2dfe - Revision history

OCA at 08:26, 25 October 2023

2023-10-25T08:26:28Z

←Older revision		Revision as of 08:26, 25 October 2023
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	<StructureSection load='2dfe' size='340' side='right'caption='[[2dfe]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2dfe' size='340' side='right'caption='[[2dfe]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Pyrococcus_kodakaraensis_(strain_kod1) Pyrococcus kodakaraensis (strain kod1)~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DFE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_kodakarensis_KOD1 Thermococcus kodakarensis KOD1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DFE FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~<div style='overflow: auto; max~~-~~height: 3em;'>[[1io2\|1io2]]~~, [[~~2dff~~\|~~2dff~~]]~~, [[2dfg\|2dfg]], [[2dfh\|2dfh]]</div></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]] 2.4Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 ~~3.1.26.4] </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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [https://pdbe.org/2dfe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [https://www.ebi.ac.uk/pdbsum/2dfe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dfe 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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [https://pdbe.org/2dfe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [https://www.ebi.ac.uk/pdbsum/2dfe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dfe ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/RNH2_THEKO RNH2_THEKO]] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.	+	[https://www.uniprot.org/uniprot/RNH2_THEKO RNH2_THEKO] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.
	== 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: ~~Ribonuclease H~~]]	+	[[Category: Thermococcus kodakarensis KOD1]]
-	[[Category: Chon, H]]	+	[[Category: Chon H]]
-	[[Category: Kanaya, S]]	+	[[Category: Kanaya S]]
-	[[Category: Katagiri, Y]]	+	[[Category: Katagiri Y]]
-	[[Category: Koga, Y]]	+	[[Category: Koga Y]]
-	[[Category: Matsumura, H]]	+	[[Category: Matsumura H]]
-	[[Category: Takano, K]]	+	[[Category: Takano K]]
-	~~[[Category: Chameleon sequence]]~~	+
-	~~[[Category: Fusion protein]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Ribonuclease hii]]~~	+
-	~~[[Category: Thermococcus kodakaraensis~~]]	+

OCA at 10:30, 8 December 2021

2021-12-08T10:30:59Z

←Older revision		Revision as of 10:30, 8 December 2021
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	<StructureSection load='2dfe' size='340' side='right'caption='[[2dfe]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2dfe' size='340' side='right'caption='[[2dfe]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Pyrococcus_kodakaraensis_(strain_kod1) Pyrococcus kodakaraensis (strain kod1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2DFE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_kodakaraensis_(strain_kod1) Pyrococcus kodakaraensis (strain kod1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DFE FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1io2\|1io2]], [[2dff\|2dff]], [[2dfg\|2dfg]], [[2dfh\|2dfh]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1io2\|1io2]], [[2dff\|2dff]], [[2dfg\|2dfg]], [[2dfh\|2dfh]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] </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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [~~http~~://pdbe.org/2dfe PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2dfe PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2dfe 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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [https://pdbe.org/2dfe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [https://www.ebi.ac.uk/pdbsum/2dfe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dfe ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/RNH2_THEKO RNH2_THEKO]] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.	+	[[https://www.uniprot.org/uniprot/RNH2_THEKO RNH2_THEKO]] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	==See Also==		==See Also==
	*[[Ribonuclease 3D structures\|Ribonuclease 3D structures]]		*[[Ribonuclease 3D structures\|Ribonuclease 3D structures]]
-	*[[Temp\|Temp]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:40, 4 March 2020

2020-03-04T07:40:32Z

←Older revision		Revision as of 07:40, 4 March 2020
Line 1:		Line 1:

	==Crystal structure of Tk-RNase HII(1-200)-C==		==Crystal structure of Tk-RNase HII(1-200)-C==
-	<StructureSection load='2dfe' size='340' side='right' caption='[[2dfe]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='2dfe' size='340' side='right'caption='[[2dfe]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_kodakaraensis_(strain_kod1) Pyrococcus kodakaraensis (strain kod1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DFE FirstGlance]. <br>		<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_kodakaraensis_(strain_kod1) Pyrococcus kodakaraensis (strain kod1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DFE FirstGlance]. <br>
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[Ribonuclease\|Ribonuclease]]	+	*[[Ribonuclease 3D structures\|Ribonuclease 3D structures]]
	*[[Temp\|Temp]]		*[[Temp\|Temp]]
	== References ==		== References ==
Line 37:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Ribonuclease H]]		[[Category: Ribonuclease H]]
	[[Category: Chon, H]]		[[Category: Chon, H]]

OCA at 06:22, 30 May 2018

2018-05-30T06:22:26Z

←Older revision		Revision as of 06:22, 30 May 2018
Line 1:		Line 1:
		+
	==Crystal structure of Tk-RNase HII(1-200)-C==		==Crystal structure of Tk-RNase HII(1-200)-C==
	<StructureSection load='2dfe' size='340' side='right' caption='[[2dfe]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2dfe' size='340' side='right' caption='[[2dfe]], [[Resolution\|resolution]] 2.40Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1io2\|1io2]], [[2dff\|2dff]], [[2dfg\|2dfg]], [[2dfh\|2dfh]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1io2\|1io2]], [[2dff\|2dff]], [[2dfg\|2dfg]], [[2dfh\|2dfh]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] </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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [http://pdbe.org/2dfe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [http://www.ebi.ac.uk/pdbsum/2dfe 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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [http://pdbe.org/2dfe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [http://www.ebi.ac.uk/pdbsum/2dfe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2dfe 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/df/2dfe_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/df/2dfe_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 10:42, 7 February 2016

2016-02-07T10:42:01Z

←Older revision		Revision as of 10:42, 7 February 2016
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	<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=2dfe ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 00:45, 10 September 2015

2015-09-10T00:45:13Z

←Older revision		Revision as of 00:45, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2dfe' size='340' side='right' caption='[[2dfe]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2dfe' size='340' side='right' caption='[[2dfe]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Thermococcus_kodakarensis Thermococcus kodakarensis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DFE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_kodakaraensis_(strain_kod1) Pyrococcus kodakaraensis (strain kod1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DFE FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1io2\|1io2]], [[2dff\|2dff]], [[2dfg\|2dfg]], [[2dfh\|2dfh]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1io2\|1io2]], [[2dff\|2dff]], [[2dfg\|2dfg]], [[2dfh\|2dfh]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] </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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [http://www.ebi.ac.uk/pdbsum/2dfe 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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [http://pdbe.org/2dfe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [http://www.ebi.ac.uk/pdbsum/2dfe PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~RNH2_PYRKO RNH2_PYRKO~~]] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids ~~(By similarity)~~.~~[HAMAP-Rule:MF_00052_A]~~	+	[[http://www.uniprot.org/uniprot/RNH2_THEKO RNH2_THEKO]] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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 2dfe" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Ribonuclease\|Ribonuclease]]		*[[Ribonuclease\|Ribonuclease]]
	*[[Temp\|Temp]]		*[[Temp\|Temp]]
-	*[[User:Jaime.Prilusky/Test/tree\|User:Jaime.Prilusky/Test/tree]]
	== References ==		== References ==
	<references/>		<references/>
Line 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Ribonuclease H]]		[[Category: Ribonuclease H]]
-	[[Category: Thermococcus kodakarensis]]
	[[Category: Chon, H]]		[[Category: Chon, H]]
	[[Category: Kanaya, S]]		[[Category: Kanaya, S]]

OCA at 14:29, 24 December 2014

2014-12-24T14:29:53Z

←Older revision		Revision as of 14:29, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DFE FirstGlance]. <br>		<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DFE FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1io2\|1io2]], [[2dff\|2dff]], [[2dfg\|2dfg]], [[2dfh\|2dfh]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1io2\|1io2]], [[2dff\|2dff]], [[2dfg\|2dfg]], [[2dfh\|2dfh]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] </span></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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [http://www.ebi.ac.uk/pdbsum/2dfe 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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [http://www.ebi.ac.uk/pdbsum/2dfe PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/RNH2_PYRKO RNH2_PYRKO]] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids (By similarity).[HAMAP-Rule:MF_00052_A]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 28:		Line 30:
	==See Also==		==See Also==
	*[[Ribonuclease\|Ribonuclease]]		*[[Ribonuclease\|Ribonuclease]]
		+	*[[Temp\|Temp]]
		+	*[[User:Jaime.Prilusky/Test/tree\|User:Jaime.Prilusky/Test/tree]]
	== References ==		== References ==
	<references/>		<references/>
Line 34:		Line 38:
	[[Category: Ribonuclease H]]		[[Category: Ribonuclease H]]
	[[Category: Thermococcus kodakarensis]]		[[Category: Thermococcus kodakarensis]]
-	[[Category: Chon, H.]]	+	[[Category: Chon, H]]
-	[[Category: Kanaya, S.]]	+	[[Category: Kanaya, S]]
-	[[Category: Katagiri, Y.]]	+	[[Category: Katagiri, Y]]
-	[[Category: Koga, Y.]]	+	[[Category: Koga, Y]]
-	[[Category: Matsumura, H.]]	+	[[Category: Matsumura, H]]
-	[[Category: Takano, K.]]	+	[[Category: Takano, K]]
	[[Category: Chameleon sequence]]		[[Category: Chameleon sequence]]
	[[Category: Fusion protein]]		[[Category: Fusion protein]]

OCA at 04:35, 29 September 2014

2014-09-29T04:35:02Z

←Older revision		Revision as of 04:35, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2dfe.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of Tk-RNase HII(1-200)-C==
		+	<StructureSection load='2dfe' size='340' side='right' caption='[[2dfe]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2dfe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2DFE FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1io2\|1io2]], [[2dff\|2dff]], [[2dfg\|2dfg]], [[2dfh\|2dfh]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] </span></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=2dfe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dfe OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2dfe RCSB], [http://www.ebi.ac.uk/pdbsum/2dfe 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/df/2dfe_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 ==
		+	Certain sequences, known as chameleon sequences, take both alpha- and beta-conformations in natural proteins. We demonstrate that a wild chameleon sequence fused to the C-terminal alpha-helix or beta-sheet in foreign stable proteins from hyperthermophiles forms the same conformation as the host secondary structure. However, no secondary structural formation is observed when the sequence is attached to the outside of the secondary structure. These results indicate that this sequence inherently possesses an ability to make either alpha- or beta-conformation, depending on the sequentially neighboring secondary structure if little other nonlocal interaction occurs. Thus, chameleon sequences take on a satellite state through contagion by the power of a secondary structure. We propose this "conformational contagion" as a new nonlocal determinant factor in protein structure and misfolding related to protein conformational diseases.

-	~~{{STRUCTURE_2dfe\| PDB=2dfe \| SCENE= }}~~	+	Conformational contagion in a protein: structural properties of a chameleon sequence.,Takano K, Katagiri Y, Mukaiyama A, Chon H, Matsumura H, Koga Y, Kanaya S Proteins. 2007 Aug 15;68(3):617-25. PMID:17510955<ref>PMID:17510955</ref>

-	~~===Crystal structure~~ of ~~Tk-RNase HII(1-200)-C===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17510955}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2dfe]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA].~~	+

	==See Also==		==See Also==
	*[[Ribonuclease\|Ribonuclease]]		*[[Ribonuclease\|Ribonuclease]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:017510955<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Ribonuclease H]]		[[Category: Ribonuclease H]]
	[[Category: Thermococcus kodakarensis]]		[[Category: Thermococcus kodakarensis]]

OCA at 06:23, 20 October 2012

2012-10-20T06:23:45Z

←Older revision		Revision as of 06:23, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2dfe]] is a 1 chain structure ~~of [[Ribonuclease]]~~ with sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA].	+	[[2dfe]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermococcus_kodakarensis Thermococcus kodakarensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DFE OCA].

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

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

2012-07-25T13:03:38Z

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

←Older revision

Revision as of 13:03, 25 July 2012