5a4u - Revision history

OCA at 11:03, 10 January 2024

2024-01-10T11:03:53Z

←Older revision		Revision as of 11:03, 10 January 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5a4u]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A4U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5A4U FirstGlance]. <br>		<table><tr><td colspan='2'>[[5a4u]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A4U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5A4U 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>, <scene name='pdbligand=I3A:1H-INDOLE-3-CARBALDEHYDE'>I3A</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]] 2Å</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>, <scene name='pdbligand=I3A:1H-INDOLE-3-CARBALDEHYDE'>I3A</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=5a4u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a4u OCA], [https://pdbe.org/5a4u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5a4u RCSB], [https://www.ebi.ac.uk/pdbsum/5a4u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5a4u 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=5a4u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a4u OCA], [https://pdbe.org/5a4u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5a4u RCSB], [https://www.ebi.ac.uk/pdbsum/5a4u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5a4u ProSAT]</span></td></tr>
	</table>		</table>

OCA at 04:39, 25 May 2023

2023-05-25T04:39:28Z

←Older revision		Revision as of 04:39, 25 May 2023
Line 3:		Line 3:
	<StructureSection load='5a4u' size='340' side='right'caption='[[5a4u]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5a4u' size='340' side='right'caption='[[5a4u]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5a4u]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Arath Arath~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A4U OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5A4U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5a4u]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A4U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5A4U 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>, <scene name='pdbligand=I3A:1H-INDOLE-3-CARBALDEHYDE'>I3A</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>, <scene name='pdbligand=I3A:1H-INDOLE-3-CARBALDEHYDE'>I3A</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5a4v\|5a4v]], [[5a4w\|5a4w]]</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=5a4u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a4u OCA], [https://pdbe.org/5a4u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5a4u RCSB], [https://www.ebi.ac.uk/pdbsum/5a4u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5a4u ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutathione_transferase Glutathione transferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.18 2.5.1.18] </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=5a4u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a4u OCA], [~~http~~://pdbe.org/5a4u PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5a4u RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5a4u PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5a4u ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/GSTF2_ARATH GSTF2_ARATH]] Binds auxin, endogenous flavonoids and the phytoalexin camalexin and may be involved in regulating the binding and transport of small bioactive natural products and defense-related compounds during plant stress. Binds a series of heterocyclic compounds, including lumichrome, harmane, norharmane and indole-3-aldehyde. In vitro, possesses glutathione S-transferase activity toward 1-chloro-2,4-dinitrobenzene (CDNB) and benzyl isothiocyanate (BITC). Acts as glutathione peroxidase on cumene hydroperoxide, linoleic acid-13-hydroperoxide and trans-stilbene oxide, but not trans-cinnamic acid or IAA-CoA.<ref>PMID:12090627</ref> <ref>PMID:21631432</ref>	+	[https://www.uniprot.org/uniprot/GSTF2_ARATH GSTF2_ARATH] Binds auxin, endogenous flavonoids and the phytoalexin camalexin and may be involved in regulating the binding and transport of small bioactive natural products and defense-related compounds during plant stress. Binds a series of heterocyclic compounds, including lumichrome, harmane, norharmane and indole-3-aldehyde. In vitro, possesses glutathione S-transferase activity toward 1-chloro-2,4-dinitrobenzene (CDNB) and benzyl isothiocyanate (BITC). Acts as glutathione peroxidase on cumene hydroperoxide, linoleic acid-13-hydroperoxide and trans-stilbene oxide, but not trans-cinnamic acid or IAA-CoA.<ref>PMID:12090627</ref> <ref>PMID:21631432</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 20:

	==See Also==		==See Also==
-	*[[Glutathione S-transferase\|Glutathione S-transferase]]	+	*[[Glutathione S-transferase 3D structures\|Glutathione S-transferase 3D structures]]
-	*[[Journal:FEBS Open Bio:2\|Journal:FEBS Open Bio:2]]	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Arath]]~~	+	[[Category: Arabidopsis thaliana]]
-	~~[[Category: Glutathione transferase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Ahmad, L]]	+	[[Category: Ahmad L]]
-	[[Category: Bruce~~, N C~~]]	+	[[Category: Bruce NC]]
-	[[Category: Edwards, R]]	+	[[Category: Edwards R]]
-	[[Category: Grogan, G]]	+	[[Category: Grogan G]]
-	[[Category: Rylott, E]]	+	[[Category: Rylott E]]
-	~~[[Category: Arabidopsis]]~~	+
-	~~[[Category: Glutathione-s-transferase]]~~	+
-	~~[[Category: Gst]]~~	+
-	~~[[Category: Plant]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 08:34, 26 June 2019

2019-06-26T08:34:56Z

←Older revision		Revision as of 08:34, 26 June 2019
Line 1:		Line 1:

	==AtGSTF2 from Arabidopsis thaliana in complex with indole-3-aldehyde==		==AtGSTF2 from Arabidopsis thaliana in complex with indole-3-aldehyde==
-	<StructureSection load='5a4u' size='340' side='right' caption='[[5a4u]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='5a4u' size='340' side='right'caption='[[5a4u]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5a4u]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A4U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5A4U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5a4u]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Arath Arath]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A4U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5A4U 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>, <scene name='pdbligand=I3A:1H-INDOLE-3-CARBALDEHYDE'>I3A</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>, <scene name='pdbligand=I3A:1H-INDOLE-3-CARBALDEHYDE'>I3A</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5a4v\|5a4v]], [[5a4w\|5a4w]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5a4v\|5a4v]], [[5a4w\|5a4w]]</td></tr>
Line 20:		Line 20:
	</div>		</div>
	<div class="pdbe-citations 5a4u" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5a4u" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Glutathione S-transferase\|Glutathione S-transferase]]
		+	*[[Journal:FEBS Open Bio:2\|Journal:FEBS Open Bio:2]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Arath]]
	[[Category: Glutathione transferase]]		[[Category: Glutathione transferase]]
		+	[[Category: Large Structures]]
	[[Category: Ahmad, L]]		[[Category: Ahmad, L]]
	[[Category: Bruce, N C]]		[[Category: Bruce, N C]]

OCA at 07:57, 9 March 2017

2017-03-09T07:57:11Z

←Older revision		Revision as of 07:57, 9 March 2017
Line 11:		Line 11:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/GSTF2_ARATH GSTF2_ARATH]] Binds auxin, endogenous flavonoids and the phytoalexin camalexin and may be involved in regulating the binding and transport of small bioactive natural products and defense-related compounds during plant stress. Binds a series of heterocyclic compounds, including lumichrome, harmane, norharmane and indole-3-aldehyde. In vitro, possesses glutathione S-transferase activity toward 1-chloro-2,4-dinitrobenzene (CDNB) and benzyl isothiocyanate (BITC). Acts as glutathione peroxidase on cumene hydroperoxide, linoleic acid-13-hydroperoxide and trans-stilbene oxide, but not trans-cinnamic acid or IAA-CoA.<ref>PMID:12090627</ref> <ref>PMID:21631432</ref>		[[http://www.uniprot.org/uniprot/GSTF2_ARATH GSTF2_ARATH]] Binds auxin, endogenous flavonoids and the phytoalexin camalexin and may be involved in regulating the binding and transport of small bioactive natural products and defense-related compounds during plant stress. Binds a series of heterocyclic compounds, including lumichrome, harmane, norharmane and indole-3-aldehyde. In vitro, possesses glutathione S-transferase activity toward 1-chloro-2,4-dinitrobenzene (CDNB) and benzyl isothiocyanate (BITC). Acts as glutathione peroxidase on cumene hydroperoxide, linoleic acid-13-hydroperoxide and trans-stilbene oxide, but not trans-cinnamic acid or IAA-CoA.<ref>PMID:12090627</ref> <ref>PMID:21631432</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Glutathione transferases (GSTs) are involved in many processes in plant biochemistry, with their best characterised role being the detoxification of xenobiotics through their conjugation with glutathione. GSTs have also been implicated in noncatalytic roles, including the binding and transport of small heterocyclic ligands such as indole hormones, phytoalexins and flavonoids. Although evidence for ligand binding and transport has been obtained using gene deletions and ligand binding studies on purified GSTs, there has been no structural evidence for the binding of relevant ligands in noncatalytic sites. Here we provide evidence of noncatalytic ligand-binding sites in the phi class GST from the model plant Arabidopsis thaliana, AtGSTF2, revealed by X-ray crystallography. Complexes of the AtGSTF2 dimer were obtained with indole-3-aldehyde, camalexin, the flavonoid quercetrin and its non-rhamnosylated analogue quercetin, at resolutions of 2.00, 2.77, 2.25 and 2.38 A respectively. Two symmetry-equivalent-binding sites (L1) were identified at the periphery of the dimer, and one more (L2) at the dimer interface. In the complexes, indole-3-aldehyde and quercetrin were found at both L1 and L2 sites, but camalexin was found only at the L1 sites and quercetin only at the L2 site. Ligand binding at each site appeared to be largely determined through hydrophobic interactions. The crystallographic studies support previous conclusions made on ligand binding in noncatalytic sites by AtGSTF2 based on isothermal calorimetry experiments (Dixon et al. (2011) Biochem J438, 63-70) and suggest a mode of ligand binding in GSTs commensurate with a possible role in ligand transport.
		+
		+	Structural evidence for Arabidopsis glutathione transferase AtGSTF2 functioning as a transporter of small organic ligands.,Ahmad L, Rylott EL, Bruce NC, Edwards R, Grogan G FEBS Open Bio. 2016 Dec 22;7(2):122-132. doi: 10.1002/2211-5463.12168., eCollection 2017 Feb. PMID:28174680<ref>PMID:28174680</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5a4u" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:16, 13 July 2016

2016-07-13T10:16:40Z

←Older revision		Revision as of 10:16, 13 July 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5a4u is ~~ON HOLD until Paper Publication~~	+	==AtGSTF2 from Arabidopsis thaliana in complex with indole-3-aldehyde==
-		+	<StructureSection load='5a4u' size='340' side='right' caption='[[5a4u]], [[Resolution\|resolution]] 2.00Å' scene=''>
-	~~Authors~~: ~~Ahmad~~, L., ~~Rylott~~, E., ~~Bruce~~, N.C., ~~Edwards, R~~., ~~Grogan, G~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5a4u]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5A4U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5A4U FirstGlance]. <br>
-	~~Description~~: ~~AtGSTF2 from Arabidopsis thaliana~~ in ~~complex with~~ indole-3-aldehyde	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=I3A:1H-INDOLE-3-CARBALDEHYDE'>I3A</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5a4v\|5a4v]], [[5a4w\|5a4w]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutathione_transferase Glutathione transferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.18 2.5.1.18] </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=5a4u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5a4u OCA], [http://pdbe.org/5a4u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5a4u RCSB], [http://www.ebi.ac.uk/pdbsum/5a4u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5a4u ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/GSTF2_ARATH GSTF2_ARATH]] Binds auxin, endogenous flavonoids and the phytoalexin camalexin and may be involved in regulating the binding and transport of small bioactive natural products and defense-related compounds during plant stress. Binds a series of heterocyclic compounds, including lumichrome, harmane, norharmane and indole-3-aldehyde. In vitro, possesses glutathione S-transferase activity toward 1-chloro-2,4-dinitrobenzene (CDNB) and benzyl isothiocyanate (BITC). Acts as glutathione peroxidase on cumene hydroperoxide, linoleic acid-13-hydroperoxide and trans-stilbene oxide, but not trans-cinnamic acid or IAA-CoA.<ref>PMID:12090627</ref> <ref>PMID:21631432</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Glutathione transferase]]
	[[Category: Ahmad, L]]		[[Category: Ahmad, L]]
-	[[Category: Bruce, N.C]]	+	[[Category: Bruce, N C]]
	[[Category: Edwards, R]]		[[Category: Edwards, R]]
		+	[[Category: Grogan, G]]
	[[Category: Rylott, E]]		[[Category: Rylott, E]]
-	[[Category: ~~Grogan, G~~]]	+	[[Category: Arabidopsis]]
		+	[[Category: Glutathione-s-transferase]]
		+	[[Category: Gst]]
		+	[[Category: Plant]]
		+	[[Category: Transferase]]

OCA at 00:20, 1 December 2015

2015-12-01T00:20:04Z

←Older revision		Revision as of 00:20, 1 December 2015
Line 7:		Line 7:
	Description: AtGSTF2 from Arabidopsis thaliana in complex with indole-3-aldehyde		Description: AtGSTF2 from Arabidopsis thaliana in complex with indole-3-aldehyde
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Ahmad, L]]
	[[Category: Bruce, N.C]]		[[Category: Bruce, N.C]]
	[[Category: Edwards, R]]		[[Category: Edwards, R]]
-	[[Category: Ahmad, L]]
	[[Category: Rylott, E]]		[[Category: Rylott, E]]
	[[Category: Grogan, G]]		[[Category: Grogan, G]]

OCA: Protected "5a4u" [edit=sysop:move=sysop]

2015-06-24T11:17:46Z

Protected "5a4u" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:17, 24 June 2015

OCA: New page: '''Unreleased structure''' The entry 5a4u is ON HOLD until Paper Publication Authors: Ahmad, L., Rylott, E., Bruce, N.C., Edwards, R., Grogan, G. Description: AtGSTF2 from Arabidopsis ...

2015-06-24T11:17:45Z

New page: '''Unreleased structure''' The entry 5a4u is ON HOLD until Paper Publication Authors: Ahmad, L., Rylott, E., Bruce, N.C., Edwards, R., Grogan, G. Description: AtGSTF2 from Arabidopsis ...

New page

'''Unreleased structure'''

The entry 5a4u is ON HOLD until Paper Publication

Authors: Ahmad, L., Rylott, E., Bruce, N.C., Edwards, R., Grogan, G.

Description: AtGSTF2 from Arabidopsis thaliana in complex with indole-3-aldehyde
[[Category: Unreleased Structures]]
[[Category: Bruce, N.C]]
[[Category: Edwards, R]]
[[Category: Ahmad, L]]
[[Category: Rylott, E]]
[[Category: Grogan, G]]