6j0c - Revision history

OCA at 10:36, 27 March 2024

OCA — Wed, 27 Mar 2024 10:36:05 GMT

←Older revision		Revision as of 10:36, 27 March 2024
Line 3:		Line 3:
	<SX load='6j0c' size='340' side='right' viewer='molstar' caption='[[6j0c]], [[Resolution\|resolution]] 3.70Å' scene=''>		<SX load='6j0c' size='340' side='right' viewer='molstar' caption='[[6j0c]], [[Resolution\|resolution]] 3.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6j0c]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Phoaa Phoaa~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J0C OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6J0C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6j0c]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Photorhabdus_asymbiotica_subsp._asymbiotica_ATCC_43949 Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J0C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6J0C FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~PAU_03352~~, ~~PA-RVA20-21-0170 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=553480 PHOAA])~~</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]] 3.7Å</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=6j0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j0c OCA], [~~http~~://pdbe.org/6j0c PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6j0c RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6j0c PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6j0c ProSAT]</span></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=6j0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j0c OCA], [https://pdbe.org/6j0c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6j0c RCSB], [https://www.ebi.ac.uk/pdbsum/6j0c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6j0c ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/B6VNP3_PHOAA B6VNP3_PHOAA]
-	Contractile injection systems (CISs) are cell-puncturing nanodevices that share ancestry with contractile tail bacteriophages. Photorhabdus virulence cassette (PVC) represents one group of extracellular CISs that are present in both bacteria and archaea. Here, we report the cryo-EM structure of an intact PVC from P. asymbiotica. This over 10-MDa device resembles a simplified T4 phage tail, containing a hexagonal baseplate complex with six fibers and a capped 117-nanometer sheath-tube trunk. One distinct feature of the PVC is the presence of three variants for both tube and sheath proteins, indicating a functional specialization of them during evolution. The terminal hexameric cap docks onto the topmost layer of the inner tube and locks the outer sheath in pre-contraction state with six stretching arms. Our results on the PVC provide a framework for understanding the general mechanism of widespread CISs and pave the way for using them as delivery tools in biological or therapeutic applications.	+
-		+
-	~~Cryo-EM Structure and Assembly of an Extracellular Contractile Injection System.,Jiang F, Li N, Wang X, Cheng J, Huang Y, Yang Y, Yang J, Cai B, Wang YP, Jin Q, Gao N Cell. 2019 Apr 4;177(2)~~:~~370-383.e15. doi: 10.1016~~/~~j.cell.2019.02.020. Epub 2019, Mar 21. PMID:30905475<ref>PMID:30905475<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 6j0c" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</SX>		</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Phoaa~~]]	+	[[Category: Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949]]
-	[[Category: Cai, B]]	+	[[Category: Cai B]]
-	[[Category: Cheng, J]]	+	[[Category: Cheng J]]
-	[[Category: Gao, N]]	+	[[Category: Gao N]]
-	[[Category: Huang, Y]]	+	[[Category: Huang Y]]
-	[[Category: Jiang, F]]	+	[[Category: Jiang F]]
-	[[Category: Jin, Q]]	+	[[Category: Jin Q]]
-	[[Category: Li, N]]	+	[[Category: Li N]]
-	[[Category: Wang, X]]	+	[[Category: Wang X]]
-	[[Category: Wang, Y]]	+	[[Category: Wang Y]]
-	[[Category: Yang, J]]	+	[[Category: Yang J]]
-	[[Category: Yang, Y]]	+	[[Category: Yang Y]]
-	~~[[Category: Assembly]]~~	+
-	~~[[Category: Bacteriophage-like]]~~	+
-	~~[[Category: Contractile injection system]]~~	+
-	~~[[Category: Photorhabdus asymbiotica]]~~	+
-	~~[[Category: Protein transport]]~~	+
-	~~[[Category: Pvc~~]]	+

OCA at 01:55, 11 April 2020

OCA — Sat, 11 Apr 2020 01:55:27 GMT

←Older revision		Revision as of 01:55, 11 April 2020
Line 3:		Line 3:
	<SX load='6j0c' size='340' side='right' viewer='molstar' caption='[[6j0c]], [[Resolution\|resolution]] 3.70Å' scene=''>		<SX load='6j0c' size='340' side='right' viewer='molstar' caption='[[6j0c]], [[Resolution\|resolution]] 3.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6j0c]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Phoaa Phoaa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J0C OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6J0C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6j0c]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Phoaa Phoaa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J0C OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6J0C FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAU_03352, PA-RVA20-21-0170 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=553480 PHOAA])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAU_03352, PA-RVA20-21-0170 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=553480 PHOAA])</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=6j0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j0c OCA], [http://pdbe.org/6j0c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6j0c RCSB], [http://www.ebi.ac.uk/pdbsum/6j0c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6j0c 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=6j0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j0c OCA], [http://pdbe.org/6j0c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6j0c RCSB], [http://www.ebi.ac.uk/pdbsum/6j0c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6j0c ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:12, 6 March 2020

OCA — Fri, 06 Mar 2020 22:12:13 GMT

←Older revision		Revision as of 22:12, 6 March 2020
Line 1:		Line 1:

	==Cryo-EM Structure of an Extracellular Contractile Injection System, PVC sheath complex in contracted state==		==Cryo-EM Structure of an Extracellular Contractile Injection System, PVC sheath complex in contracted state==
-	<~~StructureSection~~ load='6j0c' size='340' side='right'caption='[[6j0c]], [[Resolution\|resolution]] 3.70Å' scene=''>	+	<SX load='6j0c' size='340' side='right' viewer='molstar' caption='[[6j0c]], [[Resolution\|resolution]] 3.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6j0c]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Phoaa Phoaa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J0C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6J0C FirstGlance]. <br>		<table><tr><td colspan='2'>[[6j0c]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Phoaa Phoaa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J0C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6J0C FirstGlance]. <br>
Line 19:		Line 19:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Phoaa]]		[[Category: Phoaa]]

OCA at 06:58, 17 April 2019

OCA — Wed, 17 Apr 2019 06:58:03 GMT

←Older revision		Revision as of 06:58, 17 April 2019
Line 3:		Line 3:
	<StructureSection load='6j0c' size='340' side='right'caption='[[6j0c]], [[Resolution\|resolution]] 3.70Å' scene=''>		<StructureSection load='6j0c' size='340' side='right'caption='[[6j0c]], [[Resolution\|resolution]] 3.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6j0c]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J0C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6J0C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6j0c]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Phoaa Phoaa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J0C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6J0C FirstGlance]. <br>
-	</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=6j0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j0c OCA], [http://pdbe.org/6j0c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6j0c RCSB], [http://www.ebi.ac.uk/pdbsum/6j0c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6j0c ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PAU_03352, PA-RVA20-21-0170 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=553480 PHOAA])</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=6j0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j0c OCA], [http://pdbe.org/6j0c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6j0c RCSB], [http://www.ebi.ac.uk/pdbsum/6j0c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6j0c ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 21:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Phoaa]]
	[[Category: Cai, B]]		[[Category: Cai, B]]
	[[Category: Cheng, J]]		[[Category: Cheng, J]]

OCA at 07:24, 10 April 2019

OCA — Wed, 10 Apr 2019 07:24:04 GMT

←Older revision		Revision as of 07:24, 10 April 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6j0c is ~~ON HOLD until Paper~~ Publication	+	==Cryo-EM Structure of an Extracellular Contractile Injection System, PVC sheath complex in contracted state==
		+	<StructureSection load='6j0c' size='340' side='right'caption='[[6j0c]], [[Resolution\|resolution]] 3.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6j0c]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6J0C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6J0C FirstGlance]. <br>
		+	</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=6j0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6j0c OCA], [http://pdbe.org/6j0c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6j0c RCSB], [http://www.ebi.ac.uk/pdbsum/6j0c PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6j0c ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Contractile injection systems (CISs) are cell-puncturing nanodevices that share ancestry with contractile tail bacteriophages. Photorhabdus virulence cassette (PVC) represents one group of extracellular CISs that are present in both bacteria and archaea. Here, we report the cryo-EM structure of an intact PVC from P. asymbiotica. This over 10-MDa device resembles a simplified T4 phage tail, containing a hexagonal baseplate complex with six fibers and a capped 117-nanometer sheath-tube trunk. One distinct feature of the PVC is the presence of three variants for both tube and sheath proteins, indicating a functional specialization of them during evolution. The terminal hexameric cap docks onto the topmost layer of the inner tube and locks the outer sheath in pre-contraction state with six stretching arms. Our results on the PVC provide a framework for understanding the general mechanism of widespread CISs and pave the way for using them as delivery tools in biological or therapeutic applications.

-	~~Authors~~:	+	Cryo-EM Structure and Assembly of an Extracellular Contractile Injection System.,Jiang F, Li N, Wang X, Cheng J, Huang Y, Yang Y, Yang J, Cai B, Wang YP, Jin Q, Gao N Cell. 2019 Apr 4;177(2):370-383.e15. doi: 10.1016/j.cell.2019.02.020. Epub 2019, Mar 21. PMID:30905475<ref>PMID:30905475</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6j0c" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Cai, B]]
		+	[[Category: Cheng, J]]
		+	[[Category: Gao, N]]
		+	[[Category: Huang, Y]]
		+	[[Category: Jiang, F]]
		+	[[Category: Jin, Q]]
		+	[[Category: Li, N]]
		+	[[Category: Wang, X]]
		+	[[Category: Wang, Y]]
		+	[[Category: Yang, J]]
		+	[[Category: Yang, Y]]
		+	[[Category: Assembly]]
		+	[[Category: Bacteriophage-like]]
		+	[[Category: Contractile injection system]]
		+	[[Category: Photorhabdus asymbiotica]]
		+	[[Category: Protein transport]]
		+	[[Category: Pvc]]

OCA at 06:04, 30 January 2019

OCA — Wed, 30 Jan 2019 06:04:04 GMT

←Older revision		Revision as of 06:04, 30 January 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6j0c is ON HOLD	+	The entry 6j0c is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6j0c" [edit=sysop:move=sysop]

OCA — Wed, 02 Jan 2019 04:50:05 GMT

Protected "6j0c" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:50, 2 January 2019

OCA: New page: '''Unreleased structure''' The entry 6j0c is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Jan 2019 04:50:03 GMT

New page: '''Unreleased structure''' The entry 6j0c is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6j0c is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]