6v21 - Revision history

OCA at 14:35, 6 March 2024

2024-03-06T14:35:41Z

← Older revision		Revision as of 14:35, 6 March 2024
Line 3:		Line 3:
	<SX load='6v21' size='340' side='right' viewer='molstar' caption='[[6v21]], [[Resolution\|resolution]] 1.75Å' scene=''>		<SX load='6v21' size='340' side='right' viewer='molstar' caption='[[6v21]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6v21]] is a 24 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=6V21 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6V21 FirstGlance]. <br>		<table><tr><td colspan='2'>[[6v21]] is a 24 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=6V21 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6V21 FirstGlance]. <br>
	</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>~~		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 1.75Å</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'>[https://proteopedia.org/fgij/fg.htm?mol=6v21 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v21 OCA], [https://pdbe.org/6v21 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6v21 RCSB], [https://www.ebi.ac.uk/pdbsum/6v21 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6v21 ProSAT]</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=6v21 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v21 OCA], [~~http~~://pdbe.org/6v21 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6v21 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6v21 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6v21 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;">~~
	~~== Publication Abstract from PubMed ==~~
	Although the advent of direct electron detectors (DEDs) and software developments have enabled the routine use of single-particle cryogenic electron microscopy (cryo-EM) for structure determination of well-behaved specimens to high-resolution, there nonetheless remains a discrepancy between the resolutions attained for biological specimens and the information limits of modern transmission electron microscopes (TEMs). Instruments operating at 300kV equipped with DEDs are the current paradigm for high-resolution single-particle cryo-EM, while 200kV TEMs remain comparatively underutilized for purposes beyond sample screening. Here, we expand upon our prior work and demonstrate that one such 200kV microscope, the Talos Arctica, equipped with a K2 DED is capable of determining structures of macromolecules to as high as approximately 1.7A resolution. At this resolution, ordered water molecules are readily assigned and holes in aromatic residues can be clearly distinguished in the reconstructions. This work emphasizes the utility of 200kV electrons for high-resolution single-particle cryo-EM and applications such as structure-based drug design.

	Sub-2 Angstrom resolution structure determination using single-particle cryo-EM at 200keV.,Wu M, Lander GC, Herzik MA Jr J Struct Biol X. 2020 Feb 28;4:100020. doi: 10.1016/j.yjsbx.2020.100020., eCollection 2020. PMID:32647824<ref>PMID:32647824</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 6v21" style="background-color:#fffaf0;"></div~~>

	==See Also==		==See Also==
Line 26:		Line 16:
	__TOC__		__TOC__
	</SX>		</SX>
	~~[[Category: Ferroxidase]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Lk3 transgenic mice~~]]		[[Category: Mus musculus]]
	[[Category: Herzik~~, M A~~]]		[[Category: Herzik MA]]
	[[Category: Lander~~, G C~~]]		[[Category: Lander GC]]
	[[Category: Wu, M]]		[[Category: Wu M]]
	~~[[Category: Globular]]~~
	~~[[Category: Homo-24-mer]]~~
	~~[[Category: Metal binding protein]]~~
	~~[[Category: Oxidoreductase]]~~
	~~[[Category: Storage~~]]

OCA at 11:34, 26 August 2020

2020-08-26T11:34:15Z

← Older revision		Revision as of 11:34, 26 August 2020
Line 3:		Line 3:
	<SX load='6v21' size='340' side='right' viewer='molstar' caption='[[6v21]], [[Resolution\|resolution]] 1.75Å' scene=''>		<SX load='6v21' size='340' side='right' viewer='molstar' caption='[[6v21]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6v21]] is a 24 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V21 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6V21 FirstGlance]. <br>		<table><tr><td colspan='2'>[[6v21]] is a 24 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=6V21 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6V21 FirstGlance]. <br>
	</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>		</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=6v21 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v21 OCA], [http://pdbe.org/6v21 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v21 RCSB], [http://www.ebi.ac.uk/pdbsum/6v21 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v21 ProSAT]</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=6v21 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v21 OCA], [http://pdbe.org/6v21 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v21 RCSB], [http://www.ebi.ac.uk/pdbsum/6v21 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v21 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>		[[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 ==
			Although the advent of direct electron detectors (DEDs) and software developments have enabled the routine use of single-particle cryogenic electron microscopy (cryo-EM) for structure determination of well-behaved specimens to high-resolution, there nonetheless remains a discrepancy between the resolutions attained for biological specimens and the information limits of modern transmission electron microscopes (TEMs). Instruments operating at 300kV equipped with DEDs are the current paradigm for high-resolution single-particle cryo-EM, while 200kV TEMs remain comparatively underutilized for purposes beyond sample screening. Here, we expand upon our prior work and demonstrate that one such 200kV microscope, the Talos Arctica, equipped with a K2 DED is capable of determining structures of macromolecules to as high as approximately 1.7A resolution. At this resolution, ordered water molecules are readily assigned and holes in aromatic residues can be clearly distinguished in the reconstructions. This work emphasizes the utility of 200kV electrons for high-resolution single-particle cryo-EM and applications such as structure-based drug design.

			Sub-2 Angstrom resolution structure determination using single-particle cryo-EM at 200keV.,Wu M, Lander GC, Herzik MA Jr J Struct Biol X. 2020 Feb 28;4:100020. doi: 10.1016/j.yjsbx.2020.100020., eCollection 2020. PMID:32647824<ref>PMID:32647824</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 6v21" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[Ferritin 3D structures\|Ferritin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 15:		Line 28:
	[[Category: Ferroxidase]]		[[Category: Ferroxidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
			[[Category: Lk3 transgenic mice]]
	[[Category: Herzik, M A]]		[[Category: Herzik, M A]]
	[[Category: Lander, G C]]		[[Category: Lander, G C]]

OCA at 07:00, 11 April 2020

2020-04-11T07:00:23Z

← Older revision		Revision as of 07:00, 11 April 2020
Line 3:		Line 3:
	<SX load='6v21' size='340' side='right' viewer='molstar' caption='[[6v21]], [[Resolution\|resolution]] 1.75Å' scene=''>		<SX load='6v21' size='340' side='right' viewer='molstar' caption='[[6v21]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6v21]] is a 24 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V21 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6V21 FirstGlance]. <br>		<table><tr><td colspan='2'>[[6v21]] is a 24 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V21 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6V21 FirstGlance]. <br>
	</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>		</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=6v21 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v21 OCA], [http://pdbe.org/6v21 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v21 RCSB], [http://www.ebi.ac.uk/pdbsum/6v21 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v21 ProSAT]</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=6v21 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v21 OCA], [http://pdbe.org/6v21 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v21 RCSB], [http://www.ebi.ac.uk/pdbsum/6v21 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v21 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 01:16, 7 March 2020

2020-03-07T01:16:52Z

← Older revision		Revision as of 01:16, 7 March 2020
Line 1:		Line 1:

	==Mouse heavy chain apoferritin determined using single-particle cryo-EM at 200 keV==		==Mouse heavy chain apoferritin determined using single-particle cryo-EM at 200 keV==
	<~~StructureSection~~ load='6v21' size='340' side='right'caption='[[6v21]], [[Resolution\|resolution]] 1.75Å' scene=''>		<SX load='6v21' size='340' side='right' viewer='molstar' caption='[[6v21]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6v21]] is a 24 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V21 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6V21 FirstGlance]. <br>		<table><tr><td colspan='2'>[[6v21]] is a 24 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V21 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6V21 FirstGlance]. <br>
Line 12:		Line 12:
	<references/>		<references/>
	__TOC__		__TOC__
	</~~StructureSection~~>		</SX>
	[[Category: Ferroxidase]]		[[Category: Ferroxidase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]

OCA at 04:30, 13 February 2020

2020-02-13T04:30:22Z

← Older revision		Revision as of 04:30, 13 February 2020
Line 1:		Line 1:
	~~'''Unreleased structure'''~~

	~~The entry~~ 6v21 is ~~ON HOLD~~		==Mouse heavy chain apoferritin determined using single-particle cryo-EM at 200 keV==
			<StructureSection load='6v21' size='340' side='right'caption='[[6v21]], [[Resolution\|resolution]] 1.75Å' scene=''>
	~~Authors~~: Wu, M., ~~Lander~~, G.C., ~~Herzik~~, M.A.		== Structural highlights ==
			<table><tr><td colspan='2'>[[6v21]] is a 24 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V21 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6V21 FirstGlance]. <br>
	~~Description~~: ~~Mouse heavy chain apoferritin determined using single~~-~~particle cryo-EM at 200 keV~~		</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>
	[[Category: ~~Unreleased~~ Structures]]		<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=6v21 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v21 OCA], [http://pdbe.org/6v21 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6v21 RCSB], [http://www.ebi.ac.uk/pdbsum/6v21 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6v21 ProSAT]</span></td></tr>
	[[Category: Lander, G.C]]		</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>
			== References ==
			<references/>
			__TOC__
			</StructureSection>
			[[Category: Ferroxidase]]
			[[Category: Large Structures]]
			[[Category: Herzik, M A]]
			[[Category: Lander, G C]]
	[[Category: Wu, M]]		[[Category: Wu, M]]
	[[Category: ~~Herzik, M.A~~]]		[[Category: Globular]]
			[[Category: Homo-24-mer]]
			[[Category: Metal binding protein]]
			[[Category: Oxidoreductase]]
			[[Category: Storage]]

OCA: Protected "6v21" [edit=sysop:move=sysop]

2019-11-27T05:30:25Z

Protected "6v21" [edit=sysop:move=sysop]

← Older revision	Revision as of 05:30, 27 November 2019
(No difference)

OCA: New page: '''Unreleased structure''' The entry 6v21 is ON HOLD Authors: Wu, M., Lander, G.C., Herzik, M.A. Description: Mouse heavy chain apoferritin determined using single-particle cryo-EM at ...

2019-11-27T05:30:23Z

New page: '''Unreleased structure''' The entry 6v21 is ON HOLD Authors: Wu, M., Lander, G.C., Herzik, M.A. Description: Mouse heavy chain apoferritin determined using single-particle cryo-EM at ...

New page

'''Unreleased structure'''

The entry 6v21 is ON HOLD

Authors: Wu, M., Lander, G.C., Herzik, M.A.

Description: Mouse heavy chain apoferritin determined using single-particle cryo-EM at 200 keV
[[Category: Unreleased Structures]]
[[Category: Lander, G.C]]
[[Category: Wu, M]]
[[Category: Herzik, M.A]]