SMTL ID : 6y4l.1

Crystal structure of human ER membrane protein complex subunits EMC2 and EMC9

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-1-1-mer

Ligands

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 3 residues within 4Å: Chain A: G.195, L.196, N.233 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.196, A:N.233 SO4.2: 3 residues within 4Å: Chain A: R.71, P.75, G.76 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.71, A:G.76 Water bridges: A:R.71, A:S.77, A:S.77 SO4.7: 5 residues within 4Å: Chain A: H.160 Chain B: G.94, P.95, L.96, A.97 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:G.94, B:L.96, B:A.97 Water bridges: B:H.83, B:N.85 Salt bridges: B:H.83, A:H.160

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 6 residues within 4Å: Chain A: R.115, K.118, I.119, R.122, A.131, E.134 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.134 EDO.4: 6 residues within 4Å: Chain A: E.89, Y.94, R.117, A.120, A.124 Chain B: H.23 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.117 EDO.8: 7 residues within 4Å: Chain B: F.50, S.52, H.53, L.56, S.57, M.59, L.60 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain B Water bridges: A:E.188, B:S.52, B:S.52, B:V.58 Hydrogen bonds: B:M.59, B:L.60

1 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.5: 10 residues within 4Å: Chain A: Y.224, M.225, S.228, H.229, A.252, I.255, N.256, Y.259 Chain B: Q.66 Ligands: PEG.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.224, A:S.232

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 4 residues within 4Å: Chain A: P.177, C.183, Y.205, Q.208 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.177 Water bridges: A:N.179 PEG.9: 6 residues within 4Å: Chain B: W.70, Q.73, D.185, W.186, T.187 Ligands: PE4.5 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.73, B:Q.184 PEG.10: 5 residues within 4Å: Chain A: Y.162 Chain B: A.55, S.57, L.96, K.99 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:K.99, A:Y.162

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

O'Donnell, J.P. et al., The architecture of EMC reveals a path for membrane protein insertion. Elife (2020)

Release Date

2020-05-27

Peptides

ER membrane protein complex subunit 2: A
ER membrane protein complex subunit 9: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ER membrane protein complex subunit 2

ER membrane protein complex subunit 9