1GZP

CD1B IN COMPLEX WITH GM2 GANGLIOSIDE

Structural Biology Knowledgebase: 1GZP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.273
  • R-Value Work: 0.225

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1GZP

Classification: GLYCOPROTEIN

Total Structure Weight: 46193.03

Macromolecule Entities
Molecule Chains Length Organism Details
T-CELL SURFACE GLYCOPROTEIN CD1B A 300 Homo sapiens Fragment: RESIDUES 18-295
Gene Name(s): CD1B Gene View
B2-MICROGLOBULIN B 100 Homo sapiens Gene Name(s): B2M Gene View CDABP0092 HDCMA22P

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GM2
Query on GM2

A N-[(1S,2S)-2-HYDROXY-1-({[(2R,3R,4S,5S,6R)- 3,4,5-TRIHYDROXY-6-(HYDROXYMETHYL)TETRAHYDRO- 2H-PYRAN-2-YL]OXY}METHYL)OCTADECYL]OCTADECANAMIDE
C43 H85 N O8
SYMIJCRAJBNLEL-YPQBUIQASA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
TWT
Query on TWT

A DOCOSANE
C22 H46
HOWGUJZVBDQJKV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
D12
Query on D12

A DODECANE
C12 H26
SNRUBQQJIBEYMU-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.273
  • R-Value Work: 0.225
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 87.53 α = 90.00
b = 176.88 β = 90.00
c = 75.25 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-05-24
  • Released Date: 2002-07-31
  • Deposition author(s): Gadola, S.D., Zaccai, N.R., Harlos, K., Shepherd, D., Ritter, G., Schmidt, R.R., Jones, E.Y., Cerundolo, V.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4