5gqm - Revision history

OCA at 11:39, 2 August 2023

OCA — Wed, 02 Aug 2023 11:39:27 GMT

←Older revision		Revision as of 11:39, 2 August 2023
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	<StructureSection load='5gqm' size='340' side='right'caption='[[5gqm]], [[Resolution\|resolution]] 1.68Å' scene=''>		<StructureSection load='5gqm' size='340' side='right'caption='[[5gqm]], [[Resolution\|resolution]] 1.68Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gqm]] 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=5GQM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5GQM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gqm]] 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=5GQM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GQM 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='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.68Å</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">[[5gqi\|5gqi]], [[5gqj\|5gqj]], [[5gqk\|5gqk]], [[5gql\|5gql]], [[5gqn\|5gqn]]~~</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=5gqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gqm OCA], [https://pdbe.org/5gqm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5gqm RCSB], [https://www.ebi.ac.uk/pdbsum/5gqm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5gqm ProSAT]</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=5gqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gqm OCA], [~~http~~://pdbe.org/5gqm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5gqm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5gqm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5gqm 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 ==
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	</div>		</div>
	<div class="pdbe-citations 5gqm" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5gqm" 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: Abe, S]]	+	[[Category: Abe S]]
-	[[Category: Hirata, K]]	+	[[Category: Hirata K]]
-	[[Category: Ijiri, H]]	+	[[Category: Ijiri H]]
-	[[Category: Mori, H]]	+	[[Category: Mori H]]
-	[[Category: Tabe, H]]	+	[[Category: Tabe H]]
-	[[Category: Ueno, T]]	+	[[Category: Ueno T]]
-	[[Category: Yamashita, K]]	+	[[Category: Yamashita K]]
-	~~[[Category: In vivo protein crystal]]~~	+
-	~~[[Category: Polyhedra]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 10:09, 26 February 2020

OCA — Wed, 26 Feb 2020 10:09:03 GMT

←Older revision		Revision as of 10:09, 26 February 2020
Line 1:		Line 1:

	==Crystal structure of in cellulo Wild Type Cypovirus Polyhedra==		==Crystal structure of in cellulo Wild Type Cypovirus Polyhedra==
-	<StructureSection load='5gqm' size='340' side='right' caption='[[5gqm]], [[Resolution\|resolution]] 1.68Å' scene=''>	+	<StructureSection load='5gqm' size='340' side='right'caption='[[5gqm]], [[Resolution\|resolution]] 1.68Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gqm]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GQM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GQM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gqm]] 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=5GQM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GQM 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"><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>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bmcpv]]
		+	[[Category: Large Structures]]
	[[Category: Abe, S]]		[[Category: Abe, S]]
	[[Category: Hirata, K]]		[[Category: Hirata, K]]

OCA at 17:36, 10 March 2017

OCA — Fri, 10 Mar 2017 17:36:28 GMT

←Older revision		Revision as of 17:36, 10 March 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5gqm is ~~ON HOLD~~ until ~~Aug 07 2018~~	+	==Crystal structure of in cellulo Wild Type Cypovirus Polyhedra==
		+	<StructureSection load='5gqm' size='340' side='right' caption='[[5gqm]], [[Resolution\|resolution]] 1.68Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5gqm]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GQM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GQM 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">[[5gqi\|5gqi]], [[5gqj\|5gqj]], [[5gqk\|5gqk]], [[5gql\|5gql]], [[5gqn\|5gqn]]</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=5gqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gqm OCA], [http://pdbe.org/5gqm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gqm RCSB], [http://www.ebi.ac.uk/pdbsum/5gqm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gqm ProSAT]</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 ==
		+	Crystalline porous materials have been investigated for development of important applications in molecular storage, separations, and catalysis. The potential of protein crystals is increasing as they become better understood. Protein crystals have been regarded as porous materials because they present highly ordered 3D arrangements of protein molecules with high porosity and wide range of pore sizes. However, it remains difficult to functionalize protein crystals in living cells. Here, we report that polyhedra, a natural crystalline protein assembly of polyhedrin monomer (PhM) produced in insect cells infected by cypovirus, can be engineered to extend porous networks by deleting selected amino acid residues located on the intermolecular contact region of PhM. The adsorption rates and quantities of fluorescent dyes stored within the mutant crystals are increased relative to those of the wild-type polyhedra crystal (WTPhC) under both in vitro and in vivo conditions. These results provide a strategy for designing self-assembled protein materials with applications in molecular recognition and storage of exogenous substances in living cell as well as an entry point for development of bioorthogonal chemistry and in vivo crystal structure analysis.

-	~~Authors:~~ Abe, S., Tabe, H., Ijiri, H., Yamashita, K., Hirata, K., ~~Mori~~, H., ~~Ueno~~, T.	+	Crystal Engineering of Self-Assembled Porous Protein Materials in Living Cells.,Abe S, Tabe H, Ijiri H, Yamashita K, Hirata K, Atsumi K, Shimoi T, Akai M, Mori H, Kitagawa S, Ueno T ACS Nano. 2017 Feb 9. doi: 10.1021/acsnano.6b06099. PMID:28094987<ref>PMID:28094987</ref>

-	~~Description: Crystal structure~~ of ~~in cellulo Wild Type Cypovirus Polyhedra~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Yamashita~~, K]]	+	<div class="pdbe-citations 5gqm" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Abe, S]]
	[[Category: Hirata, K]]		[[Category: Hirata, K]]
		+	[[Category: Ijiri, H]]
	[[Category: Mori, H]]		[[Category: Mori, H]]
-	[[Category: Abe, S]]
-	[[Category: Ueno, T]]
	[[Category: Tabe, H]]		[[Category: Tabe, H]]
-	[[Category: ~~Ijiri~~, H]]	+	[[Category: Ueno, T]]
		+	[[Category: Yamashita, K]]
		+	[[Category: In vivo protein crystal]]
		+	[[Category: Polyhedra]]
		+	[[Category: Viral protein]]

OCA at 10:22, 14 September 2016

OCA — Wed, 14 Sep 2016 10:22:48 GMT

←Older revision		Revision as of 10:22, 14 September 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5gqm is ON HOLD	+	The entry 5gqm is ON HOLD until Aug 07 2018

	Authors: Abe, S., Tabe, H., Ijiri, H., Yamashita, K., Hirata, K., Mori, H., Ueno, T.		Authors: Abe, S., Tabe, H., Ijiri, H., Yamashita, K., Hirata, K., Mori, H., Ueno, T.

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

OCA — Fri, 09 Sep 2016 11:56:40 GMT

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

←Older revision

Revision as of 11:56, 9 September 2016

OCA: New page: '''Unreleased structure''' The entry 5gqm is ON HOLD Authors: Abe, S., Tabe, H., Ijiri, H., Yamashita, K., Hirata, K., Mori, H., Ueno, T. Description: Crystal structure of in cellulo W...

OCA — Fri, 09 Sep 2016 11:56:38 GMT

New page: '''Unreleased structure''' The entry 5gqm is ON HOLD Authors: Abe, S., Tabe, H., Ijiri, H., Yamashita, K., Hirata, K., Mori, H., Ueno, T. Description: Crystal structure of in cellulo W...

New page

'''Unreleased structure'''

The entry 5gqm is ON HOLD

Authors: Abe, S., Tabe, H., Ijiri, H., Yamashita, K., Hirata, K., Mori, H., Ueno, T.

Description: Crystal structure of in cellulo Wild Type Cypovirus Polyhedra
[[Category: Unreleased Structures]]
[[Category: Yamashita, K]]
[[Category: Hirata, K]]
[[Category: Mori, H]]
[[Category: Abe, S]]
[[Category: Ueno, T]]
[[Category: Tabe, H]]
[[Category: Ijiri, H]]