2joi: Difference between revisions

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{{Seed}}
[[Image:2joi.png|left|200px]]


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==NMR solution structure of hypothetical protein TA0095 from Thermoplasma acidophilum==
The line below this paragraph, containing "STRUCTURE_2joi", creates the "Structure Box" on the page.
<StructureSection load='2joi' size='340' side='right'caption='[[2joi]]' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[2joi]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoplasma_acidophilum Thermoplasma acidophilum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JOI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JOI FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</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=2joi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2joi OCA], [https://pdbe.org/2joi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2joi RCSB], [https://www.ebi.ac.uk/pdbsum/2joi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2joi ProSAT]</span></td></tr>
{{STRUCTURE_2joi|  PDB=2joi  |  SCENE=  }}
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q9HLX9_THEAC Q9HLX9_THEAC]
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jo/2joi_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</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=2joi ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
TA0095 is a 96-residue hypothetical protein from Thermoplasma acidophilum that exhibits no sequence similarity to any protein of known structure. Also, TA0095 is a member of the COG4004 orthologous group of unknown function found in Archaea bacteria. We determined its three-dimensional structure by NMR methods. The structure displays an alpha/beta two-layer sandwich architecture formed by three alpha-helices and five beta-strands following the order beta1-alpha1-beta2-beta3-beta4-beta5-alpha2-alpha3. Searches for structural homologs indicate that the TA0095 structure belongs to the TBP-like fold, constituting a novel superfamily characterized by an additional C-terminal helix. The TA0095 structure provides a fold common to the COG4004 proteins that will obviously belong to this new superfamily. Most hydrophobic residues conserved in the COG4004 proteins are buried in the structure determined herein, thus underlying their importance for structure stability. Considering that the TA0095 surface shows a large positively charged patch with a high degree of residue conservation within the COG4004 domain, the biological function of TA0095 and the rest of COG4004 proteins might occur through binding a negatively charged molecule. Like other TBP-like fold proteins, the COG4004 proteins might be DNA-binding proteins. The fact that TA0095 is shown to interact with large DNA fragments is in favor of this hypothesis, although nonspecific DNA binding cannot be ruled out.


===NMR solution structure of hypothetical protein TA0095 from Thermoplasma acidophilum===
Solution structure of the hypothetical protein TA0095 from Thermoplasma acidophilum: a novel superfamily with a two-layer sandwich architecture.,Leon E, Yee A, Ortiz AR, Santoro J, Rico M, Jimenez MA Protein Sci. 2007 Oct;16(10):2278-86. Epub 2007 Aug 31. PMID:17766377<ref>PMID:17766377</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
The line below this paragraph, {{ABSTRACT_PUBMED_17766377}}, adds the Publication Abstract to the page
<div class="pdbe-citations 2joi" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 17766377 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_17766377}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
2JOI is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Thermoplasma_acidophilum Thermoplasma acidophilum]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JOI OCA].
 
==Reference==
<ref group="xtra">PMID:17766377</ref><references group="xtra"/>
[[Category: Thermoplasma acidophilum]]
[[Category: Thermoplasma acidophilum]]
[[Category: Jimenez, M.]]
[[Category: Jimenez M]]
[[Category: Leon, E.]]
[[Category: Leon E]]
[[Category: Rico, M.]]
[[Category: Rico M]]
[[Category: SGC, Structural Genomics Consortium.]]
[[Category: Santoro J]]
[[Category: Santoro, J.]]
[[Category: Yee A]]
[[Category: Yee, A.]]
[[Category: Cog4004 orthologous group]]
[[Category: Protein]]
[[Category: Sgc]]
[[Category: Structural genomic]]
[[Category: Structural genomics consortium]]
[[Category: Thermoplasma acidophilum]]
[[Category: Unknown function]]
 
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Retrieved from "https://proteopedia.org/2joi"