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2h9u

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[[Image:2h9u.jpg|left|200px]]<br /><applet load="2h9u" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2h9u, resolution 2.00&Aring;" />
 
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'''Crystal structure of the archaea specific DNA binding protein'''<br />
 
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==Overview==
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==Crystal structure of the archaea specific DNA binding protein==
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Eukaryotic DNA is packaged into nucleosomes that regulate the accessibility of the genome to replication, transcription and repair factors. Chromatin accessibility is controlled by histone modifications including acetylation and methylation. Archaea possess eukary otic-like machineries for DNA replication, transcription and information processing. The conserved archaeal DNA binding protein Alba (formerly Sso10b) interacts with the silencing protein Sir2, which regulates Alba's DNA binding affinity by deacetylation of a lysine residue. We present the crystal structure of Alba from Sulfolobus solfataricus at 2.6 A resolution (PDB code 1h0x). The fold is reminiscent of the N-terminal DNA binding domain of DNase I and the C-terminal domain of initiation factor IF3. The Alba dimer has two extended beta-hairpins flanking a central body containing the acetylated lysine, Lys16, suggesting three main points of contact with the DNA. Fluorescence, calorimetry and electrophoresis data suggest a final binding stoichiometry of approximately 5 bp DNA per Alba dimer. We present a model for the Alba-DNA interaction consistent with the available structural, biophysical and electron microscopy data.
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<StructureSection load='2h9u' size='340' side='right'caption='[[2h9u]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[2h9u]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aeropyrum_pernix_K1 Aeropyrum pernix K1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H9U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2H9U FirstGlance]. <br>
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2H9U is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Aeropyrum_pernix Aeropyrum pernix] with <scene name='pdbligand=EDO:'>EDO</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H9U OCA].
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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&#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=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
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==Reference==
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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=2h9u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h9u OCA], [https://pdbe.org/2h9u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2h9u RCSB], [https://www.ebi.ac.uk/pdbsum/2h9u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2h9u ProSAT], [https://www.topsan.org/Proteins/RSGI/2h9u TOPSAN]</span></td></tr>
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Structure of Alba: an archaeal chromatin protein modulated by acetylation., Wardleworth BN, Russell RJ, Bell SD, Taylor GL, White MF, EMBO J. 2002 Sep 2;21(17):4654-62. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12198167 12198167]
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</table>
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[[Category: Aeropyrum pernix]]
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== Function ==
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[[Category: Single protein]]
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[https://www.uniprot.org/uniprot/ALBA2_AERPE ALBA2_AERPE] Binds double-stranded DNA tightly but without sequence specificity. It is distributed uniformly and abundantly on the chromosome, suggesting a role in chromatin architecture. However, it does not significantly compact DNA. Binds rRNA and mRNA in vivo. May play a role in maintaining the structural and functional stability of RNA, and, perhaps, ribosomes (By similarity).
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[[Category: Kumarevel, T S.]]
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== Evolutionary Conservation ==
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[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
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[[Image:Consurf_key_small.gif|200px|right]]
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[[Category: Sakamoto, K.]]
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Check<jmol>
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[[Category: Shinkai, A.]]
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<jmolCheckbox>
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[[Category: Yokoyama, S.]]
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/h9/2h9u_consurf.spt"</scriptWhenChecked>
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[[Category: EDO]]
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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[[Category: aeropyrum pernix]]
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<text>to colour the structure by Evolutionary Conservation</text>
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[[Category: archaea]]
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</jmolCheckbox>
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[[Category: crystal structure]]
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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=2h9u ConSurf].
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[[Category: dna binding protein]]
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<div style="clear:both"></div>
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[[Category: national project on protein structural and functional analyses]]
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__TOC__
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[[Category: nppsfa]]
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</StructureSection>
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[[Category: riken structural genomics/proteomics initiative]]
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[[Category: Aeropyrum pernix K1]]
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[[Category: rsgi]]
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[[Category: Large Structures]]
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[[Category: structural genomics]]
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[[Category: Kumarevel TS]]
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[[Category: Sakamoto K]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 17:39:39 2008''
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[[Category: Shinkai A]]
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[[Category: Yokoyama S]]

Current revision

Crystal structure of the archaea specific DNA binding protein

PDB ID 2h9u

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