5fiu - Revision history

OCA at 06:53, 19 July 2023

OCA — Wed, 19 Jul 2023 06:53:14 GMT

←Older revision		Revision as of 06:53, 19 July 2023
Line 3:		Line 3:
	<StructureSection load='5fiu' size='340' side='right'caption='[[5fiu]], [[Resolution\|resolution]] 1.84Å' scene=''>		<StructureSection load='5fiu' size='340' side='right'caption='[[5fiu]], [[Resolution\|resolution]] 1.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5fiu]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"streptomyces_cattleya"_kahan_et_al._1979 "streptomyces~~ cattleya~~" kahan et al. 1979~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FIU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5FIU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5fiu]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_cattleya Streptomyces cattleya]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FIU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5FIU FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=TLA:L(+)~~-~~TARTARIC+ACID'>TLA</scene>~~, ~~<scene name='pdbligand=Y3J:5,5-DIFLUOROMETHYL+ADENOSINE'>Y3J</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='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http:~~/~~/en.wikipedia.org/wiki/Adenosyl-fluoride_synthase Adenosyl-fluoride synthase]~~, ~~with EC number [http~~:~~//www.brenda-enzymes.info/php/result_flat.php4?ecno=2.~~5~~.1.63 2.~~5~~.1.63]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene>, <scene name='pdbligand=Y3J:5,5-DIFLUOROMETHYL+ADENOSINE'>Y3J</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=5fiu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fiu OCA], [~~http~~://pdbe.org/5fiu PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5fiu RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5fiu PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5fiu 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=5fiu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fiu OCA], [https://pdbe.org/5fiu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5fiu RCSB], [https://www.ebi.ac.uk/pdbsum/5fiu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5fiu ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/FLA_STRCT FLA_STRCT]] Involved in the biosynthesis of fluorometabolites. Catalyzes the formation of a C-F bond by combining S-adenosyl-L-methionine (SAM) and fluoride to generate 5'-fluoro-5'-deoxyadenosine (5'-FDA) and L-methionine. It can also use 2'-deoxyadenosine in place of adenosine as substrate.<ref>PMID:12860396</ref> <ref>PMID:14765200</ref> <ref>PMID:16370017</ref> <ref>PMID:16604208</ref> <ref>PMID:16720268</ref> <ref>PMID:17985882</ref>	+	[https://www.uniprot.org/uniprot/FLA_STRCT FLA_STRCT] Involved in the biosynthesis of fluorometabolites. Catalyzes the formation of a C-F bond by combining S-adenosyl-L-methionine (SAM) and fluoride to generate 5'-fluoro-5'-deoxyadenosine (5'-FDA) and L-methionine. It can also use 2'-deoxyadenosine in place of adenosine as substrate.<ref>PMID:12860396</ref> <ref>PMID:14765200</ref> <ref>PMID:16370017</ref> <ref>PMID:16604208</ref> <ref>PMID:16720268</ref> <ref>PMID:17985882</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: Streptomyces cattleya kahan et al. 1979]]
-	[[Category: Adenosyl-fluoride synthase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Hagan, D O~~]]	+	[[Category: Streptomyces cattleya]]
-	[[Category: McMahon~~, S A~~]]	+	[[Category: McMahon SA]]
-	[[Category: Naismith~~, J H~~]]	+	[[Category: Naismith JH]]
-	[[Category: ~~Thompson, S~~]]	+	[[Category: O'Hagan D]]
-	[[Category: ~~Difluoromethyl]]~~	+	[[Category: Thompson S]]
-	~~[[Category: Fluorinase]]~~	+
-	~~[[Category: Isothermal titration calorimetry]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 07:21, 6 May 2020

OCA — Wed, 06 May 2020 07:21:25 GMT

←Older revision		Revision as of 07:21, 6 May 2020
Line 1:		Line 1:
		+
	==Binding and structural studies of a 5,5-difluoromethyl adenosine nucleoside with the fluorinase enzyme==		==Binding and structural studies of a 5,5-difluoromethyl adenosine nucleoside with the fluorinase enzyme==
-	<StructureSection load='5fiu' size='340' side='right' caption='[[5fiu]], [[Resolution\|resolution]] 1.84Å' scene=''>	+	<StructureSection load='5fiu' size='340' side='right'caption='[[5fiu]], [[Resolution\|resolution]] 1.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5fiu]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FIU OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5FIU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5fiu]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"streptomyces_cattleya"_kahan_et_al._1979 "streptomyces cattleya" kahan et al. 1979]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FIU OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5FIU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene>, <scene name='pdbligand=Y3J:5,5-DIFLUOROMETHYL+ADENOSINE'>Y3J</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene>, <scene name='pdbligand=Y3J:5,5-DIFLUOROMETHYL+ADENOSINE'>Y3J</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenosyl-fluoride_synthase Adenosyl-fluoride synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.63 2.5.1.63] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenosyl-fluoride_synthase Adenosyl-fluoride synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.63 2.5.1.63] </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=5fiu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fiu OCA], [http://pdbe.org/5fiu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fiu RCSB], [http://www.ebi.ac.uk/pdbsum/5fiu PDBsum]</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=5fiu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fiu OCA], [http://pdbe.org/5fiu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fiu RCSB], [http://www.ebi.ac.uk/pdbsum/5fiu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fiu ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Streptomyces cattleya kahan et al. 1979]]
	[[Category: Adenosyl-fluoride synthase]]		[[Category: Adenosyl-fluoride synthase]]
		+	[[Category: Large Structures]]
	[[Category: Hagan, D O]]		[[Category: Hagan, D O]]
	[[Category: McMahon, S A]]		[[Category: McMahon, S A]]

OCA at 12:36, 23 December 2015

OCA — Wed, 23 Dec 2015 12:36:46 GMT

←Older revision		Revision as of 12:36, 23 December 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Binding and structural studies of a 5,5-difluoromethyl adenosine nucleoside with the fluorinase enzyme==
		+	<StructureSection load='5fiu' size='340' side='right' caption='[[5fiu]], [[Resolution\|resolution]] 1.84Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5fiu]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FIU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FIU FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TLA:L(+)-TARTARIC+ACID'>TLA</scene>, <scene name='pdbligand=Y3J:5,5-DIFLUOROMETHYL+ADENOSINE'>Y3J</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenosyl-fluoride_synthase Adenosyl-fluoride synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.63 2.5.1.63] </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=5fiu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fiu OCA], [http://pdbe.org/5fiu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fiu RCSB], [http://www.ebi.ac.uk/pdbsum/5fiu PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/FLA_STRCT FLA_STRCT]] Involved in the biosynthesis of fluorometabolites. Catalyzes the formation of a C-F bond by combining S-adenosyl-L-methionine (SAM) and fluoride to generate 5'-fluoro-5'-deoxyadenosine (5'-FDA) and L-methionine. It can also use 2'-deoxyadenosine in place of adenosine as substrate.<ref>PMID:12860396</ref> <ref>PMID:14765200</ref> <ref>PMID:16370017</ref> <ref>PMID:16604208</ref> <ref>PMID:16720268</ref> <ref>PMID:17985882</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The investigation of a difluoromethyl-bearing nucleoside with the fluorinase enzyme is described. 5',5'-Difluoro-5'-deoxyadenosine 7 (F2DA) was synthesised from adenosine, and found to bind to the fluorinase enzyme by isothermal titration calorimetry with similar affinity compared to 5'-fluoro-5'-deoxyadenosine 2 (FDA), the natural product of the enzymatic reaction. F2DA7 was found, however, not to undergo the enzyme catalysed reaction with l-selenomethionine, unlike FDA 2, which undergoes reaction with l-selenomethionine to generate Se-adenosylselenomethionine. A co-crystal structure of the fluorinase and F2DA7 and tartrate was solved to 1.8A, and revealed that the difluoromethyl group bridges interactions known to be essential for activation of the single fluorine in FDA 2. An unusual hydrogen bonding interaction between the hydrogen of the difluoromethyl group and one of the hydroxyl oxygens of the tartrate ligand was also observed. The bridging interactions, coupled with the inherently stronger C-F bond in the difluoromethyl group, offers an explanation for why no reaction is observed.

-	~~The entry 5fiu is ON HOLD~~	+	Exploration of a potential difluoromethyl-nucleoside substrate with the fluorinase enzyme.,Thompson S, McMahon SA, Naismith JH, O'Hagan D Bioorg Chem. 2015 Nov 18;64:37-41. doi: 10.1016/j.bioorg.2015.11.003. PMID:26642178<ref>PMID:26642178</ref>

-	~~Authors: Thompson~~, S.~~, McMahon,~~ S.~~A., Naismith, J.H., O'Hagan, D~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Binding and structural studies of a 5,5-difluoromethyl adenosine nucleoside with the fluorinase enzyme~~	+	<div class="pdbe-citations 5fiu" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: ~~Naismith~~, ~~J.H~~]]	+	<references/>
-	[[Category: ~~Mcmahon~~, S.A]]	+	__TOC__
-	[[Category: ~~O'Hagan~~, D]]	+	</StructureSection>
		+	[[Category: Adenosyl-fluoride synthase]]
		+	[[Category: Hagan, D O]]
		+	[[Category: McMahon, S A]]
		+	[[Category: Naismith, J H]]
	[[Category: Thompson, S]]		[[Category: Thompson, S]]
		+	[[Category: Difluoromethyl]]
		+	[[Category: Fluorinase]]
		+	[[Category: Isothermal titration calorimetry]]
		+	[[Category: Transferase]]

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

OCA — Fri, 16 Oct 2015 03:04:43 GMT

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

←Older revision

Revision as of 03:04, 16 October 2015

OCA: New page: '''Unreleased structure''' The entry 5fiu is ON HOLD Authors: Thompson, S., McMahon, S.A., Naismith, J.H., O'Hagan, D. Description: Binding and structural studies of a 5,5-difluorometh...

OCA — Fri, 16 Oct 2015 03:04:42 GMT

New page: '''Unreleased structure''' The entry 5fiu is ON HOLD Authors: Thompson, S., McMahon, S.A., Naismith, J.H., O'Hagan, D. Description: Binding and structural studies of a 5,5-difluorometh...

New page

'''Unreleased structure'''

The entry 5fiu is ON HOLD

Authors: Thompson, S., McMahon, S.A., Naismith, J.H., O'Hagan, D.

Description: Binding and structural studies of a 5,5-difluoromethyl adenosine nucleoside with the fluorinase enzyme
[[Category: Unreleased Structures]]
[[Category: Naismith, J.H]]
[[Category: Mcmahon, S.A]]
[[Category: O'Hagan, D]]
[[Category: Thompson, S]]