This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

5ydt

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

Remodeled Utp30 in 90S pre-ribosome (Mtr4-depleted, Enp1-TAP)

5ydt, resolution 4.50Å

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5ydt"

@@ Line 1: / Line 1: @@
 ==Remodeled Utp30 in 90S pre-ribosome (Mtr4-depleted, Enp1-TAP)==
-<StructureSection load='5ydt' size='340' side='right' caption='[[5ydt]], [[Resolution|resolution]] 4.50&Aring;' scene=''>
+<SX load='5ydt' size='340' side='right' viewer='molstar' caption='[[5ydt]], [[Resolution|resolution]] 4.50&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5ydt]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast], [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] and [http://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=5YDT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YDT FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5ydt]] 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=5YDT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YDT FirstGlance]. <br>
-</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><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]] 4.5&#8491;</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=5ydt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ydt OCA], [http://pdbe.org/5ydt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ydt RCSB], [http://www.ebi.ac.uk/pdbsum/5ydt PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ydt 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=5ydt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ydt OCA], [https://pdbe.org/5ydt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ydt RCSB], [https://www.ebi.ac.uk/pdbsum/5ydt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ydt ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/RL1D1_YEAST RL1D1_YEAST]] Involved in rRNA-processing and ribosome biosynthesis.<ref>PMID:16544271</ref>
+[https://www.uniprot.org/uniprot/RL1D1_YEAST RL1D1_YEAST] Involved in rRNA-processing and ribosome biosynthesis.<ref>PMID:16544271</ref>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-The 90S pre-ribosomes are gigantic early assembly intermediates of small ribosomal subunits. Cryo-EM structures of 90S were recently determined, but many of its components have not been accurately modelled. Here we determine the crystal structure of yeast Utp30, a ribosomal L1 domain-containing protein in 90S, at 2.65 A resolution, revealing a classic two-domain fold. The structure of Utp30 fits well into the cryo-EM density of 90S, confirming its previously assigned location. Utp30 binds to the rearranged helix 41 of 18S rRNA and helix 4 of 5' external transcribed spacer in 90S. Comparison of RNA-binding modes of different L1 domains illustrates that they consistently recognize a short RNA duplex with the concaved surface of domain I, but are versatile in RNA recognition outside the core interface. Cic1 is a paralog of Utp30 associating with large subunit pre-ribosomes. Utp30 and Cic1 share similar RNA binding mode, suggesting that their distinct functions may be executed by a single protein in other organisms. Deletion of Utp30 does not affect the composition of 90S. The nonessential role of Utp30 could be ascribed to its peripheral localization and redundant interactions in 90S.
-Structure and RNA recognition of ribosome assembly factor Utp30.,Hu J, Zhu X, Ye K RNA. 2017 Sep 26. pii: rna.062695.117. doi: 10.1261/rna.062695.117. PMID:28951391<ref>PMID:28951391</ref>
+==See Also==
+*[[Ribosome biogenesis protein 3D structures|Ribosome biogenesis protein 3D structures]]
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 5ydt" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
-</StructureSection>
+</SX>
-[[Category: Baker's yeast]]
+[[Category: Large Structures]]
 [[Category: Saccharomyces cerevisiae]]
-[[Category: Saccharomyces cerevisiae s288c]]
+[[Category: Saccharomyces cerevisiae S288C]]
-[[Category: Hu, J]]
+[[Category: Hu J]]
-[[Category: Ye, K]]
+[[Category: Ye K]]
-[[Category: Zhu, X]]
+[[Category: Zhu X]]
-[[Category: 90s pre-ribosome]]
-[[Category: Ribosome]]
-[[Category: Ribosome assembly]]

5ydt

From Proteopedia

Current revision

Remodeled Utp30 in 90S pre-ribosome (Mtr4-depleted, Enp1-TAP)

Structural highlights

Function

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox