5mje - Revision history

OCA at 18:45, 1 November 2023

OCA — Wed, 01 Nov 2023 18:45:57 GMT

←Older revision		Revision as of 18:45, 1 November 2023
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	<StructureSection load='5mje' size='340' side='right'caption='[[5mje]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='5mje' size='340' side='right'caption='[[5mje]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mje]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillo_virgola_del_koch"_trevisan_1884 "bacillo virgola del koch" trevisan 1884~~] and [~~http~~://en.wikipedia.org/wiki/~~Camelus_glama Camelus glama~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MJE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5MJE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mje]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Lama_glama Lama glama] and [https://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MJE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MJE FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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]] 2.599Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">EN12_16040, ERS013138_03879, ERS013140_03929, ERS013166_04476, ERS013173_04173, ERS013186_03907, ERS013199_03648, ERS013200_04302, ERS013207_03773 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=~~666~~ "~~Bacillo virgola del Koch~~" ~~Trevisan 1884]~~)</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=5mje FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mje OCA], [~~http~~://pdbe.org/5mje PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5mje RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5mje PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5mje 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=5mje FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mje OCA], [https://pdbe.org/5mje PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mje RCSB], [https://www.ebi.ac.uk/pdbsum/5mje PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mje ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/HIGB2_VIBCH HIGB2_VIBCH] Toxic component of a toxin-antitoxin (TA) module. Inhibits translation by cleavage of mRNA.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillo virgola del koch trevisan 1884]]~~	+	[[Category: Lama glama]]
-	~~[[Category: Camelus~~ glama]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Hadzi, S~~]]	+	[[Category: Vibrio cholerae]]
-	[[Category: ~~Loris, R~~]]	+	[[Category: Hadzi S]]
-	[[Category: ~~Toxin]]~~	+	[[Category: Loris R]]
-	~~[[Category: Toxin-antitoxin system~~]]	+

OCA at 06:36, 16 October 2019

OCA — Wed, 16 Oct 2019 06:36:46 GMT

←Older revision		Revision as of 06:36, 16 October 2019
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	==Crystal structure of the HigB2 toxin in complex with Nb8==		==Crystal structure of the HigB2 toxin in complex with Nb8==
-	<StructureSection load='5mje' size='340' side='right' caption='[[5mje]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='5mje' size='340' side='right'caption='[[5mje]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5mje]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MJE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MJE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5mje]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillo_virgola_del_koch"_trevisan_1884 "bacillo virgola del koch" trevisan 1884] and [http://en.wikipedia.org/wiki/Camelus_glama Camelus glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MJE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MJE FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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">EN12_16040, ERS013138_03879, ERS013140_03929, ERS013166_04476, ERS013173_04173, ERS013186_03907, ERS013199_03648, ERS013200_04302, ERS013207_03773 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=666 "Bacillo virgola del Koch" Trevisan 1884])</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=5mje FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mje OCA], [http://pdbe.org/5mje PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mje RCSB], [http://www.ebi.ac.uk/pdbsum/5mje PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mje 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=5mje FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mje OCA], [http://pdbe.org/5mje PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mje RCSB], [http://www.ebi.ac.uk/pdbsum/5mje PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mje ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillo virgola del koch trevisan 1884]]
		+	[[Category: Camelus glama]]
		+	[[Category: Large Structures]]
	[[Category: Hadzi, S]]		[[Category: Hadzi, S]]
	[[Category: Loris, R]]		[[Category: Loris, R]]
	[[Category: Toxin]]		[[Category: Toxin]]
	[[Category: Toxin-antitoxin system]]		[[Category: Toxin-antitoxin system]]

OCA at 13:21, 5 April 2017

OCA — Wed, 05 Apr 2017 13:21:41 GMT

←Older revision		Revision as of 13:21, 5 April 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5mje is ~~ON HOLD~~	+	==Crystal structure of the HigB2 toxin in complex with Nb8==
		+	<StructureSection load='5mje' size='340' side='right' caption='[[5mje]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5mje]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MJE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MJE FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=5mje FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mje OCA], [http://pdbe.org/5mje PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mje RCSB], [http://www.ebi.ac.uk/pdbsum/5mje PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mje ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Toxin-antitoxin (TA) modules are small operons involved in bacterial stress response and persistence. higBA operons form a family of TA modules with an inverted gene organization and a toxin belonging to the RelE/ParE superfamily. Here, we present the crystal structures of chromosomally encoded Vibrio cholerae antitoxin (VcHigA2), toxin (VcHigB2) and their complex, which show significant differences in structure and mechanisms of function compared to the higBA module from plasmid Rts1, the defining member of the family. The VcHigB2 is more closely related to Escherichia coli RelE both in terms of overall structure and the organization of its active site. VcHigB2 is neutralized by VcHigA2, a modular protein with an N-terminal intrinsically disordered toxin-neutralizing segment followed by a C-terminal helix-turn-helix dimerization and DNA binding domain. VcHigA2 binds VcHigB2 with picomolar affinity, which is mainly a consequence of entropically favorable de-solvation of a large hydrophobic binding interface and enthalpically favorable folding of the N-terminal domain into an alpha-helix followed by a beta-strand. This interaction displaces helix alpha3 of VcHigB2 and at the same time induces a one-residue shift in the register of beta-strand beta3, thereby flipping the catalytically important Arg64 out of the active site.

-	~~Authors:~~ Hadzi, S., ~~Loris~~, R.	+	Ribosome-dependent Vibrio cholerae mRNAse HigB2 is regulated by a beta-strand sliding mechanism.,Hadzi S, Garcia-Pino A, Haesaerts S, Jurenas D, Gerdes K, Lah J, Loris R Nucleic Acids Res. 2017 Feb 28. doi: 10.1093/nar/gkx138. PMID:28334932<ref>PMID:28334932</ref>

-	~~Description: Crystal structure~~ of the ~~HigB2 toxin in complex with Nb8~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Loris, R]]~~	+	<div class="pdbe-citations 5mje" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Hadzi, S]]		[[Category: Hadzi, S]]
		+	[[Category: Loris, R]]
		+	[[Category: Toxin]]
		+	[[Category: Toxin-antitoxin system]]

OCA: Protected "5mje" [edit=sysop:move=sysop]

OCA — Fri, 09 Dec 2016 16:57:33 GMT

Protected "5mje" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:57, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5mje is ON HOLD Authors: Hadzi, S., Loris, R. Description: Crystal structure of the HigB2 toxin in complex with Nb8 [[Category: Unreleased Structur...

OCA — Fri, 09 Dec 2016 16:57:32 GMT

New page: '''Unreleased structure''' The entry 5mje is ON HOLD Authors: Hadzi, S., Loris, R. Description: Crystal structure of the HigB2 toxin in complex with Nb8 [[Category: Unreleased Structur...

New page

'''Unreleased structure'''

The entry 5mje is ON HOLD

Authors: Hadzi, S., Loris, R.

Description: Crystal structure of the HigB2 toxin in complex with Nb8
[[Category: Unreleased Structures]]
[[Category: Loris, R]]
[[Category: Hadzi, S]]