5fiq

From Proteopedia

(Difference between revisions)

Current revision

Exonuclease domain-containing 1 (Exd1) in the native conformation

Structural highlights

5fiq is a 5 chain structure with sequence from Bombyx mori. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.4Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

EXD1_BOMMO RNA-binding component of the PET complex, a multiprotein complex required for the processing of piRNAs during spermatogenesis. The piRNA metabolic process mediates the repression of transposable elements during meiosis by forming complexes composed of piRNAs and Piwi proteins and governs the methylation and subsequent repression of transposable elements, preventing their mobilization, which is essential for the germline integrity. The PET complex is required during the secondary piRNAs metabolic process for the PIWIL2 slicing-triggered loading of PIWIL4 piRNAs. In the PET complex, EXD1 probably acts as an RNA adapter. EXD1 is an inactive exonuclease.^[1]

Publication Abstract from PubMed

PIWI-interacting RNAs (piRNAs) guide PIWI proteins to suppress transposons in the cytoplasm and nucleus of animal germ cells, but how silencing in the two compartments is coordinated is not known. Here we demonstrate that endonucleolytic slicing of a transcript by the cytosolic mouse PIWI protein MILI acts as a trigger to initiate its further 5'-->3' processing into non-overlapping fragments. These fragments accumulate as new piRNAs within both cytosolic MILI and the nuclear MIWI2. We also identify Exonuclease domain-containing 1 (EXD1) as a partner of the MIWI2 piRNA biogenesis factor TDRD12. EXD1 homodimers are inactive as a nuclease but function as an RNA adaptor within a PET (PIWI-EXD1-Tdrd12) complex. Loss of Exd1 reduces sequences generated by MILI slicing, impacts biogenesis of MIWI2 piRNAs, and de-represses LINE1 retrotransposons. Thus, piRNA biogenesis triggered by PIWI slicing, and promoted by EXD1, ensures that the same guides instruct PIWI proteins in the nucleus and cytoplasm.

PIWI Slicing and EXD1 Drive Biogenesis of Nuclear piRNAs from Cytosolic Targets of the Mouse piRNA Pathway.,Yang Z, Chen KM, Pandey RR, Homolka D, Reuter M, Janeiro BK, Sachidanandam R, Fauvarque MO, McCarthy AA, Pillai RS Mol Cell. 2016 Jan 7;61(1):138-52. doi: 10.1016/j.molcel.2015.11.009. Epub 2015, Dec 6. PMID:26669262^[2]

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

References

↑ Yang Z, Chen KM, Pandey RR, Homolka D, Reuter M, Janeiro BK, Sachidanandam R, Fauvarque MO, McCarthy AA, Pillai RS. PIWI Slicing and EXD1 Drive Biogenesis of Nuclear piRNAs from Cytosolic Targets of the Mouse piRNA Pathway. Mol Cell. 2016 Jan 7;61(1):138-52. doi: 10.1016/j.molcel.2015.11.009. Epub 2015, Dec 6. PMID:26669262 doi:http://dx.doi.org/10.1016/j.molcel.2015.11.009
↑ Yang Z, Chen KM, Pandey RR, Homolka D, Reuter M, Janeiro BK, Sachidanandam R, Fauvarque MO, McCarthy AA, Pillai RS. PIWI Slicing and EXD1 Drive Biogenesis of Nuclear piRNAs from Cytosolic Targets of the Mouse piRNA Pathway. Mol Cell. 2016 Jan 7;61(1):138-52. doi: 10.1016/j.molcel.2015.11.009. Epub 2015, Dec 6. PMID:26669262 doi:http://dx.doi.org/10.1016/j.molcel.2015.11.009

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

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

@@ Line 1: / Line 1: @@
 ==Exonuclease domain-containing 1 (Exd1) in the native conformation==
-<StructureSection load='5fiq' size='340' side='right' caption='[[5fiq]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
+<StructureSection load='5fiq' size='340' side='right'caption='[[5fiq]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5fiq]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FIQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FIQ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5fiq]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Bombyx_mori Bombyx mori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FIQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5FIQ FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5fis|5fis]]</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]] 2.4&#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=5fiq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fiq OCA], [http://pdbe.org/5fiq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fiq RCSB], [http://www.ebi.ac.uk/pdbsum/5fiq PDBsum]</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=5fiq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fiq OCA], [https://pdbe.org/5fiq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5fiq RCSB], [https://www.ebi.ac.uk/pdbsum/5fiq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5fiq ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/EXD1_BOMMO EXD1_BOMMO] RNA-binding component of the PET complex, a multiprotein complex required for the processing of piRNAs during spermatogenesis. The piRNA metabolic process mediates the repression of transposable elements during meiosis by forming complexes composed of piRNAs and Piwi proteins and governs the methylation and subsequent repression of transposable elements, preventing their mobilization, which is essential for the germline integrity. The PET complex is required during the secondary piRNAs metabolic process for the PIWIL2 slicing-triggered loading of PIWIL4 piRNAs. In the PET complex, EXD1 probably acts as an RNA adapter. EXD1 is an inactive exonuclease.<ref>PMID:26669262</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 15: / Line 18: @@
 </div>
 <div class="pdbe-citations 5fiq" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Exonuclease 3D structures|Exonuclease 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Chen, K M]]
+[[Category: Bombyx mori]]
-[[Category: Fauvarque, M O]]
+[[Category: Large Structures]]
-[[Category: Homolka, D]]
+[[Category: Chen KM]]
-[[Category: Janeiro, B K.Rodino]]
+[[Category: Fauvarque MO]]
-[[Category: McCarthy, A A]]
+[[Category: Homolka D]]
-[[Category: Pandey, R R]]
+[[Category: McCarthy AA]]
-[[Category: Pillai, R S]]
+[[Category: Pandey RR]]
-[[Category: Reuter, M]]
+[[Category: Pillai RS]]
-[[Category: Sachidanandam, R]]
+[[Category: Reuter M]]
-[[Category: Yang, Z]]
+[[Category: Rodino Janeiro BK]]
-[[Category: Dimer]]
+[[Category: Sachidanandam R]]
-[[Category: Exonuclease]]
+[[Category: Yang Z]]
-[[Category: Hydrolase]]
-[[Category: Pirna biogenesis]]
-[[Category: Rna binding]]

5fiq

From Proteopedia

Current revision

Exonuclease domain-containing 1 (Exd1) in the native conformation

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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