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P40084

- RTR1_YEAST

UniProt

P40084 - RTR1_YEAST

Protein

RNA polymerase II subunit B1 CTD phosphatase RTR1

Gene

RTR1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 105 (01 Oct 2014)
      Sequence version 1 (01 Feb 1995)
      Previous versions | rss
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    Functioni

    RNA polymerase II subunit B1 C-terminal domain (CTD) phosphatase that dephosphorylates 'Ser-5' of the CTD and regulates RNA polymerase II during the transition from 'Ser-5' to 'Ser-2' phosphorylation.2 Publications

    Catalytic activityi

    [a protein]-serine/threonine phosphate + H2O = [a protein]-serine/threonine + phosphate.

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri50 – 13687RTR1-typeAdd
    BLAST

    GO - Molecular functioni

    1. CTD phosphatase activity Source: SGD
    2. metal ion binding Source: UniProtKB-KW

    GO - Biological processi

    1. dephosphorylation of RNA polymerase II C-terminal domain Source: SGD
    2. transcription from RNA polymerase II promoter Source: SGD

    Keywords - Molecular functioni

    Hydrolase, Protein phosphatase

    Keywords - Biological processi

    Transcription, Transcription regulation

    Keywords - Ligandi

    Metal-binding, Zinc

    Enzyme and pathway databases

    BioCyciYEAST:G3O-30300-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    RNA polymerase II subunit B1 CTD phosphatase RTR1 (EC:3.1.3.16)
    Alternative name(s):
    RNA polymerase II-associated protein 2 homolog RTR1
    Regulator of transcription 1
    Gene namesi
    Name:RTR1
    Ordered Locus Names:YER139C
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome V

    Organism-specific databases

    CYGDiYER139c.
    SGDiS000000941. RTR1.

    Subcellular locationi

    Cytoplasm. Nucleus
    Note: Shuttles constitutively between the cytoplasm and the nucleus.

    GO - Cellular componenti

    1. cytoplasm Source: SGD
    2. nucleus Source: SGD

    Keywords - Cellular componenti

    Cytoplasm, Nucleus

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi73 – 731C → S: Loss of function. 1 Publication
    Mutagenesisi112 – 1121C → S: Loss of function; when associated with S-116. 1 Publication
    Mutagenesisi116 – 1161H → S: Loss of function; when associated with S-112. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 226226RNA polymerase II subunit B1 CTD phosphatase RTR1PRO_0000202653Add
    BLAST

    Proteomic databases

    MaxQBiP40084.
    PaxDbiP40084.
    PeptideAtlasiP40084.

    Expressioni

    Gene expression databases

    GenevestigatoriP40084.

    Interactioni

    Subunit structurei

    Interacts with RPO21.1 Publication

    Protein-protein interaction databases

    BioGridi36888. 84 interactions.
    DIPiDIP-6690N.
    IntActiP40084. 8 interactions.
    MINTiMINT-649086.
    STRINGi4932.YER139C.

    Structurei

    3D structure databases

    ProteinModelPortaliP40084.
    SMRiP40084. Positions 1-146.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the RPAP2 family.Curated
    Contains 1 RTR1-type zinc finger.Curated

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri50 – 13687RTR1-typeAdd
    BLAST

    Keywords - Domaini

    Zinc-finger

    Phylogenomic databases

    eggNOGiNOG315830.
    GeneTreeiENSGT00530000069589.
    HOGENOMiHOG000000844.
    OMAiKRCGYPL.
    OrthoDBiEOG7TXKVF.

    Family and domain databases

    InterProiIPR007308. DUF408.
    [Graphical view]
    PfamiPF04181. RPAP2_Rtr1. 1 hit.
    [Graphical view]
    PROSITEiPS51479. ZF_RTR1. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P40084-1 [UniParc]FASTAAdd to Basket

    « Hide

    MATIEDIKET ALIPFQKHRQ LSMHEAEVIT LEIIGLLCDS ECKDEKTLKY    50
    LGRFLTPDMY QDLVDERNLN KRCGYPLCGK SPERIRDPFS MNDTTKKFLL 100
    ENNPYAYLSH YCSKFHFRCS QFYQVQLSDE ALFARTGVHL FEDPEQDKHD 150
    IDFKVTLFEE LLREKASEED IKSLISGLKK LGLNPDSGTT EKDDTELEDD 200
    LSKWLAQIKI VENDNPSILG DFTRED 226
    Length:226
    Mass (Da):26,240
    Last modified:February 1, 1995 - v1
    Checksum:iE234D9ADC18C3FCA
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U18917 Genomic DNA. Translation: AAB64666.1.
    BK006939 Genomic DNA. Translation: DAA07800.1.
    PIRiS50642.
    RefSeqiNP_011066.3. NM_001179029.3.

    Genome annotation databases

    EnsemblFungiiYER139C; YER139C; YER139C.
    GeneIDi856882.
    KEGGisce:YER139C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U18917 Genomic DNA. Translation: AAB64666.1 .
    BK006939 Genomic DNA. Translation: DAA07800.1 .
    PIRi S50642.
    RefSeqi NP_011066.3. NM_001179029.3.

    3D structure databases

    ProteinModelPortali P40084.
    SMRi P40084. Positions 1-146.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 36888. 84 interactions.
    DIPi DIP-6690N.
    IntActi P40084. 8 interactions.
    MINTi MINT-649086.
    STRINGi 4932.YER139C.

    Proteomic databases

    MaxQBi P40084.
    PaxDbi P40084.
    PeptideAtlasi P40084.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YER139C ; YER139C ; YER139C .
    GeneIDi 856882.
    KEGGi sce:YER139C.

    Organism-specific databases

    CYGDi YER139c.
    SGDi S000000941. RTR1.

    Phylogenomic databases

    eggNOGi NOG315830.
    GeneTreei ENSGT00530000069589.
    HOGENOMi HOG000000844.
    OMAi KRCGYPL.
    OrthoDBi EOG7TXKVF.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-30300-MONOMER.

    Miscellaneous databases

    NextBioi 983269.
    PROi P40084.

    Gene expression databases

    Genevestigatori P40084.

    Family and domain databases

    InterProi IPR007308. DUF408.
    [Graphical view ]
    Pfami PF04181. RPAP2_Rtr1. 1 hit.
    [Graphical view ]
    PROSITEi PS51479. ZF_RTR1. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    2. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    3. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    4. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    5. "Rtr1 is the Saccharomyces cerevisiae homolog of a novel family of RNA polymerase II-binding proteins."
      Gibney P.A., Fries T., Bailer S.M., Morano K.A.
      Eukaryot. Cell 7:938-948(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBCELLULAR LOCATION, ZINC-FINGER, MUTAGENESIS OF CYS-73; CYS-112 AND HIS-116, INTERACTION WITH RPO21.
    6. "Rtr1 is a CTD phosphatase that regulates RNA polymerase II during the transition from serine 5 to serine 2 phosphorylation."
      Mosley A.L., Pattenden S.G., Carey M., Venkatesh S., Gilmore J.M., Florens L., Workman J.L., Washburn M.P.
      Mol. Cell 34:168-178(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBCELLULAR LOCATION.

    Entry informationi

    Entry nameiRTR1_YEAST
    AccessioniPrimary (citable) accession number: P40084
    Secondary accession number(s): D3DM46
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1995
    Last sequence update: February 1, 1995
    Last modified: October 1, 2014
    This is version 105 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 5480 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    Complete proteome, 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 V
      Yeast (Saccharomyces cerevisiae) chromosome V: entries and gene names

    External Data

    Dasty 3