1w61 - Revision history

OCA at 06:36, 1 May 2024

OCA — Wed, 01 May 2024 06:36:14 GMT

←Older revision		Revision as of 06:36, 1 May 2024
Line 3:		Line 3:
	<StructureSection load='1w61' size='340' side='right'caption='[[1w61]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='1w61' size='340' side='right'caption='[[1w61]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1w61]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Trycr Trycr~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1W61 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1w61]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1W61 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=PYC:PYRROLE~~-2~~-CARBOXYLATE'>PYC</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]] 2.1Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1w62\|1w62]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PYC:PYRROLE-2-CARBOXYLATE'>PYC</scene></td></tr>
-	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/Proline_racemase Proline racemase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.4 5.1.1.4]~~ </~~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=1w61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w61 OCA], [https://pdbe.org/1w61 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1w61 RCSB], [https://www.ebi.ac.uk/pdbsum/1w61 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1w61 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=1w61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w61 OCA], [https://pdbe.org/1w61 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1w61 RCSB], [https://www.ebi.ac.uk/pdbsum/1w61 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1w61 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/PRCMA_TRYCC PRCMA_TRYCC] Catalyzes the interconversion of L- and D-proline. Secreted isoform 1 contributes to parasite immune evasion by acting as a B-cell mitogen. Probably involved in parasite differentiation and infectivity.<ref>PMID:10932226</ref> <ref>PMID:16164548</ref> <ref>PMID:16446443</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 19:		Line 20:
	</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=1w61 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=1w61 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Amino acid racemases catalyze the stereoinversion of the chiral C alpha to produce the d-enantiomers that participate in biological processes, such as cell wall construction in prokaryotes. Within this large protein family, bacterial proline racemases have been extensively studied as a model of enzymes acting with a pyridoxal-phosphate-independent mechanism. Here we report the crystal structure of the proline racemase from the human parasite Trypanosoma cruzi (TcPRACA), a secreted enzyme that triggers host B cell polyclonal activation, which prevents specific humoral immune responses and is crucial for parasite evasion and fate. The enzyme is a homodimer, with each monomer folded in two symmetric alpha/beta subunits separated by a deep crevice. The structure of TcPRACA in complex with a transition-state analog, pyrrole-2-carboxylic acid, reveals the presence of one reaction center per monomer, with two Cys residues optimally located to perform acid/base catalysis through a carbanion stabilization mechanism. Mutation of the catalytic Cys residues abolishes the enzymatic activity but preserves the mitogenic properties of the protein. In contrast, inhibitor binding promotes the closure of the interdomain crevice and completely abrogates B cell proliferation, suggesting that the mitogenic properties of TcPRACA depend on the exposure of transient epitopes in the ligand-free enzyme.
-
-	Crystal structure, catalytic mechanism, and mitogenic properties of Trypanosoma cruzi proline racemase.,Buschiazzo A, Goytia M, Schaeffer F, Degrave W, Shepard W, Gregoire C, Chamond N, Cosson A, Berneman A, Coatnoan N, Alzari PM, Minoprio P Proc Natl Acad Sci U S A. 2006 Feb 7;103(6):1705-10. Epub 2006 Jan 30. PMID:16446443<ref>PMID:16446443</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1w61" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 33:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Proline racemase]]~~	+	[[Category: Trypanosoma cruzi]]
-	~~[[Category: Trycr~~]]	+	[[Category: Alzari P]]
-	[[Category: Alzari, P]]	+	[[Category: Buschiazzo A]]
-	[[Category: Buschiazzo, A]]	+
-	~~[[Category: Acid/base catalysis]]~~	+
-	~~[[Category: Alpha/beta domain]]~~	+
-	~~[[Category: B-cell mitogen]]~~	+
-	~~[[Category: Homodimer]]~~	+
-	~~[[Category: Racemase]]~~	+
-	~~[[Category: Racemase pyridoxal phosphate-independent]]~~	+
-	~~[[Category: Stereo inversion~~]]	+

OCA at 13:32, 13 October 2021

OCA — Wed, 13 Oct 2021 13:32:54 GMT

←Older revision		Revision as of 13:32, 13 October 2021
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	<StructureSection load='1w61' size='340' side='right'caption='[[1w61]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='1w61' size='340' side='right'caption='[[1w61]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1w61]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Trycr Trycr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1W61 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1w61]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trycr Trycr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1W61 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYC:PYRROLE-2-CARBOXYLATE'>PYC</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PYC:PYRROLE-2-CARBOXYLATE'>PYC</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1w62\|1w62]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1w62\|1w62]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Proline_racemase Proline racemase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.4 5.1.1.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Proline_racemase Proline racemase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.4 5.1.1.4] </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=1w61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w61 OCA], [~~http~~://pdbe.org/1w61 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1w61 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1w61 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1w61 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=1w61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w61 OCA], [https://pdbe.org/1w61 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1w61 RCSB], [https://www.ebi.ac.uk/pdbsum/1w61 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1w61 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 10:49, 8 January 2020

OCA — Wed, 08 Jan 2020 10:49:54 GMT

←Older revision		Revision as of 10:49, 8 January 2020
Line 1:		Line 1:

	==proline racemase in complex with 2 molecules of pyrrole-2-carboxylic acid (holo form)==		==proline racemase in complex with 2 molecules of pyrrole-2-carboxylic acid (holo form)==
-	<StructureSection load='1w61' size='340' side='right' caption='[[1w61]], [[Resolution\|resolution]] 2.10Å' scene=''>	+	<StructureSection load='1w61' size='340' side='right'caption='[[1w61]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1w61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trycr Trycr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W61 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1w61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trycr Trycr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W61 FirstGlance]. <br>
Line 32:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Proline racemase]]		[[Category: Proline racemase]]
	[[Category: Trycr]]		[[Category: Trycr]]

OCA at 07:51, 4 April 2018

OCA — Wed, 04 Apr 2018 07:51:42 GMT

←Older revision		Revision as of 07:51, 4 April 2018
Line 1:		Line 1:
-	==~~PROLINE RACEMASE IN COMPLEX WITH~~ 2 ~~MOLECULES OF PYRROLE~~-2-~~CARBOXYLIC ACID~~ (~~HOLO FORM~~)==	+
		+	==proline racemase in complex with 2 molecules of pyrrole-2-carboxylic acid (holo form)==
	<StructureSection load='1w61' size='340' side='right' caption='[[1w61]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='1w61' size='340' side='right' caption='[[1w61]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1w62\|1w62]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1w62\|1w62]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proline_racemase Proline racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.4 5.1.1.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proline_racemase Proline racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.4 5.1.1.4] </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=1w61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w61 OCA], [http://pdbe.org/1w61 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1w61 RCSB], [http://www.ebi.ac.uk/pdbsum/1w61 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=1w61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w61 OCA], [http://pdbe.org/1w61 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1w61 RCSB], [http://www.ebi.ac.uk/pdbsum/1w61 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1w61 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/w6/1w61_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/w6/1w61_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>

OCA at 19:38, 9 February 2016

OCA — Tue, 09 Feb 2016 19:38:50 GMT

←Older revision		Revision as of 19:38, 9 February 2016
Line 16:		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=1w61 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:25, 11 September 2015

OCA — Fri, 11 Sep 2015 01:25:42 GMT

←Older revision		Revision as of 01:25, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1w61' size='340' side='right' caption='[[1w61]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='1w61' size='340' side='right' caption='[[1w61]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1w61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Trypanosoma_cruzi Trypanosoma cruzi~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W61 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1w61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trycr Trycr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W61 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYC:PYRROLE-2-CARBOXYLATE'>PYC</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYC:PYRROLE-2-CARBOXYLATE'>PYC</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1w62\|1w62]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1w62\|1w62]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proline_racemase Proline racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.4 5.1.1.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proline_racemase Proline racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.4 5.1.1.4] </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=1w61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w61 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1w61 RCSB], [http://www.ebi.ac.uk/pdbsum/1w61 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=1w61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w61 OCA], [http://pdbe.org/1w61 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1w61 RCSB], [http://www.ebi.ac.uk/pdbsum/1w61 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	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 1w61" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 31:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Proline racemase]]		[[Category: Proline racemase]]
-	[[Category: ~~Trypanosoma cruzi~~]]	+	[[Category: Trycr]]
	[[Category: Alzari, P]]		[[Category: Alzari, P]]
	[[Category: Buschiazzo, A]]		[[Category: Buschiazzo, A]]

OCA at 14:06, 6 January 2015

OCA — Tue, 06 Jan 2015 14:06:28 GMT

OCA at 20:14, 29 September 2014

OCA — Mon, 29 Sep 2014 20:14:54 GMT

←Older revision		Revision as of 20:14, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1w61.~~png~~\|~~left~~\|200px]]	+	==PROLINE RACEMASE IN COMPLEX WITH 2 MOLECULES OF PYRROLE-2-CARBOXYLIC ACID (HOLO FORM)==
		+	<StructureSection load='1w61' size='340' side='right' caption='[[1w61]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1w61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W61 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYC:PYRROLE-2-CARBOXYLATE'>PYC</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1w62\|1w62]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proline_racemase Proline racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.4 5.1.1.4] </span></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=1w61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w61 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1w61 RCSB], [http://www.ebi.ac.uk/pdbsum/1w61 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/w6/1w61_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 ==
		+	Amino acid racemases catalyze the stereoinversion of the chiral C alpha to produce the d-enantiomers that participate in biological processes, such as cell wall construction in prokaryotes. Within this large protein family, bacterial proline racemases have been extensively studied as a model of enzymes acting with a pyridoxal-phosphate-independent mechanism. Here we report the crystal structure of the proline racemase from the human parasite Trypanosoma cruzi (TcPRACA), a secreted enzyme that triggers host B cell polyclonal activation, which prevents specific humoral immune responses and is crucial for parasite evasion and fate. The enzyme is a homodimer, with each monomer folded in two symmetric alpha/beta subunits separated by a deep crevice. The structure of TcPRACA in complex with a transition-state analog, pyrrole-2-carboxylic acid, reveals the presence of one reaction center per monomer, with two Cys residues optimally located to perform acid/base catalysis through a carbanion stabilization mechanism. Mutation of the catalytic Cys residues abolishes the enzymatic activity but preserves the mitogenic properties of the protein. In contrast, inhibitor binding promotes the closure of the interdomain crevice and completely abrogates B cell proliferation, suggesting that the mitogenic properties of TcPRACA depend on the exposure of transient epitopes in the ligand-free enzyme.

-	~~{{STRUCTURE_1w61\| PDB=1w61 \| SCENE= }}~~	+	Crystal structure, catalytic mechanism, and mitogenic properties of Trypanosoma cruzi proline racemase.,Buschiazzo A, Goytia M, Schaeffer F, Degrave W, Shepard W, Gregoire C, Chamond N, Cosson A, Berneman A, Coatnoan N, Alzari PM, Minoprio P Proc Natl Acad Sci U S A. 2006 Feb 7;103(6):1705-10. Epub 2006 Jan 30. PMID:16446443<ref>PMID:16446443</ref>

-	~~===PROLINE RACEMASE IN COMPLEX WITH 2 MOLECULES OF PYRROLE-2-CARBOXYLIC ACID (HOLO FORM)===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16446443}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1w61]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016446443<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Proline racemase]]		[[Category: Proline racemase]]
	[[Category: Trypanosoma cruzi]]		[[Category: Trypanosoma cruzi]]

OCA: Protected "1w61" [edit=sysop:move=sysop]

OCA — Sat, 05 Jan 2013 13:49:45 GMT

Protected "1w61" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:49, 5 January 2013

OCA at 13:49, 5 January 2013

OCA — Sat, 05 Jan 2013 13:49:41 GMT

←Older revision		Revision as of 13:49, 5 January 2013
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-	{{Seed}}
	[[Image:1w61.png\|left\|200px]]		[[Image:1w61.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1w61", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
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	{{STRUCTURE_1w61\| PDB=1w61 \| SCENE= }}		{{STRUCTURE_1w61\| PDB=1w61 \| SCENE= }}

	===PROLINE RACEMASE IN COMPLEX WITH 2 MOLECULES OF PYRROLE-2-CARBOXYLIC ACID (HOLO FORM)===		===PROLINE RACEMASE IN COMPLEX WITH 2 MOLECULES OF PYRROLE-2-CARBOXYLIC ACID (HOLO FORM)===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16446443}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16446443 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16446443}}		{{ABSTRACT_PUBMED_16446443}}

	==About this Structure==		==About this Structure==
-	~~1W61~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA].	+	[[1w61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16446443~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016446443</ref><references group="xtra"/>
	[[Category: Proline racemase]]		[[Category: Proline racemase]]
	[[Category: Trypanosoma cruzi]]		[[Category: Trypanosoma cruzi]]
	[[Category: Alzari, P.]]		[[Category: Alzari, P.]]
	[[Category: Buschiazzo, A.]]		[[Category: Buschiazzo, A.]]
-	[[Category: ~~B-cell mitogen,acid~~/base catalysis~~,homodimer,alpha~~/beta domain]]	+	[[Category: Acid/base catalysis]]
-	[[Category: Racemase pyridoxal phosphate-independent~~,stereo inversion~~]]	+	[[Category: Alpha/beta domain]]
-		+	[[Category: B-cell mitogen]]
-	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Mon Dec 21 15:20:03 2009''~~	+	[[Category: Homodimer]]
		+	[[Category: Racemase]]
		+	[[Category: Racemase pyridoxal phosphate-independent]]
		+	[[Category: Stereo inversion]]

←Older revision		Revision as of 14:06, 6 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1w61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W61 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1w61]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_cruzi Trypanosoma cruzi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W61 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W61 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYC:PYRROLE-2-CARBOXYLATE'>PYC</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYC:PYRROLE-2-CARBOXYLATE'>PYC</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1w62\|1w62]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1w62\|1w62]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proline_racemase Proline racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.4 5.1.1.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Proline_racemase Proline racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.4 5.1.1.4] </span></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=1w61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w61 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1w61 RCSB], [http://www.ebi.ac.uk/pdbsum/1w61 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=1w61 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w61 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1w61 RCSB], [http://www.ebi.ac.uk/pdbsum/1w61 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:
	[[Category: Proline racemase]]		[[Category: Proline racemase]]
	[[Category: Trypanosoma cruzi]]		[[Category: Trypanosoma cruzi]]
-	[[Category: Alzari, P.]]	+	[[Category: Alzari, P]]
-	[[Category: Buschiazzo, A.]]	+	[[Category: Buschiazzo, A]]
	[[Category: Acid/base catalysis]]		[[Category: Acid/base catalysis]]
	[[Category: Alpha/beta domain]]		[[Category: Alpha/beta domain]]