1t0k: Difference between revisions
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==Joint X-ray and NMR Refinement of Yeast L30e-mRNA complex== | |||
<StructureSection load='1t0k' size='340' side='right'caption='[[1t0k]], [[Resolution|resolution]] 3.24Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[1t0k]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1ck5 1ck5], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1ck8 1ck8], [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1cn8 1cn8] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1cn9 1cn9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T0K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T0K FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.24Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900010:alpha-maltotetraose'>PRD_900010</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=1t0k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t0k OCA], [https://pdbe.org/1t0k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1t0k RCSB], [https://www.ebi.ac.uk/pdbsum/1t0k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t0k ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/RL30_YEAST RL30_YEAST] | |||
== Evolutionary Conservation == | |||
[[Image:Consurf_key_small.gif|200px|right]] | |||
Check<jmol> | |||
<jmolCheckbox> | |||
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/t0/1t0k_consurf.spt"</scriptWhenChecked> | |||
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | |||
<text>to colour the structure by Evolutionary Conservation</text> | |||
</jmolCheckbox> | |||
</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=1t0k ConSurf]. | |||
<div style="clear:both"></div> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
L30e, a Saccharomyces cervisiae ribosomal protein, regulates its own expression by binding to a purine-rich asymmetric internal loop located in both its pre-mRNA and mature mRNA. A crystal structure of an MBP-L30e fusion protein in complex with an RNA containing the pre-mRNA regulatory site was solved at 3.24 A. Interestingly, the structure of the RNA differed from that observed in a previously determined NMR structure of the complex. Analysis of the NMR data led to the identification of a single imino proton resonance in the internal loop that had been incorrectly assigned and was principally responsible for the erroneous RNA structure. A structure refinement was performed using both the X-ray diffraction data and the NMR-derived distance and angle restraints. The joint NMR and X-ray refinement resulted in improved stereochemistry and lower crystallographic R factors. The RNA internal loop of the MBP-L30e-mRNA complex adopts the canonical K-turn fold. | |||
Joint X-ray and NMR refinement of the yeast L30e-mRNA complex.,Chao JA, Williamson JR Structure. 2004 Jul;12(7):1165-76. PMID:15242593<ref>PMID:15242593</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 1t0k" style="background-color:#fffaf0;"></div> | |||
==See Also== | ==See Also== | ||
*[[Kink-turn motif|Kink-turn motif]] | *[[Kink-turn motif|Kink-turn motif]] | ||
*[[Maltose-binding protein|Maltose-binding protein]] | *[[Maltose-binding protein 3D structures|Maltose-binding protein 3D structures]] | ||
*[[Ribosomal protein L30|Ribosomal protein L30]] | *[[Ribosomal protein L30|Ribosomal protein L30]] | ||
*[[User:Wayne Decatur/kink-turn motif|User:Wayne Decatur/kink-turn motif]] | *[[User:Wayne Decatur/kink-turn motif|User:Wayne Decatur/kink-turn motif]] | ||
== References == | |||
== | <references/> | ||
< | __TOC__ | ||
</StructureSection> | |||
[[Category: Escherichia coli]] | [[Category: Escherichia coli]] | ||
[[Category: Large Structures]] | |||
[[Category: Saccharomyces cerevisiae]] | [[Category: Saccharomyces cerevisiae]] | ||
[[Category: Chao | [[Category: Chao JA]] | ||
[[Category: Williamson | [[Category: Williamson JR]] | ||
Latest revision as of 09:11, 22 May 2024
Joint X-ray and NMR Refinement of Yeast L30e-mRNA complex
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