6cli - Revision history

OCA at 14:29, 13 March 2024

2024-03-13T14:29:08Z

←Older revision		Revision as of 14:29, 13 March 2024
Line 3:		Line 3:
	<StructureSection load='6cli' size='340' side='right'caption='[[6cli]], [[Resolution\|resolution]] 1.01Å' scene=''>		<StructureSection load='6cli' size='340' side='right'caption='[[6cli]], [[Resolution\|resolution]] 1.01Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cli]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CLI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6CLI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cli]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CLI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6CLI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron crystallography, [[Resolution\|Resolution]] 1.01Å</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=6cli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cli OCA], [~~http~~://pdbe.org/6cli PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6cli RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6cli PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6cli ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=6cli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cli OCA], [https://pdbe.org/6cli PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6cli RCSB], [https://www.ebi.ac.uk/pdbsum/6cli PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6cli ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Micro-crystal electron diffraction (MicroED) combines the efficiency of electron scattering with diffraction to allow structure determination from nano-sized crystalline samples in cryoelectron microscopy (cryo-EM). It has been used to solve structures of a diverse set of biomolecules and materials, in some cases to sub-atomic resolution. However, little is known about the damaging effects of the electron beam on samples during such measurements. We assess global and site-specific damage from electron radiation on nanocrystals of proteinase K and of a prion hepta-peptide and find that the dynamics of electron-induced damage follow well-established trends observed in X-ray crystallography. Metal ions are perturbed, disulfide bonds are broken, and acidic side chains are decarboxylated while the diffracted intensities decay exponentially with increasing exposure. A better understanding of radiation damage in MicroED improves our assessment and processing of all types of cryo-EM data.
-
-	Analysis of Global and Site-Specific Radiation Damage in Cryo-EM.,Hattne J, Shi D, Glynn C, Zee CT, Gallagher-Jones M, Martynowycz MW, Rodriguez JA, Gonen T Structure. 2018 May 1;26(5):759-766.e4. doi: 10.1016/j.str.2018.03.021. Epub 2018, Apr 26. PMID:29706530<ref>PMID:29706530</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 6cli" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gallagher-Jones, M]]	+	[[Category: Synthetic construct]]
-	[[Category: Glynn, C]]	+	[[Category: Gallagher-Jones M]]
-	[[Category: Gonen, T]]	+	[[Category: Glynn C]]
-	[[Category: Hattne, J]]	+	[[Category: Gonen T]]
-	[[Category: Martynowycz~~, M W~~]]	+	[[Category: Hattne J]]
-	[[Category: Rodriguez~~, J A~~]]	+	[[Category: Martynowycz MW]]
-	[[Category: Shi, D]]	+	[[Category: Rodriguez JA]]
-	[[Category: Zee, C T]]	+	[[Category: Shi D]]
-	~~[[Category: Amyloid fibril]]~~	+	[[Category: Zee C-T]]
-	~~[[Category: Prion]]~~	+
-	~~[[Category: Protein fibril]]~~	+
-	~~[[Category: Zinc binding~~]]	+

OCA at 08:58, 11 November 2020

2020-11-11T08:58:58Z

←Older revision		Revision as of 08:58, 11 November 2020
Line 1:		Line 1:

	==1.01 A MicroED structure of GSNQNNF at 0.17 e- / A^2==		==1.01 A MicroED structure of GSNQNNF at 0.17 e- / A^2==
-	<StructureSection load='6cli' size='340' side='right' caption='[[6cli]], [[Resolution\|resolution]] 1.01Å' scene=''>	+	<StructureSection load='6cli' size='340' side='right'caption='[[6cli]], [[Resolution\|resolution]] 1.01Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cli]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CLI OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6CLI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cli]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CLI OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6CLI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</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=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=6cli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cli OCA], [http://pdbe.org/6cli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cli RCSB], [http://www.ebi.ac.uk/pdbsum/6cli PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cli 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=6cli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cli OCA], [http://pdbe.org/6cli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cli RCSB], [http://www.ebi.ac.uk/pdbsum/6cli PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cli ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Gallagher-Jones, M]]		[[Category: Gallagher-Jones, M]]
	[[Category: Glynn, C]]		[[Category: Glynn, C]]

OCA at 05:32, 16 May 2018

2018-05-16T05:32:10Z

←Older revision		Revision as of 05:32, 16 May 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6cli is ~~ON HOLD until Paper~~ Publication	+	==1.01 A MicroED structure of GSNQNNF at 0.17 e- / A^2==
		+	<StructureSection load='6cli' size='340' side='right' caption='[[6cli]], [[Resolution\|resolution]] 1.01Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6cli]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CLI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CLI FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=6cli FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cli OCA], [http://pdbe.org/6cli PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cli RCSB], [http://www.ebi.ac.uk/pdbsum/6cli PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cli ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Micro-crystal electron diffraction (MicroED) combines the efficiency of electron scattering with diffraction to allow structure determination from nano-sized crystalline samples in cryoelectron microscopy (cryo-EM). It has been used to solve structures of a diverse set of biomolecules and materials, in some cases to sub-atomic resolution. However, little is known about the damaging effects of the electron beam on samples during such measurements. We assess global and site-specific damage from electron radiation on nanocrystals of proteinase K and of a prion hepta-peptide and find that the dynamics of electron-induced damage follow well-established trends observed in X-ray crystallography. Metal ions are perturbed, disulfide bonds are broken, and acidic side chains are decarboxylated while the diffracted intensities decay exponentially with increasing exposure. A better understanding of radiation damage in MicroED improves our assessment and processing of all types of cryo-EM data.

-	~~Authors~~:	+	Analysis of Global and Site-Specific Radiation Damage in Cryo-EM.,Hattne J, Shi D, Glynn C, Zee CT, Gallagher-Jones M, Martynowycz MW, Rodriguez JA, Gonen T Structure. 2018 May 1;26(5):759-766.e4. doi: 10.1016/j.str.2018.03.021. Epub 2018, Apr 26. PMID:29706530<ref>PMID:29706530</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6cli" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Gallagher-Jones, M]]
		+	[[Category: Glynn, C]]
		+	[[Category: Gonen, T]]
		+	[[Category: Hattne, J]]
		+	[[Category: Martynowycz, M W]]
		+	[[Category: Rodriguez, J A]]
		+	[[Category: Shi, D]]
		+	[[Category: Zee, C T]]
		+	[[Category: Amyloid fibril]]
		+	[[Category: Prion]]
		+	[[Category: Protein fibril]]
		+	[[Category: Zinc binding]]

OCA at 05:07, 14 March 2018

2018-03-14T05:07:19Z

←Older revision		Revision as of 05:07, 14 March 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6cli is ON HOLD	+	The entry 6cli is ON HOLD until Paper Publication

	Authors:		Authors:

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

2018-03-08T03:53:20Z

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

←Older revision

Revision as of 03:53, 8 March 2018

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

2018-03-08T03:53:18Z

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

New page

'''Unreleased structure'''

The entry 6cli is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]