1y2q: Difference between revisions

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[[Image:1y2q.gif|left|200px]]


<!--
==Crystal structure of the editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi==
The line below this paragraph, containing "STRUCTURE_1y2q", creates the "Structure Box" on the page.
<StructureSection load='1y2q' size='340' side='right'caption='[[1y2q]], [[Resolution|resolution]] 1.95&Aring;' 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'>[[1y2q]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y2Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Y2Q 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">X-ray diffraction, [[Resolution|Resolution]] 1.95&#8491;</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=1y2q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y2q OCA], [https://pdbe.org/1y2q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1y2q RCSB], [https://www.ebi.ac.uk/pdbsum/1y2q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1y2q ProSAT]</span></td></tr>
{{STRUCTURE_1y2q|  PDB=1y2q |  SCENE= }}
</table>
== Function ==
[https://www.uniprot.org/uniprot/SYT_PYRAB SYT_PYRAB]
== 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/y2/1y2q_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=1y2q ConSurf].
<div style="clear:both"></div>


'''Crystal structure of the editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi'''
==See Also==
 
*[[Aminoacyl tRNA synthetase 3D structures|Aminoacyl tRNA synthetase 3D structures]]
 
__TOC__
==Overview==
</StructureSection>
We report the crystal structure of an archaea-specific editing domain of threonyl-tRNA synthetase that reveals a marked structural similarity to D-amino acid deacylases found in eubacteria and eukaryotes. The domain can bind D-amino acids despite a low sequence identity to other D-amino acid deacylases. These results together indicate the presence of these deacylases in all three kingdoms of life. This underlines an important role they may have played in enforcing homochirality during translation.
[[Category: Large Structures]]
 
==About this Structure==
1Y2Q is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_abyssi Pyrococcus abyssi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y2Q OCA].
 
==Reference==
A D-amino acid editing module coupled to the translational apparatus in archaea., Dwivedi S, Kruparani SP, Sankaranarayanan R, Nat Struct Mol Biol. 2005 Jun;12(6):556-7. Epub 2005 May 22. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15908961 15908961]
[[Category: Pyrococcus abyssi]]
[[Category: Pyrococcus abyssi]]
[[Category: Single protein]]
[[Category: Dwivedi S]]
[[Category: Threonine--tRNA ligase]]
[[Category: Kruparani SP]]
[[Category: Dwivedi, S.]]
[[Category: Sankaranarayanan R]]
[[Category: Kruparani, S P.]]
[[Category: Sankaranarayanan, R.]]
[[Category: Beta-alpha-beta fold]]
[[Category: Editing domain]]
[[Category: Trna-synthetase]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 15:48:56 2008''

Latest revision as of 13:37, 13 March 2024

Crystal structure of the editing domain of threonyl-tRNA synthetase from Pyrococcus abyssi

1y2q, resolution 1.95Å

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