1oxj: Difference between revisions

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New page: left|200px<br /><applet load="1oxj" size="450" color="white" frame="true" align="right" spinBox="true" caption="1oxj, resolution 1.8Å" /> '''Crystal structure of ...
 
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caption="1oxj, resolution 1.8&Aring;" />
'''Crystal structure of the Smaug RNA binding domain'''<br />


==Overview==
==Crystal structure of the Smaug RNA binding domain==
The Nanos protein gradient in Drosophila, required for proper abdominal, segmentation, is generated in part via translational repression of its, mRNA by Smaug. We report here the crystal structure of the Smaug RNA, binding domain, which shows no sequence homology to any previously, characterized RNA binding motif. The structure reveals an unusual makeup, in which a SAM domain, a common protein-protein interaction module, is, affixed to a pseudo-HEAT repeat analogous topology (PHAT) domain., Unexpectedly, we find through a combination of structural and genetic, analysis that it is primarily the SAM domain that interacts specifically, with the appropriate nanos mRNA regulatory sequence. Therefore, in, addition to their previously characterized roles in protein-protein, interactions, some SAM domains play crucial roles in RNA binding.
<StructureSection load='1oxj' size='340' side='right'caption='[[1oxj]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1oxj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OXJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OXJ FirstGlance]. <br>
1OXJ is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1OXJ 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]] 1.8&#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=1oxj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1oxj OCA], [https://pdbe.org/1oxj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1oxj RCSB], [https://www.ebi.ac.uk/pdbsum/1oxj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1oxj ProSAT]</span></td></tr>
==Reference==
</table>
RNA recognition via the SAM domain of Smaug., Green JB, Gardner CD, Wharton RP, Aggarwal AK, Mol Cell. 2003 Jun;11(6):1537-48. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12820967 12820967]
== Function ==
[https://www.uniprot.org/uniprot/SMG_DROME SMG_DROME] Translation regulator that binds to the 3'-UTR of specific mRNAs such as nanos (nos) and prevent their translation. Prevents translation of unlocalized nos in the bulk cytoplasm via the recruitment of cup.<ref>PMID:10488336</ref> <ref>PMID:10606265</ref> <ref>PMID:8895661</ref> <ref>PMID:14685270</ref>
== 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/ox/1oxj_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=1oxj ConSurf].
<div style="clear:both"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Drosophila melanogaster]]
[[Category: Drosophila melanogaster]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Aggarwal, A.K.]]
[[Category: Aggarwal AK]]
[[Category: Gardner, C.D.]]
[[Category: Gardner CD]]
[[Category: Green, J.B.]]
[[Category: Green JB]]
[[Category: Wharton, R.P.]]
[[Category: Wharton RP]]
[[Category: phat domain]]
[[Category: rna-binding protein]]
[[Category: sam domain]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 23:16:36 2007''

Latest revision as of 11:03, 14 February 2024

Crystal structure of the Smaug RNA binding domainCrystal structure of the Smaug RNA binding domain

Structural highlights

1oxj is a 1 chain structure with sequence from Drosophila melanogaster. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.8Å
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SMG_DROME Translation regulator that binds to the 3'-UTR of specific mRNAs such as nanos (nos) and prevent their translation. Prevents translation of unlocalized nos in the bulk cytoplasm via the recruitment of cup.[1] [2] [3] [4]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

References

  1. ↑ Dahanukar A, Walker JA, Wharton RP. Smaug, a novel RNA-binding protein that operates a translational switch in Drosophila. Mol Cell. 1999 Aug;4(2):209-18. PMID:10488336
  2. ↑ Smibert CA, Lie YS, Shillinglaw W, Henzel WJ, Macdonald PM. Smaug, a novel and conserved protein, contributes to repression of nanos mRNA translation in vitro. RNA. 1999 Dec;5(12):1535-47. PMID:10606265
  3. ↑ Smibert CA, Wilson JE, Kerr K, Macdonald PM. smaug protein represses translation of unlocalized nanos mRNA in the Drosophila embryo. Genes Dev. 1996 Oct 15;10(20):2600-9. PMID:8895661
  4. ↑ Nelson MR, Leidal AM, Smibert CA. Drosophila Cup is an eIF4E-binding protein that functions in Smaug-mediated translational repression. EMBO J. 2004 Jan 14;23(1):150-9. Epub 2003 Dec 11. PMID:14685270 doi:http://dx.doi.org/10.1038/sj.emboj.7600026

1oxj, resolution 1.80Å

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