8apm - Revision history

OCA at 10:14, 16 August 2023

OCA — Wed, 16 Aug 2023 10:14:28 GMT

←Older revision		Revision as of 10:14, 16 August 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8apm]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Vaccinia_virus_Copenhagen Vaccinia virus Copenhagen] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8APM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8APM FirstGlance]. <br>		<table><tr><td colspan='2'>[[8apm]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Vaccinia_virus_Copenhagen Vaccinia virus Copenhagen] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8APM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8APM 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=8apm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8apm OCA], [https://pdbe.org/8apm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8apm RCSB], [https://www.ebi.ac.uk/pdbsum/8apm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8apm 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]] 6.6Å</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=8apm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8apm OCA], [https://pdbe.org/8apm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8apm RCSB], [https://www.ebi.ac.uk/pdbsum/8apm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8apm ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 07:31, 9 November 2022

OCA — Wed, 09 Nov 2022 07:31:44 GMT

←Older revision		Revision as of 07:31, 9 November 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 8apm is ~~ON HOLD~~	+	==Symmetric hexamer of vaccinia virus DNA helicase D5==
		+	<StructureSection load='8apm' size='340' side='right'caption='[[8apm]], [[Resolution\|resolution]] 6.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8apm]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Vaccinia_virus_Copenhagen Vaccinia virus Copenhagen] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8APM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8APM 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=8apm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8apm OCA], [https://pdbe.org/8apm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8apm RCSB], [https://www.ebi.ac.uk/pdbsum/8apm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8apm ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/D5_VACCC D5_VACCC] Primase which may have roles in initiation of DNA replication or lagging-strand synthesis.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Poxviruses are large DNA viruses with a linear double-stranded DNA genome circularized at the extremities. The helicase-primase D5, composed of six identical 90 kDa subunits, is required for DNA replication. D5 consists of a primase fragment flexibly attached to the hexameric C-terminal polypeptide (res. 323-785) with confirmed nucleotide hydrolase and DNA-binding activity but an elusive helicase activity. We determined its structure by single-particle cryo-electron microscopy. It displays an AAA+ helicase core flanked by N- and C-terminal domains. Model building was greatly helped by the predicted structure of D5 using AlphaFold2. The 3.9 A structure of the N-terminal domain forms a well-defined tight ring while the resolution decreases towards the C-terminus, still allowing the fit of the predicted structure. The N-terminal domain is partially present in papillomavirus E1 and polyomavirus LTA helicases, as well as in a bacteriophage NrS-1 helicase domain, which is also closely related to the AAA+ helicase domain of D5. Using the Pfam domain database, a D5_N domain followed by DUF5906 and Pox_D5 domains could be assigned to the cryo-EM structure, providing the first 3D structures for D5_N and Pox_D5 domains. The same domain organization has been identified in a family of putative helicases from large DNA viruses, bacteriophages, and selfish DNA elements.

-	~~Authors: Burmeister, W.P~~., Hutin, S., Ling, ~~W.L.~~, ~~Grimm~~, C., ~~Schoehn~~, G.	+	The Vaccinia Virus DNA Helicase Structure from Combined Single-Particle Cryo-Electron Microscopy and AlphaFold2 Prediction.,Hutin S, Ling WL, Tarbouriech N, Schoehn G, Grimm C, Fischer U, Burmeister WP Viruses. 2022 Oct 7;14(10). pii: v14102206. doi: 10.3390/v14102206. PMID:36298761<ref>PMID:36298761</ref>

-	~~Description: Symmetric hexamer~~ of ~~vaccinia virus DNA helicase D5~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: ~~Schoehn, G~~]]	+	<div class="pdbe-citations 8apm" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Grimm, C~~]]	+	== References ==
-	[[Category: ~~Ling, W.L~~]]	+	<references/>
-	[[Category: ~~Burmeister, W.P~~]]	+	__TOC__
-	[[Category: Hutin, S]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Synthetic construct]]
		+	[[Category: Vaccinia virus Copenhagen]]
		+	[[Category: Burmeister WP]]
		+	[[Category: Grimm C]]
		+	[[Category: Hutin S]]
		+	[[Category: Ling WL]]
		+	[[Category: Schoehn G]]

OCA: Protected "8apm" [edit=sysop:move=sysop]

OCA — Thu, 18 Aug 2022 03:54:30 GMT

Protected "8apm" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:54, 18 August 2022

OCA: New page: '''Unreleased structure''' The entry 8apm is ON HOLD Authors: Burmeister, W.P., Hutin, S., Ling, W.L., Grimm, C., Schoehn, G. Description: Symmetric hexamer of vaccinia virus DNA helic...

OCA — Thu, 18 Aug 2022 03:54:28 GMT

New page: '''Unreleased structure''' The entry 8apm is ON HOLD Authors: Burmeister, W.P., Hutin, S., Ling, W.L., Grimm, C., Schoehn, G. Description: Symmetric hexamer of vaccinia virus DNA helic...

New page

'''Unreleased structure'''

The entry 8apm is ON HOLD

Authors: Burmeister, W.P., Hutin, S., Ling, W.L., Grimm, C., Schoehn, G.

Description: Symmetric hexamer of vaccinia virus DNA helicase D5
[[Category: Unreleased Structures]]
[[Category: Schoehn, G]]
[[Category: Grimm, C]]
[[Category: Ling, W.L]]
[[Category: Burmeister, W.P]]
[[Category: Hutin, S]]