3UOT

Crystal Structure of MDC1 FHA Domain in Complex with a Phosphorylated Peptide from the MDC1 N-terminus

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.205 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history. 

Literature

The molecular basis of ATM-dependent dimerization of the Mdc1 DNA damage checkpoint mediator.

Jungmichel, S., Clapperton, J.A., Lloyd, J., Hari, F.J., Spycher, C., Pavic, L., Li, J., Haire, L.F., Bonalli, M., Larsen, D.H., Lukas, C., Lukas, J., MacMillan, D., Nielsen, M.L., Stucki, M., Smerdon, S.J.

(2012) Nucleic Acids Res. 40: 3913-3928

  • DOI: 10.1093/nar/gkr1300
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    • Mdc1 is a large modular phosphoprotein scaffold that maintains signaling and repair complexes at double-stranded DNA break sites. Mdc1 is anchored to damaged chromatin through interaction of its C-terminal BRCT-repeat domain with the tail of γH2AX fo ...

    Mdc1 is a large modular phosphoprotein scaffold that maintains signaling and repair complexes at double-stranded DNA break sites. Mdc1 is anchored to damaged chromatin through interaction of its C-terminal BRCT-repeat domain with the tail of γH2AX following DNA damage, but the role of the N-terminal forkhead-associated (FHA) domain remains unclear. We show that a major binding target of the Mdc1 FHA domain is a previously unidentified DNA damage and ATM-dependent phosphorylation site near the N-terminus of Mdc1 itself. Binding to this motif stabilizes a weak self-association of the FHA domain to form a tight dimer. X-ray structures of free and complexed Mdc1 FHA domain reveal a 'head-to-tail' dimerization mechanism that is closely related to that seen in pre-activated forms of the Chk2 DNA damage kinase, and which both positively and negatively influences Mdc1 FHA domain-mediated interactions in human cells prior to and following DNA damage.

    Organizational Affiliation: 

    Institute of Veterinary Biochemistry and Molecular Biology, University of Zürich - Irchel, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Mediator of DNA damage checkpoint protein 1
A, B
122Homo sapiensMutation(s): 0 
Gene Names: MDC1 (KIAA0170, NFBD1)
Find proteins for Q14676 (Homo sapiens)
Go to Gene View: MDC1
Go to UniProtKB:  Q14676
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Mediator of DNA damage checkpoint protein 1
D, E
10Homo sapiensMutation(s): 1 
Gene Names: MDC1 (KIAA0170, NFBD1)
Find proteins for Q14676 (Homo sapiens)
Go to Gene View: MDC1
Go to UniProtKB:  Q14676
Small Molecules
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, D, E
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
TPO
Query on TPO
D, E
L-PEPTIDE LINKINGC4 H10 N O6 PTHR
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.205 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 58.485α = 90.00
b = 59.880β = 90.00
c = 72.081γ = 90.00
Software Package:
Software NamePurpose
SOLVEphasing
HKL-2000data collection
HKL-2000data reduction
REFMACrefinement
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-12-28
    Type: Initial release
  • Version 1.1: 2012-07-18
    Type: Database references