4CRI

Crystal Structure of 53BP1 tandem tudor domains in complex with methylated K810 Rb peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Lysine Methylation-Dependent Binding of 53BP1 to the Prb Tumor Suppressor.

Carr, S.M.Munro, S.Zalmas, L.Fedorov, O.Johansson, C.Krojer, T.Sagum, C.A.Bedford, M.T.Oppermann, U.La Thangue, N.B.

(2014) Proc.Natl.Acad.Sci.USA 111: 11341

  • DOI: 10.1073/pnas.1403737111

  • PubMed Abstract: 
  • The retinoblastoma tumor suppressor protein pRb is a key regulator of cell cycle progression and mediator of the DNA damage response. Lysine methylation at K810, which occurs within a critical Cdk phosphorylation motif, holds pRb in the hypophosphory ...

    The retinoblastoma tumor suppressor protein pRb is a key regulator of cell cycle progression and mediator of the DNA damage response. Lysine methylation at K810, which occurs within a critical Cdk phosphorylation motif, holds pRb in the hypophosphorylated growth-suppressing state. We show here that methyl K810 is read by the tandem tudor domain containing tumor protein p53 binding protein 1 (53BP1). Structural elucidation of 53BP1 in complex with a methylated K810 pRb peptide emphasized the role of the 53BP1 tandem tudor domain in recognition of the methylated lysine and surrounding residues. Significantly, binding of 53BP1 to methyl K810 occurs on E2 promoter binding factor target genes and allows pRb activity to be effectively integrated with the DNA damage response. Our results widen the repertoire of cellular targets for 53BP1 and suggest a previously unidentified role for 53BP1 in regulating pRb tumor suppressor activity.


    Organizational Affiliation

    Department of Molecular Carcinogenesis, The University of Texas MD Anderson Cancer Center, Smithville, TX 77030.,Department of Oncology, University of Oxford, Headington, Oxford OX3 7DQ, United Kingdom; nick.lathangue@oncology.ox.ac.uk.,Department of Oncology, University of Oxford, Headington, Oxford OX3 7DQ, United Kingdom;,Structural Genomics Consortium Oxford, University of Oxford, Headington, Oxford OX3 7DQ, United Kingdom; and.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TUMOR SUPPRESSOR P53-BINDING PROTEIN 1
A, B
176Homo sapiensMutation(s): 0 
Gene Names: TP53BP1
Find proteins for Q12888 (Homo sapiens)
Go to Gene View: TP53BP1
Go to UniProtKB:  Q12888
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
RB1 PROTEIN
C, D
17Homo sapiensMutation(s): 0 
Gene Names: RB1
Find proteins for P06400 (Homo sapiens)
Go to Gene View: RB1
Go to UniProtKB:  P06400
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MLY
Query on MLY
C, D
L-PEPTIDE LINKINGC8 H18 N2 O2LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.194 
  • Space Group: P 61 2 2
Unit Cell:
Length (Å)Angle (°)
a = 105.789α = 90.00
b = 105.789β = 90.00
c = 156.153γ = 120.00
Software Package:
Software NamePurpose
PHASERphasing
PHENIXrefinement
Aimlessdata scaling
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-08-06
    Type: Initial release
  • Version 1.1: 2014-08-20
    Type: Database references