2n6y - Revision history

OCA at 10:22, 15 March 2023

OCA — Wed, 15 Mar 2023 10:22:07 GMT

←Older revision		Revision as of 10:22, 15 March 2023
Line 1:		Line 1:

	==Solution structure of holo ArCP from yersiniabactin synthetase==		==Solution structure of holo ArCP from yersiniabactin synthetase==
-	<StructureSection load='2n6y' size='340' side='right'caption='[[2n6y~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='2n6y' size='340' side='right'caption='[[2n6y]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2n6y]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_pestis"_(lehmann_and_neumann_1896)_migula_1900 "bacillus~~ pestis~~" (lehmann and neumann 1896) migula 1900~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N6Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2N6Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2n6y]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Yersinia_pestis Yersinia pestis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N6Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2N6Y FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=4HH:O-[(S)-HYDROXY{[(3R)-3-HYDROXY-2,2-DIMETHYL-4-OXO-4-({3-OXO-3-[(2-SULFANYLETHYL)AMINO]PROPYL}AMINO)BUTYL]OXY}PHOSPHORYL]-L-SERINE'>4HH</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=4HH:O-[(S)-HYDROXY{[(3R)-3-HYDROXY-2,2-DIMETHYL-4-OXO-4-({3-OXO-3-[(2-SULFANYLETHYL)AMINO]PROPYL}AMINO)BUTYL]OXY}PHOSPHORYL]-L-SERINE'>4HH</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2n6z\|2n6z]]</div></td></tr>~~	+
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">irp2, y2399, YPO1911 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=632 "Bacillus pestis" (Lehmann and Neumann 1896) Migula 1900])</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=2n6y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n6y OCA], [https://pdbe.org/2n6y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2n6y RCSB], [https://www.ebi.ac.uk/pdbsum/2n6y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2n6y 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=2n6y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n6y OCA], [https://pdbe.org/2n6y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2n6y RCSB], [https://www.ebi.ac.uk/pdbsum/2n6y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2n6y ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A3N4B635_YERPE A0A3N4B635_YERPE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Frueh, D P~~]]	+	[[Category: Yersinia pestis]]
-	[[Category: ~~Goodrich, A C~~]]	+	[[Category: Frueh DP]]
-	[[Category: ~~Harden, B J~~]]	+	[[Category: Goodrich AC]]
-	[[Category: ~~Carrier protein]]~~	+	[[Category: Harden BJ]]
-	~~[[Category: Holo]]~~	+
-	~~[[Category: Ligase]]~~	+
-	~~[[Category: Nonribosomal peptide synthetase]]~~	+
-	~~[[Category: Yersiniabactin~~]]	+

OCA at 15:41, 8 June 2021

OCA — Tue, 08 Jun 2021 15:41:02 GMT

←Older revision		Revision as of 15:41, 8 June 2021
Line 1:		Line 1:

	==Solution structure of holo ArCP from yersiniabactin synthetase==		==Solution structure of holo ArCP from yersiniabactin synthetase==
-	<StructureSection load='2n6y' size='340' side='right' caption='[[2n6y]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='2n6y' size='340' side='right'caption='[[2n6y]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2n6y]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_pestis"_(lehmann_and_neumann_1896)_migula_1900 "bacillus pestis" (lehmann and neumann 1896) migula 1900]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N6Y OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2N6Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2n6y]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_pestis"_(lehmann_and_neumann_1896)_migula_1900 "bacillus pestis" (lehmann and neumann 1896) migula 1900]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N6Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2N6Y FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4HH:O-[(S)-HYDROXY{[(3R)-3-HYDROXY-2,2-DIMETHYL-4-OXO-4-({3-OXO-3-[(2-SULFANYLETHYL)AMINO]PROPYL}AMINO)BUTYL]OXY}PHOSPHORYL]-L-SERINE'>4HH</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4HH:O-[(S)-HYDROXY{[(3R)-3-HYDROXY-2,2-DIMETHYL-4-OXO-4-({3-OXO-3-[(2-SULFANYLETHYL)AMINO]PROPYL}AMINO)BUTYL]OXY}PHOSPHORYL]-L-SERINE'>4HH</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2n6z\|2n6z]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2n6z\|2n6z]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">irp2, y2399, YPO1911 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=632 "Bacillus pestis" (Lehmann and Neumann 1896) Migula 1900])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">irp2, y2399, YPO1911 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=632 "Bacillus pestis" (Lehmann and Neumann 1896) Migula 1900])</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=2n6y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n6y OCA], [~~http~~://pdbe.org/2n6y PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2n6y RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2n6y PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2n6y 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=2n6y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n6y OCA], [https://pdbe.org/2n6y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2n6y RCSB], [https://www.ebi.ac.uk/pdbsum/2n6y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2n6y ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Frueh, D P]]		[[Category: Frueh, D P]]
	[[Category: Goodrich, A C]]		[[Category: Goodrich, A C]]

OCA at 15:04, 16 November 2017

OCA — Thu, 16 Nov 2017 15:04:22 GMT

←Older revision		Revision as of 15:04, 16 November 2017
Line 1:		Line 1:
		+
	==Solution structure of holo ArCP from yersiniabactin synthetase==		==Solution structure of holo ArCP from yersiniabactin synthetase==
	<StructureSection load='2n6y' size='340' side='right' caption='[[2n6y]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2n6y' size='340' side='right' caption='[[2n6y]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2n6y]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N6Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2N6Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2n6y]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_pestis"_(lehmann_and_neumann_1896)_migula_1900 "bacillus pestis" (lehmann and neumann 1896) migula 1900]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N6Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2N6Y FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4HH:O-[(S)-HYDROXY{[(3R)-3-HYDROXY-2,2-DIMETHYL-4-OXO-4-({3-OXO-3-[(2-SULFANYLETHYL)AMINO]PROPYL}AMINO)BUTYL]OXY}PHOSPHORYL]-L-SERINE'>4HH</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4HH:O-[(S)-HYDROXY{[(3R)-3-HYDROXY-2,2-DIMETHYL-4-OXO-4-({3-OXO-3-[(2-SULFANYLETHYL)AMINO]PROPYL}AMINO)BUTYL]OXY}PHOSPHORYL]-L-SERINE'>4HH</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2n6z\|2n6z]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2n6z\|2n6z]]</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=2n6y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n6y OCA], [http://pdbe.org/2n6y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2n6y RCSB], [http://www.ebi.ac.uk/pdbsum/2n6y PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">irp2, y2399, YPO1911 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=632 "Bacillus pestis" (Lehmann and Neumann 1896) Migula 1900])</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=2n6y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n6y OCA], [http://pdbe.org/2n6y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2n6y RCSB], [http://www.ebi.ac.uk/pdbsum/2n6y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2n6y ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:31, 30 September 2015

OCA — Wed, 30 Sep 2015 06:31:28 GMT

←Older revision		Revision as of 06:31, 30 September 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Solution structure of holo ArCP from yersiniabactin synthetase==
		+	<StructureSection load='2n6y' size='340' side='right' caption='[[2n6y]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2n6y]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2N6Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2N6Y FirstGlance]. <br>
		+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=4HH:O-[(S)-HYDROXY{[(3R)-3-HYDROXY-2,2-DIMETHYL-4-OXO-4-({3-OXO-3-[(2-SULFANYLETHYL)AMINO]PROPYL}AMINO)BUTYL]OXY}PHOSPHORYL]-L-SERINE'>4HH</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2n6z\|2n6z]]</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=2n6y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2n6y OCA], [http://pdbe.org/2n6y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2n6y RCSB], [http://www.ebi.ac.uk/pdbsum/2n6y PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Nonribosomal peptide synthetases (NRPSs) are microbial enzymes that produce a wealth of important natural products by condensing substrates in an assembly line manner. The proper sequence of substrates is obtained by tethering them to phosphopantetheinyl arms of holo carrier proteins (CPs) via a thioester bond. CPs in holo and substrate-loaded forms visit NRPS catalytic domains in a series of transient interactions. A lack of structural information on substrate-loaded carrier proteins has hindered our understanding of NRPS synthesis. Here, we present the first structure of an NRPS aryl carrier protein loaded with its substrate via a native thioester bond, together with the structure of its holo form. We also present the first quantification of NRPS CP backbone dynamics. Our results indicate that prosthetic moieties in both holo and loaded forms are in contact with the protein core, but they also sample states in which they are disordered and extend in solution. We observe that substrate loading induces a large conformational change in the phosphopantetheinyl arm, thereby modulating surfaces accessible for binding to other domains. Our results are discussed in the context of NRPS domain interactions.

-	~~The entry 2n6y is ON HOLD~~	+	Solution Structure of a Nonribosomal Peptide Synthetase Carrier Protein Loaded with Its Substrate Reveals Transient, Well-Defined Contacts.,Goodrich AC, Harden BJ, Frueh DP J Am Chem Soc. 2015 Sep 23;137(37):12100-9. doi: 10.1021/jacs.5b07772. Epub 2015 , Sep 15. PMID:26334259<ref>PMID:26334259</ref>

-	~~Authors: Goodrich~~, A.C.~~, Harden, B.J., Frueh, D.P~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Solution structure of holo ArCP from yersiniabactin synthetase~~	+	<div class="pdbe-citations 2n6y" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: Goodrich, A.C]]	+	<references/>
-	[[Category: Harden, B.J]]	+	__TOC__
-	[[Category: ~~Frueh, D.P~~]]	+	</StructureSection>
		+	[[Category: Frueh, D P]]
		+	[[Category: Goodrich, A C]]
		+	[[Category: Harden, B J]]
		+	[[Category: Carrier protein]]
		+	[[Category: Holo]]
		+	[[Category: Ligase]]
		+	[[Category: Nonribosomal peptide synthetase]]
		+	[[Category: Yersiniabactin]]

OCA: Protected "2n6y" [edit=sysop:move=sysop]

OCA — Wed, 09 Sep 2015 05:25:24 GMT

Protected "2n6y" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:25, 9 September 2015

OCA: New page: '''Unreleased structure''' The entry 2n6y is ON HOLD Authors: Goodrich, A.C., Harden, B.J., Frueh, D.P. Description: Solution structure of holo ArCP from yersiniabactin synthetase [[Ca...

OCA — Wed, 09 Sep 2015 05:25:21 GMT

New page: '''Unreleased structure''' The entry 2n6y is ON HOLD Authors: Goodrich, A.C., Harden, B.J., Frueh, D.P. Description: Solution structure of holo ArCP from yersiniabactin synthetase [[Ca...

New page

'''Unreleased structure'''

The entry 2n6y is ON HOLD

Authors: Goodrich, A.C., Harden, B.J., Frueh, D.P.

Description: Solution structure of holo ArCP from yersiniabactin synthetase
[[Category: Unreleased Structures]]
[[Category: Goodrich, A.C]]
[[Category: Harden, B.J]]
[[Category: Frueh, D.P]]