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Q00438

- PTBP1_RAT

UniProt

Q00438 - PTBP1_RAT

Protein

Polypyrimidine tract-binding protein 1

Gene

Ptbp1

Organism
Rattus norvegicus (Rat)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 124 (01 Oct 2014)
      Sequence version 1 (01 Apr 1993)
      Previous versions | rss
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    Functioni

    Plays a role in pre-mRNA splicing and in the regulation of alternative splicing events. Activates exon skipping of its own pre-mRNA during muscle cell differentiation. Binds to the polypyrimidine tract of introns. May promote RNA looping when bound to two separate polypyrimidine tracts in the same pre-mRNA. May promote the binding of U2 snRNP to pre-mRNA. Cooperates with RAVER1 to modulate switching between mutually exclusive exons during maturation of the TPM1 pre-mRNA. Represses the splicing of MAPT/Tau exon 10 By similarity.By similarity

    GO - Molecular functioni

    1. endonuclease activity Source: RGD
    2. nucleotide binding Source: InterPro
    3. RNA binding Source: RGD
    4. single-stranded DNA binding Source: RGD

    GO - Biological processi

    1. mRNA processing Source: UniProtKB-KW
    2. negative regulation of mRNA splicing, via spliceosome Source: UniProtKB
    3. negative regulation of muscle cell differentiation Source: UniProtKB
    4. nucleic acid phosphodiester bond hydrolysis Source: GOC
    5. regulation of alternative mRNA splicing, via spliceosome Source: UniProtKB
    6. RNA splicing Source: RGD

    Keywords - Molecular functioni

    Activator, Repressor

    Keywords - Biological processi

    mRNA processing, mRNA splicing

    Keywords - Ligandi

    RNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Polypyrimidine tract-binding protein 1
    Short name:
    PTB
    Alternative name(s):
    Heterogeneous nuclear ribonucleoprotein I
    Short name:
    hnRNP I
    Pyrimidine-binding protein
    Short name:
    PYBP
    Gene namesi
    Name:Ptbp1
    Synonyms:Ptb, Pybp, Tbfii
    OrganismiRattus norvegicus (Rat)
    Taxonomic identifieri10116 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
    ProteomesiUP000002494: Unplaced

    Organism-specific databases

    RGDi62047. Ptbp1.

    Subcellular locationi

    GO - Cellular componenti

    1. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 555555Polypyrimidine tract-binding protein 1PRO_0000081740Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei1 – 11N-acetylmethionine1 Publication
    Modified residuei16 – 161PhosphoserineBy similarity
    Modified residuei137 – 1371PhosphothreonineBy similarity
    Modified residuei140 – 1401PhosphoserineBy similarity
    Modified residuei457 – 4571PhosphoserineBy similarity

    Keywords - PTMi

    Acetylation, Phosphoprotein

    Proteomic databases

    PaxDbiQ00438.
    PRIDEiQ00438.

    PTM databases

    PhosphoSiteiQ00438.

    Expressioni

    Gene expression databases

    GenevestigatoriQ00438.

    Interactioni

    Subunit structurei

    Monomer. Part of a ternary complex containing KHSRP, PTBP1, PTBP2 and HNRPH1. Interacts with RAVER1 and SFPQ By similarity.By similarity

    Protein-protein interaction databases

    BioGridi248137. 1 interaction.

    Structurei

    3D structure databases

    ProteinModelPortaliQ00438.
    SMRiQ00438. Positions 48-145, 171-297, 348-555.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini58 – 14285RRM 1PROSITE-ProRule annotationAdd
    BLAST
    Domaini183 – 25977RRM 2PROSITE-ProRule annotationAdd
    BLAST
    Domaini361 – 43575RRM 3PROSITE-ProRule annotationAdd
    BLAST
    Domaini478 – 55376RRM 4PROSITE-ProRule annotationAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi340 – 3478Poly-Ala

    Sequence similaritiesi

    Contains 4 RRM (RNA recognition motif) domains.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiNOG263741.
    HOGENOMiHOG000231699.
    HOVERGENiHBG069548.
    InParanoidiQ00438.

    Family and domain databases

    Gene3Di3.30.70.330. 4 hits.
    InterProiIPR006536. HnRNP-L_PTB.
    IPR012677. Nucleotide-bd_a/b_plait.
    IPR000504. RRM_dom.
    [Graphical view]
    SMARTiSM00360. RRM. 4 hits.
    [Graphical view]
    TIGRFAMsiTIGR01649. hnRNP-L_PTB. 1 hit.
    PROSITEiPS50102. RRM. 4 hits.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Note: Additional isoforms seem to exist.

    Isoform PYBP2 (identifier: Q00438-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MDGIVPDIAV GTKRGSDELF STCVSNGPFI MSSSASAANG NDSKKFKGDN    50
    RSTGVPSRVI HVRKLPSDVT EGEVISLGLP FGKVTNLLML KGKNQAFIEM 100
    STEEAANTMV NYYTSVAPVL RGQPIYIQFS NHKELKTDSS PNQARAQAAL 150
    QAVNSVQSGN LALAASAAAV DAGMAMAGQS PVLRIIVENL FYPVTLDVLH 200
    QIFSKFGTVL KIITFTKNNQ FQALLQYADP VSAQHAKLSL DGQNIYNACC 250
    TLRIDFSKLT SLNVKYNNDK SRDYTRPDLP SGDSQPSLDQ TMAAAFGAPG 300
    IMSASPYAGA VPSHLCHPSR AGLSVPNVHG ALAPLAIPSA AAAAAAAGRI 350
    AIPGLAGAGN SVLLVSNLNP ERVTPQSLFI LFGVYGDVQR VKILFNKKEN 400
    ALVEMADGSQ AQLAMSHLNG HKLHGKSVRI TLSKHQSVQL PREGQEDQGL 450
    TKDYGSSPLH RFKKPGSKNF QNIFPPSATL HLSNIPPSVS EDDLKSLFSS 500
    NGGVVKGFKF FQKDRKMALI QMGSVEEAVQ ALIELHNHDL GENHHLRVSF 550
    SKSTI 555
    Length:555
    Mass (Da):59,354
    Last modified:April 1, 1993 - v1
    Checksum:iE73F22B54467117F
    GO
    Isoform PYBP1 (identifier: Q00438-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         297-321: Missing.

    Show »
    Length:530
    Mass (Da):56,937
    Checksum:i6B264A5887FF80A7
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti57 – 571S → T in CAA52653. 1 PublicationCurated
    Sequence conflicti164 – 1641A → R in CAA52653. 1 PublicationCurated
    Sequence conflicti311 – 32010VPSHLCHPSR → GFPPTFAIPQA in CAA52653. 1 PublicationCurated
    Sequence conflicti542 – 5498ENHHLRVS → LGDNHHKR AA sequence (PubMed:1681508)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei297 – 32125Missing in isoform PYBP1. CuratedVSP_005803Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X60789 mRNA. Translation: CAA43202.1.
    X60790 mRNA. Translation: CAA43203.1.
    X74565 mRNA. Translation: CAA52653.1.
    PIRiS15552.
    S36629.
    UniGeneiRn.64440.

    Genome annotation databases

    UCSCiRGD:62047. rat. [Q00438-1]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X60789 mRNA. Translation: CAA43202.1 .
    X60790 mRNA. Translation: CAA43203.1 .
    X74565 mRNA. Translation: CAA52653.1 .
    PIRi S15552.
    S36629.
    UniGenei Rn.64440.

    3D structure databases

    ProteinModelPortali Q00438.
    SMRi Q00438. Positions 48-145, 171-297, 348-555.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 248137. 1 interaction.

    PTM databases

    PhosphoSitei Q00438.

    Proteomic databases

    PaxDbi Q00438.
    PRIDEi Q00438.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    UCSCi RGD:62047. rat. [Q00438-1 ]

    Organism-specific databases

    RGDi 62047. Ptbp1.

    Phylogenomic databases

    eggNOGi NOG263741.
    HOGENOMi HOG000231699.
    HOVERGENi HBG069548.
    InParanoidi Q00438.

    Miscellaneous databases

    NextBioi 609388.

    Gene expression databases

    Genevestigatori Q00438.

    Family and domain databases

    Gene3Di 3.30.70.330. 4 hits.
    InterProi IPR006536. HnRNP-L_PTB.
    IPR012677. Nucleotide-bd_a/b_plait.
    IPR000504. RRM_dom.
    [Graphical view ]
    SMARTi SM00360. RRM. 4 hits.
    [Graphical view ]
    TIGRFAMsi TIGR01649. hnRNP-L_PTB. 1 hit.
    PROSITEi PS50102. RRM. 4 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Cloning and sequencing of PYBP, a pyrimidine-rich specific single strand DNA-binding protein."
      Brunel F., Alzari P.M., Ferrara P., Zakin M.M.
      Nucleic Acids Res. 19:5237-5245(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROTEIN SEQUENCE OF 185-205; 348-365 AND 517-549.
      Tissue: Hepatoma.
    2. Sengupta P.
      Submitted (AUG-1993) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    3. Bienvenut W.V., von Kriegsheim A.F., Kolch W.
      Submitted (AUG-2006) to UniProtKB
      Cited for: PROTEIN SEQUENCE OF 1-13; 84-91; 122-133; 435-452 AND 496-506, ACETYLATION AT MET-1, IDENTIFICATION BY MASS SPECTROMETRY.
      Tissue: Pheochromocytoma.

    Entry informationi

    Entry nameiPTBP1_RAT
    AccessioniPrimary (citable) accession number: Q00438
    Secondary accession number(s): Q63568
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 1, 1993
    Last sequence update: April 1, 1993
    Last modified: October 1, 2014
    This is version 124 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3