1gpp

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(New page: 200px<br /><applet load="1gpp" size="450" color="white" frame="true" align="right" spinBox="true" caption="1gpp, resolution 1.35&Aring;" /> '''CRYSTAL STRUCTURE OF...)
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[[Image:1gpp.gif|left|200px]]<br /><applet load="1gpp" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1gpp, resolution 1.35&Aring;" />
 
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'''CRYSTAL STRUCTURE OF THE S.CEREVISIAE HOMING ENDONUCLEASE PI-SCEI DOMAIN I'''<br />
 
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==Overview==
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==Crystal structure of the S.cerevisiae Homing Endonuclease PI-SceI Domain I==
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The homing endonuclease PI-SceI from Saccharo myces cerevisiae consists of, two domains. The protein splicing domain I catalyzes the excision of the, mature endonuclease (intein) from a precursor protein and the religation, of the flanking amino acid sequences (exteins) to a functional protein., Furthermore, domain I is involved in binding and recognition of the, specific DNA substrate. Domain II of PI-SceI, the endonuclease domain, which is structurally homologous to other homing endonucleases from the, LAGLIDADG family, harbors the endonucleolytic center of PI-SceI, which in, vivo initiates the homing process by introducing a double-strand cut in, the approximately 35 bp recognition sequence. At 1.35 A resolution, the, crystal structure of PI-SceI domain I provides a detailed view of the part, of the protein that is responsible for tight and specific DNA binding. A, geometry-based docking of the 75 degrees bent recognition sequence to the, full-length protein implies a conformational change or hinge movement of a, subdomain of domain I, the tongs part, that is predicted to reach into the, major groove near base pairs +16 to +18.
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<StructureSection load='1gpp' size='340' side='right'caption='[[1gpp]], [[Resolution|resolution]] 1.35&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1gpp]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GPP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GPP FirstGlance]. <br>
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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]] 1.35&#8491;</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=1gpp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gpp OCA], [https://pdbe.org/1gpp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gpp RCSB], [https://www.ebi.ac.uk/pdbsum/1gpp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gpp ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/VATA_YEAST VATA_YEAST] Catalytic subunit of the peripheral V1 complex of vacuolar ATPase. V-ATPase (vacuolar ATPase) is responsible for acidifying a variety of intracellular compartments in eukaryotic cells. It is an electrogenic proton pump that generates a proton motive force of 180 mV, inside positive and acidic, in the vacuolar membrane vesicles. It may participate in maintenance of cytoplasmic Ca(2+) homeostasis. This is a catalytic subunit.<ref>PMID:1534148</ref> PI-SceI is an endonuclease that can cleave at a site present in a VMA1 allele that lacks the derived endonuclease segment of the open reading frame; cleavage at this site only occurs during meiosis and initiates "homing", a genetic event that converts a VMA1 allele lacking VDE into one that contains it.<ref>PMID:1534148</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gp/1gpp_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1gpp ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The homing endonuclease PI-SceI from Saccharo myces cerevisiae consists of two domains. The protein splicing domain I catalyzes the excision of the mature endonuclease (intein) from a precursor protein and the religation of the flanking amino acid sequences (exteins) to a functional protein. Furthermore, domain I is involved in binding and recognition of the specific DNA substrate. Domain II of PI-SceI, the endonuclease domain, which is structurally homologous to other homing endonucleases from the LAGLIDADG family, harbors the endonucleolytic center of PI-SceI, which in vivo initiates the homing process by introducing a double-strand cut in the approximately 35 bp recognition sequence. At 1.35 A resolution, the crystal structure of PI-SceI domain I provides a detailed view of the part of the protein that is responsible for tight and specific DNA binding. A geometry-based docking of the 75 degrees bent recognition sequence to the full-length protein implies a conformational change or hinge movement of a subdomain of domain I, the tongs part, that is predicted to reach into the major groove near base pairs +16 to +18.
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==About this Structure==
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High resolution crystal structure of domain I of the Saccharomyces cerevisiae homing endonuclease PI-SceI.,Werner E, Wende W, Pingoud A, Heinemann U Nucleic Acids Res. 2002 Sep 15;30(18):3962-71. PMID:12235380<ref>PMID:12235380</ref>
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1GPP is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Active as [http://en.wikipedia.org/wiki/H(+)-transporting_two-sector_ATPase H(+)-transporting two-sector ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.3.14 3.6.3.14] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1GPP OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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High resolution crystal structure of domain I of the Saccharomyces cerevisiae homing endonuclease PI-SceI., Werner E, Wende W, Pingoud A, Heinemann U, Nucleic Acids Res. 2002 Sep 15;30(18):3962-71. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12235380 12235380]
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</div>
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[[Category: H(+)-transporting two-sector ATPase]]
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<div class="pdbe-citations 1gpp" style="background-color:#fffaf0;"></div>
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[[Category: Saccharomyces cerevisiae]]
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[[Category: Single protein]]
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[[Category: Heinemann, U.]]
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[[Category: Pingoud, A.]]
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[[Category: Wende, W.]]
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[[Category: Werner, E.]]
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[[Category: endonuclease]]
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[[Category: homing]]
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[[Category: protein splicing]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 16:13:28 2007''
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==See Also==
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*[[Endonuclease 3D structures|Endonuclease 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Saccharomyces cerevisiae]]
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[[Category: Heinemann U]]
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[[Category: Pingoud A]]
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[[Category: Wende W]]
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[[Category: Werner E]]

Current revision

Crystal structure of the S.cerevisiae Homing Endonuclease PI-SceI Domain I

PDB ID 1gpp

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