6any - Revision history

OCA at 14:21, 4 October 2023

OCA — Wed, 04 Oct 2023 14:21:34 GMT

←Older revision		Revision as of 14:21, 4 October 2023
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	==Structure of BmVAL-1==		==Structure of BmVAL-1==
-	<StructureSection load='6any' size='340' side='right' caption='[[6any]], [[Resolution\|resolution]] 2.25Å' scene=''>	+	<StructureSection load='6any' size='340' side='right'caption='[[6any]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6any]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Bruma Bruma~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ANY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6ANY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6any]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Brugia_malayi Brugia malayi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ANY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6ANY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.25Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Bm4233, BM_Bm4233 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6279 BRUMA])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=6any FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6any OCA], [~~http~~://pdbe.org/6any PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6any RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6any PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6any 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=6any FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6any OCA], [https://pdbe.org/6any PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6any RCSB], [https://www.ebi.ac.uk/pdbsum/6any PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6any ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0J9Y762_BRUMA A0A0J9Y762_BRUMA]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bruma~~]]	+	[[Category: Brugia malayi]]
-	[[Category: ~~Asojo, O A~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Ag5]]~~	+	[[Category: Asojo OA]]
-	~~[[Category: Ancylostoma secreted protein]]~~	+
-	~~[[Category: Antigen 5]]~~	+
-	~~[[Category: Asp]]~~	+
-	~~[[Category: Cap]]~~	+
-	~~[[Category: Crisp]]~~	+
-	~~[[Category: Cysteine-rich secretory protein]]~~	+
-	~~[[Category: Excretory-secretory product]]~~	+
-	~~[[Category: Lipid transport]]~~	+
-	~~[[Category: Pathogenesis related-1]]~~	+
-	~~[[Category: Pr-1]]~~	+
-	~~[[Category: Sc7]]~~	+
-	~~[[Category: Scp]]~~	+
-	~~[[Category: Sperm coating protein]]~~	+
-	~~[[Category: Sterol binding]]~~	+
-	~~[[Category: Tap]]~~	+
-	~~[[Category: Testis specific protein]]~~	+
-	~~[[Category: Tpx]]~~	+
-	~~[[Category: Val]]~~	+
-	~~[[Category: Venom allergen-like]]~~	+
-	~~[[Category: Venom antigen 5~~]]	+

OCA at 05:56, 25 April 2018

OCA — Wed, 25 Apr 2018 05:56:42 GMT

←Older revision		Revision as of 05:56, 25 April 2018
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	<StructureSection load='6any' size='340' side='right' caption='[[6any]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='6any' size='340' side='right' caption='[[6any]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6any]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ANY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ANY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6any]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bruma Bruma]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ANY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ANY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Bm4233, BM_Bm4233 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6279 BRUMA])</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=6any FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6any OCA], [http://pdbe.org/6any PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6any RCSB], [http://www.ebi.ac.uk/pdbsum/6any PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6any ProSAT]</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=6any FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6any OCA], [http://pdbe.org/6any PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6any RCSB], [http://www.ebi.ac.uk/pdbsum/6any PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6any ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bruma]]
	[[Category: Asojo, O A]]		[[Category: Asojo, O A]]
	[[Category: Ag5]]		[[Category: Ag5]]

OCA at 06:36, 28 March 2018

OCA — Wed, 28 Mar 2018 06:36:39 GMT

←Older revision		Revision as of 06:36, 28 March 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 6any is ~~ON HOLD until Paper~~ Publication	+	==Structure of BmVAL-1==
		+	<StructureSection load='6any' size='340' side='right' caption='[[6any]], [[Resolution\|resolution]] 2.25Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6any]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ANY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ANY FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=6any FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6any OCA], [http://pdbe.org/6any PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6any RCSB], [http://www.ebi.ac.uk/pdbsum/6any PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6any ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Brugia malayi is a causative agent of lymphatic filariasis, a major tropical disease. The infective L3 parasite stage releases immunomodulatory proteins including the venom allergen-like proteins (VALs), which are members of the SCP/TAPS (Sperm-coating protein/Tpx/antigen 5/pathogenesis related-1/Sc7) superfamily. BmVAL-1 is a major target of host immunity with >90% of infected B. malayi microfilaraemic cases being seropositive for antibodies to BmVAL-1. This study is part of ongoing efforts to characterize the structures and functions of important B. malayi proteins. Recombinant BmVAL-1 was produced using a plant expression system, crystallized and the structure was solved by molecular replacement and refined to 2.1A, revealing the characteristic alpha/beta/alpha sandwich topology of eukaryotic SCP/TAPS proteins. The protein has more than 45% loop regions and these flexible loops connect the helices and strands, which are longer than predicted based on other parasite SCP/TAPS protein structures. The large central cavity of BmVAL-1 is a prototypical CRISP cavity with two histidines required to bind divalent cations. The caveolin-binding motif (CBM) that mediates sterol binding in SCP/TAPS proteins is large and open in BmVAL-1 and is N-glycosylated. N-glycosylation of the CBM does not affect the ability of BmVAL-1 to bind sterol in vitro. BmVAL-1 complements the in vivo sterol export phenotype of yeast mutants lacking their endogenous SCP/TAPS proteins. The in vitro sterol-binding affinity of BmVAL-1 is comparable with Pry1, a yeast sterol transporting SCP/TAPS protein. Sterol binding of BmVAL-1 is dependent on divalent cations. BmVAL-1 also has a large open palmitate-binding cavity, which binds palmitate comparably to tablysin-15, a lipid-binding SCP/TAPS protein. The central cavity, CBM and palmitate-binding cavity of BmVAL-1 are interconnected within the monomer with channels that can serve as pathways for water molecules, cations and small molecules.

-	~~Authors~~:	+	Crystal structure of Brugia malayi venom allergen-like protein-1 (BmVAL-1), a vaccine candidate for lymphatic filariasis.,Darwiche R, Lugo F, Drurey C, Varossieau K, Smant G, Wilbers RHP, Maizels RM, Schneiter R, Asojo OA Int J Parasitol. 2018 Mar 6. pii: S0020-7519(18)30041-9. doi:, 10.1016/j.ijpara.2017.12.003. PMID:29501266<ref>PMID:29501266</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6any" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Asojo, O A]]
		+	[[Category: Ag5]]
		+	[[Category: Ancylostoma secreted protein]]
		+	[[Category: Antigen 5]]
		+	[[Category: Asp]]
		+	[[Category: Cap]]
		+	[[Category: Crisp]]
		+	[[Category: Cysteine-rich secretory protein]]
		+	[[Category: Excretory-secretory product]]
		+	[[Category: Lipid transport]]
		+	[[Category: Pathogenesis related-1]]
		+	[[Category: Pr-1]]
		+	[[Category: Sc7]]
		+	[[Category: Scp]]
		+	[[Category: Sperm coating protein]]
		+	[[Category: Sterol binding]]
		+	[[Category: Tap]]
		+	[[Category: Testis specific protein]]
		+	[[Category: Tpx]]
		+	[[Category: Val]]
		+	[[Category: Venom allergen-like]]
		+	[[Category: Venom antigen 5]]

OCA at 05:43, 25 October 2017

OCA — Wed, 25 Oct 2017 05:43:11 GMT

←Older revision		Revision as of 05:43, 25 October 2017
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6any is ON HOLD	+	The entry 6any is ON HOLD until Paper Publication

	Authors:		Authors:

OCA at 05:26, 11 October 2017

OCA — Wed, 11 Oct 2017 05:26:26 GMT

←Older revision		Revision as of 05:26, 11 October 2017
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6any is ON HOLD ~~until Paper Publication~~	+	The entry 6any is ON HOLD

	Authors:		Authors:

OCA: Protected "6any" [edit=sysop:move=sysop]

OCA — Wed, 27 Sep 2017 16:36:24 GMT

Protected "6any" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:36, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 6any is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 27 Sep 2017 16:36:23 GMT

New page: '''Unreleased structure''' The entry 6any is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6any is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]