4y31 - Revision history

OCA at 10:52, 10 January 2024

2024-01-10T10:52:07Z

←Older revision		Revision as of 10:52, 10 January 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4y31]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lupinus_luteus Lupinus luteus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y31 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Y31 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4y31]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lupinus_luteus Lupinus luteus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y31 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Y31 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene></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]] 1.32Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</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=4y31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y31 OCA], [https://pdbe.org/4y31 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4y31 RCSB], [https://www.ebi.ac.uk/pdbsum/4y31 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4y31 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=4y31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y31 OCA], [https://pdbe.org/4y31 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4y31 RCSB], [https://www.ebi.ac.uk/pdbsum/4y31 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4y31 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 18:04, 26 April 2023

2023-04-26T18:04:25Z

←Older revision		Revision as of 18:04, 26 April 2023
Line 3:		Line 3:
	<StructureSection load='4y31' size='340' side='right'caption='[[4y31]], [[Resolution\|resolution]] 1.32Å' scene=''>		<StructureSection load='4y31' size='340' side='right'caption='[[4y31]], [[Resolution\|resolution]] 1.32Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4y31]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~European_yellow_lupine European yellow lupine~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y31 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4Y31 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4y31]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lupinus_luteus Lupinus luteus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y31 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Y31 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bv1\|1bv1]], [[1fm4\|1fm4]], [[1icx\|1icx]], [[1ifv\|1ifv]], [[1xdf\|1xdf]], [[2flh\|2flh]], [[2qim\|2qim]], [[3e85\|3e85]], [[4q0k\|4q0k]], [[4a80\|4a80]], [[4a81\|4a81]], [[3ie5\|3ie5]], [[4a83\|4a83]], [[4a85\|4a85]], [[4a86\|4a86]], [[4a87\|4a87]], [[4a8u\|4a8u]], [[4a8v\|4a8v]], [[4gy9\|4gy9]], [[4jhg\|4jhg]], [[4psb\|4psb]], [[4jhh\|4jhh]], [[4jhi\|4jhi]], [[4n3e\|4n3e]], [[4ryv\|4ryv]]</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=4y31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y31 OCA], [https://pdbe.org/4y31 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4y31 RCSB], [https://www.ebi.ac.uk/pdbsum/4y31 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4y31 ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LLR18A ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3873 European yellow lupine])</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=4y31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y31 OCA], [~~http~~://pdbe.org/4y31 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4y31 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4y31 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4y31 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/L18A_LUPLU L18A_LUPLU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: European yellow lupine]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Jaskolski, M~~]]	+	[[Category: Lupinus luteus]]
-	[[Category: ~~Michalska, K]]~~	+	[[Category: Jaskolski M]]
-	~~[[Category: Sikorski, M~~ M]]	+	[[Category: Michalska K]]
-	[[Category: ~~Sliwiak, J~~]]	+	[[Category: Sikorski MM]]
-	[[Category: ~~Cytokinin~~]]	+	[[Category: Sliwiak J]]
-	[[Category: ~~Ligand binding]]~~	+
-	~~[[Category: Phytohormone binding protein]]~~	+
-	~~[[Category: Plant protein]]~~	+
-	~~[[Category: Pr-10 fold]]~~	+
-	~~[[Category: Trans-zeatin~~]]	+

OCA at 05:55, 12 June 2019

2019-06-12T05:55:05Z

←Older revision		Revision as of 05:55, 12 June 2019
Line 24:		Line 24:
	[[Category: European yellow lupine]]		[[Category: European yellow lupine]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~JASKOLSKI~~, M]]	+	[[Category: Jaskolski, M]]
-	[[Category: ~~MICHALSKA~~, K]]	+	[[Category: Michalska, K]]
-	[[Category: ~~SIKORSKI~~, M M]]	+	[[Category: Sikorski, M M]]
-	[[Category: ~~SLIWIAK~~, J]]	+	[[Category: Sliwiak, J]]
	[[Category: Cytokinin]]		[[Category: Cytokinin]]
	[[Category: Ligand binding]]		[[Category: Ligand binding]]

OCA at 00:01, 6 June 2019

2019-06-06T00:01:31Z

←Older revision		Revision as of 00:01, 6 June 2019
Line 1:		Line 1:
		+
	==Crystal structure of yellow lupine LlPR-10.1A protein in ligand-free form==		==Crystal structure of yellow lupine LlPR-10.1A protein in ligand-free form==
-	<StructureSection load='4y31' size='340' side='right' caption='[[4y31]], [[Resolution\|resolution]] 1.32Å' scene=''>	+	<StructureSection load='4y31' size='340' side='right'caption='[[4y31]], [[Resolution\|resolution]] 1.32Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4y31]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y31 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Y31 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4y31]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/European_yellow_lupine European yellow lupine]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y31 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Y31 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bv1\|1bv1]], [[1fm4\|1fm4]], [[1icx\|1icx]], [[1ifv\|1ifv]], [[1xdf\|1xdf]], [[2flh\|2flh]], [[2qim\|2qim]], [[3e85\|3e85]], [[4q0k\|4q0k]], [[4a80\|4a80]], [[4a81\|4a81]], [[3ie5\|3ie5]], [[4a83\|4a83]], [[4a85\|4a85]], [[4a86\|4a86]], [[4a87\|4a87]], [[4a8u\|4a8u]], [[4a8v\|4a8v]], [[4gy9\|4gy9]], [[4jhg\|4jhg]], [[4psb\|4psb]], [[4jhh\|4jhh]], [[4jhi\|4jhi]], [[4n3e\|4n3e]], [[4ryv\|4ryv]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bv1\|1bv1]], [[1fm4\|1fm4]], [[1icx\|1icx]], [[1ifv\|1ifv]], [[1xdf\|1xdf]], [[2flh\|2flh]], [[2qim\|2qim]], [[3e85\|3e85]], [[4q0k\|4q0k]], [[4a80\|4a80]], [[4a81\|4a81]], [[3ie5\|3ie5]], [[4a83\|4a83]], [[4a85\|4a85]], [[4a86\|4a86]], [[4a87\|4a87]], [[4a8u\|4a8u]], [[4a8v\|4a8v]], [[4gy9\|4gy9]], [[4jhg\|4jhg]], [[4psb\|4psb]], [[4jhh\|4jhh]], [[4jhi\|4jhi]], [[4n3e\|4n3e]], [[4ryv\|4ryv]]</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=4y31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y31 OCA], [http://pdbe.org/4y31 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y31 RCSB], [http://www.ebi.ac.uk/pdbsum/4y31 PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LLR18A ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3873 European yellow lupine])</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=4y31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y31 OCA], [http://pdbe.org/4y31 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y31 RCSB], [http://www.ebi.ac.uk/pdbsum/4y31 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4y31 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: European yellow lupine]]
		+	[[Category: Large Structures]]
	[[Category: JASKOLSKI, M]]		[[Category: JASKOLSKI, M]]
	[[Category: MICHALSKA, K]]		[[Category: MICHALSKA, K]]

OCA at 06:26, 23 December 2015

2015-12-23T06:26:01Z

←Older revision		Revision as of 06:26, 23 December 2015
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=4y31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y31 OCA], [http://pdbe.org/4y31 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y31 RCSB], [http://www.ebi.ac.uk/pdbsum/4y31 PDBsum]</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=4y31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y31 OCA], [http://pdbe.org/4y31 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y31 RCSB], [http://www.ebi.ac.uk/pdbsum/4y31 PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Plant pathogenesis-related class 10 (PR-10) proteins are a family of abundant proteins initially identified as elements of the plant defense system. The key structural feature suggesting PR-10 functionality is a huge hydrophobic cavity created in the protein interior by a scaffold composed of an extended beta-sheet wrapped around a long and flexible C-terminal alpha-helix. Several crystallographic and NMR studies have shown that the cavity can accommodate a variety of small molecule ligands, including phytohormones. The article describes approximately 1.3A resolution crystal structures of a Lupinus luteus PR-10 isoform LlPR-10.1A, in its free form and in complex with trans-zeatin, a naturally occurring plant hormone belonging to the cytokinin group. Moreover we present the structure of the same protein where the saturation with zeatin is not complete. This set of three crystal structures allows us to track the structural adaptation of the protein upon trans-zeatin docking, as well as the sequence of the ligand-binding events, step-by-step. In addition, titration of LlPR-10.1A with trans-zeatin monitored in solution by CD spectra, confirmed the pattern of structural adaptations deduced from the crystallographic studies. The ligand-biding mode shows no similarity to other zeatin complexes of PR-10 proteins. The present work, which describes the first atomic models of the same PR-10 protein with and without a physiological ligand, reveals that the conformation of LlPR-10.1A undergoes a significant structural rearrangement upon trans-zeatin binding.
		+
		+	Crystallographic and CD probing of ligand-induced conformational changes in a plant PR-10 protein.,Sliwiak J, Dolot R, Michalska K, Szpotkowski K, Bujacz G, Sikorski M, Jaskolski M J Struct Biol. 2015 Nov 28. pii: S1047-8477(15)30105-2. doi:, 10.1016/j.jsb.2015.11.008. PMID:26644353<ref>PMID:26644353</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4y31" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 13:47, 9 December 2015

2015-12-09T13:47:01Z

←Older revision		Revision as of 13:47, 9 December 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==Crystal structure of yellow lupine LlPR-10.1A protein in ligand-free form==
-		+	<StructureSection load='4y31' size='340' side='right' caption='[[4y31]], [[Resolution\|resolution]] 1.32Å' scene=''>
-	~~The entry~~ 4y31 is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4y31]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y31 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Y31 FirstGlance]. <br>
-	~~Authors~~: ~~SLIWIAK~~, J., ~~MICHALSKA~~, K., ~~SIKORSKI~~, ~~M.M.~~, ~~JASKOLSKI~~, M.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1bv1\|1bv1]], [[1fm4\|1fm4]], [[1icx\|1icx]], [[1ifv\|1ifv]], [[1xdf\|1xdf]], [[2flh\|2flh]], [[2qim\|2qim]], [[3e85\|3e85]], [[4q0k\|4q0k]], [[4a80\|4a80]], [[4a81\|4a81]], [[3ie5\|3ie5]], [[4a83\|4a83]], [[4a85\|4a85]], [[4a86\|4a86]], [[4a87\|4a87]], [[4a8u\|4a8u]], [[4a8v\|4a8v]], [[4gy9\|4gy9]], [[4jhg\|4jhg]], [[4psb\|4psb]], [[4jhh\|4jhh]], [[4jhi\|4jhi]], [[4n3e\|4n3e]], [[4ryv\|4ryv]]</td></tr>
-	~~Description~~: ~~Crystal structure of the ligand~~-~~free LLPR~~-10.~~1A protein from yellow lupin~~.	+	<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=4y31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y31 OCA], [http://pdbe.org/4y31 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y31 RCSB], [http://www.ebi.ac.uk/pdbsum/4y31 PDBsum]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
-	[[Category: ~~Michalska~~, K]]	+	__TOC__
-	[[Category: ~~Sliwiak~~, J]]	+	</StructureSection>
-	[[Category: ~~Sikorski~~, ~~M.M~~]]	+	[[Category: JASKOLSKI, M]]
-	[[Category: ~~Jaskolski, M~~]]	+	[[Category: MICHALSKA, K]]
		+	[[Category: SIKORSKI, M M]]
		+	[[Category: SLIWIAK, J]]
		+	[[Category: Cytokinin]]
		+	[[Category: Ligand binding]]
		+	[[Category: Phytohormone binding protein]]
		+	[[Category: Plant protein]]
		+	[[Category: Pr-10 fold]]
		+	[[Category: Trans-zeatin]]

OCA at 12:05, 26 March 2015

2015-03-26T12:05:47Z

←Older revision		Revision as of 12:05, 26 March 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4y31 is ON HOLD	+	The entry 4y31 is ON HOLD until Paper Publication

	Authors: SLIWIAK, J., MICHALSKA, K., SIKORSKI, M.M., JASKOLSKI, M.		Authors: SLIWIAK, J., MICHALSKA, K., SIKORSKI, M.M., JASKOLSKI, M.

OCA: Protected "4y31" [edit=sysop:move=sysop]

2015-02-18T11:57:59Z

Protected "4y31" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:57, 18 February 2015

OCA: New page: '''Unreleased structure''' The entry 4y31 is ON HOLD Authors: SLIWIAK, J., MICHALSKA, K., SIKORSKI, M.M., JASKOLSKI, M. Description: Crystal structure of the ligand-free LLPR-10.1A pro...

2015-02-18T11:57:58Z

New page: '''Unreleased structure''' The entry 4y31 is ON HOLD Authors: SLIWIAK, J., MICHALSKA, K., SIKORSKI, M.M., JASKOLSKI, M. Description: Crystal structure of the ligand-free LLPR-10.1A pro...

New page

'''Unreleased structure'''

The entry 4y31 is ON HOLD

Authors: SLIWIAK, J., MICHALSKA, K., SIKORSKI, M.M., JASKOLSKI, M.

Description: Crystal structure of the ligand-free LLPR-10.1A protein from yellow lupin.
[[Category: Unreleased Structures]]
[[Category: Michalska, K]]
[[Category: Sliwiak, J]]
[[Category: Sikorski, M.M]]
[[Category: Jaskolski, M]]