Biological Assembly 1  

 3D View: Structure | Electron Density

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 12412.96 
• Atom Count: 818 
• Residue Count: 109 
• Unique protein chains: 1

3JVE

Crystal Structure of the Sixth BRCT Domain of TopBP1

• DOI: 10.2210/pdb3JVE/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2009-09-16 Released: 2010-01-19 
• Deposition Author(s): Leung, C.C., Kellogg, E., Baker, D., Glover, J.N.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.34 Å
• R-Value Free: 0.173 
• R-Value Work: 0.158 

Literature

Insights from the crystal structure of the sixth BRCT domain of topoisomerase IIbeta binding protein 1.

Leung, C.C., Kellogg, E., Kuhnert, A., Hanel, F., Baker, D., Glover, J.N.

(2010) Protein Sci. 19: 162-167

• PubMed: 19937654 
• DOI: 10.1002/pro.290


• PubMed Abstract: 
  

Topoisomerase IIbeta binding protein 1 (TopBP1) is a major player in the DNA damage response and interacts with a number of protein partners via its eight BRCA1 carboxy-terminal (BRCT) domains. In particular, the sixth BRCT domain of TopBP1 has been implicated in binding to the phosphorylated transcription factor, E2F1, and poly(ADP-ribose) polymerase 1 (PARP-1), where the latter interaction is responsible for the poly(ADP-ribosyl)ation of TopBP1. To gain a better understanding of the nature of TopBP1 BRCT6 interactions, we solved the crystal structure of BRCT6 to 1.34 A. The crystal structure reveals a degenerate phospho-peptide binding pocket and lacks conserved hydrophobic residues involved in packing of tandem BRCT repeats, which, together with results from phospho-peptide binding studies, strongly suggest that TopBP1 BRCT6 independently does not function as a phospho-peptide binding domain. We further provide insight into poly(ADP-ribose) binding and sites of potential modification by PARP-1.

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Organizational Affiliation: 

Department of Biochemistry, University of Alberta, Edmonton, Alberta, Canada T6G 2H7.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
DNA topoisomerase 2-binding protein 1	A	109	Homo sapiens	Mutation(s): 0  Gene Names: TOPBP1 (KIAA0259)
Find proteins for Q92547 (Homo sapiens) Go to Gene View: TOPBP1 Go to UniProtKB:  Q92547

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.34 Å
• R-Value Free: 0.173 
• R-Value Work: 0.158 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 35.767	α = 90.00
b = 51.824	β = 90.00
c = 62.086	γ = 90.00

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
PHASER	phasing
PDB_EXTRACT	data extraction
HKL-2000	data collection
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-09-16 
• Released Date: 2010-01-19 
• Deposition Author(s): Leung, C.C., Kellogg, E., Baker, D., Glover, J.N.M.

Revision History 

• Version 1.0: 2010-01-19
  Type: Initial release
• Version 1.1: 2011-07-13
  Type: Version format compliance
• Version 1.2: 2017-11-01
  Type: Refinement description