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| | <SX load='3jb9' size='340' side='right' viewer='molstar' caption='[[3jb9]], [[Resolution|resolution]] 3.60Å' scene=''> | | <SX load='3jb9' size='340' side='right' viewer='molstar' caption='[[3jb9]], [[Resolution|resolution]] 3.60Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3jb9]] is a 43 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe Schizosaccharomyces pombe] and [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=3JB9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3JB9 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3jb9]] is a 17 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe Schizosaccharomyces pombe] and [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=3JB9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3JB9 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 3.6Å</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>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peptidylprolyl_isomerase Peptidylprolyl isomerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.2.1.8 5.2.1.8] </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=3jb9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3jb9 OCA], [https://pdbe.org/3jb9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3jb9 RCSB], [https://www.ebi.ac.uk/pdbsum/3jb9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3jb9 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=3jb9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3jb9 OCA], [https://pdbe.org/3jb9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3jb9 RCSB], [https://www.ebi.ac.uk/pdbsum/3jb9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3jb9 ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[https://www.uniprot.org/uniprot/RU2B_SCHPO RU2B_SCHPO]] Involved in pre-mRNA splicing. This protein is associated with snRNP U2. It binds stem loop IV of U2 snRNA (By similarity). [[https://www.uniprot.org/uniprot/SLT11_SCHPO SLT11_SCHPO]] Facilitates the cooperative formation of U2/U6 helix II in association with stem II in the spliceosome. Binds to RNA (By similarity). Involved in pre-mRNA splicing. [[https://www.uniprot.org/uniprot/SMD2_SCHPO SMD2_SCHPO]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site (By similarity). [[https://www.uniprot.org/uniprot/CWC15_SCHPO CWC15_SCHPO]] Involved in pre-mRNA splicing. [[https://www.uniprot.org/uniprot/SN114_SCHPO SN114_SCHPO]] Component of the U5 snRNP complex required for pre-mRNA splicing. Binds GTP. [[https://www.uniprot.org/uniprot/SPP42_SCHPO SPP42_SCHPO]] Involved in pre-mRNA splicing. May be involved in endoplasmic reticulum-associated protein degradation (ERAD) and required for growth at low and high temperatures (By similarity). Required for pre-spliceosome formation, which is the first step of pre-mRNA splicing. This protein is associated with snRNP U5. Has a role in branch site-3' splice site selection. Associates with the branch site-3' splice 3'-exon region.<ref>PMID:16133344</ref> [[https://www.uniprot.org/uniprot/PRP19_SCHPO PRP19_SCHPO]] Probable ubiquitin-protein ligase involved in pre-mRNA splicing where it associates with cdc5 and the other cwf proteins as part of the spliceosome. May also function in DNA repair.[UniProtKB:P32523] [[https://www.uniprot.org/uniprot/CWF11_SCHPO CWF11_SCHPO]] Involved in mRNA splicing where it associates with cdc5 and the other cwf proteins as part of the spliceosome. [[https://www.uniprot.org/uniprot/SPF27_SCHPO SPF27_SCHPO]] Involved in mRNA splicing. [[https://www.uniprot.org/uniprot/PRP17_SCHPO PRP17_SCHPO]] Functions in the second step of pre-mRNA splicing. Involved in splicing intron which are longer than 200 nucleotides.<ref>PMID:15452114</ref> [[https://www.uniprot.org/uniprot/CWC2_SCHPO CWC2_SCHPO]] Involved in the first step of pre-mRNA splicing. Required for cell growth and cell cycle control. Plays a role in the levels of the U1, U4, U5 and U6 snRNAs and the maintenance of the U4/U6 snRNA complex. May provide the link between the "nineteen complex" NTC spliceosome protein complex and the spliceosome through the U6 snRNA. Associates predominantly with U6 snRNAs in assembled active spliceosomes. Binds directly to the internal stem-loop (ISL) domain of the U6 snRNA and to the pre-mRNA intron near the 5' splice site during the activation and catalytic phases of the spliceosome cycle (By similarity). Involved in pre-mRNA splicing.<ref>PMID:2721492</ref> [[https://www.uniprot.org/uniprot/CWF14_SCHPO CWF14_SCHPO]] Involved in mRNA splicing where it associates with cdc5 and the other cwf proteins as part of the spliceosome. [[https://www.uniprot.org/uniprot/RUXG_SCHPO RUXG_SCHPO]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site (By similarity). [[https://www.uniprot.org/uniprot/RU2A_SCHPO RU2A_SCHPO]] Involved in pre-mRNA splicing. This protein is associated with sn-RNP U2. It helps the A' protein to bind stem loop IV of U2 snRNA (By similarity). [[https://www.uniprot.org/uniprot/CWF19_SCHPO CWF19_SCHPO]] Involved in mRNA splicing where it associates with cdc5 and the other cwf proteins as part of the spliceosome. Involved in mRNA splicing. [[https://www.uniprot.org/uniprot/PRP45_SCHPO PRP45_SCHPO]] Involved in pre-mRNA splicing. [[https://www.uniprot.org/uniprot/PPIL1_SCHPO PPIL1_SCHPO]] PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides (By similarity). [[https://www.uniprot.org/uniprot/SMD1_SCHPO SMD1_SCHPO]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site (By similarity). [[https://www.uniprot.org/uniprot/RUXF_SCHPO RUXF_SCHPO]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site (By similarity). [[https://www.uniprot.org/uniprot/CWF17_SCHPO CWF17_SCHPO]] Involved in mRNA splicing where it associates with cdc5 and the other cwf proteins as part of the spliceosome. [[https://www.uniprot.org/uniprot/RUXE_SCHPO RUXE_SCHPO]] Involved in pre-mRNA splicing. Binds and is required for the stability of snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site. Involved in cap modification (By similarity).[UniProtKB:Q12330] [[https://www.uniprot.org/uniprot/SMD3_SCHPO SMD3_SCHPO]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site (By similarity). [[https://www.uniprot.org/uniprot/CEF1_SCHPO CEF1_SCHPO]] Involved in mRNA splicing and cell cycle control.<ref>PMID:10409726</ref> <ref>PMID:8313892</ref> [[https://www.uniprot.org/uniprot/RSMB_SCHPO RSMB_SCHPO]] Involved in pre-mRNA splicing. Binds snRNA U1, U2, U4 and U5 which contain a highly conserved structural motif called the Sm binding site (By similarity).
| + | [https://www.uniprot.org/uniprot/SPP42_SCHPO SPP42_SCHPO] Involved in pre-mRNA splicing. May be involved in endoplasmic reticulum-associated protein degradation (ERAD) and required for growth at low and high temperatures (By similarity). Required for pre-spliceosome formation, which is the first step of pre-mRNA splicing. This protein is associated with snRNP U5. Has a role in branch site-3' splice site selection. Associates with the branch site-3' splice 3'-exon region.<ref>PMID:16133344</ref> |
| - | <div style="background-color:#fffaf0;">
| + | |
| - | == Publication Abstract from PubMed ==
| + | |
| - | Splicing of precursor messenger RNA (pre-mRNA) in yeast is executed by the spliceosome, which consists of five small nuclear ribonucleoproteins (snRNPs), NTC (nineteen complex), NTC-related proteins (NTR), and a number of associated enzymes and cofactors. Here, we report the three-dimensional structure of a Schizosaccharomyces pombe spliceosome at 3.6-angstrom resolution, revealed by means of single-particle cryogenic electron microscopy. This spliceosome contains U2 and U5 snRNPs, NTC, NTR, U6 small nuclear RNA, and an RNA intron lariat. The atomic model includes 10,574 amino acids from 37 proteins and four RNA molecules, with a combined molecular mass of approximately 1.3 megadaltons. Spp42 (Prp8 in Saccharomyces cerevisiae), the key protein component of the U5 snRNP, forms a central scaffold and anchors the catalytic center. Both the morphology and the placement of protein components appear to have evolved to facilitate the dynamic process of pre-mRNA splicing. Our near-atomic-resolution structure of a central spliceosome provides a molecular framework for mechanistic understanding of pre-mRNA splicing.
| + | |
| - | | + | |
| - | Structure of a yeast spliceosome at 3.6-angstrom resolution.,Yan C, Hang J, Wan R, Huang M, Wong CC, Shi Y Science. 2015 Sep 11;349(6253):1182-91. doi: 10.1126/science.aac7629. Epub 2015, Aug 20. PMID:26292707<ref>PMID:26292707</ref>
| + | |
| - | | + | |
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
| + | |
| - | </div>
| + | |
| - | <div class="pdbe-citations 3jb9" style="background-color:#fffaf0;"></div>
| + | |
| | | | |
| | ==See Also== | | ==See Also== |
| | + | *[[Helicase 3D structures|Helicase 3D structures]] |
| | *[[Pre-mRNA splicing factors 3D structures|Pre-mRNA splicing factors 3D structures]] | | *[[Pre-mRNA splicing factors 3D structures|Pre-mRNA splicing factors 3D structures]] |
| - | *[[Sm-like protein|Sm-like protein]] | + | *[[Sm-like protein 3D structures|Sm-like protein 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
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| | </SX> | | </SX> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Peptidylprolyl isomerase]] | |
| | [[Category: Schizosaccharomyces pombe]] | | [[Category: Schizosaccharomyces pombe]] |
| | [[Category: Schizosaccharomyces pombe 972h-]] | | [[Category: Schizosaccharomyces pombe 972h-]] |
| - | [[Category: Hang, J]] | + | [[Category: Hang J]] |
| - | [[Category: Huang, M]] | + | [[Category: Huang M]] |
| - | [[Category: Shi, Y]] | + | [[Category: Shi Y]] |
| - | [[Category: Wan, R]] | + | [[Category: Wan R]] |
| - | [[Category: Wong, C]] | + | [[Category: Wong C]] |
| - | [[Category: Yan, C]] | + | [[Category: Yan C]] |
| - | [[Category: Lariat]]
| + | |
| - | [[Category: Rna binding protein-rna complex]]
| + | |
| - | [[Category: Spliceosome]]
| + | |
| - | [[Category: U2/u5/u6]]
| + | |
