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| | == Structural highlights == | | == Structural highlights == |
| | <table><tr><td colspan='2'>[[1q93]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q93 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q93 FirstGlance]. <br> | | <table><tr><td colspan='2'>[[1q93]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q93 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q93 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.25Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=N:ANY+5-MONOPHOSPHATE+NUCLEOTIDE'>N</scene></td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1msy|1msy]], [[483d|483d]], [[1jbs|1jbs]], [[1jbr|1jbr]], [[480d|480d]], [[1q96|1q96]], [[1q9a|1q9a]]</div></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=1q93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q93 OCA], [https://pdbe.org/1q93 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q93 RCSB], [https://www.ebi.ac.uk/pdbsum/1q93 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q93 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=1q93 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q93 OCA], [https://pdbe.org/1q93 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q93 RCSB], [https://www.ebi.ac.uk/pdbsum/1q93 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q93 ProSAT]</span></td></tr> |
| | </table> | | </table> |
| Line 23: |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Beneken, J]] | + | [[Category: Beneken J]] |
| - | [[Category: Chan, Y L]] | + | [[Category: Chan YL]] |
| - | [[Category: Correll, C C]] | + | [[Category: Correll CC]] |
| - | [[Category: Lubbers, M]] | + | [[Category: Lubbers M]] |
| - | [[Category: Plantinga, M J]] | + | [[Category: Plantinga MJ]] |
| - | [[Category: Elongation factor]]
| + | |
| - | [[Category: Mutant]]
| + | |
| - | [[Category: Ribonucleic acid]]
| + | |
| - | [[Category: Ribosome]]
| + | |
| - | [[Category: Rna]]
| + | |
| - | [[Category: Rna recognition]]
| + | |
| - | [[Category: Sarcin/ricin domain]]
| + | |
| - | [[Category: Stem-loop]]
| + | |
| Structural highlights
Publication Abstract from PubMed
Bulged-G motifs are ubiquitous internal RNA loops that provide specific recognition sites for proteins and RNAs. To establish the common and distinctive features of the motif we determined the structures of three variants and compared them with related structures. The variants are 27-nt mimics of the sarcin/ricin loop (SRL) from Escherichia coli 23S ribosomal RNA that is an essential part of the binding site for elongation factors (EFs). The wild-type SRL has now been determined at 1.04 A resolution, supplementing data obtained before at 1.11 A and allowing the first calculation of coordinate error for an RNA motif. The other two structures, having a viable (C2658U*G2663A) or a lethal mutation (C2658G*G2663C), were determined at 1.75 and 2.25 A resolution, respectively. Comparisons reveal that bulged-G motifs have a common hydration and geometry, with flexible junctions at flanking structural elements. Six conserved nucleotides preserve the fold of the motif; the remaining seven to nine vary in sequence and alter contacts in both grooves. Differences between accessible functional groups of the lethal mutation and those of the viable mutation and wild-type SRL may account for the impaired elongation factor binding to ribosomes with the C2658G*G2663C mutation and may underlie the lethal phenotype.
The common and the distinctive features of the bulged-G motif based on a 1.04 A resolution RNA structure.,Correll CC, Beneken J, Plantinga MJ, Lubbers M, Chan YL Nucleic Acids Res. 2003 Dec 1;31(23):6806-18. PMID:14627814[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Correll CC, Beneken J, Plantinga MJ, Lubbers M, Chan YL. The common and the distinctive features of the bulged-G motif based on a 1.04 A resolution RNA structure. Nucleic Acids Res. 2003 Dec 1;31(23):6806-18. PMID:14627814
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