6OE9 | pdb_00006oe9

Crystal structure of p204 HIN1 domain

• PDB DOI: https://doi.org/10.2210/pdb6OE9/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Mus musculus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-03-27 Released: 2019-07-10 
• Deposition Author(s): Tian, Y., Yin, Q.
• Funding Organization(s): National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free: 
  0.192 (Depositor), 0.201 (DCC) 
• R-Value Work: 
  0.172 (Depositor), 0.182 (DCC) 
• R-Value Observed: 
  0.174 (Depositor) 

Starting Model: experimental

Literature

Structural analysis of the HIN1 domain of interferon-inducible protein 204.

Tian, Y., Yin, Q.

(2019) Acta Crystallogr F Struct Biol Commun 75: 455-460

• PubMed: 31204693 
• DOI: https://doi.org/10.1107/S2053230X19007167
• Primary Citation Related Structures: 
  6OE9


• PubMed Abstract: 
  

  Interferon-inducible protein 204 (p204) binds to microbial DNA to elicit inflammatory responses and induce interferon production. p204 also modulates cell proliferation and differentiation by regulating various transcription factors. The C-terminal HIN domains in p204 are believed to be responsible for DNA binding, but the binding mode is not fully understood. The DNA-binding affinity of the p204 HIN1 domain has been characterized and its crystal structure has been determined, providing insight into its interaction with DNA. Surface-charge distribution together with sequence alignment suggests that the p204 HIN domain uses its L12 and L45 loops for DNA binding.

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Organizational Affiliation: 
• Department of Biological Science, Florida State University, Tallahassee, FL 32306, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 23.89 kDa 
• Atom Count: 1,843 
• Modeled Residue Count: 201 
• Deposited Residue Count: 205 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Interferon-activable protein 204	A	205	Mus musculus	Mutation(s): 0  Gene Names: Ifi204
UniProt & NIH Common Fund Data Resources
Find proteins for P0DOV2 (Mus musculus) Explore P0DOV2  Go to UniProtKB:  P0DOV2
IMPC:  MGI:96429

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	F [auth A], G [auth A], H [auth A], I [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	B [auth A], C [auth A], D [auth A], E [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free:  0.192 (Depositor), 0.201 (DCC) 
• R-Value Work:  0.172 (Depositor), 0.182 (DCC) 
• R-Value Observed: 0.174 (Depositor) 

Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.383	α = 90
b = 58.383	β = 90
c = 315.836	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2019-07-10 
Deposition Author(s): Tian, Y., Yin, Q.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)	United States	R00AI108793

Revision History  

• Version 1.0: 2019-07-10
  Type: Initial release
  
• Version 1.1: 2019-12-18
  Changes: Author supporting evidence
• Version 1.2: 2023-10-11
  Changes: Data collection, Database references, Refinement description