1M05

HLA B8 in complex with an Epstein Barr Virus determinant

Structural Biology Knowledgebase: 1M05 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.283
  • R-Value Work: 0.242

Literature

Macromolecules
Sequence Display for 1M05

Classification: IMMUNE SYSTEM

Total Structure Weight: 89860.55

Macromolecule Entities
Molecule Chains Length Organism Details
HLA class I histocompatibility antigen, B-8 B*0801 alpha chain A, C 277 Homo sapiens Fragment: residues 25-301
Details: truncation mutant
Gene Name(s): HLA-B Gene View HLAB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Beta-2-microglobulin B, D 99 Homo sapiens Fragment: residues 21-119
Gene Name(s): B2M Gene View CDABP0092 HDCMA22P
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
EBNA-3 nuclear protein E, F 9 Human herpesvirus 4 Fragment: residues 193-201
Mutation: I9L
Gene Name(s): EBNA3 BLRF3-BERF1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

B, D CADMIUM ION
Cd
WLZRMCYVCSSEQC-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.283
  • R-Value Work: 0.242
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 85.40 α = 90.00
b = 90.10 β = 90.00
c = 125.30 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-06-11
  • Released Date: 2003-09-02
  • Deposition author(s): Kjer-Nielsen, L., Clements, C.S., Brooks, A.G., Purcell, A.W., Fontes, M.R., McCluskey, J., Rossjohn, J.

Revision History

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