4iwj - Revision history

OCA at 21:16, 16 November 2022

OCA — Wed, 16 Nov 2022 21:16:18 GMT

←Older revision		Revision as of 21:16, 16 November 2022
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	==Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiseries==		==Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiseries==
-	<StructureSection load='4iwj' size='340' side='right' caption='[[4iwj]], [[Resolution\|resolution]] 1.95Å' scene=''>	+	<StructureSection load='4iwj' size='340' side='right'caption='[[4iwj]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4iwj]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Nitzschia_pungens_f._multiseries Nitzschia pungens f.~~ multiseries]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IWJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4IWJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4iwj]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudo-nitzschia_multiseries Pseudo-nitzschia multiseries]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IWJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4IWJ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=YCM:S-(2-AMINO-2-OXOETHYL)-L-CYSTEINE'>YCM</scene></td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=YCM:S-(2-AMINO-2-OXOETHYL)-L-CYSTEINE'>YCM</scene>~~</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=4iwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4iwj OCA], [https://pdbe.org/4iwj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4iwj RCSB], [https://www.ebi.ac.uk/pdbsum/4iwj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4iwj ProSAT]</span></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ism\|4ism]], [[4isp\|4isp]], [[4itt\|4itt]], [[4itw\|4itw]], [[4iwk\|4iwk]], [[4ixk\|4ixk]]</td></tr>	+
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FTN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=37319 Nitzschia pungens f. multiseries])</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=4iwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4iwj OCA], [~~http~~://pdbe.org/4iwj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4iwj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4iwj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4iwj ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/B6DMH6_PSEMU B6DMH6_PSEMU] Stores iron in a soluble, non-toxic, readily available form. Important for iron homeostasis. Iron is taken up in the ferrous form and deposited as ferric hydroxides after oxidation.[RuleBase:RU361145]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 4iwj" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4iwj" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ferritin 3D structures\|Ferritin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Nitzschia pungens f. multiseries~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Murphy, M E.P]]~~	+	[[Category: Pseudo-nitzschia multiseries]]
-	~~[[Category: Pfaffen, S]]~~	+	[[Category: Murphy MEP]]
-	~~[[Category: Helix bundle]]~~	+	[[Category: Pfaffen S]]
-	~~[[Category: Acetamido~~-~~cysteine~~]]	+
-	[[Category: ~~Ferritin~~]]	+
-	[[Category: ~~Iron storage]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 09:03, 15 November 2017

OCA — Wed, 15 Nov 2017 09:03:14 GMT

←Older revision		Revision as of 09:03, 15 November 2017
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 4iwj" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4iwj" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Ferritin\|Ferritin]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 22:43, 4 August 2016

OCA — Thu, 04 Aug 2016 22:43:59 GMT

←Older revision		Revision as of 22:43, 4 August 2016
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		+
	==Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiseries==		==Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiseries==
	<StructureSection load='4iwj' size='340' side='right' caption='[[4iwj]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='4iwj' size='340' side='right' caption='[[4iwj]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4iwj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pseudo-nitzschia_multiseries Pseudo-nitzschia~~ multiseries]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IWJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IWJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4iwj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Nitzschia_pungens_f._multiseries Nitzschia pungens f. multiseries]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IWJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IWJ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=YCM:S-(2-AMINO-2-OXOETHYL)-L-CYSTEINE'>YCM</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=YCM:S-(2-AMINO-2-OXOETHYL)-L-CYSTEINE'>YCM</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ism\|4ism]], [[4isp\|4isp]], [[4itt\|4itt]], [[4itw\|4itw]], [[4iwk\|4iwk]], [[4ixk\|4ixk]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ism\|4ism]], [[4isp\|4isp]], [[4itt\|4itt]], [[4itw\|4itw]], [[4iwk\|4iwk]], [[4ixk\|4ixk]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FTN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=37319 ~~Pseudo-nitzschia~~ multiseries])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FTN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=37319 Nitzschia pungens f. multiseries])</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=4iwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4iwj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4iwj RCSB], [http://www.ebi.ac.uk/pdbsum/4iwj 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=4iwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4iwj OCA], [http://pdbe.org/4iwj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4iwj RCSB], [http://www.ebi.ac.uk/pdbsum/4iwj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4iwj ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 17:		Line 18:
	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 4iwj" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 24:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Pseudo-nitzschia~~ multiseries]]	+	[[Category: Nitzschia pungens f. multiseries]]
	[[Category: Murphy, M E.P]]		[[Category: Murphy, M E.P]]
	[[Category: Pfaffen, S]]		[[Category: Pfaffen, S]]

OCA at 12:10, 21 December 2014

OCA — Sun, 21 Dec 2014 12:10:23 GMT

←Older revision		Revision as of 12:10, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4iwj\| PDB=4iwj \| SCENE= }}~~	+	==Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiseries==
-	===Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiseries===	+	<StructureSection load='4iwj' size='340' side='right' caption='[[4iwj]], [[Resolution\|resolution]] 1.95Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23548912}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4iwj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudo-nitzschia_multiseries Pseudo-nitzschia multiseries]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IWJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IWJ FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=YCM:S-(2-AMINO-2-OXOETHYL)-L-CYSTEINE'>YCM</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4ism\|4ism]], [[4isp\|4isp]], [[4itt\|4itt]], [[4itw\|4itw]], [[4iwk\|4iwk]], [[4ixk\|4ixk]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">FTN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=37319 Pseudo-nitzschia multiseries])</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=4iwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4iwj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4iwj RCSB], [http://www.ebi.ac.uk/pdbsum/4iwj PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A novel ferritin was recently found in Pseudo-nitzschia multiseries (PmFTN), a marine pennate diatom that plays a major role in global primary production and carbon sequestration into the deep ocean. Crystals of recombinant PmFTN were soaked in iron and zinc solutions, and the structures were solved to 1.65-2.2-A resolution. Three distinct iron binding sites were identified as determined from anomalous dispersion data from aerobically grown ferrous soaked crystals. Sites A and B comprise the conserved ferroxidase active site, and site C forms a pathway leading toward the central cavity where iron storage occurs. In contrast, crystal structures derived from anaerobically grown and ferrous soaked crystals revealed only one ferrous iron in the active site occupying site A. In the presence of dioxygen, zinc is observed bound to all three sites. Iron oxidation experiments using stopped-flow absorbance spectroscopy revealed an extremely rapid phase corresponding to Fe(II) oxidation at the ferroxidase site, which is saturated after adding 48 ferrous iron to apo-PmFTN (two ferrous iron per subunit), and a much slower phase due to iron core formation. These results suggest an ordered stepwise binding of ferrous iron and dioxygen to the ferroxidase site in preparation for catalysis and a partial mobilization of iron from the site following oxidation.

-	~~==About this Structure==~~	+	Mechanism of ferrous iron binding and oxidation by ferritin from a pennate diatom.,Pfaffen S, Abdulqadir R, Le Brun NE, Murphy ME J Biol Chem. 2013 May 24;288(21):14917-25. doi: 10.1074/jbc.M113.454496. Epub, 2013 Apr 2. PMID:23548912<ref>PMID:23548912</ref>
-	~~[[4iwj]] is~~ a ~~8 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pseudo-nitzschia_multiseries Pseudo~~-~~nitzschia multiseries]~~. ~~Full crystallographic information is available from [http~~:/~~/oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=4IWJ OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group~~=~~"xtra">PMID:023548912</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+
		+	==See Also==
		+	*[[Ferritin\|Ferritin]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Pseudo-nitzschia multiseries]]		[[Category: Pseudo-nitzschia multiseries]]
-	[[Category: Murphy, M E.P.]]	+	[[Category: Murphy, M E.P]]
-	[[Category: Pfaffen, S.]]	+	[[Category: Pfaffen, S]]
-	[[Category: ~~4 helix~~ bundle]]	+	[[Category: Helix bundle]]
	[[Category: Acetamido-cysteine]]		[[Category: Acetamido-cysteine]]
	[[Category: Ferritin]]		[[Category: Ferritin]]
	[[Category: Iron storage]]		[[Category: Iron storage]]
	[[Category: Transport protein]]		[[Category: Transport protein]]

OCA at 15:15, 19 June 2013

OCA — Wed, 19 Jun 2013 15:15:08 GMT

←Older revision		Revision as of 15:15, 19 June 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4iwj\| PDB=4iwj \| SCENE= }}
		+	===Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiseries===
		+	{{ABSTRACT_PUBMED_23548912}}

-	~~The entry~~ 4iwj is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4iwj]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudo-nitzschia_multiseries Pseudo-nitzschia multiseries]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IWJ OCA].

-	~~Authors~~: ~~Pfaffen, S.,~~ Murphy, M.E.P.	+	==Reference==
-		+	<ref group="xtra">PMID:023548912</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of iron soaked (45 min) ferritin from Pseudo~~-~~nitzschia multiseries~~	+	[[Category: Pseudo-nitzschia multiseries]]
		+	[[Category: Murphy, M E.P.]]
		+	[[Category: Pfaffen, S.]]
		+	[[Category: 4 helix bundle]]
		+	[[Category: Acetamido-cysteine]]
		+	[[Category: Ferritin]]
		+	[[Category: Iron storage]]
		+	[[Category: Transport protein]]

OCA at 14:21, 27 February 2013

OCA — Wed, 27 Feb 2013 14:21:17 GMT

←Older revision		Revision as of 14:21, 27 February 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4iwj is ON HOLD	+	The entry 4iwj is ON HOLD until Paper Publication

	Authors: Pfaffen, S., Murphy, M.E.P.		Authors: Pfaffen, S., Murphy, M.E.P.

	Description: Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiseries		Description: Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiseries

OCA: Protected "4iwj" [edit=sysop:move=sysop]

OCA — Wed, 30 Jan 2013 12:07:17 GMT

Protected "4iwj" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:07, 30 January 2013

OCA: New page: '''Unreleased structure''' The entry 4iwj is ON HOLD Authors: Pfaffen, S., Murphy, M.E.P. Description: Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiser...

OCA — Wed, 30 Jan 2013 12:07:16 GMT

New page: '''Unreleased structure''' The entry 4iwj is ON HOLD Authors: Pfaffen, S., Murphy, M.E.P. Description: Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiser...

New page

'''Unreleased structure'''

The entry 4iwj is ON HOLD

Authors: Pfaffen, S., Murphy, M.E.P.

Description: Crystal structure of iron soaked (45 min) ferritin from Pseudo-nitzschia multiseries