8TNJ | pdb_00008tnj

Cryo-EM structure of HLA-B*73:01 bound to a 9mer peptide and two Fabs

• PDB DOI: https://doi.org/10.2210/pdb8TNJ/pdb
• EM Map EMD-41418: EMDB EMDataResource

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Trichoplusia ni, Escherichia coli
• Mutation(s): No 


• Deposited: 2023-08-02 Released: 2024-08-14 
• Deposition Author(s): Ross, P., Adams, E.J., Lodwick, J., Zhao, M., Slezak, T., Kossiakoff, A.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.10 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Models: experimental, in silico

Literature

Cryo-EM structure of HLA-B*73:01 bound to a 9mer peptide and two Fabs

Ross, P., Adams, E.J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A1B1C1D1E1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 5-mer - A2B2C1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 146.14 kDa 
• Atom Count: 8,073 
• Modeled Residue Count: 1,040 
• Deposited Residue Count: 1,340 
• Unique protein chains: 5

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
9mer peptide,Beta-2-microglobulin,MHC class I antigen chimera	A	439	Homo sapiens	Mutation(s): 0  Gene Names: B2M, HLA-B
UniProt & NIH Common Fund Data Resources
Find proteins for A0A858LJX3 (Homo sapiens) Explore A0A858LJX3  Go to UniProtKB:  A0A858LJX3
Find proteins for P61769 (Homo sapiens) Explore P61769  Go to UniProtKB:  P61769
PHAROS:  P61769 GTEx:  ENSG00000166710
UniProt Groups	A0A858LJX3P61769

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
B.8 Fab light chain	B [auth C]	216	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
B.8 Fab heavy chain	C [auth D]	232	Homo sapiens	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
B.1 Fab heavy chain	D [auth E]	238	Homo sapiens	Mutation(s): 0

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
B.1 Fab light chain	E [auth F]	215	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.10 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-08-14 
Deposition Author(s): Ross, P., Adams, E.J., Lodwick, J., Zhao, M., Slezak, T., Kossiakoff, A.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	--

Revision History  

• Version 1.0: 2024-08-14
  Type: Initial release
  
• Version 1.1: 2024-10-16
  Changes: Data collection, Structure summary