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7ocz

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Crystal Structure of the PID-3 RRM domain

Structural highlights

7ocz is a 2 chain structure with sequence from Caenorhabditis elegans. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.82Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PID3_CAEEL Component of the pid-1 and tost-1 variants of the PETISCO complexes, which have roles in the biogenesis of a class of 21 nucleotide PIWI-interacting RNAs (piRNAs) that possess a uracil residue at the 5'-end (also called 21U-RNAs) and embryogenesis, respectively (PubMed:31147388, PubMed:31216475). Within the pid-1 variant of the PETISCO complex may stabilize 21U-RNA precursor molecules (PubMed:31147388). Promotes the biogenesis of 21U-RNAs (PubMed:31216475). Required for chromosome segregation and cell division in early embryos (PubMed:31216475).^[1] ^[2] ^[3]

Publication Abstract from PubMed

Piwi-interacting RNAs (piRNAs) constitute a class of small RNAs that bind PIWI proteins and are essential to repress transposable elements in the animal germline, thereby promoting genome stability and maintaining fertility. C. elegans piRNAs (21U RNAs) are transcribed individually from minigenes as precursors that require 5' and 3' processing. This process depends on the PETISCO complex, consisting of four proteins: IFE-3, TOFU-6, PID-3, and ERH-2. We used biochemical and structural biology approaches to characterize the PETISCO architecture and its interaction with RNA, together with its effector proteins TOST-1 and PID-1. These two proteins define different PETISCO functions: PID-1 governs 21U processing, whereas TOST-1 links PETISCO to an unknown process essential for early embryogenesis. Here, we show that PETISCO forms an octameric assembly with each subunit present in two copies. Determination of structures of the TOFU-6/PID-3 and PID-3/ERH-2 subcomplexes, supported by in vivo studies of subunit interaction mutants, allows us to propose a model for the formation of the TOFU-6/PID-3/ERH-2 core complex and its functionality in germ cells and early embryos. Using NMR spectroscopy, we demonstrate that TOST-1 and PID-1 bind to a common surface on ERH-2, located opposite its PID-3 binding site, explaining how PETISCO can mediate different cellular roles.

Structural basis of PETISCO complex assembly during piRNA biogenesis in C. elegans.,Perez-Borrajero C, Podvalnaya N, Holleis K, Lichtenberger R, Karaulanov E, Simon B, Basquin J, Hennig J, Ketting RF, Falk S Genes Dev. 2021 Sep 1;35(17-18):1304-1323. doi: 10.1101/gad.348648.121. Epub 2021, Aug 19. PMID:34413138^[4]

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

References

↑ Cordeiro Rodrigues RJ, de Jesus Domingues AM, Hellmann S, Dietz S, de Albuquerque BFM, Renz C, Ulrich HD, Sarkies P, Butter F, Ketting RF. PETISCO is a novel protein complex required for 21U RNA biogenesis and embryonic viability. Genes Dev. 2019 Jul 1;33(13-14):857-870. doi: 10.1101/gad.322446.118. Epub 2019, May 30. PMID:31147388 doi:http://dx.doi.org/10.1101/gad.322446.118
↑ Zeng C, Weng C, Wang X, Yan YH, Li WJ, Xu D, Hong M, Liao S, Dong MQ, Feng X, Xu C, Guang S. Functional Proteomics Identifies a PICS Complex Required for piRNA Maturation and Chromosome Segregation. Cell Rep. 2019 Jun 18;27(12):3561-3572.e3. doi: 10.1016/j.celrep.2019.05.076. PMID:31216475 doi:http://dx.doi.org/10.1016/j.celrep.2019.05.076
↑ Zeng C, Weng C, Wang X, Yan YH, Li WJ, Xu D, Hong M, Liao S, Dong MQ, Feng X, Xu C, Guang S. Functional Proteomics Identifies a PICS Complex Required for piRNA Maturation and Chromosome Segregation. Cell Rep. 2019 Jun 18;27(12):3561-3572.e3. doi: 10.1016/j.celrep.2019.05.076. PMID:31216475 doi:http://dx.doi.org/10.1016/j.celrep.2019.05.076
↑ Perez-Borrajero C, Podvalnaya N, Holleis K, Lichtenberger R, Karaulanov E, Simon B, Basquin J, Hennig J, Ketting RF, Falk S. Structural basis of PETISCO complex assembly during piRNA biogenesis in C. elegans. Genes Dev. 2021 Sep 1;35(17-18):1304-1323. doi: 10.1101/gad.348648.121. Epub 2021, Aug 19. PMID:34413138 doi:http://dx.doi.org/10.1101/gad.348648.121

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/7ocz"

Categories: Caenorhabditis elegans | Large Structures | Basquin J | Falk S | Ketting RF

@@ Line 3: / Line 3: @@
 <StructureSection load='7ocz' size='340' side='right'caption='[[7ocz]], [[Resolution|resolution]] 1.82&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[7ocz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Caeel Caeel]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7OCZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7OCZ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[7ocz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7OCZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7OCZ FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</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]] 1.82&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pid-3, pics-1, Y23H5A.3 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=6239 CAEEL])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</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=7ocz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ocz OCA], [https://pdbe.org/7ocz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ocz RCSB], [https://www.ebi.ac.uk/pdbsum/7ocz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ocz ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/PID3_CAEEL PID3_CAEEL]] Component of the pid-1 and tost-1 variants of the PETISCO complexes, which have roles in the biogenesis of a class of 21 nucleotide PIWI-interacting RNAs (piRNAs) that possess a uracil residue at the 5'-end (also called 21U-RNAs) and embryogenesis, respectively (PubMed:31147388, PubMed:31216475). Within the pid-1 variant of the PETISCO complex may stabilize 21U-RNA precursor molecules (PubMed:31147388). Promotes the biogenesis of 21U-RNAs (PubMed:31216475). Required for chromosome segregation and cell division in early embryos (PubMed:31216475).<ref>PMID:31147388</ref> <ref>PMID:31216475</ref> <ref>PMID:31216475</ref>
+[https://www.uniprot.org/uniprot/PID3_CAEEL PID3_CAEEL] Component of the pid-1 and tost-1 variants of the PETISCO complexes, which have roles in the biogenesis of a class of 21 nucleotide PIWI-interacting RNAs (piRNAs) that possess a uracil residue at the 5'-end (also called 21U-RNAs) and embryogenesis, respectively (PubMed:31147388, PubMed:31216475). Within the pid-1 variant of the PETISCO complex may stabilize 21U-RNA precursor molecules (PubMed:31147388). Promotes the biogenesis of 21U-RNAs (PubMed:31216475). Required for chromosome segregation and cell division in early embryos (PubMed:31216475).<ref>PMID:31147388</ref> <ref>PMID:31216475</ref> <ref>PMID:31216475</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 23: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Caeel]]
+[[Category: Caenorhabditis elegans]]
 [[Category: Large Structures]]
-[[Category: Basquin, J]]
+[[Category: Basquin J]]
-[[Category: Falk, S]]
+[[Category: Falk S]]
-[[Category: Ketting, R F]]
+[[Category: Ketting RF]]
-[[Category: Pirna biogenesis 21u rna rna recognition motif rna binding]]
-[[Category: Rna binding protein]]

7ocz

From Proteopedia

Current revision

Crystal Structure of the PID-3 RRM domain

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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