5n56 - Revision history

OCA at 18:02, 8 November 2023

2023-11-08T18:02:53Z

←Older revision		Revision as of 18:02, 8 November 2023
Line 1:		Line 1:

	==Staphylococcus aureus Mn-dependent superoxide dismutase SodA==		==Staphylococcus aureus Mn-dependent superoxide dismutase SodA==
-	<StructureSection load='5n56' size='340' side='right' caption='[[5n56]], [[Resolution\|resolution]] 2.07Å' scene=''>	+	<StructureSection load='5n56' size='340' side='right'caption='[[5n56]], [[Resolution\|resolution]] 2.07Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5n56]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Staab Staab~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N56 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5N56 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5n56]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_RF122 Staphylococcus aureus RF122]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N56 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5N56 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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]] 2.07Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">sodA, SAB1425c ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=273036 STAAB])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></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'>[https://proteopedia.org/fgij/fg.htm?mol=5n56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n56 OCA], [https://pdbe.org/5n56 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5n56 RCSB], [https://www.ebi.ac.uk/pdbsum/5n56 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5n56 ProSAT]</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=5n56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n56 OCA], [~~http~~://pdbe.org/5n56 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5n56 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5n56 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5n56 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/SODM1_STAAB SODM1_STAAB]] Destroys superoxide anion radicals which are normally produced within the cells and which are toxic to biological systems.	+	[https://www.uniprot.org/uniprot/SODM1_STAAB SODM1_STAAB] Destroys superoxide anion radicals which are normally produced within the cells and which are toxic to biological systems.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5n56" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5n56" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Superoxide dismutase 3D structures\|Superoxide dismutase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Staab~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Superoxide dismutase~~]]	+	[[Category: Staphylococcus aureus RF122]]
-	[[Category: Barwinska-Sendra, A]]	+	[[Category: Barwinska-Sendra A]]
-	[[Category: Basle, A]]	+	[[Category: Basle A]]
-	[[Category: Waldron, K]]	+	[[Category: Waldron K]]
-	~~[[Category: Mn-dependent]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Staphylococcus aureus~~]]	+

OCA at 07:53, 21 March 2018

2018-03-21T07:53:33Z

←Older revision		Revision as of 07:53, 21 March 2018
Line 3:		Line 3:
	<StructureSection load='5n56' size='340' side='right' caption='[[5n56]], [[Resolution\|resolution]] 2.07Å' scene=''>		<StructureSection load='5n56' size='340' side='right' caption='[[5n56]], [[Resolution\|resolution]] 2.07Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5n56]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N56 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N56 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5n56]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Staab Staab]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N56 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N56 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">sodA, SAB1425c ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=273036 STAAB])</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=5n56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n56 OCA], [http://pdbe.org/5n56 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n56 RCSB], [http://www.ebi.ac.uk/pdbsum/5n56 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n56 ProSAT]</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=5n56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n56 OCA], [http://pdbe.org/5n56 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n56 RCSB], [http://www.ebi.ac.uk/pdbsum/5n56 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n56 ProSAT]</span></td></tr>
Line 10:		Line 11:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/SODM1_STAAB SODM1_STAAB]] Destroys superoxide anion radicals which are normally produced within the cells and which are toxic to biological systems.		[[http://www.uniprot.org/uniprot/SODM1_STAAB SODM1_STAAB]] Destroys superoxide anion radicals which are normally produced within the cells and which are toxic to biological systems.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The pathogenicity of Staphylococcus aureus is enhanced by having two superoxide dismutases (SODs): a Mn-specific SOD and another that can use either Mn or Fe. Using 94 GHz electron-nuclear double resonance (ENDOR) and electron double resonance detected (ELDOR)-NMR we show that, despite their different metal-specificities, their structural and electronic similarities extend down to their active-site (1)H- and (14)N-Mn(ii) hyperfine interactions. However these interactions, and hence the positions of these nuclei, are different in the inactive Mn-reconstituted Escherichia coli Fe-specific SOD. Density functional theory modelling attributes this to a different angular position of the E. coli H171 ligand. This likely disrupts the Mn-H171-E170' triad causing a shift in charge and in metal redox potential, leading to the loss of activity. This is supported by the correlated differences in the Mn(ii) zero-field interactions of the three SOD types and suggests that the triad is important for determining metal specific activity.
		+
		+	A charge polarization model for the metal-specific activity of superoxide dismutases.,Barwinska-Sendra A, Basle A, Waldron KJ, Un S Phys Chem Chem Phys. 2018 Jan 24;20(4):2363-2372. doi: 10.1039/c7cp06829h. PMID:29308487<ref>PMID:29308487</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5n56" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Staab]]
	[[Category: Superoxide dismutase]]		[[Category: Superoxide dismutase]]
	[[Category: Barwinska-Sendra, A]]		[[Category: Barwinska-Sendra, A]]

OCA at 04:57, 8 March 2018

2018-03-08T04:57:46Z

←Older revision		Revision as of 04:57, 8 March 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5n56 is ~~ON HOLD until Paper Publication~~	+	==Staphylococcus aureus Mn-dependent superoxide dismutase SodA==
-		+	<StructureSection load='5n56' size='340' side='right' caption='[[5n56]], [[Resolution\|resolution]] 2.07Å' scene=''>
-	~~Authors~~: ~~Barwinska~~-~~Sendra~~, A., ~~Basle~~, A., ~~Waldron~~, K.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5n56]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5N56 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5N56 FirstGlance]. <br>
-	~~Description~~: ~~Staphylococcus aureus Mn-dependent~~ superoxide dismutase ~~SodA~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=5n56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5n56 OCA], [http://pdbe.org/5n56 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5n56 RCSB], [http://www.ebi.ac.uk/pdbsum/5n56 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5n56 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SODM1_STAAB SODM1_STAAB]] Destroys superoxide anion radicals which are normally produced within the cells and which are toxic to biological systems.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Superoxide dismutase]]
		+	[[Category: Barwinska-Sendra, A]]
		+	[[Category: Basle, A]]
	[[Category: Waldron, K]]		[[Category: Waldron, K]]
-	[[Category: ~~Basle, A~~]]	+	[[Category: Mn-dependent]]
-	[[Category: ~~Barwinska-Sendra, A~~]]	+	[[Category: Oxidoreductase]]
		+	[[Category: Staphylococcus aureus]]

OCA: Protected "5n56" [edit=sysop:move=sysop]

2017-03-09T12:03:56Z

Protected "5n56" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:03, 9 March 2017

OCA: New page: '''Unreleased structure''' The entry 5n56 is ON HOLD until Paper Publication Authors: Barwinska-Sendra, A., Basle, A., Waldron, K. Description: Staphylococcus aureus Mn-dependent super...

2017-03-09T12:03:55Z

New page: '''Unreleased structure''' The entry 5n56 is ON HOLD until Paper Publication Authors: Barwinska-Sendra, A., Basle, A., Waldron, K. Description: Staphylococcus aureus Mn-dependent super...

New page

'''Unreleased structure'''

The entry 5n56 is ON HOLD until Paper Publication

Authors: Barwinska-Sendra, A., Basle, A., Waldron, K.

Description: Staphylococcus aureus Mn-dependent superoxide dismutase SodA
[[Category: Unreleased Structures]]
[[Category: Waldron, K]]
[[Category: Basle, A]]
[[Category: Barwinska-Sendra, A]]