1LDP

CRYSTAL STRUCTURE OF MURINE MHC CLASS I H-2LD WITH A MIXTURE OF BOUND PEPTIDES

Structural Biology Knowledgebase: 1LDP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.371
  • R-Value Work: 0.221

Literature

Macromolecules
Sequence Display for 1LDP

Classification: COMPLEX (MHC I / PEPTIDE)

Total Structure Weight: 45546.36

Macromolecule Entities
Molecule Chains Length Organism Details
MHC CLASS I H-2LD H 272 Mus musculus Fragment: CHAIN H IS THE HEAVY CHAIN, PEPTIDE BINDING DOMAIN, CHAIN L IS THE LIGHT CHAIN OR BETA-2-MICROGLOBULIN
Details: ASPARAGINE LINKED N-ACETYL-GLUCOSAMINE CARBOHYDRATES AT CHAIN H, N86 AND N176
Gene Name(s): H2-L
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
MHC CLASS I H-2LD L 99 Mus musculus Fragment: CHAIN H IS THE HEAVY CHAIN, PEPTIDE BINDING DOMAIN, CHAIN L IS THE LIGHT CHAIN OR BETA-2-MICROGLOBULIN
Details: ASPARAGINE LINKED N-ACETYL-GLUCOSAMINE CARBOHYDRATES AT CHAIN H, N86 AND N176
Gene Name(s): B2m
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PEPTIDE P 9 Drosophila melanogaster Fragment: CHAIN P IS A PEPTIDE, CHAIN Q IS A MODEL OF PEPTIDE QL9 DERIVED FROM P
PEPTIDE Q 9 Drosophila melanogaster Fragment: CHAIN P IS A PEPTIDE, CHAIN Q IS A MODEL OF PEPTIDE QL9 DERIVED FROM P

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

H 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.371
  • R-Value Work: 0.221
  • Space Group: P 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 72.40 α = 90.00
b = 48.98 β = 97.95
c = 84.06 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-03-15
  • Released Date: 1998-06-17
  • Deposition author(s): Speir, J.A., Wilson, I.A.

Revision History

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