3JV5 | pdb_00003jv5

Crystal structure of the dimerization domains p52 homodimer

• PDB DOI: https://doi.org/10.2210/pdb3JV5/pdb

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


• Deposited: 2009-09-15 Released: 2010-11-24 
• Deposition Author(s): Vu, D., Huang, D.B., Ghosh, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 
  0.268 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.209 (Depositor), 0.230 (DCC) 

Literature

Instability of the RelB dimerization domain is functionally important

Vu, D., Huang, D.B., Ghosh, G.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 48.41 kDa 
• Atom Count: 3,562 
• Modeled Residue Count: 411 
• Deposited Residue Count: 416 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nuclear factor NF-kappa-B p100 subunit	A, B, C, D	104	Mus musculus	Mutation(s): 0  Gene Names: p52
UniProt
Find proteins for Q9WTK5 (Mus musculus) Explore Q9WTK5  Go to UniProtKB:  Q9WTK5

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free:  0.268 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.209 (Depositor), 0.230 (DCC) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.433	α = 90
b = 56.863	β = 97.77
c = 102.192	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
PDB_EXTRACT	data extraction
MAR345dtb	data collection
HKL-2000	data reduction
HKL-2000	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-11-24 
Deposition Author(s): Vu, D., Huang, D.B., Ghosh, G.

Revision History  

• Version 1.0: 2010-11-24
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references