2djw: Difference between revisions

From Proteopedia
Jump to navigationJump to search
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
New page: left|200px<br /><applet load="2djw" size="350" color="white" frame="true" align="right" spinBox="true" caption="2djw, resolution 2.40Å" /> '''Crystal structure of...
 
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
 
(15 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:2djw.gif|left|200px]]<br /><applet load="2djw" size="350" color="white" frame="true" align="right" spinBox="true"
caption="2djw, resolution 2.40&Aring;" />
'''Crystal structure of TTHA0845 from Thermus thermophilus HB8'''<br />


==Overview==
==Crystal structure of TTHA0845 from Thermus thermophilus HB8==
The stand-alone RAM (regulation of amino-acid metabolism) domain protein, SraA from Thermus thermophilus HB8 (TTHA0845) was crystallized in the, presence of zinc ions. The X-ray crystal structure was determined using a, multiple-wavelength anomalous dispersion technique and was refined at 2.4, A resolution to a final R factor of 25.0%. The monomeric structure is a, betaalphabetabetaalphabeta fold and it dimerizes mainly through, interactions between the antiparallel beta-sheets. Furthermore, five SraA, dimers form a ring with external and internal diameters of 70 and 20 A, respectively. This decameric structure is unique compared with the, octameric and dodecameric structures found for other stand-alone, RAM-domain proteins and the C-terminal RAM domains of Lrp/AsnC-family, proteins.
<StructureSection load='2djw' size='340' side='right'caption='[[2djw]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[2djw]] is a 10 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=2DJW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DJW FirstGlance]. <br>
2DJW 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=ZN:'>ZN</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DJW OCA].
</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=ZN:ZINC+ION'>ZN</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2djw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2djw OCA], [https://pdbe.org/2djw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2djw RCSB], [https://www.ebi.ac.uk/pdbsum/2djw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2djw ProSAT], [https://www.topsan.org/Proteins/RSGI/2djw TOPSAN]</span></td></tr>
Structure of the stand-alone RAM-domain protein from Thermus thermophilus HB8., Nakano N, Okazaki N, Satoh S, Takio K, Kuramitsu S, Shinkai A, Yokoyama S, Acta Crystallograph Sect F Struct Biol Cryst Commun. 2006 Sep 1;62(Pt, 9):855-60. Epub 2006 Aug 26. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16946463 16946463]
</table>
[[Category: Single protein]]
== Function ==
[[Category: Thermus thermophilus]]
[https://www.uniprot.org/uniprot/Q5SK07_THET8 Q5SK07_THET8]  
[[Category: Nakano, N.]]
== Evolutionary Conservation ==
[[Category: Okazaki, N.]]
[[Image:Consurf_key_small.gif|200px|right]]
[[Category: RSGI, RIKEN.Structural.Genomics/Proteomics.Initiative.]]
Check<jmol>
[[Category: Shinkai, A.]]
  <jmolCheckbox>
[[Category: Yokoyama, S.]]
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dj/2djw_consurf.spt"</scriptWhenChecked>
[[Category: ZN]]
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
[[Category: national project on protein structural and functional analyses]]
    <text>to colour the structure by Evolutionary Conservation</text>
[[Category: nppsfa]]
  </jmolCheckbox>
[[Category: riken structural genomics/proteomics initiative]]
</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=2djw ConSurf].
[[Category: rsgi]]
<div style="clear:both"></div>
[[Category: structural genomics]]
__TOC__
[[Category: thermus thermophilus hb8]]
</StructureSection>
 
[[Category: Large Structures]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jan 29 19:04:22 2008''
[[Category: Thermus thermophilus HB8]]
[[Category: Nakano N]]
[[Category: Okazaki N]]
[[Category: Shinkai A]]
[[Category: Yokoyama S]]
Retrieved from "https://proteopedia.org/2djw"