6wkk - Revision history

OCA at 14:44, 6 March 2024

OCA — Wed, 06 Mar 2024 14:44:47 GMT

←Older revision		Revision as of 14:44, 6 March 2024
Line 3:		Line 3:
	<StructureSection load='6wkk' size='340' side='right'caption='[[6wkk]], [[Resolution\|resolution]] 6.10Å' scene=''>		<StructureSection load='6wkk' size='340' side='right'caption='[[6wkk]], [[Resolution\|resolution]] 6.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6wkk]] is a 24 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bacillus_virus_g~~ Bacillus virus g]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WKK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6WKK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6wkk]] is a 24 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_virus_G Bacillus virus G]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WKK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6WKK FirstGlance]. <br>
-	</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=6wkk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wkk OCA], [~~http~~://pdbe.org/6wkk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6wkk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6wkk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6wkk ProSAT]</span></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 6.1Å</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=6wkk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wkk OCA], [https://pdbe.org/6wkk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6wkk RCSB], [https://www.ebi.ac.uk/pdbsum/6wkk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6wkk ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/G3MB97_9CAUD G3MB97_9CAUD]
-	Phage G has the largest capsid and genome of any known propagated phage. Many aspects of its structure, assembly, and replication have not been elucidated. Herein, we present the dsDNA-packed and empty phage G capsid at 6.1 and 9A resolution, respectively, using cryo-EM for structure determination and mass spectrometry for protein identification. The major capsid protein, gp27, is identified and found to share the HK97-fold universally conserved in all previously solved dsDNA phages. Trimers of the decoration protein, gp26, sit on the 3-fold axes and are thought to enhance the interactions of the hexameric capsomeres of gp27, for other phages encoding decoration proteins. Phage G's decoration protein is longer than what has been reported in other phages, and we suspect the extra interaction surface area helps stabilize the capsid. We identified several additional capsid proteins, including a candidate for the prohead protease responsible for processing gp27. Furthermore, cryo-EM reveals a range of partially full, condensed DNA densities that appear to have no contact with capsid shell. Three analyses confirm that the phage G host is a Lysinibacillus, and not Bacillus megaterium: ~~identity of host proteins in our mass spectrometry analyses, genome sequence of the phage G host, and host range of phage G.~~	+
-		+
-	Phage G Structure at 6.1A Resolution, Condensed DNA, and Host Identity Revision to a Lysinibacillus.,Gonzalez B, Monroe L, Li K, Yan R, Wright E, Walter T, Kihara D, Weintraub ST, Thomas JA, Serwer P, Jiang W J Mol Biol. 2020 May 23. pii: S0022-2836(20)30366-1. doi:, 10.1016/~~j.jmb.2020.05.016. PMID:32454153<ref>PMID:32454153<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 6wkk" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus virus g]]	+	[[Category: Bacillus virus G]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gonzalez, B]]	+	[[Category: Gonzalez B]]
-	[[Category: Jiang, W]]	+	[[Category: Jiang W]]
-	[[Category: Kihara, D]]	+	[[Category: Kihara D]]
-	[[Category: Monroe, L]]	+	[[Category: Monroe L]]
-	~~[[Category: Capsid]]~~	+
-	~~[[Category: Decoration protein]]~~	+
-	~~[[Category: Gp26]]~~	+
-	~~[[Category: Gp27]]~~	+
-	~~[[Category: Icosahedral]]~~	+
-	~~[[Category: Major capsid protein]]~~	+
-	~~[[Category: Phage g]]~~	+
-	~~[[Category: Virus~~]]	+

OCA at 14:41, 8 July 2020

OCA — Wed, 08 Jul 2020 14:41:07 GMT

←Older revision		Revision as of 14:41, 8 July 2020
Line 1:		Line 1:

	==Phage G gp27 major capsid proteins and gp26 decoration proteins==		==Phage G gp27 major capsid proteins and gp26 decoration proteins==
-	<StructureSection load='6wkk' size='340' side='right'caption='[[6wkk]]' scene=''>	+	<StructureSection load='6wkk' size='340' side='right'caption='[[6wkk]], [[Resolution\|resolution]] 6.10Å' 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=6WKK OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6WKK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6wkk]] is a 24 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_virus_g Bacillus virus g]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WKK OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6WKK FirstGlance]. <br>
	</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=6wkk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wkk OCA], [http://pdbe.org/6wkk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6wkk RCSB], [http://www.ebi.ac.uk/pdbsum/6wkk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6wkk ProSAT]</span></td></tr>		</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=6wkk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wkk OCA], [http://pdbe.org/6wkk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6wkk RCSB], [http://www.ebi.ac.uk/pdbsum/6wkk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6wkk ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Phage G has the largest capsid and genome of any known propagated phage. Many aspects of its structure, assembly, and replication have not been elucidated. Herein, we present the dsDNA-packed and empty phage G capsid at 6.1 and 9A resolution, respectively, using cryo-EM for structure determination and mass spectrometry for protein identification. The major capsid protein, gp27, is identified and found to share the HK97-fold universally conserved in all previously solved dsDNA phages. Trimers of the decoration protein, gp26, sit on the 3-fold axes and are thought to enhance the interactions of the hexameric capsomeres of gp27, for other phages encoding decoration proteins. Phage G's decoration protein is longer than what has been reported in other phages, and we suspect the extra interaction surface area helps stabilize the capsid. We identified several additional capsid proteins, including a candidate for the prohead protease responsible for processing gp27. Furthermore, cryo-EM reveals a range of partially full, condensed DNA densities that appear to have no contact with capsid shell. Three analyses confirm that the phage G host is a Lysinibacillus, and not Bacillus megaterium: identity of host proteins in our mass spectrometry analyses, genome sequence of the phage G host, and host range of phage G.
		+
		+	Phage G Structure at 6.1A Resolution, Condensed DNA, and Host Identity Revision to a Lysinibacillus.,Gonzalez B, Monroe L, Li K, Yan R, Wright E, Walter T, Kihara D, Weintraub ST, Thomas JA, Serwer P, Jiang W J Mol Biol. 2020 May 23. pii: S0022-2836(20)30366-1. doi:, 10.1016/j.jmb.2020.05.016. PMID:32454153<ref>PMID:32454153</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6wkk" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus virus g]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gonzalez B]]	+	[[Category: Gonzalez, B]]
-	[[Category: Jiang W]]	+	[[Category: Jiang, W]]
-	[[Category: Kihara D]]	+	[[Category: Kihara, D]]
-	[[Category: Monroe L]]	+	[[Category: Monroe, L]]
		+	[[Category: Capsid]]
		+	[[Category: Decoration protein]]
		+	[[Category: Gp26]]
		+	[[Category: Gp27]]
		+	[[Category: Icosahedral]]
		+	[[Category: Major capsid protein]]
		+	[[Category: Phage g]]
		+	[[Category: Virus]]

OCA at 06:28, 10 June 2020

OCA — Wed, 10 Jun 2020 06:28:41 GMT

←Older revision		Revision as of 06:28, 10 June 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6wkk is ~~ON HOLD~~	+	==Phage G gp27 major capsid proteins and gp26 decoration proteins==
-		+	<StructureSection load='6wkk' size='340' side='right'caption='[[6wkk]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WKK OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6WKK FirstGlance]. <br>
-	~~Description~~:	+	</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=6wkk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wkk OCA], [http://pdbe.org/6wkk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6wkk RCSB], [http://www.ebi.ac.uk/pdbsum/6wkk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6wkk ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Gonzalez B]]
		+	[[Category: Jiang W]]
		+	[[Category: Kihara D]]
		+	[[Category: Monroe L]]

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

OCA — Wed, 22 Apr 2020 04:20:29 GMT

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

←Older revision

Revision as of 04:20, 22 April 2020

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

OCA — Wed, 22 Apr 2020 04:20:28 GMT

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

New page

'''Unreleased structure'''

The entry 6wkk is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]