SMTL ID : 8equ.1

Structure of SARS-CoV-2 Orf3a in late endosome/lysosome-like environment, Saposin A nanodisc

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-4-mer

Ligands

2 x PEE: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine(Non-covalent)

PEE.1: 6 residues within 4Å: Chain A: K.75, H.78, F.79, I.123, L.127 Chain B: K.61 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.75, A:L.127 Hydrogen bonds: A:H.78, A:D.142 Salt bridges: A:K.75 PEE.2: 6 residues within 4Å: Chain A: K.61 Chain B: K.75, H.78, F.79, I.123, L.127 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:K.75, B:L.127 Hydrogen bonds: B:H.78, B:D.142 Salt bridges: B:K.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miller, A.N. et al., The SARS-CoV-2 accessory protein Orf3a is not an ion channel, but does interact with trafficking proteins. Elife (2023)

Release Date

2023-02-08

Peptides

ORF3a protein: AB
Saposin-A: CF
Saposin A, polyalanine model: DEGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

F
F

D
D

E
E

G
G

H
H

ORF3a protein

Saposin-A

Saposin A, polyalanine model

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