6b5w - Revision history

OCA at 10:37, 14 June 2023

OCA — Wed, 14 Jun 2023 10:37:45 GMT

←Older revision		Revision as of 10:37, 14 June 2023
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	==Benenodin-1-dC5, state 2==		==Benenodin-1-dC5, state 2==
-	<StructureSection load='6b5w' size='340' side='right'caption='[[6b5w~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='6b5w' size='340' side='right'caption='[[6b5w]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6b5w]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Asticcacaulis_benevestitus_atcc_baa~~-896 Asticcacaulis benevestitus ~~atcc baa~~-896]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5tj0 5tj0]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B5W OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6B5W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6b5w]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Asticcacaulis_benevestitus_DSM_16100_=_ATCC_BAA-896 Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5tj0 5tj0]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B5W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6B5W FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tj0\|5tj0]]</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=6b5w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b5w OCA], [https://pdbe.org/6b5w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6b5w RCSB], [https://www.ebi.ac.uk/pdbsum/6b5w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6b5w ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ABENE_08090 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1121022 Asticcacaulis benevestitus ATCC BAA-896])</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=6b5w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b5w OCA], [~~http~~://pdbe.org/6b5w PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6b5w RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6b5w PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6b5w ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/V4RMX4_9CAUL V4RMX4_9CAUL]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Asticcacaulis benevestitus ~~atcc baa~~-896]]	+	[[Category: Asticcacaulis benevestitus DSM 16100 = ATCC BAA-896]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Link~~, A J~~]]	+	[[Category: Link AJ]]
-	[[Category: Zong, C]]	+	[[Category: Zong C]]
-	~~[[Category: Lasso peptide ripp]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 10:13, 1 January 2020

OCA — Wed, 01 Jan 2020 10:13:26 GMT

←Older revision		Revision as of 10:13, 1 January 2020
Line 1:		Line 1:

	==Benenodin-1-dC5, state 2==		==Benenodin-1-dC5, state 2==
-	<StructureSection load='6b5w' size='340' side='right' caption='[[6b5w]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='6b5w' size='340' side='right'caption='[[6b5w]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6b5w]] is a 1 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5tj0 5tj0]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B5W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6B5W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6b5w]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Asticcacaulis_benevestitus_atcc_baa-896 Asticcacaulis benevestitus atcc baa-896]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5tj0 5tj0]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B5W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6B5W FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tj0\|5tj0]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tj0\|5tj0]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ABENE_08090 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1121022 Asticcacaulis benevestitus ATCC BAA-896])</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=6b5w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b5w OCA], [http://pdbe.org/6b5w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6b5w RCSB], [http://www.ebi.ac.uk/pdbsum/6b5w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6b5w 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=6b5w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b5w OCA], [http://pdbe.org/6b5w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6b5w RCSB], [http://www.ebi.ac.uk/pdbsum/6b5w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6b5w ProSAT]</span></td></tr>
	</table>		</table>
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Asticcacaulis benevestitus atcc baa-896]]
		+	[[Category: Large Structures]]
	[[Category: Link, A J]]		[[Category: Link, A J]]
	[[Category: Zong, C]]		[[Category: Zong, C]]
	[[Category: Lasso peptide ripp]]		[[Category: Lasso peptide ripp]]
	[[Category: Unknown function]]		[[Category: Unknown function]]

OCA at 06:49, 18 October 2017

OCA — Wed, 18 Oct 2017 06:49:58 GMT

←Older revision		Revision as of 06:49, 18 October 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The~~ entry 6b5w is ~~ON HOLD~~	+	==Benenodin-1-dC5, state 2==
		+	<StructureSection load='6b5w' size='340' side='right' caption='[[6b5w]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6b5w]] is a 1 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=5tj0 5tj0]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B5W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6B5W FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5tj0\|5tj0]]</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=6b5w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b5w OCA], [http://pdbe.org/6b5w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6b5w RCSB], [http://www.ebi.ac.uk/pdbsum/6b5w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6b5w ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Mechanically interlocked molecules that change their conformation in response to stimuli have been developed by synthetic chemists as building blocks for molecular machines. Here we describe a natural product, the lasso peptide benenodin-1, which exhibits conformational switching between two distinct threaded conformers upon actuation by heat. We have determined the structures of both conformers and have characterized the kinetics and energetics of the conformational switch. Single amino acid substitutions to benenodin-1 generate peptides that are biased to a single conformer, showing that the switching behavior is potentially an evolvable trait in these peptides. Lasso peptides such as benenodin-1 can be recognized and cleaved by enzymes called lasso peptide isopeptidases. We show that only the native conformer of benenodin-1 is cleaved by its cognate isopeptidase. Thus, thermally induced conformational switching of benenodin-1 may also be relevant to the biological function of these molecules.

-	~~Authors: Link~~, J.A., ~~Zong, C~~.	+	Lasso Peptide Benenodin-1 Is a Thermally Actuated [1]Rotaxane Switch.,Zong C, Wu MJ, Qin JZ, Link AJ J Am Chem Soc. 2017 Aug 2;139(30):10403-10409. doi: 10.1021/jacs.7b04830. Epub, 2017 Jul 24. PMID:28696674<ref>PMID:28696674</ref>

-	~~Description: Benenodin-1-dC5~~, ~~state 2~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: Link, J.A]]	+	<div class="pdbe-citations 6b5w" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Link, A J]]
	[[Category: Zong, C]]		[[Category: Zong, C]]
		+	[[Category: Lasso peptide ripp]]
		+	[[Category: Unknown function]]

OCA: Protected "6b5w" [edit=sysop:move=sysop]

OCA — Wed, 11 Oct 2017 05:30:32 GMT

Protected "6b5w" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:30, 11 October 2017

OCA: New page: '''Unreleased structure''' The entry 6b5w is ON HOLD Authors: Link, J.A., Zong, C. Description: Benenodin-1-dC5, state 2 Category: Unreleased Structures Category: Link, J.A [[C...

OCA — Wed, 11 Oct 2017 05:30:31 GMT

New page: '''Unreleased structure''' The entry 6b5w is ON HOLD Authors: Link, J.A., Zong, C. Description: Benenodin-1-dC5, state 2 Category: Unreleased Structures Category: Link, J.A [[C...

New page

'''Unreleased structure'''

The entry 6b5w is ON HOLD

Authors: Link, J.A., Zong, C.

Description: Benenodin-1-dC5, state 2
[[Category: Unreleased Structures]]
[[Category: Link, J.A]]
[[Category: Zong, C]]