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1sdo

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==Crystal Structure of Restriction Endonuclease BstYI==
==Crystal Structure of Restriction Endonuclease BstYI==
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<StructureSection load='1sdo' size='340' side='right' caption='[[1sdo]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
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<StructureSection load='1sdo' size='340' side='right'caption='[[1sdo]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[1sdo]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SDO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1SDO FirstGlance]. <br>
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<table><tr><td colspan='2'>[[1sdo]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SDO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SDO FirstGlance]. <br>
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</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">BSTYIR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1422 ATCC 12980])</td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.85&#8491;</td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Type_II_site-specific_deoxyribonuclease Type II site-specific deoxyribonuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.21.4 3.1.21.4] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1sdo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sdo OCA], [https://pdbe.org/1sdo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1sdo RCSB], [https://www.ebi.ac.uk/pdbsum/1sdo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1sdo ProSAT]</span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1sdo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sdo OCA], [http://pdbe.org/1sdo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1sdo RCSB], [http://www.ebi.ac.uk/pdbsum/1sdo PDBsum]</span></td></tr>
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</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/Q84AF2_GEOSE Q84AF2_GEOSE]
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We report here the structure of BstYI, an "intermediate" type II restriction endonuclease with overlapping sequence specificities to BamHI and BglII. BstYI, a thermophilic endonuclease, recognizes and cleaves the degenerate hexanucleotide sequence 5'-RGATCY-3' (where R=A or G and Y=C or T), cleaving DNA after the 5'-R on each strand to produce four-base (5') staggered ends. The crystal structure of free BstYI was solved at 1.85A resolution by multi-wavelength anomalous dispersion (MAD) phasing. Comparison with BamHI and BglII reveals a strong structural consensus between all three enzymes mapping to the alpha/beta core domain and residues involved in catalysis. Unexpectedly, BstYI also contains an additional "arm" substructure outside of the core protein, which enables the enzyme to adopt a more compact, intertwined dimer structure compared with BamHI and BglII. This arm substructure may underlie the thermostability of BstYI. We identify putative DNA recognition residues and speculate as to how this enzyme achieves a "relaxed" DNA specificity.
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Crystal structure of BstYI at 1.85A resolution: a thermophilic restriction endonuclease with overlapping specificities to BamHI and BglII.,Townson SA, Samuelson JC, Vanamee ES, Edwards TA, Escalante CR, Xu SY, Aggarwal AK J Mol Biol. 2004 May 7;338(4):725-33. PMID:15099740<ref>PMID:15099740</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 1sdo" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Atcc 12980]]
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[[Category: Geobacillus stearothermophilus]]
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[[Category: Type II site-specific deoxyribonuclease]]
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[[Category: Large Structures]]
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[[Category: Aggarwal, A K]]
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[[Category: Aggarwal AK]]
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[[Category: Edwards, T A]]
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[[Category: Edwards TA]]
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[[Category: Escalante, C R]]
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[[Category: Escalante CR]]
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[[Category: Samuelson, J C]]
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[[Category: Samuelson JC]]
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[[Category: Townson, S A]]
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[[Category: Townson SA]]
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[[Category: Vanamee, E S]]
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[[Category: Vanamee ES]]
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[[Category: Xu, S Y]]
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[[Category: Xu SY]]
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[[Category: Hydrolase]]
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[[Category: Restriction endonuclease]]
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Current revision

Crystal Structure of Restriction Endonuclease BstYI

PDB ID 1sdo

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