1xqp - Revision history

OCA at 07:56, 15 May 2024

OCA — Wed, 15 May 2024 07:56:50 GMT

←Older revision		Revision as of 07:56, 15 May 2024
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	<StructureSection load='1xqp' size='340' side='right'caption='[[1xqp]], [[Resolution\|resolution]] 1.69Å' scene=''>		<StructureSection load='1xqp' size='340' side='right'caption='[[1xqp]], [[Resolution\|resolution]] 1.69Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xqp]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_51768 Atcc 51768~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1XQP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xqp]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XQP FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=8HG:2~~-~~DEOXY-8-OXOGUANOSINE'>8HG</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]] 1.69Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[1xqo\|1xqo]]~~</~~div~~>~~</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8HG:2-DEOXY-8-OXOGUANOSINE'>8HG</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pa-AGOG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])~~</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=1xqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqp OCA], [https://pdbe.org/1xqp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xqp RCSB], [https://www.ebi.ac.uk/pdbsum/1xqp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xqp 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=1xqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqp OCA], [~~http~~://pdbe.org/1xqp PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1xqp RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1xqp PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1xqp ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/AGOG_PYRAE AGOG_PYRAE]] DNA repair enzyme that is part of the base excision repair (BER) pathway; protects from oxidative damage by removing the major product of DNA oxidation, 8-oxoguanine (GO), from single- and double-stranded DNA substrates.<ref>PMID:15604455</ref>	+	[https://www.uniprot.org/uniprot/AGOG_PYRAE AGOG_PYRAE] DNA repair enzyme that is part of the base excision repair (BER) pathway; protects from oxidative damage by removing the major product of DNA oxidation, 8-oxoguanine (GO), from single- and double-stranded DNA substrates.<ref>PMID:15604455</ref>
	== 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: Atcc 51768]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Jiricny, J]]	+	[[Category: Pyrobaculum aerophilum]]
-	[[Category: Kostrewa, D]]	+	[[Category: Jiricny J]]
-	[[Category: Lingaraju~~, G M~~]]	+	[[Category: Kostrewa D]]
-	[[Category: Prota~~, A E~~]]	+	[[Category: Lingaraju GM]]
-	[[Category: Sartori~~, A A~~]]	+	[[Category: Prota AE]]
-	[[Category: Winkler~~, F K]]~~	+	[[Category: Sartori AA]]
-	~~[[Category: 8-oxoguanine dna glycosylase]]~~	+	[[Category: Winkler FK]]
-	~~[[Category: Archaea]]~~	+
-	~~[[Category: Dna repair]]~~	+
-	~~[[Category: Helix-hairpin-helix]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: P aerophilum]]~~	+
-	~~[[Category: Pa-agog-8-oxoguanosine complex~~]]	+

OCA at 10:15, 6 January 2021

OCA — Wed, 06 Jan 2021 10:15:05 GMT

←Older revision		Revision as of 10:15, 6 January 2021
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	==Crystal structure of 8-oxoguanosine complexed Pa-AGOG, 8-oxoguanine DNA glycosylase from Pyrobaculum aerophilum==		==Crystal structure of 8-oxoguanosine complexed Pa-AGOG, 8-oxoguanine DNA glycosylase from Pyrobaculum aerophilum==
-	<StructureSection load='1xqp' size='340' side='right' caption='[[1xqp]], [[Resolution\|resolution]] 1.69Å' scene=''>	+	<StructureSection load='1xqp' size='340' side='right'caption='[[1xqp]], [[Resolution\|resolution]] 1.69Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xqp]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_51768 Atcc 51768]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1XQP FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xqp]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_51768 Atcc 51768]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1XQP FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8HG:2-DEOXY-8-OXOGUANOSINE'>8HG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8HG:2-DEOXY-8-OXOGUANOSINE'>8HG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xqo\|1xqo]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1xqo\|1xqo]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pa-AGOG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pa-AGOG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</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=1xqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqp OCA], [http://pdbe.org/1xqp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xqp RCSB], [http://www.ebi.ac.uk/pdbsum/1xqp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xqp 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=1xqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqp OCA], [http://pdbe.org/1xqp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xqp RCSB], [http://www.ebi.ac.uk/pdbsum/1xqp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xqp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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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/xq/1xqp_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xq/1xqp_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 32:		Line 32:

	==See Also==		==See Also==
-	*[[DNA glycosylase\|DNA glycosylase]]	+	*[[DNA glycosylase 3D structures\|DNA glycosylase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 38:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 51768]]		[[Category: Atcc 51768]]
		+	[[Category: Large Structures]]
	[[Category: Jiricny, J]]		[[Category: Jiricny, J]]
	[[Category: Kostrewa, D]]		[[Category: Kostrewa, D]]

OCA at 16:30, 12 October 2017

OCA — Thu, 12 Oct 2017 16:30:00 GMT

←Older revision		Revision as of 16:30, 12 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of 8-oxoguanosine complexed Pa-AGOG, 8-oxoguanine DNA glycosylase from Pyrobaculum aerophilum==		==Crystal structure of 8-oxoguanosine complexed Pa-AGOG, 8-oxoguanine DNA glycosylase from Pyrobaculum aerophilum==
	<StructureSection load='1xqp' size='340' side='right' caption='[[1xqp]], [[Resolution\|resolution]] 1.69Å' scene=''>		<StructureSection load='1xqp' size='340' side='right' caption='[[1xqp]], [[Resolution\|resolution]] 1.69Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xqo\|1xqo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xqo\|1xqo]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pa-AGOG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pa-AGOG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</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=1xqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqp OCA], [http://pdbe.org/1xqp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xqp RCSB], [http://www.ebi.ac.uk/pdbsum/1xqp 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=1xqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqp OCA], [http://pdbe.org/1xqp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xqp RCSB], [http://www.ebi.ac.uk/pdbsum/1xqp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xqp ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 01:34, 8 February 2016

OCA — Mon, 08 Feb 2016 01:34:04 GMT

←Older revision		Revision as of 01:34, 8 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=1xqp ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:38, 10 September 2015

OCA — Thu, 10 Sep 2015 06:38:44 GMT

←Older revision		Revision as of 06:38, 10 September 2015
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xqo\|1xqo]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xqo\|1xqo]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pa-AGOG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pa-AGOG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</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=1xqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xqp RCSB], [http://www.ebi.ac.uk/pdbsum/1xqp 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=1xqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqp OCA], [http://pdbe.org/1xqp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xqp RCSB], [http://www.ebi.ac.uk/pdbsum/1xqp PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	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 1xqp" style="background-color:#fffaf0;"></div>

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

OCA at 19:35, 24 December 2014

OCA — Wed, 24 Dec 2014 19:35:15 GMT

←Older revision		Revision as of 19:35, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1xqp]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_51768 Atcc 51768]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XQP FirstGlance]. <br>		<table><tr><td colspan='2'>[[1xqp]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_51768 Atcc 51768]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XQP FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8HG:2-DEOXY-8-OXOGUANOSINE'>8HG</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8HG:2-DEOXY-8-OXOGUANOSINE'>8HG</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xqo\|1xqo]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xqo\|1xqo]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pa-AGOG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pa-AGOG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</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=1xqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xqp RCSB], [http://www.ebi.ac.uk/pdbsum/1xqp 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=1xqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xqp RCSB], [http://www.ebi.ac.uk/pdbsum/1xqp PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/AGOG_PYRAE AGOG_PYRAE]] DNA repair enzyme that is part of the base excision repair (BER) pathway; protects from oxidative damage by removing the major product of DNA oxidation, 8-oxoguanine (GO), from single- and double-stranded DNA substrates.<ref>PMID:15604455</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 34:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 51768]]		[[Category: Atcc 51768]]
-	[[Category: Jiricny, J.]]	+	[[Category: Jiricny, J]]
-	[[Category: Kostrewa, D.]]	+	[[Category: Kostrewa, D]]
-	[[Category: Lingaraju, G M.]]	+	[[Category: Lingaraju, G M]]
-	[[Category: Prota, A E.]]	+	[[Category: Prota, A E]]
-	[[Category: Sartori, A A.]]	+	[[Category: Sartori, A A]]
-	[[Category: Winkler, F K.]]	+	[[Category: Winkler, F K]]
	[[Category: 8-oxoguanine dna glycosylase]]		[[Category: 8-oxoguanine dna glycosylase]]
	[[Category: Archaea]]		[[Category: Archaea]]

OCA at 10:06, 3 October 2014

OCA — Fri, 03 Oct 2014 10:06:24 GMT

←Older revision		Revision as of 10:06, 3 October 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_1xqp\| PDB=1xqp \| SCENE= }}~~	+	==Crystal structure of 8-oxoguanosine complexed Pa-AGOG, 8-oxoguanine DNA glycosylase from Pyrobaculum aerophilum==
-	===Crystal structure of 8-oxoguanosine complexed Pa-AGOG, 8-oxoguanine DNA glycosylase from Pyrobaculum aerophilum===	+	<StructureSection load='1xqp' size='340' side='right' caption='[[1xqp]], [[Resolution\|resolution]] 1.69Å' scene=''>
-	~~{{ABSTRACT_PUBMED_15642264}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1xqp]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_51768 Atcc 51768]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XQP FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8HG:2-DEOXY-8-OXOGUANOSINE'>8HG</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1xqo\|1xqo]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pa-AGOG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=13773 ATCC 51768])</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=1xqp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xqp OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xqp RCSB], [http://www.ebi.ac.uk/pdbsum/1xqp 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/xq/1xqp_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 ==
		+	Studies of DNA base excision repair (BER) pathways in the hyperthermophilic crenarchaeon Pyrobaculum aerophilum identified an 8-oxoguanine-DNA glycosylase, Pa-AGOG (archaeal GO glycosylase), with distinct functional characteristics. Here, we describe its crystal structure and that of its complex with 8-oxoguanosine at 1.0 and 1.7 A resolution, respectively. Characteristic structural features are identified that confirm Pa-AGOG to be the founding member of a functional class within the helix-hairpin-helix (HhH) superfamily of DNA repair enzymes. Its hairpin structure differs substantially from that of other proteins containing an HhH motif, and we predict that it interacts with the DNA backbone in a distinct manner. Furthermore, the mode of 8-oxoguanine recognition, which involves several hydrogen-bonding and pi-stacking interactions, is unlike that observed in human OGG1, the prototypic 8-oxoguanine HhH-type DNA glycosylase. Despite these differences, the predicted kinked conformation of bound DNA and the catalytic mechanism are likely to resemble those of human OGG1.

-	~~==Function==~~	+	A DNA glycosylase from Pyrobaculum aerophilum with an 8-oxoguanine binding mode and a noncanonical helix-hairpin-helix structure.,Lingaraju GM, Sartori AA, Kostrewa D, Prota AE, Jiricny J, Winkler FK Structure. 2005 Jan;13(1):87-98. PMID:15642264<ref>PMID:15642264</ref>
-	~~[[http://www.uniprot.org/uniprot/AGOG_PYRAE AGOG_PYRAE]]~~ DNA ~~repair enzyme that is part of the base excision repair (BER) pathway; protects~~ from ~~oxidative damage by removing the major product of DNA oxidation,~~ 8-oxoguanine (GO)~~, from single~~- ~~and double-stranded DNA substrates~~.<ref>PMID:~~15604455~~</ref>	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[1xqp]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Atcc_51768 Atcc 51768]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA].~~	+	</div>

	==See Also==		==See Also==
-	*[[DNA ~~glycosylate~~\|DNA ~~glycosylate~~]]	+	*[[DNA glycosylase\|DNA glycosylase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:015642264</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Atcc 51768]]		[[Category: Atcc 51768]]
	[[Category: Jiricny, J.]]		[[Category: Jiricny, J.]]

OCA at 08:14, 16 April 2014

OCA — Wed, 16 Apr 2014 08:14:32 GMT

←Older revision		Revision as of 08:14, 16 April 2014
Line 1:		Line 1:
-	[[Image:1xqp.png\|left\|200px]]
-
	{{STRUCTURE_1xqp\| PDB=1xqp \| SCENE= }}		{{STRUCTURE_1xqp\| PDB=1xqp \| SCENE= }}
-
	===Crystal structure of 8-oxoguanosine complexed Pa-AGOG, 8-oxoguanine DNA glycosylase from Pyrobaculum aerophilum===		===Crystal structure of 8-oxoguanosine complexed Pa-AGOG, 8-oxoguanine DNA glycosylase from Pyrobaculum aerophilum===
		+	{{ABSTRACT_PUBMED_15642264}}

-	~~{{ABSTRACT_PUBMED_15642264}}~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/AGOG_PYRAE AGOG_PYRAE]] DNA repair enzyme that is part of the base excision repair (BER) pathway; protects from oxidative damage by removing the major product of DNA oxidation, 8-oxoguanine (GO), from single- and double-stranded DNA substrates.<ref>PMID:15604455</ref>

	==About this Structure==		==About this Structure==
-	[[1xqp]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pyrobaculum_aerophilum Pyrobaculum aerophilum~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA].	+	[[1xqp]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_51768 Atcc 51768]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA].

	==See Also==		==See Also==
Line 14:		Line 13:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:015642264</ref><references group="xtra"/>	+	<ref group="xtra">PMID:015642264</ref><references group="xtra"/><references/>
-	[[Category: ~~Pyrobaculum aerophilum~~]]	+	[[Category: Atcc 51768]]
	[[Category: Jiricny, J.]]		[[Category: Jiricny, J.]]
	[[Category: Kostrewa, D.]]		[[Category: Kostrewa, D.]]

OCA at 08:28, 20 October 2012

OCA — Sat, 20 Oct 2012 08:28:01 GMT

←Older revision		Revision as of 08:28, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1xqp]] is a 1 chain structure ~~of [[DNA glycosylate]]~~ with sequence from [http://en.wikipedia.org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA].	+	[[1xqp]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrobaculum_aerophilum Pyrobaculum aerophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XQP OCA].

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

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

OCA — Wed, 25 Jul 2012 19:37:40 GMT

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

←Older revision

Revision as of 19:37, 25 July 2012