7OGS

X-ray Structure of Interferon Regulatory Factor 4 DNA binding domain bound to an interferon-stimulated response element

• PDB DOI: https://doi.org/10.2210/pdb7OGS/pdb
• NAKB: 7OGS

• Classification: DNA BINDING PROTEIN
• Organism(s): Homo sapiens, synthetic construct
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2021-05-07 Released: 2022-06-01 
• Deposition Author(s): Agnarelli, A., El Omari, K., Alt, A.O., Mancini, E.J.
• Funding Organization(s): Wellcome Trust

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.37 Å
• R-Value Free: 0.249 
• R-Value Work: 0.217 
• R-Value Observed: 0.218 

Literature

X-ray Structure of Interferon Regulatory Factor 4 DNA binding domain bound to interferon-stimulated response element

Agnarelli, A., El Omari, K., Alt, A.O., Mancini, E.J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 89.76 kDa 
• Atom Count: 5,432 
• Modelled Residue Count: 536 
• Deposited Residue Count: 644 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Interferon regulatory factor 4	A, B, E, F	141	Homo sapiens	Mutation(s): 0  Gene Names: IRF4, MUM1
UniProt & NIH Common Fund Data Resources
Find proteins for Q15306 (Homo sapiens) Explore Q15306  Go to UniProtKB:  Q15306
PHAROS:  Q15306 GTEx:  ENSG00000137265

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*TP*GP*TP*AP*CP*TP*TP*TP*CP*GP*GP*TP*TP*TP*CP*AP*GP*TP*TP*A)-3')	C, G	20	synthetic construct

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*AP*TP*AP*AP*CP*TP*GP*AP*AP*AP*CP*CP*GP*AP*AP*AP*GP*TP*AP*C)-3')	D, H	20	synthetic construct

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.37 Å
• R-Value Free: 0.249 
• R-Value Work: 0.217 
• R-Value Observed: 0.218 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.347	α = 90
b = 66.082	β = 90
c = 202.195	γ = 90

Software Package:

Software Name	Purpose
xia2	data reduction
xia2	data scaling
PHASER	phasing
PHENIX	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-06-01 
Deposition Author(s): Agnarelli, A., El Omari, K., Alt, A.O., Mancini, E.J.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	204833/Z/16/Z

Revision History  

• Version 1.0: 2022-06-01
  Type: Initial release
  
• Version 1.1: 2022-06-22
  Changes: Derived calculations
• Version 1.2: 2024-01-31
  Changes: Data collection, Refinement description