6CO2 image
Deposition Date 2018-03-10
Release Date 2018-06-06
Last Version Date 2023-10-04
Entry Detail
PDB ID:
6CO2
Keywords:
Title:
Structure of an engineered protein (NUDT16TI) in complex with 53BP1 Tudor domains
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.49 Å
R-Value Free:
0.26
R-Value Work:
0.21
R-Value Observed:
0.22
Space Group:
P 43 21 2
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NUDT16-Tudor-interacting (NUDT16TI)
Gene (Uniprot):NUDT16
Chain IDs:A, B
Chain Length:196
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:TP53-binding protein 1
Gene (Uniprot):TP53BP1
Chain IDs:C, D
Chain Length:123
Number of Molecules:2
Biological Source:Homo sapiens
Primary Citation
Mechanism of 53BP1 activity regulation by RNA-binding TIRR and a designer protein.
Nat. Struct. Mol. Biol. 25 591 600 (2018)
PMID: 29967538 DOI: 10.1038/s41594-018-0083-z

Abstact

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.

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