8J4G

Crystal structure of 11JD mutant-I62N

• PDB DOI: https://doi.org/10.2210/pdb8J4G/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Anas platyrhynchos, unidentified influenza virus
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG, synthetic construct
• Mutation(s): Yes 


• Deposited: 2023-04-19 Released: 2024-04-24 
• Deposition Author(s): Tang, Z., Zhang, N.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.49 Å
• R-Value Free: 0.258 
• R-Value Work: 0.190 
• R-Value Observed: 0.193 

Literature

Structure of duck MHC 11JD mutant-I62N

Tang, Z., Zhang, N.

To be published.

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)

Macromolecule Content

• Total Structure Weight: 88.93 kDa 
• Atom Count: 6,379 
• Modelled Residue Count: 758 
• Deposited Residue Count: 766 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MHC class I antigen	A, D	271	Anas platyrhynchos	Mutation(s): 1  Gene Names: Anpl-UAA
UniProt
Find proteins for A0A2Z4U0D0 (Anas platyrhynchos) Explore A0A2Z4U0D0  Go to UniProtKB:  A0A2Z4U0D0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-2-microglobulin	B, E	103	Anas platyrhynchos	Mutation(s): 0  Gene Names: b2m
UniProt
Find proteins for Q14U75 (Anas platyrhynchos) Explore Q14U75  Go to UniProtKB:  Q14U75

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
peptide of AIV	C, F	9	unidentified influenza virus	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.49 Å
• R-Value Free: 0.258 
• R-Value Work: 0.190 
• R-Value Observed: 0.193 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 86.605	α = 90
b = 91.866	β = 90
c = 117.814	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-04-24 
Deposition Author(s): Tang, Z., Zhang, N.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32172871

Revision History  

• Version 1.0: 2024-04-24
  Type: Initial release