View source for 6dnw


==Sequence Requirements of the Listeria innocua prophage attP site==
<StructureSection load='6dnw' size='340' side='right'caption='[[6dnw]], [[Resolution|resolution]] 2.85&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[6dnw]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Listeria_innocua_Clip11262 Listeria innocua Clip11262]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DNW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6DNW FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.849&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6dnw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dnw OCA], [https://pdbe.org/6dnw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6dnw RCSB], [https://www.ebi.ac.uk/pdbsum/6dnw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6dnw ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q928V6_LISIN Q928V6_LISIN] 
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Serine integrases catalyze the site-specific insertion of viral DNA into a host's genome. The minimal requirements and irreversible nature of this integration reaction have led to the use of serine integrases in applications ranging from bacterial memory storage devices to gene therapy. Our understanding of how the integrase proteins recognize the viral (attP) and host (attB) attachment sites is limited, with structural data available for only a Listeria integrase C-terminal domain (CTD) bound to an attP half-site. Here we report quantitative binding and saturation mutagenesis analyses for the Listeria innocua prophage attP site and a new 2.8-A crystal structure of the CTD*attP half site. We find that Int binds with high affinity to attP (6.9nM), but the Int CTD binds to attP half-sites with only 7- to 10-fold lower affinity, supporting the idea that free energy is expended to open an Int dimer for attP binding. Despite the 50-bp Int-attP interaction surface, only 20 residues are sensitive to mutagenesis, and of these, only 6 require a specific residue for efficient Int binding and integration activity. One of the integrase DNA-binding domains, the recombinase domain, appears to be primarily non-specific. Several substitutions result in an improved attP site, indicating that higher-efficiency attachment sites can be obtained through site engineering. These findings advance our understanding of serine integrase function and provide important data for efforts towards engineering this family of enzymes for a variety of biotechnology applications.

Serine Integrase attP Binding and Specificity.,Li H, Sharp R, Rutherford K, Gupta K, Van Duyne GD J Mol Biol. 2018 Sep 15. pii: S0022-2836(18)30785-X. doi:, 10.1016/j.jmb.2018.09.007. PMID:30227134<ref>PMID:30227134</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 6dnw" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Listeria innocua Clip11262]]
[[Category: Gupta K]]
[[Category: Li H]]
[[Category: Rutherford K]]
[[Category: Sharp R]]
[[Category: Van Duyne GD]]