2cad

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[[Image:2cad.gif|left|200px]]<br /><applet load="2cad" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:2cad.gif|left|200px]]
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caption="2cad, resolution 2.30&Aring;" />
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'''NIKR FROM HELICOBACTER PYLORI IN CLOSED TRANS-CONFORMATION AND NICKEL BOUND TO 2F, 2X AND 2I SITES.'''<br />
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{{Structure
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|PDB= 2cad |SIZE=350|CAPTION= <scene name='initialview01'>2cad</scene>, resolution 2.30&Aring;
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|SITE= <scene name='pdbsite=AC1:Ni+Binding+Site+For+Chain+B'>AC1</scene>
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|LIGAND= <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene> and <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>
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|ACTIVITY=
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|GENE=
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}}
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'''NIKR FROM HELICOBACTER PYLORI IN CLOSED TRANS-CONFORMATION AND NICKEL BOUND TO 2F, 2X AND 2I SITES.'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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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 <scene name='pdbligand=NI:'>NI</scene>, <scene name='pdbligand=CIT:'>CIT</scene>, <scene name='pdbligand=FMT:'>FMT</scene> and <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Known structural/functional Site: <scene name='pdbsite=AC1:Ni+Binding+Site+For+Chain+B'>AC1</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CAD OCA].
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2CAD is a [[Single protein]] structure of 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=2CAD OCA].
==Reference==
==Reference==
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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]
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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://www.ncbi.nlm.nih.gov/pubmed/16872629 16872629]
[[Category: Helicobacter pylori]]
[[Category: Helicobacter pylori]]
[[Category: Single protein]]
[[Category: Single protein]]
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[[Category: transcriptional regulation]]
[[Category: transcriptional regulation]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:46:37 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 16:12:58 2008''

Revision as of 14:12, 20 March 2008

Image:2cad.gif


PDB ID 2cad

Drag the structure with the mouse to rotate
, resolution 2.30Å
Sites:
Ligands: , , and
Coordinates: save as pdb, mmCIF, xml



NIKR FROM HELICOBACTER PYLORI IN CLOSED TRANS-CONFORMATION AND NICKEL BOUND TO 2F, 2X AND 2I SITES.


Overview

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 Ni1-HpNikR in the presence of nickel has two different sides, one showing nickel binding similar to that of known NikRs and the other reflecting an intermediate state. The structure of Ni2-HpNikR obtained using a shorter exposure to nickel provides another snapshot of the nickel incorporation. Altogether, the three structures have allowed us to determine the route for nickel within HpNikR and reveal the cooperativity between the tetramerization domain and the DNA-binding domain. Experiments using point mutations of HpnikR residues involved in nickel internalisation confirm that these residues are critical for HpNikR functions in vivo.

About this Structure

2CAD is a Single protein structure of sequence from Helicobacter pylori. Full crystallographic information is available from OCA.

Reference

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:16872629

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