7aqz - Revision history

OCA at 07:51, 7 February 2024

2024-02-07T07:51:29Z

←Older revision		Revision as of 07:51, 7 February 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7aqz]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Lama_glama Lama glama] and [https://en.wikipedia.org/wiki/Trypanosoma_brucei_brucei Trypanosoma brucei brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7AQZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7AQZ FirstGlance]. <br>		<table><tr><td colspan='2'>[[7aqz]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Lama_glama Lama glama] and [https://en.wikipedia.org/wiki/Trypanosoma_brucei_brucei Trypanosoma brucei brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7AQZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7AQZ FirstGlance]. <br>
-	</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=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 1.3Å</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=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=7aqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7aqz OCA], [https://pdbe.org/7aqz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7aqz RCSB], [https://www.ebi.ac.uk/pdbsum/7aqz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7aqz 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=7aqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7aqz OCA], [https://pdbe.org/7aqz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7aqz RCSB], [https://www.ebi.ac.uk/pdbsum/7aqz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7aqz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/VSM2_TRYBB VSM2_TRYBB] VSG forms a coat on the surface of the parasite. The trypanosome evades the immune response of the host by expressing a series of antigenically distinct VSGs from an estimated 1000 VSG genes.		[https://www.uniprot.org/uniprot/VSM2_TRYBB VSM2_TRYBB] VSG forms a coat on the surface of the parasite. The trypanosome evades the immune response of the host by expressing a series of antigenically distinct VSGs from an estimated 1000 VSG genes.
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The dense variant surface glycoprotein (VSG) coat of African trypanosomes represents the primary host-pathogen interface. Antigenic variation prevents clearing of the pathogen by employing a large repertoire of antigenically distinct VSG genes, thus neutralizing the host's antibody response. To explore the epitope space of VSGs, we generate anti-VSG nanobodies and combine high-resolution structural analysis of VSG-nanobody complexes with binding assays on living cells, revealing that these camelid antibodies bind deeply inside the coat. One nanobody causes rapid loss of cellular motility, possibly due to blockage of VSG mobility on the coat, whose rapid endocytosis and exocytosis are mechanistically linked to Trypanosoma brucei propulsion and whose density is required for survival. Electron microscopy studies demonstrate that this loss of motility is accompanied by rapid formation and shedding of nanovesicles and nanotubes, suggesting that increased protein crowding on the dense membrane can be a driving force for membrane fission in living cells.
-
-	Nanobody-mediated macromolecular crowding induces membrane fission and remodeling in the African trypanosome.,Hempelmann A, Hartleb L, van Straaten M, Hashemi H, Zeelen JP, Bongers K, Papavasiliou FN, Engstler M, Stebbins CE, Jones NG Cell Rep. 2021 Nov 2;37(5):109923. doi: 10.1016/j.celrep.2021.109923. PMID:34731611<ref>PMID:34731611</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 7aqz" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:06, 18 May 2023

2023-05-18T07:06:10Z

←Older revision		Revision as of 07:06, 18 May 2023
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-	====	+	==Co-Crystal Structure of Variant Surface Glycoprotein VSG2 in complex with Nanobody VSG2(NB14)==
-	<StructureSection load='7aqz' size='340' side='right'caption='[[7aqz]]' scene=''>	+	<StructureSection load='7aqz' size='340' side='right'caption='[[7aqz]], [[Resolution\|resolution]] 1.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7aqz]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Lama_glama Lama glama] and [https://en.wikipedia.org/wiki/Trypanosoma_brucei_brucei Trypanosoma brucei brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7AQZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7AQZ FirstGlance]. <br>
-	</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=7aqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7aqz OCA], [https://pdbe.org/7aqz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7aqz RCSB], [https://www.ebi.ac.uk/pdbsum/7aqz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7aqz ProSAT]</span></td></tr>	+	</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=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=7aqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7aqz OCA], [https://pdbe.org/7aqz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7aqz RCSB], [https://www.ebi.ac.uk/pdbsum/7aqz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7aqz ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/VSM2_TRYBB VSM2_TRYBB] VSG forms a coat on the surface of the parasite. The trypanosome evades the immune response of the host by expressing a series of antigenically distinct VSGs from an estimated 1000 VSG genes.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The dense variant surface glycoprotein (VSG) coat of African trypanosomes represents the primary host-pathogen interface. Antigenic variation prevents clearing of the pathogen by employing a large repertoire of antigenically distinct VSG genes, thus neutralizing the host's antibody response. To explore the epitope space of VSGs, we generate anti-VSG nanobodies and combine high-resolution structural analysis of VSG-nanobody complexes with binding assays on living cells, revealing that these camelid antibodies bind deeply inside the coat. One nanobody causes rapid loss of cellular motility, possibly due to blockage of VSG mobility on the coat, whose rapid endocytosis and exocytosis are mechanistically linked to Trypanosoma brucei propulsion and whose density is required for survival. Electron microscopy studies demonstrate that this loss of motility is accompanied by rapid formation and shedding of nanovesicles and nanotubes, suggesting that increased protein crowding on the dense membrane can be a driving force for membrane fission in living cells.
		+
		+	Nanobody-mediated macromolecular crowding induces membrane fission and remodeling in the African trypanosome.,Hempelmann A, Hartleb L, van Straaten M, Hashemi H, Zeelen JP, Bongers K, Papavasiliou FN, Engstler M, Stebbins CE, Jones NG Cell Rep. 2021 Nov 2;37(5):109923. doi: 10.1016/j.celrep.2021.109923. PMID:34731611<ref>PMID:34731611</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7aqz" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Lama glama]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Trypanosoma brucei brucei]]
		+	[[Category: Hempelmann A]]
		+	[[Category: Stebbins CE]]
		+	[[Category: VanStraaten M]]

OCA at 14:27, 3 November 2021

2021-11-03T14:27:47Z

←Older revision		Revision as of 14:27, 3 November 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7aqz ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7aqz' size='340' side='right'caption='[[7aqz]]' scene=''>
-	~~Authors~~: ~~Stebbins, C~~.E.~~, Hempelmann, A~~.~~, VanStraaten, M~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~: ~~Co-Crystal Structure of Variant Surface Glycoprotein VSG2 in complex with Nanobody VSG2(NB14)~~	+	</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=7aqz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7aqz OCA], [https://pdbe.org/7aqz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7aqz RCSB], [https://www.ebi.ac.uk/pdbsum/7aqz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7aqz ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Hempelmann~~, A]]	+	__TOC__
-	[[Category: ~~Stebbins, C.E~~]]	+	</StructureSection>
-	[[Category: ~~Vanstraaten, M~~]]	+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 05:14, 17 March 2021

2021-03-17T05:14:11Z

←Older revision		Revision as of 05:14, 17 March 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7aqz is ON HOLD	+	The entry 7aqz is ON HOLD until Paper Publication

	Authors: Stebbins, C.E., Hempelmann, A., VanStraaten, M.		Authors: Stebbins, C.E., Hempelmann, A., VanStraaten, M.

OCA at 08:32, 17 February 2021

2021-02-17T08:32:12Z

←Older revision		Revision as of 08:32, 17 February 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7aqz is ON HOLD ~~until Paper Publication~~	+	The entry 7aqz is ON HOLD

	Authors: Stebbins, C.E., Hempelmann, A., VanStraaten, M.		Authors: Stebbins, C.E., Hempelmann, A., VanStraaten, M.
Line 7:		Line 7:
	Description: Co-Crystal Structure of Variant Surface Glycoprotein VSG2 in complex with Nanobody VSG2(NB14)		Description: Co-Crystal Structure of Variant Surface Glycoprotein VSG2 in complex with Nanobody VSG2(NB14)
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Vanstraaten, M]]
	[[Category: Hempelmann, A]]		[[Category: Hempelmann, A]]
	[[Category: Stebbins, C.E]]		[[Category: Stebbins, C.E]]
		+	[[Category: Vanstraaten, M]]

OCA at 05:12, 25 November 2020

2020-11-25T05:12:19Z

←Older revision		Revision as of 05:12, 25 November 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7aqz is ON HOLD	+	The entry 7aqz is ON HOLD until Paper Publication

	Authors: Stebbins, C.E., Hempelmann, A., VanStraaten, M.		Authors: Stebbins, C.E., Hempelmann, A., VanStraaten, M.

OCA: Protected "7aqz" [edit=sysop:move=sysop]

2020-11-04T05:19:17Z

Protected "7aqz" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:19, 4 November 2020

OCA: New page: '''Unreleased structure''' The entry 7aqz is ON HOLD Authors: Stebbins, C.E., Hempelmann, A., VanStraaten, M. Description: Co-Crystal Structure of Variant Surface Glycoprotein VSG2 in ...

2020-11-04T05:19:15Z

New page: '''Unreleased structure''' The entry 7aqz is ON HOLD Authors: Stebbins, C.E., Hempelmann, A., VanStraaten, M. Description: Co-Crystal Structure of Variant Surface Glycoprotein VSG2 in ...

New page

'''Unreleased structure'''

The entry 7aqz is ON HOLD

Authors: Stebbins, C.E., Hempelmann, A., VanStraaten, M.

Description: Co-Crystal Structure of Variant Surface Glycoprotein VSG2 in complex with Nanobody VSG2(NB14)
[[Category: Unreleased Structures]]
[[Category: Vanstraaten, M]]
[[Category: Hempelmann, A]]
[[Category: Stebbins, C.E]]