4L8C

Crystal structure of the H2Db in complex with the NP-N3D peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.186

Literature

Macromolecules
Sequence Display for 4L8C

Classification: IMMUNE SYSTEM

Total Structure Weight: 181110.50

Macromolecule Entities
Molecule Chains Length Organism Details
H-2 class I histocompatibility antigen, D-B alpha chain A, C, E, G 280 Mus musculus Fragment: UNP residues 25-304
Gene Name(s): H2-D1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Beta-2-microglobulin B, D, F, H 99 Mus musculus Fragment: UNP residues 21-119
Gene Name(s): B2m
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
NP-N3D peptide I, J, K, L 9 synthetic

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

A, C, E SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.186
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 81.57 α = 90.00
b = 85.46 β = 90.18
c = 138.51 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2013-06-16
  • Released Date: 2013-10-16
  • Deposition author(s): Rossjohn, J., Gras, S.

Revision History

  • Version 1_0: 2013-10-16

    Type: Initial release

  • Version 1_1: 2013-12-04

    Type: Database references

  • Version 1_2: 2017-11-15

    Type: Refinement description