Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Basket 0
(max 400 entries)x

Your basket is currently empty.

Select item(s) and click on "Add to basket" to create your own collection here
(400 entries max)

Q12309

- CLF1_YEAST

UniProt

Q12309 - CLF1_YEAST

Protein

Pre-mRNA-splicing factor CLF1

Gene

CLF1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
    • BLAST
    • Align
    • Format
    • Add to basket
    • History
      Entry version 110 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
    • Help video
    • Feedback
    • Comment

    Functioni

    Involved in pre-mRNA splicing and cell cycle progression. Required for the spliceosome assembly by promoting the functional integration of the U4/U6.U5 tri-snRNP particle into the U1-, U2-dependent pre-spliceosome. Also recruits PRP19 to the spliceosome, as a component of the NTC complex (or PRP19-associated complex). The association of the NTC complex to the spliceosome mediates conformational rearrangement or stabilizes the structure of the spliceosome after U4 snRNA dissociation, which leads to spliceosome maturation. Required for initiation of the DNA replication by binding the RNA replication origins, probably through its interaction with the origin recognition complex (ORC).5 Publications

    GO - Molecular functioni

    1. chromatin binding Source: SGD
    2. DNA replication origin binding Source: SGD
    3. protein binding Source: IntAct

    GO - Biological processi

    1. cell cycle Source: UniProtKB-KW
    2. cis assembly of pre-catalytic spliceosome Source: SGD
    3. DNA replication initiation Source: SGD

    Keywords - Biological processi

    mRNA processing, mRNA splicing

    Enzyme and pathway databases

    BioCyciYEAST:G3O-32262-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Pre-mRNA-splicing factor CLF1
    Alternative name(s):
    Crooked neck-like factor 1
    PRP19-associated complex protein 77
    Synthetic lethal with CDC40 protein 3
    Gene namesi
    Name:CLF1
    Synonyms:NTC77, SYF3
    Ordered Locus Names:YLR117C
    ORF Names:L2952
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome XII

    Organism-specific databases

    CYGDiYLR117c.
    SGDiS000004107. CLF1.

    Subcellular locationi

    Nucleus 1 Publication

    GO - Cellular componenti

    1. chromatin Source: SGD
    2. Prp19 complex Source: SGD
    3. U2-type catalytic step 1 spliceosome Source: SGD
    4. U2-type catalytic step 2 spliceosome Source: SGD
    5. U2-type post-mRNA release spliceosomal complex Source: SGD
    6. U2-type prespliceosome Source: SGD

    Keywords - Cellular componenti

    Nucleus, Spliceosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 687687Pre-mRNA-splicing factor CLF1PRO_0000205753Add
    BLAST

    Proteomic databases

    MaxQBiQ12309.
    PaxDbiQ12309.
    PRIDEiQ12309.

    Expressioni

    Gene expression databases

    GenevestigatoriQ12309.

    Interactioni

    Subunit structurei

    Belongs to the NTC complex (or PRP19-associated complex), composed of at least CEF1, CLF1, ISY1, NTC20, SNT309, SYF1, SYF2, and PRP19. The NTC complex associates with the spliceosome after the release of the U1 and U4 snRNAs and forms the CWC spliceosome subcomplex (or CEF1-associated complex) reminiscent of a late-stage spliceosome composed also of the U2, U5 and U6 snRNAs and at least BUD13, BUD31, BRR2, CDC40, CUS1, CWC2, CWC15, CWC21, CWC22, CWC23, CWC24, CWC25, CWC27, ECM2, HSH155, IST3, LEA1, MSL1, PRP8, PRP9, PRP11, PRP21, PRP22, PRP45, PRP46, SLU7, SMB1, SMD1, SMD2, SMD3, SMX2, SMX3, SNU114, SPP2, RSE1 and YJU2. Interacts with CEF1, ISY1, MUD2, NTC20, PRP22, PRP40, PRP46, SYF1, SYF2, and the ORC2 subunit of the origin recognition complex.8 Publications

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    CEF1Q036549EBI-484,EBI-476
    ISY1P213745EBI-484,EBI-9382
    NTC20P383026EBI-484,EBI-20921
    PRP19P325239EBI-484,EBI-493
    SNT309Q060915EBI-484,EBI-818
    SYF1Q040485EBI-484,EBI-540
    SYF2P532772EBI-484,EBI-23308

    Protein-protein interaction databases

    BioGridi31389. 78 interactions.
    DIPiDIP-1685N.
    IntActiQ12309. 35 interactions.
    MINTiMINT-385873.
    STRINGi4932.YLR117C.

    Structurei

    3D structure databases

    ProteinModelPortaliQ12309.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Repeati45 – 7733HAT 1Add
    BLAST
    Repeati79 – 11133HAT 2Add
    BLAST
    Repeati113 – 14533HAT 3Add
    BLAST
    Repeati147 – 17832HAT 4Add
    BLAST
    Repeati180 – 21132HAT 5Add
    BLAST
    Repeati213 – 24735HAT 6Add
    BLAST
    Repeati251 – 28333HAT 7Add
    BLAST
    Repeati300 – 33233HAT 8Add
    BLAST
    Repeati337 – 36933HAT 9Add
    BLAST
    Repeati383 – 41634HAT 10Add
    BLAST
    Repeati451 – 48333HAT 11Add
    BLAST
    Repeati525 – 55733HAT 12Add
    BLAST
    Repeati629 – 66133HAT 13Add
    BLAST

    Sequence similaritiesi

    Belongs to the crooked-neck family.Curated
    Contains 13 HAT repeats.Curated

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiNOG327505.
    GeneTreeiENSGT00550000074931.
    HOGENOMiHOG000207972.
    KOiK12869.
    OMAiEGSLAKC.
    OrthoDBiEOG7TF7JJ.

    Family and domain databases

    Gene3Di1.25.40.10. 3 hits.
    InterProiIPR003107. HAT.
    IPR013026. TPR-contain_dom.
    IPR011990. TPR-like_helical.
    [Graphical view]
    PfamiPF02184. HAT. 1 hit.
    [Graphical view]
    SMARTiSM00386. HAT. 12 hits.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q12309-1 [UniParc]FASTAAdd to Basket

    « Hide

    MDTLEPTAVD THVSAEQILR DVYKKGQKAR GSTNIDILDL EELREYQRRK    50
    RTEYEGYLKR NRLDMGQWIR YAQFEIEQHD MRRARSIFER ALLVDSSFIP 100
    LWIRYIDAEL KVKCINHARN LMNRAISTLP RVDKLWYKYL IVEESLNNVE 150
    IVRSLYTKWC SLEPGVNAWN SFVDFEIRQK NWNGVREIYS KYVMAHPQMQ 200
    TWLKWVRFEN RHGNTEFTRS VYSLAIDTVA NLQNLQIWSD MEVAKLVNSF 250
    AHWEAAQQEY ERSSALYQIA IEKWPSNQLL KAGLLDFEKQ FGDINSIEET 300
    ISYKRKMEYE TILSNNAYDY DTWWLYLDLI SESFPKQIMQ TFEKAIVDSR 350
    PKELSKNVQW KRYIYLWMRY ICYVELELEN SLLEEELFQR LIDDIIPHKH 400
    FTFSKIWLMY AKFLIRHDDV PKARKILGKA IGLCPKAKTF KGYIELEVKL 450
    KEFDRVRKIY EKFIEFQPSD LQIWSQYGEL EENLGDWDRV RGIYTIALDE 500
    NSDFLTKEAK IVLLQKYITF ETESQEFEKA RKLYRRYLEL NQYSPQSWIE 550
    FAMYQTSTPT EQQLLDLAKL QSENVDEDIE FEITDENKLE ARKVFEEAIV 600
    FFKEKDDKQG RLSILEALKD YEETYGTELD QETVKKRFPK VIKKVRLQNG 650
    VEEEFVDYIF PDDIDDDKPK PSKFLELAKK WKQEQAL 687
    Length:687
    Mass (Da):82,445
    Last modified:November 1, 1996 - v1
    Checksum:iAE7D5EC5B3979E00
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X89514 Genomic DNA. Translation: CAA61696.1.
    U53877 Genomic DNA. Translation: AAB82364.1.
    Z73289 Genomic DNA. Translation: CAA97685.1.
    BK006945 Genomic DNA. Translation: DAA09431.1.
    PIRiS64954.
    RefSeqiNP_013218.1. NM_001182004.1.

    Genome annotation databases

    EnsemblFungiiYLR117C; YLR117C; YLR117C.
    GeneIDi850808.
    KEGGisce:YLR117C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X89514 Genomic DNA. Translation: CAA61696.1 .
    U53877 Genomic DNA. Translation: AAB82364.1 .
    Z73289 Genomic DNA. Translation: CAA97685.1 .
    BK006945 Genomic DNA. Translation: DAA09431.1 .
    PIRi S64954.
    RefSeqi NP_013218.1. NM_001182004.1.

    3D structure databases

    ProteinModelPortali Q12309.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 31389. 78 interactions.
    DIPi DIP-1685N.
    IntActi Q12309. 35 interactions.
    MINTi MINT-385873.
    STRINGi 4932.YLR117C.

    Proteomic databases

    MaxQBi Q12309.
    PaxDbi Q12309.
    PRIDEi Q12309.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YLR117C ; YLR117C ; YLR117C .
    GeneIDi 850808.
    KEGGi sce:YLR117C.

    Organism-specific databases

    CYGDi YLR117c.
    SGDi S000004107. CLF1.

    Phylogenomic databases

    eggNOGi NOG327505.
    GeneTreei ENSGT00550000074931.
    HOGENOMi HOG000207972.
    KOi K12869.
    OMAi EGSLAKC.
    OrthoDBi EOG7TF7JJ.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-32262-MONOMER.

    Miscellaneous databases

    NextBioi 967040.
    PROi Q12309.

    Gene expression databases

    Genevestigatori Q12309.

    Family and domain databases

    Gene3Di 1.25.40.10. 3 hits.
    InterProi IPR003107. HAT.
    IPR013026. TPR-contain_dom.
    IPR011990. TPR-like_helical.
    [Graphical view ]
    Pfami PF02184. HAT. 1 hit.
    [Graphical view ]
    SMARTi SM00386. HAT. 12 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Sequence analysis of a 37.6 kbp cosmid clone from the right arm of Saccharomyces cerevisiae chromosome XII, carrying YAP3, HOG1, SNR6, tRNA-Arg3 and 23 new open reading frames, among which several homologies to proteins involved in cell division control and to mammalian growth factors and other animal proteins are found."
      Verhasselt P., Volckaert G.
      Yeast 13:241-250(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 90840 / EAY235 / FY23.
    2. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    3. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XII."
      Johnston M., Hillier L.W., Riles L., Albermann K., Andre B., Ansorge W., Benes V., Brueckner M., Delius H., Dubois E., Duesterhoeft A., Entian K.-D., Floeth M., Goffeau A., Hebling U., Heumann K., Heuss-Neitzel D., Hilbert H.
      , Hilger F., Kleine K., Koetter P., Louis E.J., Messenguy F., Mewes H.-W., Miosga T., Moestl D., Mueller-Auer S., Nentwich U., Obermaier B., Piravandi E., Pohl T.M., Portetelle D., Purnelle B., Rechmann S., Rieger M., Rinke M., Rose M., Scharfe M., Scherens B., Scholler P., Schwager C., Schwarz S., Underwood A.P., Urrestarazu L.A., Vandenbol M., Verhasselt P., Vierendeels F., Voet M., Volckaert G., Voss H., Wambutt R., Wedler E., Wedler H., Zimmermann F.K., Zollner A., Hani J., Hoheisel J.D.
      Nature 387:87-90(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    4. "Functional and physical interactions between components of the Prp19p-associated complex."
      Chen C.-H., Yu W.-C., Tsao T.Y., Wang L.-Y., Chen H.-R., Lin J.-Y., Tsai W.-Y., Cheng S.-C.
      Nucleic Acids Res. 30:1029-1037(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 15-25, IDENTIFICATION IN THE PRP19-ASSOCIATED COMPLEX.
    5. "Yeast ortholog of the Drosophila crooked neck protein promotes spliceosome assembly through stable U4/U6.U5 snRNP addition."
      Chung S., McLean M.R., Rymond B.C.
      RNA 5:1042-1054(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH MUD2 AND PRP40.
    6. "Genetic and physical interactions between factors involved in both cell cycle progression and pre-mRNA splicing in Saccharomyces cerevisiae."
      Ben-Yehuda S., Dix I., Russell C.S., McGarvey M., Beggs J.D., Kupiec M.
      Genetics 156:1503-1517(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH CEF1; ISY1; NTC20; PRP22 AND SYF2.
    7. "Functional analyses of interacting factors involved in both pre-mRNA splicing and cell cycle progression in Saccharomyces cerevisiae."
      Russell C.S., Ben-Yehuda S., Dix I., Kupiec M., Beggs J.D.
      RNA 6:1565-1572(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, IDENTIFICATION IN THE SPLICEOSOME.
    8. "Evidence that the pre-mRNA splicing factor Clf1p plays a role in DNA replication in Saccharomyces cerevisiae."
      Zhu W., Rainville I.R., Ding M., Bolus M., Heintz N.H., Pederson D.S.
      Genetics 160:1319-1333(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH ORC2.
    9. "Proteomics analysis reveals stable multiprotein complexes in both fission and budding yeasts containing Myb-related Cdc5p/Cef1p, novel pre-mRNA splicing factors, and snRNAs."
      Ohi M.D., Link A.J., Ren L., Jennings J.L., McDonald W.H., Gould K.L.
      Mol. Cell. Biol. 22:2011-2024(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION IN THE CWC COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
    10. "Characterization of interactions among the Cef1p-Prp19p-associated splicing complex."
      Ohi M.D., Gould K.L.
      RNA 8:798-815(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH ISY1; NTC20; PRP46 AND SYF1.
    11. "The Clf1p splicing factor promotes spliceosome assembly through N-terminal tetratricopeptide repeat contacts."
      Wang Q., Hobbs K., Lynn B., Rymond B.C.
      J. Biol. Chem. 278:7875-7883(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, IDENTIFICATION IN THE SPLICEOSOME.
    12. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    13. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiCLF1_YEAST
    AccessioniPrimary (citable) accession number: Q12309
    Secondary accession number(s): D6VYB5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: August 30, 2005
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 110 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 2140 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families
    2. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    3. Yeast chromosome XII
      Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names

    External Data

    Dasty 3