2ING

X-ray Structure of the BRCA1 BRCT mutant M1775K


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.6 Å
  • R-Value Free: 0.302 
  • R-Value Work: 0.247 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Pathogenicity of the BRCA1 missense variant M1775K is determined by the disruption of the BRCT phosphopeptide-binding pocket: a multi-modal approach.

Tischkowitz, M.Hamel, N.Carvalho, M.A.Birrane, G.Soni, A.van Beers, E.H.Joosse, S.A.Wong, N.Novak, D.Quenneville, L.A.Grist, S.A.Nederlof, P.M.Goldgar, D.E.Tavtigian, S.V.Monteiro, A.N.Ladias, J.A.Foulkes, W.D.

(2008) Eur.J.Hum.Genet. 16: 820-832

  • DOI: 10.1038/ejhg.2008.13

  • PubMed Abstract: 
  • A number of germ-line mutations in the BRCA1 gene confer susceptibility to breast and ovarian cancer. However, it remains difficult to determine whether many single amino-acid (missense) changes in the BRCA1 protein that are frequently detected in th ...

    A number of germ-line mutations in the BRCA1 gene confer susceptibility to breast and ovarian cancer. However, it remains difficult to determine whether many single amino-acid (missense) changes in the BRCA1 protein that are frequently detected in the clinical setting are pathologic or not. Here, we used a combination of functional, crystallographic, biophysical, molecular and evolutionary techniques, and classical genetic segregation analysis to demonstrate that the BRCA1 missense variant M1775K is pathogenic. Functional assays in yeast and mammalian cells showed that the BRCA1 BRCT domains carrying the amino-acid change M1775K displayed markedly reduced transcriptional activity, indicating that this variant represents a deleterious mutation. Importantly, the M1775K mutation disrupted the phosphopeptide-binding pocket of the BRCA1 BRCT domains, thereby inhibiting the BRCA1 interaction with the proteins BRIP1 and CtIP, which are involved in DNA damage-induced checkpoint control. These results indicate that the integrity of the BRCT phosphopeptide-binding pocket is critical for the tumor suppression function of BRCA1. Moreover, this study demonstrates that multiple lines of evidence obtained from a combination of functional, structural, molecular and evolutionary techniques, and classical genetic segregation analysis are required to confirm the pathogenicity of rare variants of disease-susceptibility genes and obtain important insights into the underlying pathogenetic mechanisms.


    Organizational Affiliation

    Department of Oncology, McGill University, Montréal, Quebec, Canada.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Breast cancer type 1 susceptibility protein
X
213Homo sapiensMutation(s): 1 
Gene Names: BRCA1 (RNF53)
EC: 2.3.2.27
Find proteins for P38398 (Homo sapiens)
Go to Gene View: BRCA1
Go to UniProtKB:  P38398
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
X
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
CO
Query on CO

Download SDF File 
Download CCD File 
X
COBALT (II) ION
Co
XLJKHNWPARRRJB-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.6 Å
  • R-Value Free: 0.302 
  • R-Value Work: 0.247 
  • Space Group: P 61 2 2
Unit Cell:
Length (Å)Angle (°)
a = 114.340α = 90.00
b = 114.340β = 90.00
c = 119.878γ = 120.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
HKL-2000data scaling
DENZOdata reduction
MOLREPphasing
PDB_EXTRACTdata extraction
REFMACrefinement
HKL-2000data reduction
HKL-2000data collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2007-09-04
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Derived calculations, Version format compliance
  • Version 1.2: 2017-10-18
    Type: Refinement description