6D0L

Structure of human TIRR

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

  • Deposited: 2018-04-10 Released: 2018-06-06 
  • Deposition Author(s): Cui, G., Botuyan, M.V., Mer, G.
  • Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI); National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS); Department of Defense (DOD, United States) 

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.174 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Mechanism of 53BP1 activity regulation by RNA-binding TIRR and a designer protein.

Botuyan, M.V.Cui, G.Drane, P.Oliveira, C.Detappe, A.Brault, M.E.Parnandi, N.Chaubey, S.Thompson, J.R.Bragantini, B.Zhao, D.Chapman, J.R.Chowdhury, D.Mer, G.

(2018) Nat. Struct. Mol. Biol. 25: 591-600

  • DOI: 10.1038/s41594-018-0083-z
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Dynamic protein interaction networks such as DNA double-strand break (DSB) signaling are modulated by post-translational modifications. The DNA repair factor 53BP1 is a rare example of a protein whose post-translational modification-binding function ...

    Dynamic protein interaction networks such as DNA double-strand break (DSB) signaling are modulated by post-translational modifications. The DNA repair factor 53BP1 is a rare example of a protein whose post-translational modification-binding function can be switched on and off. 53BP1 is recruited to DSBs by recognizing histone lysine methylation within chromatin, an activity directly inhibited by the 53BP1-binding protein TIRR. X-ray crystal structures of TIRR and a designer protein bound to 53BP1 now reveal a unique regulatory mechanism in which an intricate binding area centered on an essential TIRR arginine residue blocks the methylated-chromatin-binding surface of 53BP1. A 53BP1 separation-of-function mutation that abolishes TIRR-mediated regulation in cells renders 53BP1 hyperactive in response to DSBs, highlighting the key inhibitory function of TIRR. This 53BP1 inhibition is relieved by TIRR-interacting RNA molecules, providing proof-of-principle of RNA-triggered 53BP1 recruitment to DSBs.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, Mayo Clinic, Rochester, MN, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Tudor-interacting repair regulator protein
A, B
207Homo sapiensMutation(s): 0 
Gene Names: NUDT16L1 (SDOS, TIRR)
Find proteins for Q9BRJ7 (Homo sapiens)
Go to Gene View: NUDT16L1
Go to UniProtKB:  Q9BRJ7
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.174 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 41.890α = 92.31
b = 46.360β = 108.07
c = 48.800γ = 105.75
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXphasing
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)United StatesR01 CA132878
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01 GM116829
Department of Defense (DOD, United States)United StatesW81XWH-16-1-0391

Revision History 

  • Version 1.0: 2018-06-06
    Type: Initial release
  • Version 1.1: 2018-07-11
    Type: Data collection, Database references
  • Version 1.2: 2018-07-25
    Type: Data collection, Database references
  • Version 1.3: 2019-12-04
    Type: Author supporting evidence