5exy - Revision history

OCA at 08:32, 12 July 2023

OCA — Wed, 12 Jul 2023 08:32:35 GMT

←Older revision		Revision as of 08:32, 12 July 2023
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	<StructureSection load='5exy' size='340' side='right'caption='[[5exy]], [[Resolution\|resolution]] 1.55Å' scene=''>		<StructureSection load='5exy' size='340' side='right'caption='[[5exy]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5exy]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bmcpv Bmcpv~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EXY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5EXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5exy]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bombyx_mori_cypovirus_1 Bombyx mori cypovirus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EXY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5EXY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CTP:CYTIDINE-5-TRIPHOSPHATE'>CTP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 1.55Å</td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CTP:CYTIDINE-5-TRIPHOSPHATE'>CTP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5exz\|5exz]]~~</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=5exy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5exy OCA], [https://pdbe.org/5exy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5exy RCSB], [https://www.ebi.ac.uk/pdbsum/5exy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5exy 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=5exy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5exy OCA], [~~http~~://pdbe.org/5exy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5exy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5exy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5exy ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PYHD_CPVBM PYHD_CPVBM]] Major component of the virus occlusion bodies, which are large proteinaceous structures (polyhedra), that protect the virus from the outside environment for extended periods until they are ingested by insect larvae.	+	[https://www.uniprot.org/uniprot/PYHD_CPVBM PYHD_CPVBM] Major component of the virus occlusion bodies, which are large proteinaceous structures (polyhedra), that protect the virus from the outside environment for extended periods until they are ingested by insect larvae.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5exy" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5exy" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Polyhedrin\|Polyhedrin]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bmcpv~~]]	+	[[Category: Bombyx mori cypovirus 1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Boudes, M]]	+	[[Category: Boudes M]]
-	[[Category: Coulibaly, F]]	+	[[Category: Coulibaly F]]
-	[[Category: Garriga, D]]	+	[[Category: Garriga D]]
-	~~[[Category: In cellulo data collection]]~~	+
-	~~[[Category: In vivo crystal]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 07:49, 29 April 2020

OCA — Wed, 29 Apr 2020 07:49:55 GMT

←Older revision		Revision as of 07:49, 29 April 2020
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	==Crystal structure of in cellulo recombinant CPV1 Polyhedra==		==Crystal structure of in cellulo recombinant CPV1 Polyhedra==
-	<StructureSection load='5exy' size='340' side='right' caption='[[5exy]], [[Resolution\|resolution]] 1.55Å' scene=''>	+	<StructureSection load='5exy' size='340' side='right'caption='[[5exy]], [[Resolution\|resolution]] 1.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5exy]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EXY OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5EXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5exy]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bmcpv Bmcpv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EXY OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5EXY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CTP:CYTIDINE-5-TRIPHOSPHATE'>CTP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CTP:CYTIDINE-5-TRIPHOSPHATE'>CTP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5exz\|5exz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5exz\|5exz]]</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=5exy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5exy OCA], [http://pdbe.org/5exy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5exy RCSB], [http://www.ebi.ac.uk/pdbsum/5exy PDBsum]</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=5exy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5exy OCA], [http://pdbe.org/5exy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5exy RCSB], [http://www.ebi.ac.uk/pdbsum/5exy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5exy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 24:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bmcpv]]
		+	[[Category: Large Structures]]
	[[Category: Boudes, M]]		[[Category: Boudes, M]]
	[[Category: Coulibaly, F]]		[[Category: Coulibaly, F]]

OCA at 22:56, 1 June 2016

OCA — Wed, 01 Jun 2016 22:56:32 GMT

←Older revision		Revision as of 22:56, 1 June 2016
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-	'''Unreleased structure'''

-	~~The entry~~ 5exy is ~~ON HOLD~~ until ~~Paper~~ Publication	+	==Crystal structure of in cellulo recombinant CPV1 Polyhedra==
		+	<StructureSection load='5exy' size='340' side='right' caption='[[5exy]], [[Resolution\|resolution]] 1.55Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5exy]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EXY FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=CTP:CYTIDINE-5-TRIPHOSPHATE'>CTP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5exz\|5exz]]</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=5exy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5exy OCA], [http://pdbe.org/5exy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5exy RCSB], [http://www.ebi.ac.uk/pdbsum/5exy PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PYHD_CPVBM PYHD_CPVBM]] Major component of the virus occlusion bodies, which are large proteinaceous structures (polyhedra), that protect the virus from the outside environment for extended periods until they are ingested by insect larvae.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	While structure determination from micrometre-sized crystals used to represent a challenge, serial X-ray crystallography on microfocus beamlines at synchrotron and free-electron laser facilities greatly facilitates this process today for microcrystals and nanocrystals. In addition to typical microcrystals of purified recombinant protein, these advances have enabled the analysis of microcrystals produced inside living cells. Here, a pipeline where crystals are grown in insect cells, sorted by flow cytometry and directly analysed by X-ray diffraction is presented and applied to in vivo-grown crystals of the recombinant CPV1 polyhedrin. When compared with the analysis of purified crystals, in cellulo diffraction produces data of better quality and a gain of approximately 0.35 A in resolution for comparable beamtime usage. Importantly, crystals within cells are readily derivatized with gold and iodine compounds through the cellular membrane. Using the multiple isomorphous replacement method, a near-complete model was autobuilt from 2.7 A resolution data. Thus, in favourable cases, an in cellulo pipeline can replace the complete workflow of structure determination without compromising the quality of the resulting model. In addition to its efficiency, this approach maintains the protein in a cellular context throughout the analysis, which reduces the risk of disrupting transient or labile interactions in protein-protein or protein-ligand complexes.

-	~~Authors: Boudes~~, M., Garriga, D., ~~Coulibaly~~, F.	+	A pipeline for structure determination of in vivo-grown crystals using in cellulo diffraction.,Boudes M, Garriga D, Fryga A, Caradoc-Davies T, Coulibaly F Acta Crystallogr D Struct Biol. 2016 Apr 1;72(Pt 4):576-85. doi:, 10.1107/S2059798316002369. Epub 2016 Mar 30. PMID:27050136<ref>PMID:27050136</ref>

-	~~Description: Crystal structure~~ of ~~in cellulo recombinant CPV1 Polyhedra~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Garriga, D]]~~	+	<div class="pdbe-citations 5exy" style="background-color:#fffaf0;"></div>
-	~~[[Category: Coulibaly, F]]~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Boudes, M]]		[[Category: Boudes, M]]
		+	[[Category: Coulibaly, F]]
		+	[[Category: Garriga, D]]
		+	[[Category: In cellulo data collection]]
		+	[[Category: In vivo crystal]]
		+	[[Category: Viral protein]]

OCA at 12:29, 3 February 2016

OCA — Wed, 03 Feb 2016 12:29:58 GMT

←Older revision		Revision as of 12:29, 3 February 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5exy is ON HOLD	+	The entry 5exy is ON HOLD until Paper Publication

	Authors: Boudes, M., Garriga, D., Coulibaly, F.		Authors: Boudes, M., Garriga, D., Coulibaly, F.

OCA at 14:00, 20 January 2016

OCA — Wed, 20 Jan 2016 14:00:31 GMT

←Older revision		Revision as of 14:00, 20 January 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5exy is ON HOLD ~~until Paper Publication~~	+	The entry 5exy is ON HOLD

	Authors: Boudes, M., Garriga, D., Coulibaly, F.		Authors: Boudes, M., Garriga, D., Coulibaly, F.

OCA at 11:00, 23 December 2015

OCA — Wed, 23 Dec 2015 11:00:24 GMT

←Older revision		Revision as of 11:00, 23 December 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5exy is ON HOLD	+	The entry 5exy is ON HOLD until Paper Publication

	Authors: Boudes, M., Garriga, D., Coulibaly, F.		Authors: Boudes, M., Garriga, D., Coulibaly, F.

OCA: Protected "5exy" [edit=sysop:move=sysop]

OCA — Wed, 02 Dec 2015 15:08:39 GMT

Protected "5exy" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:08, 2 December 2015

OCA: New page: '''Unreleased structure''' The entry 5exy is ON HOLD Authors: Boudes, M., Garriga, D., Coulibaly, F. Description: Crystal structure of in cellulo recombinant CPV1 Polyhedra [[Category:...

OCA — Wed, 02 Dec 2015 15:08:38 GMT

New page: '''Unreleased structure''' The entry 5exy is ON HOLD Authors: Boudes, M., Garriga, D., Coulibaly, F. Description: Crystal structure of in cellulo recombinant CPV1 Polyhedra [[Category:...

New page

'''Unreleased structure'''

The entry 5exy is ON HOLD

Authors: Boudes, M., Garriga, D., Coulibaly, F.

Description: Crystal structure of in cellulo recombinant CPV1 Polyhedra
[[Category: Unreleased Structures]]
[[Category: Garriga, D]]
[[Category: Coulibaly, F]]
[[Category: Boudes, M]]