4kar - Revision history

OCA at 15:56, 20 September 2023

OCA — Wed, 20 Sep 2023 15:56:54 GMT

←Older revision		Revision as of 15:56, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4kar]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KAR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KAR FirstGlance]. <br>		<table><tr><td colspan='2'>[[4kar]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KAR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KAR FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2PE:NONAETHYLENE+GLYCOL'>2PE</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</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]] 2.03Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2PE:NONAETHYLENE+GLYCOL'>2PE</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</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=4kar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kar OCA], [https://pdbe.org/4kar PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kar RCSB], [https://www.ebi.ac.uk/pdbsum/4kar PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kar 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=4kar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kar OCA], [https://pdbe.org/4kar PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kar RCSB], [https://www.ebi.ac.uk/pdbsum/4kar PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kar ProSAT]</span></td></tr>
	</table>		</table>

OCA at 11:49, 30 November 2022

OCA — Wed, 30 Nov 2022 11:49:33 GMT

←Older revision		Revision as of 11:49, 30 November 2022
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	==Crystal structure of FDTS (TM0449) mutant (H53D) with FAD==		==Crystal structure of FDTS (TM0449) mutant (H53D) with FAD==
-	<StructureSection load='4kar' size='340' side='right' caption='[[4kar]], [[Resolution\|resolution]] 2.03Å' scene=''>	+	<StructureSection load='4kar' size='340' side='right'caption='[[4kar]], [[Resolution\|resolution]] 2.03Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4kar]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Thema Thema~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KAR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4KAR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4kar]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KAR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4KAR FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2PE:NONAETHYLENE+GLYCOL'>2PE</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2PE:NONAETHYLENE+GLYCOL'>2PE</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kas\|4kas]], [[4kat\|4kat]]</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=4kar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kar OCA], [https://pdbe.org/4kar PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4kar RCSB], [https://www.ebi.ac.uk/pdbsum/4kar PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4kar ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">thy1, thyX, tm0449, TM_0449 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243274 THEMA])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidylate_synthase_(FAD) Thymidylate synthase (FAD)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.148 2.1.1.148] </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=4kar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kar OCA], [~~http~~://pdbe.org/4kar PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4kar RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4kar PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4kar ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/THYX_THEMA THYX_THEMA]] Catalyzes the formation of dTMP and tetrahydrofolate from dUMP and methylenetetrahydrofolate.	+	[https://www.uniprot.org/uniprot/THYX_THEMA THYX_THEMA] Catalyzes the formation of dTMP and tetrahydrofolate from dUMP and methylenetetrahydrofolate.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 20:

	==See Also==		==See Also==
-	*[[Thymidylate synthase\|Thymidylate synthase]]	+	*[[Thymidylate synthase 3D structures\|Thymidylate synthase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Thema~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Mathews, I I~~]]	+	[[Category: Thermotoga maritima MSB8]]
-	[[Category: ~~Convertion of dump to dtmp using tetrahydrofolate]]~~	+	[[Category: Mathews II]]
-	~~[[Category: Fad]]~~	+
-	~~[[Category: Fdt]]~~	+
-	~~[[Category: H53d mutant]]~~	+
-	~~[[Category: Novel fdts fold]]~~	+
-	~~[[Category: Thyx]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 04:19, 5 August 2016

OCA — Fri, 05 Aug 2016 04:19:10 GMT

←Older revision		Revision as of 04:19, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of FDTS (TM0449) mutant (H53D) with FAD==		==Crystal structure of FDTS (TM0449) mutant (H53D) with FAD==
	<StructureSection load='4kar' size='340' side='right' caption='[[4kar]], [[Resolution\|resolution]] 2.03Å' scene=''>		<StructureSection load='4kar' size='340' side='right' caption='[[4kar]], [[Resolution\|resolution]] 2.03Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">thy1, thyX, tm0449, TM_0449 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243274 THEMA])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">thy1, thyX, tm0449, TM_0449 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243274 THEMA])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidylate_synthase_(FAD) Thymidylate synthase (FAD)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.148 2.1.1.148] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidylate_synthase_(FAD) Thymidylate synthase (FAD)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.148 2.1.1.148] </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=4kar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kar OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kar RCSB], [http://www.ebi.ac.uk/pdbsum/4kar PDBsum]</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=4kar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kar OCA], [http://pdbe.org/4kar PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4kar RCSB], [http://www.ebi.ac.uk/pdbsum/4kar PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4kar ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4kar" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 22:54, 24 December 2014

OCA — Wed, 24 Dec 2014 22:54:03 GMT

←Older revision		Revision as of 22:54, 24 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4kar\| PDB=4kar \| SCENE= }}~~	+	==Crystal structure of FDTS (TM0449) mutant (H53D) with FAD==
-	===Crystal structure of FDTS (TM0449) mutant (H53D) with FAD===	+	<StructureSection load='4kar' size='340' side='right' caption='[[4kar]], [[Resolution\|resolution]] 2.03Å' scene=''>
-	~~{{ABSTRACT_PUBMED_24563811}}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4kar]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Thema Thema]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KAR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4KAR FirstGlance]. <br>
-	==Function==	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2PE:NONAETHYLENE+GLYCOL'>2PE</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kas\|4kas]], [[4kat\|4kat]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">thy1, thyX, tm0449, TM_0449 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243274 THEMA])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Thymidylate_synthase_(FAD) Thymidylate synthase (FAD)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.148 2.1.1.148] </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=4kar FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4kar OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4kar RCSB], [http://www.ebi.ac.uk/pdbsum/4kar PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
	[[http://www.uniprot.org/uniprot/THYX_THEMA THYX_THEMA]] Catalyzes the formation of dTMP and tetrahydrofolate from dUMP and methylenetetrahydrofolate.		[[http://www.uniprot.org/uniprot/THYX_THEMA THYX_THEMA]] Catalyzes the formation of dTMP and tetrahydrofolate from dUMP and methylenetetrahydrofolate.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The identification of flavin-dependent thymidylate synthase (FDTS) as an essential enzyme and its occurrence in several pathogenic microbes opens opportunities for using FDTS enzyme as an excellent target for new antimicrobial drug discovery. In contrast to the human thymidylate synthase enzyme that utilizes methylene-tetrahydrofolate (CH2H4 folate) for the conversion of dUMP to dTMP, the microbial enzymes utilize an additional non-covalently bound FAD molecule for the hydride transfer from NAD(P)H. The structural and mechanistic differences between the human and microbial enzymes present an attractive opportunity for the design of antimicrobial compounds specific for the pathogens. We have determined the crystal structure of FDTS enzyme in complex with the methyl donor, CH2H4 folate. We describe here the structure of a FDTS mutant and compare it with other FDTS complex structures, including a FDTS-CH2H4 folate complex. We identified a conformational change essential for substrate binding and propose a strategy for the design of FDTS specific inhibitors.
		+
		+	Flavin-Dependent Thymidylate Synthase as a Drug Target for Deadly Microbes: Mutational Study and a Strategy for Inhibitor Design.,Mathews II J Bioterror Biodef. 2013 Apr 20;Suppl 12:004. PMID:24563811<ref>PMID:24563811</ref>

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[4kar]] is~~ a ~~4 chain structure~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=4KAR OCA].~~	+	</div>

-	==~~Reference~~==	+	==See Also==
-	~~<ref group~~=~~"xtra">PMID:024563811</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	*[[Thymidylate synthase\|Thymidylate synthase]]
-	[[Category: Mathews, I I.]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Thema]]
		+	[[Category: Mathews, I I]]
	[[Category: Convertion of dump to dtmp using tetrahydrofolate]]		[[Category: Convertion of dump to dtmp using tetrahydrofolate]]
	[[Category: Fad]]		[[Category: Fad]]

OCA at 09:20, 26 March 2014

OCA — Wed, 26 Mar 2014 09:20:53 GMT

←Older revision		Revision as of 09:20, 26 March 2014
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4kar\| PDB=4kar \| SCENE= }}
		+	===Crystal structure of FDTS (TM0449) mutant (H53D) with FAD===
		+	{{ABSTRACT_PUBMED_24563811}}

-	~~The entry 4kar is ON HOLD until Paper Publication~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/THYX_THEMA THYX_THEMA]] Catalyzes the formation of dTMP and tetrahydrofolate from dUMP and methylenetetrahydrofolate.

-	~~Authors~~: ~~Mathews, I~~.I.	+	==About this Structure==
		+	[[4kar]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KAR OCA].

-	~~Description~~: ~~Crystal structure~~ of ~~FDTS (TM0449)~~ mutant ~~(H53D) with FAD~~	+	==Reference==
		+	<ref group="xtra">PMID:024563811</ref><references group="xtra"/><references/>
		+	[[Category: Mathews, I I.]]
		+	[[Category: Convertion of dump to dtmp using tetrahydrofolate]]
		+	[[Category: Fad]]
		+	[[Category: Fdt]]
		+	[[Category: H53d mutant]]
		+	[[Category: Novel fdts fold]]
		+	[[Category: Thyx]]
		+	[[Category: Transferase]]

OCA at 11:30, 19 June 2013

OCA — Wed, 19 Jun 2013 11:30:27 GMT

←Older revision		Revision as of 11:30, 19 June 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4kar is ON HOLD	+	The entry 4kar is ON HOLD until Paper Publication

	Authors: Mathews, I.I.		Authors: Mathews, I.I.

	Description: Crystal structure of FDTS (TM0449) mutant (H53D) with FAD		Description: Crystal structure of FDTS (TM0449) mutant (H53D) with FAD

OCA: Protected "4kar" [edit=sysop:move=sysop]

OCA — Thu, 02 May 2013 07:14:30 GMT

Protected "4kar" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:14, 2 May 2013

OCA: New page: '''Unreleased structure''' The entry 4kar is ON HOLD Authors: Mathews, I.I. Description: Crystal structure of FDTS (TM0449) mutant (H53D) with FAD

OCA — Thu, 02 May 2013 07:14:28 GMT

New page: '''Unreleased structure''' The entry 4kar is ON HOLD Authors: Mathews, I.I. Description: Crystal structure of FDTS (TM0449) mutant (H53D) with FAD

New page

'''Unreleased structure'''

The entry 4kar is ON HOLD

Authors: Mathews, I.I.

Description: Crystal structure of FDTS (TM0449) mutant (H53D) with FAD