3del - Revision history

OCA at 08:23, 20 March 2024

2024-03-20T08:23:52Z

←Older revision		Revision as of 08:23, 20 March 2024
Line 3:		Line 3:
	<StructureSection load='3del' size='340' side='right'caption='[[3del]], [[Resolution\|resolution]] 1.92Å' scene=''>		<StructureSection load='3del' size='340' side='right'caption='[[3del]], [[Resolution\|resolution]] 1.92Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3del]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"chlamydozoon_trachomatis"_(busacca_1935)_moshkovski_1945 "chlamydozoon~~ trachomatis~~" (busacca 1935) moshkovski 1945~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DEL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3del]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Chlamydia_trachomatis Chlamydia trachomatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DEL FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1hsl\|1hsl]]</div></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]] 1.92Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">artJ, CT_381 ([https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=813 "Chlamydozoon trachomatis" (Busacca 1935) Moshkovski 1945])~~</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=3del FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3del OCA], [https://pdbe.org/3del PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3del RCSB], [https://www.ebi.ac.uk/pdbsum/3del PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3del 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=3del FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3del OCA], [https://pdbe.org/3del PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3del RCSB], [https://www.ebi.ac.uk/pdbsum/3del PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3del ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/ARTJ_CHLTR ARTJ_CHLTR]] Probably part of an ABC transporter complex involved in arginine transport. Binds arginine (By similarity). Interacts with host epithelial cells, suggesting a role in host-cell adhesion during infection.<ref>PMID:20592031</ref>	+	[https://www.uniprot.org/uniprot/ARTJ_CHLTR ARTJ_CHLTR] Probably part of an ABC transporter complex involved in arginine transport. Binds arginine (By similarity). Interacts with host epithelial cells, suggesting a role in host-cell adhesion during infection.<ref>PMID:20592031</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 20:		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=3del 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=3del ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	We present an interdisciplinary approach that, by incorporating a range of experimental and computational techniques, allows the identification and characterization of functional/immunogenic domains. This approach has been applied to ArtJ, an arginine binding protein whose orthologs in Chlamydiae trachomatis (CT ArtJ) and pneumoniae (CPn ArtJ) are shown to have different immunogenic properties despite a high sequence similarity (60% identity). We have solved the crystallographic structures of CT ArtJ and CPn ArtJ, which are found to display a type-II transporter fold organized in two alpha-beta domains with the arginine-binding region at their interface. Although ArtJ is considered to belong to the periplasm, we found that both domains contain regions exposed on the bacterial surface. Moreover, we show that recombinant ArtJ binds to epithelial cells in vitro, suggesting a role for ArtJ in host-cell adhesion during Chlamydia infection. Experimental epitope mapping and computational analysis of physico-chemical determinants of antibody recognition revealed that immunogenic epitopes reside mainly in the terminal (D1) domain of both CPn and CT ArtJ, while the surface properties of the respective binding-prone regions appear sufficiently different to assume divergent immunogenic behavior. Neutralization assays revealed that sera raised against CPn ArtJ D1 partially reduce both CPn and CT infectivity in vitro, suggesting that functional antibodies directed against this domain may potentially impair chlamydial infectivity. These findings suggest that the approach presented here, combining functional and structure-based analyses of evolutionary-related antigens can be a valuable tool for the identification of cross-species immunogenic epitopes for vaccine development.
-
-	Exploiting antigenic diversity for vaccine design: the Chlamydia ArtJ paradigm.,Soriani M, Petit P, Grifantini R, Petracca R, Gancitano G, Frigimelica E, Nardelli F, Garcia C, Spinelli S, Scarabelli G, Fiorucci S, Affentranger R, Ferrer-Navarro M, Zacharias M, Colombo G, Vuillard L, Daura X, Grandi G J Biol Chem. 2010 Jun 30. PMID:20592031<ref>PMID:20592031</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 3del" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Chlamydia trachomatis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Petit, P]]	+	[[Category: Petit P]]
-	[[Category: Spinelli, S]]	+	[[Category: Spinelli S]]
-	[[Category: Vuillard, L]]	+	[[Category: Vuillard L]]
-	~~[[Category: Arginine binding]]~~	+
-	~~[[Category: Periplasmic protein]]~~	+
-	~~[[Category: Protein binding]]~~	+
-	~~[[Category: Transport protein~~]]	+

OCA at 07:57, 9 February 2022

2022-02-09T07:57:02Z

←Older revision		Revision as of 07:57, 9 February 2022
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	==The structure of CT381, the arginine binding protein from the periplasm Chlamydia trachomatis==		==The structure of CT381, the arginine binding protein from the periplasm Chlamydia trachomatis==
-	<StructureSection load='3del' size='340' side='right' caption='[[3del]], [[Resolution\|resolution]] 1.92Å' scene=''>	+	<StructureSection load='3del' size='340' side='right'caption='[[3del]], [[Resolution\|resolution]] 1.92Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3del]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"chlamydozoon_trachomatis"_(busacca_1935)_moshkovski_1945 "chlamydozoon trachomatis" (busacca 1935) moshkovski 1945]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3DEL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3del]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/"chlamydozoon_trachomatis"_(busacca_1935)_moshkovski_1945 "chlamydozoon trachomatis" (busacca 1935) moshkovski 1945]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DEL FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hsl\|1hsl]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1hsl\|1hsl]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">artJ, CT_381 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=813 "Chlamydozoon trachomatis" (Busacca 1935) Moshkovski 1945])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">artJ, CT_381 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=813 "Chlamydozoon trachomatis" (Busacca 1935) Moshkovski 1945])</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=3del FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3del OCA], [~~http~~://pdbe.org/3del PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3del RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3del PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3del 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=3del FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3del OCA], [https://pdbe.org/3del PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3del RCSB], [https://www.ebi.ac.uk/pdbsum/3del PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3del ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/ARTJ_CHLTR ARTJ_CHLTR]] Probably part of an ABC transporter complex involved in arginine transport. Binds arginine (By similarity). Interacts with host epithelial cells, suggesting a role in host-cell adhesion during infection.<ref>PMID:20592031</ref>	+	[[https://www.uniprot.org/uniprot/ARTJ_CHLTR ARTJ_CHLTR]] Probably part of an ABC transporter complex involved in arginine transport. Binds arginine (By similarity). Interacts with host epithelial cells, suggesting a role in host-cell adhesion during infection.<ref>PMID:20592031</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 31:

	==See Also==		==See Also==
-	*[[ABC transporter\|ABC transporter]]	+	*[[ABC transporter 3D structures\|ABC transporter 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Petit, P]]		[[Category: Petit, P]]
	[[Category: Spinelli, S]]		[[Category: Spinelli, S]]

OCA at 09:37, 14 November 2018

2018-11-14T09:37:00Z

←Older revision		Revision as of 09:37, 14 November 2018
Line 1:		Line 1:
		+
	==The structure of CT381, the arginine binding protein from the periplasm Chlamydia trachomatis==		==The structure of CT381, the arginine binding protein from the periplasm Chlamydia trachomatis==
	<StructureSection load='3del' size='340' side='right' caption='[[3del]], [[Resolution\|resolution]] 1.92Å' scene=''>		<StructureSection load='3del' size='340' side='right' caption='[[3del]], [[Resolution\|resolution]] 1.92Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hsl\|1hsl]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hsl\|1hsl]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">artJ, CT_381 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=813 "Chlamydozoon trachomatis" (Busacca 1935) Moshkovski 1945])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">artJ, CT_381 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=813 "Chlamydozoon trachomatis" (Busacca 1935) Moshkovski 1945])</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=3del FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3del OCA], [http://pdbe.org/3del PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3del RCSB], [http://www.ebi.ac.uk/pdbsum/3del 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=3del FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3del OCA], [http://pdbe.org/3del PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3del RCSB], [http://www.ebi.ac.uk/pdbsum/3del PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3del ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/de/3del_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/de/3del_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 08:07, 10 February 2016

2016-02-10T08:07:23Z

←Older revision		Revision as of 08:07, 10 February 2016
Line 2:		Line 2:
	<StructureSection load='3del' size='340' side='right' caption='[[3del]], [[Resolution\|resolution]] 1.92Å' scene=''>		<StructureSection load='3del' size='340' side='right' caption='[[3del]], [[Resolution\|resolution]] 1.92Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3del]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Chlamydia_trachomatis Chlamydia~~ trachomatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DEL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3del]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"chlamydozoon_trachomatis"_(busacca_1935)_moshkovski_1945 "chlamydozoon trachomatis" (busacca 1935) moshkovski 1945]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DEL FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hsl\|1hsl]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hsl\|1hsl]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">artJ, CT_381 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=813 ~~Chlamydia~~ trachomatis])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">artJ, CT_381 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=813 "Chlamydozoon trachomatis" (Busacca 1935) Moshkovski 1945])</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=3del FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3del OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3del RCSB], [http://www.ebi.ac.uk/pdbsum/3del 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=3del FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3del OCA], [http://pdbe.org/3del PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3del RCSB], [http://www.ebi.ac.uk/pdbsum/3del PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 17:
	<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=3del ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 27:
	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 3del" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Chlamydia trachomatis]]
	[[Category: Petit, P]]		[[Category: Petit, P]]
	[[Category: Spinelli, S]]		[[Category: Spinelli, S]]

OCA at 12:54, 25 December 2014

2014-12-25T12:54:37Z

←Older revision		Revision as of 12:54, 25 December 2014
Line 7:		Line 7:
	<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=3del FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3del OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3del RCSB], [http://www.ebi.ac.uk/pdbsum/3del 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=3del FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3del OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3del RCSB], [http://www.ebi.ac.uk/pdbsum/3del PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ARTJ_CHLTR ARTJ_CHLTR]] Probably part of an ABC transporter complex involved in arginine transport. Binds arginine (By similarity). Interacts with host epithelial cells, suggesting a role in host-cell adhesion during infection.<ref>PMID:20592031</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 08:22, 12 November 2014

2014-11-12T08:22:06Z

←Older revision		Revision as of 08:22, 12 November 2014
Line 1:		Line 1:
-	[[~~Image:~~3del.~~png~~\|~~left~~\|200px]]	+	==The structure of CT381, the arginine binding protein from the periplasm Chlamydia trachomatis==
		+	<StructureSection load='3del' size='340' side='right' caption='[[3del]], [[Resolution\|resolution]] 1.92Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3del]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlamydia_trachomatis Chlamydia trachomatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DEL FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1hsl\|1hsl]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">artJ, CT_381 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=813 Chlamydia trachomatis])</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=3del FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3del OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3del RCSB], [http://www.ebi.ac.uk/pdbsum/3del 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/de/3del_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 ==
		+	We present an interdisciplinary approach that, by incorporating a range of experimental and computational techniques, allows the identification and characterization of functional/immunogenic domains. This approach has been applied to ArtJ, an arginine binding protein whose orthologs in Chlamydiae trachomatis (CT ArtJ) and pneumoniae (CPn ArtJ) are shown to have different immunogenic properties despite a high sequence similarity (60% identity). We have solved the crystallographic structures of CT ArtJ and CPn ArtJ, which are found to display a type-II transporter fold organized in two alpha-beta domains with the arginine-binding region at their interface. Although ArtJ is considered to belong to the periplasm, we found that both domains contain regions exposed on the bacterial surface. Moreover, we show that recombinant ArtJ binds to epithelial cells in vitro, suggesting a role for ArtJ in host-cell adhesion during Chlamydia infection. Experimental epitope mapping and computational analysis of physico-chemical determinants of antibody recognition revealed that immunogenic epitopes reside mainly in the terminal (D1) domain of both CPn and CT ArtJ, while the surface properties of the respective binding-prone regions appear sufficiently different to assume divergent immunogenic behavior. Neutralization assays revealed that sera raised against CPn ArtJ D1 partially reduce both CPn and CT infectivity in vitro, suggesting that functional antibodies directed against this domain may potentially impair chlamydial infectivity. These findings suggest that the approach presented here, combining functional and structure-based analyses of evolutionary-related antigens can be a valuable tool for the identification of cross-species immunogenic epitopes for vaccine development.

-	~~{{STRUCTURE_3del\| PDB=3del \| SCENE= }}~~	+	Exploiting antigenic diversity for vaccine design: the Chlamydia ArtJ paradigm.,Soriani M, Petit P, Grifantini R, Petracca R, Gancitano G, Frigimelica E, Nardelli F, Garcia C, Spinelli S, Scarabelli G, Fiorucci S, Affentranger R, Ferrer-Navarro M, Zacharias M, Colombo G, Vuillard L, Daura X, Grandi G J Biol Chem. 2010 Jun 30. PMID:20592031<ref>PMID:20592031</ref>

-	~~===The structure of CT381~~, the ~~arginine binding protein from the periplasm Chlamydia trachomatis===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_20592031}}~~	+	==See Also==
-		+	*[[ABC transporter\|ABC transporter]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~3del~~]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlamydia_trachomatis Chlamydia trachomatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:020592031<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Chlamydia trachomatis]]		[[Category: Chlamydia trachomatis]]
-	[[Category: Petit, P.]]	+	[[Category: Petit, P]]
-	[[Category: Spinelli, S.]]	+	[[Category: Spinelli, S]]
-	[[Category: Vuillard, L.]]	+	[[Category: Vuillard, L]]
	[[Category: Arginine binding]]		[[Category: Arginine binding]]
	[[Category: Periplasmic protein]]		[[Category: Periplasmic protein]]
	[[Category: Protein binding]]		[[Category: Protein binding]]
	[[Category: Transport protein]]		[[Category: Transport protein]]

OCA: Protected "3del" [edit=sysop:move=sysop]

2013-01-07T20:11:22Z

Protected "3del" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:11, 7 January 2013

OCA at 20:11, 7 January 2013

2013-01-07T20:11:19Z

←Older revision		Revision as of 20:11, 7 January 2013
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-	{{Seed}}
	[[Image:3del.png\|left\|200px]]		[[Image:3del.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3del", 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_3del\| PDB=3del \| SCENE= }}		{{STRUCTURE_3del\| PDB=3del \| SCENE= }}

	===The structure of CT381, the arginine binding protein from the periplasm Chlamydia trachomatis===		===The structure of CT381, the arginine binding protein from the periplasm Chlamydia trachomatis===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20592031}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20592031 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20592031}}		{{ABSTRACT_PUBMED_20592031}}

	==About this Structure==		==About this Structure==
-	~~3DEL~~ is a 4 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Chlamydia_trachomatis Chlamydia trachomatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA].	+	[[3del]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Chlamydia_trachomatis Chlamydia trachomatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20592031~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020592031</ref><references group="xtra"/>
	[[Category: Chlamydia trachomatis]]		[[Category: Chlamydia trachomatis]]
	[[Category: Petit, P.]]		[[Category: Petit, P.]]
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	[[Category: Protein binding]]		[[Category: Protein binding]]
	[[Category: Transport protein]]		[[Category: Transport protein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 14 15:58:14 2010''

OCA at 11:52, 14 July 2010

2010-07-14T11:52:05Z

←Older revision		Revision as of 11:52, 14 July 2010
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:3del.~~jpg~~\|left\|200px]]	+	[[Image:3del.png\|left\|200px]]

	<!--		<!--
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	===The structure of CT381, the arginine binding protein from the periplasm Chlamydia trachomatis===		===The structure of CT381, the arginine binding protein from the periplasm Chlamydia trachomatis===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20592031}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20592031 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20592031}}

	==About this Structure==		==About this Structure==
-	3DEL is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Chlamydia_trachomatis Chlamydia trachomatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA].	+	3DEL is a 4 chains structure with sequences from [http://en.wikipedia.org/wiki/Chlamydia_trachomatis Chlamydia trachomatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20592031</ref><references group="xtra"/>
	[[Category: Chlamydia trachomatis]]		[[Category: Chlamydia trachomatis]]
	[[Category: Petit, P.]]		[[Category: Petit, P.]]
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	[[Category: Transport protein]]		[[Category: Transport protein]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jun 17 11~~:20:~~45 2009~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 14 15:58:14 2010''

OCA at 08:20, 17 June 2009

2009-06-17T08:20:48Z

←Older revision		Revision as of 08:20, 17 June 2009
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-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3del.jpg\|left\|200px]]

-	The ~~entry 3del~~ is ~~ON HOLD~~ ~~until Jun 10 2010~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3del", 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_3del\| PDB=3del \| SCENE= }}

-	~~Authors: Petit~~, ~~P., Vuillard, L., Spinelli, S.~~	+	===The structure of CT381, the arginine binding protein from the periplasm Chlamydia trachomatis===

-	Description: The structure of CT381, the arginine binding protein from the periplasm Chlamydia trachomatis

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri Jul~~ 11 13:06:~~51 2008~~''	+	==About this Structure==
		+	3DEL is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Chlamydia_trachomatis Chlamydia trachomatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DEL OCA].
		+	[[Category: Chlamydia trachomatis]]
		+	[[Category: Petit, P.]]
		+	[[Category: Spinelli, S.]]
		+	[[Category: Vuillard, L.]]
		+	[[Category: Arginine binding]]
		+	[[Category: Periplasmic protein]]
		+	[[Category: Protein binding]]
		+	[[Category: Transport protein]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 17 11:20:45 2009''