4v4f: Difference between revisions
New page: ==The structure of the trp RNA-binding attenuation protein (TRAP) bound to a RNA molecule containing UAGAU repeats== <StructureSection load='4v4f' size='340' side='right' caption='4v4f... |
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==The structure of the trp RNA-binding attenuation protein (TRAP) bound to a RNA molecule containing UAGAU repeats== | ==The structure of the trp RNA-binding attenuation protein (TRAP) bound to a RNA molecule containing UAGAU repeats== | ||
<StructureSection load='4v4f' size='340' side='right' caption='[[4v4f]], [[Resolution|resolution]] 1.90Å' scene=''> | <StructureSection load='4v4f' size='340' side='right'caption='[[4v4f]], [[Resolution|resolution]] 1.90Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[4v4f]] is a 66 chain structure. This structure supersedes | <table><tr><td colspan='2'>[[4v4f]] is a 66 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1utf 1utf] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1utv 1utv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4V4F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4V4F FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9Å</td></tr> | ||
<tr id=' | <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> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4v4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4v4f OCA], [https://pdbe.org/4v4f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4v4f RCSB], [https://www.ebi.ac.uk/pdbsum/4v4f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4v4f ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/MTRB_GEOSE MTRB_GEOSE] | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
</div> | </div> | ||
<div class="pdbe-citations 4v4f" style="background-color:#fffaf0;"></div> | |||
==See Also== | |||
*[[Tryptophan RNA-binding attenuation protein|Tryptophan RNA-binding attenuation protein]] | |||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Geobacillus stearothermophilus]] | ||
[[Category: | [[Category: Large Structures]] | ||
[[Category: | [[Category: Synthetic construct]] | ||
[[Category: | [[Category: Antson AA]] | ||
[[Category: | [[Category: Brzozowski AM]] | ||
[[Category: | [[Category: Gollnick P]] | ||
[[Category: | [[Category: Hopcroft NH]] | ||
[[Category: | [[Category: Manfredo A]] | ||
[[Category: | [[Category: Wendt AL]] | ||
Latest revision as of 13:40, 10 January 2024
The structure of the trp RNA-binding attenuation protein (TRAP) bound to a RNA molecule containing UAGAU repeatsThe structure of the trp RNA-binding attenuation protein (TRAP) bound to a RNA molecule containing UAGAU repeats
Structural highlights
FunctionPublication Abstract from PubMedThe 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. 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[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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