6azg - Revision history

OCA at 07:29, 1 May 2024

OCA — Wed, 01 May 2024 07:29:41 GMT

←Older revision		Revision as of 07:29, 1 May 2024
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	==PawL-Derived Peptide PLP-10 (cis conformer)==		==PawL-Derived Peptide PLP-10 (cis conformer)==
-	<StructureSection load='6azg' size='340' side='right'caption='[[6azg~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='6azg' size='340' side='right'caption='[[6azg]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6azg]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AZG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6AZG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6azg]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Zinnia_elegans Zinnia elegans]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AZG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6AZG FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[6azf\|6azf]]~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=6azg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6azg OCA], [~~http~~://pdbe.org/6azg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6azg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6azg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6azg 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=6azg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6azg OCA], [https://pdbe.org/6azg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6azg RCSB], [https://www.ebi.ac.uk/pdbsum/6azg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6azg ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Orbitides are cyclic ribosomally-synthesized and post-translationally modified peptides (RiPPs) from plants; they consist of standard amino acids arranged in an unbroken chain of peptide bonds. These cyclic peptides are stable and range in size and topologies making them potential scaffolds for peptide drugs; some display valuable biological activities. Recently two orbitides whose sequences were buried in those of seed storage albumin precursors were said to represent the first observable step in the evolution of larger and hydrophilic bicyclic peptides. Here, guided by transcriptome data, we investigated peptide extracts of 40 species specifically for the more hydrophobic orbitides and confirmed 44 peptides by tandem mass spectrometry, as well as obtaining solution structures for four of them by NMR. Acquiring transcriptomes from the phylogenetically important Corymboideae family confirmed the precursor genes for the peptides (called PawS1-Like or PawL1) are confined to the Asteroideae, a subfamily of the huge plant family Asteraceae. To be confined to the Asteroideae indicates these peptides arose during the Eocene epoch around 45 Mya. Unlike other orbitides, all PawL-derived Peptides contain an Asp residue, needed for processing by asparaginyl endopeptidase. This study has revealed what is likely to be a very large new family of orbitides, uniquely buried alongside albumin and processed by asparaginyl endopeptidase.
-
-	A family of small, cyclic peptides buried in preproalbumin since the Eocene epoch.,Fisher MF, Zhang J, Taylor NL, Howard MJ, Berkowitz O, Debowski AW, Behsaz B, Whelan J, Pevzner PA, Mylne JS Plant Direct. 2018 Feb;2(2). doi: 10.1002/pld3.42. Epub 2018 Feb 28. PMID:30417166<ref>PMID:30417166</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 6azg" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Fisher, M~~]]	+	[[Category: Zinnia elegans]]
-	[[Category: ~~Howard,~~ M J]]	+	[[Category: Fisher M]]
-	[[Category: ~~Mylne, J S~~]]	+	[[Category: Howard MJ]]
-	[[Category: ~~Buried peptide]]~~	+	[[Category: Mylne JS]]
-	~~[[Category: Cyclic peptide]]~~	+
-	~~[[Category: De novo protein]]~~	+
-	~~[[Category: Orbitide]]~~	+
-	~~[[Category: Plant peptide~~]]	+

OCA at 10:09, 1 January 2020

OCA — Wed, 01 Jan 2020 10:09:33 GMT

←Older revision		Revision as of 10:09, 1 January 2020
Line 1:		Line 1:

	==PawL-Derived Peptide PLP-10 (cis conformer)==		==PawL-Derived Peptide PLP-10 (cis conformer)==
-	<StructureSection load='6azg' size='340' side='right' caption='[[6azg]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='6azg' size='340' side='right'caption='[[6azg]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6azg]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AZG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AZG FirstGlance]. <br>		<table><tr><td colspan='2'>[[6azg]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AZG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AZG FirstGlance]. <br>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Fisher, M]]		[[Category: Fisher, M]]
	[[Category: Howard, M J]]		[[Category: Howard, M J]]

OCA at 20:53, 2 December 2018

OCA — Sun, 02 Dec 2018 20:53:53 GMT

←Older revision		Revision as of 20:53, 2 December 2018
Line 7:		Line 7:
	<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=6azg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6azg OCA], [http://pdbe.org/6azg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6azg RCSB], [http://www.ebi.ac.uk/pdbsum/6azg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6azg ProSAT]</span></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=6azg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6azg OCA], [http://pdbe.org/6azg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6azg RCSB], [http://www.ebi.ac.uk/pdbsum/6azg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6azg ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Orbitides are cyclic ribosomally-synthesized and post-translationally modified peptides (RiPPs) from plants; they consist of standard amino acids arranged in an unbroken chain of peptide bonds. These cyclic peptides are stable and range in size and topologies making them potential scaffolds for peptide drugs; some display valuable biological activities. Recently two orbitides whose sequences were buried in those of seed storage albumin precursors were said to represent the first observable step in the evolution of larger and hydrophilic bicyclic peptides. Here, guided by transcriptome data, we investigated peptide extracts of 40 species specifically for the more hydrophobic orbitides and confirmed 44 peptides by tandem mass spectrometry, as well as obtaining solution structures for four of them by NMR. Acquiring transcriptomes from the phylogenetically important Corymboideae family confirmed the precursor genes for the peptides (called PawS1-Like or PawL1) are confined to the Asteroideae, a subfamily of the huge plant family Asteraceae. To be confined to the Asteroideae indicates these peptides arose during the Eocene epoch around 45 Mya. Unlike other orbitides, all PawL-derived Peptides contain an Asp residue, needed for processing by asparaginyl endopeptidase. This study has revealed what is likely to be a very large new family of orbitides, uniquely buried alongside albumin and processed by asparaginyl endopeptidase.
		+
		+	A family of small, cyclic peptides buried in preproalbumin since the Eocene epoch.,Fisher MF, Zhang J, Taylor NL, Howard MJ, Berkowitz O, Debowski AW, Behsaz B, Whelan J, Pevzner PA, Mylne JS Plant Direct. 2018 Feb;2(2). doi: 10.1002/pld3.42. Epub 2018 Feb 28. PMID:30417166<ref>PMID:30417166</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6azg" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 05:06, 8 March 2018

OCA — Thu, 08 Mar 2018 05:06:39 GMT

←Older revision		Revision as of 05:06, 8 March 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 6azg is ON HOLD until Paper Publication~~	+	==PawL-Derived Peptide PLP-10 (cis conformer)==
-		+	<StructureSection load='6azg' size='340' side='right' caption='[[6azg]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
-	~~Authors: Fisher, M., Mylne, J.S., Howard, M.J.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6azg]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AZG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6AZG FirstGlance]. <br>
-	~~Description:~~ PawL-Derived Peptide PLP-10 (cis conformer)	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6azf\|6azf]]</td></tr>
-	[[~~Category: Unreleased Structures~~]]	+	<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=6azg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6azg OCA], [http://pdbe.org/6azg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6azg RCSB], [http://www.ebi.ac.uk/pdbsum/6azg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6azg ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Mylne, J~~.S]]	+	</table>
-	[[~~Category~~: ~~Howard~~, M.J]]	+	__TOC__
		+	</StructureSection>
	[[Category: Fisher, M]]		[[Category: Fisher, M]]
		+	[[Category: Howard, M J]]
		+	[[Category: Mylne, J S]]
		+	[[Category: Buried peptide]]
		+	[[Category: Cyclic peptide]]
		+	[[Category: De novo protein]]
		+	[[Category: Orbitide]]
		+	[[Category: Plant peptide]]

OCA at 05:27, 11 October 2017

OCA — Wed, 11 Oct 2017 05:27:20 GMT

←Older revision		Revision as of 05:27, 11 October 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Fisher, M., Mylne, J.S., Howard, M.J.		Authors: Fisher, M., Mylne, J.S., Howard, M.J.
Line 7:		Line 7:
	Description: PawL-Derived Peptide PLP-10 (cis conformer)		Description: PawL-Derived Peptide PLP-10 (cis conformer)
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Fisher, M]]
	[[Category: Mylne, J.S]]		[[Category: Mylne, J.S]]
	[[Category: Howard, M.J]]		[[Category: Howard, M.J]]
		+	[[Category: Fisher, M]]

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

OCA — Wed, 27 Sep 2017 16:59:31 GMT

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

←Older revision

Revision as of 16:59, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 6azg is ON HOLD Authors: Fisher, M., Mylne, J.S., Howard, M.J. Description: PawL-Derived Peptide PLP-10 (cis conformer) [[Category: Unreleased Stru...

OCA — Wed, 27 Sep 2017 16:59:30 GMT

New page: '''Unreleased structure''' The entry 6azg is ON HOLD Authors: Fisher, M., Mylne, J.S., Howard, M.J. Description: PawL-Derived Peptide PLP-10 (cis conformer) [[Category: Unreleased Stru...

New page

'''Unreleased structure'''

The entry 6azg is ON HOLD

Authors: Fisher, M., Mylne, J.S., Howard, M.J.

Description: PawL-Derived Peptide PLP-10 (cis conformer)
[[Category: Unreleased Structures]]
[[Category: Fisher, M]]
[[Category: Mylne, J.S]]
[[Category: Howard, M.J]]