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New page: left|200px<br /><applet load="2a8k" size="450" color="white" frame="true" align="right" spinBox="true" caption="2a8k, resolution 1.5Å" /> '''Structural and Mutati...
 
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[[Image:2a8k.gif|left|200px]]<br /><applet load="2a8k" size="450" color="white" frame="true" align="right" spinBox="true"
caption="2a8k, resolution 1.5&Aring;" />
'''Structural and Mutational Studies of the Catalytic Domain of Colicin E5a tRNA-Specific Ribonuclease'''<br />


==Overview==
==Structural and Mutational Studies of the Catalytic Domain of Colicin E5a tRNA-Specific Ribonuclease==
Colicin E5 specifically cleaves four tRNAs in Escherichia coli that, contain the modified nucleotide queuosine (Q) at the wobble position, thereby preventing protein synthesis and ultimately resulting in cell, death. Here, the crystal structure of the catalytic domain of colicin E5, (E5-CRD) from E. coli was determined at 1.5 A resolution. Unexpectedly, E5-CRD adopts a core folding with a four-stranded beta-sheet packed, against an alpha-helix, seen in the well-studied ribonuclease T1 despite a, lack of sequence similarity. Beyond the core catalytic domain, an, N-terminal helix, a C-terminal beta-strand and loop, and an extended, internal loop constitute an RNA binding cleft. Mutational analysis, identified five amino acids that were important for tRNA substrate binding, and cleavage by E5-CRD. The structure, together with the mutational study, allows us to propose a model of colicin E5-tRNA interactions, suggesting, the molecular basis of tRNA substrate recognition and the mechanism of, tRNA cleavage by colicin E5.
<StructureSection load='2a8k' size='340' side='right'caption='[[2a8k]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2a8k]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2A8K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2A8K 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]] 1.5&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=2a8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2a8k OCA], [https://pdbe.org/2a8k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2a8k RCSB], [https://www.ebi.ac.uk/pdbsum/2a8k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2a8k ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/CEA5_ECOLX CEA5_ECOLX] Colicins are polypeptide toxins produced by and active against E.coli and closely related bacteria. This colicin is an endonuclease.
== 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/a8/2a8k_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=2a8k ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
2A8K is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with CA as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2A8K OCA].
*[[Colicin 3D structures|Colicin 3D structures]]
 
__TOC__
==Reference==
</StructureSection>
Structural and mutational studies of the catalytic domain of colicin E5: a tRNA-specific ribonuclease., Lin YL, Elias Y, Huang RH, Biochemistry. 2005 Aug 9;44(31):10494-500. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16060658 16060658]
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Elias, Y.]]
[[Category: Elias Y]]
[[Category: Huang, R.H.]]
[[Category: Huang RH]]
[[Category: Lin, Y.L.]]
[[Category: Lin YL]]
[[Category: CA]]
[[Category: ribonuclease]]
[[Category: toxin]]
 
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Latest revision as of 09:11, 14 February 2024

Structural and Mutational Studies of the Catalytic Domain of Colicin E5a tRNA-Specific Ribonuclease

2a8k, resolution 1.50Å

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