5GOX

Eukaryotic Rad50 Functions as A Rod-shaped Dimer


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.405 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.213 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Eukaryotic Rad50 functions as a rod-shaped dimer

Park, Y.B.Hohl, M.Padjasek, M.Jeong, E.Jin, K.S.Krezel, A.Petrini, J.H.J.Cho, Y.

(2017) Nat. Struct. Mol. Biol. 24: 248-257

  • DOI: 10.1038/nsmb.3369

  • PubMed Abstract: 
  • The Rad50 hook interface is crucial for assembly and various functions of the Mre11 complex. Previous analyses suggested that Rad50 molecules interact within (intracomplex) or between (intercomplex) dimeric complexes. In this study, we determined the ...

    The Rad50 hook interface is crucial for assembly and various functions of the Mre11 complex. Previous analyses suggested that Rad50 molecules interact within (intracomplex) or between (intercomplex) dimeric complexes. In this study, we determined the structure of the human Rad50 hook and coiled-coil domains. The data suggest that the predominant structure is the intracomplex, in which the two parallel coiled coils proximal to the hook form a rod shape, and that a novel interface within the coiled-coil domains of Rad50 stabilizes the interaction of Rad50 protomers in the dimeric assembly. In yeast, removal of the coiled-coil interface compromised Tel1 activation without affecting DNA repair, while simultaneous disruption of that interface and the hook phenocopied a null mutation. The results demonstrate that the hook and coiled-coil interfaces coordinately promote intracomplex assembly and define the intracomplex as the functional form of the Mre11 complex.


    Organizational Affiliation

    Department of Life Sciences, Pohang University of Science and Technology, Pohang, South Korea.,Laboratory of Chemical Biology, University of Wrocław, Wrocław, Poland.,Molecular Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, USA.,Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang, South Korea.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DNA repair protein RAD50
A, B
186Homo sapiensMutation(s): 0 
Gene Names: RAD50
EC: 3.6.-.-
Find proteins for Q92878 (Homo sapiens)
Go to Gene View: RAD50
Go to UniProtKB:  Q92878
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.405 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.213 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 42.180α = 90.00
b = 61.972β = 99.75
c = 81.540γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
PHENIXrefinement
HKL-2000data collection
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-02-01
    Type: Initial release
  • Version 1.1: 2017-03-15
    Type: Database references