2vbo - Revision history

OCA at 15:14, 13 December 2023

2023-12-13T15:14:00Z

←Older revision		Revision as of 15:14, 13 December 2023
Line 3:		Line 3:
	<StructureSection load='2vbo' size='340' side='right'caption='[[2vbo]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2vbo' size='340' side='right'caption='[[2vbo]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vbo]] 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=2VBO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VBO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vbo]] 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=2VBO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VBO 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>~~</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]] 1.8Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</~~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></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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [https://pdbe.org/2vbo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [https://www.ebi.ac.uk/pdbsum/2vbo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vbo 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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [https://pdbe.org/2vbo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [https://www.ebi.ac.uk/pdbsum/2vbo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vbo 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]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Chlre~~]]	+	[[Category: Chlamydomonas reinhardtii]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Alibes, A]]	+	[[Category: Alibes A]]
-	[[Category: Arnould, S]]	+	[[Category: Arnould S]]
-	[[Category: Blanco~~, F J~~]]	+	[[Category: Blanco FJ]]
-	[[Category: Cabaniols~~, J P~~]]	+	[[Category: Cabaniols JP]]
-	[[Category: Duchateau, P]]	+	[[Category: Duchateau P]]
-	[[Category: Montoya, G]]	+	[[Category: Montoya G]]
-	[[Category: Munoz~~, I G~~]]	+	[[Category: Munoz IG]]
-	[[Category: Paques, F]]	+	[[Category: Paques F]]
-	[[Category: Perez, C]]	+	[[Category: Perez C]]
-	[[Category: Prieto, J]]	+	[[Category: Prieto J]]
-	[[Category: Redondo, P]]	+	[[Category: Redondo P]]
-	[[Category: Serrano, L]]	+	[[Category: Serrano L]]
-	[[Category: Stricher, F]]	+	[[Category: Stricher F]]
-	~~[[Category: Chloroplast]]~~	+
-	~~[[Category: Cutting dna endonuclease]]~~	+
-	~~[[Category: Endonuclease]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Ini3-4-calcium]]~~	+
-	~~[[Category: Intron homing]]~~	+
-	~~[[Category: Nuclease]]~~	+
-	~~[[Category: Plastid]]~~	+
-	~~[[Category: Uv-induced dna damage~~]]	+

OCA at 12:43, 23 March 2022

2022-03-23T12:43:35Z

←Older revision		Revision as of 12:43, 23 March 2022
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	<StructureSection load='2vbo' size='340' side='right'caption='[[2vbo]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2vbo' size='340' side='right'caption='[[2vbo]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vbo]] 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=2VBO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2VBO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vbo]] 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=2VBO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VBO 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></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></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</div></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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [~~http~~://pdbe.org/2vbo PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2vbo PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2vbo 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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [https://pdbe.org/2vbo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [https://www.ebi.ac.uk/pdbsum/2vbo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vbo 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 11:26, 17 June 2020

2020-06-17T11:26:12Z

←Older revision		Revision as of 11:26, 17 June 2020
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	==Molecular basis of human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers==		==Molecular basis of human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers==
-	<StructureSection load='2vbo' size='340' side='right' caption='[[2vbo]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='2vbo' size='340' side='right'caption='[[2vbo]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vbo]] 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=2VBO OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2VBO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vbo]] 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=2VBO OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2VBO 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></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></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [http://pdbe.org/2vbo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [http://www.ebi.ac.uk/pdbsum/2vbo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vbo 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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [http://pdbe.org/2vbo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [http://www.ebi.ac.uk/pdbsum/2vbo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vbo ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Endonuclease\|Endonuclease]]	+	*[[Endonuclease 3D structures\|Endonuclease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Chlre]]		[[Category: Chlre]]
		+	[[Category: Large Structures]]
	[[Category: Alibes, A]]		[[Category: Alibes, A]]
	[[Category: Arnould, S]]		[[Category: Arnould, S]]

OCA at 08:20, 12 September 2018

2018-09-12T08:20:31Z

←Older revision		Revision as of 08:20, 12 September 2018
Line 1:		Line 1:
		+
	==Molecular basis of human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers==		==Molecular basis of human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers==
	<StructureSection load='2vbo' size='340' side='right' caption='[[2vbo]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2vbo' size='340' side='right' caption='[[2vbo]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [http://pdbe.org/2vbo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [http://www.ebi.ac.uk/pdbsum/2vbo 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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [http://pdbe.org/2vbo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [http://www.ebi.ac.uk/pdbsum/2vbo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vbo ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vb/2vbo_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vb/2vbo_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 56:		Line 57:
	[[Category: Intron homing]]		[[Category: Intron homing]]
	[[Category: Nuclease]]		[[Category: Nuclease]]
		+	[[Category: Plastid]]
	[[Category: Uv-induced dna damage]]		[[Category: Uv-induced dna damage]]

OCA at 09:17, 9 February 2016

2016-02-09T09:17:57Z

←Older revision		Revision as of 09:17, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='2vbo' size='340' side='right' caption='[[2vbo]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2vbo' size='340' side='right' caption='[[2vbo]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2vbo]] 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=2VBO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VBO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2vbo]] 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=2VBO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VBO 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></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></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [http://www.ebi.ac.uk/pdbsum/2vbo 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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [http://pdbe.org/2vbo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [http://www.ebi.ac.uk/pdbsum/2vbo PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 17:
	<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=2vbo ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 27:
	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 2vbo" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Chlamydomonas reinhardtii~~]]	+	[[Category: Chlre]]
	[[Category: Alibes, A]]		[[Category: Alibes, A]]
	[[Category: Arnould, S]]		[[Category: Arnould, S]]

OCA at 05:58, 25 December 2014

2014-12-25T05:58:17Z

←Older revision		Revision as of 05:58, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2vbo]] 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=2VBO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VBO FirstGlance]. <br>		<table><tr><td colspan='2'>[[2vbo]] 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=2VBO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VBO FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [http://www.ebi.ac.uk/pdbsum/2vbo 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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [http://www.ebi.ac.uk/pdbsum/2vbo 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 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Chlamydomonas reinhardtii]]		[[Category: Chlamydomonas reinhardtii]]
-	[[Category: Alibes, A.]]	+	[[Category: Alibes, A]]
-	[[Category: Arnould, S.]]	+	[[Category: Arnould, S]]
-	[[Category: Blanco, F J.]]	+	[[Category: Blanco, F J]]
-	[[Category: Cabaniols, J P.]]	+	[[Category: Cabaniols, J P]]
-	[[Category: Duchateau, P.]]	+	[[Category: Duchateau, P]]
-	[[Category: Montoya, G.]]	+	[[Category: Montoya, G]]
-	[[Category: Munoz, I G.]]	+	[[Category: Munoz, I G]]
-	[[Category: Paques, F.]]	+	[[Category: Paques, F]]
-	[[Category: Perez, C.]]	+	[[Category: Perez, C]]
-	[[Category: Prieto, J.]]	+	[[Category: Prieto, J]]
-	[[Category: Redondo, P.]]	+	[[Category: Redondo, P]]
-	[[Category: Serrano, L.]]	+	[[Category: Serrano, L]]
-	[[Category: Stricher, F.]]	+	[[Category: Stricher, F]]
	[[Category: Chloroplast]]		[[Category: Chloroplast]]
	[[Category: Cutting dna endonuclease]]		[[Category: Cutting dna endonuclease]]

OCA at 08:34, 29 September 2014

2014-09-29T08:34:53Z

←Older revision		Revision as of 08:34, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2vbo.~~png~~\|~~left~~\|200px]]	+	==Molecular basis of human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers==
		+	<StructureSection load='2vbo' size='340' side='right' caption='[[2vbo]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2vbo]] 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=2VBO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VBO FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1g9z\|1g9z]], [[1bp7\|1bp7]], [[2vbl\|2vbl]], [[1af5\|1af5]], [[2vbj\|2vbj]], [[1mow\|1mow]], [[1g9y\|1g9y]], [[2vbn\|2vbn]], [[1n3f\|1n3f]], [[1t9i\|1t9i]], [[1u0d\|1u0d]], [[1t9j\|1t9j]], [[1n3e\|1n3e]], [[1u0c\|1u0c]]</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=2vbo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vbo OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2vbo RCSB], [http://www.ebi.ac.uk/pdbsum/2vbo 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/vb/2vbo_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 ==
		+	Xeroderma pigmentosum is a monogenic disease characterized by hypersensitivity to ultraviolet light. The cells of xeroderma pigmentosum patients are defective in nucleotide excision repair, limiting their capacity to eliminate ultraviolet-induced DNA damage, and resulting in a strong predisposition to develop skin cancers. The use of rare cutting DNA endonucleases-such as homing endonucleases, also known as meganucleases-constitutes one possible strategy for repairing DNA lesions. Homing endonucleases have emerged as highly specific molecular scalpels that recognize and cleave DNA sites, promoting efficient homologous gene targeting through double-strand-break-induced homologous recombination. Here we describe two engineered heterodimeric derivatives of the homing endonuclease I-CreI, produced by a semi-rational approach. These two molecules-Amel3-Amel4 and Ini3-Ini4-cleave DNA from the human XPC gene (xeroderma pigmentosum group C), in vitro and in vivo. Crystal structures of the I-CreI variants complexed with intact and cleaved XPC target DNA suggest that the mechanism of DNA recognition and cleavage by the engineered homing endonucleases is similar to that of the wild-type I-CreI. Furthermore, these derivatives induced high levels of specific gene targeting in mammalian cells while displaying no obvious genotoxicity. Thus, homing endonucleases can be designed to recognize and cleave the DNA sequences of specific genes, opening up new possibilities for genome engineering and gene therapy in xeroderma pigmentosum patients whose illness can be treated ex vivo.

-	~~{{STRUCTURE_2vbo\| PDB=2vbo \| SCENE= }}~~	+	Molecular basis of xeroderma pigmentosum group C DNA recognition by engineered meganucleases.,Redondo P, Prieto J, Munoz IG, Alibes A, Stricher F, Serrano L, Cabaniols JP, Daboussi F, Arnould S, Perez C, Duchateau P, Paques F, Blanco FJ, Montoya G Nature. 2008 Nov 6;456(7218):107-11. PMID:18987743<ref>PMID:18987743</ref>

-	~~===Molecular basis~~ of ~~human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18987743}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2vbo]] 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=2VBO OCA].~~	+

	==See Also==		==See Also==
	*[[Endonuclease\|Endonuclease]]		*[[Endonuclease\|Endonuclease]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:018987743<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Chlamydomonas reinhardtii]]		[[Category: Chlamydomonas reinhardtii]]
	[[Category: Alibes, A.]]		[[Category: Alibes, A.]]

OCA at 13:23, 20 October 2012

2012-10-20T13:23:42Z

←Older revision		Revision as of 13:23, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2vbo]] 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=2VBO OCA].	+	[[2vbo]] 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=2VBO OCA].

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

OCA at 07:42, 20 June 2012

2012-06-20T07:42:07Z

←Older revision		Revision as of 07:42, 20 June 2012
Line 1:		Line 1:
	[[Image:2vbo.png\|left\|200px]]		[[Image:2vbo.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2vbo", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2vbo\| PDB=2vbo \| SCENE= }}		{{STRUCTURE_2vbo\| PDB=2vbo \| SCENE= }}

	===Molecular basis of human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers===		===Molecular basis of human XPC gene recognition and cleavage by engineered homing endonuclease heterodimers===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18987743}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18987743 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18987743}}		{{ABSTRACT_PUBMED_18987743}}

OCA: Protected "2vbo" [edit=sysop:move=sysop]

2012-06-20T06:42:16Z

Protected "2vbo" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:42, 20 June 2012