4xku - Revision history

OCA at 10:49, 10 January 2024

OCA — Wed, 10 Jan 2024 10:49:04 GMT

←Older revision		Revision as of 10:49, 10 January 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4xku]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XKU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XKU FirstGlance]. <br>		<table><tr><td colspan='2'>[[4xku]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XKU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XKU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.78Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=4xku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xku OCA], [https://pdbe.org/4xku PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xku RCSB], [https://www.ebi.ac.uk/pdbsum/4xku PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xku 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=4xku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xku OCA], [https://pdbe.org/4xku PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xku RCSB], [https://www.ebi.ac.uk/pdbsum/4xku PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xku ProSAT]</span></td></tr>
	</table>		</table>

OCA at 17:41, 26 April 2023

OCA — Wed, 26 Apr 2023 17:41:32 GMT

←Older revision		Revision as of 17:41, 26 April 2023
Line 3:		Line 3:
	<StructureSection load='4xku' size='340' side='right'caption='[[4xku]], [[Resolution\|resolution]] 1.78Å' scene=''>		<StructureSection load='4xku' size='340' side='right'caption='[[4xku]], [[Resolution\|resolution]] 1.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4xku]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XKU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4XKU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4xku]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XKU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XKU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">bfr, b3336, JW3298 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=4xku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xku OCA], [https://pdbe.org/4xku PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xku RCSB], [https://www.ebi.ac.uk/pdbsum/4xku PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xku ProSAT]</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=4xku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xku OCA], [~~http~~://pdbe.org/4xku PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4xku RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4xku PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4xku ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/BFR_ECOLI BFR_ECOLI]] Iron-storage protein, whose ferroxidase center binds Fe(2+) ions, oxidizes them by dioxygen to Fe(3+), and participates in the subsequent Fe(3+) oxide mineral core formation within the central cavity of the protein complex. The mineralized iron core can contain as many as 2700 iron atoms/24-meric molecule.<ref>PMID:10769150</ref> <ref>PMID:14636073</ref>	+	[https://www.uniprot.org/uniprot/BFR_ECOLI BFR_ECOLI] Iron-storage protein, whose ferroxidase center binds Fe(2+) ions, oxidizes them by dioxygen to Fe(3+), and participates in the subsequent Fe(3+) oxide mineral core formation within the central cavity of the protein complex. The mineralized iron core can contain as many as 2700 iron atoms/24-meric molecule.<ref>PMID:10769150</ref> <ref>PMID:14636073</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4xku" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4xku" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ferritin 3D structures\|Ferritin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ecoli]]~~	+	[[Category: Escherichia coli K-12]]
-	~~[[Category: Ferroxidase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bradley~~, J M]]~~	+	[[Category: Bradley JM]]
-	~~[[Category: Brun, N E.Le~~]]	+	[[Category: Hemmings AM]]
-	[[Category: Hemmings~~, A M~~]]	+	[[Category: Le Brun NE]]
-	[[Category: ~~Diiron site]]~~	+
-	~~[[Category: Iron storage]]~~	+
-	~~[[Category: Metal binding protein~~]]	+

OCA at 07:18, 29 May 2019

OCA — Wed, 29 May 2019 07:18:02 GMT

←Older revision		Revision as of 07:18, 29 May 2019
Line 1:		Line 1:
		+
	==E coli BFR variant Y114F==		==E coli BFR variant Y114F==
-	<StructureSection load='4xku' size='340' side='right' caption='[[4xku]], [[Resolution\|resolution]] 1.78Å' scene=''>	+	<StructureSection load='4xku' size='340' side='right'caption='[[4xku]], [[Resolution\|resolution]] 1.78Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4xku]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XKU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XKU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4xku]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XKU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XKU FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">bfr, b3336, JW3298 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=4xku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xku OCA], [http://pdbe.org/4xku PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xku RCSB], [http://www.ebi.ac.uk/pdbsum/4xku 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=4xku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xku OCA], [http://pdbe.org/4xku PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xku RCSB], [http://www.ebi.ac.uk/pdbsum/4xku PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4xku ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Ecoli]]
	[[Category: Ferroxidase]]		[[Category: Ferroxidase]]
		+	[[Category: Large Structures]]
	[[Category: Bradley, J M]]		[[Category: Bradley, J M]]
	[[Category: Brun, N E.Le]]		[[Category: Brun, N E.Le]]

OCA at 13:44, 16 December 2015

OCA — Wed, 16 Dec 2015 13:44:40 GMT

←Older revision		Revision as of 13:44, 16 December 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==E coli BFR variant Y114F==
		+	<StructureSection load='4xku' size='340' side='right' caption='[[4xku]], [[Resolution\|resolution]] 1.78Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4xku]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XKU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XKU FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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='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=4xku FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xku OCA], [http://pdbe.org/4xku PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xku RCSB], [http://www.ebi.ac.uk/pdbsum/4xku PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/BFR_ECOLI BFR_ECOLI]] Iron-storage protein, whose ferroxidase center binds Fe(2+) ions, oxidizes them by dioxygen to Fe(3+), and participates in the subsequent Fe(3+) oxide mineral core formation within the central cavity of the protein complex. The mineralized iron core can contain as many as 2700 iron atoms/24-meric molecule.<ref>PMID:10769150</ref> <ref>PMID:14636073</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Ferritins are iron storage proteins that overcome the problems of toxicity and poor bioavailability of iron by catalyzing iron oxidation and mineralization through the activity of a diiron ferroxidase site. Unlike in other ferritins, the oxidized di-Fe3+ site of Escherichia coli bacterioferritin (EcBFR) is stable and therefore does not function as a conduit for the transfer of Fe3+ into the storage cavity, but instead acts as a true catalytic cofactor that cycles its oxidation state while driving Fe2+ oxidation in the cavity. Herein, we demonstrate that EcBFR mineralization depends on three aromatic residues near the diiron site, Tyr25, Tyr58, and Trp133, and that a transient radical is formed on Tyr25. The data indicate that the aromatic residues, together with a previously identified inner surface iron site, promote mineralization by ensuring the simultaneous delivery of two electrons, derived from Fe2+ oxidation in the BFR cavity, to the di-ferric catalytic site for safe reduction of O2 .

-	~~The entry 4xku is ON HOLD until Paper Publication~~	+	Three Aromatic Residues are Required for Electron Transfer during Iron Mineralization in Bacterioferritin.,Bradley JM, Svistunenko DA, Lawson TL, Hemmings AM, Moore GR, Le Brun NE Angew Chem Int Ed Engl. 2015 Oct 16. doi: 10.1002/anie.201507486. PMID:26474305<ref>PMID:26474305</ref>

-	~~Authors: Hemmings~~, A.M.~~, Le Brun, N.E., Bradley, J.M~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~E coli BFR variant Y114F~~	+	<div class="pdbe-citations 4xku" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: ~~Le Brun~~, ~~N.E~~]]	+	<references/>
-	[[Category: ~~Bradley~~, J.M]]	+	__TOC__
-	[[Category: Hemmings, A.M]]	+	</StructureSection>
		+	[[Category: Ferroxidase]]
		+	[[Category: Bradley, J M]]
		+	[[Category: Brun, N E.Le]]
		+	[[Category: Hemmings, A M]]
		+	[[Category: Diiron site]]
		+	[[Category: Iron storage]]
		+	[[Category: Metal binding protein]]

OCA at 23:13, 30 November 2015

OCA — Mon, 30 Nov 2015 23:13:19 GMT

←Older revision		Revision as of 23:13, 30 November 2015
Line 7:		Line 7:
	Description: E coli BFR variant Y114F		Description: E coli BFR variant Y114F
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Le Brun, N.E]]
	[[Category: Bradley, J.M]]		[[Category: Bradley, J.M]]
	[[Category: Hemmings, A.M]]		[[Category: Hemmings, A.M]]
-	[[Category: Le Brun, N.E]]

OCA at 15:30, 28 January 2015

OCA — Wed, 28 Jan 2015 15:30:49 GMT

←Older revision		Revision as of 15:30, 28 January 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Hemmings, A.M., Le Brun, N.E., Bradley, J.M.		Authors: Hemmings, A.M., Le Brun, N.E., Bradley, J.M.

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

OCA — Wed, 21 Jan 2015 15:58:13 GMT

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

←Older revision

Revision as of 15:58, 21 January 2015

OCA: New page: '''Unreleased structure''' The entry 4xku is ON HOLD Authors: Hemmings, A.M., Le Brun, N.E., Bradley, J.M. Description: E coli BFR variant Y114F Category: Unreleased Structures [[C...

OCA — Wed, 21 Jan 2015 15:58:12 GMT

New page: '''Unreleased structure''' The entry 4xku is ON HOLD Authors: Hemmings, A.M., Le Brun, N.E., Bradley, J.M. Description: E coli BFR variant Y114F Category: Unreleased Structures [[C...

New page

'''Unreleased structure'''

The entry 4xku is ON HOLD

Authors: Hemmings, A.M., Le Brun, N.E., Bradley, J.M.

Description: E coli BFR variant Y114F
[[Category: Unreleased Structures]]
[[Category: Bradley, J.M]]
[[Category: Hemmings, A.M]]
[[Category: Le Brun, N.E]]