6mk1 - Revision history

OCA at 14:43, 13 March 2024

OCA — Wed, 13 Mar 2024 14:43:31 GMT

←Older revision		Revision as of 14:43, 13 March 2024
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	<SX load='6mk1' size='340' side='right' viewer='molstar' caption='[[6mk1]], [[Resolution\|resolution]] 6.00Å' scene=''>		<SX load='6mk1' size='340' side='right' viewer='molstar' caption='[[6mk1]], [[Resolution\|resolution]] 6.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mk1]] is a 52 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MK1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6MK1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mk1]] is a 52 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanothermobacter_thermautotrophicus Methanothermobacter thermautotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MK1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MK1 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=6mk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mk1 OCA], [~~http~~://pdbe.org/6mk1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6mk1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6mk1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6mk1 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]] 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=6mk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mk1 OCA], [https://pdbe.org/6mk1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mk1 RCSB], [https://www.ebi.ac.uk/pdbsum/6mk1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mk1 ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Tandem repeat proteins exhibit native designability and represent potentially useful scaffolds for the construction of synthetic biomimetic assemblies. We have designed 2 synthetic peptides, HEAT_R1 and LRV_M3Delta1, based on the consensus sequences of single repeats of thermophilic HEAT (PBS_HEAT) and Leucine-Rich Variant (LRV) structural motifs, respectively. Self-assembly of the peptides afforded high-aspect ratio helical nanotubes. Cryo-electron microscopy with direct electron detection was employed to analyze the structures of the solvated filaments. The 3D reconstructions from the cryo-EM maps led to atomic models for the HEAT_R1 and LRV_M3Delta1 filaments at resolutions of 6.0 and 4.4 A, respectively. Surprisingly, despite sequence similarity at the lateral packing interface, HEAT_R1 and LRV_M3Delta1 filaments adopt the opposite helical hand and differ significantly in helical geometry, while retaining a local conformation similar to previously characterized repeat proteins of the same class. The differences in the 2 filaments could be rationalized on the basis of differences in cohesive interactions at the lateral and axial interfaces. These structural data reinforce previous observations regarding the structural plasticity of helical protein assemblies and the need for high-resolution structural analysis. Despite these observations, the native designability of tandem repeat proteins offers the opportunity to engineer novel helical nanotubes. Moreover, the resultant nanotubes have independently addressable and chemically distinguishable interior and exterior surfaces that would facilitate applications in selective recognition, transport, and release.
-
-	Ambidextrous helical nanotubes from self-assembly of designed helical hairpin motifs.,Hughes SA, Wang F, Wang S, Kreutzberger MAB, Osinski T, Orlova A, Wall JS, Zuo X, Egelman EH, Conticello VP Proc Natl Acad Sci U S A. 2019 Jul 1. pii: 1903910116. doi:, 10.1073/pnas.1903910116. PMID:31262809<ref>PMID:31262809</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 6mk1" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</SX>		</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Conticello~~, V P~~]]	+	[[Category: Methanothermobacter thermautotrophicus]]
-	[[Category: Egelman~~, E H~~]]	+	[[Category: Conticello VP]]
-	[[Category: Hughes~~, S A~~]]	+	[[Category: Egelman EH]]
-	[[Category: Orlova, A]]	+	[[Category: Hughes SA]]
-	[[Category: Wang, F]]	+	[[Category: Orlova A]]
-	~~[[Category: Filament]]~~	+	[[Category: Wang F]]
-	~~[[Category: Protein fibril]]~~	+
-	~~[[Category: Self-assembly peptide filament~~]]	+

OCA at 02:47, 11 April 2020

OCA — Sat, 11 Apr 2020 02:47:06 GMT

←Older revision		Revision as of 02:47, 11 April 2020
Line 3:		Line 3:
	<SX load='6mk1' size='340' side='right' viewer='molstar' caption='[[6mk1]], [[Resolution\|resolution]] 6.00Å' scene=''>		<SX load='6mk1' size='340' side='right' viewer='molstar' caption='[[6mk1]], [[Resolution\|resolution]] 6.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mk1]] is a 52 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MK1 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6MK1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mk1]] is a 52 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MK1 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6MK1 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=6mk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mk1 OCA], [http://pdbe.org/6mk1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mk1 RCSB], [http://www.ebi.ac.uk/pdbsum/6mk1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mk1 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=6mk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mk1 OCA], [http://pdbe.org/6mk1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mk1 RCSB], [http://www.ebi.ac.uk/pdbsum/6mk1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mk1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 22:34, 6 March 2020

OCA — Fri, 06 Mar 2020 22:34:29 GMT

←Older revision		Revision as of 22:34, 6 March 2020
Line 1:		Line 1:

	==Cryo-EM of self-assembly peptide filament HEAT_R1==		==Cryo-EM of self-assembly peptide filament HEAT_R1==
-	<~~StructureSection~~ load='6mk1' size='340' side='right'caption='[[6mk1]], [[Resolution\|resolution]] 6.00Å' scene=''>	+	<SX load='6mk1' size='340' side='right' viewer='molstar' caption='[[6mk1]], [[Resolution\|resolution]] 6.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6mk1]] is a 52 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MK1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MK1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[6mk1]] is a 52 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MK1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MK1 FirstGlance]. <br>
Line 18:		Line 18:
	<references/>		<references/>
	__TOC__		__TOC__
-	</~~StructureSection~~>	+	</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Conticello, V P]]		[[Category: Conticello, V P]]

OCA at 11:39, 13 November 2019

OCA — Wed, 13 Nov 2019 11:39:01 GMT

←Older revision		Revision as of 11:39, 13 November 2019
Line 6:		Line 6:
	</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=6mk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mk1 OCA], [http://pdbe.org/6mk1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mk1 RCSB], [http://www.ebi.ac.uk/pdbsum/6mk1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mk1 ProSAT]</span></td></tr>		</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=6mk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mk1 OCA], [http://pdbe.org/6mk1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mk1 RCSB], [http://www.ebi.ac.uk/pdbsum/6mk1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mk1 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Tandem repeat proteins exhibit native designability and represent potentially useful scaffolds for the construction of synthetic biomimetic assemblies. We have designed 2 synthetic peptides, HEAT_R1 and LRV_M3Delta1, based on the consensus sequences of single repeats of thermophilic HEAT (PBS_HEAT) and Leucine-Rich Variant (LRV) structural motifs, respectively. Self-assembly of the peptides afforded high-aspect ratio helical nanotubes. Cryo-electron microscopy with direct electron detection was employed to analyze the structures of the solvated filaments. The 3D reconstructions from the cryo-EM maps led to atomic models for the HEAT_R1 and LRV_M3Delta1 filaments at resolutions of 6.0 and 4.4 A, respectively. Surprisingly, despite sequence similarity at the lateral packing interface, HEAT_R1 and LRV_M3Delta1 filaments adopt the opposite helical hand and differ significantly in helical geometry, while retaining a local conformation similar to previously characterized repeat proteins of the same class. The differences in the 2 filaments could be rationalized on the basis of differences in cohesive interactions at the lateral and axial interfaces. These structural data reinforce previous observations regarding the structural plasticity of helical protein assemblies and the need for high-resolution structural analysis. Despite these observations, the native designability of tandem repeat proteins offers the opportunity to engineer novel helical nanotubes. Moreover, the resultant nanotubes have independently addressable and chemically distinguishable interior and exterior surfaces that would facilitate applications in selective recognition, transport, and release.
		+
		+	Ambidextrous helical nanotubes from self-assembly of designed helical hairpin motifs.,Hughes SA, Wang F, Wang S, Kreutzberger MAB, Osinski T, Orlova A, Wall JS, Zuo X, Egelman EH, Conticello VP Proc Natl Acad Sci U S A. 2019 Jul 1. pii: 1903910116. doi:, 10.1073/pnas.1903910116. PMID:31262809<ref>PMID:31262809</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6mk1" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:54, 26 June 2019

OCA — Wed, 26 Jun 2019 06:54:54 GMT

←Older revision		Revision as of 06:54, 26 June 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6mk1 ~~is ON HOLD until Paper Publication~~	+	==Cryo-EM of self-assembly peptide filament HEAT_R1==
-		+	<StructureSection load='6mk1' size='340' side='right'caption='[[6mk1]], [[Resolution\|resolution]] 6.00Å' scene=''>
-	~~Authors~~: ~~Wang, F~~., ~~Hughes, S~~.A., ~~Orlova~~, A., ~~Conticello, V~~.P., ~~Egelman, E~~.H.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6mk1]] is a 52 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MK1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MK1 FirstGlance]. <br>
-	~~Description: Cryo-EM of self-assembly peptide filament HEAT_R1~~	+	</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=6mk1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mk1 OCA], [http://pdbe.org/6mk1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mk1 RCSB], [http://www.ebi.ac.uk/pdbsum/6mk1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mk1 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Egelman, E.H]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Conticello, V P]]
		+	[[Category: Egelman, E H]]
		+	[[Category: Hughes, S A]]
		+	[[Category: Orlova, A]]
	[[Category: Wang, F]]		[[Category: Wang, F]]
-	[[Category: ~~Hughes, S.A~~]]	+	[[Category: Filament]]
-	[[Category: ~~Conticello, V.P~~]]	+	[[Category: Protein fibril]]
-	[[Category: ~~Orlova, A~~]]	+	[[Category: Self-assembly peptide filament]]

OCA at 06:31, 17 October 2018

OCA — Wed, 17 Oct 2018 06:31:07 GMT

←Older revision		Revision as of 06:31, 17 October 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6mk1 is ON HOLD	+	The entry 6mk1 is ON HOLD until Paper Publication

	Authors: Wang, F., Hughes, S.A., Orlova, A., Conticello, V.P., Egelman, E.H.		Authors: Wang, F., Hughes, S.A., Orlova, A., Conticello, V.P., Egelman, E.H.

OCA: Protected "6mk1" [edit=sysop:move=sysop]

OCA — Wed, 03 Oct 2018 06:27:37 GMT

Protected "6mk1" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:27, 3 October 2018

OCA: New page: '''Unreleased structure''' The entry 6mk1 is ON HOLD Authors: Wang, F., Hughes, S.A., Orlova, A., Conticello, V.P., Egelman, E.H. Description: Cryo-EM of self-assembly peptide filament...

OCA — Wed, 03 Oct 2018 06:27:35 GMT

New page: '''Unreleased structure''' The entry 6mk1 is ON HOLD Authors: Wang, F., Hughes, S.A., Orlova, A., Conticello, V.P., Egelman, E.H. Description: Cryo-EM of self-assembly peptide filament...

New page

'''Unreleased structure'''

The entry 6mk1 is ON HOLD

Authors: Wang, F., Hughes, S.A., Orlova, A., Conticello, V.P., Egelman, E.H.

Description: Cryo-EM of self-assembly peptide filament HEAT_R1
[[Category: Unreleased Structures]]
[[Category: Egelman, E.H]]
[[Category: Wang, F]]
[[Category: Hughes, S.A]]
[[Category: Conticello, V.P]]
[[Category: Orlova, A]]