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| <SX load='6nd4' size='340' side='right' viewer='molstar' caption='[[6nd4]], [[Resolution|resolution]] 4.30Å' scene=''> | | <SX load='6nd4' size='340' side='right' viewer='molstar' caption='[[6nd4]], [[Resolution|resolution]] 4.30Å' scene=''> |
| == Structural highlights == | | == Structural highlights == |
| <table><tr><td colspan='2'>[[6nd4]] is a 29 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_by4741 Saccharomyces cerevisiae by4741]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ND4 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6ND4 FirstGlance]. <br> | | <table><tr><td colspan='2'>[[6nd4]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_BY4741 Saccharomyces cerevisiae BY4741]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ND4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6ND4 FirstGlance]. <br> |
| </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>, <scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr> | | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 4.3Å</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=6nd4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nd4 OCA], [http://pdbe.org/6nd4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6nd4 RCSB], [http://www.ebi.ac.uk/pdbsum/6nd4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6nd4 ProSAT]</span></td></tr> | | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=N:ANY+5-MONOPHOSPHATE+NUCLEOTIDE'>N</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=6nd4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6nd4 OCA], [https://pdbe.org/6nd4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6nd4 RCSB], [https://www.ebi.ac.uk/pdbsum/6nd4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6nd4 ProSAT]</span></td></tr> |
| </table> | | </table> |
| == Function == | | == Function == |
| [[http://www.uniprot.org/uniprot/PWP2_YEAST PWP2_YEAST]] Required for bud-site selection and cell separation. Also involved in nucleolar processing of pre-18S ribosomal RNA.<ref>PMID:12068309</ref> <ref>PMID:8804409</ref> [[http://www.uniprot.org/uniprot/BUD21_YEAST BUD21_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA. Has a role in bud site selection maybe via the regulation of expression of bipolar budding components.<ref>PMID:11452010</ref> <ref>PMID:12068309</ref> [[http://www.uniprot.org/uniprot/RRP9_YEAST RRP9_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA. Required for efficient pre-rRNA cleavage at sites A0, A1 and A2, and biosynthesis of 18S rRNA.<ref>PMID:11105764</ref> [[http://www.uniprot.org/uniprot/DCA13_YEAST DCA13_YEAST]] Required for ribosomal RNA processing.<ref>PMID:8508778</ref> [[http://www.uniprot.org/uniprot/UTP7_YEAST UTP7_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA.<ref>PMID:12068309</ref> [[http://www.uniprot.org/uniprot/UTP21_YEAST UTP21_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.<ref>PMID:15590835</ref> [[http://www.uniprot.org/uniprot/UTP15_YEAST UTP15_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA. Required for optimal pre-ribosomal RNA transcription by RNA polymerase I together with a subset of U3 proteins required for transcription (t-UTPs).<ref>PMID:12068309</ref> <ref>PMID:15489292</ref> [[http://www.uniprot.org/uniprot/FCF1_YEAST FCF1_YEAST]] Essential protein involved in pre-rRNA processing and 40S ribosomal subunit assembly. Required for the early cleavage steps of 35S rRNA at the A(0), A(1), and A(2) sites.<ref>PMID:16762320</ref> [[http://www.uniprot.org/uniprot/SNU13_YEAST SNU13_YEAST]] Common component of the spliceosome and rRNA processing machinery. In association with the spliceosomal U4/U6.U5 tri-snRNP particle, required for splicing of pre-mRNA. In association with box C/D snoRNPs, required for processing of pre-ribosomal RNA (rRNA) and site-specific 2'-O-methylation of substrate RNAs. Essential for the accumulation and stability of U4 snRNA, U6 snRNA, and box C/D snoRNAs.<ref>PMID:11081632</ref> <ref>PMID:12215523</ref> <ref>PMID:14730029</ref> [[http://www.uniprot.org/uniprot/UTP10_YEAST UTP10_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA. Required for optimal pre-ribosomal RNA transcription by RNA polymerase I together with a subset of U3 proteins required for transcription (t-UTPs). Involved in ribosome biosynthesis.<ref>PMID:12068309</ref> <ref>PMID:15489292</ref> <ref>PMID:16544271</ref> <ref>PMID:17652137</ref> [[http://www.uniprot.org/uniprot/UTP18_YEAST UTP18_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly.<ref>PMID:15590835</ref> [[http://www.uniprot.org/uniprot/MPP10_YEAST MPP10_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA. Required for the early cleavages at sites A0, A1 and A2 during 18S ribosomal pre-RNA processing.<ref>PMID:15489263</ref> <ref>PMID:9315638</ref> [[http://www.uniprot.org/uniprot/UTP5_YEAST UTP5_YEAST]] Involved in nucleolar processing of pre-18S ribosomal RNA. Required for optimal pre-ribosomal RNA transcription by RNA polymerase I together with a subset of U3 proteins required for transcription (t-UTPs).<ref>PMID:12068309</ref> <ref>PMID:15489292</ref> [[http://www.uniprot.org/uniprot/FBRL_YEAST FBRL_YEAST]] S-adenosyl-L-methionine-dependent methyltransferase that has the ability to methylate both RNAs and proteins. Involved in pre-rRNA processing by catalyzing the site-specific 2'-hydroxyl methylation of ribose moieties in pre-ribosomal RNA (PubMed:1825809). Site specificity is provided by a guide RNA that base pairs with the substrate. Methylation occurs at a characteristic distance from the sequence involved in base pairing with the guide RNA. Involved in the biogenesis of the 18S rRNA. Also acts as a protein methyltransferase by mediating methylation of 'Gln-105' of histone H2A (H2AQ105me), a modification that impairs binding of the FACT complex and is specifically present at 35S ribosomal DNA locus (PubMed:24352239).<ref>PMID:1825809</ref> <ref>PMID:24352239</ref> <ref>PMID:2686980</ref> [[http://www.uniprot.org/uniprot/IMP3_YEAST IMP3_YEAST]] Required for the early cleavages at sites A0, A1 and A2 during 18S ribosomal pre-RNA processing.<ref>PMID:10409734</ref> <ref>PMID:15489263</ref> | | [https://www.uniprot.org/uniprot/UTP17_YEAST UTP17_YEAST] Involved in nucleolar processing of pre-18S ribosomal RNA. Required for optimal pre-ribosomal RNA transcription by RNA polymerase I together with a subset of U3 proteins required for transcription (t-UTPs).<ref>PMID:12068309</ref> <ref>PMID:15489292</ref> |
| <div style="background-color:#fffaf0;">
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| == Publication Abstract from PubMed ==
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| Eukaryotic ribosome biogenesis is initiated with the transcription of pre-ribosomal RNA at the 5' external transcribed spacer, which directs the early association of assembly factors but is absent from the mature ribosome. The subsequent co-transcriptional association of ribosome assembly factors with pre-ribosomal RNA results in the formation of the small subunit processome. Here we show that stable rRNA domains of the small ribosomal subunit can independently recruit their own biogenesis factors in vivo. The final assembly and compaction of the small subunit processome requires the presence of the 5' external transcribed spacer RNA and all ribosomal RNA domains. Additionally, our cryo-electron microscopy structure of the earliest nucleolar pre-ribosomal assembly - the 5' external transcribed spacer ribonucleoprotein - provides a mechanism for how conformational changes in multi-protein complexes can be employed to regulate the accessibility of binding sites and therefore define the chronology of maturation events during early stages of ribosome assembly.
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| Conformational switches control early maturation of the eukaryotic small ribosomal subunit.,Hunziker M, Barandun J, Buzovetsky O, Steckler C, Molina H, Klinge S Elife. 2019 Jun 17;8. pii: 45185. doi: 10.7554/eLife.45185. PMID:31206356<ref>PMID:31206356</ref>
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| From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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| </div>
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| <div class="pdbe-citations 6nd4" style="background-color:#fffaf0;"></div>
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| ==See Also== | | ==See Also== |
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| </SX> | | </SX> |
| [[Category: Large Structures]] | | [[Category: Large Structures]] |
| [[Category: Saccharomyces cerevisiae by4741]] | | [[Category: Saccharomyces cerevisiae BY4741]] |
| [[Category: Barandun, J]] | | [[Category: Barandun J]] |
| [[Category: Hunziker, M]] | | [[Category: Hunziker M]] |
| [[Category: Klinge, S]] | | [[Category: Klinge S]] |
| [[Category: Ribosome]]
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| [[Category: Ribosome assembly]]
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