1z9n - Revision history

OCA at 07:06, 23 August 2023

OCA — Wed, 23 Aug 2023 07:06:18 GMT

←Older revision		Revision as of 07:06, 23 August 2023
Line 3:		Line 3:
	<StructureSection load='1z9n' size='340' side='right'caption='[[1z9n]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='1z9n' size='340' side='right'caption='[[1z9n]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1z9n]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_ulceris_cancrosi"_kruse_1896 "bacillus ulceris cancrosi" kruse 1896~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1Z9N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1z9n]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Haemophilus_ducreyi Haemophilus ducreyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Z9N FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>~~, ~~<scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.5Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[2aps\|2aps]], [[1bzo\|1bzo]], [[1yai\|1yai]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>sodC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~730~~ "~~Bacillus ulceris cancrosi~~" ~~Kruse 1896]~~)~~</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=1z9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9n OCA], [https://pdbe.org/1z9n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1z9n RCSB], [https://www.ebi.ac.uk/pdbsum/1z9n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9n ProSAT]</span></td></tr>
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Superoxide_dismutase Superoxide dismutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.15.1.1 1.15.1.1]~~ </~~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=1z9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9n OCA], [~~http~~://pdbe.org/1z9n PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1z9n RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1z9n PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9n ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/SODC_HAEDU SODC_HAEDU]] Destroys radicals which are normally produced within the cells and which are toxic to biological systems. May play a role in the interactive biology of organisms with their hosts and so contribute to their capacity to cause disease.	+	[https://www.uniprot.org/uniprot/SODC_HAEDU SODC_HAEDU] Destroys radicals which are normally produced within the cells and which are toxic to biological systems. May play a role in the interactive biology of organisms with their hosts and so contribute to their capacity to cause disease.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 38:		Line 36:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus ulceris cancrosi kruse 1896]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Superoxide dismutase]]~~	+	[[Category: Djinovic Carugo K]]
-	~~[[Category:~~ Carugo, K ~~Djinovic~~]]	+	[[Category: Toeroe I]]
-	[[Category: Toeroe, I]]	+
-	~~[[Category: Cu-zn sod]]~~	+
-	~~[[Category: Haem]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Sod~~]]	+

OCA at 09:00, 20 January 2021

OCA — Wed, 20 Jan 2021 09:00:28 GMT

←Older revision		Revision as of 09:00, 20 January 2021
Line 1:		Line 1:

	==X-Ray structure of a Cu-Zn superoxide dismutase from Haemophilus ducreyi with haem bound at the dimer interface==		==X-Ray structure of a Cu-Zn superoxide dismutase from Haemophilus ducreyi with haem bound at the dimer interface==
-	<StructureSection load='1z9n' size='340' side='right' caption='[[1z9n]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='1z9n' size='340' side='right'caption='[[1z9n]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1z9n]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_ulceris_cancrosi"_kruse_1896 "bacillus ulceris cancrosi" kruse 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1Z9N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1z9n]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_ulceris_cancrosi"_kruse_1896 "bacillus ulceris cancrosi" kruse 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1Z9N FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2aps\|2aps]], [[1bzo\|1bzo]], [[1yai\|1yai]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2aps\|2aps]], [[1bzo\|1bzo]], [[1yai\|1yai]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sodC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=730 "Bacillus ulceris cancrosi" Kruse 1896])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sodC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=730 "Bacillus ulceris cancrosi" Kruse 1896])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Superoxide_dismutase Superoxide dismutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.15.1.1 1.15.1.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Superoxide_dismutase Superoxide dismutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.15.1.1 1.15.1.1] </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=1z9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9n OCA], [http://pdbe.org/1z9n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9n RCSB], [http://www.ebi.ac.uk/pdbsum/1z9n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9n 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=1z9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9n OCA], [http://pdbe.org/1z9n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9n RCSB], [http://www.ebi.ac.uk/pdbsum/1z9n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9n ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 31:		Line 31:
	</div>		</div>
	<div class="pdbe-citations 1z9n" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1z9n" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Superoxide dismutase 3D structures\|Superoxide dismutase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 36:		Line 39:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus ulceris cancrosi kruse 1896]]		[[Category: Bacillus ulceris cancrosi kruse 1896]]
		+	[[Category: Large Structures]]
	[[Category: Superoxide dismutase]]		[[Category: Superoxide dismutase]]
	[[Category: Carugo, K Djinovic]]		[[Category: Carugo, K Djinovic]]

OCA at 09:06, 2 May 2018

OCA — Wed, 02 May 2018 09:06:59 GMT

←Older revision		Revision as of 09:06, 2 May 2018
Line 1:		Line 1:
		+
	==X-Ray structure of a Cu-Zn superoxide dismutase from Haemophilus ducreyi with haem bound at the dimer interface==		==X-Ray structure of a Cu-Zn superoxide dismutase from Haemophilus ducreyi with haem bound at the dimer interface==
	<StructureSection load='1z9n' size='340' side='right' caption='[[1z9n]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='1z9n' size='340' side='right' caption='[[1z9n]], [[Resolution\|resolution]] 1.50Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sodC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=730 "Bacillus ulceris cancrosi" Kruse 1896])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sodC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=730 "Bacillus ulceris cancrosi" Kruse 1896])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Superoxide_dismutase Superoxide dismutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.15.1.1 1.15.1.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Superoxide_dismutase Superoxide dismutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.15.1.1 1.15.1.1] </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=1z9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9n OCA], [http://pdbe.org/1z9n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9n RCSB], [http://www.ebi.ac.uk/pdbsum/1z9n 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=1z9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9n OCA], [http://pdbe.org/1z9n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9n RCSB], [http://www.ebi.ac.uk/pdbsum/1z9n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1z9n ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 15:		Line 16:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z9/1z9n_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/z9/1z9n_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 30:		Line 31:
	</div>		</div>
	<div class="pdbe-citations 1z9n" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1z9n" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Superoxide Dismutase\|Superoxide Dismutase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:50, 7 February 2016

OCA — Sun, 07 Feb 2016 18:50:11 GMT

←Older revision		Revision as of 18:50, 7 February 2016
Line 19:		Line 19:
	<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=1z9n ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 04:11, 10 September 2015

OCA — Thu, 10 Sep 2015 04:11:32 GMT

←Older revision		Revision as of 04:11, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1z9n' size='340' side='right' caption='[[1z9n]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='1z9n' size='340' side='right' caption='[[1z9n]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1z9n]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Haemophilus_ducreyi Haemophilus ducreyi~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z9N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1z9n]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_ulceris_cancrosi"_kruse_1896 "bacillus ulceris cancrosi" kruse 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z9N FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2aps\|2aps]], [[1bzo\|1bzo]], [[1yai\|1yai]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2aps\|2aps]], [[1bzo\|1bzo]], [[1yai\|1yai]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sodC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=730 ~~Haemophilus ducreyi~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sodC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=730 "Bacillus ulceris cancrosi" Kruse 1896])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Superoxide_dismutase Superoxide dismutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.15.1.1 1.15.1.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Superoxide_dismutase Superoxide dismutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.15.1.1 1.15.1.1] </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=1z9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z9n RCSB], [http://www.ebi.ac.uk/pdbsum/1z9n 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=1z9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9n OCA], [http://pdbe.org/1z9n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1z9n RCSB], [http://www.ebi.ac.uk/pdbsum/1z9n PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 29:		Line 29:
	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 1z9n" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 37:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Haemophilus ducreyi~~]]	+	[[Category: Bacillus ulceris cancrosi kruse 1896]]
	[[Category: Superoxide dismutase]]		[[Category: Superoxide dismutase]]
	[[Category: Carugo, K Djinovic]]		[[Category: Carugo, K Djinovic]]

OCA at 17:34, 24 December 2014

OCA — Wed, 24 Dec 2014 17:34:30 GMT

←Older revision		Revision as of 17:34, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1z9n]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_ducreyi Haemophilus ducreyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z9N FirstGlance]. <br>		<table><tr><td colspan='2'>[[1z9n]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_ducreyi Haemophilus ducreyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z9N FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2aps\|2aps]], [[1bzo\|1bzo]], [[1yai\|1yai]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2aps\|2aps]], [[1bzo\|1bzo]], [[1yai\|1yai]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sodC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=730 Haemophilus ducreyi])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sodC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=730 Haemophilus ducreyi])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Superoxide_dismutase Superoxide dismutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.15.1.1 1.15.1.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Superoxide_dismutase Superoxide dismutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.15.1.1 1.15.1.1] </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=1z9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z9n RCSB], [http://www.ebi.ac.uk/pdbsum/1z9n 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=1z9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z9n RCSB], [http://www.ebi.ac.uk/pdbsum/1z9n PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SODC_HAEDU SODC_HAEDU]] Destroys radicals which are normally produced within the cells and which are toxic to biological systems. May play a role in the interactive biology of organisms with their hosts and so contribute to their capacity to cause disease.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 38:
	[[Category: Haemophilus ducreyi]]		[[Category: Haemophilus ducreyi]]
	[[Category: Superoxide dismutase]]		[[Category: Superoxide dismutase]]
-	[[Category: Carugo, K Djinovic.]]	+	[[Category: Carugo, K Djinovic]]
-	[[Category: Toeroe, I.]]	+	[[Category: Toeroe, I]]
	[[Category: Cu-zn sod]]		[[Category: Cu-zn sod]]
	[[Category: Haem]]		[[Category: Haem]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
	[[Category: Sod]]		[[Category: Sod]]

OCA at 19:39, 28 September 2014

OCA — Sun, 28 Sep 2014 19:39:02 GMT

←Older revision		Revision as of 19:39, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1z9n.~~png~~\|~~left~~\|200px]]	+	==X-Ray structure of a Cu-Zn superoxide dismutase from Haemophilus ducreyi with haem bound at the dimer interface==
		+	<StructureSection load='1z9n' size='340' side='right' caption='[[1z9n]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1z9n]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_ducreyi Haemophilus ducreyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Z9N FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2aps\|2aps]], [[1bzo\|1bzo]], [[1yai\|1yai]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sodC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=730 Haemophilus ducreyi])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Superoxide_dismutase Superoxide dismutase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.15.1.1 1.15.1.1] </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=1z9n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1z9n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1z9n RCSB], [http://www.ebi.ac.uk/pdbsum/1z9n 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/z9/1z9n_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 Cu,Zn superoxide dismutase from Haemophilus ducreyi is characterized by the unique ability to bind heme at its dimer interface. Here we report the high-resolution crystal structures of this protein in the heme-loaded (holo) and heme-free (apo) forms. Heme is asymmetrically bound between the two enzyme subunits, where heme iron is coordinated by two histidine residues, His64 and His 124, provided by the two subunits. Moreover, the binding of heme to the protein is ensured by stabilizing contacts between the prosthetic group and a limited number of other residues, most of which are not present in other bacterial enzyme variants. We show that the introduction of only three mutations at the dimer interface of the enzyme from Haemophilus parainfluenzae, a closely related bacterial species, is sufficient to induce heme-binding ability by this enzyme variant. Heme binding does not alter protein activity. Moreover, the binding of the prosthetic group does not induce any significant structural perturbation at the subunit level and requires only limited local structural rearrangements that widen the cleft at the dimer interface and cause a limited shift in the relative orientation between the subunits. The presence of a preformed heme-binding pocket and the significant solvent exposure of the cofactor to the solvent are compatible with the suggested protective role of the enzyme against heme toxicity or with its involvement in heme trafficking in the periplasmic space.

-	~~{{STRUCTURE_1z9n\| PDB=1z9n \| SCENE= }}~~	+	Structural basis of heme binding in the Cu,Zn superoxide dismutase from Haemophilus ducreyi.,Toro I, Petrutz C, Pacello F, D'Orazio M, Battistoni A, Djinovic-Carugo K J Mol Biol. 2009 Feb 20;386(2):406-18. Epub 2008 Dec 11. PMID:19103206<ref>PMID:19103206</ref>

-	~~===X-Ray structure~~ of ~~a Cu-Zn superoxide dismutase from Haemophilus ducreyi with haem bound at~~ the ~~dimer interface===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19103206}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1z9n]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Haemophilus_ducreyi Haemophilus ducreyi]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA].~~	+

	==See Also==		==See Also==
	*[[Superoxide Dismutase\|Superoxide Dismutase]]		*[[Superoxide Dismutase\|Superoxide Dismutase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019103206<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Haemophilus ducreyi]]		[[Category: Haemophilus ducreyi]]
	[[Category: Superoxide dismutase]]		[[Category: Superoxide dismutase]]

OCA at 07:34, 20 October 2012

OCA — Sat, 20 Oct 2012 07:34:20 GMT

←Older revision		Revision as of 07:34, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1z9n]] is a 4 chain structure ~~of [[Superoxide Dismutase]]~~ with sequence from [http://en.wikipedia.org/wiki/Haemophilus_ducreyi Haemophilus ducreyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA].	+	[[1z9n]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Haemophilus_ducreyi Haemophilus ducreyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Z9N OCA].

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

OCA at 16:44, 25 July 2012

OCA — Wed, 25 Jul 2012 16:44:57 GMT

←Older revision		Revision as of 16:44, 25 July 2012
Line 1:		Line 1:
	[[Image:1z9n.png\|left\|200px]]		[[Image:1z9n.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1z9n", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
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	{{STRUCTURE_1z9n\| PDB=1z9n \| SCENE= }}		{{STRUCTURE_1z9n\| PDB=1z9n \| SCENE= }}

	===X-Ray structure of a Cu-Zn superoxide dismutase from Haemophilus ducreyi with haem bound at the dimer interface===		===X-Ray structure of a Cu-Zn superoxide dismutase from Haemophilus ducreyi with haem bound at the dimer interface===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19103206}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19103206 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_19103206}}		{{ABSTRACT_PUBMED_19103206}}

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	==See Also==		==See Also==
-	*[[Superoxide Dismutase]]	+	*[[Superoxide Dismutase\|Superoxide Dismutase]]

	==Reference==		==Reference==

OCA at 07:06, 30 October 2011

OCA — Sun, 30 Oct 2011 07:06:54 GMT

←Older revision		Revision as of 07:06, 30 October 2011
Line 11:		Line 11:
	===X-Ray structure of a Cu-Zn superoxide dismutase from Haemophilus ducreyi with haem bound at the dimer interface===		===X-Ray structure of a Cu-Zn superoxide dismutase from Haemophilus ducreyi with haem bound at the dimer interface===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19103206}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19103206 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19103206}}

	==About this Structure==		==About this Structure==
Line 17:		Line 23:
	==See Also==		==See Also==
	*[[Superoxide Dismutase]]		*[[Superoxide Dismutase]]
		+
		+	==Reference==
		+	<ref group="xtra">PMID:019103206</ref><references group="xtra"/>
	[[Category: Haemophilus ducreyi]]		[[Category: Haemophilus ducreyi]]
	[[Category: Superoxide dismutase]]		[[Category: Superoxide dismutase]]