4yeg - Revision history

OCA at 10:54, 10 January 2024

OCA — Wed, 10 Jan 2024 10:54:57 GMT

←Older revision		Revision as of 10:54, 10 January 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4yeg]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Francisella_tularensis Francisella tularensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YEG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YEG FirstGlance]. <br>		<table><tr><td colspan='2'>[[4yeg]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Francisella_tularensis Francisella tularensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YEG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YEG 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=4yeg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yeg OCA], [https://pdbe.org/4yeg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yeg RCSB], [https://www.ebi.ac.uk/pdbsum/4yeg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yeg ProSAT]</span></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]] 2.23Å</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=4yeg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yeg OCA], [https://pdbe.org/4yeg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yeg RCSB], [https://www.ebi.ac.uk/pdbsum/4yeg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yeg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 08:10, 3 May 2023

OCA — Wed, 03 May 2023 08:10:56 GMT

←Older revision		Revision as of 08:10, 3 May 2023
Line 3:		Line 3:
	<StructureSection load='4yeg' size='340' side='right'caption='[[4yeg]], [[Resolution\|resolution]] 2.23Å' scene=''>		<StructureSection load='4yeg' size='340' side='right'caption='[[4yeg]], [[Resolution\|resolution]] 2.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4yeg]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacterium_tularense"_mccoy_and_chapin_1912 "bacterium tularense" mccoy and chapin 1912~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YEG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4YEG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4yeg]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Francisella_tularensis Francisella tularensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YEG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YEG FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ppk2, DR80_1140, DR81_590, DR84_1109, DR85_1285, DR86_904, DR87_59 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=263 "Bacterium tularense" McCoy and Chapin 1912])</td></tr>	+	</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=4yeg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yeg OCA], [https://pdbe.org/4yeg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yeg RCSB], [https://www.ebi.ac.uk/pdbsum/4yeg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yeg ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Polyphosphate_kinase Polyphosphate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.1 2.7.4.1] </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=4yeg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yeg OCA], [~~http~~://pdbe.org/4yeg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4yeg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4yeg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4yeg ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q5NEQ5_FRATT Q5NEQ5_FRATT]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacterium tularense mccoy and chapin 1912~~]]	+	[[Category: Francisella tularensis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Polyphosphate kinase]]~~	+	[[Category: Parnell AE]]
-	[[Category: Parnell~~, A E~~]]	+	[[Category: Roach PL]]
-	[[Category: Roach~~, P L]]~~	+
-	~~[[Category: Polyphosphate kinase enzyme]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 06:55, 12 June 2019

OCA — Wed, 12 Jun 2019 06:55:13 GMT

←Older revision		Revision as of 06:55, 12 June 2019
Line 1:		Line 1:

	==Characterisation of Polyphosphate Kinase 2 from the Intracellular Pathogen Francisella tularensis==		==Characterisation of Polyphosphate Kinase 2 from the Intracellular Pathogen Francisella tularensis==
-	<StructureSection load='4yeg' size='340' side='right' caption='[[4yeg]], [[Resolution\|resolution]] 2.23Å' scene=''>	+	<StructureSection load='4yeg' size='340' side='right'caption='[[4yeg]], [[Resolution\|resolution]] 2.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4yeg]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YEG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YEG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4yeg]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_tularense"_mccoy_and_chapin_1912 "bacterium tularense" mccoy and chapin 1912]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YEG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YEG FirstGlance]. <br>
-	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Polyphosphate_kinase Polyphosphate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.1 2.7.4.1] </span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ppk2, DR80_1140, DR81_590, DR84_1109, DR85_1285, DR86_904, DR87_59 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=263 "Bacterium tularense" McCoy and Chapin 1912])</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=4yeg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yeg OCA], [http://pdbe.org/4yeg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yeg RCSB], [http://www.ebi.ac.uk/pdbsum/4yeg PDBsum]</span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Polyphosphate_kinase Polyphosphate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.1 2.7.4.1] </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=4yeg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yeg OCA], [http://pdbe.org/4yeg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yeg RCSB], [http://www.ebi.ac.uk/pdbsum/4yeg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4yeg ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacterium tularense mccoy and chapin 1912]]
		+	[[Category: Large Structures]]
	[[Category: Polyphosphate kinase]]		[[Category: Polyphosphate kinase]]
	[[Category: Parnell, A E]]		[[Category: Parnell, A E]]

OCA at 10:25, 26 February 2016

OCA — Fri, 26 Feb 2016 10:25:53 GMT

←Older revision		Revision as of 10:25, 26 February 2016
Line 1:		Line 1:
		+
	==Characterisation of Polyphosphate Kinase 2 from the Intracellular Pathogen Francisella tularensis==		==Characterisation of Polyphosphate Kinase 2 from the Intracellular Pathogen Francisella tularensis==
	<StructureSection load='4yeg' size='340' side='right' caption='[[4yeg]], [[Resolution\|resolution]] 2.23Å' scene=''>		<StructureSection load='4yeg' size='340' side='right' caption='[[4yeg]], [[Resolution\|resolution]] 2.23Å' scene=''>

OCA at 16:13, 2 December 2015

OCA — Wed, 02 Dec 2015 16:13:29 GMT

←Older revision		Revision as of 16:13, 2 December 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Characterisation of Polyphosphate Kinase 2 from the Intracellular Pathogen Francisella tularensis==
		+	<StructureSection load='4yeg' size='340' side='right' caption='[[4yeg]], [[Resolution\|resolution]] 2.23Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4yeg]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YEG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YEG FirstGlance]. <br>
		+	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Polyphosphate_kinase Polyphosphate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.1 2.7.4.1] </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=4yeg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yeg OCA], [http://pdbe.org/4yeg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yeg RCSB], [http://www.ebi.ac.uk/pdbsum/4yeg PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The metabolism of polyphosphate is important for the virulence of a wide range of pathogenic bacteria and the enzymes of polyphosphate metabolism have been proposed as an antibacterial target. In the intracellular pathogen Francisella tularensis , the product of the gene FTT1564 has been identified as a polyphosphate kinase from the PPK2 family. The isogenic deletion mutant was defective for intracellular growth in macrophages and was attenuated in mice, indicating an important role for polyphosphate in the virulence of Francisella . Herein we report the biochemical and structural characterization of F. tularensis polyphosphate kinase ( Ft PPK2) with a view to characterizing the enzyme as a novel target for inhibitors. Using an HPLC based activity assay the substrate specificity of Ft PPK2 was found to include purine but not pyrimidine nucleotides. The activity was also measured using 31P NMR. Ft PPK2 has been crystallized and the structure determined to 2.23 A resolution. The structure consists of a 6- stranded parallel beta sheet surrounded by 12 alpha helices, with a high degree of similarity to other members of the PPK2 family and the thymidylate kinase superfamily. Residues proposed to be important for substrate binding and catalysis have been identified in the structure, including a lid-loop and the conserved Walker A and B motifs. The DeltaFTT1564 strain showed significantly increased sensitivity to a range of antibiotics in a manner independent of the mode of action of the antibiotic. This combination of biochemical, structural and microbiological data provide a sound foundation for future studies targeting the development of PPK2 small molecule inhibitors.

-	~~The entry 4yeg is ON HOLD until Paper Publication~~	+	Biochemical and Structural Characterization of Polyphosphate Kinase 2 from the Intracellular Pathogen Francisella tularensis.,Batten LE, Parnell AE, Wells NJ, Murch AL, Oyston PC, Roach PL Biosci Rep. 2015 Nov 18. pii: BSR20150203. PMID:26582818<ref>PMID:26582818</ref>

-	~~Authors: Parnell~~, A.E.~~, Roach, P.L~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Characterisation of~~ Polyphosphate ~~Kinase 2 from the Intracellular Pathogen Francisella tularensis~~	+	<div class="pdbe-citations 4yeg" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: Roach, P.L]]	+	<references/>
-	[[Category: ~~Parnell, A.E~~]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Polyphosphate kinase]]
		+	[[Category: Parnell, A E]]
		+	[[Category: Roach, P L]]
		+	[[Category: Polyphosphate kinase enzyme]]
		+	[[Category: Transferase]]

OCA at 11:27, 1 April 2015

OCA — Wed, 01 Apr 2015 11:27:49 GMT

←Older revision		Revision as of 11:27, 1 April 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Parnell, A.E., Roach, P.L.		Authors: Parnell, A.E., Roach, P.L.

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

OCA — Wed, 04 Mar 2015 10:22:34 GMT

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

←Older revision

Revision as of 10:22, 4 March 2015

OCA: New page: '''Unreleased structure''' The entry 4yeg is ON HOLD Authors: Parnell, A.E., Roach, P.L. Description: Characterisation of Polyphosphate Kinase 2 from the Intracellular Pathogen Francis...

OCA — Wed, 04 Mar 2015 10:22:32 GMT

New page: '''Unreleased structure''' The entry 4yeg is ON HOLD Authors: Parnell, A.E., Roach, P.L. Description: Characterisation of Polyphosphate Kinase 2 from the Intracellular Pathogen Francis...

New page

'''Unreleased structure'''

The entry 4yeg is ON HOLD

Authors: Parnell, A.E., Roach, P.L.

Description: Characterisation of Polyphosphate Kinase 2 from the Intracellular Pathogen Francisella tularensis
[[Category: Unreleased Structures]]
[[Category: Roach, P.L]]
[[Category: Parnell, A.E]]