 4Å: Chain E: D.186, I.187, G.188, G.229, T.230, G.231, K.232, T.233, L.234, I.361, H.365, G.389 Chain F: R.340 9 PLIP interactions: 8 interactions with chain E, 1 interactions with chain F Hydrogen bonds: E:G.188, E:G.188, E:G.229, E:G.231, E:K.232, E:T.233, E:T.233 Salt bridges: E:K.232, F:R.340 ADP.2: 15 residues within 4Å: Chain F: D.186, I.187, G.188, P.228, G.229, T.230, G.231, K.232, T.233, L.234, I.361, H.365, G.389, A.393 Chain H: R.340 10 PLIP interactions: 9 interactions with chain F, 1 interactions with chain H Hydrogen bonds: F:G.188, F:G.188, F:G.229, F:T.230, F:G.231, F:K.232, F:T.233, F:L.234 Salt bridges: F:K.232, H:R.340 ADP.3: 15 residues within 4Å: Chain G: R.340 Chain I: D.186, I.187, G.188, G.229, T.230, G.231, K.232, T.233, L.234, I.361, H.365, G.389, A.390, A.393 8 PLIP interactions: 7 interactions with chain I, 1 interactions with chain G Hydrogen bonds: I:G.188, I:G.229, I:T.230, I:G.231, I:K.232, I:T.233, G:R.340 Salt bridges: I:K.232 ADP.4: 14 residues within 4Å: Chain I: R.340 Chain J: D.186, I.187, G.188, G.229, T.230, G.231, K.232, T.233, L.234, I.364, G.389, A.390, A.393 9 PLIP interactions: 8 interactions with chain J, 1 interactions with chain I Hydrogen bonds: J:D.186, J:G.188, J:G.229, J:G.231, J:K.232, J:T.233, J:T.233, I:R.340 Salt bridges: J:K.232

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rao, B. et al., The cryo-EM structure of the human ERAD retrotranslocation complex. Sci Adv (2023)

Release Date

2023-10-18

Peptides

Derlin-1: ABCD
Transitional endoplasmic reticulum ATPase: EFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
W

B
X

C
Y

D
Z

E
A

F
B

G
C

H
D

I
E

J
F

Derlin-1

Transitional endoplasmic reticulum ATPase

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