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[[Image:2cad.gif|left|200px]]<br />
<applet load="2cad" size="450" color="white" frame="true" align="right" spinBox="true"
caption="2cad, resolution 2.30&Aring;" />
'''NIKR FROM HELICOBACTER PYLORI IN CLOSED TRANS-CONFORMATION AND NICKEL BOUND TO 2F, 2X AND 2I SITES.'''<br />


==Overview==
==NikR from Helicobacter pylori in closed trans-conformation and nickel bound to 2F, 2X and 2I sites.==
The survival of Helicobacter pylori in the human stomach critically relies, on the availability and use of nickel, an absolute cofactor of the, important virulence determinant urease. Nickel-responsive gene regulation, is mediated by HpNikR, a protein belonging to the ribbon-helix-helix, family of transcriptional regulators. Unlike its homologues, HpNikR acts, as both a repressor and an activator within an acid adaptation cascade. We, report the crystal structure of the full-length HpNikR in a nickel-free, conformation and two nickel-bound structures obtained in different, conditions: Ni1-HpNikR and Ni2-HpNikR. Apo-HpNikR shows the same global, fold as its bacterial homologues although with an unusual closed, trans-conformation and asymmetrical quaternary arrangement. The structure, of ... [[http://ispc.weizmann.ac.il/pmbin/getpm?16872629 (full description)]]
<StructureSection load='2cad' size='340' side='right'caption='[[2cad]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[2cad]] 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=2CAD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CAD FirstGlance]. <br>
2CAD is a [[http://en.wikipedia.org/wiki/Single_protein Single protein]] structure of sequence from [[http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]] with NI, CIT, FMT and GOL as [[http://en.wikipedia.org/wiki/ligands ligands]]. Structure known Active Site: AC1. Full crystallographic information is available from [[http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2CAD OCA]].  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.3&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2cad FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2cad OCA], [https://pdbe.org/2cad PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2cad RCSB], [https://www.ebi.ac.uk/pdbsum/2cad PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2cad ProSAT]</span></td></tr>
Structural basis of the nickel response in Helicobacter pylori: crystal structures of HpNikR in Apo and nickel-bound states., Dian C, Schauer K, Kapp U, McSweeney SM, Labigne A, Terradot L, J Mol Biol. 2006 Aug 25;361(4):715-30. Epub 2006 Jul 7. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16872629 16872629]
</table>
[[Category: Helicobacter pylori]]
== Function ==
[[Category: Single protein]]
[https://www.uniprot.org/uniprot/NIKR_HELPY NIKR_HELPY] Transcriptional regulator (Potential).
[[Category: Dian, C.]]
== Evolutionary Conservation ==
[[Category: Kapp, U.]]
[[Image:Consurf_key_small.gif|200px|right]]
[[Category: Labigne, A.]]
Check<jmol>
[[Category: Mcsweeney, S.M.]]
  <jmolCheckbox>
[[Category: Schauer, K.]]
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ca/2cad_consurf.spt"</scriptWhenChecked>
[[Category: Terradot, L.]]
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
[[Category: CIT]]
    <text>to colour the structure by Evolutionary Conservation</text>
[[Category: FMT]]
  </jmolCheckbox>
[[Category: GOL]]
</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=2cad ConSurf].
[[Category: NI]]
<div style="clear:both"></div>
[[Category: acidic-adaptive response]]
__TOC__
[[Category: dna-binding]]
</StructureSection>
[[Category: hypothetical protein]]
[[Category: Helicobacter pylori 26695]]
[[Category: metal-binding]]
[[Category: Large Structures]]
[[Category: nickel]]
[[Category: Dian C]]
[[Category: nickel uptake]]
[[Category: Kapp U]]
[[Category: ribbon-helix-helix]]
[[Category: Labigne A]]
[[Category: transcription regulator]]
[[Category: McSweeney SM]]
[[Category: transcriptional regulation]]
[[Category: Schauer K]]
 
[[Category: Terradot L]]
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Oct 30 14:31:42 2007''

Latest revision as of 06:38, 1 May 2024

NikR from Helicobacter pylori in closed trans-conformation and nickel bound to 2F, 2X and 2I sites.

2cad, resolution 2.30Å

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