2vs8: Difference between revisions
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<StructureSection load='2vs8' size='340' side='right'caption='[[2vs8]], [[Resolution|resolution]] 2.10Å' scene=''> | <StructureSection load='2vs8' size='340' side='right'caption='[[2vs8]], [[Resolution|resolution]] 2.10Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[2vs8]] is a 15 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VS8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VS8 FirstGlance]. <br> | <table><tr><td colspan='2'>[[2vs8]] is a 15 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfurococcus_mucosus Desulfurococcus mucosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VS8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VS8 FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1Å</td></tr> | ||
<tr id=' | <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=MN:MANGANESE+(II)+ION'>MN</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=2vs8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vs8 OCA], [https://pdbe.org/2vs8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vs8 RCSB], [https://www.ebi.ac.uk/pdbsum/2vs8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vs8 ProSAT]</span></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=2vs8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vs8 OCA], [https://pdbe.org/2vs8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vs8 RCSB], [https://www.ebi.ac.uk/pdbsum/2vs8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vs8 ProSAT]</span></td></tr> | ||
</table> | </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. | |||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Desulfurococcus mucosus]] | |||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Alibes | [[Category: Alibes A]] | ||
[[Category: Blanco | [[Category: Blanco FJ]] | ||
[[Category: Duchateau | [[Category: Duchateau P]] | ||
[[Category: Grizot | [[Category: Grizot S]] | ||
[[Category: Marcaida | [[Category: Marcaida MJ]] | ||
[[Category: Montoya | [[Category: Montoya G]] | ||
[[Category: Nadra | [[Category: Nadra AD]] | ||
[[Category: Paques | [[Category: Paques F]] | ||
[[Category: Prieto | [[Category: Prieto J]] | ||
[[Category: Redondo | [[Category: Redondo P]] | ||
[[Category: Serrano | [[Category: Serrano L]] | ||
Latest revision as of 18:30, 13 December 2023
The crystal structure of I-DmoI in complex with DNA and MnThe crystal structure of I-DmoI in complex with DNA and Mn
Structural highlights
FunctionDMO1_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. Evolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMedHoming endonucleases, also known as meganucleases, are sequence-specific enzymes with large DNA recognition sites. These enzymes can be used to induce efficient homologous gene targeting in cells and plants, opening perspectives for genome engineering with applications in a wide series of fields, ranging from biotechnology to gene therapy. Here, we report the crystal structures at 2.0 and 2.1 A resolution of the I-DmoI meganuclease in complex with its substrate DNA before and after cleavage, providing snapshots of the catalytic process. Our study suggests that I-DmoI requires only 2 cations instead of 3 for DNA cleavage. The structure sheds light onto the basis of DNA binding, indicating key residues responsible for nonpalindromic target DNA recognition. In silico and in vivo analysis of the I-DmoI DNA cleavage specificity suggests that despite the relatively few protein-base contacts, I-DmoI is highly specific when compared with other meganucleases. Our data open the door toward the generation of custom endonucleases for targeted genome engineering using the monomeric I-DmoI scaffold. Crystal structure of I-DmoI in complex with its target DNA provides new insights into meganuclease engineering.,Marcaida MJ, Prieto J, Redondo P, Nadra AD, Alibes A, Serrano L, Grizot S, Duchateau P, Paques F, Blanco FJ, Montoya G Proc Natl Acad Sci U S A. 2008 Nov 4;105(44):16888-93. Epub 2008 Oct 30. PMID:18974222[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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