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Title: Structure of the AvrBs3–DNA complex provides new insights into the initial thymine-recognition mechanism

Abstract

The crystal structure of the AvrBs3–DNA complex is reported. Transcription activator-like effectors contain a DNA-binding domain organized in tandem repeats. The repeats include two adjacent residues known as the repeat variable di-residue, which recognize a single base pair, establishing a direct code between the dipeptides and the target DNA. This feature suggests this scaffold as an excellent candidate to generate new protein–DNA specificities for biotechnological applications. Here, the crystal structure of AvrBs3 (residues 152–895, molecular mass 82 kDa) in complex with its target DNA sequence is presented, revealing a new mode of interaction with the initial thymine of the target sequence, together with an analysis of both the binding specificity and the thermodynamic properties of AvrBs3. This study quantifies the affinity and the specificity between AvrBs3 and its target DNA. Moreover, in vitro and in vivo analyses reveal that AvrBs3 does not show a strict nucleotide-binding preference for the nucleotide at the zero position of the DNA, widening the number of possible sequences that could be targeted by this scaffold.

Authors:
; ; ;  [1]; ; ; ;  [2];  [1]
  1. Spanish Cancer Research Centre (CNIO), Melchor Fernandez Almagro, 28029 Madrid (Spain)
  2. Cellectis, 8 Rue de la Croix Jarry, 75013 Paris (France)
Publication Date:
OSTI Identifier:
22347821
Resource Type:
Journal Article
Resource Relation:
Journal Name: Acta Crystallographica. Section D: Biological Crystallography; Journal Volume: 69; Journal Issue: Pt 9; Other Information: PMCID: PMC3760130; PMID: 23999294; PUBLISHER-ID: yt5053; OAI: oai:pubmedcentral.nih.gov:3760130; Copyright (c) Stella et al. 2013; This is an open-access article distributed under the terms of the Creative Commons Attribution Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.; Country of input: International Atomic Energy Agency (IAEA)
Country of Publication:
Denmark
Language:
English
Subject:
75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND SUPERFLUIDITY; AFFINITY; CRYSTAL STRUCTURE; CRYSTALS; DNA; IN VITRO; IN VIVO; INTERACTIONS; MASS; PROTEINS; SPECIFICITY; THERMODYNAMIC PROPERTIES

Citation Formats

Stella, Stefano, Molina, Rafael, Yefimenko, Igor, Prieto, Jesús, Silva, George, Bertonati, Claudia, Juillerat, Alexandre, Duchateau, Phillippe, and Montoya, Guillermo, E-mail: gmontoya@cnio.es. Structure of the AvrBs3–DNA complex provides new insights into the initial thymine-recognition mechanism. Denmark: N. p., 2013. Web. doi:10.1107/S0907444913016429.
Stella, Stefano, Molina, Rafael, Yefimenko, Igor, Prieto, Jesús, Silva, George, Bertonati, Claudia, Juillerat, Alexandre, Duchateau, Phillippe, & Montoya, Guillermo, E-mail: gmontoya@cnio.es. Structure of the AvrBs3–DNA complex provides new insights into the initial thymine-recognition mechanism. Denmark. doi:10.1107/S0907444913016429.
Stella, Stefano, Molina, Rafael, Yefimenko, Igor, Prieto, Jesús, Silva, George, Bertonati, Claudia, Juillerat, Alexandre, Duchateau, Phillippe, and Montoya, Guillermo, E-mail: gmontoya@cnio.es. 2013. "Structure of the AvrBs3–DNA complex provides new insights into the initial thymine-recognition mechanism". Denmark. doi:10.1107/S0907444913016429.
@article{osti_22347821,
title = {Structure of the AvrBs3–DNA complex provides new insights into the initial thymine-recognition mechanism},
author = {Stella, Stefano and Molina, Rafael and Yefimenko, Igor and Prieto, Jesús and Silva, George and Bertonati, Claudia and Juillerat, Alexandre and Duchateau, Phillippe and Montoya, Guillermo, E-mail: gmontoya@cnio.es},
abstractNote = {The crystal structure of the AvrBs3–DNA complex is reported. Transcription activator-like effectors contain a DNA-binding domain organized in tandem repeats. The repeats include two adjacent residues known as the repeat variable di-residue, which recognize a single base pair, establishing a direct code between the dipeptides and the target DNA. This feature suggests this scaffold as an excellent candidate to generate new protein–DNA specificities for biotechnological applications. Here, the crystal structure of AvrBs3 (residues 152–895, molecular mass 82 kDa) in complex with its target DNA sequence is presented, revealing a new mode of interaction with the initial thymine of the target sequence, together with an analysis of both the binding specificity and the thermodynamic properties of AvrBs3. This study quantifies the affinity and the specificity between AvrBs3 and its target DNA. Moreover, in vitro and in vivo analyses reveal that AvrBs3 does not show a strict nucleotide-binding preference for the nucleotide at the zero position of the DNA, widening the number of possible sequences that could be targeted by this scaffold.},
doi = {10.1107/S0907444913016429},
journal = {Acta Crystallographica. Section D: Biological Crystallography},
number = Pt 9,
volume = 69,
place = {Denmark},
year = 2013,
month = 9
}
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