3fhd - Revision history

OCA at 08:25, 20 March 2024

2024-03-20T08:25:07Z

←Older revision		Revision as of 08:25, 20 March 2024
Line 3:		Line 3:
	<StructureSection load='3fhd' size='340' side='right'caption='[[3fhd]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='3fhd' size='340' side='right'caption='[[3fhd]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3fhd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human_herpesvirus_8_type_m~~ Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FHD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3fhd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_herpesvirus_8_type_M Human herpesvirus 8 type M]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FHD FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>~~, ~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.85Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~orf37 ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=435895 Human herpesvirus 8 type M])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [https://pdbe.org/3fhd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [https://www.ebi.ac.uk/pdbsum/3fhd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fhd 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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [https://pdbe.org/3fhd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [https://www.ebi.ac.uk/pdbsum/3fhd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fhd ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/P88925_HHV8 P88925_HHV8]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 18:		Line 20:
	</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=3fhd 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=3fhd ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The Kaposi's sarcoma-associated herpesvirus protein SOX (shut off and exonuclease) and its Epstein-Barr virus homolog, BGLF5, are active during the early lytic phase and belong to the alkaline nuclease family. Both proteins have been shown to be bifunctional, being responsible for DNA maturation as well as host shutoff at the mRNA level. We present the crystal structure of SOX determined at 1.85 A resolution. By modeling DNA binding, we have identified catalytic residues that explain the preferred 5'-exonuclease activity of the alkaline nucleases. The presence of a crevice suitable for binding duplex DNA supports a role for herpes alkaline nucleases in recombination events preceding packaging of viral DNA. Direct interaction with dsDNA is supported by oligonucleotide binding data. Mutations specifically affecting host shutoff map to a surface region of the N-terminal domain, implying an essential role in protein-protein interactions, and link the RNase activity of the enzyme to mRNA degradation pathways.
-
-	Crystal structure of the shutoff and exonuclease protein from the oncogenic Kaposi's sarcoma-associated herpesvirus.,Dahlroth SL, Gurmu D, Haas J, Erlandsen H, Nordlund P FEBS J. 2009 Nov;276(22):6636-45. Epub 2009 Oct 16. PMID:19843164<ref>PMID:19843164</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3fhd" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Human herpesvirus 8 type m]]	+	[[Category: Human herpesvirus 8 type M]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Dahlroth~~, S L~~]]	+	[[Category: Dahlroth SL]]
-	[[Category: Erlandsen, H]]	+	[[Category: Erlandsen H]]
-	[[Category: Gurmu, D]]	+	[[Category: Gurmu D]]
-	[[Category: Haas, J]]	+	[[Category: Haas J]]
-	[[Category: Nordlund, P]]	+	[[Category: Nordlund P]]
-	[[Category: Schmitzberger, F]]	+	[[Category: Schmitzberger F]]
-	~~[[Category: Hydrolase~~]]	+

OCA at 08:01, 2 March 2022

2022-03-02T08:01:34Z

←Older revision		Revision as of 08:01, 2 March 2022
Line 1:		Line 1:

	==Crystal structure of the Shutoff and Exonuclease Protein from Kaposis Sarcoma Associated Herpesvirus==		==Crystal structure of the Shutoff and Exonuclease Protein from Kaposis Sarcoma Associated Herpesvirus==
-	<StructureSection load='3fhd' size='340' side='right' caption='[[3fhd]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='3fhd' size='340' side='right'caption='[[3fhd]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3fhd]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3FHD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3fhd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FHD FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">orf37 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=435895 Human herpesvirus 8 type M])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">orf37 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=435895 Human herpesvirus 8 type M])</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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [~~http~~://pdbe.org/3fhd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3fhd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3fhd 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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [https://pdbe.org/3fhd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [https://www.ebi.ac.uk/pdbsum/3fhd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fhd ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 32:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Human herpesvirus 8 type m]]		[[Category: Human herpesvirus 8 type m]]
		+	[[Category: Large Structures]]
	[[Category: Dahlroth, S L]]		[[Category: Dahlroth, S L]]
	[[Category: Erlandsen, H]]		[[Category: Erlandsen, H]]

OCA at 07:19, 5 December 2018

2018-12-05T07:19:25Z

←Older revision		Revision as of 07:19, 5 December 2018
Line 1:		Line 1:
		+
	==Crystal structure of the Shutoff and Exonuclease Protein from Kaposis Sarcoma Associated Herpesvirus==		==Crystal structure of the Shutoff and Exonuclease Protein from Kaposis Sarcoma Associated Herpesvirus==
	<StructureSection load='3fhd' size='340' side='right' caption='[[3fhd]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='3fhd' size='340' side='right' caption='[[3fhd]], [[Resolution\|resolution]] 1.85Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">orf37 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=435895 Human herpesvirus 8 type M])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">orf37 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=435895 Human herpesvirus 8 type M])</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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [http://pdbe.org/3fhd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [http://www.ebi.ac.uk/pdbsum/3fhd 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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [http://pdbe.org/3fhd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [http://www.ebi.ac.uk/pdbsum/3fhd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3fhd ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 11:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fh/3fhd_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fh/3fhd_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 14:15, 7 February 2016

2016-02-07T14:15:40Z

←Older revision		Revision as of 14:15, 7 February 2016
Line 5:		Line 5:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">orf37 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=435895 Human herpesvirus 8 type M])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">orf37 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=435895 Human herpesvirus 8 type M])</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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [http://www.ebi.ac.uk/pdbsum/3fhd 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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [http://pdbe.org/3fhd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [http://www.ebi.ac.uk/pdbsum/3fhd PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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=3fhd ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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 3fhd" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 21:13, 3 January 2015

2015-01-03T21:13:17Z

←Older revision		Revision as of 21:13, 3 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3fhd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FHD FirstGlance]. <br>		<table><tr><td colspan='2'>[[3fhd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FHD FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">orf37 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=435895 Human herpesvirus 8 type M])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">orf37 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=435895 Human herpesvirus 8 type M])</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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [http://www.ebi.ac.uk/pdbsum/3fhd 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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [http://www.ebi.ac.uk/pdbsum/3fhd 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 23:		Line 23:
	Crystal structure of the shutoff and exonuclease protein from the oncogenic Kaposi's sarcoma-associated herpesvirus.,Dahlroth SL, Gurmu D, Haas J, Erlandsen H, Nordlund P FEBS J. 2009 Nov;276(22):6636-45. Epub 2009 Oct 16. PMID:19843164<ref>PMID:19843164</ref>		Crystal structure of the shutoff and exonuclease protein from the oncogenic Kaposi's sarcoma-associated herpesvirus.,Dahlroth SL, Gurmu D, Haas J, Erlandsen H, Nordlund P FEBS J. 2009 Nov;276(22):6636-45. Epub 2009 Oct 16. PMID:19843164<ref>PMID:19843164</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==
Line 30:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Human herpesvirus 8 type m]]		[[Category: Human herpesvirus 8 type m]]
-	[[Category: Dahlroth, S L.]]	+	[[Category: Dahlroth, S L]]
-	[[Category: Erlandsen, H.]]	+	[[Category: Erlandsen, H]]
-	[[Category: Gurmu, D.]]	+	[[Category: Gurmu, D]]
-	[[Category: Haas, J.]]	+	[[Category: Haas, J]]
-	[[Category: Nordlund, P.]]	+	[[Category: Nordlund, P]]
-	[[Category: Schmitzberger, F.]]	+	[[Category: Schmitzberger, F]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 09:40, 21 May 2014

2014-05-21T09:40:44Z

←Older revision		Revision as of 09:40, 21 May 2014
Line 1:		Line 1:
-	[[~~Image:~~3fhd.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of the Shutoff and Exonuclease Protein from Kaposis Sarcoma Associated Herpesvirus==
		+	<StructureSection load='3fhd' size='340' side='right' caption='[[3fhd]], [[Resolution\|resolution]] 1.85Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3fhd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3FHD FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">orf37 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=435895 Human herpesvirus 8 type M])</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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [http://www.ebi.ac.uk/pdbsum/3fhd 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/fh/3fhd_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 Kaposi's sarcoma-associated herpesvirus protein SOX (shut off and exonuclease) and its Epstein-Barr virus homolog, BGLF5, are active during the early lytic phase and belong to the alkaline nuclease family. Both proteins have been shown to be bifunctional, being responsible for DNA maturation as well as host shutoff at the mRNA level. We present the crystal structure of SOX determined at 1.85 A resolution. By modeling DNA binding, we have identified catalytic residues that explain the preferred 5'-exonuclease activity of the alkaline nucleases. The presence of a crevice suitable for binding duplex DNA supports a role for herpes alkaline nucleases in recombination events preceding packaging of viral DNA. Direct interaction with dsDNA is supported by oligonucleotide binding data. Mutations specifically affecting host shutoff map to a surface region of the N-terminal domain, implying an essential role in protein-protein interactions, and link the RNase activity of the enzyme to mRNA degradation pathways.

-	<!--	+	Crystal structure of the shutoff and exonuclease protein from the oncogenic Kaposi's sarcoma-associated herpesvirus.,Dahlroth SL, Gurmu D, Haas J, Erlandsen H, Nordlund P FEBS J. 2009 Nov;276(22):6636-45. Epub 2009 Oct 16. PMID:19843164<ref>PMID:19843164</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3fhd"~~, ~~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_3fhd\| PDB=3fhd \| SCENE= }}~~	+

-	~~===Crystal structure~~ of the ~~Shutoff and Exonuclease Protein from Kaposis Sarcoma Associated Herpesvirus===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_19843164}}, adds the Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 19843164 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_19843164}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3fhd]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:019843164<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Human herpesvirus 8 type m]]		[[Category: Human herpesvirus 8 type m]]
	[[Category: Dahlroth, S L.]]		[[Category: Dahlroth, S L.]]

OCA: Protected "3fhd" [edit=sysop:move=sysop]

2011-07-27T04:46:32Z

Protected "3fhd" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:46, 27 July 2011

OCA at 04:46, 27 July 2011

2011-07-27T04:46:30Z

←Older revision		Revision as of 04:46, 27 July 2011
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3fhd.png\|left\|200px]]		[[Image:3fhd.png\|left\|200px]]

Line 20:		Line 19:

	==About this Structure==		==About this Structure==
-	~~3FHD~~ is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA].	+	[[3fhd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19843164~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019843164</ref><references group="xtra"/>
	[[Category: Human herpesvirus 8 type m]]		[[Category: Human herpesvirus 8 type m]]
	[[Category: Dahlroth, S L.]]		[[Category: Dahlroth, S L.]]
Line 32:		Line 31:
	[[Category: Schmitzberger, F.]]		[[Category: Schmitzberger, F.]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jan 28 14:32:24 2010''

OCA at 12:32, 28 January 2010

2010-01-28T12:32:24Z

←Older revision		Revision as of 12:32, 28 January 2010
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:3fhd.~~jpg~~\|left\|200px]]	+	[[Image:3fhd.png\|left\|200px]]

	<!--		<!--
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3FHD is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA].	+	3FHD is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA].

	==Reference==		==Reference==
Line 33:		Line 33:
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Nov 25 09~~:45:~~48 2009~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jan 28 14:32:24 2010''

OCA at 07:45, 25 November 2009

2009-11-25T07:45:49Z

←Older revision		Revision as of 07:45, 25 November 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3fhd.jpg\|left\|200px]]

-	The ~~entry 3fhd~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3fhd", 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_3fhd\| PDB=3fhd \| SCENE= }}

-	~~Authors: Dahlroth, S., Gurmu, D., Schmitzberger, F., Haas, J., Erlandsen, H., Nordlund, P.~~	+	===Crystal structure of the Shutoff and Exonuclease Protein from Kaposis Sarcoma Associated Herpesvirus===

-	Description: Crystal structure of the Shutoff and Exonuclease Protein from Kaposis Sarcoma Associated Herpesvirus

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Dec 31~~ 09:47:~~53 2008~~''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19843164}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19843164 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19843164}}
		+
		+	==About this Structure==
		+	3FHD is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19843164</ref><references group="xtra"/>
		+	[[Category: Human herpesvirus 8 type m]]
		+	[[Category: Dahlroth, S L.]]
		+	[[Category: Erlandsen, H.]]
		+	[[Category: Gurmu, D.]]
		+	[[Category: Haas, J.]]
		+	[[Category: Nordlund, P.]]
		+	[[Category: Schmitzberger, F.]]
		+	[[Category: Hydrolase]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 25 09:45:48 2009''