3C5R | pdb_00003c5r

Crystal Structure of the BARD1 Ankyrin Repeat Domain and Its Functional Consequences

Experimental Data Snapshot

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp2.00 Å
  • R-Value Free:&nbsp
    0.268 (Depositor), 0.269 (DCC)&nbsp
  • R-Value Work:&nbsp
    0.199 (Depositor), 0.213 (DCC)&nbsp
  • R-Value Observed:&nbsp
    0.202&nbsp(Depositor)&nbsp

Starting Model: experimental
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This is version 1.2 of the entry. See complete&nbsphistory.&nbsp

Literature

Crystal Structure of the BARD1 Ankyrin Repeat Domain and Its Functional Consequences.

Fox, D.,&nbspLe Trong, I.,&nbspRajagopal, P.,&nbspBrzovic, P.S.,&nbspStenkamp, R.E.,&nbspKlevit, R.E.

(2008) J Biological Chem&nbsp283: 21179-21186

  • DOI:&nbsphttps://doi.org/10.1074/jbc.M802333200
  • Primary Citation Related Structures:&nbsp
    3C5R

  • PubMed Abstract:&nbsp

    BARD1 is the constitutive nuclear partner to the breast and ovarian cancer-specific tumor suppressor BRCA1. Together, they form a heterodimeric complex responsible for maintaining genomic stability through nuclear functions involving DNA damage signaling and repair, transcriptional regulation, and cell cycle control. We report the 2.0A structure of the BARD1 ankyrin repeat domain. The structure includes four ankyrin repeats with a non-canonical C-terminal capping ankyrin repeat and a well ordered extended loop preceding the first repeat. Conserved surface features show an acidic patch and an acidic pocket along the surface typically used by ankyrin repeat domains for binding cognate proteins. We also demonstrate that two reported mutations, N470S and V507M, in the ankyrin repeat domain do not result in observable structural defects. These results provide a structural basis for exploring the biological function of the ankyrin repeat domain and for modeling BARD1 isoforms.

    • Organizational Affiliation:&nbsp
    • Department of Biochemistry, University of Washington, Seattle, WA 98195-7350, USA.

Macromolecule Content&nbsp

  • Total Structure Weight: 29.95 kDa&nbsp
  • Atom Count: 2,176&nbsp
  • Modeled Residue Count: 249&nbsp
  • Deposited Residue Count: 274&nbsp
  • Unique protein chains: 1

Macromolecules

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|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
BRCA1-associated RING domain protein 1
A, B
137Homo sapiensMutation(s): 0&nbsp
Gene Names:&nbspBARD1
EC:&nbsp2.3.2.27
UniProt & NIH Common Fund Data Resources
Find proteins for&nbspQ99728&nbsp(Homo sapiens)
Explore&nbspQ99728&nbsp
Go to UniProtKB: &nbspQ99728
PHAROS: &nbspQ99728
GTEx: &nbspENSG00000138376&nbsp
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ99728
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp2.00 Å
  • R-Value Free:&nbsp 0.268 (Depositor), 0.269 (DCC)&nbsp
  • R-Value Work:&nbsp 0.199 (Depositor), 0.213 (DCC)&nbsp
  • R-Value Observed:&nbsp0.202&nbsp(Depositor)&nbsp
Space Group:&nbspP 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.847α = 90
b = 74.112β = 105.23
c = 51.174γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
CrystalCleardata collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

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Entry History&nbsp

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-05-13
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 1.2: 2023-08-30
    Changes: Data collection, Database references, Refinement description