7squ - Revision history

OCA at 05:52, 5 June 2024

2024-06-05T05:52:44Z

← Older revision		Revision as of 05:52, 5 June 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7squ]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_vB_EcoM_Goslar Escherichia phage vB_EcoM_Goslar]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7SQU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SQU FirstGlance]. <br>		<table><tr><td colspan='2'>[[7squ]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_vB_EcoM_Goslar Escherichia phage vB_EcoM_Goslar]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7SQU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SQU FirstGlance]. <br>
	</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=7squ FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7squ OCA], [https://pdbe.org/7squ PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7squ RCSB], [https://www.ebi.ac.uk/pdbsum/7squ PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7squ 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]] 2.6Å</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=7squ FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7squ OCA], [https://pdbe.org/7squ PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7squ RCSB], [https://www.ebi.ac.uk/pdbsum/7squ PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7squ ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/~~A0A482GDX1_9CAUD A0A482GDX1_9CAUD~~]]		[https://www.uniprot.org/uniprot/CHMA_BPGOS CHMA_BPGOS] Self-assembles to forms a proteinaceous shell that encloses the viral DNA and compartmentalizes proteins and DNA during viral infection (Probable). This micrometer-scale compartment contains narrow pores and is the site of viral replication, with the proteins involved in DNA replication localized inside (By similarity). Provides a surface for docking of capsids during packaging (By similarity). Probably protects the viral genome against host defenses (Probable).[UniProtKB:B3FIW8]<ref>PMID:35922510</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
	Bacteria encode myriad defences that target the genomes of infecting bacteriophage, including restriction-modification and CRISPR-Cas systems(1). In response, one family of large bacteriophages uses a nucleus-like compartment to protect its replicating genomes by excluding host defence factors(2-4). However, the principal composition and structure of this compartment remain unknown. Here we find that the bacteriophage nuclear shell assembles primarily from one protein, which we name chimallin (ChmA). Combining cryo-electron tomography of nuclear shells in bacteriophage-infected cells and cryo-electron microscopy of a minimal chimallin compartment in vitro, we show that chimallin self-assembles as a flexible sheet into closed micrometre-scale compartments. The architecture and assembly dynamics of the chimallin shell suggest mechanisms for its nucleation and growth, and its role as a scaffold for phage-encoded factors mediating macromolecular transport, cytoskeletal interactions, and viral maturation.		Bacteria encode myriad defences that target the genomes of infecting bacteriophage, including restriction-modification and CRISPR-Cas systems(1). In response, one family of large bacteriophages uses a nucleus-like compartment to protect its replicating genomes by excluding host defence factors(2-4). However, the principal composition and structure of this compartment remain unknown. Here we find that the bacteriophage nuclear shell assembles primarily from one protein, which we name chimallin (ChmA). Combining cryo-electron tomography of nuclear shells in bacteriophage-infected cells and cryo-electron microscopy of a minimal chimallin compartment in vitro, we show that chimallin self-assembles as a flexible sheet into closed micrometre-scale compartments. The architecture and assembly dynamics of the chimallin shell suggest mechanisms for its nucleation and growth, and its role as a scaffold for phage-encoded factors mediating macromolecular transport, cytoskeletal interactions, and viral maturation.

	Architecture and self-assembly of the jumbo bacteriophage nuclear shell.,Laughlin TG, Deep A, Prichard AM, Seitz C, Gu Y, Enustun E, Suslov S, Khanna K, Birkholz EA, Armbruster E, McCammon JA, Amaro RE, Pogliano J, Corbett KD, Villa E Nature. 2022 Aug;608(7922):429-435. doi: 10.1038/s41586-022-05013-4. Epub 2022, Aug 3. PMID:35922510<ref>PMID:35922510</ref>		Architecture and self-assembly of the jumbo bacteriophage nuclear shell.,Laughlin TG, Deep A, Prichard AM, Seitz C, Gu Y, Enustun E, Suslov S, Khanna K, Birkholz EA, Armbruster E, McCammon JA, Amaro RE, Pogliano J, Corbett KD, Villa E Nature. 2022 Aug;608(7922):429-435. doi: 10.1038/s41586-022-05013-4. Epub 2022 , Aug 3. PMID:35922510<ref>PMID:35922510</ref>

	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

OCA at 04:15, 8 September 2022

2022-09-08T04:15:43Z

← Older revision		Revision as of 04:15, 8 September 2022
Line 1:		Line 1:

	==Goslar chimallin C4 tetramer localized reconstruction==		==Goslar chimallin C4 tetramer localized reconstruction==
	<StructureSection load='7squ' size='340' side='right'caption='[[7squ]]' scene=''>		<StructureSection load='7squ' size='340' side='right'caption='[[7squ]], [[Resolution\|resolution]] 2.60Å' 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=7SQU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SQU FirstGlance]. <br>		<table><tr><td colspan='2'>[[7squ]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_vB_EcoM_Goslar Escherichia phage vB_EcoM_Goslar]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7SQU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SQU FirstGlance]. <br>
	</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=7squ FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7squ OCA], [https://pdbe.org/7squ PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7squ RCSB], [https://www.ebi.ac.uk/pdbsum/7squ PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7squ ProSAT]</span></td></tr>		</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=7squ FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7squ OCA], [https://pdbe.org/7squ PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7squ RCSB], [https://www.ebi.ac.uk/pdbsum/7squ PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7squ ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[[https://www.uniprot.org/uniprot/A0A482GDX1_9CAUD A0A482GDX1_9CAUD]]
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Bacteria encode myriad defences that target the genomes of infecting bacteriophage, including restriction-modification and CRISPR-Cas systems(1). In response, one family of large bacteriophages uses a nucleus-like compartment to protect its replicating genomes by excluding host defence factors(2-4). However, the principal composition and structure of this compartment remain unknown. Here we find that the bacteriophage nuclear shell assembles primarily from one protein, which we name chimallin (ChmA). Combining cryo-electron tomography of nuclear shells in bacteriophage-infected cells and cryo-electron microscopy of a minimal chimallin compartment in vitro, we show that chimallin self-assembles as a flexible sheet into closed micrometre-scale compartments. The architecture and assembly dynamics of the chimallin shell suggest mechanisms for its nucleation and growth, and its role as a scaffold for phage-encoded factors mediating macromolecular transport, cytoskeletal interactions, and viral maturation.

			Architecture and self-assembly of the jumbo bacteriophage nuclear shell.,Laughlin TG, Deep A, Prichard AM, Seitz C, Gu Y, Enustun E, Suslov S, Khanna K, Birkholz EA, Armbruster E, McCammon JA, Amaro RE, Pogliano J, Corbett KD, Villa E Nature. 2022 Aug;608(7922):429-435. doi: 10.1038/s41586-022-05013-4. Epub 2022, Aug 3. PMID:35922510<ref>PMID:35922510</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7squ" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Escherichia phage vB_EcoM_Goslar]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Amaro RE]]		[[Category: Amaro RE]]

OCA at 11:08, 31 August 2022

2022-08-31T11:08:06Z

← Older revision		Revision as of 11:08, 31 August 2022
Line 1:		Line 1:

	==Goslar chimallin C4 tetramer localized reconstruction==		==Goslar chimallin C4 tetramer localized reconstruction==
	<StructureSection load='7squ' size='340' side='right'caption='[[7squ]]~~, [[Resolution\|resolution]] 2.60Å~~' scene=''>		<StructureSection load='7squ' size='340' side='right'caption='[[7squ]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>~~[[7squ]] is a 12 chain structure.~~ Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7SQU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SQU FirstGlance]. <br>		<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7SQU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SQU FirstGlance]. <br>
	</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=7squ FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7squ OCA], [https://pdbe.org/7squ PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7squ RCSB], [https://www.ebi.ac.uk/pdbsum/7squ PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7squ ProSAT]</span></td></tr>		</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=7squ FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7squ OCA], [https://pdbe.org/7squ PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7squ RCSB], [https://www.ebi.ac.uk/pdbsum/7squ PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7squ ProSAT]</span></td></tr>
	</table>		</table>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	Bacteria encode myriad defences that target the genomes of infecting bacteriophage, including restriction-modification and CRISPR-Cas systems(1). In response, one family of large bacteriophages uses a nucleus-like compartment to protect its replicating genomes by excluding host defence factors(2-4). However, the principal composition and structure of this compartment remain unknown. Here we find that the bacteriophage nuclear shell assembles primarily from one protein, which we name chimallin (ChmA). Combining cryo-electron tomography of nuclear shells in bacteriophage-infected cells and cryo-electron microscopy of a minimal chimallin compartment in vitro, we show that chimallin self-assembles as a flexible sheet into closed micrometre-scale compartments. The architecture and assembly dynamics of the chimallin shell suggest mechanisms for its nucleation and growth, and its role as a scaffold for phage-encoded factors mediating macromolecular transport, cytoskeletal interactions, and viral maturation.

	Architecture and self-assembly of the jumbo bacteriophage nuclear shell.,Laughlin TG, Deep A, Prichard AM, Seitz C, Gu Y, Enustun E, Suslov S, Khanna K, Birkholz EA, Armbruster E, McCammon JA, Amaro RE, Pogliano J, Corbett KD, Villa E Nature. 2022 Aug;608(7922):429-435. doi: 10.1038/s41586-022-05013-4. Epub 2022, Aug 3. PMID:35922510<ref>PMID:35922510</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 7squ" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Amaro~~, R E~~]]		[[Category: Amaro RE]]
	[[Category: Birkholz~~, E A~~]]		[[Category: Birkholz EA]]
	[[Category: Corbett~~, K D~~]]		[[Category: Corbett KD]]
	[[Category: Deep, A]]		[[Category: Deep A]]
	[[Category: Enustun, E]]		[[Category: Enustun E]]
	[[Category: Gu, Y]]		[[Category: Gu Y]]
	[[Category: Khanna, K]]		[[Category: Khanna K]]
	[[Category: Laughlin~~, T G~~]]		[[Category: Laughlin TG]]
	[[Category: Pogliano, J]]		[[Category: Pogliano J]]
	[[Category: Prichard~~, A M~~]]		[[Category: Prichard AM]]
	[[Category: Seitz, C]]		[[Category: Seitz C]]
	[[Category: Suslov, S]]		[[Category: Suslov S]]
	[[Category: Villa, E]]		[[Category: Villa E]]
	~~[[Category: Phage]]~~
	~~[[Category: Structural protein]]~~
	~~[[Category: Viral protein~~]]

OCA at 06:41, 18 August 2022

2022-08-18T06:41:22Z

← Older revision		Revision as of 06:41, 18 August 2022
Line 1:		Line 1:

	==Goslar chimallin C4 tetramer localized reconstruction==		==Goslar chimallin C4 tetramer localized reconstruction==
	<StructureSection load='7squ' size='340' side='right'caption='[[7squ]]' scene=''>		<StructureSection load='7squ' size='340' side='right'caption='[[7squ]], [[Resolution\|resolution]] 2.60Å' 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=7SQU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SQU FirstGlance]. <br>		<table><tr><td colspan='2'>[[7squ]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7SQU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SQU FirstGlance]. <br>
	</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=7squ FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7squ OCA], [https://pdbe.org/7squ PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7squ RCSB], [https://www.ebi.ac.uk/pdbsum/7squ PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7squ ProSAT]</span></td></tr>		</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=7squ FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7squ OCA], [https://pdbe.org/7squ PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7squ RCSB], [https://www.ebi.ac.uk/pdbsum/7squ PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7squ ProSAT]</span></td></tr>
	</table>		</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Bacteria encode myriad defences that target the genomes of infecting bacteriophage, including restriction-modification and CRISPR-Cas systems(1). In response, one family of large bacteriophages uses a nucleus-like compartment to protect its replicating genomes by excluding host defence factors(2-4). However, the principal composition and structure of this compartment remain unknown. Here we find that the bacteriophage nuclear shell assembles primarily from one protein, which we name chimallin (ChmA). Combining cryo-electron tomography of nuclear shells in bacteriophage-infected cells and cryo-electron microscopy of a minimal chimallin compartment in vitro, we show that chimallin self-assembles as a flexible sheet into closed micrometre-scale compartments. The architecture and assembly dynamics of the chimallin shell suggest mechanisms for its nucleation and growth, and its role as a scaffold for phage-encoded factors mediating macromolecular transport, cytoskeletal interactions, and viral maturation.

			Architecture and self-assembly of the jumbo bacteriophage nuclear shell.,Laughlin TG, Deep A, Prichard AM, Seitz C, Gu Y, Enustun E, Suslov S, Khanna K, Birkholz EA, Armbruster E, McCammon JA, Amaro RE, Pogliano J, Corbett KD, Villa E Nature. 2022 Aug;608(7922):429-435. doi: 10.1038/s41586-022-05013-4. Epub 2022, Aug 3. PMID:35922510<ref>PMID:35922510</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7squ" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Amaro RE]]		[[Category: Amaro, R E]]
	[[Category: Birkholz EA]]		[[Category: Birkholz, E A]]
	[[Category: Corbett KD]]		[[Category: Corbett, K D]]
	[[Category: Deep A]]		[[Category: Deep, A]]
	[[Category: Enustun E]]		[[Category: Enustun, E]]
	[[Category: Gu Y]]		[[Category: Gu, Y]]
	[[Category: Khanna K]]		[[Category: Khanna, K]]
	[[Category: Laughlin TG]]		[[Category: Laughlin, T G]]
	[[Category: Pogliano J]]		[[Category: Pogliano, J]]
	[[Category: Prichard AM]]		[[Category: Prichard, A M]]
	[[Category: Seitz C]]		[[Category: Seitz, C]]
	[[Category: Suslov S]]		[[Category: Suslov, S]]
	[[Category: Villa E]]		[[Category: Villa, E]]
			[[Category: Phage]]
			[[Category: Structural protein]]
			[[Category: Viral protein]]

OCA at 18:04, 27 July 2022

2022-07-27T18:04:38Z

@@ Line 1: / Line 1: @@
-The entry 7squ is ON HOLD  until Paper Publication
+==Goslar chimallin C4 tetramer localized reconstruction==
+<StructureSection load='7squ' size='340' side='right'caption='[[7squ]]' scene=''>
-Authors:
+== Structural highlights ==
+<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7SQU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7SQU FirstGlance]. <br>
-Description:
+</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=7squ FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7squ OCA], [https://pdbe.org/7squ PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7squ RCSB], [https://www.ebi.ac.uk/pdbsum/7squ PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7squ ProSAT]</span></td></tr>
-[[Category: Unreleased Structures]]
+</table>

OCA at 15:38, 15 December 2021

2021-12-15T15:38:36Z

← Older revision		Revision as of 15:38, 15 December 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7squ is ON HOLD		The entry 7squ is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7squ" [edit=sysop:move=sysop]

2021-11-17T12:13:37Z

Protected "7squ" [edit=sysop:move=sysop]

← Older revision	Revision as of 12:13, 17 November 2021
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7squ is ON HOLD Authors: Description: Category: Unreleased Structures

2021-11-17T12:13:36Z

New page: '''Unreleased structure''' The entry 7squ is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7squ is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]