3ivn: Difference between revisions
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<StructureSection load='3ivn' size='340' side='right'caption='[[3ivn]], [[Resolution|resolution]] 2.80Å' scene=''> | <StructureSection load='3ivn' size='340' side='right'caption='[[3ivn]], [[Resolution|resolution]] 2.80Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3ivn]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IVN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IVN FirstGlance]. <br> | <table><tr><td colspan='2'>[[3ivn]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IVN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IVN 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]] 2.8Å</td></tr> | ||
<tr id=' | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=23G:GUANOSINE-5-PHOSPHATE-2,3-CYCLIC+PHOSPHATE'>23G</scene>, <scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=3ivn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ivn OCA], [https://pdbe.org/3ivn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ivn RCSB], [https://www.ebi.ac.uk/pdbsum/3ivn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ivn ProSAT]</span></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=3ivn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ivn OCA], [https://pdbe.org/3ivn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ivn RCSB], [https://www.ebi.ac.uk/pdbsum/3ivn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ivn ProSAT]</span></td></tr> | ||
</table> | </table> | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Bacillus subtilis]] | |||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Chausse | [[Category: Chausse D]] | ||
[[Category: Dagenais | [[Category: Dagenais P]] | ||
[[Category: Delfosse | [[Category: Delfosse V]] | ||
[[Category: | [[Category: Di Tomasso G]] | ||
[[Category: Legault P]] | |||
[[Category: | |||
Latest revision as of 10:58, 6 September 2023
Structure of the U65C mutant A-riboswitch aptamer from the Bacillus subtilis pbuE operonStructure of the U65C mutant A-riboswitch aptamer from the Bacillus subtilis pbuE operon
Structural highlights
Publication Abstract from PubMedThe adenine and guanine riboswitches regulate gene expression in response to their purine ligand. X-ray structures of the aptamer moiety of these riboswitches are characterized by a compact fold in which the ligand forms a Watson-Crick base pair with residue 65. Phylogenetic analyses revealed a strict restriction at position 39 of the aptamer that prevents the G39-C65 and A39-U65 combinations, and mutational studies indicate that aptamers with these sequence combinations are impaired for ligand binding. In order to investigate the rationale for sequence conservation at residue 39, structural characterization of the U65C mutant from Bacillus subtilis pbuE adenine riboswitch aptamer was undertaken. NMR spectroscopy and X-ray crystallography studies demonstrate that the U65C mutant adopts a compact ligand-free structure, in which G39 occupies the ligand-binding site of purine riboswitch aptamers. These studies present a remarkable example of a mutant RNA aptamer that adopts a native-like fold by means of ligand mimicking and explain why this mutant is impaired for ligand binding. Furthermore, this work provides a specific insight into how the natural sequence has evolved through selection of nucleotide identities that contribute to formation of the ligand-bound state, but ensures that the ligand-free state remains in an active conformation. Riboswitch structure: an internal residue mimicking the purine ligand.,Delfosse V, Bouchard P, Bonneau E, Dagenais P, Lemay JF, Lafontaine DA, Legault P Nucleic Acids Res. 2010 Apr;38(6):2057-68. Epub 2009 Dec 18. PMID:20022916[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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