6GVW

Crystal structure of the BRCA1-A complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.75 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.227 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural Basis of BRCC36 Function in DNA Repair and Immune Regulation.

Rabl, J.Bunker, R.D.Schenk, A.D.Cavadini, S.Gill, M.E.Abdulrahman, W.Andres-Pons, A.Luijsterburg, M.S.Ibrahim, A.F.M.Branigan, E.Aguirre, J.D.Marceau, A.H.Guerillon, C.Bouwmeester, T.Hassiepen, U.Peters, A.H.F.M.Renatus, M.Gelman, L.Rubin, S.M.Mailand, N.van Attikum, H.Hay, R.T.Thoma, N.H.

(2019) Mol.Cell 75: 483-497.e9

  • DOI: 10.1016/j.molcel.2019.06.002
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • In mammals, ∼100 deubiquitinases act on ∼20,000 intracellular ubiquitination sites. Deubiquitinases are commonly regarded as constitutively active, with limited regulatory and targeting capacity. The BRCA1-A and BRISC complexes serve in DNA double-st ...

    In mammals, ∼100 deubiquitinases act on ∼20,000 intracellular ubiquitination sites. Deubiquitinases are commonly regarded as constitutively active, with limited regulatory and targeting capacity. The BRCA1-A and BRISC complexes serve in DNA double-strand break repair and immune signaling and contain the lysine-63 linkage-specific BRCC36 subunit that is functionalized by scaffold subunits ABRAXAS and ABRO1, respectively. The molecular basis underlying BRCA1-A and BRISC function is currently unknown. Here we show that in the BRCA1-A complex structure, ABRAXAS integrates the DNA repair protein RAP80 and provides a high-affinity binding site that sequesters the tumor suppressor BRCA1 away from the break site. In the BRISC structure, ABRO1 binds SHMT2α, a metabolic enzyme enabling cancer growth in hypoxic environments, which we find prevents BRCC36 from binding and cleaving ubiquitin chains. Our work explains modularity in the BRCC36 DUB family, with different adaptor subunits conferring diversified targeting and regulatory functions.


    Organizational Affiliation

    Novartis Institutes for BioMedical Research, Novartis Pharma AG, 4002 Basel, Switzerland.,Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Blegdamsvej 3b, 2200 Copenhagen N, Denmark.,Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, 4058 Basel, Switzerland; University of Basel, Petersplatz 10, 4003 Basel, Switzerland. Electronic address: nicolas.thoma@fmi.ch.,Department of Chemistry and Biochemistry, University of California, Santa Cruz, CA, USA.,Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, 4058 Basel, Switzerland; University of Basel, Petersplatz 10, 4003 Basel, Switzerland.,Leiden University Medical Center, Department of Human Genetics, Einthovenweg 20, 2333 ZC Leiden, the Netherlands.,Centre for Gene Regulation and Expression, Sir James Black Centre, School of Life Sciences, University of Dundee, Dow Street, Dundee, DD1 5EH, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
BRCA1-A complex subunit Abraxas 1
A, F
411Mus musculusMutation(s): 0 
Gene Names: Abraxas1 (Abra1, Ccdc98, Fam175a)
Find proteins for Q8BPZ8 (Mus musculus)
Go to UniProtKB:  Q8BPZ8
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Lys-63-specific deubiquitinase BRCC36
B, G
295Mus musculusMutation(s): 0 
Gene Names: Brcc3 (Brcc36, C6.1a)
EC: 3.4.19.-
Find proteins for P46737 (Mus musculus)
Go to UniProtKB:  P46737
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
BRISC and BRCA1-A complex member 2
C, H
387Mus musculusMutation(s): 0 
Gene Names: Babam2 (Bre)
Find proteins for Q8K3W0 (Mus musculus)
Go to UniProtKB:  Q8K3W0
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
BRISC and BRCA1-A complex member 1
D, I
337Mus musculusMutation(s): 0 
Gene Names: Babam1 (Merit40, Nba1)
Find proteins for Q3UI43 (Mus musculus)
Go to UniProtKB:  Q3UI43
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
BRCA1-A complex subunit RAP80
E, J
64Mus musculusMutation(s): 0 
Gene Names: Uimc1 (Rap80, Rip110, Rxrip110)
Find proteins for Q5U5Q9 (Mus musculus)
Go to UniProtKB:  Q5U5Q9
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
B, G
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.75 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.227 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 97.096α = 90.00
b = 122.645β = 90.00
c = 431.325γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
DIALSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-07-10
    Type: Initial release
  • Version 1.1: 2019-08-21
    Type: Data collection, Database references