5kd6 - Revision history

OCA at 10:45, 27 September 2023

OCA — Wed, 27 Sep 2023 10:45:42 GMT

←Older revision		Revision as of 10:45, 27 September 2023
Line 3:		Line 3:
	<StructureSection load='5kd6' size='340' side='right'caption='[[5kd6]], [[Resolution\|resolution]] 1.84Å' scene=''>		<StructureSection load='5kd6' size='340' side='right'caption='[[5kd6]], [[Resolution\|resolution]] 1.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kd6]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Aspte Aspte~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KD6 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KD6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kd6]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_terreus Aspergillus terreus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KD6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KD6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DST:DIMETHYLALLYL+S-THIOLODIPHOSPHATE'>DST</scene>, <scene name='pdbligand=LBU:METHYL+(2S)-4-HYDROXY-3-(4-HYDROXYPHENYL)-2-[(4-HYDROXYPHENYL)METHYL]-5-OXO-2,5-DIHYDROFURAN-2-CARBOXYLATE'>LBU</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]] 1.84Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kcg\|5kcg]], [[5kcl\|5kcl]], [[5kcq\|5kcq]], [[5kcy\|5kcy]], [[5kd0\|5kd0]], [[5kda\|5kda]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DST:DIMETHYLALLYL+S-THIOLODIPHOSPHATE'>DST</scene>, <scene name='pdbligand=LBU:METHYL+(2S)-4-HYDROXY-3-(4-HYDROXYPHENYL)-2-[(4-HYDROXYPHENYL)METHYL]-5-OXO-2,5-DIHYDROFURAN-2-CARBOXYLATE'>LBU</scene></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=5kd6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kd6 OCA], [~~http~~://pdbe.org/5kd6 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kd6 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kd6 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kd6 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=5kd6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kd6 OCA], [https://pdbe.org/5kd6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kd6 RCSB], [https://www.ebi.ac.uk/pdbsum/5kd6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kd6 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A1B0UHJ4_ASPTE A0A1B0UHJ4_ASPTE]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aspte~~]]	+	[[Category: Aspergillus terreus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gao, B]]	+	[[Category: Gao B]]
-	[[Category: Sun, F]]	+	[[Category: Sun F]]
-	~~[[Category: Abba fold]]~~	+
-	~~[[Category: Substrate promiscuity]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 06:25, 16 October 2019

OCA — Wed, 16 Oct 2019 06:25:58 GMT

←Older revision		Revision as of 06:25, 16 October 2019
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	==Crystal structure of the aromatic prenyltransferase AtaPT from Aspergillus terreus A8-4 in complex with dimethylallyl S-thiolodiphosphate and (-)-butyrolactone II==		==Crystal structure of the aromatic prenyltransferase AtaPT from Aspergillus terreus A8-4 in complex with dimethylallyl S-thiolodiphosphate and (-)-butyrolactone II==
-	<StructureSection load='5kd6' size='340' side='right' caption='[[5kd6]], [[Resolution\|resolution]] 1.84Å' scene=''>	+	<StructureSection load='5kd6' size='340' side='right'caption='[[5kd6]], [[Resolution\|resolution]] 1.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5kd6]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspte Aspte]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KD6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KD6 FirstGlance]. <br>		<table><tr><td colspan='2'>[[5kd6]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspte Aspte]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KD6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KD6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~6C7~~:S-~~(3-METHYLBUT-2-EN-1-YL)+TRIHYDROGEN+THIODIPHOSPHATE~~'>~~6C7~~</scene>, <scene name='pdbligand=LBU:METHYL+(2S)-4-HYDROXY-3-(4-HYDROXYPHENYL)-2-[(4-HYDROXYPHENYL)METHYL]-5-OXO-2,5-DIHYDROFURAN-2-CARBOXYLATE'>LBU</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DST:DIMETHYLALLYL+S-THIOLODIPHOSPHATE'>DST</scene>, <scene name='pdbligand=LBU:METHYL+(2S)-4-HYDROXY-3-(4-HYDROXYPHENYL)-2-[(4-HYDROXYPHENYL)METHYL]-5-OXO-2,5-DIHYDROFURAN-2-CARBOXYLATE'>LBU</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kcg\|5kcg]], [[5kcl\|5kcl]], [[5kcq\|5kcq]], [[5kcy\|5kcy]], [[5kd0\|5kd0]], [[5kda\|5kda]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kcg\|5kcg]], [[5kcl\|5kcl]], [[5kcq\|5kcq]], [[5kcy\|5kcy]], [[5kd0\|5kd0]], [[5kda\|5kda]]</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=5kd6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kd6 OCA], [http://pdbe.org/5kd6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kd6 RCSB], [http://www.ebi.ac.uk/pdbsum/5kd6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kd6 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=5kd6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kd6 OCA], [http://pdbe.org/5kd6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kd6 RCSB], [http://www.ebi.ac.uk/pdbsum/5kd6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kd6 ProSAT]</span></td></tr>
Line 22:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Aspte]]		[[Category: Aspte]]
		+	[[Category: Large Structures]]
	[[Category: Gao, B]]		[[Category: Gao, B]]
	[[Category: Sun, F]]		[[Category: Sun, F]]

OCA at 08:05, 16 November 2017

OCA — Thu, 16 Nov 2017 08:05:46 GMT

←Older revision		Revision as of 08:05, 16 November 2017
Line 3:		Line 3:
	<StructureSection load='5kd6' size='340' side='right' caption='[[5kd6]], [[Resolution\|resolution]] 1.84Å' scene=''>		<StructureSection load='5kd6' size='340' side='right' caption='[[5kd6]], [[Resolution\|resolution]] 1.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kd6]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KD6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KD6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kd6]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspte Aspte]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KD6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KD6 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6C7:S-(3-METHYLBUT-2-EN-1-YL)+TRIHYDROGEN+THIODIPHOSPHATE'>6C7</scene>, <scene name='pdbligand=LBU:METHYL+(2S)-4-HYDROXY-3-(4-HYDROXYPHENYL)-2-[(4-HYDROXYPHENYL)METHYL]-5-OXO-2,5-DIHYDROFURAN-2-CARBOXYLATE'>LBU</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6C7:S-(3-METHYLBUT-2-EN-1-YL)+TRIHYDROGEN+THIODIPHOSPHATE'>6C7</scene>, <scene name='pdbligand=LBU:METHYL+(2S)-4-HYDROXY-3-(4-HYDROXYPHENYL)-2-[(4-HYDROXYPHENYL)METHYL]-5-OXO-2,5-DIHYDROFURAN-2-CARBOXYLATE'>LBU</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kcg\|5kcg]], [[5kcl\|5kcl]], [[5kcq\|5kcq]], [[5kcy\|5kcy]], [[5kd0\|5kd0]], [[5kda\|5kda]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kcg\|5kcg]], [[5kcl\|5kcl]], [[5kcq\|5kcq]], [[5kcy\|5kcy]], [[5kd0\|5kd0]], [[5kda\|5kda]]</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=5kd6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kd6 OCA], [http://pdbe.org/5kd6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kd6 RCSB], [http://www.ebi.ac.uk/pdbsum/5kd6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kd6 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=5kd6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kd6 OCA], [http://pdbe.org/5kd6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kd6 RCSB], [http://www.ebi.ac.uk/pdbsum/5kd6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kd6 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Aromatic prenyltransferases (aPTases) transfer prenyl moieties from isoprenoid donors to various aromatic acceptors, some of which have the rare property of extreme enzymatic promiscuity toward both a variety of prenyl donors and a large diversity of acceptors. In this study, we discovered a new aPTase, AtaPT, from Aspergillus terreus that exhibits unprecedented promiscuity toward diverse aromatic acceptors and prenyl donors and also yields products with a range of prenylation patterns. Systematic crystallographic studies revealed various discrete conformations for ligand binding with donor-dependent acceptor specificity and multiple binding sites within a spacious hydrophobic substrate-binding pocket. Further structure-guided mutagenesis of active sites at the substrate-binding pocket is responsible for altering the specificity and promiscuity toward substrates and the diversity of product prenylations. Our study reveals the molecular mechanism underlying the promiscuity of AtaPT and suggests an efficient protein engineering strategy to generate new prenylated derivatives in drug discovery applications.
		+
		+	Molecular insights into the enzyme promiscuity of an aromatic prenyltransferase.,Chen R, Gao B, Liu X, Ruan F, Zhang Y, Lou J, Feng K, Wunsch C, Li SM, Dai J, Sun F Nat Chem Biol. 2017 Feb;13(2):226-234. doi: 10.1038/nchembio.2263. Epub 2016 Dec , 19. PMID:27992881<ref>PMID:27992881</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5kd6" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Aspte]]
	[[Category: Gao, B]]		[[Category: Gao, B]]
	[[Category: Sun, F]]		[[Category: Sun, F]]

OCA at 21:42, 22 December 2016

OCA — Thu, 22 Dec 2016 21:42:34 GMT

←Older revision		Revision as of 21:42, 22 December 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 5kd6 is ON HOLD until Paper Publication~~	+	==Crystal structure of the aromatic prenyltransferase AtaPT from Aspergillus terreus A8-4 in complex with dimethylallyl S-thiolodiphosphate and (-)-butyrolactone II==
-		+	<StructureSection load='5kd6' size='340' side='right' caption='[[5kd6]], [[Resolution\|resolution]] 1.84Å' scene=''>
-	~~Authors: Sun, F., Gao, B.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5kd6]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KD6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KD6 FirstGlance]. <br>
-	~~Description:~~ Crystal structure of the aromatic prenyltransferase AtaPT from Aspergillus terreus A8-4 in complex with dimethylallyl S-thiolodiphosphate and (-)-butyrolactone II	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=6C7:S-(3-METHYLBUT-2-EN-1-YL)+TRIHYDROGEN+THIODIPHOSPHATE'>6C7</scene>, <scene name='pdbligand=LBU:METHYL+(2S)-4-HYDROXY-3-(4-HYDROXYPHENYL)-2-[(4-HYDROXYPHENYL)METHYL]-5-OXO-2,5-DIHYDROFURAN-2-CARBOXYLATE'>LBU</scene></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kcg\|5kcg]], [[5kcl\|5kcl]], [[5kcq\|5kcq]], [[5kcy\|5kcy]], [[5kd0\|5kd0]], [[5kda\|5kda]]</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=5kd6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kd6 OCA], [http://pdbe.org/5kd6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kd6 RCSB], [http://www.ebi.ac.uk/pdbsum/5kd6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kd6 ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
	[[Category: Gao, B]]		[[Category: Gao, B]]
	[[Category: Sun, F]]		[[Category: Sun, F]]
		+	[[Category: Abba fold]]
		+	[[Category: Substrate promiscuity]]
		+	[[Category: Transferase]]

OCA at 13:20, 10 August 2016

OCA — Wed, 10 Aug 2016 13:20:16 GMT

←Older revision		Revision as of 13:20, 10 August 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5kd6 is ON HOLD	+	The entry 5kd6 is ON HOLD until Paper Publication

	Authors: Sun, F., Gao, B.		Authors: Sun, F., Gao, B.

OCA at 01:37, 4 August 2016

OCA — Thu, 04 Aug 2016 01:37:38 GMT

←Older revision		Revision as of 01:37, 4 August 2016
Line 3:		Line 3:
	The entry 5kd6 is ON HOLD		The entry 5kd6 is ON HOLD

-	Authors: ~~FeiSun~~, ~~Bingquan~~ Gao	+	Authors: Sun, F., Gao, B.

-	Description: Crystal structure of the aromatic prenyltransferase AtaPT from Aspergillus terreus	+	Description: Crystal structure of the aromatic prenyltransferase AtaPT from Aspergillus terreus A8-4 in complex with dimethylallyl S-thiolodiphosphate and (-)-butyrolactone II
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: ~~Feisun, Bingquan~~ Gao]]	+	[[Category: Gao, B]]
		+	[[Category: Sun, F]]

OCA: Protected "5kd6" [edit=sysop:move=sysop]

OCA — Mon, 20 Jun 2016 13:46:02 GMT

Protected "5kd6" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:46, 20 June 2016

OCA: New page: '''Unreleased structure''' The entry 5kd6 is ON HOLD Authors: FeiSun, Bingquan Gao Description: Crystal structure of the aromatic prenyltransferase AtaPT from Aspergillus terreus [[Cat...

OCA — Mon, 20 Jun 2016 13:46:01 GMT

New page: '''Unreleased structure''' The entry 5kd6 is ON HOLD Authors: FeiSun, Bingquan Gao Description: Crystal structure of the aromatic prenyltransferase AtaPT from Aspergillus terreus [[Cat...

New page

'''Unreleased structure'''

The entry 5kd6 is ON HOLD

Authors: FeiSun, Bingquan Gao

Description: Crystal structure of the aromatic prenyltransferase AtaPT from Aspergillus terreus
[[Category: Unreleased Structures]]
[[Category: Feisun, Bingquan Gao]]