1k8h

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{{Seed}}
 
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[[Image:1k8h.png|left|200px]]
 
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==NMR Structure of Small Protein B (SmpB) from Aquifex aeolicus==
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The line below this paragraph, containing "STRUCTURE_1k8h", creates the "Structure Box" on the page.
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<StructureSection load='1k8h' size='340' side='right'caption='[[1k8h]]' 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'>[[1k8h]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1K8H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1K8H 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">Solution NMR</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=1k8h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1k8h OCA], [https://pdbe.org/1k8h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1k8h RCSB], [https://www.ebi.ac.uk/pdbsum/1k8h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1k8h ProSAT]</span></td></tr>
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{{STRUCTURE_1k8h| PDB=1k8h | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/SSRP_AQUAE SSRP_AQUAE] Binds specifically to the SsrA RNA (tmRNA) and is required for stable association of SsrA with ribosomes.
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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/k8/1k8h_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=1k8h 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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Small protein B (SmpB) is an essential component of the highly conserved tmRNA-SmpB system that has the dual function of releasing stalled ribosomes from damaged messenger RNAs and targeting incompletely synthesized protein fragments for degradation. Nuclear magnetic resonance (NMR) analysis of SmpB from Aquifex aeolicus revealed an antiparallel beta-barrel structure, with three helices packed outside the core of the barrel. While the overall structure of SmpB appears to be unique, the structure does contain an embedded oligonucleotide binding fold; in this respect SmpB has similarity to several other RNA-binding proteins that are known to be associated with translation, including IF1, ribosomal protein S17 and the N-terminal domain of aspartyl tRNA synthetase. Conserved amino acids on the protein surface that are most likely to directly interact with the tmRNA were identified. The presence of widely separated clusters of conserved amino acids suggests that SmpB could function either by stabilizing two distal regions of the tmRNA, or by facilitating an interaction between the tmRNA and another component of the translational apparatus.
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===NMR Structure of Small Protein B (SmpB) from Aquifex aeolicus===
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Structure of small protein B: the protein component of the tmRNA-SmpB system for ribosome rescue.,Dong G, Nowakowski J, Hoffman DW EMBO J. 2002 Apr 2;21(7):1845-54. PMID:11927568<ref>PMID:11927568</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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The line below this paragraph, {{ABSTRACT_PUBMED_11927568}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 1k8h" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 11927568 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_11927568}}
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__TOC__
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</StructureSection>
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==About this Structure==
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1K8H is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1K8H OCA].
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==Reference==
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Structure of small protein B: the protein component of the tmRNA-SmpB system for ribosome rescue., Dong G, Nowakowski J, Hoffman DW, EMBO J. 2002 Apr 2;21(7):1845-54. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11927568 11927568]
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[[Category: Aquifex aeolicus]]
[[Category: Aquifex aeolicus]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Dong, G.]]
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[[Category: Dong G]]
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[[Category: Hoffman, D W.]]
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[[Category: Hoffman DW]]
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[[Category: Smpb]]
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[[Category: Ssra associated protein]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 09:56:36 2008''
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Current revision

NMR Structure of Small Protein B (SmpB) from Aquifex aeolicus

PDB ID 1k8h

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