5ube - Revision history

OCA at 13:24, 4 October 2023

OCA — Wed, 04 Oct 2023 13:24:33 GMT

←Older revision		Revision as of 13:24, 4 October 2023
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	<StructureSection load='5ube' size='340' side='right'caption='[[5ube]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5ube' size='340' side='right'caption='[[5ube]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ube]] 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~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UBE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5UBE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ube]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UBE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5UBE FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5ubd\|5ubd]], [[5ubf\|5ubf]]</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]] 2Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">DN30_18, EN12_14105 ([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'>[https://proteopedia.org/fgij/fg.htm?mol=5ube FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ube OCA], [https://pdbe.org/5ube PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ube RCSB], [https://www.ebi.ac.uk/pdbsum/5ube PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ube 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=5ube FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ube OCA], [~~http~~://pdbe.org/5ube PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ube RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ube PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ube ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9KNG2_VIBCH Q9KNG2_VIBCH]
	<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: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Ivashkiv, O]]
-	[[Category: Jeruzalmi, D]]
-	[[Category: Orlova, N]]
-	[[Category: Waldor, M K]]
-	[[Category: Dna binding]]
-	[[Category: Dna binding protein]]
-	[[Category: Dna replication initiation]]
-	[[Category: Secondary chromosome]]
	[[Category: Vibrio cholerae]]		[[Category: Vibrio cholerae]]
		+	[[Category: Ivashkiv O]]
		+	[[Category: Jeruzalmi D]]
		+	[[Category: Orlova N]]
		+	[[Category: Waldor MK]]

OCA at 09:14, 1 January 2020

OCA — Wed, 01 Jan 2020 09:14:36 GMT

←Older revision		Revision as of 09:14, 1 January 2020
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	==Crystal structure of the N-terminal domain (domain 1) of RctB==		==Crystal structure of the N-terminal domain (domain 1) of RctB==
-	<StructureSection load='5ube' size='340' side='right' caption='[[5ube]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='5ube' size='340' side='right'caption='[[5ube]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5ube]] 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]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UBE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5UBE FirstGlance]. <br>		<table><tr><td colspan='2'>[[5ube]] 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]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UBE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5UBE FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Bacillo virgola del koch trevisan 1884]]		[[Category: Bacillo virgola del koch trevisan 1884]]
		+	[[Category: Large Structures]]
	[[Category: Ivashkiv, O]]		[[Category: Ivashkiv, O]]
	[[Category: Jeruzalmi, D]]		[[Category: Jeruzalmi, D]]

OCA at 14:32, 6 November 2017

OCA — Mon, 06 Nov 2017 14:32:31 GMT

←Older revision		Revision as of 14:32, 6 November 2017
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	<StructureSection load='5ube' size='340' side='right' caption='[[5ube]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='5ube' size='340' side='right' caption='[[5ube]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ube]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UBE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5UBE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ube]] 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]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UBE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5UBE FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ubd\|5ubd]], [[5ubf\|5ubf]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ubd\|5ubd]], [[5ubf\|5ubf]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">DN30_18, EN12_14105 ([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=5ube FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ube OCA], [http://pdbe.org/5ube PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ube RCSB], [http://www.ebi.ac.uk/pdbsum/5ube PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ube 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=5ube FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ube OCA], [http://pdbe.org/5ube PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ube RCSB], [http://www.ebi.ac.uk/pdbsum/5ube PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ube ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillo virgola del koch trevisan 1884]]
	[[Category: Ivashkiv, O]]		[[Category: Ivashkiv, O]]
	[[Category: Jeruzalmi, D]]		[[Category: Jeruzalmi, D]]

OCA at 16:42, 18 January 2017

OCA — Wed, 18 Jan 2017 16:42:45 GMT

←Older revision		Revision as of 16:42, 18 January 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5ube is ~~ON HOLD~~	+	==Crystal structure of the N-terminal domain (domain 1) of RctB==
		+	<StructureSection load='5ube' size='340' side='right' caption='[[5ube]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5ube]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UBE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5UBE FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5ubd\|5ubd]], [[5ubf\|5ubf]]</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=5ube FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ube OCA], [http://pdbe.org/5ube PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ube RCSB], [http://www.ebi.ac.uk/pdbsum/5ube PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ube ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The conserved DnaA-oriC system is used to initiate replication of primary chromosomes throughout the bacterial kingdom; however, bacteria with multipartite genomes evolved distinct systems to initiate replication of secondary chromosomes. In the cholera pathogen, Vibrio cholerae, and in related species, secondary chromosome replication requires the RctB initiator protein. Here, we show that RctB consists of four domains. The structure of its central two domains resembles that of several plasmid replication initiators. RctB contains at least three DNA binding winged-helix-turn-helix motifs, and mutations within any of these severely compromise biological activity. In the structure, RctB adopts a head-to-head dimeric configuration that likely reflects the arrangement in solution. Therefore, major structural reorganization likely accompanies complex formation on the head-to-tail array of binding sites in oriCII Our findings support the hypothesis that the second Vibrionaceae chromosome arose from an ancestral plasmid, and that RctB may have evolved additional regulatory features.

-	~~Authors~~:	+	The replication initiator of the cholera pathogen's second chromosome shows structural similarity to plasmid initiators.,Orlova N, Gerding M, Ivashkiv O, Olinares PD, Chait BT, Waldor MK, Jeruzalmi D Nucleic Acids Res. 2016 Dec 27. pii: gkw1288. doi: 10.1093/nar/gkw1288. PMID:28031373<ref>PMID:28031373</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5ube" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ivashkiv, O]]
		+	[[Category: Jeruzalmi, D]]
		+	[[Category: Orlova, N]]
		+	[[Category: Waldor, M K]]
		+	[[Category: Dna binding]]
		+	[[Category: Dna binding protein]]
		+	[[Category: Dna replication initiation]]
		+	[[Category: Secondary chromosome]]
		+	[[Category: Vibrio cholerae]]

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

OCA — Mon, 02 Jan 2017 15:19:19 GMT

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

←Older revision

Revision as of 15:19, 2 January 2017

OCA: New page: '''Unreleased structure''' The entry 5ube is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Mon, 02 Jan 2017 15:19:18 GMT

New page: '''Unreleased structure''' The entry 5ube is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5ube is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]