› 7w2c

X-ray diffraction
3.34Å resolution

The closed conformation of the sigma-1 receptor from Xenopus laevis complexed with PRE084

Released:
DOI: 10.2210/pdb7w2c/pdb
PDB entry 7w2c coloured by chain, front view.
PDB entry 7w2c coloured by chain, side view.
PDB entry 7w2c coloured by chain, top view.
Source organism: Xenopus laevis
Primary publication:
An open-like conformation of the sigma-1 receptor reveals its ligand entry pathway.
Meng F, Xiao Y, Ji Y, Sun Z, Zhou X
OpenAccess logo Nat Commun 13 1267 (2022)
PMID: 35273182

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domain:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-179508 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Sigma non-opioid intracellular receptor 1 Chains: A, B, C, D, E, F, G, H, I, J, K, L
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I, J, K, L
Length: 225 amino acids
Theoretical weight: 25.12 KDa
Source organism: Xenopus laevis
Expression system: Komagataella pastoris
UniProt:
  • Canonical: Q6DCU6 (Residues: 1-221; Coverage: 100%)
Gene names: oprs1, sigmar1
Sequence domains: ERG2 and Sigma1 receptor like protein

Ligands and Environments

3 bound ligands:
Ligand AU 24 x AU
Ligand E84 12 x E84
Ligand BOG 3 x BOG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P21
Unit cell:
a: 87.155Å b: 148.78Å c: 172.756Å
α: 90° β: 92.76° γ: 90°
R-values:
R R work R free
0.231 0.229 0.259
Expression system: Komagataella pastoris

Quick links

Citations

2 review citations

Overview of Sigma-1R Subcellular Specific Biological Functions and Role in Neuroprotection.
Lachance et al. (2023)
1 more

2 mentions without citation

An open-like conformation of the sigma-1 receptor reveals its ligand entry pathway.
Meng et al. (2022)
1 more