1j24 - Revision history

OCA at 06:02, 3 April 2024

OCA — Wed, 03 Apr 2024 06:02:56 GMT

←Older revision		Revision as of 06:02, 3 April 2024
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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=1j24 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=1j24 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The XPF/Rad1/Mus81-dependent nuclease family specifically cleaves branched structures generated during DNA repair, replication, and recombination, and is essential for maintaining genome stability. Here, we report the domain organization of an archaeal homolog (Hef) of this family and the X-ray crystal structure of the middle domain, with the nuclease activity. The nuclease domain architecture exhibits remarkable similarity to those of restriction endonucleases, including the correspondence of the GDX(n)ERKX(3)D signature motif in Hef to the PDX(n)(E/D)XK motif in restriction enzymes. This structural study also suggests that the XPF/Rad1/Mus81/ERCC1 proteins form a dimer through each interface of the nuclease domain and the helix-hairpin-helix domain. Simultaneous disruptions of both interfaces result in their dissociation into separate monomers, with strikingly reduced endonuclease activities.
-
-	X-ray and biochemical anatomy of an archaeal XPF/Rad1/Mus81 family nuclease: similarity between its endonuclease domain and restriction enzymes.,Nishino T, Komori K, Ishino Y, Morikawa K Structure. 2003 Apr;11(4):445-57. PMID:12679022<ref>PMID:12679022</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1j24" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 23:41, 27 December 2023

OCA — Wed, 27 Dec 2023 23:41:03 GMT

←Older revision		Revision as of 23:41, 27 December 2023
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	<StructureSection load='1j24' size='340' side='right'caption='[[1j24]], [[Resolution\|resolution]] 1.78Å' scene=''>		<StructureSection load='1j24' size='340' side='right'caption='[[1j24]], [[Resolution\|resolution]] 1.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1j24]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Pyrfu Pyrfu~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1J24 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1j24]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus_DSM_3638 Pyrococcus furiosus DSM 3638]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1J24 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]] 1.78Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[1j22\|1j22]], [[1j23\|1j23]], [[1j25\|1j25]]~~</~~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=1j24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j24 OCA], [https://pdbe.org/1j24 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1j24 RCSB], [https://www.ebi.ac.uk/pdbsum/1j24 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1j24 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=1j24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j24 OCA], [https://pdbe.org/1j24 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1j24 RCSB], [https://www.ebi.ac.uk/pdbsum/1j24 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1j24 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q8TZH8_PYRFU Q8TZH8_PYRFU]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Pyrfu~~]]	+	[[Category: Pyrococcus furiosus DSM 3638]]
-	[[Category: Ishino, Y]]	+	[[Category: Ishino Y]]
-	[[Category: Komori, K]]	+	[[Category: Komori K]]
-	[[Category: Morikawa, K]]	+	[[Category: Morikawa K]]
-	[[Category: Nishino, T]]	+	[[Category: Nishino T]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Structure-specific endonuclease~~]]	+

OCA at 11:09, 4 August 2021

OCA — Wed, 04 Aug 2021 11:09:35 GMT

←Older revision		Revision as of 11:09, 4 August 2021
Line 3:		Line 3:
	<StructureSection load='1j24' size='340' side='right'caption='[[1j24]], [[Resolution\|resolution]] 1.78Å' scene=''>		<StructureSection load='1j24' size='340' side='right'caption='[[1j24]], [[Resolution\|resolution]] 1.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1j24]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Pyrfu Pyrfu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1J24 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1j24]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrfu Pyrfu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1J24 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">[[1j22\|1j22]], [[1j23\|1j23]], [[1j25\|1j25]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1j22\|1j22]], [[1j23\|1j23]], [[1j25\|1j25]]</div></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=1j24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j24 OCA], [~~http~~://pdbe.org/1j24 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1j24 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1j24 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1j24 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=1j24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j24 OCA], [https://pdbe.org/1j24 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1j24 RCSB], [https://www.ebi.ac.uk/pdbsum/1j24 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1j24 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 10:34, 30 October 2019

OCA — Wed, 30 Oct 2019 10:34:34 GMT

←Older revision		Revision as of 10:34, 30 October 2019
Line 1:		Line 1:

	==Crystal structure of archaeal XPF/Mus81 homolog, Hef from Pyrococcus furiosus, nuclease domain, Ca cocrystal==		==Crystal structure of archaeal XPF/Mus81 homolog, Hef from Pyrococcus furiosus, nuclease domain, Ca cocrystal==
-	<StructureSection load='1j24' size='340' side='right' caption='[[1j24]], [[Resolution\|resolution]] 1.78Å' scene=''>	+	<StructureSection load='1j24' size='340' side='right'caption='[[1j24]], [[Resolution\|resolution]] 1.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1j24]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrfu Pyrfu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1J24 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1j24]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrfu Pyrfu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1J24 FirstGlance]. <br>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Pyrfu]]		[[Category: Pyrfu]]
	[[Category: Ishino, Y]]		[[Category: Ishino, Y]]

OCA at 09:20, 17 January 2018

OCA — Wed, 17 Jan 2018 09:20:56 GMT

←Older revision		Revision as of 09:20, 17 January 2018
Line 1:		Line 1:
		+
	==Crystal structure of archaeal XPF/Mus81 homolog, Hef from Pyrococcus furiosus, nuclease domain, Ca cocrystal==		==Crystal structure of archaeal XPF/Mus81 homolog, Hef from Pyrococcus furiosus, nuclease domain, Ca cocrystal==
	<StructureSection load='1j24' size='340' side='right' caption='[[1j24]], [[Resolution\|resolution]] 1.78Å' scene=''>		<StructureSection load='1j24' size='340' side='right' caption='[[1j24]], [[Resolution\|resolution]] 1.78Å' 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">[[1j22\|1j22]], [[1j23\|1j23]], [[1j25\|1j25]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1j22\|1j22]], [[1j23\|1j23]], [[1j25\|1j25]]</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=1j24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j24 OCA], [http://pdbe.org/1j24 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1j24 RCSB], [http://www.ebi.ac.uk/pdbsum/1j24 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=1j24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j24 OCA], [http://pdbe.org/1j24 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1j24 RCSB], [http://www.ebi.ac.uk/pdbsum/1j24 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1j24 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/j2/1j24_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/j2/1j24_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>

OCA at 11:59, 7 February 2016

OCA — Sun, 07 Feb 2016 11:59:53 GMT

←Older revision		Revision as of 11:59, 7 February 2016
Line 15:		Line 15:
	<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=1j24 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:18, 10 September 2015

OCA — Thu, 10 Sep 2015 01:18:12 GMT

←Older revision		Revision as of 01:18, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1j24' size='340' side='right' caption='[[1j24]], [[Resolution\|resolution]] 1.78Å' scene=''>		<StructureSection load='1j24' size='340' side='right' caption='[[1j24]], [[Resolution\|resolution]] 1.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1j24]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pyrococcus_furiosus Pyrococcus furiosus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1J24 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1j24]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrfu Pyrfu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1J24 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">[[1j22\|1j22]], [[1j23\|1j23]], [[1j25\|1j25]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1j22\|1j22]], [[1j23\|1j23]], [[1j25\|1j25]]</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=1j24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j24 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1j24 RCSB], [http://www.ebi.ac.uk/pdbsum/1j24 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=1j24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j24 OCA], [http://pdbe.org/1j24 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1j24 RCSB], [http://www.ebi.ac.uk/pdbsum/1j24 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 25:		Line 25:
	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 1j24" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Pyrococcus furiosus~~]]	+	[[Category: Pyrfu]]
	[[Category: Ishino, Y]]		[[Category: Ishino, Y]]
	[[Category: Komori, K]]		[[Category: Komori, K]]

OCA at 12:25, 2 January 2015

OCA — Fri, 02 Jan 2015 12:25:33 GMT

←Older revision		Revision as of 12:25, 2 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1j24]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1J24 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1j24]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1J24 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">[[1j22\|1j22]], [[1j23\|1j23]], [[1j25\|1j25]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1j22\|1j22]], [[1j23\|1j23]], [[1j25\|1j25]]</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=1j24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j24 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1j24 RCSB], [http://www.ebi.ac.uk/pdbsum/1j24 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=1j24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j24 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1j24 RCSB], [http://www.ebi.ac.uk/pdbsum/1j24 PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 30:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Pyrococcus furiosus]]		[[Category: Pyrococcus furiosus]]
-	[[Category: Ishino, Y.]]	+	[[Category: Ishino, Y]]
-	[[Category: Komori, K.]]	+	[[Category: Komori, K]]
-	[[Category: Morikawa, K.]]	+	[[Category: Morikawa, K]]
-	[[Category: Nishino, T.]]	+	[[Category: Nishino, T]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Structure-specific endonuclease]]		[[Category: Structure-specific endonuclease]]

OCA at 12:18, 28 September 2014

OCA — Sun, 28 Sep 2014 12:18:46 GMT

←Older revision		Revision as of 12:18, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1j24.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of archaeal XPF/Mus81 homolog, Hef from Pyrococcus furiosus, nuclease domain, Ca cocrystal==
		+	<StructureSection load='1j24' size='340' side='right' caption='[[1j24]], [[Resolution\|resolution]] 1.78Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1j24]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1J24 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">[[1j22\|1j22]], [[1j23\|1j23]], [[1j25\|1j25]]</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=1j24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1j24 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1j24 RCSB], [http://www.ebi.ac.uk/pdbsum/1j24 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/j2/1j24_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 XPF/Rad1/Mus81-dependent nuclease family specifically cleaves branched structures generated during DNA repair, replication, and recombination, and is essential for maintaining genome stability. Here, we report the domain organization of an archaeal homolog (Hef) of this family and the X-ray crystal structure of the middle domain, with the nuclease activity. The nuclease domain architecture exhibits remarkable similarity to those of restriction endonucleases, including the correspondence of the GDX(n)ERKX(3)D signature motif in Hef to the PDX(n)(E/D)XK motif in restriction enzymes. This structural study also suggests that the XPF/Rad1/Mus81/ERCC1 proteins form a dimer through each interface of the nuclease domain and the helix-hairpin-helix domain. Simultaneous disruptions of both interfaces result in their dissociation into separate monomers, with strikingly reduced endonuclease activities.

-	~~{{STRUCTURE_1j24\| PDB=1j24 \| SCENE= }}~~	+	X-ray and biochemical anatomy of an archaeal XPF/Rad1/Mus81 family nuclease: similarity between its endonuclease domain and restriction enzymes.,Nishino T, Komori K, Ishino Y, Morikawa K Structure. 2003 Apr;11(4):445-57. PMID:12679022<ref>PMID:12679022</ref>

-	~~===Crystal structure of archaeal XPF~~/~~Mus81 homolog~~, ~~Hef from Pyrococcus furiosus, nuclease domain, Ca cocrystal===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12679022}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1j24]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1J24 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:012679022<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Pyrococcus furiosus]]		[[Category: Pyrococcus furiosus]]
	[[Category: Ishino, Y.]]		[[Category: Ishino, Y.]]

OCA: Protected "1j24" [edit=sysop:move=sysop]

OCA — Wed, 28 Nov 2012 15:15:20 GMT

Protected "1j24" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:15, 28 November 2012