1KJ2

Murine Alloreactive ScFv TCR-Peptide-MHC Class I Molecule Complex

Structural Biology Knowledgebase: 1KJ2 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.71 Å
  • R-Value Free: 0.278
  • R-Value Work: 0.220

Literature

Macromolecules
Sequence Display for 1KJ2

Classification: IMMUNE SYSTEM

Total Structure Weight: 142981.63

Macromolecule Entities
Molecule Chains Length Organism Details
Allogeneic H-2Kb MHC Class I Molecule H, I 277 Mus musculus Fragment: Extracellular domains (alpha1, alpha2, alpha3)
Gene Name(s): H2-K1 H2-K
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Naturally processed octapeptide PKB1 P, Q 8 Mus musculus Gene Name(s): Gtpbp1 Gtpbp
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Beta-2 microglobulin L, M 99 Mus musculus Gene Name(s): B2m
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
KB5-C20 T-Cell receptor alpha-chain A, D 111 Mus musculus Fragment: Fv fragment , variable domain
KB5-C20 T-Cell receptor beta-chain B, E 117 Mus musculus Fragment: Fv fragment , variable domain
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SIA
Query on SIA

A O-SIALIC ACID
C11 H19 N O9
SQVRNKJHWKZAKO-YRMXFSIDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A, B, E N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GAL
Query on GAL

A BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

A ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.71 Å
  • R-Value Free: 0.278
  • R-Value Work: 0.220
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 89.20 α = 90.00
b = 77.92 β = 108.23
c = 132.96 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-12-04
  • Released Date: 2002-03-27
  • Deposition author(s): Reiser, J.-B., Gregoire, C., Darnault, C., Mosser, T., Guimezanes, A., Schmitt-Verhulst, A.-M., Fontecilla-Camps, J.C., Mazza, G., Malissen, B., Housset, D.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4