1xcc - Revision history

OCA at 08:49, 14 February 2024

2024-02-14T08:49:32Z

←Older revision		Revision as of 08:49, 14 February 2024
Line 3:		Line 3:
	<StructureSection load='1xcc' size='340' side='right'caption='[[1xcc]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1xcc' size='340' side='right'caption='[[1xcc]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xcc]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1XCC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xcc]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XCC FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~PY04285 (~~[~~http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=5861 Plasmodium yoelii])~~</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]] 2.3Å</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=1xcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcc OCA], [~~http~~://pdbe.org/1xcc PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1xcc RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1xcc PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1xcc 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=1xcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcc OCA], [https://pdbe.org/1xcc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xcc RCSB], [https://www.ebi.ac.uk/pdbsum/1xcc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xcc ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q86SB3_PLAYE Q86SB3_PLAYE] Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively.[PIRNR:PIRNR000239]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 17:		Line 19:
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1xcc ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1xcc ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Parasites from the protozoan phylum Apicomplexa are responsible for diseases, such as malaria, toxoplasmosis and cryptosporidiosis, all of which have significantly higher rates of mortality and morbidity in economically underdeveloped regions of the world. Advances in vaccine development and drug discovery are urgently needed to control these diseases and can be facilitated by production of purified recombinant proteins from Apicomplexan genomes and determination of their 3D structures. To date, both heterologous expression and crystallization of Apicomplexan proteins have seen only limited success. In an effort to explore the effectiveness of producing and crystallizing proteins on a genome-scale using a standardized methodology, over 400 distinct Plasmodium falciparum target genes were chosen representing different cellular classes, along with select orthologues from four other Plasmodium species as well as Cryptosporidium parvum and Toxoplasma gondii. From a total of 1008 genes from the seven genomes, 304 (30.2%) produced purified soluble proteins and 97 (9.6%) crystallized, culminating in 36 crystal structures. These results demonstrate that, contrary to previous findings, a standardized platform using Escherichia coli can be effective for genome-scale production and crystallography of Apicomplexan proteins. Predictably, orthologous proteins from different Apicomplexan genomes behaved differently in expression, purification and crystallization, although the overall success rates of Plasmodium orthologues do not differ significantly. Their differences were effectively exploited to elevate the overall productivity to levels comparable to the most successful ongoing structural genomics projects: 229 of the 468 target genes produced purified soluble protein from one or more organisms, with 80 and 32 of the purified targets, respectively, leading to crystals and ultimately structures from one or more orthologues.
-
-	Genome-scale protein expression and structural biology of Plasmodium falciparum and related Apicomplexan organisms.,Vedadi M, Lew J, Artz J, Amani M, Zhao Y, Dong A, Wasney GA, Gao M, Hills T, Brokx S, Qiu W, Sharma S, Diassiti A, Alam Z, Melone M, Mulichak A, Wernimont A, Bray J, Loppnau P, Plotnikova O, Newberry K, Sundararajan E, Houston S, Walker J, Tempel W, Bochkarev A, Kozieradzki I, Edwards A, Arrowsmith C, Roos D, Kain K, Hui R Mol Biochem Parasitol. 2007 Jan;151(1):100-10. Epub 2006 Nov 13. PMID:17125854<ref>PMID:17125854</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1xcc" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Peroxiredoxin 3D structures\|Peroxiredoxin 3D structures]]		*[[Peroxiredoxin 3D structures\|Peroxiredoxin 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Plasmodium yoelii]]		[[Category: Plasmodium yoelii]]
-	[[Category: Amani, M]]	+	[[Category: Amani M]]
-	[[Category: Arrowsmith, C]]	+	[[Category: Arrowsmith C]]
-	[[Category: Bochkarev, A]]	+	[[Category: Bochkarev A]]
-	[[Category: Bray, J]]	+	[[Category: Bray J]]
-	[[Category: Edwards, A]]	+	[[Category: Edwards A]]
-	[[Category: Houston, S]]	+	[[Category: Houston S]]
-	[[Category: Hui, R]]	+	[[Category: Hui R]]
-	[[Category: Lew, J]]	+	[[Category: Lew J]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Sharma S]]
-	[[Category: Sharma, S]]	+	[[Category: Sundstrom M]]
-	[[Category: Sundstrom, M]]	+	[[Category: Vedadi M]]
-	[[Category: Vedadi, M]]	+	[[Category: Wasney G]]
-	[[Category: Wasney, G]]	+	[[Category: Xu X]]
-	[[Category: Xu, X]]	+
-	~~[[Category: Sgc]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 09:53, 6 January 2021

2021-01-06T09:53:01Z

←Older revision		Revision as of 09:53, 6 January 2021
Line 1:		Line 1:

	==1-Cys peroxidoxin from Plasmodium Yoelli==		==1-Cys peroxidoxin from Plasmodium Yoelli==
-	<StructureSection load='1xcc' size='340' side='right' caption='[[1xcc]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='1xcc' size='340' side='right'caption='[[1xcc]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1xcc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1XCC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1xcc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1XCC FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY04285 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY04285 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</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=1xcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcc OCA], [http://pdbe.org/1xcc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xcc RCSB], [http://www.ebi.ac.uk/pdbsum/1xcc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xcc 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=1xcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcc OCA], [http://pdbe.org/1xcc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xcc RCSB], [http://www.ebi.ac.uk/pdbsum/1xcc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xcc ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	</div>		</div>
	<div class="pdbe-citations 1xcc" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1xcc" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Peroxiredoxin 3D structures\|Peroxiredoxin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Plasmodium yoelii]]		[[Category: Plasmodium yoelii]]
	[[Category: Amani, M]]		[[Category: Amani, M]]

OCA at 06:45, 15 February 2018

2018-02-15T06:45:06Z

←Older revision		Revision as of 06:45, 15 February 2018
Line 1:		Line 1:
		+
	==1-Cys peroxidoxin from Plasmodium Yoelli==		==1-Cys peroxidoxin from Plasmodium Yoelli==
	<StructureSection load='1xcc' size='340' side='right' caption='[[1xcc]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='1xcc' size='340' side='right' caption='[[1xcc]], [[Resolution\|resolution]] 2.30Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1xcc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCC FirstGlance]. <br>		<table><tr><td colspan='2'>[[1xcc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCC FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY04285 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY04285 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</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=1xcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcc OCA], [http://pdbe.org/1xcc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xcc RCSB], [http://www.ebi.ac.uk/pdbsum/1xcc 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=1xcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcc OCA], [http://pdbe.org/1xcc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xcc RCSB], [http://www.ebi.ac.uk/pdbsum/1xcc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xcc ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 10:		Line 11:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xc/1xcc_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xc/1xcc_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 25:		Line 26:
	</div>		</div>
	<div class="pdbe-citations 1xcc" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1xcc" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Peroxiredoxin\|Peroxiredoxin]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 05:08, 9 February 2016

2016-02-09T05:08:24Z

←Older revision		Revision as of 05:08, 9 February 2016
Line 14:		Line 14:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1xcc ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 18:56, 10 September 2015

2015-09-10T18:56:12Z

←Older revision		Revision as of 18:56, 10 September 2015
Line 4:		Line 4:
	<table><tr><td colspan='2'>[[1xcc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCC FirstGlance]. <br>		<table><tr><td colspan='2'>[[1xcc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCC FirstGlance]. <br>
	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY04285 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</td></tr>		</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY04285 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</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=1xcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xcc RCSB], [http://www.ebi.ac.uk/pdbsum/1xcc 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=1xcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcc OCA], [http://pdbe.org/1xcc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xcc RCSB], [http://www.ebi.ac.uk/pdbsum/1xcc PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 24:		Line 24:
	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 1xcc" style="background-color:#fffaf0;"></div>

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

OCA at 04:38, 25 December 2014

2014-12-25T04:38:43Z

←Older revision		Revision as of 04:38, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1xcc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCC FirstGlance]. <br>		<table><tr><td colspan='2'>[[1xcc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCC FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY04285 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY04285 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1xcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xcc RCSB], [http://www.ebi.ac.uk/pdbsum/1xcc 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=1xcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xcc RCSB], [http://www.ebi.ac.uk/pdbsum/1xcc PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Plasmodium yoelii]]		[[Category: Plasmodium yoelii]]
-	[[Category: Amani, M.]]	+	[[Category: Amani, M]]
-	[[Category: Arrowsmith, C.]]	+	[[Category: Arrowsmith, C]]
-	[[Category: Bochkarev, A.]]	+	[[Category: Bochkarev, A]]
-	[[Category: Bray, J.]]	+	[[Category: Bray, J]]
-	[[Category: Edwards, A.]]	+	[[Category: Edwards, A]]
-	[[Category: Houston, S.]]	+	[[Category: Houston, S]]
-	[[Category: Hui, R.]]	+	[[Category: Hui, R]]
-	[[Category: Lew, J~~.]]~~	+	[[Category: Lew, J]]
-	~~[[Category: SGC, Structural Genomics Consortium.]]~~	+
-	~~[[Category: Sharma, S.]]~~	+
-	~~[[Category: Sundstrom, M.]]~~	+
-	~~[[Category: Vedadi, M.]]~~	+
-	~~[[Category: Wasney, G.]]~~	+
-	~~[[Category: Xu, X.]]~~	+
-	~~[[Category: Sgc~~]]	+
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
-	[[Category: ~~Structural genomics consortium~~]]	+	[[Category: Sharma, S]]
		+	[[Category: Sundstrom, M]]
		+	[[Category: Vedadi, M]]
		+	[[Category: Wasney, G]]
		+	[[Category: Xu, X]]
		+	[[Category: Sgc]]
	[[Category: Unknown function]]		[[Category: Unknown function]]

OCA at 22:04, 28 September 2014

2014-09-28T22:04:34Z

←Older revision		Revision as of 22:04, 28 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1xcc.~~png\|left~~\|200px]]	+	==1-Cys peroxidoxin from Plasmodium Yoelli==
		+	<StructureSection load='1xcc' size='340' side='right' caption='[[1xcc]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1xcc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XCC FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY04285 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1xcc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xcc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1xcc RCSB], [http://www.ebi.ac.uk/pdbsum/1xcc PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xc/1xcc_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Parasites from the protozoan phylum Apicomplexa are responsible for diseases, such as malaria, toxoplasmosis and cryptosporidiosis, all of which have significantly higher rates of mortality and morbidity in economically underdeveloped regions of the world. Advances in vaccine development and drug discovery are urgently needed to control these diseases and can be facilitated by production of purified recombinant proteins from Apicomplexan genomes and determination of their 3D structures. To date, both heterologous expression and crystallization of Apicomplexan proteins have seen only limited success. In an effort to explore the effectiveness of producing and crystallizing proteins on a genome-scale using a standardized methodology, over 400 distinct Plasmodium falciparum target genes were chosen representing different cellular classes, along with select orthologues from four other Plasmodium species as well as Cryptosporidium parvum and Toxoplasma gondii. From a total of 1008 genes from the seven genomes, 304 (30.2%) produced purified soluble proteins and 97 (9.6%) crystallized, culminating in 36 crystal structures. These results demonstrate that, contrary to previous findings, a standardized platform using Escherichia coli can be effective for genome-scale production and crystallography of Apicomplexan proteins. Predictably, orthologous proteins from different Apicomplexan genomes behaved differently in expression, purification and crystallization, although the overall success rates of Plasmodium orthologues do not differ significantly. Their differences were effectively exploited to elevate the overall productivity to levels comparable to the most successful ongoing structural genomics projects: 229 of the 468 target genes produced purified soluble protein from one or more organisms, with 80 and 32 of the purified targets, respectively, leading to crystals and ultimately structures from one or more orthologues.

-	~~{{STRUCTURE_1xcc\| PDB=1xcc \| SCENE= }}~~	+	Genome-scale protein expression and structural biology of Plasmodium falciparum and related Apicomplexan organisms.,Vedadi M, Lew J, Artz J, Amani M, Zhao Y, Dong A, Wasney GA, Gao M, Hills T, Brokx S, Qiu W, Sharma S, Diassiti A, Alam Z, Melone M, Mulichak A, Wernimont A, Bray J, Loppnau P, Plotnikova O, Newberry K, Sundararajan E, Houston S, Walker J, Tempel W, Bochkarev A, Kozieradzki I, Edwards A, Arrowsmith C, Roos D, Kain K, Hui R Mol Biochem Parasitol. 2007 Jan;151(1):100-10. Epub 2006 Nov 13. PMID:17125854<ref>PMID:17125854</ref>

-	~~===1-Cys peroxidoxin from Plasmodium Yoelli===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17125854}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1xcc]] is~~ a ~~4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Plasmodium_yoelii Plasmodium yoelii]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA].~~	+

	==See Also==		==See Also==
	*[[Peroxiredoxin\|Peroxiredoxin]]		*[[Peroxiredoxin\|Peroxiredoxin]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:017125854<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Plasmodium yoelii]]		[[Category: Plasmodium yoelii]]
	[[Category: Amani, M.]]		[[Category: Amani, M.]]

OCA at 12:45, 20 October 2012

2012-10-20T12:45:01Z

←Older revision		Revision as of 12:45, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1xcc]] is a 4 chain structure ~~of [[Peroxiredoxin]]~~ with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA].	+	[[1xcc]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA].

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

OCA: Protected "1xcc" [edit=sysop:move=sysop]

2012-07-26T09:45:42Z

Protected "1xcc" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:45, 26 July 2012

OCA at 09:45, 26 July 2012

2012-07-26T09:45:40Z

←Older revision		Revision as of 09:45, 26 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1xcc.png\|left\|200px]]		[[Image:1xcc.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1xcc", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_1xcc\| PDB=1xcc \| SCENE= }}		{{STRUCTURE_1xcc\| PDB=1xcc \| SCENE= }}

	===1-Cys peroxidoxin from Plasmodium Yoelli===		===1-Cys peroxidoxin from Plasmodium Yoelli===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17125854}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17125854 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17125854}}		{{ABSTRACT_PUBMED_17125854}}

	==About this Structure==		==About this Structure==
-	~~1XCC~~ is a 4 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA].	+	[[1xcc]] is a 4 chain structure of [[Peroxiredoxin]] with sequence from [http://en.wikipedia.org/wiki/Plasmodium_yoelii Plasmodium yoelii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XCC OCA].
		+
		+	==See Also==
		+	*[[Peroxiredoxin\|Peroxiredoxin]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17125854~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017125854</ref><references group="xtra"/>
	[[Category: Plasmodium yoelii]]		[[Category: Plasmodium yoelii]]
	[[Category: Amani, M.]]		[[Category: Amani, M.]]
Line 43:		Line 34:
	[[Category: Structural genomics consortium]]		[[Category: Structural genomics consortium]]
	[[Category: Unknown function]]		[[Category: Unknown function]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 06:43:18 2009''