7wam - Revision history

OCA at 17:38, 29 November 2023

OCA — Wed, 29 Nov 2023 17:38:26 GMT

←Older revision		Revision as of 17:38, 29 November 2023
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	<StructureSection load='7wam' size='340' side='right'caption='[[7wam]], [[Resolution\|resolution]] 1.49Å' scene=''>		<StructureSection load='7wam' size='340' side='right'caption='[[7wam]], [[Resolution\|resolution]] 1.49Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7wam]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7WAM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7WAM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7wam]] is a 1 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=7WAM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7WAM FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8MH:3-[6-(2-azanylhydrazinyl)-1,3-bis(oxidanylidene)benzo[de]isoquinolin-2-yl]-N-[2-(2-hexoxyethoxy)ethyl]propanamide'>8MH</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]] 1.49Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Haloalkane_dehalogenase Haloalkane dehalogenase], with EC number [https://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=8MH:3-[6-(2-azanylhydrazinyl)-1,3-bis(oxidanylidene)benzo[de]isoquinolin-2-yl]-N-[2-(2-hexoxyethoxy)ethyl]propanamide'>8MH</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'>[https://proteopedia.org/fgij/fg.htm?mol=7wam FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7wam OCA], [https://pdbe.org/7wam PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7wam RCSB], [https://www.ebi.ac.uk/pdbsum/7wam PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7wam 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=7wam FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7wam OCA], [https://pdbe.org/7wam PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7wam RCSB], [https://www.ebi.ac.uk/pdbsum/7wam PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7wam 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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	</div>		</div>
	<div class="pdbe-citations 7wam" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7wam" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dehalogenase 3D structures\|Dehalogenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__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: Pratyush, M]]	+	[[Category: Lee H]]
-	[[Category: Rhee, H]]	+	[[Category: Pratyush M]]
-	~~[[Category: Halotag]]~~	+	[[Category: Rhee H]]
-	~~[[Category: Hydrolase~~]]	+

OCA at 07:28, 9 March 2022

OCA — Wed, 09 Mar 2022 07:28:18 GMT

←Older revision		Revision as of 07:28, 9 March 2022
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	==Crystal structure of HaloTag complexed with VL1==		==Crystal structure of HaloTag complexed with VL1==
-	<StructureSection load='7wam' size='340' side='right'caption='[[7wam]]' scene=''>	+	<StructureSection load='7wam' size='340' side='right'caption='[[7wam]], [[Resolution\|resolution]] 1.49Å' 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=7WAM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7WAM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7wam]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7WAM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7WAM 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=7wam FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7wam OCA], [https://pdbe.org/7wam PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7wam RCSB], [https://www.ebi.ac.uk/pdbsum/7wam PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7wam ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8MH:3-[6-(2-azanylhydrazinyl)-1,3-bis(oxidanylidene)benzo[de]isoquinolin-2-yl]-N-[2-(2-hexoxyethoxy)ethyl]propanamide'>8MH</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'>[https://en.wikipedia.org/wiki/Haloalkane_dehalogenase Haloalkane dehalogenase], with EC number [https://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'>[https://proteopedia.org/fgij/fg.htm?mol=7wam FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7wam OCA], [https://pdbe.org/7wam PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7wam RCSB], [https://www.ebi.ac.uk/pdbsum/7wam PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7wam ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	We developed a proximity photo-crosslinking method (Spotlight) with a 4-azido-N-ethyl-1,8-naphthalimide (AzNP) moiety that can be converted to reactive aryl nitrene species using ambient blue light-emitting diode light. Using an AzNP-conjugated HaloTag ligand (VL1), blue light-induced photo-crosslinked products of various HaloTag-conjugated proteins of interest were detected in subcellular spaces in live cells. Chemical or heat stress-induced dynamic changes in the proteome were also detected, and photo-crosslinking in the mouse brain tissue was enabled. Using Spotlight, we further identified the host interactome of SARS-CoV-2 nucleocapsid (N) protein, which is essential for viral genome assembly. Mass analysis of the VL1-crosslinked product of N-HaloTag in HEK293T cells showed that RNA-binding proteins in stress granules were exclusively enriched in the cross-linked samples. These results tell that our method can reveal the interactome of protein of interest within a short distance in live cells.
		+
		+	A chemical tool for blue light-inducible proximity photo-crosslinking in live cells.,Mishra PK, Kang MG, Lee H, Kim S, Choi S, Sharma N, Park CM, Ko J, Lee C, Seo JK, Rhee HW Chem Sci. 2021 Dec 10;13(4):955-966. doi: 10.1039/d1sc04871f. eCollection 2022, Jan 26. PMID:35211260<ref>PMID:35211260</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7wam" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Haloalkane dehalogenase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Kang M]]	+	[[Category: Kang, M]]
-	[[Category: Lee C]]	+	[[Category: Lee, C]]
-	[[Category: Lee H]]	+	[[Category: Lee, H]]
-	[[Category: Pratyush M]]	+	[[Category: Pratyush, M]]
-	[[Category: Rhee H]]	+	[[Category: Rhee, H]]
		+	[[Category: Halotag]]
		+	[[Category: Hydrolase]]

OCA at 07:05, 2 February 2022

OCA — Wed, 02 Feb 2022 07:05:07 GMT

←Older revision		Revision as of 07:05, 2 February 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7wam ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of HaloTag complexed with VL1==
-		+	<StructureSection load='7wam' size='340' side='right'caption='[[7wam]]' scene=''>
-	~~Authors~~: ~~Pratyush, M~~., ~~Kang~~, M., ~~Lee, H~~., ~~Lee, C~~., ~~Rhee, H~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7WAM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7WAM FirstGlance]. <br>
-	~~Description: Crystal structure of HaloTag complexed with VL1~~	+	</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=7wam FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7wam OCA], [https://pdbe.org/7wam PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7wam RCSB], [https://www.ebi.ac.uk/pdbsum/7wam PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7wam ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Lee, H~~]]	+	__TOC__
-	[[Category: ~~Rhee, H~~]]	+	</StructureSection>
-	[[Category: Lee~~, C~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Kang,~~ M]]	+	[[Category: Kang M]]
-	[[Category: ~~Pratyush, M~~]]	+	[[Category: Lee C]]
		+	[[Category: Lee H]]
		+	[[Category: Pratyush M]]
		+	[[Category: Rhee H]]

OCA at 05:40, 27 January 2022

OCA — Thu, 27 Jan 2022 05:40:18 GMT

←Older revision		Revision as of 05:40, 27 January 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Pratyush, M., Kang, M., Lee, H., Lee, C., Rhee, H.		Authors: Pratyush, M., Kang, M., Lee, H., Lee, C., Rhee, H.
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	Description: Crystal structure of HaloTag complexed with VL1		Description: Crystal structure of HaloTag complexed with VL1
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Lee, C]]
	[[Category: Lee, H]]		[[Category: Lee, H]]
	[[Category: Rhee, H]]		[[Category: Rhee, H]]
		+	[[Category: Lee, C]]
	[[Category: Kang, M]]		[[Category: Kang, M]]
	[[Category: Pratyush, M]]		[[Category: Pratyush, M]]

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

OCA — Wed, 22 Dec 2021 14:15:56 GMT

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

←Older revision

Revision as of 14:15, 22 December 2021

OCA: New page: '''Unreleased structure''' The entry 7wam is ON HOLD Authors: Pratyush, M., Kang, M., Lee, H., Lee, C., Rhee, H. Description: Crystal structure of HaloTag complexed with VL1 [[Category...

OCA — Wed, 22 Dec 2021 14:15:55 GMT

New page: '''Unreleased structure''' The entry 7wam is ON HOLD Authors: Pratyush, M., Kang, M., Lee, H., Lee, C., Rhee, H. Description: Crystal structure of HaloTag complexed with VL1 [[Category...

New page

'''Unreleased structure'''

The entry 7wam is ON HOLD

Authors: Pratyush, M., Kang, M., Lee, H., Lee, C., Rhee, H.

Description: Crystal structure of HaloTag complexed with VL1
[[Category: Unreleased Structures]]
[[Category: Lee, C]]
[[Category: Lee, H]]
[[Category: Rhee, H]]
[[Category: Kang, M]]
[[Category: Pratyush, M]]