8Z0H | pdb_00008z0h

Crystal structure of 9-mer peptide from ALV-J in complex with BF2*0201

• PDB DOI: https://doi.org/10.2210/pdb8Z0H/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Gallus gallus, Avian leukemia virus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-04-09 Released: 2025-01-15 
• Deposition Author(s): Jia, Y.S., Ma, M.L., Li, Y.L., Liao, M., Dai, M.M.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.72 Å
• R-Value Free: 
  0.212 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.182 (Depositor), 0.192 (DCC) 

Starting Model: experimental

Literature

Structure and Mechanism of ALV-J Epitope Presented by MHC Class I Molecule BF20201

Jia, Y.S., Li, Y.L., Ma, M.L., Liao, M., Dai, M.M.

(2024) Xu Mu Shou Yi Xue Bao 55: 3132-3142

• DOI: https://doi.org/10.11843/j.issn.0366-6964.2024.07.031

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

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

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 172.64 kDa 
• Atom Count: 13,619 
• Modeled Residue Count: 1,516 
• Deposited Residue Count: 1,516 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MHC class I alpha chain 2	A, C [auth D], E [auth G], G [auth J]	273	Gallus gallus	Mutation(s): 0  Gene Names: B-FIV, BF2
UniProt
Find proteins for O46789 (Gallus gallus) Explore O46789  Go to UniProtKB:  O46789

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-2-microglobulin	B, D [auth E], F [auth H], H [auth K]	97	Gallus gallus	Mutation(s): 0  Gene Names: B2M
UniProt
Find proteins for P21611 (Gallus gallus) Explore P21611  Go to UniProtKB:  P21611

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Gag protein	I, J [auth C], K [auth F], L	9	Avian leukemia virus	Mutation(s): 0
UniProt
Find proteins for G0Z7Q1 (Avian leukosis virus) Explore G0Z7Q1  Go to UniProtKB:  G0Z7Q1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.72 Å
• R-Value Free:  0.212 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.182 (Depositor), 0.192 (DCC) 

Diffraction Data: https://doi.org/10.51093/xrd-00244

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 86.614	α = 90
b = 115.584	β = 111.158
c = 94.107	γ = 90

Software Package:

Software Name	Purpose
DIALS	data reduction
DIALS	data scaling
PHASER	phasing
REFMAC	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-01-15 
Deposition Author(s): Jia, Y.S., Ma, M.L., Li, Y.L., Liao, M., Dai, M.M.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2025-01-15
  Type: Initial release
  
• Version 1.1: 2025-02-05
  Changes: Database references