View source for 5akm


==THE CRYSTAL STRUCTURE OF I-DMOI G20S IN COMPLEX WITH ITS TARGET DNA IN THE PRESENCE OF 2MM MG==
<StructureSection load='5akm' size='340' side='right'caption='[[5akm]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5akm]] is a 15 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfurococcus_mucosus Desulfurococcus mucosus] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AKM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AKM 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]] 2.4&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=5akm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5akm OCA], [https://pdbe.org/5akm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5akm RCSB], [https://www.ebi.ac.uk/pdbsum/5akm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5akm ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/DMO1_DESMO DMO1_DESMO] Endonuclease involved in intron homing. Recognizes a recognizes up to 20 bp of DNA in the 23S rRNA gene intron. It has a slow turnover rate and cuts the coding strand with a slight preference over the non-coding strand.
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== Publication Abstract from PubMed ==
Homing endonucleases are useful tools for genome modification due to their capability to recognize and cleave specifically large DNA targets. These endonucleases generate a DNA double-strand break that can be repaired by the DNA damage response machinery. The break can be repaired by homologous recombination, an error-free mechanism, or by non-homologous end joining, a process susceptible to introduce errors in the repaired sequence. The type of DNA cleavage might alter the balance between these two alternatives. The use of nickases producing a specific single strand break instead of a double-strand break could be an approach to reduce the toxicity associated to non-homologous end joining by promoting the use of homologous recombination to repair the cleavage of a single DNA break. Taking advantage of the sequential DNA cleavage mechanism of I-DmoI LAGLIDADG homing endonuclease we have developed a new variant that is able to cut preferentially the coding DNA strand generating a nicked DNA target. Our structural and biochemical analysis shows that by decoupling the action of the catalytic residues acting on each strand, we can inhibit one of them while keeping the other functional.

Engineering a nickase on the homing endonuclease I-DmoI scaffold.,Molina R, Marcaida MJ, Redondo P, Marenchino M, Duchateau P, D'Abramo M, Montoya G, Prieto J J Biol Chem. 2015 Jun 4. pii: jbc.M115.658666. PMID:26045557<ref>PMID:26045557</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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<div class="pdbe-citations 5akm" style="background-color:#fffaf0;"></div>

==See Also==
*[[Endonuclease 3D structures|Endonuclease 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Desulfurococcus mucosus]]
[[Category: Large Structures]]
[[Category: Synthetic construct]]
[[Category: D'Abramo M]]
[[Category: Marcaida MJ]]
[[Category: Marenchino M]]
[[Category: Molina R]]
[[Category: Montoya G]]
[[Category: Prieto J]]
[[Category: Redondo P]]