2av4 - Revision history

OCA at 07:30, 23 August 2023

2023-08-23T07:30:21Z

←Older revision		Revision as of 07:30, 23 August 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2av4]] is a 1 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=2AV4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2AV4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2av4]] is a 1 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=2AV4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2AV4 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>~~</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]] 1.73Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~PY07357 ([https~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])~~</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></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=2av4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2av4 OCA], [https://pdbe.org/2av4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2av4 RCSB], [https://www.ebi.ac.uk/pdbsum/2av4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2av4 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=2av4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2av4 OCA], [https://pdbe.org/2av4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2av4 RCSB], [https://www.ebi.ac.uk/pdbsum/2av4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2av4 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q7R866_PLAYO Q7R866_PLAYO]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Plasmodium yoelii]]		[[Category: Plasmodium yoelii]]
-	[[Category: Alam, Z]]	+	[[Category: Alam Z]]
-	[[Category: Arrowsmith~~, C H~~]]	+	[[Category: Arrowsmith CH]]
-	[[Category: Artz, J]]	+	[[Category: Artz J]]
-	[[Category: Bochkarev, A]]	+	[[Category: Bochkarev A]]
-	[[Category: Dong, A]]	+	[[Category: Dong A]]
-	[[Category: Edwards~~, A M~~]]	+	[[Category: Edwards AM]]
-	[[Category: Hui, R]]	+	[[Category: Hui R]]
-	[[Category: Koeieradzki, I]]	+	[[Category: Koeieradzki I]]
-	[[Category: Lew, J]]	+	[[Category: Lew J]]
-	[[Category: Melone, M]]	+	[[Category: Melone M]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Sundstrom M]]
-	[[Category: Sundstrom, M]]	+	[[Category: Vedadi M]]
-	[[Category: Vedadi, M]]	+	[[Category: Wasney G]]
-	[[Category: Wasney, G]]	+	[[Category: Weigelt J]]
-	[[Category: Weigelt, J]]	+	[[Category: Zhao Y]]
-	[[Category: Zhao, Y]]	+
-	~~[[Category: Dim1]]~~	+
-	~~[[Category: Sgc]]~~	+
-	~~[[Category: Thioredoxin-like protein]]~~	+
-	~~[[Category: U5 snrnp-specific 15kd protein]]~~	+
-	~~[[Category: Unknown function~~]]	+

OCA at 08:38, 27 January 2021

2021-01-27T08:38:31Z

←Older revision		Revision as of 08:38, 27 January 2021
Line 1:		Line 1:

	==Crystal structure of Plasmodium yoelii thioredoxin-like protein 4A (DIM1)==		==Crystal structure of Plasmodium yoelii thioredoxin-like protein 4A (DIM1)==
-	<StructureSection load='2av4' size='340' side='right' caption='[[2av4]], [[Resolution\|resolution]] 1.73Å' scene=''>	+	<StructureSection load='2av4' size='340' side='right'caption='[[2av4]], [[Resolution\|resolution]] 1.73Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2av4]] is a 1 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=2AV4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2AV4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2av4]] is a 1 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=2AV4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2AV4 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></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></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY07357 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY07357 ([https://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=2av4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2av4 OCA], [~~http~~://pdbe.org/2av4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2av4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2av4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2av4 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=2av4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2av4 OCA], [https://pdbe.org/2av4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2av4 RCSB], [https://www.ebi.ac.uk/pdbsum/2av4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2av4 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 12:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/av/2av4_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/av/2av4_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 31:		Line 31:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Plasmodium yoelii]]		[[Category: Plasmodium yoelii]]
	[[Category: Alam, Z]]		[[Category: Alam, Z]]

OCA at 13:12, 12 October 2017

2017-10-12T13:12:34Z

←Older revision		Revision as of 13:12, 12 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of Plasmodium yoelii thioredoxin-like protein 4A (DIM1)==		==Crystal structure of Plasmodium yoelii thioredoxin-like protein 4A (DIM1)==
	<StructureSection load='2av4' size='340' side='right' caption='[[2av4]], [[Resolution\|resolution]] 1.73Å' scene=''>		<StructureSection load='2av4' size='340' side='right' caption='[[2av4]], [[Resolution\|resolution]] 1.73Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY07357 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY07357 ([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=2av4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2av4 OCA], [http://pdbe.org/2av4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2av4 RCSB], [http://www.ebi.ac.uk/pdbsum/2av4 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=2av4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2av4 OCA], [http://pdbe.org/2av4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2av4 RCSB], [http://www.ebi.ac.uk/pdbsum/2av4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2av4 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 16:
	<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=2av4 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:03, 11 September 2015

2015-09-11T12:03:43Z

←Older revision		Revision as of 12:03, 11 September 2015
Line 5:		Line 5:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY07357 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY07357 ([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=2av4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2av4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2av4 RCSB], [http://www.ebi.ac.uk/pdbsum/2av4 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=2av4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2av4 OCA], [http://pdbe.org/2av4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2av4 RCSB], [http://www.ebi.ac.uk/pdbsum/2av4 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 25:		Line 25:
	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 2av4" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 16:12, 25 December 2014

2014-12-25T16:12:04Z

←Older revision		Revision as of 16:12, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2av4]] is a 1 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=2AV4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2AV4 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2av4]] is a 1 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=2AV4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2AV4 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene><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></td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY07357 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5861 Plasmodium yoelii])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY07357 ([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=2av4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2av4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2av4 RCSB], [http://www.ebi.ac.uk/pdbsum/2av4 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=2av4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2av4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2av4 RCSB], [http://www.ebi.ac.uk/pdbsum/2av4 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 30:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Plasmodium yoelii]]		[[Category: Plasmodium yoelii]]
-	[[Category: Alam, Z.]]	+	[[Category: Alam, Z]]
-	[[Category: Arrowsmith, C H.]]	+	[[Category: Arrowsmith, C H]]
-	[[Category: Artz, J.]]	+	[[Category: Artz, J]]
-	[[Category: Bochkarev, A.]]	+	[[Category: Bochkarev, A]]
-	[[Category: Dong, A.]]	+	[[Category: Dong, A]]
-	[[Category: Edwards, A M.]]	+	[[Category: Edwards, A M]]
-	[[Category: Hui, R.]]	+	[[Category: Hui, R]]
-	[[Category: Koeieradzki, I.]]	+	[[Category: Koeieradzki, I]]
-	[[Category: Lew, J.]]	+	[[Category: Lew, J]]
-	[[Category: Melone, M.]]	+	[[Category: Melone, M]]
-	[[Category: ~~SGC,~~ Structural ~~Genomics Consortium.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Sundstrom, M.]]	+	[[Category: Sundstrom, M]]
-	[[Category: Vedadi, M.]]	+	[[Category: Vedadi, M]]
-	[[Category: Wasney, G.]]	+	[[Category: Wasney, G]]
-	[[Category: Weigelt, J.]]	+	[[Category: Weigelt, J]]
-	[[Category: Zhao, Y.]]	+	[[Category: Zhao, Y]]
	[[Category: Dim1]]		[[Category: Dim1]]
	[[Category: Sgc]]		[[Category: Sgc]]
-	[[Category: Structural genomic]]
-	[[Category: Structural genomics consortium]]
	[[Category: Thioredoxin-like protein]]		[[Category: Thioredoxin-like protein]]
	[[Category: U5 snrnp-specific 15kd protein]]		[[Category: U5 snrnp-specific 15kd protein]]
	[[Category: Unknown function]]		[[Category: Unknown function]]

OCA at 01:44, 30 September 2014

2014-09-30T01:44:09Z

←Older revision		Revision as of 01:44, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2av4.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of Plasmodium yoelii thioredoxin-like protein 4A (DIM1)==
		+	<StructureSection load='2av4' size='340' side='right' caption='[[2av4]], [[Resolution\|resolution]] 1.73Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2av4]] is a 1 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=2AV4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2AV4 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PY07357 ([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=2av4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2av4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2av4 RCSB], [http://www.ebi.ac.uk/pdbsum/2av4 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/av/2av4_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_2av4\| PDB=2av4 \| 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>

-	~~===Crystal structure~~ of ~~Plasmodium yoelii thioredoxin-like protein 4A (DIM1)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17125854}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2av4]] is a 1 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=2AV4 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:017125854<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Plasmodium yoelii]]		[[Category: Plasmodium yoelii]]
	[[Category: Alam, Z.]]		[[Category: Alam, Z.]]

OCA: Protected "2av4" [edit=sysop:move=sysop]

2013-01-06T10:58:57Z

Protected "2av4" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:58, 6 January 2013

OCA at 10:58, 6 January 2013

2013-01-06T10:58:54Z

←Older revision		Revision as of 10:58, 6 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2av4.png\|left\|200px]]		[[Image:2av4.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2av4", 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_2av4\| PDB=2av4 \| SCENE= }}		{{STRUCTURE_2av4\| PDB=2av4 \| SCENE= }}

	===Crystal structure of Plasmodium yoelii thioredoxin-like protein 4A (DIM1)===		===Crystal structure of Plasmodium yoelii thioredoxin-like protein 4A (DIM1)===

-
-	<!--
-	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==
-	~~2AV4~~ is a 1 chain structure of 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=2AV4 OCA].	+	[[2av4]] is a 1 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=2AV4 OCA].

	==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: Alam, Z.]]		[[Category: Alam, Z.]]
Line 47:		Line 35:
	[[Category: Thioredoxin-like protein]]		[[Category: Thioredoxin-like protein]]
	[[Category: U5 snrnp-specific 15kd protein]]		[[Category: U5 snrnp-specific 15kd protein]]
-		+	[[Category: Unknown function]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Tue Feb 17 21:25:20 2009''~~	+

OCA at 19:25, 17 February 2009

2009-02-17T19:25:23Z

←Older revision		Revision as of 19:25, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2AV4 is a ~~[[Single protein]]~~ structure of 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=2AV4 OCA].	+	2AV4 is a 1 chain structure of 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=2AV4 OCA].

	==Reference==		==Reference==
-	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:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17125854 17125854]~~	+	<ref group="xtra">PMID:17125854</ref><references group="xtra"/>
	[[Category: Plasmodium yoelii]]		[[Category: Plasmodium yoelii]]
-	[[Category: Single protein]]
	[[Category: Alam, Z.]]		[[Category: Alam, Z.]]
	[[Category: Arrowsmith, C H.]]		[[Category: Arrowsmith, C H.]]
Line 49:		Line 48:
	[[Category: U5 snrnp-specific 15kd protein]]		[[Category: U5 snrnp-specific 15kd protein]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue ~~Jul 29 05~~:31:~~11 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 21:25:20 2009''

OCA at 02:31, 29 July 2008

2008-07-29T02:31:15Z

←Older revision		Revision as of 02:31, 29 July 2008
Line 1:		Line 1:
-	[[Image:2av4.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2av4.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_2av4\| PDB=2av4 \| SCENE= }}		{{STRUCTURE_2av4\| PDB=2av4 \| SCENE= }}

-	~~'''~~Crystal structure of Plasmodium yoelii thioredoxin-like protein 4A (DIM1)~~'''~~	+	===Crystal structure of Plasmodium yoelii thioredoxin-like protein 4A (DIM1)===


-	~~==Overview==~~	+	<!--
-	~~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.	+	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}}

	==About this Structure==		==About this Structure==
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	[[Category: Thioredoxin-like protein]]		[[Category: Thioredoxin-like protein]]
	[[Category: U5 snrnp-specific 15kd protein]]		[[Category: U5 snrnp-specific 15kd protein]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 19~~:30:42 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 05:31:11 2008''