4MX7

Structure of mouse CD1d in complex with dioleoyl-phosphatidic acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.24 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.215

Literature

Macromolecules
Sequence Display for 4MX7

Classification: IMMUNE SYSTEM

Total Structure Weight: 45855.76

Macromolecule Entities
Molecule Chains Length Organism Details
Antigen-presenting glycoprotein CD1d1 A 285 Mus musculus Fragment: CD1d ectdomain, UNP residues 19-297
Gene Name(s): Cd1d1 Cd1.1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Beta-2-microglobulin B 99 Mus musculus Fragment: b2M ectodomain, UNP residues 21-119
Gene Name(s): B2m
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MX7
Query on MX7

A (2R)-3-(phosphonooxy)propane-1,2-diyl (9Z,9'Z)bis- octadec-9-enoate
dioleoyl-phosphatidic acid (Synonym)
C39 H73 O8 P
MHUWZNTUIIFHAS-DSSVUWSHSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.24 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.215
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 42.20 α = 90.00
b = 106.30 β = 90.00
c = 107.48 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-09-25
  • Released Date: 2014-10-01
  • Deposition author(s): Zajonc, D.M., Wang, J.

Revision History

No revisions since initial release