Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - AB 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 44680.14 
• Atom Count: 3167 
• Residue Count: 383 
• Unique protein chains: 3

4HS3

Crystal structure of H-2Kb with a disulfide stabilized F pocket in complex with the LCMV derived peptide GP34

• DOI: 10.2210/pdb4HS3/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Mus musculus, Lymphocytic choriomeningitis mammarenavirus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): 3 


• Deposited: 2012-10-29 Released: 2014-05-07 
• Deposition Author(s): Uchtenhagen, H., Boulanger, B., Hein, Z., Abualrous, E.T., Zacharias, M., Werner, J., Elliott, T., Springer, S., Achour, A.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.1 Å
• R-Value Free: 0.239 
• R-Value Work: 0.187 

Literature

Peptide-independent stabilization of MHC class I molecules breaches cellular quality control.

Hein, Z., Uchtenhagen, H., Abualrous, E.T., Saini, S.K., Janen, L., Van Hateren, A., Wiek, C., Hanenberg, H., Momburg, F., Achour, A., Elliott, T., Springer, S., Boulanger, D.

(2014) J.Cell.Sci. 127: 2885-2897

• PubMed: 24806963 
• DOI: 10.1242/jcs.145334


• PubMed Abstract: 
  

The intracellular trafficking of major histocompatibility complex class I (MHC-I) proteins is directed by three quality control mechanisms that test for their structural integrity, which is correlated to the binding of high-affinity antigenic peptide ligands. To investigate which molecular features of MHC-I these quality control mechanisms detect, we have followed the hypothesis that suboptimally loaded MHC-I molecules are characterized by their conformational mobility in the F-pocket region of the peptide-binding site. We have created a novel variant of an MHC-I protein, K(b)-Y84C, in which two α-helices in this region are linked by a disulfide bond that mimics the conformational and dynamic effects of bound high-affinity peptide. K(b)-Y84C shows a remarkable increase in the binding affinity to its light chain, beta-2 microglobulin (β2m), and bypasses all three cellular quality control steps. Our data demonstrate (1) that coupling between peptide and β2m binding to the MHC-I heavy chain is mediated by conformational dynamics; (2) that the folded conformation of MHC-I, supported by β2m, plays a decisive role in passing the ER-to-cell-surface transport quality controls; and (3) that β2m association is also tested by the cell surface quality control that leads to MHC-I endocytosis.

---

Organizational Affiliation: 

Molecular Life Science Center, Jacobs University Bremen, 28759 Bremen, Germany.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
H-2 class I histocompatibility antigen, K-B alpha chain	A	276	Mus musculus	Mutation(s): 2  Gene Names: H2-K1 (H2-K)
Find proteins for P01901 (Mus musculus) Go to UniProtKB:  P01901

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Beta-2-microglobulin	B	99	Mus musculus	Mutation(s): 0  Gene Names: B2m
Find proteins for P01887 (Mus musculus) Go to UniProtKB:  P01887

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
Envelope glycoprotein	C	8	Lymphocytic choriomeningitis mammarenavirus	Mutation(s): 1  Gene Names: Gp-C
Find proteins for Q9WKU1 (Lymphocytic choriomeningitis mammarenavirus) Go to UniProtKB:  Q9WKU1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
PO4	A	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
MPD	B	(4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.1 Å
• R-Value Free: 0.239 
• R-Value Work: 0.187 
• Space Group: P 2 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 45.590	α = 90.00
b = 90.570	β = 90.00
c = 137.370	γ = 90.00

Software Package:

Software Name	Purpose
MxCuBE	data collection
PHASER	phasing
MOSFLM	data reduction
PHENIX	refinement
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-10-29 
• Released Date: 2014-05-07 
• Deposition Author(s): Uchtenhagen, H., Boulanger, B., Hein, Z., Abualrous, E.T., Zacharias, M., Werner, J., Elliott, T., Springer, S., Achour, A.

Revision History 

• Version 1.0: 2014-05-07
  Type: Initial release
• Version 1.1: 2014-05-21
  Type: Database references
• Version 1.2: 2014-07-16
  Type: Database references