4px8: Difference between revisions

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'''Unreleased structure'''


The entry 4px8 is ON HOLD  until Dec 30 2016
==Structure of P. vulgaris HigB toxin==
<StructureSection load='4px8' size='340' side='right'caption='[[4px8]], [[Resolution|resolution]] 1.25&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[4px8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Proteus_vulgaris Proteus vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PX8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PX8 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]] 1.25&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</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=4px8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4px8 OCA], [https://pdbe.org/4px8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4px8 RCSB], [https://www.ebi.ac.uk/pdbsum/4px8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4px8 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/HIGB_PROVU HIGB_PROVU] Toxic component of a type II toxin-antitoxin (TA) module (PubMed:19423702, PubMed:24257752, PubMed:8645296). A ribosome-associated translation-dependent mRNA interferase. Inhibits translation by sequence-specific cleavage of mRNA. Prefers either in-frame or out-of-frame 5'-AAA-3' codons (lysine). Cleaves also the first three AAAs of stretches of four or more A sequences. 20% of codons containing AA are cleaved and occassionally cuts even at a single A (PubMed:19423702).<ref>PMID:19423702</ref> <ref>PMID:24257752</ref>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Bacteria contain multiple type II toxins that selectively degrade mRNAs bound to the ribosome to regulate translation and growth and facilitate survival during the stringent response. Ribosome-dependent toxins recognize a variety of three-nucleotide codons within the aminoacyl (A) site, but how these endonucleases achieve substrate specificity remains poorly understood. Here, we identify the critical features for how the host inhibition of growth B (HigB) toxin recognizes each of the three A-site nucleotides for cleavage. X-ray crystal structures of HigB bound to two different codons on the ribosome illustrate how HigB uses a microbial RNase-like nucleotide recognition loop to recognize either cytosine or adenosine at the second A-site position. Strikingly, a single HigB residue and 16S rRNA residue C1054 form an adenosine-specific pocket at the third A-site nucleotide, in contrast to how tRNAs decode mRNA. Our results demonstrate that the most important determinant for mRNA cleavage by ribosome-dependent toxins is interaction with the third A-site nucleotide.


Authors: Schureck, M.A., Dunkle, J.A., Maehigashi, T., Dunham, C.M.
Defining the mRNA recognition signature of a bacterial toxin protein.,Schureck MA, Dunkle JA, Maehigashi T, Miles SJ, Dunham CM Proc Natl Acad Sci U S A. 2015 Nov 10;112(45):13862-7. doi:, 10.1073/pnas.1512959112. Epub 2015 Oct 27. PMID:26508639<ref>PMID:26508639</ref>


Description:  
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
[[Category: Unreleased Structures]]
</div>
[[Category: Maehigashi, T]]
<div class="pdbe-citations 4px8" style="background-color:#fffaf0;"></div>
[[Category: Schureck, M.A]]
== References ==
[[Category: Dunham, C.M]]
<references/>
[[Category: Dunkle, J.A]]
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Proteus vulgaris]]
[[Category: Dunham CM]]
[[Category: Dunkle JA]]
[[Category: Maehigashi T]]
[[Category: Schureck MA]]
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