3hsb

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[[Image:3hsb.jpg|left|200px]]
 
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==Crystal structure of YmaH (Hfq) from Bacillus subtilis in complex with an RNA aptamer==
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The line below this paragraph, containing "STRUCTURE_3hsb", creates the "Structure Box" on the page.
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<StructureSection load='3hsb' size='340' side='right'caption='[[3hsb]], [[Resolution|resolution]] 2.20&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'>[[3hsb]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HSB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HSB 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]] 2.2&#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=3hsb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hsb OCA], [https://pdbe.org/3hsb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hsb RCSB], [https://www.ebi.ac.uk/pdbsum/3hsb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hsb ProSAT]</span></td></tr>
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{{STRUCTURE_3hsb| PDB=3hsb | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/HFQ_BACSU HFQ_BACSU] RNA chaperone that binds small regulatory RNA (sRNAs) and mRNAs to facilitate mRNA translational regulation in response to envelope stress, environmental stress and changes in metabolite concentrations. Also binds with high specificity to tRNAs.[HAMAP-Rule:MF_00436]
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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/hs/3hsb_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=3hsb 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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Bacterial Hfq is a protein that plays an important role in the regulation of genes in cooperation with sRNAs. Escherichia coli Hfq (EcHfq) has two or more sites that bind RNA(s) including U-rich and/or the poly(A) tail of mRNA. However, functional and structural information about Bacillus subtilis Hfq (BsHfq) including the RNA sequences that specifically bind to it remain unknown. Here, we describe RNA aptamers including fragment (AG)(3)A that are recognized by BsHfq and crystal structures of the BsHfq-(AG)(3)A complex at 2.2 A resolution. Mutational and structural studies revealed that the RNA fragment binds to the distal site, one of the two binding sites on Hfq, and identified amino acid residues that are critical for sequence-specific interactions between BsHfq and (AG)(3)A. In particular, R32 appears to interact with G bases in (AG)(3)A. Poly(A) also binds to the distal site of EcHfq, but the overall RNA structure and protein-RNA interaction patterns engaged in the R32 residues of BsHfq-(AG)(3)A differ from those of EcHfq-poly(A). These findings provide novel insight into how the Hfq homologue recognizes RNA.
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===Crystal structure of YmaH (Hfq) from Bacillus subtilis in complex with an RNA aptamer===
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Crystal structure of Hfq from Bacillus subtilis in complex with SELEX-derived RNA aptamer: insight into RNA-binding properties of bacterial Hfq.,Someya T, Baba S, Fujimoto M, Kawai G, Kumasaka T, Nakamura K Nucleic Acids Res. 2012 Feb;40(4):1856-67. Epub 2011 Nov 3. PMID:22053080<ref>PMID:22053080</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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</div>
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<div class="pdbe-citations 3hsb" style="background-color:#fffaf0;"></div>
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==About this Structure==
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==See Also==
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3HSB is a 7 chains structure with sequences from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HSB OCA].
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*[[Protein Hfq 3D structures|Protein Hfq 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
[[Category: Bacillus subtilis]]
[[Category: Bacillus subtilis]]
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[[Category: Baba, S.]]
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[[Category: Large Structures]]
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[[Category: Kawai, G.]]
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[[Category: Baba S]]
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[[Category: Kumasaka, T.]]
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[[Category: Kawai G]]
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[[Category: Nakamura, K.]]
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[[Category: Kumasaka T]]
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[[Category: Someya, T.]]
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[[Category: Nakamura K]]
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[[Category: Protein-rna complex]]
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[[Category: Someya T]]
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[[Category: Rna binding protein-rna complex]]
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[[Category: Rna-binding]]
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[[Category: Sm-like motif]]
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[[Category: Stress response]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 23 08:48:32 2010''
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Current revision

Crystal structure of YmaH (Hfq) from Bacillus subtilis in complex with an RNA aptamer

PDB ID 3hsb

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