1utd

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[[Image:1utd.png|left|200px]]
 
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==The structure of the trp RNA-binding attenuation protein (TRAP) bound to a 63-nucleotide RNA molecule containing GAGUUU repeats==
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The line below this paragraph, containing "STRUCTURE_1utd", creates the "Structure Box" on the page.
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<StructureSection load='1utd' size='340' side='right'caption='[[1utd]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1utd]] is a 33 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UTD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UTD FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TRP:TRYPTOPHAN'>TRP</scene></td></tr>
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{{STRUCTURE_1utd| PDB=1utd | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1utd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1utd OCA], [https://pdbe.org/1utd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1utd RCSB], [https://www.ebi.ac.uk/pdbsum/1utd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1utd ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/MTRB_GEOSE MTRB_GEOSE]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ut/1utd_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=1utd ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The trp RNA-binding attenuation protein (TRAP) regulates expression of the tryptophan biosynthetic genes in several Bacilli by binding to the leader region of the nascent trp mRNA, inhibiting continued transcription. The 11 subunit TRAP molecule is active in complex with tryptophan, and binds consequently an RNA target segment consisting of 11 (G/U)AG triplets, each separated by two or three non-conserved "spacer" nucleotides. Here, we report the first crystal structures of TRAP in a complex with RNA containing UAG triplets separated by two nucleotides and in a complex with RNA containing GAG triplets separated by three nucleotides. Comparison with known structures of TRAP-RNA complexes shows that both substitution of G-1 with U-1 in the triplet and addition of an extra spacer nucleotide lead to a more flexible complex. This suggests an explanation why, in the trp leader RNA, all three-nucleotide spacer regions are followed by a G-1 nucleotide. Taken together, the structures demonstrate that RNA binding to TRAP is mediated by specific interactions involving the A-2 and G-3 nucleotides of the triplet. This is accompanied by the disruption of stacking interactions between the bases of the other nucleotides, contributing to the increase in entropy that drives binding.
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===THE STRUCTURE OF THE TRP RAN-BINDING ATTENUATION PROTEIN (TRAP) BOUND TO A 63-NUCLEOTIDE RNA MOLECULE CONTAINING GAGUUU REPEATS===
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The interaction of RNA with TRAP: the role of triplet repeats and separating spacer nucleotides.,Hopcroft NH, Manfredo A, Wendt AL, Brzozowski AM, Gollnick P, Antson AA J Mol Biol. 2004 Apr 16;338(1):43-53. PMID:15050822<ref>PMID:15050822</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 1utd" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_15050822}}, adds the Publication Abstract to the page
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*[[Tryptophan RNA-binding attenuation protein|Tryptophan RNA-binding attenuation protein]]
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(as it appears on PubMed at http://www.pubmed.gov), where 15050822 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_15050822}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[1utd]] is a 33 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UTD OCA].
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==Reference==
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<ref group="xtra">PMID:015050822</ref><ref group="xtra">PMID:011914485</ref><ref group="xtra">PMID:010499579</ref><references group="xtra"/>
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[[Category: Geobacillus stearothermophilus]]
[[Category: Geobacillus stearothermophilus]]
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[[Category: Antson, A A.]]
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[[Category: Large Structures]]
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[[Category: Brzozowski, A M.]]
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[[Category: Synthetic construct]]
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[[Category: Gollnick, P.]]
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[[Category: Antson AA]]
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[[Category: Hopcroft, N H.]]
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[[Category: Brzozowski AM]]
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[[Category: Manfredo, A.]]
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[[Category: Gollnick P]]
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[[Category: Wendt, A L.]]
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[[Category: Hopcroft NH]]
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[[Category: Rna binding protein]]
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[[Category: Manfredo A]]
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[[Category: Rna-binding]]
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[[Category: Wendt AL]]
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[[Category: Rna-binding protein]]
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[[Category: Transcription regulation]]
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[[Category: Trp rna transcription attenuation]]
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Current revision

The structure of the trp RNA-binding attenuation protein (TRAP) bound to a 63-nucleotide RNA molecule containing GAGUUU repeats

PDB ID 1utd

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