6qgx - Revision history

OCA at 12:00, 24 January 2024

OCA — Wed, 24 Jan 2024 12:00:50 GMT

←Older revision		Revision as of 12:00, 24 January 2024
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	<StructureSection load='6qgx' size='340' side='right'caption='[[6qgx]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='6qgx' size='340' side='right'caption='[[6qgx]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qgx]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Camelus_glama Camelus glama~~] and [~~http~~://en.wikipedia.org/wiki/~~Eco57 Eco57~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QGX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6QGX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qgx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_O157:H7 Escherichia coli O157:H7] and [https://en.wikipedia.org/wiki/Lama_glama Lama glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QGX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QGX FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=C8E:(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE'>C8E</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]] 2.2Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~bamA, yaeT, Z0188, ECs0179 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=83334 ECO57]~~)</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C8E:(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE'>C8E</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=6qgx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qgx OCA], [~~http~~://pdbe.org/6qgx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6qgx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6qgx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6qgx 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=6qgx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qgx OCA], [https://pdbe.org/6qgx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qgx RCSB], [https://www.ebi.ac.uk/pdbsum/6qgx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qgx ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~BAMA_ECO57 BAMA_ECO57]~~] Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane. Constitutes, with BamD, the core component of the assembly machinery.~~[HAMAP-Rule~~:~~MF_01430]~~	+	[https://www.uniprot.org/uniprot/BAMA_ECOLI BAMA_ECOLI] Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane. Constitutes, with BamD, the core component of the assembly machinery.<ref>PMID:15951436</ref> <ref>PMID:16102012</ref> <ref>PMID:16824102</ref> <ref>PMID:20378773</ref> <ref>PMID:21823654</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6qgx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6qgx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Bam complex 3D structures\|Bam complex 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Camelus glama~~]]	+	[[Category: Escherichia coli O157:H7]]
-	[[Category: ~~Eco57~~]]	+	[[Category: Lama glama]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hartmann, J B]]	+	[[Category: Hartmann J-B]]
-	[[Category: Hiller, S]]	+	[[Category: Hiller S]]
-	[[Category: Jakob~~, R P~~]]	+	[[Category: Jakob RP]]
-	[[Category: Kaur, H]]	+	[[Category: Kaur H]]
-	[[Category: Maier, T]]	+	[[Category: Maier T]]
-	[[Category: Seeger, M]]	+	[[Category: Seeger M]]
-	[[Category: Zahn, M]]	+	[[Category: Zahn M]]
-	[[Category: Zimmermann, I]]	+	[[Category: Zimmermann I]]
-	~~[[Category: Beta-barrel]]~~	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Outer membrane]]~~	+
-	~~[[Category: Protein folding]]~~	+
-	~~[[Category: Protein insertion]]~~	+
-	~~[[Category: Protein maturation~~]]	+

OCA at 06:45, 21 August 2019

OCA — Wed, 21 Aug 2019 06:45:28 GMT

←Older revision		Revision as of 06:45, 21 August 2019
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	<StructureSection load='6qgx' size='340' side='right'caption='[[6qgx]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='6qgx' size='340' side='right'caption='[[6qgx]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qgx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QGX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QGX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qgx]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Camelus_glama Camelus glama] and [http://en.wikipedia.org/wiki/Eco57 Eco57]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QGX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QGX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=C8E:(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE'>C8E</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=C8E:(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE'>C8E</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">bamA, yaeT, Z0188, ECs0179 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83334 ECO57])</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=6qgx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qgx OCA], [http://pdbe.org/6qgx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qgx RCSB], [http://www.ebi.ac.uk/pdbsum/6qgx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qgx 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=6qgx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qgx OCA], [http://pdbe.org/6qgx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qgx RCSB], [http://www.ebi.ac.uk/pdbsum/6qgx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qgx ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Camelus glama]]
		+	[[Category: Eco57]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Hartmann, J B]]		[[Category: Hartmann, J B]]

OCA at 07:05, 26 June 2019

OCA — Wed, 26 Jun 2019 07:05:21 GMT

←Older revision		Revision as of 07:05, 26 June 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6qgx is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of E.coli BamA beta-barrel in complex with nanobody F7==
		+	<StructureSection load='6qgx' size='340' side='right'caption='[[6qgx]], [[Resolution\|resolution]] 2.20Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6qgx]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QGX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QGX FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=C8E:(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE'>C8E</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=6qgx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qgx OCA], [http://pdbe.org/6qgx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qgx RCSB], [http://www.ebi.ac.uk/pdbsum/6qgx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qgx ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/BAMA_ECO57 BAMA_ECO57]] Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane. Constitutes, with BamD, the core component of the assembly machinery.[HAMAP-Rule:MF_01430]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The insertase BamA is an essential protein of the bacterial outer membrane. Its 16-stranded transmembrane beta-barrel contains a lateral gate as a key functional element. This gate is formed by the C-terminal half of the last beta-strand. The BamA barrel was previously found to sample different conformations in aqueous solution, as well as different gate-open, gate-closed, and collapsed conformations in X-ray crystallography and cryo-electron microscopy structures. Here, we report the successful identification of conformation-selective nanobodies that stabilize BamA in specific conformations. While the initial candidate generation and selection protocol was based on established alpaca immunization and phage display selection procedures, the final selection of nanobodies was enhanced by a solution NMR-based screening step to shortlist the targets for crystallization. In this way, three crystal structures of BamA-nanobody complexes were efficiently obtained, showing two types of nanobodies that indeed stabilized BamA in two different conformations, i.e., with open and closed lateral gate, respectively. Then, by correlating the structural data with high resolution NMR spectra, we could for the first time assign the BamA conformational solution ensemble to defined structural states. The new nanobodies will be valuable tools towards understanding the client insertion mechanism of BamA and towards developing improved antibiotics.

-	~~Authors~~:	+	Identification of conformation-selective nanobodies against the membrane protein insertase BamA by an integrated structural biology approach.,Kaur H, Hartmann JB, Jakob RP, Zahn M, Zimmermann I, Maier T, Seeger MA, Hiller S J Biomol NMR. 2019 May 9. pii: 10.1007/s10858-019-00250-8. doi:, 10.1007/s10858-019-00250-8. PMID:31073665<ref>PMID:31073665</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6qgx" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Hartmann, J B]]
		+	[[Category: Hiller, S]]
		+	[[Category: Jakob, R P]]
		+	[[Category: Kaur, H]]
		+	[[Category: Maier, T]]
		+	[[Category: Seeger, M]]
		+	[[Category: Zahn, M]]
		+	[[Category: Zimmermann, I]]
		+	[[Category: Beta-barrel]]
		+	[[Category: Membrane protein]]
		+	[[Category: Outer membrane]]
		+	[[Category: Protein folding]]
		+	[[Category: Protein insertion]]
		+	[[Category: Protein maturation]]

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

OCA — Wed, 30 Jan 2019 06:56:28 GMT

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

←Older revision

Revision as of 06:56, 30 January 2019

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

OCA — Wed, 30 Jan 2019 06:56:26 GMT

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

New page

'''Unreleased structure'''

The entry 6qgx is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]