5y2y - Revision history

OCA at 08:20, 22 November 2023

2023-11-22T08:20:40Z

←Older revision		Revision as of 08:20, 22 November 2023
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	<StructureSection load='5y2y' size='340' side='right'caption='[[5y2y]], [[Resolution\|resolution]] 2.27Å' scene=''>		<StructureSection load='5y2y' size='340' side='right'caption='[[5y2y]], [[Resolution\|resolution]] 2.27Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5y2y]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y2Y OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5Y2Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5y2y]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodococcus_sp. Rhodococcus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y2Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5Y2Y FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8LL:5-(dimethylamino)-~{N}-[2-(2-hexoxyethoxy)ethyl]naphthalene-1-sulfonamide'>8LL</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</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]] 2.27Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Haloalkane_dehalogenase Haloalkane dehalogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.8.1.5 3.8.1.5] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8LL:5-(dimethylamino)-~{N}-[2-(2-hexoxyethoxy)ethyl]naphthalene-1-sulfonamide'>8LL</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5y2y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y2y OCA], [~~http~~://pdbe.org/5y2y PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5y2y RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5y2y PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5y2y 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=5y2y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y2y OCA], [https://pdbe.org/5y2y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5y2y RCSB], [https://www.ebi.ac.uk/pdbsum/5y2y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5y2y ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/DHAA_RHOSO DHAA_RHOSO]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Haloalkane dehalogenase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Kang, M~~]]	+	[[Category: Rhodococcus sp]]
-	[[Category: ~~Lee, C~~]]	+	[[Category: Kang M]]
-	[[Category: Lee~~, H~~]]	+	[[Category: Lee C]]
-	[[Category: ~~Rhee,~~ H]]	+	[[Category: Lee H]]
-	[[Category: ~~Dansyl ligand]]~~	+	[[Category: Rhee H]]
-	~~[[Category: Halotag]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 07:04, 14 October 2020

2020-10-14T07:04:43Z

←Older revision		Revision as of 07:04, 14 October 2020
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	==Crystal structure of HaloTag (M175C) complexed with dansyl-PEG2-HaloTag ligand==		==Crystal structure of HaloTag (M175C) complexed with dansyl-PEG2-HaloTag ligand==
-	<StructureSection load='5y2y' size='340' side='right' caption='[[5y2y]], [[Resolution\|resolution]] 2.27Å' scene=''>	+	<StructureSection load='5y2y' size='340' side='right'caption='[[5y2y]], [[Resolution\|resolution]] 2.27Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5y2y]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y2Y OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5Y2Y FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5y2y]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y2Y OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5Y2Y FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8LL:5-(dimethylamino)-~{N}-[2-(2-hexoxyethoxy)ethyl]naphthalene-1-sulfonamide'>8LL</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8LL:5-(dimethylamino)-~{N}-[2-(2-hexoxyethoxy)ethyl]naphthalene-1-sulfonamide'>8LL</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Haloalkane_dehalogenase Haloalkane dehalogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.8.1.5 3.8.1.5] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Haloalkane_dehalogenase Haloalkane dehalogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.8.1.5 3.8.1.5] </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=5y2y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y2y OCA], [http://pdbe.org/5y2y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y2y RCSB], [http://www.ebi.ac.uk/pdbsum/5y2y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y2y ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5y2y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y2y OCA], [http://pdbe.org/5y2y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y2y RCSB], [http://www.ebi.ac.uk/pdbsum/5y2y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y2y ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 5y2y" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5y2y" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dehalogenase 3D structures\|Dehalogenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Haloalkane dehalogenase]]		[[Category: Haloalkane dehalogenase]]
		+	[[Category: Large Structures]]
	[[Category: Kang, M]]		[[Category: Kang, M]]
	[[Category: Lee, C]]		[[Category: Lee, C]]

OCA: Protected "5y2y" [edit=sysop:move=sysop]

2017-09-06T03:47:51Z

Protected "5y2y" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:47, 6 September 2017

OCA: New page: ==Crystal structure of HaloTag (M175C) complexed with dansyl-PEG2-HaloTag ligand== == Structural highlights ==
<table><tr><td colspan='2'>[[5y2y]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y2Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y2Y FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8LL:5-(dimethylamino)-~{N}-[2-(2-hexoxyethoxy)ethyl]naphthalene-1-sulfonamide'>8LL</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Haloalkane_dehalogenase Haloalkane dehalogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.8.1.5 3.8.1.5] </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=5y2y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y2y OCA], [http://pdbe.org/5y2y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y2y RCSB], [http://www.ebi.ac.uk/pdbsum/5y2y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y2y ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Alkyl halides are potentially mutagenic carcinogens. However, no efficient fluorescent sensor for alkyl halide detection in human-derived samples has been developed to date. Herein, we report a new protein-based fluorescent sensor for alkyl halides. Analysis of the HaloTag holo-crystal structure with its covalently attached ligand revealed an unexpected cavity, allowing for the design of a new fluorogenic ligand. This ligand showed the highest fluorescence response (300-fold) and fastest binding kinetics (t1/2 < 150 s) to a HaloTag mutant (M175P) protein. This protein-based sensor system was effectively used to detect alkyl halides in human serum and monitor real-time protein alkylation.

Structure-guided synthesis of a protein-based fluorescent sensor for alkyl halides.,Kang MG, Lee H, Kim BH, Dunbayev Y, Seo JK, Lee C, Rhee HW Chem Commun (Camb). 2017 Aug 15;53(66):9226-9229. doi: 10.1039/c7cc03714g. PMID:28766590<ref>PMID:28766590</ref>

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5y2y" style="background-color:#fffaf0;"></div>
== References ==
<references/>
TOC
</StructureSection>
[[Category: Haloalkane dehalogenase]]
[[Category: Kang, M]]
[[Category: Lee, C]]
[[Category: Lee, H]]
[[Category: Rhee, H]]
[[Category: Dansyl ligand]]
[[Category: Halotag]]
[[Category: Hydrolase]]