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3hvm

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{{Seed}}
 
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[[Image:3hvm.jpg|left|200px]]
 
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==Agmatine Deiminase from Helicobacter pylori==
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The line below this paragraph, containing "STRUCTURE_3hvm", creates the "Structure Box" on the page.
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<StructureSection load='3hvm' size='340' side='right'caption='[[3hvm]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3hvm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori_J99 Helicobacter pylori J99]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HVM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HVM FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3hvm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hvm OCA], [https://pdbe.org/3hvm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hvm RCSB], [https://www.ebi.ac.uk/pdbsum/3hvm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hvm ProSAT]</span></td></tr>
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{{STRUCTURE_3hvm| PDB=3hvm | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q9ZN18_HELPJ Q9ZN18_HELPJ]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hv/3hvm_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3hvm ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Helicobacter pylori encodes a potential virulence factor, agmatine deiminase (HpAgD), which catalyzes the conversion of agmatine to N-carbamoyl putrescine (NCP) and ammonia - agmatine is decarboxylated arginine. Agmatine is an endogenous human cell signaling molecule that triggers the innate immune response in humans. Unlike H. pylori, humans do not encode an AgD; it is hypothesized that inhibition of this enzyme would increase the levels of agmatine, and thereby enhance the innate immune response. Taken together, these facts suggest that HpAgD is a potential drug target. Herein we describe the optimized expression, isolation, and purification of HpAgD (10-30 mg/L media). The initial kinetic characterization of this enzyme has also been performed. Additionally, the crystal structure of wild-type HpAgD has been determined at 2.1A resolution. This structure provides a molecular basis for the preferential deimination of agmatine, and identifies Asp198 as a key residue responsible for agmatine recognition, which has been confirmed experimentally. Information gathered from these studies led to the development and characterization of a novel class of haloacetamidine-based HpAgD inactivators. These compounds are the most potent AgD inhibitors ever described.
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===Agmatine Deiminase from Helicobacter pylori===
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Characterization and inactivation of an agmatine deiminase from Helicobacter pylori.,Jones JE, Causey CP, Lovelace L, Knuckley B, Flick H, Lebioda L, Thompson PR Bioorg Chem. 2010 Apr;38(2):62-73. Epub 2009 Nov 29. PMID:20036411<ref>PMID:20036411</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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<!--
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_20036411}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 3hvm" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 20036411 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_20036411}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Helicobacter pylori J99]]
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3HVM is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori_j99 Helicobacter pylori j99]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HVM OCA].
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[[Category: Large Structures]]
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[[Category: Jones J]]
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==Reference==
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[[Category: Lebioda L]]
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<ref group="xtra">PMID:20036411</ref><references group="xtra"/>
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[[Category: Lovelace L]]
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[[Category: Helicobacter pylori j99]]
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[[Category: Thompson P]]
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[[Category: Jones, J.]]
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[[Category: Lebioda, L.]]
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[[Category: Lovelace, L.]]
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[[Category: Thompson, P.]]
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[[Category: Agmatine deiminase]]
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[[Category: Hydrolase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 20 15:47:35 2010''
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Current revision

Agmatine Deiminase from Helicobacter pylori

PDB ID 3hvm

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