OCA at 08:34, 21 April 2021

OCA — Wed, 21 Apr 2021 08:34:11 GMT

←Older revision		Revision as of 08:34, 21 April 2021
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	==Cryo-EM structure of jack bean urease==		==Cryo-EM structure of jack bean urease==
-	<StructureSection load='7kns' size='340' side='right'caption='[[7kns]]' scene=''>	+	<StructureSection load='7kns' size='340' side='right'caption='[[7kns]], [[Resolution\|resolution]] 2.77Å' 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=7KNS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KNS FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7kns]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Canavalia_ensiformis Canavalia ensiformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KNS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KNS FirstGlance]. <br>
-	</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=7kns FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7kns OCA], [https://pdbe.org/7kns PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7kns RCSB], [https://www.ebi.ac.uk/pdbsum/7kns PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7kns 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=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Urease Urease], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.5 3.5.1.5] </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=7kns FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7kns OCA], [https://pdbe.org/7kns PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7kns RCSB], [https://www.ebi.ac.uk/pdbsum/7kns PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7kns ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The resolution of cryo-EM reconstructions is fundamentally limited by the Nyquist frequency, which is half the sampling frequency of the detector and depends upon the magnification used. In principle, super-resolution imaging should enable reconstructions to surpass the physical Nyquist limit by increasing sampling frequency, yet there are few reports of reconstructions that do so. Here we directly examine the contribution of super-resolution information, obtained with the K3 direct electron detector using a 2-condenser microscope, to single-particle cryo-EM reconstructions surpassing the physical Nyquist limit. We also present a comparative analysis of a sample imaged at four different magnifications. This analysis demonstrates that lower magnifications can be beneficial, despite the loss of higher resolution signal, due to the increased number of particle images obtained. To highlight the potential utility of lower magnification data collection, we produced a 3.5 A reconstruction of jack bean urease with particles from a single micrograph.
		+
		+	Experimental evaluation of super-resolution imaging and magnification choice in single-particle cryo-EM.,Feathers JR, Spoth KA, Fromme JC J Struct Biol X. 2021 Mar 13;5:100047. doi: 10.1016/j.yjsbx.2021.100047., eCollection 2021. PMID:33817625<ref>PMID:33817625</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7kns" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Canavalia ensiformis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Feathers JR]]	+	[[Category: Urease]]
-	[[Category: Fromme JC]]	+	[[Category: Feathers, J R]]
-	[[Category: Spoth KA]]	+	[[Category: Fromme, J C]]
		+	[[Category: Spoth, K A]]
		+	[[Category: Hydrolase]]

OCA at 06:41, 24 March 2021

OCA — Wed, 24 Mar 2021 06:41:11 GMT

←Older revision		Revision as of 06:41, 24 March 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7kns is ~~ON HOLD until Paper Publication~~	+	==Cryo-EM structure of jack bean urease==
-		+	<StructureSection load='7kns' size='340' side='right'caption='[[7kns]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KNS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KNS FirstGlance]. <br>
-	~~Description~~:	+	</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=7kns FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7kns OCA], [https://pdbe.org/7kns PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7kns RCSB], [https://www.ebi.ac.uk/pdbsum/7kns PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7kns ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Feathers JR]]
		+	[[Category: Fromme JC]]
		+	[[Category: Spoth KA]]

OCA at 08:08, 18 November 2020

OCA — Wed, 18 Nov 2020 08:08:25 GMT

←Older revision		Revision as of 08:08, 18 November 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7kns is ON HOLD	+	The entry 7kns is ON HOLD until Paper Publication

	Authors:		Authors:

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

OCA — Wed, 11 Nov 2020 06:37:47 GMT

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

←Older revision

Revision as of 06:37, 11 November 2020

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

OCA — Wed, 11 Nov 2020 06:37:46 GMT

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

New page

'''Unreleased structure'''

The entry 7kns is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

7kns - Revision history

OCA at 08:34, 21 April 2021

OCA at 06:41, 24 March 2021

OCA at 08:08, 18 November 2020

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

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