1t9i - Revision history

OCA at 06:27, 23 August 2023

OCA — Wed, 23 Aug 2023 06:27:56 GMT

←Older revision		Revision as of 06:27, 23 August 2023
Line 3:		Line 3:
	<StructureSection load='1t9i' size='340' side='right'caption='[[1t9i]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1t9i' size='340' side='right'caption='[[1t9i]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1t9i]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Chlre Chlre~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T9I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1t9i]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Chlamydomonas_reinhardtii Chlamydomonas reinhardtii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T9I FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>~~, ~~<scene name='pdbligand=NA:SODIUM+ION'>NA</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.6Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 CHLRE])~~</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=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [https://pdbe.org/1t9i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [https://www.ebi.ac.uk/pdbsum/1t9i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t9i 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=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [https://pdbe.org/1t9i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [https://www.ebi.ac.uk/pdbsum/1t9i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t9i ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/DNE1_CHLRE DNE1_CHLRE]] Endonuclease involved in group I intron homing. Recognizes and cleaves a 19-24 bp palindromic DNA site.	+	[https://www.uniprot.org/uniprot/DNE1_CHLRE DNE1_CHLRE] Endonuclease involved in group I intron homing. Recognizes and cleaves a 19-24 bp palindromic DNA site.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Chlre~~]]	+	[[Category: Chlamydomonas reinhardtii]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Boudreau, D]]	+	[[Category: Boudreau D]]
-	[[Category: Chevalier, B]]	+	[[Category: Chevalier B]]
-	[[Category: Lemieux, C]]	+	[[Category: Lemieux C]]
-	[[Category: Monnat~~, R J~~]]	+	[[Category: Monnat Jr RJ]]
-	[[Category: Otis, C]]	+	[[Category: Otis C]]
-	[[Category: Stephens, K]]	+	[[Category: Stephens K]]
-	[[Category: Stoddard~~, B L~~]]	+	[[Category: Stoddard BL]]
-	[[Category: Sussman, D]]	+	[[Category: Sussman D]]
-	[[Category: Turmel, M]]	+	[[Category: Turmel M]]
-	~~[[Category: Dna]]~~	+
-	~~[[Category: Hydrolase-dna complex]]~~	+
-	~~[[Category: Protein~~]]	+

OCA at 15:40, 27 October 2021

OCA — Wed, 27 Oct 2021 15:40:35 GMT

←Older revision		Revision as of 15:40, 27 October 2021
Line 3:		Line 3:
	<StructureSection load='1t9i' size='340' side='right'caption='[[1t9i]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1t9i' size='340' side='right'caption='[[1t9i]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1t9i]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Chlre Chlre]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1T9I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1t9i]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Chlre Chlre]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T9I FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]</div></td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 CHLRE])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 CHLRE])</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [~~http~~://pdbe.org/1t9i PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1t9i PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1t9i 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=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [https://pdbe.org/1t9i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [https://www.ebi.ac.uk/pdbsum/1t9i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t9i ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/DNE1_CHLRE DNE1_CHLRE]] Endonuclease involved in group I intron homing. Recognizes and cleaves a 19-24 bp palindromic DNA site.	+	[[https://www.uniprot.org/uniprot/DNE1_CHLRE DNE1_CHLRE]] Endonuclease involved in group I intron homing. Recognizes and cleaves a 19-24 bp palindromic DNA site.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 11:46, 24 December 2020

OCA — Thu, 24 Dec 2020 11:46:54 GMT

←Older revision		Revision as of 11:46, 24 December 2020
Line 1:		Line 1:

	==I-CreI(D20N)/DNA complex==		==I-CreI(D20N)/DNA complex==
-	<StructureSection load='1t9i' size='340' side='right' caption='[[1t9i]], [[Resolution\|resolution]] 1.60Å' scene=''>	+	<StructureSection load='1t9i' size='340' side='right'caption='[[1t9i]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1t9i]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlre Chlre]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1T9I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1t9i]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlre Chlre]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1T9I FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 CHLRE])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 CHLRE])</td></tr>
-	<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=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [http://pdbe.org/1t9i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [http://www.ebi.ac.uk/pdbsum/1t9i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1t9i ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [http://pdbe.org/1t9i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [http://www.ebi.ac.uk/pdbsum/1t9i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1t9i ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 30:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 1t9i" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1t9i" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Endonuclease 3D structures\|Endonuclease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 35:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Chlre]]		[[Category: Chlre]]
		+	[[Category: Large Structures]]
	[[Category: Boudreau, D]]		[[Category: Boudreau, D]]
	[[Category: Chevalier, B]]		[[Category: Chevalier, B]]

OCA at 06:27, 7 February 2018

OCA — Wed, 07 Feb 2018 06:27:42 GMT

←Older revision		Revision as of 06:27, 7 February 2018
Line 1:		Line 1:
		+
	==I-CreI(D20N)/DNA complex==		==I-CreI(D20N)/DNA complex==
	<StructureSection load='1t9i' size='340' side='right' caption='[[1t9i]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1t9i' size='340' side='right' caption='[[1t9i]], [[Resolution\|resolution]] 1.60Å' scene=''>
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 CHLRE])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 CHLRE])</td></tr>
-	<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=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [http://pdbe.org/1t9i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [http://www.ebi.ac.uk/pdbsum/1t9i PDBsum]</span></td></tr>	+	<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=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [http://pdbe.org/1t9i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [http://www.ebi.ac.uk/pdbsum/1t9i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1t9i ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/t9/1t9i_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/t9/1t9i_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 29:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 1t9i" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1t9i" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Endonuclease\|Endonuclease]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 14:07, 7 February 2016

OCA — Sun, 07 Feb 2016 14:07:23 GMT

←Older revision		Revision as of 14:07, 7 February 2016
Line 18:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</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/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</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=1t9i ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 02:13, 10 September 2015

OCA — Thu, 10 Sep 2015 02:13:40 GMT

←Older revision		Revision as of 02:13, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1t9i' size='340' side='right' caption='[[1t9i]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='1t9i' size='340' side='right' caption='[[1t9i]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1t9i]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Chlamydomonas_reinhardtii Chlamydomonas reinhardtii~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T9I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1t9i]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlre Chlre]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T9I FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 ~~Chlamydomonas reinhardtii~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 CHLRE])</td></tr>
-	<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=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [http://www.ebi.ac.uk/pdbsum/1t9i PDBsum]</span></td></tr>	+	<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=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [http://pdbe.org/1t9i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [http://www.ebi.ac.uk/pdbsum/1t9i PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1t9i" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Chlamydomonas reinhardtii~~]]	+	[[Category: Chlre]]
	[[Category: Boudreau, D]]		[[Category: Boudreau, D]]
	[[Category: Chevalier, B]]		[[Category: Chevalier, B]]

OCA at 15:47, 24 December 2014

OCA — Wed, 24 Dec 2014 15:47:43 GMT

←Older revision		Revision as of 15:47, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1t9i]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlamydomonas_reinhardtii Chlamydomonas reinhardtii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T9I FirstGlance]. <br>		<table><tr><td colspan='2'>[[1t9i]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlamydomonas_reinhardtii Chlamydomonas reinhardtii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T9I FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 Chlamydomonas reinhardtii])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 Chlamydomonas reinhardtii])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [http://www.ebi.ac.uk/pdbsum/1t9i PDBsum]</span></td></tr>	+	<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=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [http://www.ebi.ac.uk/pdbsum/1t9i PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DNE1_CHLRE DNE1_CHLRE]] Endonuclease involved in group I intron homing. Recognizes and cleaves a 19-24 bp palindromic DNA site.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Chlamydomonas reinhardtii]]		[[Category: Chlamydomonas reinhardtii]]
-	[[Category: Boudreau, D.]]	+	[[Category: Boudreau, D]]
-	[[Category: Chevalier, B.]]	+	[[Category: Chevalier, B]]
-	[[Category: Lemieux, C.]]	+	[[Category: Lemieux, C]]
-	[[Category: Monnat, R J.]]	+	[[Category: Monnat, R J]]
-	[[Category: Otis, C.]]	+	[[Category: Otis, C]]
-	[[Category: Stephens, K.]]	+	[[Category: Stephens, K]]
-	[[Category: Stoddard, B L.]]	+	[[Category: Stoddard, B L]]
-	[[Category: Sussman, D.]]	+	[[Category: Sussman, D]]
-	[[Category: Turmel, M.]]	+	[[Category: Turmel, M]]
	[[Category: Dna]]		[[Category: Dna]]
	[[Category: Hydrolase-dna complex]]		[[Category: Hydrolase-dna complex]]
	[[Category: Protein]]		[[Category: Protein]]

OCA at 23:09, 28 September 2014

OCA — Sun, 28 Sep 2014 23:09:02 GMT

←Older revision		Revision as of 23:09, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1t9i.~~png~~\|~~left~~\|200px]]	+	==I-CreI(D20N)/DNA complex==
		+	<StructureSection load='1t9i' size='340' side='right' caption='[[1t9i]], [[Resolution\|resolution]] 1.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1t9i]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlamydomonas_reinhardtii Chlamydomonas reinhardtii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1T9I FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9y\|1g9y]], [[1g9z\|1g9z]], [[1t9j\|1t9j]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">CR.LSU INTRON OF CHOROPLAST 23S RRNA GENE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3055 Chlamydomonas reinhardtii])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1t9i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t9i OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1t9i RCSB], [http://www.ebi.ac.uk/pdbsum/1t9i PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/t9/1t9i_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</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/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The LAGLIDADG homing endonucleases include free-standing homodimers, pseudosymmetric monomers, and related enzyme domains embedded within inteins. DNA-bound structures of homodimeric I-CreI and monomeric I-SceI indicate that three catalytic divalent metal ions are distributed across a pair of overlapping active sites, with one shared metal participating in both strand cleavage reactions. These structures differ in the precise position and binding interactions of the metals. We have studied the metal dependence for the I-CreI homodimer using site-directed mutagenesis of active site residues and assays of binding affinity and cleavage activity. We have also reassessed the binding of a nonactivating metal ion (calcium) in the wild-type enzyme-substrate complex, and determined the DNA-bound structure of two inactive enzyme mutants. The conclusion of these studies is that the catalytic mechanism of symmetric LAGLIDADG homing endonucleases, and probably many of their monomeric cousins, involves a canonical two-metal mechanism in each of two active sites, which are chemically and structurally tethered to one another by a shared metal ion. Failure to occupy the shared metal site, as observed in the presence of calcium or when the metal-binding side chain from the LAGLIDADG motif (Asp 20) is mutated to asparagine, prevents cleavage by the enzyme.

-	~~{{STRUCTURE_1t9i\| PDB=1t9i \| SCENE= }}~~	+	Metal-dependent DNA cleavage mechanism of the I-CreI LAGLIDADG homing endonuclease.,Chevalier B, Sussman D, Otis C, Noel AJ, Turmel M, Lemieux C, Stephens K, Monnat RJ Jr, Stoddard BL Biochemistry. 2004 Nov 9;43(44):14015-26. PMID:15518550<ref>PMID:15518550</ref>

-	~~===I-CreI(D20N)~~/~~DNA complex===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_15518550}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1t9i]] is~~ a ~~4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Chlamydomonas_reinhardtii Chlamydomonas reinhardtii]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA].~~	+

	==See Also==		==See Also==
	*[[Endonuclease\|Endonuclease]]		*[[Endonuclease\|Endonuclease]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:015518550<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Chlamydomonas reinhardtii]]		[[Category: Chlamydomonas reinhardtii]]
	[[Category: Boudreau, D.]]		[[Category: Boudreau, D.]]

OCA at 06:52, 20 October 2012

OCA — Sat, 20 Oct 2012 06:52:06 GMT

←Older revision		Revision as of 06:52, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1t9i]] is a 4 chain structure ~~of [[Endonuclease]]~~ with sequence from [http://en.wikipedia.org/wiki/Chlamydomonas_reinhardtii Chlamydomonas reinhardtii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA].	+	[[1t9i]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlamydomonas_reinhardtii Chlamydomonas reinhardtii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T9I OCA].

	==See Also==		==See Also==

OCA: Protected "1t9i" [edit=sysop:move=sysop]

OCA — Wed, 25 Jul 2012 14:35:01 GMT

Protected "1t9i" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:35, 25 July 2012