4zl6 - Revision history

OCA at 08:20, 27 September 2023

2023-09-27T08:20:03Z

←Older revision		Revision as of 08:20, 27 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4zl6]] is a 6 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=4ZL6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZL6 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4zl6]] is a 6 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=4ZL6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZL6 FirstGlance]. <br>
-	</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>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.9Å</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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4zl6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zl6 OCA], [https://pdbe.org/4zl6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zl6 RCSB], [https://www.ebi.ac.uk/pdbsum/4zl6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zl6 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=4zl6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zl6 OCA], [https://pdbe.org/4zl6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zl6 RCSB], [https://www.ebi.ac.uk/pdbsum/4zl6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zl6 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:32, 18 May 2023

2023-05-18T07:32:08Z

←Older revision		Revision as of 07:32, 18 May 2023
Line 3:		Line 3:
	<StructureSection load='4zl6' size='340' side='right'caption='[[4zl6]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4zl6' size='340' side='right'caption='[[4zl6]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4zl6]] is a 6 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=4ZL6 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4ZL6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4zl6]] is a 6 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=4ZL6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZL6 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=4zl6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zl6 OCA], [https://pdbe.org/4zl6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zl6 RCSB], [https://www.ebi.ac.uk/pdbsum/4zl6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zl6 ProSAT]</span></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zkh\|4zkh]], [[4zkw\|4zkw]], [[4zkx\|4zkx]], [[4zl5\|4zl5]]</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='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ferroxidase Ferroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.16.3.1 1.16.3.1] </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=4zl6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zl6 OCA], [~~http~~://pdbe.org/4zl6 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4zl6 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4zl6 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4zl6 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 ==
Line 22:		Line 20:

	==See Also==		==See Also==
-	*[[Ferritin\|Ferritin]]	+	*[[Ferritin 3D structures\|Ferritin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Ferroxidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Nitzschia pungens f.~~ multiseries]]	+	[[Category: Pseudo-nitzschia multiseries]]
-	[[Category: Murphy~~, M E.P~~]]	+	[[Category: Murphy MEP]]
-	[[Category: Pfaffen, S]]	+	[[Category: Pfaffen S]]
-	~~[[Category: 4-helix bundle]]~~	+
-	~~[[Category: Di-iron ferroxidase centre]]~~	+
-	~~[[Category: Ferritin]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 08:31, 26 June 2019

2019-06-26T08:31:07Z

←Older revision		Revision as of 08:31, 26 June 2019
Line 1:		Line 1:
		+
	==Crystal structure of the PmFTN variant E44H soaked in iron (3 h)==		==Crystal structure of the PmFTN variant E44H soaked in iron (3 h)==
-	<StructureSection load='4zl6' size='340' side='right' caption='[[4zl6]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='4zl6' size='340' side='right'caption='[[4zl6]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4zl6]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZL6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZL6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4zl6]] is a 6 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=4ZL6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZL6 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">[[4zkh\|4zkh]], [[4zkw\|4zkw]], [[4zkx\|4zkx]], [[4zl5\|4zl5]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zkh\|4zkh]], [[4zkw\|4zkw]], [[4zkx\|4zkx]], [[4zl5\|4zl5]]</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='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ferroxidase Ferroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.16.3.1 1.16.3.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ferroxidase Ferroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.16.3.1 1.16.3.1] </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=4zl6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zl6 OCA], [http://pdbe.org/4zl6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zl6 RCSB], [http://www.ebi.ac.uk/pdbsum/4zl6 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=4zl6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zl6 OCA], [http://pdbe.org/4zl6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zl6 RCSB], [http://www.ebi.ac.uk/pdbsum/4zl6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4zl6 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 18:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 4zl6" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4zl6" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ferritin\|Ferritin]]
	== References ==		== References ==
	<references/>		<references/>
Line 23:		Line 28:
	</StructureSection>		</StructureSection>
	[[Category: Ferroxidase]]		[[Category: Ferroxidase]]
		+	[[Category: Large Structures]]
		+	[[Category: Nitzschia pungens f. multiseries]]
	[[Category: Murphy, M E.P]]		[[Category: Murphy, M E.P]]
	[[Category: Pfaffen, S]]		[[Category: Pfaffen, S]]

OCA at 07:36, 7 October 2015

2015-10-07T07:36:47Z

←Older revision		Revision as of 07:36, 7 October 2015
Line 9:		Line 9:
	<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=4zl6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zl6 OCA], [http://pdbe.org/4zl6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zl6 RCSB], [http://www.ebi.ac.uk/pdbsum/4zl6 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=4zl6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zl6 OCA], [http://pdbe.org/4zl6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zl6 RCSB], [http://www.ebi.ac.uk/pdbsum/4zl6 PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Ferritin from the marine pennate diatom Pseudo-nitzschia multiseries (PmFTN) plays a key role in sustaining growth in iron-limited ocean environments. The di-iron catalytic ferroxidase center of PmFTN (sites A and B) has a nearby third iron site (site C) in an arrangement typically observed in prokaryotic ferritins. Here we demonstrate that Glu44, a site C ligand, and Glu130, a residue that bridges iron bound at sites B and C, limit the rate of post-oxidation reorganization of iron coordination and the rate at which Fe3+ exits the ferroxidase center for storage within the mineral core. The latter, in particular, severely limits the overall rate of iron mineralization. Thus, the diatom ferritin is optimized for initial Fe2+ oxidation but not for mineralization, pointing to a role for this protein in buffering iron availability and facilitating iron-sparing rather than only long-term iron storage.
		+
		+	A Diatom Ferritin Optimized for Iron Oxidation but not Iron Storage.,Pfaffen S, Bradley JM, Abdulqadir R, Firme MR, Moore GR, Le Brun NE, Murphy ME J Biol Chem. 2015 Sep 22. pii: jbc.M115.669713. PMID:26396187<ref>PMID:26396187</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4zl6" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 14:42, 30 September 2015

2015-09-30T14:42:28Z

←Older revision		Revision as of 14:42, 30 September 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Crystal structure of the PmFTN variant E44H soaked in iron (3 h)==
-		+	<StructureSection load='4zl6' size='340' side='right' caption='[[4zl6]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~The entry~~ 4zl6 is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4zl6]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZL6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZL6 FirstGlance]. <br>
-	~~Authors~~: ~~Pfaffen,~~ S., ~~Murphy~~, M.E.P.	+	</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>
-	~~Description~~: ~~Crystal structure of the PmFTN variant E44H soaked in iron (3 h)~~	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4zkh\|4zkh]], [[4zkw\|4zkw]], [[4zkx\|4zkx]], [[4zl5\|4zl5]]</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/Ferroxidase Ferroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.16.3.1 1.16.3.1] </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=4zl6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zl6 OCA], [http://pdbe.org/4zl6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zl6 RCSB], [http://www.ebi.ac.uk/pdbsum/4zl6 PDBsum]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ferroxidase]]
		+	[[Category: Murphy, M E.P]]
	[[Category: Pfaffen, S]]		[[Category: Pfaffen, S]]
-	[[Category: ~~Murphy, M.E.P~~]]	+	[[Category: 4-helix bundle]]
		+	[[Category: Di-iron ferroxidase centre]]
		+	[[Category: Ferritin]]
		+	[[Category: Oxidoreductase]]

OCA at 10:51, 20 May 2015

2015-05-20T10:51:46Z

←Older revision		Revision as of 10:51, 20 May 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4zl6 is ON HOLD	+	The entry 4zl6 is ON HOLD until Paper Publication

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

OCA: Protected "4zl6" [edit=sysop:move=sysop]

2015-05-06T11:54:37Z

Protected "4zl6" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:54, 6 May 2015

OCA: New page: '''Unreleased structure''' The entry 4zl6 is ON HOLD Authors: Pfaffen, S., Murphy, M.E.P. Description: Crystal structure of the PmFTN variant E44H soaked in iron (3 h) [[Category: Unre...

2015-05-06T11:54:36Z

New page: '''Unreleased structure''' The entry 4zl6 is ON HOLD Authors: Pfaffen, S., Murphy, M.E.P. Description: Crystal structure of the PmFTN variant E44H soaked in iron (3 h) [[Category: Unre...

New page

'''Unreleased structure'''

The entry 4zl6 is ON HOLD

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

Description: Crystal structure of the PmFTN variant E44H soaked in iron (3 h)
[[Category: Unreleased Structures]]
[[Category: Pfaffen, S]]
[[Category: Murphy, M.E.P]]