5lj3

From Proteopedia

(Difference between revisions)

Current revision

Structure of the core of the yeast spliceosome immediately after branching

5lj3, resolution 3.80Å

Structural highlights

5lj3 is a 10 chain structure with sequence from Saccharomyces cerevisiae. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Electron Microscopy, Resolution 3.8Å
Ligands:
Experimental data:	Check to display Experimental Data
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ISY1_YEAST Involved in pre-mRNA splicing and cell cycle control. As a component of the NTC complex (or PRP19-associated complex), associates to the spliceosome to mediate conformational rearrangement or to stabilize the structure of the spliceosome after U4 snRNA dissociation, which leads to spliceosome maturation. The cell cycle arrest of SYF2 defective cells may be due to the inefficient splicing of TUB1. Also involved in DNA repair.^[1] ^[2] ^[3]

Publication Abstract from PubMed

Pre-mRNA splicing proceeds by two consecutive trans-esterification reactions via a lariat-intron intermediate. We present the 3.8 A cryo-EM structure of the spliceosome immediately after lariat formation. The 5'-splice site is cleaved but remains close to the catalytic Mg2+ site in the U2/U6 snRNA triplex, and the 5'-phosphate of the intron nucleotide G(+1) is linked to the branch adenosine 2'OH. The 5'-exon is held between the Prp8 amino-terminal and Linker domains, and base-pairs with U5 snRNA loop 1. Non-Watson-Crick interactions between the branch helix and 5'-splice site dock the branch adenosine into the active site, while intron nucleotides +3 to +6 base-pair with the U6 snRNA ACAGAGA sequence. Isy1 and the step one factors Yju2 and Cwc25 stabilise docking of the branch helix. The intron downstream of the branch site emerges between the Prp8 reverse transcriptase (RT) and Linker domains and extends towards the Prp16 helicase, suggesting a plausible mechanism of remodelling before exon ligation.

Cryo-EM structure of the spliceosome immediately after branching.,Galej WP, Wilkinson ME, Fica SM, Oubridge C, Newman AJ, Nagai K Nature. 2016 Jul 26. doi: 10.1038/nature19316. PMID:27459055^[4]

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

References

↑ Dix I, Russell C, Yehuda SB, Kupiec M, Beggs JD. The identification and characterization of a novel splicing protein, Isy1p, of Saccharomyces cerevisiae. RNA. 1999 Mar;5(3):360-8. PMID:10094305
↑ Chen CH, Tsai WY, Chen HR, Wang CH, Cheng SC. Identification and characterization of two novel components of the Prp19p-associated complex, Ntc30p and Ntc20p. J Biol Chem. 2001 Jan 5;276(1):488-94. PMID:11018040 doi:http://dx.doi.org/10.1074/jbc.M006958200
↑ Dahan O, Kupiec M. Mutations in genes of Saccharomyces cerevisiae encoding pre-mRNA splicing factors cause cell cycle arrest through activation of the spindle checkpoint. Nucleic Acids Res. 2002 Oct 15;30(20):4361-70. PMID:12384582
↑ Galej WP, Wilkinson ME, Fica SM, Oubridge C, Newman AJ, Nagai K. Cryo-EM structure of the spliceosome immediately after branching. Nature. 2016 Jul 26. doi: 10.1038/nature19316. PMID:27459055 doi:http://dx.doi.org/10.1038/nature19316

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/5lj3"

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 5lj3 is ON HOLD
+==Structure of the core of the yeast spliceosome immediately after branching==
+<SX load='5lj3' size='340' side='right' viewer='molstar' caption='[[5lj3]], [[Resolution|resolution]] 3.80&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5lj3]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5LJ3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5LJ3 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 3.8&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=5lj3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5lj3 OCA], [https://pdbe.org/5lj3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5lj3 RCSB], [https://www.ebi.ac.uk/pdbsum/5lj3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5lj3 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/ISY1_YEAST ISY1_YEAST] Involved in pre-mRNA splicing and cell cycle control. As a component of the NTC complex (or PRP19-associated complex), associates to the spliceosome to mediate conformational rearrangement or to stabilize the structure of the spliceosome after U4 snRNA dissociation, which leads to spliceosome maturation. The cell cycle arrest of SYF2 defective cells may be due to the inefficient splicing of TUB1. Also involved in DNA repair.<ref>PMID:10094305</ref> <ref>PMID:11018040</ref> <ref>PMID:12384582</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Pre-mRNA splicing proceeds by two consecutive trans-esterification reactions via a lariat-intron intermediate. We present the 3.8 A cryo-EM structure of the spliceosome immediately after lariat formation. The 5'-splice site is cleaved but remains close to the catalytic Mg2+ site in the U2/U6 snRNA triplex, and the 5'-phosphate of the intron nucleotide G(+1) is linked to the branch adenosine 2'OH. The 5'-exon is held between the Prp8 amino-terminal and Linker domains, and base-pairs with U5 snRNA loop 1. Non-Watson-Crick interactions between the branch helix and 5'-splice site dock the branch adenosine into the active site, while intron nucleotides +3 to +6 base-pair with the U6 snRNA ACAGAGA sequence. Isy1 and the step one factors Yju2 and Cwc25 stabilise docking of the branch helix. The intron downstream of the branch site emerges between the Prp8 reverse transcriptase (RT) and Linker domains and extends towards the Prp16 helicase, suggesting a plausible mechanism of remodelling before exon ligation.
-Authors:
+Cryo-EM structure of the spliceosome immediately after branching.,Galej WP, Wilkinson ME, Fica SM, Oubridge C, Newman AJ, Nagai K Nature. 2016 Jul 26. doi: 10.1038/nature19316. PMID:27459055<ref>PMID:27459055</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
+<div class="pdbe-citations 5lj3" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Pre-mRNA splicing factors 3D structures|Pre-mRNA splicing factors 3D structures]]
+*[[Sm-like protein 3D structures|Sm-like protein 3D structures]]
+== References ==
+<references/>
+__TOC__
+</SX>
+[[Category: Large Structures]]
+[[Category: Saccharomyces cerevisiae]]
+[[Category: Fica SM]]
+[[Category: Galej WP]]
+[[Category: Nagai K]]
+[[Category: Newman AJ]]
+[[Category: Oubridge C]]
+[[Category: Wilkinson MF]]

5lj3

From Proteopedia

Current revision

Structure of the core of the yeast spliceosome immediately after branching

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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