7kz9 - Revision history

OCA at 15:34, 18 October 2023

OCA — Wed, 18 Oct 2023 15:34:59 GMT

←Older revision		Revision as of 15:34, 18 October 2023
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	==Crystal structure of Pseudomonas sp. PDC86 substrate-binding protein Aapf in complex with a signaling molecule HEHEAA==		==Crystal structure of Pseudomonas sp. PDC86 substrate-binding protein Aapf in complex with a signaling molecule HEHEAA==
-	<StructureSection load='7kz9' size='340' side='right'caption='[[7kz9]]' scene=''>	+	<StructureSection load='7kz9' size='340' side='right'caption='[[7kz9]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KZ9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KZ9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7kz9]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_sp._PDC86 Pseudomonas sp. PDC86]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KZ9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KZ9 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=7kz9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7kz9 OCA], [https://pdbe.org/7kz9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7kz9 RCSB], [https://www.ebi.ac.uk/pdbsum/7kz9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7kz9 ProSAT]</span></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.9Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=XN7:N,N~2~-bis(2-hydroxyethyl)glycinamide'>XN7</scene></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=7kz9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7kz9 OCA], [https://pdbe.org/7kz9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7kz9 RCSB], [https://www.ebi.ac.uk/pdbsum/7kz9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7kz9 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A number of plant-associated proteobacteria have LuxR family transcription factors that we refer to as PipR subfamily members. PipR proteins play roles in interactions between bacteria and their plant hosts, and some are important for bacterial virulence of plants. We identified an ethanolamine derivative, N-(2-hydroxyethyl)-2-(2-hydroxyethylamino) acetamide (HEHEAA), as a potent effector of PipR-mediated gene regulation in the plant endophyte Pseudomonas GM79. HEHEAA-dependent PipR activity requires an ATP-binding cassette-type active transport system, and the periplasmic substrate-binding protein (SBP) of that system binds HEHEAA. To begin to understand the molecular basis of PipR system responses to plant factors we crystallized a HEHEAA-responsive SBP in the free- and HEHEAA-bound forms. The SBP, which is similar to peptide-binding SBPs, was in a closed conformation. A narrow cavity at the interface of its two lobes is wide enough to bind HEHEAA, but it cannot accommodate peptides with side chains. The polar atoms of HEHEAA are recognized by hydrogen-bonding interactions, and additional SBP residues contribute to the binding site. This binding mode was confirmed by a structure-based mutational analysis. We also show that a closely related SBP from the plant pathogen Pseudomonas syringae pv tomato DC3000 does not recognize HEHEAA. However, a single amino acid substitution in the presumed effector-binding pocket of the P. syringae SBP converted it to a weak HEHEAA-binding protein. The P. syringae PipR depends on a plant effector for activity, and our findings imply that different PipR-associated SBPs bind different effectors.
		+
		+	Structural basis for a bacterial Pip system plant effector recognition protein.,Luo S, Coutinho BG, Dadhwal P, Oda Y, Ren J, Schaefer AL, Greenberg EP, Harwood CS, Tong L Proc Natl Acad Sci U S A. 2021 Mar 9;118(10). pii: 2019462118. doi:, 10.1073/pnas.2019462118. PMID:33649224<ref>PMID:33649224</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7kz9" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Pseudomonas sp. PDC86]]
	[[Category: Dadhwal P]]		[[Category: Dadhwal P]]
	[[Category: Luo S]]		[[Category: Luo S]]
	[[Category: Tong L]]		[[Category: Tong L]]

OCA at 06:48, 17 March 2021

OCA — Wed, 17 Mar 2021 06:48:40 GMT

←Older revision		Revision as of 06:48, 17 March 2021
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-	'''Unreleased structure'''

-	~~The entry 7kz9 is ON HOLD until Paper Publication~~	+	==Crystal structure of Pseudomonas sp. PDC86 substrate-binding protein Aapf in complex with a signaling molecule HEHEAA==
-		+	<StructureSection load='7kz9' size='340' side='right'caption='[[7kz9]]' scene=''>
-	~~Authors: Luo, S., Dadhwal, P., Tong, L.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KZ9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KZ9 FirstGlance]. <br>
-	~~Description:~~ Crystal structure of Pseudomonas sp. PDC86 substrate-binding protein Aapf in complex with a signaling molecule HEHEAA	+	</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=7kz9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7kz9 OCA], [https://pdbe.org/7kz9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7kz9 RCSB], [https://www.ebi.ac.uk/pdbsum/7kz9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7kz9 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Tong, L~~]]	+	__TOC__
-	[[Category: Luo, S]]	+	</StructureSection>
-	[[Category: ~~Dadhwal, P~~]]	+	[[Category: Large Structures]]
		+	[[Category: Dadhwal P]]
		+	[[Category: Luo S]]
		+	[[Category: Tong L]]

OCA at 05:27, 30 December 2020

OCA — Wed, 30 Dec 2020 05:27:54 GMT

←Older revision		Revision as of 05:27, 30 December 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7kz9 is ON HOLD	+	The entry 7kz9 is ON HOLD until Paper Publication

	Authors: Luo, S., Dadhwal, P., Tong, L.		Authors: Luo, S., Dadhwal, P., Tong, L.

OCA: Protected "7kz9" [edit=sysop:move=sysop]

OCA — Wed, 16 Dec 2020 11:17:21 GMT

Protected "7kz9" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:17, 16 December 2020

OCA: New page: '''Unreleased structure''' The entry 7kz9 is ON HOLD Authors: Luo, S., Dadhwal, P., Tong, L. Description: Crystal structure of Pseudomonas sp. PDC86 substrate-binding protein Aapf in c...

OCA — Wed, 16 Dec 2020 11:17:20 GMT

New page: '''Unreleased structure''' The entry 7kz9 is ON HOLD Authors: Luo, S., Dadhwal, P., Tong, L. Description: Crystal structure of Pseudomonas sp. PDC86 substrate-binding protein Aapf in c...

New page

'''Unreleased structure'''

The entry 7kz9 is ON HOLD

Authors: Luo, S., Dadhwal, P., Tong, L.

Description: Crystal structure of Pseudomonas sp. PDC86 substrate-binding protein Aapf in complex with a signaling molecule HEHEAA
[[Category: Unreleased Structures]]
[[Category: Tong, L]]
[[Category: Luo, S]]
[[Category: Dadhwal, P]]