4evd - Revision history

OCA at 13:49, 8 November 2023

2023-11-08T13:49:54Z

← Older revision		Revision as of 13:49, 8 November 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4evd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EVD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4EVD FirstGlance]. <br>		<table><tr><td colspan='2'>[[4evd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EVD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4EVD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</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='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</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=4evd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4evd OCA], [https://pdbe.org/4evd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4evd RCSB], [https://www.ebi.ac.uk/pdbsum/4evd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4evd 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=4evd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4evd OCA], [https://pdbe.org/4evd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4evd RCSB], [https://www.ebi.ac.uk/pdbsum/4evd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4evd ProSAT]</span></td></tr>
	</table>		</table>

OCA at 04:18, 7 October 2022

2022-10-07T04:18:31Z

← Older revision		Revision as of 04:18, 7 October 2022
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	==Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocrystallization 50mM)==		==Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocrystallization 50mM)==
	<StructureSection load='4evd' size='340' side='right' caption='[[4evd]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='4evd' size='340' side='right'caption='[[4evd]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4evd]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_43504 Atcc 43504~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EVD OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4EVD FirstGlance]. <br>		<table><tr><td colspan='2'>[[4evd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EVD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4EVD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>~~</td></tr>~~		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene></td></tr>
	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ta8\|3ta8]], [[3t9j\|3t9j]], [[4evb\|4evb]], [[4evc\|4evc]], [[4eve\|4eve]]</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=4evd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4evd OCA], [https://pdbe.org/4evd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4evd RCSB], [https://www.ebi.ac.uk/pdbsum/4evd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4evd ProSAT]</span></td></tr>
	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">napA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 ATCC 43504])~~</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=4evd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4evd OCA], [~~http~~://pdbe.org/4evd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4evd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4evd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4evd ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/G1UIZ2_HELPX G1UIZ2_HELPX]
	<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: ~~Atcc 43504~~]]		[[Category: Helicobacter pylori]]
	[[Category: Akao, N]]		[[Category: Large Structures]]
	[[Category: Fujii, S]]		[[Category: Akao N]]
	[[Category: Tsuruta, O]]		[[Category: Fujii S]]
	[[Category: Yokoyama, H]]		[[Category: Tsuruta O]]
	~~[[Category: Dodecamer]]~~		[[Category: Yokoyama H]]
	~~[[Category: Four-helix bundle]]~~
	~~[[Category: Metal transport~~]]

OCA at 20:31, 11 August 2016

2016-08-11T20:31:42Z

← Older revision		Revision as of 20:31, 11 August 2016
Line 1:		Line 1:

	==Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocrystallization 50mM)==		==Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocrystallization 50mM)==
	<StructureSection load='4evd' size='340' side='right' caption='[[4evd]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='4evd' size='340' side='right' caption='[[4evd]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4evd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Helicobacter_pylori Helicobacter pylori~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EVD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EVD FirstGlance]. <br>		<table><tr><td colspan='2'>[[4evd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EVD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EVD FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ta8\|3ta8]], [[3t9j\|3t9j]], [[4evb\|4evb]], [[4evc\|4evc]], [[4eve\|4eve]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ta8\|3ta8]], [[3t9j\|3t9j]], [[4evb\|4evb]], [[4evc\|4evc]], [[4eve\|4eve]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">napA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 ~~Helicobacter pylori~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">napA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 ATCC 43504])</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=4evd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4evd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4evd RCSB], [http://www.ebi.ac.uk/pdbsum/4evd 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=4evd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4evd OCA], [http://pdbe.org/4evd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4evd RCSB], [http://www.ebi.ac.uk/pdbsum/4evd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4evd 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 4evd" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Helicobacter pylori~~]]		[[Category: Atcc 43504]]
	[[Category: Akao, N]]		[[Category: Akao, N]]
	[[Category: Fujii, S]]		[[Category: Fujii, S]]

OCA at 13:35, 4 January 2015

2015-01-04T13:35:05Z

← Older revision		Revision as of 13:35, 4 January 2015
Line 1:		Line 1:
	[[~~Image~~:~~4evd~~.~~jpg~~\|~~left~~\|~~200px~~]]		==Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocrystallization 50mM)==
			<StructureSection load='4evd' size='340' side='right' caption='[[4evd]], [[Resolution\|resolution]] 2.20Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[4evd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EVD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4EVD FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene></td></tr>
			<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ta8\|3ta8]], [[3t9j\|3t9j]], [[4evb\|4evb]], [[4evc\|4evc]], [[4eve\|4eve]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">napA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=210 Helicobacter 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=4evd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4evd OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4evd RCSB], [http://www.ebi.ac.uk/pdbsum/4evd PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Helicobacter pylori neutrophil-activating protein (HP-NAP) is a Dps-like iron storage protein forming a dodecameric shell, and promotes adhesion of neutrophils to endothelial cells. The crystal structure of HP-NAP in a Zn(2+)- or Cd(2+)-bound form reveals the binding of two zinc or two cadmium ions and their bridged water molecule at the ferroxidase center (FOC). The two zinc ions are coordinated in a tetrahedral manner to the conserved residues among HP-NAP and Dps proteins. The two cadmium ions are coordinated in a trigonal-bipyramidal and distorted octahedral manner. In both structures, the second ion is more weakly coordinated than the first. Another zinc ion is found inside of the negatively-charged threefold-related pore, which is suitable for metal ions to pass through.

	~~{{STRUCTURE_4evd\| PDB=4evd \| SCENE= }}~~		Crystal structure of Helicobacter pylori neutrophil-activating protein with a di-nuclear ferroxidase center in a zinc or cadmium-bound form.,Yokoyama H, Tsuruta O, Akao N, Fujii S Biochem Biophys Res Commun. 2012 Jun 15;422(4):745-50. Epub 2012 May 19. PMID:22618234<ref>PMID:22618234</ref>

	~~===Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocrystallization 50mM)===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_22618234}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[4evd]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Helicobacter_pylori Helicobacter pylori]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=4EVD OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:022618234<~~/~~ref><ref group="xtra">PMID:022297984</ref~~><~~references group="xtra"~~/>
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
	[[Category: Akao, N.]]		[[Category: Akao, N]]
	[[Category: Fujii, S.]]		[[Category: Fujii, S]]
	[[Category: Tsuruta, O.]]		[[Category: Tsuruta, O]]
	[[Category: Yokoyama, H.]]		[[Category: Yokoyama, H]]
	[[Category: Dodecamer]]		[[Category: Dodecamer]]
	[[Category: Four-helix bundle]]		[[Category: Four-helix bundle]]
	[[Category: Metal transport]]		[[Category: Metal transport]]

OCA at 05:45, 27 June 2012

2012-06-27T05:45:30Z

← Older revision		Revision as of 05:45, 27 June 2012
Line 1:		Line 1:
	~~'''Unreleased structure'''~~		[[Image:4evd.jpg\|left\|200px]]

	~~The entry~~ 4evd ~~is ON HOLD~~ ~~until Paper Publication~~		{{STRUCTURE_4evd\| PDB=4evd \| SCENE= }}

	~~Authors: Yokoyama, H., Tsuruta, O., Akao, N., Fujii, S.~~		===Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocrystallization 50mM)===

	~~Description~~: ~~Crystal Structure HP~~-~~NAP from strain YS29 cadmium loaded (Cocrystallization 50mM)~~		{{ABSTRACT_PUBMED_22618234}}

			==About this Structure==
			[[4evd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4EVD OCA].

			==Reference==
			<ref group="xtra">PMID:022618234</ref><ref group="xtra">PMID:022297984</ref><references group="xtra"/>
			[[Category: Helicobacter pylori]]
			[[Category: Akao, N.]]
			[[Category: Fujii, S.]]
			[[Category: Tsuruta, O.]]
			[[Category: Yokoyama, H.]]
			[[Category: Dodecamer]]
			[[Category: Four-helix bundle]]
			[[Category: Metal transport]]

OCA at 05:29, 30 May 2012

2012-05-30T05:29:17Z

← Older revision		Revision as of 05:29, 30 May 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4evd is ON HOLD		The entry 4evd is ON HOLD until Paper Publication

	Authors: Yokoyama, H., Tsuruta, O., Akao, N., Fujii, S.		Authors: Yokoyama, H., Tsuruta, O., Akao, N., Fujii, S.

	Description: Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocrystallization 50mM)		Description: Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocrystallization 50mM)

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

2012-05-02T19:00:51Z

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

← Older revision	Revision as of 19:00, 2 May 2012
(No difference)

OCA: New page: '''Unreleased structure''' The entry 4evd is ON HOLD Authors: Yokoyama, H., Tsuruta, O., Akao, N., Fujii, S. Description: Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocr...

2012-05-02T19:00:50Z

New page: '''Unreleased structure''' The entry 4evd is ON HOLD Authors: Yokoyama, H., Tsuruta, O., Akao, N., Fujii, S. Description: Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocr...

New page

'''Unreleased structure'''

The entry 4evd is ON HOLD

Authors: Yokoyama, H., Tsuruta, O., Akao, N., Fujii, S.

Description: Crystal Structure HP-NAP from strain YS29 cadmium loaded (Cocrystallization 50mM)