id: Q9UUI1 gene_symbol: lsm6 product_type: PROTEIN status: COMPLETE taxon: id: NCBITaxon:284812 label: Schizosaccharomyces pombe (strain 972 / ATCC 24843) description: Lsm6 is a conserved Sm-fold RNA-binding protein shared by the Lsm2-8 and Lsm1-7 complexes. Nuclear Lsm2-8 recognizes uridine-rich RNA ends and supports U6 snRNA function, spliceosome assembly and telomerase RNA protection. Cytoplasmic Lsm1-7 associates with Pat1 and promotes mRNA decapping and turnover. Fission yeast structures and RNA-binding assays establish the contribution of Lsm6 to these oligomeric RNA-binding assemblies. existing_annotations: - term: &id005 id: GO:0000398 label: mRNA splicing, via spliceosome evidence_type: IBA original_reference_id: GO_REF:0000033 qualifier: involved_in supporting_entities: - AGI_LocusCode:AT2G43810 - AGI_LocusCode:AT3G59810 - PANTHER:PTN000111530 - PomBase:SPBC3E7.14 - SGD:S000002786 - SGD:S000006386 - UniProtKB:P62306 - UniProtKB:P62312 - UniProtKB:Q38DY4 review: summary: mRNA splicing, via spliceosome is supported. action: ACCEPT reason: Lsm6 is a conserved subunit of the Lsm2-8 ring that binds U6 RNA and supports spliceosomal snRNP assembly and mRNA splicing. Fission yeast reconstitution and structures establish the target subunit within this RNA-recognition assembly. supported_by: - &id001 reference_id: PMID:22615807 supporting_text: RNA binding assays show that Lsm2/3 and Lsm5/6/7 bind to oligo(U) whereas no RNA binding is observed for Lsm3 and Lsm4. Analysis of the inter-subunit interactions in Lsm5/6/7 reveals the organization order among Lsm5, Lsm6 and Lsm7. - &id002 reference_id: PMID:32518066 supporting_text: The multi-ORF expression system was assembled into a single plasmid through ligation independent cloning as described for Lsm2–8, with the ORFs assembled in order Lsm6, Lsm3, Lsm2, Lsm1, Lsm4, Lsm7, and Lsm5. - term: id: GO:0000398 label: mRNA splicing, via spliceosome evidence_type: IEA original_reference_id: GO_REF:0000002 qualifier: involved_in supporting_entities: - InterPro:IPR016487 review: summary: mRNA splicing, via spliceosome is supported. action: ACCEPT reason: Lsm6 is a conserved subunit of the Lsm2-8 ring that binds U6 RNA and supports spliceosomal snRNP assembly and mRNA splicing. Fission yeast reconstitution and structures establish the target subunit within this RNA-recognition assembly. supported_by: - *id001 - *id002 - term: id: GO:0000398 label: mRNA splicing, via spliceosome evidence_type: NAS original_reference_id: PMID:32518066 qualifier: involved_in review: summary: mRNA splicing, via spliceosome is supported. action: ACCEPT reason: Lsm6 is a conserved subunit of the Lsm2-8 ring that binds U6 RNA and supports spliceosomal snRNP assembly and mRNA splicing. Fission yeast reconstitution and structures establish the target subunit within this RNA-recognition assembly. supported_by: - *id001 - *id002 - term: id: GO:0000932 label: P-body evidence_type: IBA original_reference_id: GO_REF:0000033 qualifier: is_active_in supporting_entities: - PANTHER:PTN000111600 - SGD:S000002786 review: summary: P-body is supported. action: ACCEPT reason: Lsm6 is shared by the cytoplasmic Lsm1-7 ring, whose conserved association with Pat1 and decapping machinery underlies mRNA turnover and P-body residence. Target-specific ring reconstitution supports the complex assignment; P-body residence remains a conserved localization inference. supported_by: - *id001 - *id002 - term: &id010 id: GO:0003723 label: RNA binding evidence_type: IBA original_reference_id: GO_REF:0000033 qualifier: enables supporting_entities: - AGI_LocusCode:AT2G43810 - PANTHER:PTN000111529 - PomBase:SPAC2F3.17c - SGD:S000006386 - UniProtKB:P62306 review: summary: RNA binding is supported. action: ACCEPT reason: Fission yeast Lsm5/6/7 subcomplex binds oligo(U) in RNA-binding assays, and intact Lsm rings reveal the RNA-recognition mechanism. This supports the subunit contribution to RNA binding without treating an isolated monomer as the physiological RNA-binding species. supported_by: - *id001 - *id002 - term: id: GO:0003723 label: RNA binding evidence_type: IEA original_reference_id: GO_REF:0000002 qualifier: enables supporting_entities: - InterPro:IPR047575 review: summary: RNA binding is supported. action: ACCEPT reason: Fission yeast Lsm5/6/7 subcomplex binds oligo(U) in RNA-binding assays, and intact Lsm rings reveal the RNA-recognition mechanism. This supports the subunit contribution to RNA binding without treating an isolated monomer as the physiological RNA-binding species. supported_by: - *id001 - *id002 - term: id: GO:0005515 label: protein binding evidence_type: IPI original_reference_id: PMID:22615807 qualifier: enables supporting_entities: - PomBase:SPBC20F10.09 review: summary: protein binding is retained as an ancillary annotation. action: KEEP_AS_NON_CORE reason: Retain the reported physical interaction as supporting complex-assembly evidence. Generic protein binding does not specify the nuclease or RNA-binding function and is not a useful core molecular-function summary. supported_by: - *id001 - term: id: GO:0005515 label: protein binding evidence_type: IPI original_reference_id: PMID:22615807 qualifier: enables supporting_entities: - PomBase:SPCC285.12 review: summary: protein binding is retained as an ancillary annotation. action: KEEP_AS_NON_CORE reason: Retain the reported physical interaction as supporting complex-assembly evidence. Generic protein binding does not specify the nuclease or RNA-binding function and is not a useful core molecular-function summary. supported_by: - *id001 - term: &id009 id: GO:0005634 label: nucleus evidence_type: HDA original_reference_id: PMID:16823372 qualifier: is_active_in review: summary: nucleus is supported. action: ACCEPT reason: The nuclear pool is consistent with the localization screen and the Lsm2-8 role in U6 RNA metabolism. ARBA agreement is not the basis of acceptance. supported_by: - &id003 reference_id: PMID:16823372 supporting_text: Next, we determined the localization of 4,431 proteins, corresponding to approximately 90% of the fission yeast proteome, by tagging each ORF with the yellow fluorescent protein. - *id002 - term: id: GO:0005634 label: nucleus evidence_type: IEA original_reference_id: GO_REF:0000117 qualifier: located_in supporting_entities: - ARBA:ARBA00026330 review: summary: nucleus is supported. action: ACCEPT reason: The nuclear pool is consistent with the localization screen and the Lsm2-8 role in U6 RNA metabolism. ARBA agreement is not the basis of acceptance. supported_by: - *id003 - *id002 - term: id: GO:0005682 label: U5 snRNP evidence_type: IDA original_reference_id: PMID:26292707 qualifier: part_of review: summary: U5 snRNP is not fully resolved. action: UNDECIDED reason: The accessible main text of PMID:26292707 describes Sm rings associated with U2 and U5, while fission yeast Lsm6 is experimentally established in Lsm RNA-binding rings. The exact protein identities and contacts underlying the PomBase U2/U5 assignment require resolution against the supplementary models and chain mappings. The broader spliceosome context is compatible with Lsm6 function, but it does not by itself settle this precise RNA or particle assignment. supported_by: - *id001 - term: id: GO:0005686 label: U2 snRNP evidence_type: EXP original_reference_id: PMID:26292707 qualifier: part_of review: summary: U2 snRNP is not fully resolved. action: UNDECIDED reason: The accessible main text of PMID:26292707 describes Sm rings associated with U2 and U5, while fission yeast Lsm6 is experimentally established in Lsm RNA-binding rings. The exact protein identities and contacts underlying the PomBase U2/U5 assignment require resolution against the supplementary models and chain mappings. The broader spliceosome context is compatible with Lsm6 function, but it does not by itself settle this precise RNA or particle assignment. supported_by: - *id001 - term: id: GO:0005688 label: U6 snRNP evidence_type: EXP original_reference_id: PMID:32518066 qualifier: part_of review: summary: U6 snRNP is supported. action: ACCEPT reason: Lsm6 is a conserved subunit of the Lsm2-8 ring that binds U6 RNA and supports spliceosomal snRNP assembly and mRNA splicing. Fission yeast reconstitution and structures establish the target subunit within this RNA-recognition assembly. supported_by: - *id001 - *id002 - term: id: GO:0005688 label: U6 snRNP evidence_type: IBA original_reference_id: GO_REF:0000033 qualifier: part_of supporting_entities: - PANTHER:PTN000111600 - PomBase:SPAC2F3.17c - SGD:S000002786 review: summary: U6 snRNP is supported. action: ACCEPT reason: Lsm6 is a conserved subunit of the Lsm2-8 ring that binds U6 RNA and supports spliceosomal snRNP assembly and mRNA splicing. Fission yeast reconstitution and structures establish the target subunit within this RNA-recognition assembly. supported_by: - *id001 - *id002 - term: id: GO:0005697 label: telomerase holoenzyme complex evidence_type: EXP original_reference_id: PMID:35277511 qualifier: part_of review: summary: telomerase holoenzyme complex is supported. action: ACCEPT reason: The nuclear Lsm2-8 ring protects telomerase RNA and supports telomerase assembly in fission yeast. This is a complex-level RNA-stabilization role, not reverse-transcriptase catalysis. The target is an experimentally established shared Lsm2-8 subunit. The original PMID:35277511 annotation is retained at its stated evidential scope; accessible source text and the independent evidence cited here are considered together. supported_by: - *id002 - &id004 reference_id: PMID:29422501 supporting_text: Co-immunoprecipitation assays confirmed an interaction between Lsm3 and Lar7 (Fig. 5b), indicating that they co-exist as a complex. Their association was sensitive to the presence of RNase and was abolished in lar7-W103A and lar7-FV197EE mutants. In addition, an interaction between wild-type Lar7 and Trt1 was detected, which was also dependent on RNA (Fig. 5c). These data suggested that Lar7, LSm2–8 and Trt1 independently bind to TER1 to form the telomerase ribonucleoprotein complex. - term: id: GO:0005730 label: nucleolus evidence_type: IBA original_reference_id: GO_REF:0000033 qualifier: is_active_in supporting_entities: - PANTHER:PTN000111600 - SGD:S000002786 review: summary: nucleolus is retained as an ancillary annotation. action: KEEP_AS_NON_CORE reason: Curated phylogenetic evidence supports an ancillary nucleolar RNA-processing role, consistent with Lsm2-7 association with snoRNA in budding yeast. This is compatible with conserved RNA-binding ring biology but is less directly established for fission yeast Lsm6 than its Lsm1-7 and Lsm2-8 roles. supported_by: - *id001 - term: id: GO:0005730 label: nucleolus evidence_type: IEA original_reference_id: GO_REF:0000044 qualifier: located_in supporting_entities: - UniProtKB-SubCell:SL-0188 review: summary: nucleolus is retained as an ancillary annotation. action: KEEP_AS_NON_CORE reason: Curated phylogenetic evidence supports an ancillary nucleolar RNA-processing role, consistent with Lsm2-7 association with snoRNA in budding yeast. This is compatible with conserved RNA-binding ring biology but is less directly established for fission yeast Lsm6 than its Lsm1-7 and Lsm2-8 roles. supported_by: - *id001 - term: id: GO:0005732 label: sno(s)RNA-containing ribonucleoprotein complex evidence_type: IBA original_reference_id: GO_REF:0000033 qualifier: part_of supporting_entities: - PANTHER:PTN000111600 - SGD:S000002786 review: summary: sno(s)RNA-containing ribonucleoprotein complex is retained as an ancillary annotation. action: KEEP_AS_NON_CORE reason: Curated phylogenetic evidence supports an ancillary nucleolar RNA-processing role, consistent with Lsm2-7 association with snoRNA in budding yeast. This is compatible with conserved RNA-binding ring biology but is less directly established for fission yeast Lsm6 than its Lsm1-7 and Lsm2-8 roles. supported_by: - *id001 - term: &id012 id: GO:0005737 label: cytoplasm evidence_type: IEA original_reference_id: GO_REF:0000044 qualifier: located_in supporting_entities: - UniProtKB-SubCell:SL-0086 review: summary: cytoplasm is supported. action: ACCEPT reason: Lsm6 is shared by the cytoplasmic Lsm1-7 ring, whose conserved association with Pat1 and decapping machinery underlies mRNA turnover and P-body residence. Target-specific ring reconstitution supports the complex assignment; P-body residence remains a conserved localization inference. supported_by: - *id001 - *id002 - term: id: GO:0005737 label: cytoplasm evidence_type: ISS original_reference_id: GO_REF:0000024 qualifier: located_in supporting_entities: - UniProtKB:Q06406 review: summary: cytoplasm is supported. action: ACCEPT reason: Lsm6 is shared by the cytoplasmic Lsm1-7 ring, whose conserved association with Pat1 and decapping machinery underlies mRNA turnover and P-body residence. Target-specific ring reconstitution supports the complex assignment; P-body residence remains a conserved localization inference. supported_by: - *id001 - *id002 - term: &id007 id: GO:0008266 label: poly(U) RNA binding evidence_type: IDA original_reference_id: PMID:22615807 qualifier: enables review: summary: poly(U) RNA binding is supported. action: ACCEPT reason: Fission yeast Lsm5/6/7 subcomplex binds oligo(U) in RNA-binding assays, and intact Lsm rings reveal the RNA-recognition mechanism. This supports the subunit contribution to RNA binding without treating an isolated monomer as the physiological RNA-binding species. supported_by: - *id001 - *id002 - term: id: GO:0030490 label: maturation of SSU-rRNA evidence_type: IBA original_reference_id: GO_REF:0000033 qualifier: involved_in supporting_entities: - PANTHER:PTN000111600 - SGD:S000002786 review: summary: maturation of SSU-rRNA is retained as an ancillary annotation. action: KEEP_AS_NON_CORE reason: Curated phylogenetic evidence supports an ancillary nucleolar RNA-processing role, consistent with Lsm2-7 association with snoRNA in budding yeast. This is compatible with conserved RNA-binding ring biology but is less directly established for fission yeast Lsm6 than its Lsm1-7 and Lsm2-8 roles. supported_by: - *id001 - term: id: GO:0030620 label: U2 snRNA binding evidence_type: IDA original_reference_id: PMID:26292707 qualifier: enables review: summary: U2 snRNA binding is not fully resolved. action: UNDECIDED reason: The accessible main text of PMID:26292707 describes Sm rings associated with U2 and U5, while fission yeast Lsm6 is experimentally established in Lsm RNA-binding rings. The exact protein identities and contacts underlying the PomBase U2/U5 assignment require resolution against the supplementary models and chain mappings. The broader spliceosome context is compatible with Lsm6 function, but it does not by itself settle this precise RNA or particle assignment. supported_by: - *id001 - term: id: GO:0046540 label: U4/U6 x U5 tri-snRNP complex evidence_type: IBA original_reference_id: GO_REF:0000033 qualifier: part_of supporting_entities: - PANTHER:PTN000111600 - SGD:S000002786 - UniProtKB:P62312 review: summary: U4/U6 x U5 tri-snRNP complex is supported. action: ACCEPT reason: Lsm6 is a conserved subunit of the Lsm2-8 ring that binds U6 RNA and supports spliceosomal snRNP assembly and mRNA splicing. Fission yeast reconstitution and structures establish the target subunit within this RNA-recognition assembly. supported_by: - *id001 - *id002 - term: id: GO:0120114 label: Sm-like protein family complex evidence_type: IEA original_reference_id: GO_REF:0000117 qualifier: part_of supporting_entities: - ARBA:ARBA00027169 review: summary: Sm-like protein family complex is supported. action: ACCEPT reason: Target-specific crystallography and reconstitution directly establish Lsm6 in Sm-fold ring complexes. The broad family-complex assertion is biologically supported independently of ARBA, although the named Lsm complexes are more informative. supported_by: - *id001 - *id002 - term: &id008 id: GO:0120115 label: Lsm2-8 complex evidence_type: EXP original_reference_id: PMID:22001694 qualifier: part_of review: summary: Lsm2-8 complex is supported. action: ACCEPT reason: Lsm6 is a conserved subunit of the Lsm2-8 ring that binds U6 RNA and supports spliceosomal snRNP assembly and mRNA splicing. Fission yeast reconstitution and structures establish the target subunit within this RNA-recognition assembly. The original PMID:22001694 annotation is retained at its stated evidential scope; accessible source text and the independent evidence cited here are considered together. supported_by: - *id001 - *id002 - term: id: GO:0120115 label: Lsm2-8 complex evidence_type: EXP original_reference_id: PMID:32518066 qualifier: part_of review: summary: Lsm2-8 complex is supported. action: ACCEPT reason: Lsm6 is a conserved subunit of the Lsm2-8 ring that binds U6 RNA and supports spliceosomal snRNP assembly and mRNA splicing. Fission yeast reconstitution and structures establish the target subunit within this RNA-recognition assembly. supported_by: - *id001 - *id002 - term: id: GO:0120115 label: Lsm2-8 complex evidence_type: IPI original_reference_id: PMID:32518066 qualifier: part_of review: summary: Lsm2-8 complex is supported. action: ACCEPT reason: Lsm6 is a conserved subunit of the Lsm2-8 ring that binds U6 RNA and supports spliceosomal snRNP assembly and mRNA splicing. Fission yeast reconstitution and structures establish the target subunit within this RNA-recognition assembly. supported_by: - *id001 - *id002 - term: &id006 id: GO:1905323 label: telomerase holoenzyme complex assembly evidence_type: NAS original_reference_id: PMID:32518066 qualifier: involved_in review: summary: telomerase holoenzyme complex assembly is supported. action: ACCEPT reason: The nuclear Lsm2-8 ring protects telomerase RNA and supports telomerase assembly in fission yeast. This is a complex-level RNA-stabilization role, not reverse-transcriptase catalysis. The target is an experimentally established shared Lsm2-8 subunit. supported_by: - *id002 - *id004 - term: id: GO:1905323 label: telomerase holoenzyme complex assembly evidence_type: TAS original_reference_id: PMID:29422501 qualifier: involved_in review: summary: telomerase holoenzyme complex assembly is supported. action: ACCEPT reason: The nuclear Lsm2-8 ring protects telomerase RNA and supports telomerase assembly in fission yeast. This is a complex-level RNA-stabilization role, not reverse-transcriptase catalysis. The target is an experimentally established shared Lsm2-8 subunit. The original PMID:29422501 annotation is retained at its stated evidential scope; accessible source text and the independent evidence cited here are considered together. supported_by: - *id002 - *id004 - term: &id011 id: GO:1990726 label: Lsm1-7-Pat1 complex evidence_type: EXP original_reference_id: PMID:22001694 qualifier: part_of review: summary: Lsm1-7-Pat1 complex is supported. action: ACCEPT reason: Lsm6 is shared by the cytoplasmic Lsm1-7 ring, whose conserved association with Pat1 and decapping machinery underlies mRNA turnover and P-body residence. Target-specific ring reconstitution supports the complex assignment; P-body residence remains a conserved localization inference. The original PMID:22001694 annotation is retained at its stated evidential scope; accessible source text and the independent evidence cited here are considered together. supported_by: - *id001 - *id002 - term: id: GO:1990726 label: Lsm1-7-Pat1 complex evidence_type: EXP original_reference_id: PMID:32518066 qualifier: part_of review: summary: Lsm1-7-Pat1 complex is supported. action: ACCEPT reason: Lsm6 is shared by the cytoplasmic Lsm1-7 ring, whose conserved association with Pat1 and decapping machinery underlies mRNA turnover and P-body residence. Target-specific ring reconstitution supports the complex assignment; P-body residence remains a conserved localization inference. supported_by: - *id001 - *id002 references: - id: GO_REF:0000002 title: Gene Ontology annotation through association of InterPro records with GO terms findings: [] - id: GO_REF:0000024 title: Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity findings: [] - id: GO_REF:0000033 title: Annotation inferences using phylogenetic trees findings: [] - id: GO_REF:0000044 title: Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular Location vocabulary mapping, accompanied by conservative changes to GO terms applied by UniProt findings: [] - id: GO_REF:0000117 title: Electronic Gene Ontology annotations created by ARBA machine learning models findings: [] - id: PMID:16823372 title: ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe. findings: [] full_text_unavailable: true - id: PMID:22001694 title: 'Structure of the LSm657 complex: an assembly intermediate of the LSm1-7 and LSm2-8 rings.' findings: [] full_text_unavailable: true - id: PMID:22615807 title: Crystal structures of Lsm3, Lsm4 and Lsm5/6/7 from Schizosaccharomyces pombe. findings: [] full_text_unavailable: false - id: PMID:26292707 title: Structure of a yeast spliceosome at 3.6-angstrom resolution. findings: [] full_text_unavailable: true - id: PMID:29422501 title: LARP7 family proteins have conserved function in telomerase assembly. findings: [] full_text_unavailable: false - id: PMID:32518066 title: Molecular basis for the distinct cellular functions of the Lsm1-7 and Lsm2-8 complexes. findings: [] full_text_unavailable: false - id: PMID:35277511 title: The methyl phosphate capping enzyme Bmc1/Bin3 is a stable component of the fission yeast telomerase holoenzyme. findings: [] full_text_unavailable: false core_functions: - description: RNA-binding component of nuclear Lsm2-8 supporting U6-dependent splicing and telomerase RNA assembly. supported_by: - *id001 - *id002 - *id004 directly_involved_in: - *id005 - *id006 contributes_to_molecular_function: *id007 in_complex: *id008 locations: - *id009 - description: Shared RNA-binding subunit of the cytoplasmic Lsm1-7-Pat1 mRNA-decay complex. supported_by: - *id001 - *id002 contributes_to_molecular_function: *id010 in_complex: *id011 locations: - *id012