2d4r: Difference between revisions

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New page: left|200px<br /><applet load="2d4r" size="350" color="white" frame="true" align="right" spinBox="true" caption="2d4r, resolution 2.40Å" /> '''Crystal structure of...
 
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[[Image:2d4r.gif|left|200px]]<br /><applet load="2d4r" size="350" color="white" frame="true" align="right" spinBox="true"
caption="2d4r, resolution 2.40&Aring;" />
'''Crystal structure of TTHA0849 from Thermus thermophilus HB8'''<br />


==Overview==
==Crystal structure of TTHA0849 from Thermus thermophilus HB8==
The crystal structure of a conserved hypothetical protein, TTHA0849 from, Thermus thermophilus HB8, has been determined at 2.4 A resolution as a, part of a structural and functional genomics project on T. thermophilus, HB8. The main-chain folding shows a compact alpha+beta motif, forming a, hydrophobic cavity in the molecule. A structural similarity search reveals, that it resembles those steroidogenic acute regulatory proteins that, contain the lipid-transfer (START) domain, even though TTHA0849 shows, comparatively weak sequence identity to polyketide cyclases. However, the, size of the ligand-binding cavity is distinctly smaller than other START, domain-containing proteins, suggesting that it catalyses the transfer of, smaller ligand molecules.
<StructureSection load='2d4r' size='340' side='right'caption='[[2d4r]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2d4r]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D4R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2D4R FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2d4r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d4r OCA], [https://pdbe.org/2d4r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2d4r RCSB], [https://www.ebi.ac.uk/pdbsum/2d4r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2d4r ProSAT], [https://www.topsan.org/Proteins/RSGI/2d4r TOPSAN]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q5SK03_THET8 Q5SK03_THET8]
== 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/d4/2d4r_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2d4r ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The crystal structure of a conserved hypothetical protein, TTHA0849 from Thermus thermophilus HB8, has been determined at 2.4 A resolution as a part of a structural and functional genomics project on T. thermophilus HB8. The main-chain folding shows a compact alpha+beta motif, forming a hydrophobic cavity in the molecule. A structural similarity search reveals that it resembles those steroidogenic acute regulatory proteins that contain the lipid-transfer (START) domain, even though TTHA0849 shows comparatively weak sequence identity to polyketide cyclases. However, the size of the ligand-binding cavity is distinctly smaller than other START domain-containing proteins, suggesting that it catalyses the transfer of smaller ligand molecules.


==About this Structure==
Structure of a conserved hypothetical protein, TTHA0849 from Thermus thermophilus HB8, at 2.4 A resolution: a putative member of the StAR-related lipid-transfer (START) domain superfamily.,Nakabayashi M, Shibata N, Komori H, Ueda Y, Iino H, Ebihara A, Kuramitsu S, Higuchi Y Acta Crystallogr Sect F Struct Biol Cryst Commun. 2005 Dec 1;61(Pt, 12):1027-31. Epub 2005 Nov 5. PMID:16511226<ref>PMID:16511226</ref>
2D4R is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus] with <scene name='pdbligand=SO4:'>SO4</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D4R OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
Structure of a conserved hypothetical protein, TTHA0849 from Thermus thermophilus HB8, at 2.4 A resolution: a putative member of the StAR-related lipid-transfer (START) domain superfamily., Nakabayashi M, Shibata N, Komori H, Ueda Y, Iino H, Ebihara A, Kuramitsu S, Higuchi Y, Acta Crystallograph Sect F Struct Biol Cryst Commun. 2005 Dec 1;61(Pt, 12):1027-31. Epub 2005 Nov 5. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16511226 16511226]
</div>
[[Category: Single protein]]
<div class="pdbe-citations 2d4r" style="background-color:#fffaf0;"></div>
[[Category: Thermus thermophilus]]
== References ==
[[Category: Higuchi, Y.]]
<references/>
[[Category: Kuramitsu, S.]]
__TOC__
[[Category: Nakabayashi, M.]]
</StructureSection>
[[Category: RSGI, RIKEN.Structural.Genomics/Proteomics.Initiative.]]
[[Category: Large Structures]]
[[Category: Shibata, N.]]
[[Category: Thermus thermophilus HB8]]
[[Category: SO4]]
[[Category: Higuchi Y]]
[[Category: riken structural genomics/proteomics initiative]]
[[Category: Kuramitsu S]]
[[Category: rsgi]]
[[Category: Nakabayashi M]]
[[Category: start domain]]
[[Category: Shibata N]]
[[Category: structural genomics]]
 
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Retrieved from "https://proteopedia.org/2d4r"