3a46 - Revision history

OCA at 14:10, 1 November 2023

2023-11-01T14:10:02Z

←Older revision		Revision as of 14:10, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='3a46' size='340' side='right'caption='[[3a46]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='3a46' size='340' side='right'caption='[[3a46]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3a46]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Apmv Apmv~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A46 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3a46]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A46 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 2.2Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene>~~</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3a42\|3a42]]~~, ~~[[3a45\|3a45]]~~<~~/div></td></tr>~~	+
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b></td><td class="sblockDat">L315 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=212035 APMV])</td></tr>~~	+
-	~~<tr id='activity~~'>~~<td class="sblockLbl"><b>Activity:~~</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/DNA-formamidopyrimidine_glycosylase DNA-formamidopyrimidine glycosylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.23 3.2.2.23] </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=3a46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a46 OCA], [https://pdbe.org/3a46 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a46 RCSB], [https://www.ebi.ac.uk/pdbsum/3a46 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a46 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=3a46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a46 OCA], [https://pdbe.org/3a46 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a46 RCSB], [https://www.ebi.ac.uk/pdbsum/3a46 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a46 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/FPG_MIMIV FPG_MIMIV]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 37:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Apmv]]~~	+	[[Category: Acanthamoeba polyphaga mimivirus]]
-	~~[[Category: DNA-formamidopyrimidine glycosylase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Doublie, S]]	+	[[Category: Doublie S]]
-	[[Category: Imamura, K]]	+	[[Category: Imamura K]]
-	[[Category: Wallace, S]]	+	[[Category: Wallace S]]
-	~~[[Category: Dna damage]]~~	+
-	~~[[Category: Dna repair]]~~	+
-	~~[[Category: Dna-binding]]~~	+
-	~~[[Category: Glycosidase]]~~	+
-	~~[[Category: Helix two turns helix]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Multifunctional enzyme]]~~	+
-	~~[[Category: Thf]]~~	+
-	~~[[Category: Zinc-less finger~~]]	+

OCA at 16:16, 22 December 2021

2021-12-22T16:16:31Z

←Older revision		Revision as of 16:16, 22 December 2021
Line 1:		Line 1:

	==Crystal structure of MvNei1/THF complex==		==Crystal structure of MvNei1/THF complex==
-	<StructureSection load='3a46' size='340' side='right' caption='[[3a46]], [[Resolution\|resolution]] 2.20Å' scene=''>	+	<StructureSection load='3a46' size='340' side='right'caption='[[3a46]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3a46]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Apmv Apmv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3A46 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3a46]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Apmv Apmv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A46 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3a42\|3a42]], [[3a45\|3a45]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3a42\|3a42]], [[3a45\|3a45]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L315 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=212035 APMV])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L315 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=212035 APMV])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/DNA-formamidopyrimidine_glycosylase DNA-formamidopyrimidine glycosylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.23 3.2.2.23] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/DNA-formamidopyrimidine_glycosylase DNA-formamidopyrimidine glycosylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.23 3.2.2.23] </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=3a46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a46 OCA], [~~http~~://pdbe.org/3a46 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3a46 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3a46 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3a46 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=3a46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a46 OCA], [https://pdbe.org/3a46 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a46 RCSB], [https://www.ebi.ac.uk/pdbsum/3a46 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a46 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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 39:		Line 39:
	[[Category: Apmv]]		[[Category: Apmv]]
	[[Category: DNA-formamidopyrimidine glycosylase]]		[[Category: DNA-formamidopyrimidine glycosylase]]
		+	[[Category: Large Structures]]
	[[Category: Doublie, S]]		[[Category: Doublie, S]]
	[[Category: Imamura, K]]		[[Category: Imamura, K]]

OCA at 07:45, 24 October 2018

2018-10-24T07:45:06Z

←Older revision		Revision as of 07:45, 24 October 2018
Line 1:		Line 1:
		+
	==Crystal structure of MvNei1/THF complex==		==Crystal structure of MvNei1/THF complex==
	<StructureSection load='3a46' size='340' side='right' caption='[[3a46]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='3a46' size='340' side='right' caption='[[3a46]], [[Resolution\|resolution]] 2.20Å' scene=''>
Line 8:		Line 9:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L315 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=212035 APMV])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L315 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=212035 APMV])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-formamidopyrimidine_glycosylase DNA-formamidopyrimidine glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.23 3.2.2.23] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-formamidopyrimidine_glycosylase DNA-formamidopyrimidine glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.23 3.2.2.23] </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=3a46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a46 OCA], [http://pdbe.org/3a46 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3a46 RCSB], [http://www.ebi.ac.uk/pdbsum/3a46 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=3a46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a46 OCA], [http://pdbe.org/3a46 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3a46 RCSB], [http://www.ebi.ac.uk/pdbsum/3a46 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3a46 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/a4/3a46_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/a4/3a46_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 18:35, 7 February 2016

2016-02-07T18:35:13Z

←Older revision		Revision as of 18:35, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='3a46' size='340' side='right' caption='[[3a46]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='3a46' size='340' side='right' caption='[[3a46]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3a46]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A46 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3a46]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Apmv Apmv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A46 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3a42\|3a42]], [[3a45\|3a45]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3a42\|3a42]], [[3a45\|3a45]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L315 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=212035 ~~Acanthamoeba polyphaga mimivirus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L315 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=212035 APMV])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-formamidopyrimidine_glycosylase DNA-formamidopyrimidine glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.23 3.2.2.23] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-formamidopyrimidine_glycosylase DNA-formamidopyrimidine glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.23 3.2.2.23] </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=3a46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a46 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a46 RCSB], [http://www.ebi.ac.uk/pdbsum/3a46 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=3a46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a46 OCA], [http://pdbe.org/3a46 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3a46 RCSB], [http://www.ebi.ac.uk/pdbsum/3a46 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 18:		Line 18:
	<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=3a46 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		Line 28:
	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 3a46" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 35:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Acanthamoeba polyphaga mimivirus~~]]	+	[[Category: Apmv]]
	[[Category: DNA-formamidopyrimidine glycosylase]]		[[Category: DNA-formamidopyrimidine glycosylase]]
	[[Category: Doublie, S]]		[[Category: Doublie, S]]

OCA at 14:32, 5 January 2015

2015-01-05T14:32:31Z

←Older revision		Revision as of 14:32, 5 January 2015
Line 1:		Line 1:
-	[[~~Image:~~3a46.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of MvNei1/THF complex==
		+	<StructureSection load='3a46' size='340' side='right' caption='[[3a46]], [[Resolution\|resolution]] 2.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3a46]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3A46 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=3DR:1,2-DIDEOXYRIBOFURANOSE-5-PHOSPHATE'>3DR</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3a42\|3a42]], [[3a45\|3a45]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">L315 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=212035 Acanthamoeba polyphaga mimivirus])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-formamidopyrimidine_glycosylase DNA-formamidopyrimidine glycosylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.23 3.2.2.23] </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=3a46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a46 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3a46 RCSB], [http://www.ebi.ac.uk/pdbsum/3a46 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/a4/3a46_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 ==
		+	Endonuclease VIII (Nei) is a DNA glycosylase of the base excision repair pathway that recognizes and excises oxidized pyrimidines. We determined the crystal structures of a NEIL1 ortholog from the giant Mimivirus (MvNei1) unliganded and bound to DNA containing tetrahydrofuran (THF), which is the first structure of any Nei with an abasic site analog. The MvNei1 structures exhibit the same overall architecture as other enzymes of the Fpg/Nei family, which consists of two globular domains joined by a linker region. MvNei1 harbors a zincless finger, first described in human NEIL1, rather than the signature zinc finger generally found in the Fpg/Nei family. In contrast to Escherichia coli Nei, where a dramatic conformational change was observed upon binding DNA, the structure of MvNei1 bound to DNA does not reveal any substantial movement compared with the unliganded enzyme. A protein segment encompassing residues 217-245 in MvNei1 corresponds to the "missing loop" in E. coli Nei and the "alphaF-beta10 loop" in E. coli Fpg, which has been reported to be involved in lesion recognition. Interestingly, the corresponding loop in MvNei1 is ordered in both the unliganded and furan-bound structures, unlike other Fpg/Nei enzymes where the loop is generally ordered in the unliganded enzyme or in complexes with a lesion, and disordered otherwise. In the MvNei1.tetrahydrofuran complex a tyrosine located at the tip of the putative lesion recognition loop stacks against the furan ring; the tyrosine is predicted to adopt a different conformation to accommodate a modified base.

-	~~{{STRUCTURE_3a46\| PDB=3a46 \| SCENE= }}~~	+	Structural characterization of a viral NEIL1 ortholog unliganded and bound to abasic site-containing DNA.,Imamura K, Wallace SS, Doublie S J Biol Chem. 2009 Sep 18;284(38):26174-83. Epub 2009 Jul 22. PMID:19625256<ref>PMID:19625256</ref>

-	~~===Crystal structure of MvNei1~~/~~THF complex===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19625256}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3a46]] is~~ a ~~6 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA].~~	+

	==See Also==		==See Also==
-	*[[DNA ~~glycosylate~~\|DNA ~~glycosylate~~]]	+	*[[DNA glycosylase\|DNA glycosylase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019625256<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Acanthamoeba polyphaga mimivirus]]		[[Category: Acanthamoeba polyphaga mimivirus]]
	[[Category: DNA-formamidopyrimidine glycosylase]]		[[Category: DNA-formamidopyrimidine glycosylase]]
-	[[Category: Doublie, S.]]	+	[[Category: Doublie, S]]
-	[[Category: Imamura, K.]]	+	[[Category: Imamura, K]]
-	[[Category: Wallace, S.]]	+	[[Category: Wallace, S]]
	[[Category: Dna damage]]		[[Category: Dna damage]]
	[[Category: Dna repair]]		[[Category: Dna repair]]

OCA at 07:32, 20 October 2012

2012-10-20T07:32:20Z

←Older revision		Revision as of 07:32, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3a46]] is a 6 chain structure ~~of [[DNA glycosylate]]~~ with sequence from [http://en.wikipedia.org/wiki/Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA].	+	[[3a46]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA].

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

OCA: Protected "3a46" [edit=sysop:move=sysop]

2012-07-25T16:38:43Z

Protected "3a46" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:38, 25 July 2012

OCA at 16:38, 25 July 2012

2012-07-25T16:38:42Z

←Older revision		Revision as of 16:38, 25 July 2012
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-	{{Seed}}
	[[Image:3a46.png\|left\|200px]]		[[Image:3a46.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3a46", 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_3a46\| PDB=3a46 \| SCENE= }}		{{STRUCTURE_3a46\| PDB=3a46 \| SCENE= }}

	===Crystal structure of MvNei1/THF complex===		===Crystal structure of MvNei1/THF complex===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19625256}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19625256 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_19625256}}		{{ABSTRACT_PUBMED_19625256}}

	==About this Structure==		==About this Structure==
-	~~3A46~~ is a 6 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA].	+	[[3a46]] is a 6 chain structure of [[DNA glycosylate]] with sequence from [http://en.wikipedia.org/wiki/Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA].
		+
		+	==See Also==
		+	*[[DNA glycosylate\|DNA glycosylate]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19625256~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019625256</ref><references group="xtra"/>
	[[Category: Acanthamoeba polyphaga mimivirus]]		[[Category: Acanthamoeba polyphaga mimivirus]]
	[[Category: DNA-formamidopyrimidine glycosylase]]		[[Category: DNA-formamidopyrimidine glycosylase]]
Line 39:		Line 30:
	[[Category: Thf]]		[[Category: Thf]]
	[[Category: Zinc-less finger]]		[[Category: Zinc-less finger]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 30 08:39:59 2009''

OCA at 06:39, 30 September 2009

2009-09-30T06:39:59Z

←Older revision		Revision as of 06:39, 30 September 2009
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:3a46.~~jpg~~\|left\|200px]]	+	[[Image:3a46.png\|left\|200px]]

	<!--		<!--
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	===Crystal structure of MvNei1/THF complex===		===Crystal structure of MvNei1/THF complex===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19625256}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19625256 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19625256}}

	==About this Structure==		==About this Structure==
	3A46 is a 6 chains structure of sequences from [http://en.wikipedia.org/wiki/Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA].		3A46 is a 6 chains structure of sequences from [http://en.wikipedia.org/wiki/Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19625256</ref><references group="xtra"/>
	[[Category: Acanthamoeba polyphaga mimivirus]]		[[Category: Acanthamoeba polyphaga mimivirus]]
	[[Category: DNA-formamidopyrimidine glycosylase]]		[[Category: DNA-formamidopyrimidine glycosylase]]
Line 31:		Line 40:
	[[Category: Zinc-less finger]]		[[Category: Zinc-less finger]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jul 22 20~~:34:17 2009''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 30 08:39:59 2009''

OCA at 17:34, 22 July 2009

2009-07-22T17:34:18Z

←Older revision		Revision as of 17:34, 22 July 2009
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-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3a46.jpg\|left\|200px]]

-	The ~~entry 3a46~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3a46", 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_3a46\| PDB=3a46 \| SCENE= }}

-	~~Authors: Imamura, K., Wallace, S., Doublie, S.~~	+	===Crystal structure of MvNei1/THF complex===

-	Description: Crystal structure of MvNei1/THF complex

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul ~~15 08~~:24:48 2009''	+	==About this Structure==
		+	3A46 is a 6 chains structure of sequences from [http://en.wikipedia.org/wiki/Acanthamoeba_polyphaga_mimivirus Acanthamoeba polyphaga mimivirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A46 OCA].
		+	[[Category: Acanthamoeba polyphaga mimivirus]]
		+	[[Category: DNA-formamidopyrimidine glycosylase]]
		+	[[Category: Doublie, S.]]
		+	[[Category: Imamura, K.]]
		+	[[Category: Wallace, S.]]
		+	[[Category: Dna damage]]
		+	[[Category: Dna repair]]
		+	[[Category: Dna-binding]]
		+	[[Category: Glycosidase]]
		+	[[Category: Helix two turns helix]]
		+	[[Category: Hydrolase]]
		+	[[Category: Lyase]]
		+	[[Category: Multifunctional enzyme]]
		+	[[Category: Thf]]
		+	[[Category: Zinc-less finger]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 22 20:34:17 2009''