5gqj - Revision history

OCA at 11:39, 2 August 2023

OCA — Wed, 02 Aug 2023 11:39:21 GMT

←Older revision		Revision as of 11:39, 2 August 2023
Line 3:		Line 3:
	<StructureSection load='5gqj' size='340' side='right'caption='[[5gqj]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='5gqj' size='340' side='right'caption='[[5gqj]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gqj]] 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=5GQJ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5GQJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gqj]] 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=5GQJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GQJ 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=EDO:1,2-ETHANEDIOL'>EDO</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]] 1.5Å</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=EDO:1,2-ETHANEDIOL'>EDO</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]], [[5gqk\|5gqk]], [[5gql\|5gql]], [[5gqm\|5gqm]], [[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=5gqj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gqj OCA], [https://pdbe.org/5gqj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5gqj RCSB], [https://www.ebi.ac.uk/pdbsum/5gqj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5gqj 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=5gqj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gqj OCA], [~~http~~://pdbe.org/5gqj PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5gqj RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5gqj PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5gqj 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 5gqj" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5gqj" 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 06:49, 13 May 2020

OCA — Wed, 13 May 2020 06:49:57 GMT

←Older revision		Revision as of 06:49, 13 May 2020
Line 1:		Line 1:

	==Crystal structure of Cypovirus Polyhedra mutant with deletion of Ser193 and Ala194==		==Crystal structure of Cypovirus Polyhedra mutant with deletion of Ser193 and Ala194==
-	<StructureSection load='5gqj' size='340' side='right' caption='[[5gqj]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='5gqj' size='340' side='right'caption='[[5gqj]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gqj]] 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=5GQJ OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5GQJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gqj]] 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=5GQJ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5GQJ 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=EDO:1,2-ETHANEDIOL'>EDO</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=EDO:1,2-ETHANEDIOL'>EDO</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">[[5gqi\|5gqi]], [[5gqk\|5gqk]], [[5gql\|5gql]], [[5gqm\|5gqm]], [[5gqn\|5gqn]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5gqi\|5gqi]], [[5gqk\|5gqk]], [[5gql\|5gql]], [[5gqm\|5gqm]], [[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=5gqj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gqj OCA], [http://pdbe.org/5gqj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gqj RCSB], [http://www.ebi.ac.uk/pdbsum/5gqj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gqj 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=5gqj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gqj OCA], [http://pdbe.org/5gqj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gqj RCSB], [http://www.ebi.ac.uk/pdbsum/5gqj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gqj ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Bmcpv]]		[[Category: Bmcpv]]
		+	[[Category: Large Structures]]
	[[Category: Abe, S]]		[[Category: Abe, S]]
	[[Category: Hirata, K]]		[[Category: Hirata, K]]

OCA at 12:43, 6 November 2017

OCA — Mon, 06 Nov 2017 12:43:30 GMT

←Older revision		Revision as of 12:43, 6 November 2017
Line 3:		Line 3:
	<StructureSection load='5gqj' size='340' side='right' caption='[[5gqj]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='5gqj' size='340' side='right' caption='[[5gqj]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gqj]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GQJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GQJ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gqj]] 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=5GQJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GQJ 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=EDO:1,2-ETHANEDIOL'>EDO</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=EDO:1,2-ETHANEDIOL'>EDO</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>
Line 24:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bmcpv]]
	[[Category: Abe, S]]		[[Category: Abe, S]]
	[[Category: Hirata, K]]		[[Category: Hirata, K]]

OCA at 17:36, 10 March 2017

OCA — Fri, 10 Mar 2017 17:36:16 GMT

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

-	~~The entry~~ 5gqj is ~~ON HOLD~~	+	==Crystal structure of Cypovirus Polyhedra mutant with deletion of Ser193 and Ala194==
		+	<StructureSection load='5gqj' size='340' side='right' caption='[[5gqj]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5gqj]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GQJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GQJ 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=EDO:1,2-ETHANEDIOL'>EDO</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]], [[5gqk\|5gqk]], [[5gql\|5gql]], [[5gqm\|5gqm]], [[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=5gqj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gqj OCA], [http://pdbe.org/5gqj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gqj RCSB], [http://www.ebi.ac.uk/pdbsum/5gqj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gqj 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 ~~Cypovirus Polyhedra mutant with deletion~~ of ~~Ser193 and Ala194~~	+	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 5gqj" 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: Protected "5gqj" [edit=sysop:move=sysop]

OCA — Fri, 09 Sep 2016 11:56:31 GMT

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

←Older revision

Revision as of 11:56, 9 September 2016

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

OCA — Fri, 09 Sep 2016 11:56:30 GMT

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

New page

'''Unreleased structure'''

The entry 5gqj is ON HOLD

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

Description: Crystal structure of Cypovirus Polyhedra mutant with deletion of Ser193 and Ala194
[[Category: Unreleased Structures]]
[[Category: Yamashita, K]]
[[Category: Hirata, K]]
[[Category: Mori, H]]
[[Category: Abe, S]]
[[Category: Ueno, T]]
[[Category: Tabe, H]]
[[Category: Ijiri, H]]