7UDI

Full-length dimer of DNA-Damage Response Protein C from Deinococcus radiodurans

• PDB DOI: https://doi.org/10.2210/pdb7UDI/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Deinococcus radiodurans
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2022-03-19 Released: 2023-02-22 
• Deposition Author(s): Szabla, R., Li, M.C., Junop, M.S.
• Funding Organization(s): Natural Sciences and Engineering Research Council (NSERC, Canada)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.24 Å
• R-Value Free: 0.250 
• R-Value Work: 0.231 
• R-Value Observed: 0.231 

Literature

Full-length dimer of DNA-Damage Response Protein C from Deinococcus radiodurans

Szabla, R., Li, M.C., Junop, M.S.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration, homology

Macromolecule Content

• Total Structure Weight: 51.2 kDa 
• Atom Count: 3,293 
• Modelled Residue Count: 430 
• Deposited Residue Count: 462 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA damage response protein DdrC	A, B	231	Deinococcus radiodurans	Mutation(s): 0
UniProt
Find proteins for Q9RYE6 (Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / CCUG 27074 / LMG 4051 / NBRC 15346 / NCIMB 9279 / VKM B-1422 / R1)) Explore Q9RYE6  Go to UniProtKB:  Q9RYE6

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth B], E [auth B], F [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.24 Å
• R-Value Free: 0.250 
• R-Value Work: 0.231 
• R-Value Observed: 0.231 
• Space Group: P 4₁
• Diffraction Data: https://doi.org/10.5281/zenodo.10022358

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.698	α = 90
b = 66.698	β = 90
c = 129.581	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
autoPROC	data reduction
autoPROC	data scaling
AutoSol	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-02-22 
Deposition Author(s): Szabla, R., Li, M.C., Junop, M.S.

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Funding Organization	Location	Grant Number
Natural Sciences and Engineering Research Council (NSERC, Canada)	Canada	2008R00075

Revision History  

• Version 1.0: 2023-02-22
  Type: Initial release
  
• Version 1.1: 2023-10-25
  Changes: Data collection, Database references
• Version 1.2: 2023-11-15
  Changes: Data collection