6nsw - Revision history

OCA at 06:59, 11 October 2023

OCA — Wed, 11 Oct 2023 06:59:17 GMT

←Older revision		Revision as of 06:59, 11 October 2023
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	<StructureSection load='6nsw' size='340' side='right'caption='[[6nsw]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='6nsw' size='340' side='right'caption='[[6nsw]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6nsw]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NSW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6NSW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6nsw]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Neurospora_crassa_OR74A Neurospora crassa OR74A]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NSW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6NSW FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</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]] 2.099Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4aj9\|4aj9]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Catalase Catalase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.6 1.11.1.6] </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=6nsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nsw OCA], [https://pdbe.org/6nsw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6nsw RCSB], [https://www.ebi.ac.uk/pdbsum/6nsw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6nsw 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=6nsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nsw OCA], [~~http~~://pdbe.org/6nsw PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6nsw RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6nsw PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6nsw ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/CAT3_NEUCR CAT3_NEUCR]] Occurs in almost all aerobically respiring organisms and serves to protect cells from the toxic effects of hydrogen peroxide (By similarity).	+	[https://www.uniprot.org/uniprot/CAT3_NEUCR CAT3_NEUCR] Occurs in almost all aerobically respiring organisms and serves to protect cells from the toxic effects of hydrogen peroxide (By similarity).
	<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 6nsw" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6nsw" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Catalase 3D structures\|Catalase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Catalase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Rudino-Pinera, E]]	+	[[Category: Neurospora crassa OR74A]]
-	[[Category: Stojanoff, V]]	+	[[Category: Rudino-Pinera E]]
-	[[Category: Zarate-Romero, A]]	+	[[Category: Stojanoff V]]
-	~~[[Category: Compound i]]~~	+	[[Category: Zarate-Romero A]]
-	~~[[Category: Heme]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: X-ray reduced~~]]	+

OCA at 08:55, 1 May 2019

OCA — Wed, 01 May 2019 08:55:03 GMT

←Older revision		Revision as of 08:55, 1 May 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6nsw is ~~ON HOLD until Paper~~ Publication	+	==X-ray reduced Catalase 3 From N.Crassa in Cpd I state (0.135 MGy)==
		+	<StructureSection load='6nsw' size='340' side='right'caption='[[6nsw]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6nsw]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6NSW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6NSW FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=O:OXYGEN+ATOM'>O</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4aj9\|4aj9]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Catalase Catalase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.6 1.11.1.6] </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=6nsw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nsw OCA], [http://pdbe.org/6nsw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nsw RCSB], [http://www.ebi.ac.uk/pdbsum/6nsw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nsw ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CAT3_NEUCR CAT3_NEUCR]] Occurs in almost all aerobically respiring organisms and serves to protect cells from the toxic effects of hydrogen peroxide (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Catalases are biotechnologically relevant enzymes because of their applications in food technology, bioremediation, and biomedicine. The dismutation of hydrogen peroxide occurs in two steps; in the first one, the enzyme forms an oxidized compound I (Cpd I) and in the second one, the enzyme is reduced to the ferric state. In this research work, we analyzed the reduction of Cpd I by X-ray radiation damage during diffraction experiments in crystals of CAT-3, a Large-Size Subunit Catalase (LSC) from Neurospora crassa. A Multi-Crystal Data collection Strategy was applied in order to obtain the Cpd I structure at a resolution of 2.2A; this intermediate was highly sensitive to X-ray and was easily reduced at very low deposited radiation dose, causing breakage of the Fe=O bond. The comparison of the structures showed reduced intermediates and also evidenced the differential sensitivity per monomer. The resting ferric state was reduced to the ferrous state, an intermediate without a previous report in LSC. The chemically obtained Cpd I and the X-ray reduced intermediates were identified by UV-visible microspectrometry coupled to data collection. The differential sensitivity and the formation of a ferrous state are discussed, emphasizing the importance of the correct interpretation in the oxidation state of the iron heme.

-	~~Authors:~~ Zarate-Romero, A., Rudino-Pinera, E.~~, Stojanoff, V~~.	+	X-ray driven reduction of Cpd I of Catalase-3 from N. crassa reveals differential sensitivity of active sites and formation of ferrous state.,Zarate-Romero A, Stojanoff V, Cohen AE, Hansberg W, Rudino-Pinera E Arch Biochem Biophys. 2019 Mar 30;666:107-115. doi: 10.1016/j.abb.2019.03.020. PMID:30940570<ref>PMID:30940570</ref>

-	~~Description: X-ray reduced Catalase 3~~ From N.~~Crassa in Cpd I state (0~~.~~135 MGy)~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Stojanoff, V~~]]	+	<div class="pdbe-citations 6nsw" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Catalase]]
		+	[[Category: Large Structures]]
	[[Category: Rudino-Pinera, E]]		[[Category: Rudino-Pinera, E]]
		+	[[Category: Stojanoff, V]]
	[[Category: Zarate-Romero, A]]		[[Category: Zarate-Romero, A]]
		+	[[Category: Compound i]]
		+	[[Category: Heme]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: X-ray reduced]]

OCA at 05:07, 21 February 2019

OCA — Thu, 21 Feb 2019 05:07:51 GMT

←Older revision		Revision as of 05:07, 21 February 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6nsw is ON HOLD	+	The entry 6nsw is ON HOLD until Paper Publication

	Authors: Zarate-Romero, A., Rudino-Pinera, E., Stojanoff, V.		Authors: Zarate-Romero, A., Rudino-Pinera, E., Stojanoff, V.

OCA: Protected "6nsw" [edit=sysop:move=sysop]

OCA — Wed, 13 Feb 2019 07:41:33 GMT

Protected "6nsw" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:41, 13 February 2019

OCA: New page: '''Unreleased structure''' The entry 6nsw is ON HOLD Authors: Zarate-Romero, A., Rudino-Pinera, E., Stojanoff, V. Description: X-ray reduced Catalase 3 From N.Crassa in Cpd I state (0....

OCA — Wed, 13 Feb 2019 07:41:31 GMT

New page: '''Unreleased structure''' The entry 6nsw is ON HOLD Authors: Zarate-Romero, A., Rudino-Pinera, E., Stojanoff, V. Description: X-ray reduced Catalase 3 From N.Crassa in Cpd I state (0....

New page

'''Unreleased structure'''

The entry 6nsw is ON HOLD

Authors: Zarate-Romero, A., Rudino-Pinera, E., Stojanoff, V.

Description: X-ray reduced Catalase 3 From N.Crassa in Cpd I state (0.135 MGy)
[[Category: Unreleased Structures]]
[[Category: Stojanoff, V]]
[[Category: Rudino-Pinera, E]]
[[Category: Zarate-Romero, A]]