4MQ7

Structure of human CD1d-sulfatide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.284
  • R-Value Work: 0.221

Literature

Macromolecules
Sequence Display for 4MQ7

Classification: IMMUNE SYSTEM

Total Structure Weight: 44744.63

Macromolecule Entities
Molecule Chains Length Organism Details
Antigen-presenting glycoprotein CD1d, Cd1d1 protein A 281 Homo sapiens Mus musculus Fragment: human CD1d alpha1,2 domains fused with murine alpha3 domain
Gene Name(s): Cd1d1 Cd1.1 CD1D Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Beta-2-microglobulin B 99 Mus musculus Fragment: Beta-2-microglobulin
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
CIS
Query on CIS

A (15Z)-N-((1S,2R,3E)-2-HYDROXY-1-{[(3-O-SULFO- BETA-D-GALACTOPYRANOSYL)OXY]METHYL}HEPTADEC- 3-ENYL)TETRACOS-15-ENAMIDE
3R, (Synonym)
C48 H91 N O11 S
ZZQWQNAZXFNSEP-JCOQVFCVSA-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: 2.6 Å
  • R-Value Free: 0.284
  • R-Value Work: 0.221
  • Space Group: P 2 21 21

Unit Cell:

Length (Å) Angle (°)
a = 40.96 α = 90.00
b = 51.58 β = 90.00
c = 210.95 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-09-15
  • Released Date: 2013-12-18
  • Deposition author(s): Luoma, A.M., Adams, E.J.

Revision History

  • 2014-01-01
    Type: Database references
  • 2017-08-02
    Type: Source and taxonomy