5HK2

Human sigma-1 receptor bound to 4-IBP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.218

Literature

Macromolecules
Sequence Display for 5HK2

Classification: MEMBRANE PROTEIN

Total Structure Weight: 81253.03

Macromolecule Entities
Molecule Chains Length Organism Details
Sigma non-opioid intracellular receptor 1 A, B, C 227 Homo sapiens Gene Name(s): SIGMAR1 Gene View OPRS1 SRBP AAG8
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: inferred by homology | Group: ALPHA-HELICAL

Subgroup Name: Novel Receptors

Protein Name: Human sigma-1 (σ1) receptor, with bound PD144418


Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
61V
Query on 61V

A, B, C N-(1-benzylpiperidin-4-yl)-4-iodobenzamide
C19 H21 I N2 O
HELCSESNNDZLFM-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
OLC
Query on OLC

B, C (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate
1-Oleoyl-R-glycerol (Synonym)
C21 H40 O4
RZRNAYUHWVFMIP-GDCKJWNLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B, C SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.218
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 85.70 α = 90.00
b = 126.80 β = 90.00
c = 110.80 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-01-13
  • Released Date: 2016-04-06
  • Deposition author(s): Schmidt, H.R., Zheng, S., Gurpinar, E.G., Koehl, A., Manglik, A., Kruse, A.C.

Revision History

  • 2016-05-11
    Type: Citation | Details: Citation
  • 2016-04-20
    Type: Citation | Details: Citation