2bj1

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[[Image:2bj1.png|left|200px]]
 
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{{STRUCTURE_2bj1| PDB=2bj1 | SCENE= }}
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==NIKR IN OPEN CONFORMATION AND NICKEL BOUND TO HIGH-AFFINITY SITES==
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<StructureSection load='2bj1' size='340' side='right'caption='[[2bj1]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2bj1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii_OT3 Pyrococcus horikoshii OT3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BJ1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BJ1 FirstGlance]. <br>
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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]] 3&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></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=2bj1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bj1 OCA], [https://pdbe.org/2bj1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bj1 RCSB], [https://www.ebi.ac.uk/pdbsum/2bj1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bj1 ProSAT], [https://www.topsan.org/Proteins/RSGI/2bj1 TOPSAN]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/NIKR_PYRHO NIKR_PYRHO] Transcriptional regulator (Potential).
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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/bj/2bj1_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=2bj1 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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The Pyrococcus horikoshii OT3 genome contains a gene (PH0601 or nikR) encoding a protein (PhNikR) that shares 33.8% amino acid sequence identity with Escherichia coli nickel responsive repressor NikR (EcNikR), including many residues that are functionally important in the E.coli ortholog. We succeeded in crystallization and structural characterization of PhNikR in the apo form and two nickel bound forms that exhibit different conformations, open and closed. Moreover, we have identified a putative "low-affinity" nickel-binding pocket in the closed form. This binding site has unusual nickel coordination and exhibits high sensitivity to phosphate in the crystal structure. Analysis of the PhNikR structures and structure-based mutational studies with EcNikR reveals a plausible mechanism of nickel-dependent promoter recognition by the NikR family of proteins.
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===NIKR IN OPEN CONFORMATION AND NICKEL BOUND TO HIGH-AFFINITY SITES===
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Structure of Pyrococcus horikoshii NikR: nickel sensing and implications for the regulation of DNA recognition.,Chivers PT, Tahirov TH J Mol Biol. 2005 May 6;348(3):597-607. PMID:15826657<ref>PMID:15826657</ref>
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{{ABSTRACT_PUBMED_15826657}}
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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==About this Structure==
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<div class="pdbe-citations 2bj1" style="background-color:#fffaf0;"></div>
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[[2bj1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BJ1 OCA].
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== References ==
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<references/>
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==Reference==
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__TOC__
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<ref group="xtra">PMID:015826657</ref><ref group="xtra">PMID:016508086</ref><references group="xtra"/>
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</StructureSection>
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[[Category: Pyrococcus horikoshii]]
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[[Category: Large Structures]]
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[[Category: Tahirov, T H.]]
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[[Category: Pyrococcus horikoshii OT3]]
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[[Category: Dna-binding]]
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[[Category: Tahirov TH]]
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[[Category: Metal-binding]]
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[[Category: Nickel]]
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[[Category: Nikr]]
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[[Category: Pyrococcus horikoshii]]
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[[Category: Repressor]]
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[[Category: Riken structural genomics/proteomics initiative]]
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[[Category: Rsgi]]
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[[Category: Structural genomic]]
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[[Category: Transcription]]
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[[Category: Transcription regulation]]
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Current revision

NIKR IN OPEN CONFORMATION AND NICKEL BOUND TO HIGH-AFFINITY SITES

PDB ID 2bj1

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