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Q9NV88

- INT9_HUMAN

UniProt

Q9NV88 - INT9_HUMAN

Protein

Integrator complex subunit 9

Gene

INTS9

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 92 (01 Oct 2014)
      Sequence version 2 (31 Oct 2006)
      Previous versions | rss
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    Functioni

    Component of the Integrator complex, a complex involved in the small nuclear RNAs (snRNA) U1 and U2 transcription and in their 3'-box-dependent processing. The Integrator complex is associated with the C-terminal domain (CTD) of RNA polymerase II largest subunit (POLR2A) and is recruited to the U1 and U2 snRNAs genes.

    GO - Molecular functioni

    1. hydrolase activity Source: InterPro
    2. protein binding Source: UniProtKB

    GO - Biological processi

    1. snRNA processing Source: HGNC

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Integrator complex subunit 9
    Short name:
    Int9
    Alternative name(s):
    Protein related to CPSF subunits of 74 kDa
    Short name:
    RC-74
    Gene namesi
    Name:INTS9
    Synonyms:RC74
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 8

    Organism-specific databases

    HGNCiHGNC:25592. INTS9.

    Subcellular locationi

    Nucleus 1 Publication

    GO - Cellular componenti

    1. cytoplasm Source: HPA
    2. integrator complex Source: HGNC
    3. nucleus Source: HPA

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA162392192.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 658658Integrator complex subunit 9PRO_0000259557Add
    BLAST

    Proteomic databases

    MaxQBiQ9NV88.
    PaxDbiQ9NV88.
    PRIDEiQ9NV88.

    PTM databases

    PhosphoSiteiQ9NV88.

    Expressioni

    Gene expression databases

    ArrayExpressiQ9NV88.
    BgeeiQ9NV88.
    CleanExiHS_INTS9.
    GenevestigatoriQ9NV88.

    Organism-specific databases

    HPAiHPA051615.

    Interactioni

    Subunit structurei

    Belongs to the multiprotein complex Integrator, at least composed of INTS1, INTS2, INTS3, INTS4, INTS5, INTS6, INTS7, INTS8, INTS9/RC74, INTS10, CPSF3L/INTS11 and INTS12.1 Publication

    Protein-protein interaction databases

    BioGridi120874. 14 interactions.
    IntActiQ9NV88. 1 interaction.
    STRINGi9606.ENSP00000398208.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9NV88.
    SMRiQ9NV88. Positions 91-116.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiCOG1236.
    HOGENOMiHOG000045359.
    HOVERGENiHBG081802.
    InParanoidiQ9NV88.
    KOiK13146.
    OMAiPLAMKCV.
    OrthoDBiEOG7W41BH.
    PhylomeDBiQ9NV88.
    TreeFamiTF314100.

    Family and domain databases

    Gene3Di3.60.15.10. 3 hits.
    InterProiIPR001279. Beta-lactamas-like.
    IPR022712. Beta_Casp.
    IPR027074. Integrator_9su.
    [Graphical view]
    PANTHERiPTHR11203:SF2. PTHR11203:SF2. 1 hit.
    PfamiPF10996. Beta-Casp. 1 hit.
    [Graphical view]
    SMARTiSM01027. Beta-Casp. 1 hit.
    [Graphical view]
    SUPFAMiSSF56281. SSF56281. 3 hits.

    Sequences (3)i

    Sequence statusi: Complete.

    This entry describes 3 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q9NV88-1) [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

    MKLYCLSGHP TLPCNVLKFK STTIMLDCGL DMTSTLNFLP LPLVQSPRLS    50
    NLPGWSLKDG NAFLDKELKE CSGHVFVDSV PEFCLPETEL IDLSTVDVIL 100
    ISNYHCMMAL PYITEHTGFT GTVYATEPTV QIGRLLMEEL VNFIERVPKA 150
    QSASLWKNKD IQRLLPSPLK DAVEVSTWRR CYTMQEVNSA LSKIQLVGYS 200
    QKIELFGAVQ VTPLSSGYAL GSSNWIIQSH YEKVSYVSGS SLLTTHPQPM 250
    DQASLKNSDV LVLTGLTQIP TANPDGMVGE FCSNLALTVR NGGNVLVPCY 300
    PSGVIYDLLE CLYQYIDSAG LSSVPLYFIS PVANSSLEFS QIFAEWLCHN 350
    KQSKVYLPEP PFPHAELIQT NKLKHYPSIH GDFSNDFRQP CVVFTGHPSL 400
    RFGDVVHFME LWGKSSLNTV IFTEPDFSYL EALAPYQPLA MKCIYCPIDT 450
    RLNFIQVSKL LKEVQPLHVV CPEQYTQPPP AQSHRMDLMI DCQPPAMSYR 500
    RAEVLALPFK RRYEKIEIMP ELADSLVPME IKPGISLATV SAVLHTKDNK 550
    HLLQPPPRPA QPTSGKKRKR VSDDVPDCKV LKPLLSGSIP VEQFVQTLEK 600
    HGFSDIKVED TAKGHIVLLQ EAETLIQIEE DSTHIICDND EMLRVRLRDL 650
    VLKFLQKF 658
    Length:658
    Mass (Da):73,814
    Last modified:October 31, 2006 - v2
    Checksum:i81F1A24B99704684
    GO
    Isoform 2 (identifier: Q9NV88-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         67-87: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:637
    Mass (Da):71,468
    Checksum:iDF93CBBDE1A6061E
    GO
    Isoform 3 (identifier: Q9NV88-3) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-24: Missing.

    Show »
    Length:634
    Mass (Da):71,137
    Checksum:i327CFB70D6AB0649
    GO

    Sequence cautioni

    The sequence AAB67601.1 differs from that shown. Reason: Erroneous gene model prediction.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti324 – 3241V → A in BAA91867. (PubMed:14702039)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 2424Missing in isoform 3. 1 PublicationVSP_044306Add
    BLAST
    Alternative sequencei67 – 8721Missing in isoform 2. 1 PublicationVSP_043011Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK001733 mRNA. Translation: BAA91867.1.
    AK298468 mRNA. Translation: BAH12796.1.
    AK300593 mRNA. Translation: BAH13311.1.
    AC040975 Genomic DNA. No translation available.
    AC131969 Genomic DNA. No translation available.
    BC025267 mRNA. Translation: AAH25267.1.
    U96629 Genomic DNA. Translation: AAB67601.1. Sequence problems.
    BK005726 mRNA. Translation: DAA05726.1.
    BK005674 mRNA. Translation: DAA05670.1.
    CCDSiCCDS34873.1. [Q9NV88-1]
    CCDS55215.1. [Q9NV88-3]
    CCDS55216.1. [Q9NV88-2]
    RefSeqiNP_001138631.1. NM_001145159.2. [Q9NV88-2]
    NP_001166033.1. NM_001172562.1. [Q9NV88-3]
    NP_060720.2. NM_018250.3. [Q9NV88-1]
    UniGeneiHs.162397.

    Genome annotation databases

    EnsembliENST00000416984; ENSP00000398208; ENSG00000104299. [Q9NV88-2]
    ENST00000521022; ENSP00000429065; ENSG00000104299. [Q9NV88-1]
    ENST00000521777; ENSP00000430943; ENSG00000104299. [Q9NV88-3]
    GeneIDi55756.
    KEGGihsa:55756.
    UCSCiuc003xha.3. human. [Q9NV88-1]
    uc011law.2. human. [Q9NV88-2]

    Polymorphism databases

    DMDMi119371246.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK001733 mRNA. Translation: BAA91867.1 .
    AK298468 mRNA. Translation: BAH12796.1 .
    AK300593 mRNA. Translation: BAH13311.1 .
    AC040975 Genomic DNA. No translation available.
    AC131969 Genomic DNA. No translation available.
    BC025267 mRNA. Translation: AAH25267.1 .
    U96629 Genomic DNA. Translation: AAB67601.1 . Sequence problems.
    BK005726 mRNA. Translation: DAA05726.1 .
    BK005674 mRNA. Translation: DAA05670.1 .
    CCDSi CCDS34873.1. [Q9NV88-1 ]
    CCDS55215.1. [Q9NV88-3 ]
    CCDS55216.1. [Q9NV88-2 ]
    RefSeqi NP_001138631.1. NM_001145159.2. [Q9NV88-2 ]
    NP_001166033.1. NM_001172562.1. [Q9NV88-3 ]
    NP_060720.2. NM_018250.3. [Q9NV88-1 ]
    UniGenei Hs.162397.

    3D structure databases

    ProteinModelPortali Q9NV88.
    SMRi Q9NV88. Positions 91-116.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 120874. 14 interactions.
    IntActi Q9NV88. 1 interaction.
    STRINGi 9606.ENSP00000398208.

    PTM databases

    PhosphoSitei Q9NV88.

    Polymorphism databases

    DMDMi 119371246.

    Proteomic databases

    MaxQBi Q9NV88.
    PaxDbi Q9NV88.
    PRIDEi Q9NV88.

    Protocols and materials databases

    DNASUi 55756.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000416984 ; ENSP00000398208 ; ENSG00000104299 . [Q9NV88-2 ]
    ENST00000521022 ; ENSP00000429065 ; ENSG00000104299 . [Q9NV88-1 ]
    ENST00000521777 ; ENSP00000430943 ; ENSG00000104299 . [Q9NV88-3 ]
    GeneIDi 55756.
    KEGGi hsa:55756.
    UCSCi uc003xha.3. human. [Q9NV88-1 ]
    uc011law.2. human. [Q9NV88-2 ]

    Organism-specific databases

    CTDi 55756.
    GeneCardsi GC08M028625.
    HGNCi HGNC:25592. INTS9.
    HPAi HPA051615.
    MIMi 611352. gene.
    neXtProti NX_Q9NV88.
    PharmGKBi PA162392192.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG1236.
    HOGENOMi HOG000045359.
    HOVERGENi HBG081802.
    InParanoidi Q9NV88.
    KOi K13146.
    OMAi PLAMKCV.
    OrthoDBi EOG7W41BH.
    PhylomeDBi Q9NV88.
    TreeFami TF314100.

    Miscellaneous databases

    ChiTaRSi INTS9. human.
    GeneWikii INTS9.
    GenomeRNAii 55756.
    NextBioi 60763.
    PROi Q9NV88.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q9NV88.
    Bgeei Q9NV88.
    CleanExi HS_INTS9.
    Genevestigatori Q9NV88.

    Family and domain databases

    Gene3Di 3.60.15.10. 3 hits.
    InterProi IPR001279. Beta-lactamas-like.
    IPR022712. Beta_Casp.
    IPR027074. Integrator_9su.
    [Graphical view ]
    PANTHERi PTHR11203:SF2. PTHR11203:SF2. 1 hit.
    Pfami PF10996. Beta-Casp. 1 hit.
    [Graphical view ]
    SMARTi SM01027. Beta-Casp. 1 hit.
    [Graphical view ]
    SUPFAMi SSF56281. SSF56281. 3 hits.
    ProtoNeti Search...

    Publicationsi

    1. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
      Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
      , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
      Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1; 2 AND 3).
    2. "DNA sequence and analysis of human chromosome 8."
      Nusbaum C., Mikkelsen T.S., Zody M.C., Asakawa S., Taudien S., Garber M., Kodira C.D., Schueler M.G., Shimizu A., Whittaker C.A., Chang J.L., Cuomo C.A., Dewar K., FitzGerald M.G., Yang X., Allen N.R., Anderson S., Asakawa T.
      , Blechschmidt K., Bloom T., Borowsky M.L., Butler J., Cook A., Corum B., DeArellano K., DeCaprio D., Dooley K.T., Dorris L. III, Engels R., Gloeckner G., Hafez N., Hagopian D.S., Hall J.L., Ishikawa S.K., Jaffe D.B., Kamat A., Kudoh J., Lehmann R., Lokitsang T., Macdonald P., Major J.E., Matthews C.D., Mauceli E., Menzel U., Mihalev A.H., Minoshima S., Murayama Y., Naylor J.W., Nicol R., Nguyen C., O'Leary S.B., O'Neill K., Parker S.C.J., Polley A., Raymond C.K., Reichwald K., Rodriguez J., Sasaki T., Schilhabel M., Siddiqui R., Smith C.L., Sneddon T.P., Talamas J.A., Tenzin P., Topham K., Venkataraman V., Wen G., Yamazaki S., Young S.K., Zeng Q., Zimmer A.R., Rosenthal A., Birren B.W., Platzer M., Shimizu N., Lander E.S.
      Nature 439:331-335(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Tissue: Brain.
    4. "Human chromosome 8 BAC clone CIT987SK-2A8 complete sequence."
      Adams M.D.
      Submitted (APR-1997) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA] OF 163-658.
    5. "Integrator, a multiprotein mediator of small nuclear RNA processing, associates with the C-terminal repeat of RNA polymerase II."
      Baillat D., Hakimi M.-A., Naeaer A.M., Shilatifard A., Cooch N., Shiekhattar R.
      Cell 123:265-276(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE INTEGRATOR COMPLEX.
    6. "A CPSF-73 homologue is required for cell cycle progression but not cell growth and interacts with a protein having features of CPSF-100."
      Dominski Z., Yang X.-C., Purdy M., Wagner E.J., Marzluff W.F.
      Mol. Cell. Biol. 25:1489-1500(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION, SUBCELLULAR LOCATION, INTERACTION WITH CPSF3L.

    Entry informationi

    Entry nameiINT9_HUMAN
    AccessioniPrimary (citable) accession number: Q9NV88
    Secondary accession number(s): B7Z560
    , B7Z6M5, O00224, Q8TB16
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 31, 2006
    Last sequence update: October 31, 2006
    Last modified: October 1, 2014
    This is version 92 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Miscellaneous

    Although strongly related to RNA-specific endonuclease proteins, it lacks the HXHXDH motif that binds zinc and participates in the catalytic center. Its function as endonuclease is therefore unsure.

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome 8
      Human chromosome 8: entries, gene names and cross-references to MIM
    2. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3