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| | <StructureSection load='4yye' size='340' side='right'caption='[[4yye]], [[Resolution|resolution]] 2.30Å' scene=''> | | <StructureSection load='4yye' size='340' side='right'caption='[[4yye]], [[Resolution|resolution]] 2.30Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4yye]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YYE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YYE FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4yye]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] and [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YYE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4YYE FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TSB:5-O-(N-(L-THREONYL)-SULFAMOYL)ADENOSINE'>TSB</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.301Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3uh0|3uh0]], [[3ugq|3ugq]], [[3ugt|3ugt]], [[4eo4|4eo4]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TSB:5-O-(N-(L-THREONYL)-SULFAMOYL)ADENOSINE'>TSB</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MST1, YKL194C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</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=4yye FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yye OCA], [https://pdbe.org/4yye PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4yye RCSB], [https://www.ebi.ac.uk/pdbsum/4yye PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4yye ProSAT]</span></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Threonine--tRNA_ligase Threonine--tRNA ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.1.1.3 6.1.1.3] </span></td></tr>
| + | |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4yye FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yye OCA], [http://pdbe.org/4yye PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yye RCSB], [http://www.ebi.ac.uk/pdbsum/4yye PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4yye ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/SYTM_YEAST SYTM_YEAST] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Baker's yeast]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Threonine--tRNA ligase]] | + | [[Category: Saccharomyces cerevisiae]] |
| - | [[Category: Holman, K M]] | + | [[Category: Saccharomyces cerevisiae S288C]] |
| - | [[Category: Simonovic, M]] | + | [[Category: Holman KM]] |
| - | [[Category: Aminoacyl-trna synthetase]] | + | [[Category: Simonovic M]] |
| - | [[Category: Ligase-rna complex]]
| + | |
| - | [[Category: Mst1]]
| + | |
| - | [[Category: Ribonucleoprotein complex]]
| + | |
| - | [[Category: Thrr]]
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| - | [[Category: Trna]]
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| Structural highlights
Function
SYTM_YEAST
Publication Abstract from PubMed
In mitochondria of Saccharomyces cerevisiae, a single aminoacyl-tRNA synthetase (aaRS), MST1, aminoacylates two isoacceptor tRNAs, tRNA1 Thr and tRNA2 Thr, that harbor anticodon loops of different size and sequence. As a result of this promiscuity, reassignment of the CUN codon box from leucine to threonine is facilitated. However, the mechanism by which a single aaRS binds distinct anticodon loops with high specificity is not well understood. Herein, we present the crystal structure of MST1 in complex with the canonical tRNA2 Thr and non-hydrolyzable analog of threonyl adenylate. Our structure reveals that the dimeric arrangement of MST1 is essential for binding the 5'-phosphate, the second base pair of the acceptor stem, the first two base pairs of the anticodon stem and the first nucleotide of the variable arm. Further, in contrast to the bacterial ortholog that 'reads' the entire anticodon sequence, MST1 recognizes bases in the second and third position and the nucleotide upstream of the anticodon sequence. We speculate that a flexible loop linking strands beta4 and beta5 may be allosteric regulator that establishes cross-subunit communication between the aminoacylation and tRNA-binding sites. We also propose that structural features of the anticodon-binding domain in MST1 permit binding of the enlarged anticodon loop of tRNA1 Thr.
The crystal structure of yeast mitochondrial ThrRS in complex with the canonical threonine tRNA.,Holman KM, Wu J, Ling J, Simonovic M Nucleic Acids Res. 2015 Dec 23. pii: gkv1501. PMID:26704982[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Holman KM, Wu J, Ling J, Simonovic M. The crystal structure of yeast mitochondrial ThrRS in complex with the canonical threonine tRNA. Nucleic Acids Res. 2015 Dec 23. pii: gkv1501. PMID:26704982 doi:http://dx.doi.org/10.1093/nar/gkv1501
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