5XSZ

Crystal structure of zebrafish lysophosphatidic acid receptor LPA6


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.263
  • R-Value Work: 0.236

Literature

Macromolecules
Sequence Display for 5XSZ

Classification: MEMBRANE PROTEIN

Total Structure Weight: 55455.20

Macromolecule Entities
Molecule Chains Length Organism Details
Lysophosphatidic acid receptor 6a,Endolysin,Lysophosphatidic acid receptor 6a A 477 Danio rerio Enterobacteria phage t4 sensu lato EC#: 3.2.1.17 IUBMB
Mutation: E1011N, R1012G, D1020N, C1054T, C1097A, I1137R
Details: Chimera protein of UNP residues 1-227 from Lysophosphatidic acid receptor 6a (Q08BG4), UNP residues 2-161 from Endolysin (P00720),UNP residues 233-312 from Lysophosphatidic acid receptor 6a (Q08BG4).
Gene Name(s): E
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: G Protein-Coupled Receptors (GPCRs)

Protein Name: LPA6 Lysophosphatidic Acid Receptor


Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
OLC
Query on OLC

A (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)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.263
  • R-Value Work: 0.236
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 55.88 α = 90.00
b = 65.02 β = 90.00
c = 160.65 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2017-06-16
  • Released Date: 2017-08-16
  • Deposition author(s): Taniguchi, R., Nishizawa, T., Ishitani, R., Nureki, O.

Revision History

  • 2017-08-30
    Type: Database references