5swn - Revision history

OCA at 12:49, 4 October 2023

OCA — Wed, 04 Oct 2023 12:49:07 GMT

←Older revision		Revision as of 12:49, 4 October 2023
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	<StructureSection load='5swn' size='340' side='right'caption='[[5swn]], [[Resolution\|resolution]] 1.54Å' scene=''>		<StructureSection load='5swn' size='340' side='right'caption='[[5swn]], [[Resolution\|resolution]] 1.54Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5swn]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Rhopa Rhopa~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SWN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5SWN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5swn]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhodopseudomonas_palustris_CGA009 Rhodopseudomonas palustris CGA009]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SWN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5SWN FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>~~, ~~<scene name='pdbligand=FAH:FLUOROACETIC+ACID'>FAH</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]] 1.541Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>RPA1163 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~258594 RHOPA])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FAH:FLUOROACETIC+ACID'>FAH</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Haloacetate_dehalogenase Haloacetate dehalogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.8.1.3 3.8.1.3]~~ </~~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=5swn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5swn OCA], [https://pdbe.org/5swn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5swn RCSB], [https://www.ebi.ac.uk/pdbsum/5swn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5swn 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=5swn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5swn OCA], [~~http~~://pdbe.org/5swn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5swn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5swn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5swn ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/DEHA_RHOPA DEHA_RHOPA]] Catalyzes the hydrolytic defluorination of fluoroacetate to produce glycolate. Has lower activity towards bromoacetate and chloroacetate.<ref>PMID:21510690</ref> <ref>PMID:21510690</ref>	+	[https://www.uniprot.org/uniprot/DEHA_RHOPA DEHA_RHOPA] Catalyzes the hydrolytic defluorination of fluoroacetate to produce glycolate. Has lower activity towards bromoacetate and chloroacetate.<ref>PMID:21510690</ref> <ref>PMID:21510690</ref>
	<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: Haloacetate dehalogenase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Rhopa~~]]	+	[[Category: Rhodopseudomonas palustris CGA009]]
-	[[Category: Kim~~, T H~~]]	+	[[Category: Kim TH]]
-	[[Category: Mehrabi, P]]	+	[[Category: Mehrabi P]]
-	[[Category: Pai~~, E F~~]]	+	[[Category: Pai EF]]
-	[[Category: Prosser~~, S R]]~~	+	[[Category: Prosser SR]]
-	~~[[Category: Dehalogenase]]~~	+
-	~~[[Category: Homodimer]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 11:12, 16 September 2020

OCA — Wed, 16 Sep 2020 11:12:58 GMT

←Older revision		Revision as of 11:12, 16 September 2020
Line 1:		Line 1:

	==Crystal Structure of the Fluoroacetate Dehalogenase RPA1163 - Asp110Asn/Fluoroacetate - Cocrystallized==		==Crystal Structure of the Fluoroacetate Dehalogenase RPA1163 - Asp110Asn/Fluoroacetate - Cocrystallized==
-	<StructureSection load='5swn' size='340' side='right' caption='[[5swn]], [[Resolution\|resolution]] 1.54Å' scene=''>	+	<StructureSection load='5swn' size='340' side='right'caption='[[5swn]], [[Resolution\|resolution]] 1.54Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5swn]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SWN OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5SWN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5swn]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Rhopa Rhopa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SWN OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5SWN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FAH:FLUOROACETIC+ACID'>FAH</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FAH:FLUOROACETIC+ACID'>FAH</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RPA1163 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=258594 RHOPA])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Haloacetate_dehalogenase Haloacetate dehalogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.8.1.3 3.8.1.3] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Haloacetate_dehalogenase Haloacetate dehalogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.8.1.3 3.8.1.3] </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=5swn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5swn OCA], [http://pdbe.org/5swn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5swn RCSB], [http://www.ebi.ac.uk/pdbsum/5swn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5swn 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=5swn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5swn OCA], [http://pdbe.org/5swn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5swn RCSB], [http://www.ebi.ac.uk/pdbsum/5swn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5swn ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 5swn" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5swn" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dehalogenase 3D structures\|Dehalogenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Haloacetate dehalogenase]]		[[Category: Haloacetate dehalogenase]]
		+	[[Category: Large Structures]]
		+	[[Category: Rhopa]]
	[[Category: Kim, T H]]		[[Category: Kim, T H]]
	[[Category: Mehrabi, P]]		[[Category: Mehrabi, P]]

OCA at 17:54, 1 February 2017

OCA — Wed, 01 Feb 2017 17:54:53 GMT

←Older revision		Revision as of 17:54, 1 February 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5swn is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal Structure of the Fluoroacetate Dehalogenase RPA1163 - Asp110Asn/Fluoroacetate - Cocrystallized==
		+	<StructureSection load='5swn' size='340' side='right' caption='[[5swn]], [[Resolution\|resolution]] 1.54Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5swn]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SWN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5SWN FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=FAH:FLUOROACETIC+ACID'>FAH</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Haloacetate_dehalogenase Haloacetate dehalogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.8.1.3 3.8.1.3] </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=5swn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5swn OCA], [http://pdbe.org/5swn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5swn RCSB], [http://www.ebi.ac.uk/pdbsum/5swn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5swn ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/DEHA_RHOPA DEHA_RHOPA]] Catalyzes the hydrolytic defluorination of fluoroacetate to produce glycolate. Has lower activity towards bromoacetate and chloroacetate.<ref>PMID:21510690</ref> <ref>PMID:21510690</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Freeze-trapping x-ray crystallography, nuclear magnetic resonance, and computational techniques reveal the distribution of states and their interconversion rates along the reaction pathway of a bacterial homodimeric enzyme, fluoroacetate dehalogenase (FAcD). The crystal structure of apo-FAcD exhibits asymmetry around the dimer interface and cap domain, priming one protomer for substrate binding. This asymmetry is dynamically averaged through conformational exchange on a millisecond time scale. During catalysis, the protomer conformational exchange rate becomes enhanced, the empty protomer exhibits increased local disorder, and water egresses. Computational studies identify allosteric pathways between protomers. Water release and enhanced dynamics associated with catalysis compensate for entropic losses from substrate binding while facilitating sampling of the transition state. The studies provide insights into how substrate-coupled allosteric modulation of structure and dynamics facilitates catalysis in a homodimeric enzyme.

-	~~Authors: Mehrabi, P~~., Kim, ~~T.H.~~, ~~Prosser~~, S.R., ~~Pai~~, E.F.	+	The role of dimer asymmetry and protomer dynamics in enzyme catalysis.,Kim TH, Mehrabi P, Ren Z, Sljoka A, Ing C, Bezginov A, Ye L, Pomes R, Prosser RS, Pai EF Science. 2017 Jan 20;355(6322). pii: eaag2355. doi: 10.1126/science.aag2355. PMID:28104837<ref>PMID:28104837</ref>

-	~~Description: Crystal Structure~~ of the ~~Fluoroacetate Dehalogenase RPA1163 -Asp110Asn~~/~~Fluoroacetate -Cocrystallized~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Prosser, S.R~~]]	+	<div class="pdbe-citations 5swn" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Pai~~, ~~E.F~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Haloacetate dehalogenase]]
		+	[[Category: Kim, T H]]
	[[Category: Mehrabi, P]]		[[Category: Mehrabi, P]]
-	[[Category: ~~Kim~~, ~~T.H~~]]	+	[[Category: Pai, E F]]
		+	[[Category: Prosser, S R]]
		+	[[Category: Dehalogenase]]
		+	[[Category: Homodimer]]
		+	[[Category: Hydrolase]]

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

OCA — Fri, 09 Sep 2016 15:21:54 GMT

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

←Older revision

Revision as of 15:21, 9 September 2016

OCA: New page: '''Unreleased structure''' The entry 5swn is ON HOLD until Paper Publication Authors: Mehrabi, P., Kim, T.H., Prosser, S.R., Pai, E.F. Description: Crystal Structure of the Fluoroaceta...

OCA — Fri, 09 Sep 2016 15:21:52 GMT

New page: '''Unreleased structure''' The entry 5swn is ON HOLD until Paper Publication Authors: Mehrabi, P., Kim, T.H., Prosser, S.R., Pai, E.F. Description: Crystal Structure of the Fluoroaceta...

New page

'''Unreleased structure'''

The entry 5swn is ON HOLD until Paper Publication

Authors: Mehrabi, P., Kim, T.H., Prosser, S.R., Pai, E.F.

Description: Crystal Structure of the Fluoroacetate Dehalogenase RPA1163 -Asp110Asn/Fluoroacetate -Cocrystallized
[[Category: Unreleased Structures]]
[[Category: Prosser, S.R]]
[[Category: Pai, E.F]]
[[Category: Mehrabi, P]]
[[Category: Kim, T.H]]