6kzy - Revision history

OCA at 10:47, 22 November 2023

OCA — Wed, 22 Nov 2023 10:47:47 GMT

←Older revision		Revision as of 10:47, 22 November 2023
Line 3:		Line 3:
	<StructureSection load='6kzy' size='340' side='right'caption='[[6kzy]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='6kzy' size='340' side='right'caption='[[6kzy]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6kzy]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Anadara_(tegillarca)_granosa Anadara (tegillarca)~~ granosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KZY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KZY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6kzy]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Tegillarca_granosa Tegillarca granosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KZY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KZY 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=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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]] 2.3005707Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Ferroxidase Ferroxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.16.3.1 1.16.3.1] </span></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=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=6kzy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kzy OCA], [https://pdbe.org/6kzy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kzy RCSB], [https://www.ebi.ac.uk/pdbsum/6kzy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kzy 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=6kzy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kzy OCA], [https://pdbe.org/6kzy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kzy RCSB], [https://www.ebi.ac.uk/pdbsum/6kzy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kzy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/D3JCC5_TEGGR D3JCC5_TEGGR]] 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]	+	[https://www.uniprot.org/uniprot/D3JCC5_TEGGR D3JCC5_TEGGR] 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 26:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Ferroxidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Huan, H S]]
-	[[Category: Jiang, Q Q]]
-	[[Category: Ming, T H]]
-	[[Category: Su, X R]]
-	[[Category: Structural genomic]]
-	[[Category: Cesg]]
-	[[Category: Copper]]
-	[[Category: Ferritin]]
-	[[Category: Oxidoreductase]]
	[[Category: Tegillarca granosa]]		[[Category: Tegillarca granosa]]
		+	[[Category: Huan HS]]
		+	[[Category: Jiang QQ]]
		+	[[Category: Ming TH]]
		+	[[Category: Su XR]]

OCA at 03:00, 21 April 2022

OCA — Thu, 21 Apr 2022 03:00:25 GMT

←Older revision		Revision as of 03:00, 21 April 2022
Line 3:		Line 3:
	<StructureSection load='6kzy' size='340' side='right'caption='[[6kzy]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='6kzy' size='340' side='right'caption='[[6kzy]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6kzy]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KZY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6KZY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6kzy]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Anadara_(tegillarca)_granosa Anadara (tegillarca) granosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KZY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KZY 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=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></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'>[https://en.wikipedia.org/wiki/Ferroxidase Ferroxidase], with EC number [https://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=6kzy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kzy OCA], [~~http~~://pdbe.org/6kzy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6kzy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6kzy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6kzy 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=6kzy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kzy OCA], [https://pdbe.org/6kzy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kzy RCSB], [https://www.ebi.ac.uk/pdbsum/6kzy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kzy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/D3JCC5_TEGGR D3JCC5_TEGGR]] 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]	+	[[https://www.uniprot.org/uniprot/D3JCC5_TEGGR D3JCC5_TEGGR]] 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;">
		+	== Publication Abstract from PubMed ==
		+	In addition to its role as an iron storage protein, ferritin can function as a major detoxification component in the innate immune defense, and Cu(2+) ions can also play crucial antibacterial roles in the blood clam, Tegillarca granosa. However, the mechanism of interaction between iron and copper in recombinant Tegillarca granosa ferritin (TgFer) remains to be investigated. In this study, we investigated the crystal structure of TgFer and examined the effects of Fe(2+) and Cu(2+) ions on the TgFer structure and catalytic activity. The crystal structure revealed that TgFer presented a typically 4-3-2 symmetry in a cage-like, spherical shell composed of 24 identical subunits, featuring highly conserved organization in both the ferroxidase center and the 3-fold channel. Structural and biochemical analyses indicated that the 4-fold channel of TgFer could be serviced as potential binding sites of metal ions. Cu(2+) ions appear to bind preferentially with the 3-fold channel as well as ferroxidase site over Fe(2+) ions, possibly inhibiting the ferroxidase activity of TgFer. Our results present a structural and functional characterization of TgFer, providing mechanistic insight into the interactions between TgFer and both Fe(2+) and Cu(2+) ions.
		+
		+	Structural Insights Into the Effects of Interactions With Iron and Copper Ions on Ferritin From the Blood Clam Tegillarca granosa.,Ming T, Jiang Q, Huo C, Huan H, Wu Y, Su C, Qiu X, Lu C, Zhou J, Li Y, Han J, Zhang Z, Su X Front Mol Biosci. 2022 Mar 11;9:800008. doi: 10.3389/fmolb.2022.800008., eCollection 2022. PMID:35359603<ref>PMID:35359603</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6kzy" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ferritin 3D structures\|Ferritin 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:41, 6 November 2019

OCA — Wed, 06 Nov 2019 06:41:23 GMT

←Older revision		Revision as of 06:41, 6 November 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6kzy is ~~ON HOLD~~	+	==Cu(II) loaded Tegillarca granosa ferritin==
-		+	<StructureSection load='6kzy' size='340' side='right'caption='[[6kzy]], [[Resolution\|resolution]] 2.30Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6kzy]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KZY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6KZY FirstGlance]. <br>
-	~~Description~~:	+	</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=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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/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=6kzy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kzy OCA], [http://pdbe.org/6kzy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6kzy RCSB], [http://www.ebi.ac.uk/pdbsum/6kzy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6kzy ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/D3JCC5_TEGGR D3JCC5_TEGGR]] 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]
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ferroxidase]]
		+	[[Category: Large Structures]]
		+	[[Category: Huan, H S]]
		+	[[Category: Jiang, Q Q]]
		+	[[Category: Ming, T H]]
		+	[[Category: Su, X R]]
		+	[[Category: Structural genomic]]
		+	[[Category: Cesg]]
		+	[[Category: Copper]]
		+	[[Category: Ferritin]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Tegillarca granosa]]

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

OCA — Wed, 02 Oct 2019 07:04:12 GMT

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

←Older revision

Revision as of 07:04, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6kzy is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Oct 2019 07:04:10 GMT

New page: '''Unreleased structure''' The entry 6kzy is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6kzy is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]