7a4m - Revision history

OCA at 09:43, 21 June 2023

OCA — Wed, 21 Jun 2023 09:43:37 GMT

←Older revision		Revision as of 09:43, 21 June 2023
Line 3:		Line 3:
	<StructureSection load='7a4m' size='340' side='right'caption='[[7a4m]], [[Resolution\|resolution]] 1.22Å' scene=''>		<StructureSection load='7a4m' size='340' side='right'caption='[[7a4m]], [[Resolution\|resolution]] 1.22Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7a4m]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7A4M OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=7A4M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7a4m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7A4M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7A4M 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=ZN:ZINC+ION'>ZN</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=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Fth1, Fth ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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=7a4m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7a4m OCA], [https://pdbe.org/7a4m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7a4m RCSB], [https://www.ebi.ac.uk/pdbsum/7a4m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7a4m 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~~://proteopedia.org/fgij/fg.htm?mol=7a4m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7a4m OCA], [~~http~~://pdbe.org/7a4m PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=7a4m RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/7a4m PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=7a4m ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/FRIH_MOUSE FRIH_MOUSE]] Stores iron in a soluble, non-toxic, readily available form. Important for iron homeostasis. Has ferroxidase activity. Iron is taken up in the ferrous form and deposited as ferric hydroxides after oxidation. Also plays a role in delivery of iron to cells. Mediates iron uptake in capsule cells of the developing kidney.<ref>PMID:19154717</ref>	+	[https://www.uniprot.org/uniprot/FRIH_MOUSE FRIH_MOUSE] Stores iron in a soluble, non-toxic, readily available form. Important for iron homeostasis. Has ferroxidase activity. Iron is taken up in the ferrous form and deposited as ferric hydroxides after oxidation. Also plays a role in delivery of iron to cells. Mediates iron uptake in capsule cells of the developing kidney.<ref>PMID:19154717</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 7a4m" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7a4m" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Ferritin 3D structures\|Ferritin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Ferroxidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Mus musculus]]
-	[[Category: Aricescu~~, A R~~]]	+	[[Category: Aricescu AR]]
-	[[Category: Bischoff, M]]	+	[[Category: Bischoff M]]
-	[[Category: Brown~~, P M.G E~~]]	+	[[Category: Brown PMGE]]
-	[[Category: Chirgadze~~, D Y~~]]	+	[[Category: Chirgadze DY]]
-	[[Category: Grigoras~~, I T~~]]	+	[[Category: Grigoras IT]]
-	[[Category: Hardwick~~, S W]]~~	+	[[Category: Hardwick SW]]
-	~~[[Category: Jong, E de~~]]	+	[[Category: Karia D]]
-	[[Category: Karia, D]]	+	[[Category: Keizer J]]
-	[[Category: Keizer, J]]	+	[[Category: Kotecha A]]
-	[[Category: Kotecha, A]]	+	[[Category: Malinauskaite L]]
-	[[Category: Malinauskaite, L]]	+	[[Category: Malinauskas T]]
-	[[Category: Malinauskas, T]]	+	[[Category: Masiulis S]]
-	[[Category: Masiulis, S]]	+	[[Category: McCormack J]]
-	[[Category: McCormack, J]]	+	[[Category: McMullan G]]
-	[[Category: McMullan, G]]	+	[[Category: Miehling J]]
-	[[Category: Miehling, J]]	+	[[Category: Murshudov G]]
-	[[Category: Murshudov, G]]	+	[[Category: Nakane T]]
-	[[Category: Nakane, T]]	+	[[Category: Pechnikova EV]]
-	[[Category: Pechnikova~~, E V~~]]	+	[[Category: Scheres SHW]]
-	[[Category: Scheres~~, S H.W~~]]	+	[[Category: Sente A]]
-	[[Category: Sente, A]]	+	[[Category: Tiemeijer P]]
-	[[Category: Tiemeijer, P]]	+	[[Category: Yamashita K]]
-	[[Category: Yamashita, K]]	+	[[Category: Yu L]]
-	[[Category: Yu, L]]	+	[[Category: De Jong E]]
-	[[Category: ~~Iron storage]]~~	+
-	~~[[Category: Metal binding protein~~]]	+

OCA at 07:39, 4 November 2020

OCA — Wed, 04 Nov 2020 07:39:27 GMT

←Older revision		Revision as of 07:39, 4 November 2020
Line 1:		Line 1:

	==Cryo-EM structure of mouse heavy-chain apoferritin at 1.22 A==		==Cryo-EM structure of mouse heavy-chain apoferritin at 1.22 A==
-	<StructureSection load='7a4m' size='340' side='right'caption='[[7a4m]]' scene=''>	+	<StructureSection load='7a4m' size='340' side='right'caption='[[7a4m]], [[Resolution\|resolution]] 1.22Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7A4M OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7A4M FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7a4m]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7A4M OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7A4M FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=7a4m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7a4m OCA], [http://pdbe.org/7a4m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7a4m RCSB], [http://www.ebi.ac.uk/pdbsum/7a4m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7a4m ProSAT]</span></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=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Fth1, Fth ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</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://proteopedia.org/fgij/fg.htm?mol=7a4m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7a4m OCA], [http://pdbe.org/7a4m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7a4m RCSB], [http://www.ebi.ac.uk/pdbsum/7a4m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7a4m ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/FRIH_MOUSE FRIH_MOUSE]] Stores iron in a soluble, non-toxic, readily available form. Important for iron homeostasis. Has ferroxidase activity. Iron is taken up in the ferrous form and deposited as ferric hydroxides after oxidation. Also plays a role in delivery of iron to cells. Mediates iron uptake in capsule cells of the developing kidney.<ref>PMID:19154717</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The three-dimensional positions of atoms in protein molecules define their structure and their roles in biological processes. The more precisely atomic coordinates are determined, the more chemical information can be derived and the more mechanistic insights into protein function may be inferred. Electron cryo-microscopy (cryo-EM) single-particle analysis has yielded protein structures with increasing levels of detail in recent years(1,2). However, it has proved difficult to obtain cryo-EM reconstructions with sufficient resolution to visualize individual atoms in proteins. Here we use a new electron source, energy filter and camera to obtain a 1.7 A resolution cryo-EM reconstruction for a human membrane protein, the beta3 GABAA receptor homopentamer(3). Such maps allow a detailed understanding of small-molecule coordination, visualization of solvent molecules and alternative conformations for multiple amino acids, and unambiguous building of ordered acidic side chains and glycans. Applied to mouse apoferritin, our strategy led to a 1.22 A resolution reconstruction that offers a genuine atomic-resolution view of a protein molecule using single-particle cryo-EM. Moreover, the scattering potential from many hydrogen atoms can be visualized in difference maps, allowing a direct analysis of hydrogen-bonding networks. Our technological advances, combined with further approaches to accelerate data acquisition and improve sample quality, provide a route towards routine application of cryo-EM in high-throughput screening of small molecule modulators and structure-based drug discovery.
		+
		+	Single-particle cryo-EM at atomic resolution.,Nakane T, Kotecha A, Sente A, McMullan G, Masiulis S, Brown PMGE, Grigoras IT, Malinauskaite L, Malinauskas T, Miehling J, Uchanski T, Yu L, Karia D, Pechnikova EV, de Jong E, Keizer J, Bischoff M, McCormack J, Tiemeijer P, Hardwick SW, Chirgadze DY, Murshudov G, Aricescu AR, Scheres SHW Nature. 2020 Oct 21. pii: 10.1038/s41586-020-2829-0. doi:, 10.1038/s41586-020-2829-0. PMID:33087931<ref>PMID:33087931</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7a4m" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Ferroxidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Aricescu AR]]	+	[[Category: Lk3 transgenic mice]]
-	[[Category: Bischoff M]]	+	[[Category: Aricescu, A R]]
-	[[Category: Brown ~~PMGE~~]]	+	[[Category: Bischoff, M]]
-	[[Category: Chirgadze DY]]	+	[[Category: Brown, P M.G E]]
-	[[Category: Grigoras IT]]	+	[[Category: Chirgadze, D Y]]
-	[[Category: Hardwick SW]]	+	[[Category: Grigoras, I T]]
-	[[Category: Karia D]]	+	[[Category: Hardwick, S W]]
-	[[Category: Keizer J]]	+	[[Category: Jong, E de]]
-	[[Category: Kotecha A]]	+	[[Category: Karia, D]]
-	[[Category: Malinauskaite L]]	+	[[Category: Keizer, J]]
-	[[Category: Malinauskas T]]	+	[[Category: Kotecha, A]]
-	[[Category: Masiulis S]]	+	[[Category: Malinauskaite, L]]
-	[[Category: McCormack J]]	+	[[Category: Malinauskas, T]]
-	[[Category: McMullan G]]	+	[[Category: Masiulis, S]]
-	[[Category: Miehling J]]	+	[[Category: McCormack, J]]
-	[[Category: Murshudov G]]	+	[[Category: McMullan, G]]
-	[[Category: Nakane T]]	+	[[Category: Miehling, J]]
-	[[Category: Pechnikova EV]]	+	[[Category: Murshudov, G]]
-	[[Category: Scheres ~~SHW~~]]	+	[[Category: Nakane, T]]
-	[[Category: Sente A]]	+	[[Category: Pechnikova, E V]]
-	[[Category: Tiemeijer P]]	+	[[Category: Scheres, S H.W]]
-	[[Category: Yamashita K]]	+	[[Category: Sente, A]]
-	[[Category: Yu L]]	+	[[Category: Tiemeijer, P]]
-	[[Category: ~~De Jong E~~]]	+	[[Category: Yamashita, K]]
		+	[[Category: Yu, L]]
		+	[[Category: Iron storage]]
		+	[[Category: Metal binding protein]]

OCA at 20:35, 28 October 2020

OCA — Wed, 28 Oct 2020 20:35:50 GMT

←Older revision		Revision as of 20:35, 28 October 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7a4m is ~~ON HOLD~~	+	==Cryo-EM structure of mouse heavy-chain apoferritin at 1.22 A==
-		+	<StructureSection load='7a4m' size='340' side='right'caption='[[7a4m]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7A4M OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=7A4M FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=7a4m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7a4m OCA], [http://pdbe.org/7a4m PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7a4m RCSB], [http://www.ebi.ac.uk/pdbsum/7a4m PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7a4m ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Aricescu AR]]
		+	[[Category: Bischoff M]]
		+	[[Category: Brown PMGE]]
		+	[[Category: Chirgadze DY]]
		+	[[Category: Grigoras IT]]
		+	[[Category: Hardwick SW]]
		+	[[Category: Karia D]]
		+	[[Category: Keizer J]]
		+	[[Category: Kotecha A]]
		+	[[Category: Malinauskaite L]]
		+	[[Category: Malinauskas T]]
		+	[[Category: Masiulis S]]
		+	[[Category: McCormack J]]
		+	[[Category: McMullan G]]
		+	[[Category: Miehling J]]
		+	[[Category: Murshudov G]]
		+	[[Category: Nakane T]]
		+	[[Category: Pechnikova EV]]
		+	[[Category: Scheres SHW]]
		+	[[Category: Sente A]]
		+	[[Category: Tiemeijer P]]
		+	[[Category: Yamashita K]]
		+	[[Category: Yu L]]
		+	[[Category: De Jong E]]

OCA: Protected "7a4m" [edit=sysop:move=sysop]

OCA — Wed, 26 Aug 2020 09:17:58 GMT

Protected "7a4m" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:17, 26 August 2020

OCA: New page: '''Unreleased structure''' The entry 7a4m is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 26 Aug 2020 09:17:57 GMT

New page: '''Unreleased structure''' The entry 7a4m is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7a4m is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]