3ILP

Structure of mCD1d with bound glycolipid BbGL-2f from Borrelia burgdorferi


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.205

Literature

Macromolecules
Sequence Display for 3ILP

Classification: IMMUNE SYSTEM

Total Structure Weight: 45792.83

Macromolecule Entities
Molecule Chains Length Organism Details
T-cell surface glycoprotein CD1d1 A 285 Mus musculus Fragment: UNP residues 19-298
Gene Name(s): Cd1d1 Cd1.1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Beta-2 microglobulin B 99 Mus musculus Fragment: UNP residues 21-119
Gene Name(s): B2m
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
1L2
Query on 1L2

A (2S)-3-(alpha-D-galactopyranosyloxy)-2-[(9Z)- octadec-9-enoyloxy]propyl (9Z,12Z)-octadeca- 9,12-dienoate
1-linoleoyl,2-oleoyl-3-O-(alpha-D-galactopyranosyl)- sn-glycerol (Synonym)
C45 H80 O10
WSLQQXBIZJMBGG-JQWDYJJRSA-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)
DMS
Query on DMS

A DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.205
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 42.15 α = 90.00
b = 110.39 β = 90.00
c = 107.50 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-08-07
  • Released Date: 2010-01-26
  • Deposition author(s): Zajonc, D.M.

Revision History

  • 2011-07-13
    Type: Version format compliance
  • 2016-03-23
    Type: Refinement description