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| | ==NMR Solution Structure of the Anticodon of E.coli TRNA-VAL3 With no Modifications== | | ==NMR Solution Structure of the Anticodon of E.coli TRNA-VAL3 With no Modifications== |
| - | <StructureSection load='2jr4' size='340' side='right'caption='[[2jr4]], [[NMR_Ensembles_of_Models | 11 NMR models]]' scene=''> | + | <StructureSection load='2jr4' size='340' side='right'caption='[[2jr4]]' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[2jr4]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JR4 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2JR4 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[2jr4]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JR4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JR4 FirstGlance]. <br> |
| - | </td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2jr4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jr4 OCA], [http://pdbe.org/2jr4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2jr4 RCSB], [http://www.ebi.ac.uk/pdbsum/2jr4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2jr4 ProSAT]</span></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=2jr4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jr4 OCA], [https://pdbe.org/2jr4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jr4 RCSB], [https://www.ebi.ac.uk/pdbsum/2jr4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jr4 ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Agris, P F]] | + | [[Category: Agris PF]] |
| - | [[Category: Dziergowska, A]] | + | [[Category: Dziergowska A]] |
| - | [[Category: Graham, W D]] | + | [[Category: Graham WD]] |
| - | [[Category: Gustilo, E M]] | + | [[Category: Gustilo EM]] |
| - | [[Category: Malkiewicz, A]] | + | [[Category: Malkiewicz A]] |
| - | [[Category: Sproat, B]] | + | [[Category: Sproat B]] |
| - | [[Category: Vendeix, F A.P]] | + | [[Category: Vendeix FAP]] |
| - | [[Category: Anticodon stem loop]]
| + | |
| - | [[Category: E coli]]
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| - | [[Category: Rna]]
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| - | [[Category: Rna hairpin]]
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| - | [[Category: Trna]]
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| - | [[Category: Trna domain]]
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| - | [[Category: Valine]]
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| Structural highlights
Publication Abstract from PubMed
The accuracy and efficiency with which tRNA decodes genomic information into proteins require posttranscriptional modifications in or adjacent to the anticodon. The modification uridine-5-oxyacetic acid (cmo (5)U 34) is found at wobble position 34 in a single isoaccepting tRNA species for six amino acids, alanine, leucine, proline, serine, threonine, and valine, each having 4-fold degenerate codons. cmo (5)U 34 makes possible the decoding of 24 codons by just six tRNAs. The contributions of this important modification to the structures and codon binding affinities of the unmodified and fully modified anticodon stem and loop domains of tRNA (Val3) UAC (ASL (Val3) UAC) were elucidated. The stems of the unmodified ASL (Val3) UAC and that with cmo (5)U 34 and N (6)-methyladenosine, m (6)A 37, adopted an A-form RNA conformation (rmsd approximately 0.6 A) as determined with NMR spectroscopy and torsion-angle molecular dynamics. However, the UV hyperchromicity, circular dichroism ellipticity, and structural analyses indicated that the anticodon modifications enhanced order in the loop. ASL (Val3) UAC-cmo (5)U 34;m (6)A 37 exhibited high affinities for its cognate and wobble codons GUA and GUG, and for GUU in the A-site of the programmed 30S ribosomal subunit, whereas the unmodified ASL (Val3) UAC bound less strongly to GUA and not at all to GUG and GUU. Together with recent crystal structures of ASL (Val3) UAC-cmo (5)U 34;m (6)A 37 bound to all four of the valine codons in the A-site of the ribosome's 30S subunit, these results clearly demonstrate that the xo (5)U 34-type modifications order the anticodon loop prior to A-site codon binding for an expanded codon reading, possibly reducing an entropic energy barrier to codon binding.
Anticodon domain modifications contribute order to tRNA for ribosome-mediated codon binding.,Vendeix FA, Dziergowska A, Gustilo EM, Graham WD, Sproat B, Malkiewicz A, Agris PF Biochemistry. 2008 Jun 10;47(23):6117-29. Epub 2008 May 13. PMID:18473483[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Vendeix FA, Dziergowska A, Gustilo EM, Graham WD, Sproat B, Malkiewicz A, Agris PF. Anticodon domain modifications contribute order to tRNA for ribosome-mediated codon binding. Biochemistry. 2008 Jun 10;47(23):6117-29. Epub 2008 May 13. PMID:18473483 doi:10.1021/bi702356j
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