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.

4ro1

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 08:21, 8 March 2023

An 3'-5'-exoribonuclease that specifically recognizes RNAs.

Structural highlights

4ro1 is a 2 chain structure with sequence from Schizosaccharomyces pombe 972h-. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

DI3L2_SCHPO 3'-5'-exoribonuclease that specifically recognizes RNAs polyuridylated at their 3' end and mediates their degradation. Component of an exosome-independent RNA degradation pathway that mediates degradation of cytoplasmic mRNAs that have been deadenylated and subsequently uridylated at their 3'.[HAMAP-Rule:MF_03045]^[1]

Publication Abstract from PubMed

After deadenylation and decapping, cytoplasmic mRNA can be digested in two opposite directions: in the 5'-3' direction by Xrn1 or in the 3'-5' direction by the exosome complex. Recently, a novel 3'-5' RNA-decay pathway involving Dis3l2 has been described that differs from degradation by Xrn1 and the exosome. The product of the Schizosaccharomyces pombe gene SPAC2C4.07c was identified as a homologue of human Dis3l2. In this work, the 2.8 A resolution X-ray crystal structure of S. pombe Dis3l2 (SpDis3l2) is reported, the conformation of which is obviously different from that in the homologous mouse Dis3l2-RNA complex. Fluorescence polarization assay experiments showed that RNB and S1 are the primary RNA-binding domains and that the CSDs (CSD1 and CSD2) play an indispensable role in the RNA-binding process of SpDis3l2. Taking the structure comparison and mutagenic experiments together, it can be inferred that the RNA-recognition pattern of SpDis3l2 resembles that of its mouse homologue rather than that of the Escherichia coli RNase II-RNA complex. Furthermore, a drastic conformation change could occur following the binding of the RNA substrate to SpDis3l2.

Structural analysis of Dis3l2, an exosome-independent exonuclease from Schizosaccharomyces pombe.,Lv H, Zhu Y, Qiu Y, Niu L, Teng M, Li X Acta Crystallogr D Biol Crystallogr. 2015 Jun;71(Pt 6):1284-94. doi:, 10.1107/S1399004715005805. Epub 2015 May 14. PMID:26057668^[2]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Malecki M, Viegas SC, Carneiro T, Golik P, Dressaire C, Ferreira MG, Arraiano CM. The exoribonuclease Dis3L2 defines a novel eukaryotic RNA degradation pathway. EMBO J. 2013 Jul 3;32(13):1842-54. doi: 10.1038/emboj.2013.63. Epub 2013 Mar 15. PMID:23503588 doi:http://dx.doi.org/10.1038/emboj.2013.63
↑ Lv H, Zhu Y, Qiu Y, Niu L, Teng M, Li X. Structural analysis of Dis3l2, an exosome-independent exonuclease from Schizosaccharomyces pombe. Acta Crystallogr D Biol Crystallogr. 2015 Jun;71(Pt 6):1284-94. doi:, 10.1107/S1399004715005805. Epub 2015 May 14. PMID:26057668 doi:http://dx.doi.org/10.1107/S1399004715005805

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4ro1"

Categories: Large Structures | Schizosaccharomyces pombe 972h- | Lv H | Teng M | Zhu Y

@@ Line 3: / Line 3: @@
 <StructureSection load='4ro1' size='340' side='right'caption='[[4ro1]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4ro1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Fission_yeast Fission yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RO1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4RO1 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4ro1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe_972h- Schizosaccharomyces pombe 972h-]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4RO1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4RO1 FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">dis32, dis3l2, SPAC2C4.07c ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=284812 Fission yeast])</td></tr>
+</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=4ro1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ro1 OCA], [https://pdbe.org/4ro1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ro1 RCSB], [https://www.ebi.ac.uk/pdbsum/4ro1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ro1 ProSAT]</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=4ro1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ro1 OCA], [http://pdbe.org/4ro1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ro1 RCSB], [http://www.ebi.ac.uk/pdbsum/4ro1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ro1 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/DI3L2_SCHPO DI3L2_SCHPO]] 3'-5'-exoribonuclease that specifically recognizes RNAs polyuridylated at their 3' end and mediates their degradation. Component of an exosome-independent RNA degradation pathway that mediates degradation of cytoplasmic mRNAs that have been deadenylated and subsequently uridylated at their 3'.[HAMAP-Rule:MF_03045]<ref>PMID:23503588</ref>
+[https://www.uniprot.org/uniprot/DI3L2_SCHPO DI3L2_SCHPO] 3'-5'-exoribonuclease that specifically recognizes RNAs polyuridylated at their 3' end and mediates their degradation. Component of an exosome-independent RNA degradation pathway that mediates degradation of cytoplasmic mRNAs that have been deadenylated and subsequently uridylated at their 3'.[HAMAP-Rule:MF_03045]<ref>PMID:23503588</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 22: / Line 21: @@
 __TOC__
 </StructureSection>
-[[Category: Fission yeast]]
 [[Category: Large Structures]]
-[[Category: Lv, H]]
+[[Category: Schizosaccharomyces pombe 972h-]]
-[[Category: Teng, M]]
+[[Category: Lv H]]
-[[Category: Zhu, Y]]
+[[Category: Teng M]]
-[[Category: Hydrolase]]
+[[Category: Zhu Y]]
-[[Category: Ob-folds and rnb]]
-[[Category: Rna digestion]]

4ro1

From Proteopedia

Revision as of 08:21, 8 March 2023

An 3'-5'-exoribonuclease that specifically recognizes RNAs.

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox