6JDE

crystal structure of a DNA repair protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.229 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Crystal structure of a novel ATPase RadD from Escherichia coli.

Kuang, X.Tang, Q.Liu, Y.P.Yan, X.X.Xu, W.

(2019) Proteins 87: 791-795

  • DOI: https://doi.org/10.1002/prot.25704
  • Primary Citation of Related Structures:  
    6JDE

  • PubMed Abstract: 

    The helicase superfamily 2 (SF2) proteins are involved in essentially every step in DNA and RNA metabolism. The radD (yejH) gene, which belongs to SF2, plays an important role in DNA repair. The RadD protein includes all seven conserved SF2 motifs and has shown ATPase activity. Here, we first reported the structure of RadD from Escherichia coli containing two RecA-like domains, a zinc finger motif, and a C-terminal domain. Based on the structure of RadD and other SF2 proteins, we then built a model of the RedD-ATP complex.


  • Organizational Affiliation

    College of Life Sciences, University of Chinese Academy of Sciences, Beijing, People's Republic of China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Putative DNA repair helicase RadDA [auth B],
B [auth A]
586Escherichia coli K-12Mutation(s): 0 
Gene Names: radDyejHyejIyejJb2184JW2172
EC: 3.6.4.12
UniProt
Find proteins for P33919 (Escherichia coli (strain K12))
Explore P33919 
Go to UniProtKB:  P33919
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP33919
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.229 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 80.515α = 90
b = 78.455β = 98.5
c = 110.587γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
AutoSolphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-06-26
    Type: Initial release
  • Version 1.1: 2019-08-14
    Changes: Data collection, Database references