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| | ==Solution structure of Rnt1p dsRBD== | | ==Solution structure of Rnt1p dsRBD== |
| - | <StructureSection load='1t4n' size='340' side='right'caption='[[1t4n]], [[NMR_Ensembles_of_Models | 51 NMR models]]' scene=''> | + | <StructureSection load='1t4n' size='340' side='right'caption='[[1t4n]]' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[1t4n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T4N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T4N FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[1t4n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T4N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T4N FirstGlance]. <br> |
| - | </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1t4o|1t4o]]</div></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='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">RNT1, YMR239C, YM9408.01C, YM9959.21 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</td></tr>
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| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Ribonuclease_III Ribonuclease III], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.3 3.1.26.3] </span></td></tr>
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| | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1t4n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t4n OCA], [https://pdbe.org/1t4n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1t4n RCSB], [https://www.ebi.ac.uk/pdbsum/1t4n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t4n 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=1t4n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t4n OCA], [https://pdbe.org/1t4n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1t4n RCSB], [https://www.ebi.ac.uk/pdbsum/1t4n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t4n ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[https://www.uniprot.org/uniprot/RNT1_YEAST RNT1_YEAST]] DsRNA-specific nuclease that cleaves eukaryotic pre-ribosomal RNA at the U3 snoRNP-dependent A0 site in the 5'-external transcribed spacer (ETS) and in the 3'-ETS. In vitro, cleaves synthetic 5'-ETS RNA A0 site in the absence of snoRNA or other factors. Has an essential growth function in addition to pre-rRNA processing.
| + | [https://www.uniprot.org/uniprot/RNT1_YEAST RNT1_YEAST] DsRNA-specific nuclease that cleaves eukaryotic pre-ribosomal RNA at the U3 snoRNP-dependent A0 site in the 5'-external transcribed spacer (ETS) and in the 3'-ETS. In vitro, cleaves synthetic 5'-ETS RNA A0 site in the absence of snoRNA or other factors. Has an essential growth function in addition to pre-rRNA processing. |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Atcc 18824]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Ribonuclease III]] | + | [[Category: Saccharomyces cerevisiae]] |
| - | [[Category: Ares, M]] | + | [[Category: Ares M]] |
| - | [[Category: Edwards, T E]] | + | [[Category: Edwards TE]] |
| - | [[Category: Godin, K S]] | + | [[Category: Godin KS]] |
| - | [[Category: Graille, M]] | + | [[Category: Graille M]] |
| - | [[Category: Leeper, T C]] | + | [[Category: Leeper TC]] |
| - | [[Category: Leulliot, N]] | + | [[Category: Leulliot N]] |
| - | [[Category: Nagel, R J]] | + | [[Category: Nagel RJ]] |
| - | [[Category: Quevillon-Cheruel, S]] | + | [[Category: Quevillon-Cheruel S]] |
| - | [[Category: Rozenkrants, N]] | + | [[Category: Rozenkrants N]] |
| - | [[Category: Sigurdsson, S T]] | + | [[Category: Sigurdsson ST]] |
| - | [[Category: Tilbeurgh, H van]]
| + | [[Category: Varani G]] |
| - | [[Category: Varani, G]] | + | [[Category: Van Tilbeurgh H]] |
| - | [[Category: Dsrbd]] | + | |
| - | [[Category: Hydrolase]]
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| - | [[Category: Rna-binding]]
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| Structural highlights
Function
RNT1_YEAST DsRNA-specific nuclease that cleaves eukaryotic pre-ribosomal RNA at the U3 snoRNP-dependent A0 site in the 5'-external transcribed spacer (ETS) and in the 3'-ETS. In vitro, cleaves synthetic 5'-ETS RNA A0 site in the absence of snoRNA or other factors. Has an essential growth function in addition to pre-rRNA processing.
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
Rnt1 endoribonuclease, the yeast homolog of RNAse III, plays an important role in the maturation of a diverse set of RNAs. The enzymatic activity requires a conserved catalytic domain, while RNA binding requires the double-stranded RNA-binding domain (dsRBD) at the C-terminus of the protein. While bacterial RNAse III enzymes cleave double-stranded RNA, Rnt1p specifically cleaves RNAs that possess short irregular stem-loops containing 12-14 base pairs interrupted by internal loops and bulges and capped by conserved AGNN tetraloops. Consistent with this substrate specificity, the isolated Rnt1p dsRBD and the 30-40 amino acids that follow bind to AGNN-containing stem-loops preferentially in vitro. In order to understand how Rnt1p recognizes its cognate processing sites, we have defined its minimal RNA-binding domain and determined its structure by solution NMR spectroscopy and X-ray crystallography. We observe a new carboxy-terminal helix following a canonical dsRBD structure. Removal of this helix reduces binding to Rnt1p substrates. The results suggest that this helix allows the Rnt1p dsRBD to bind to short RNA stem-loops by modulating the conformation of helix alpha1, a key RNA-recognition element of the dsRBD.
A new alpha-helical extension promotes RNA binding by the dsRBD of Rnt1p RNAse III.,Leulliot N, Quevillon-Cheruel S, Graille M, van Tilbeurgh H, Leeper TC, Godin KS, Edwards TE, Sigurdsson ST, Rozenkrants N, Nagel RJ, Ares M, Varani G EMBO J. 2004 Jul 7;23(13):2468-77. Epub 2004 Jun 10. PMID:15192703[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Leulliot N, Quevillon-Cheruel S, Graille M, van Tilbeurgh H, Leeper TC, Godin KS, Edwards TE, Sigurdsson ST, Rozenkrants N, Nagel RJ, Ares M, Varani G. A new alpha-helical extension promotes RNA binding by the dsRBD of Rnt1p RNAse III. EMBO J. 2004 Jul 7;23(13):2468-77. Epub 2004 Jun 10. PMID:15192703 doi:10.1038/sj.emboj.7600260
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