1F3J

HISTOCOMPATIBILITY ANTIGEN I-AG7

• PDB DOI: https://doi.org/10.2210/pdb1F3J/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Mus musculus, Gallus gallus
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2000-06-04 Released: 2000-09-20 
• Deposition Author(s): Latek, R.R., Unanue, E.R., Fremont, D.H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free: 0.299 
• R-Value Work: 0.221 
• R-Value Observed: 0.221 

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 6-mer - A2B2C2 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 6-mer - A4B1C1 

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

Macromolecule Content

• Total Structure Weight: 90.62 kDa 
• Atom Count: 6,464 
• Modelled Residue Count: 766 
• Deposited Residue Count: 766 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
H-2 CLASS II HISTOCOMPATIBILITY ANTIGEN	A, D	182	Mus musculus	Mutation(s): 0
UniProt
Find proteins for P04228 (Mus musculus) Explore P04228  Go to UniProtKB:  P04228

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
MHC CLASS II NOD	B, E	187	Mus musculus	Mutation(s): 0
UniProt
Find proteins for Q31135 (Mus musculus) Explore Q31135  Go to UniProtKB:  Q31135

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
LYSOZYME C	C [auth P], F [auth Q]	14	Gallus gallus	Mutation(s): 0
UniProt
Find proteins for P00698 (Gallus gallus) Explore P00698  Go to UniProtKB:  P00698

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	G [auth A], H [auth A], I [auth B], J [auth D], K [auth D], L [auth E]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free: 0.299 
• R-Value Work: 0.221 
• R-Value Observed: 0.221 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 109.54	α = 90
b = 109.54	β = 90
c = 176.36	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CCP4	data reduction
SCALA	data scaling
AMoRE	phasing
CNS	refinement
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-09-20 
Deposition Author(s): Latek, R.R., Unanue, E.R., Fremont, D.H.

Revision History  

• Version 1.0: 2000-09-20
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2011-11-16
  Changes: Atomic model
• Version 1.4: 2017-10-04
  Changes: Refinement description
• Version 1.5: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.6: 2023-08-09
  Changes: Data collection, Database references, Refinement description, Structure summary