4tsd - Revision history

OCA at 12:24, 20 December 2023

OCA — Wed, 20 Dec 2023 12:24:29 GMT

←Older revision		Revision as of 12:24, 20 December 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4tsd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori_26695 Helicobacter pylori 26695]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TSD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4TSD FirstGlance]. <br>		<table><tr><td colspan='2'>[[4tsd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori_26695 Helicobacter pylori 26695]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TSD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4TSD FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.53Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=4tsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tsd OCA], [https://pdbe.org/4tsd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4tsd RCSB], [https://www.ebi.ac.uk/pdbsum/4tsd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4tsd 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=4tsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tsd OCA], [https://pdbe.org/4tsd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4tsd RCSB], [https://www.ebi.ac.uk/pdbsum/4tsd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4tsd ProSAT]</span></td></tr>
	</table>		</table>

OCA at 10:53, 15 March 2023

OCA — Wed, 15 Mar 2023 10:53:28 GMT

←Older revision		Revision as of 10:53, 15 March 2023
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	<StructureSection load='4tsd' size='340' side='right'caption='[[4tsd]], [[Resolution\|resolution]] 1.53Å' scene=''>		<StructureSection load='4tsd' size='340' side='right'caption='[[4tsd]], [[Resolution\|resolution]] 1.53Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4tsd]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Campylobacter_pylori Campylobacter~~ pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TSD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4TSD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4tsd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori_26695 Helicobacter pylori 26695]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TSD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4TSD FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4tsz\|4tsz]]</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=4tsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tsd OCA], [https://pdbe.org/4tsd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4tsd RCSB], [https://www.ebi.ac.uk/pdbsum/4tsd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4tsd ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C694_05325, HP_1029 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85962 Campylobacter pylori])</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=4tsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tsd OCA], [~~http~~://pdbe.org/4tsd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4tsd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4tsd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4tsd ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/O25673_HELPY O25673_HELPY]
	<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: ~~Campylobacter~~ pylori]]	+	[[Category: Helicobacter pylori 26695]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Percudani, R]]	+	[[Category: Percudani R]]
-	[[Category: Vallese, F]]	+	[[Category: Vallese F]]
-	[[Category: Zanotti, G]]	+	[[Category: Zanotti G]]
-	~~[[Category: Pfam family pf04074]]~~	+
-	~~[[Category: Unknown function]]~~	+
-	~~[[Category: Zinc binding~~]]	+

OCA at 14:04, 10 May 2019

OCA — Fri, 10 May 2019 14:04:59 GMT

←Older revision		Revision as of 14:04, 10 May 2019
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		+
	==Crystal structure of Helicobacter pylori HP1029==		==Crystal structure of Helicobacter pylori HP1029==
-	<StructureSection load='4tsd' size='340' side='right' caption='[[4tsd]], [[Resolution\|resolution]] 1.53Å' scene=''>	+	<StructureSection load='4tsd' size='340' side='right'caption='[[4tsd]], [[Resolution\|resolution]] 1.53Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4tsd]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TSD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4TSD FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4tsd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Campylobacter_pylori Campylobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TSD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4TSD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4tsz\|4tsz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4tsz\|4tsz]]</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=4tsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tsd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4tsd RCSB], [http://www.ebi.ac.uk/pdbsum/4tsd PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">C694_05325, HP_1029 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85962 Campylobacter pylori])</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=4tsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tsd OCA], [http://pdbe.org/4tsd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4tsd RCSB], [http://www.ebi.ac.uk/pdbsum/4tsd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4tsd ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4tsd" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Campylobacter pylori]]
		+	[[Category: Large Structures]]
	[[Category: Percudani, R]]		[[Category: Percudani, R]]
	[[Category: Vallese, F]]		[[Category: Vallese, F]]

OCA at 08:16, 8 July 2015

OCA — Wed, 08 Jul 2015 08:16:52 GMT

←Older revision		Revision as of 08:16, 8 July 2015
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	<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=4tsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tsd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4tsd RCSB], [http://www.ebi.ac.uk/pdbsum/4tsd PDBsum]</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=4tsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tsd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4tsd RCSB], [http://www.ebi.ac.uk/pdbsum/4tsd PDBsum]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The proteins of the YhcH/YjgK/YiaL (DUF386) family have been implicated in the bacterial metabolism of host-derived sialic acids and biofilm formation, although their precise biochemical function remains enigmatic. We present here the crystal structure of protein HP1029 from Helicobacter pylori. The protein is a homodimer, in which each monomer comprises a molecular core formed by 12 antiparallel beta-strands arranged in two beta-sheets flanked by helices. The sandwich formed by the sheets assumes the shape of a funnel opened at one end, with a zinc ion present at the bottom of the funnel. The crystal structure unequivocally shows that HP1029 belongs to the DUF386 family. Although no bioinformatics evidence has been found for sialic acid catabolism in H. pylori, the genomic context of HP1029 in Helicobacter and related organisms suggests a possible role in the metabolism of bacterial surface saccharides, such as pseudaminic acid and its derivatives.
		+
		+	The crystal structure of Helicobacter pylori HP1029 highlights the functional diversity of the sialic acid-related DUF386 family.,Vallese F, Percudani R, Fischer W, Zanotti G FEBS J. 2015 Jun 12. doi: 10.1111/febs.13344. PMID:26096900<ref>PMID:26096900</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 14:07, 10 June 2015

OCA — Wed, 10 Jun 2015 14:07:30 GMT

←Older revision		Revision as of 14:07, 10 June 2015
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-	'''~~Unreleased structure~~'''	+	==Crystal structure of Helicobacter pylori HP1029==
-		+	<StructureSection load='4tsd' size='340' side='right' caption='[[4tsd]], [[Resolution\|resolution]] 1.53Å' scene=''>
-	~~The entry~~ 4tsd is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4tsd]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4TSD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4TSD FirstGlance]. <br>
-	~~Authors~~: ~~Vallese~~, F., ~~Percudani, R~~., ~~Zanotti, G~~.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4tsz\|4tsz]]</td></tr>
-	~~Description: Crystal structure of Helicobacter pylori HP1029~~	+	<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=4tsd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4tsd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4tsd RCSB], [http://www.ebi.ac.uk/pdbsum/4tsd PDBsum]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Percudani, R]]
	[[Category: Vallese, F]]		[[Category: Vallese, F]]
	[[Category: Zanotti, G]]		[[Category: Zanotti, G]]
-	[[Category: ~~Percudani, R~~]]	+	[[Category: Pfam family pf04074]]
		+	[[Category: Unknown function]]
		+	[[Category: Zinc binding]]

OCA at 17:50, 24 December 2014

OCA — Wed, 24 Dec 2014 17:50:24 GMT

←Older revision		Revision as of 17:50, 24 December 2014
Line 6:		Line 6:

	Description: Crystal structure of Helicobacter pylori HP1029		Description: Crystal structure of Helicobacter pylori HP1029
		+	[[Category: Unreleased Structures]]
		+	[[Category: Vallese, F]]
		+	[[Category: Zanotti, G]]
		+	[[Category: Percudani, R]]

OCA at 01:20, 7 August 2014

OCA — Thu, 07 Aug 2014 01:20:42 GMT

←Older revision		Revision as of 01:20, 7 August 2014
Line 3:		Line 3:
	The entry 4tsd is ON HOLD until Paper Publication		The entry 4tsd is ON HOLD until Paper Publication

-	Authors: Vallese, F., Percudani, r., Zanotti, G*	+	Authors: Vallese, F., Percudani, R., Zanotti, G.

	Description: Crystal structure of Helicobacter pylori HP1029		Description: Crystal structure of Helicobacter pylori HP1029

OCA at 07:32, 2 July 2014

OCA — Wed, 02 Jul 2014 07:32:42 GMT

←Older revision		Revision as of 07:32, 2 July 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4tsd is ON HOLD	+	The entry 4tsd is ON HOLD until Paper Publication

	Authors: Vallese, F., Percudani, r., Zanotti, G*		Authors: Vallese, F., Percudani, r., Zanotti, G*

	Description: Crystal structure of Helicobacter pylori HP1029		Description: Crystal structure of Helicobacter pylori HP1029

OCA: Protected "4tsd" [edit=sysop:move=sysop]

OCA — Wed, 25 Jun 2014 06:04:41 GMT

Protected "4tsd" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:04, 25 June 2014

OCA: New page: '''Unreleased structure''' The entry 4tsd is ON HOLD Authors: Vallese, F., Percudani, r., Zanotti, G* Description: Crystal structure of Helicobacter pylori HP1029

OCA — Wed, 25 Jun 2014 06:04:40 GMT

New page: '''Unreleased structure''' The entry 4tsd is ON HOLD Authors: Vallese, F., Percudani, r., Zanotti, G* Description: Crystal structure of Helicobacter pylori HP1029

New page

'''Unreleased structure'''

The entry 4tsd is ON HOLD

Authors: Vallese, F., Percudani, r., Zanotti, G*

Description: Crystal structure of Helicobacter pylori HP1029