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O15194

- CTDSL_HUMAN

UniProt

O15194 - CTDSL_HUMAN

Protein

CTD small phosphatase-like protein

Gene

CTDSPL

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 110 (01 Oct 2014)
      Sequence version 2 (31 Aug 2004)
      Previous versions | rss
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    Functioni

    Recruited by REST to neuronal genes that contain RE-1 elements, leading to neuronal gene silencing in non-neuronal cells By similarity. Preferentially catalyzes the dephosphorylation of 'Ser-5' within the tandem 7 residue repeats in the C-terminal domain (CTD) of the largest RNA polymerase II subunit POLR2A. Negatively regulates RNA polymerase II transcription, possibly by controlling the transition from initiation/capping to processive transcript elongation.By similarity1 Publication

    Catalytic activityi

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

    Cofactori

    Binds 1 magnesium ion per monomer.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei112 – 11214-aspartylphosphate intermediateBy similarity
    Metal bindingi112 – 1121MagnesiumBy similarity
    Active sitei114 – 1141Proton donorBy similarity
    Metal bindingi114 – 1141Magnesium; via carbonyl oxygenBy similarity
    Sitei168 – 1681Transition state stabilizerBy similarity
    Sitei206 – 2061Transition state stabilizerBy similarity
    Metal bindingi223 – 2231MagnesiumBy similarity

    GO - Molecular functioni

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

    Keywords - Molecular functioni

    Hydrolase, Protein phosphatase

    Keywords - Ligandi

    Magnesium, Metal-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    CTD small phosphatase-like protein (EC:3.1.3.16)
    Short name:
    CTDSP-like
    Alternative name(s):
    Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 3
    NIF-like protein
    Nuclear LIM interactor-interacting factor 1
    Short name:
    NLI-interacting factor 1
    Protein YA22
    Short name:
    hYA22
    RBSP3
    Small C-terminal domain phosphatase 3
    Short name:
    SCP3
    Short name:
    Small CTD phosphatase 3
    Gene namesi
    Name:CTDSPL
    Synonyms:C3orf8, NIF1, NIFL, SCP3, YA22
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 3

    Organism-specific databases

    HGNCiHGNC:16890. CTDSPL.

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. extracellular vesicular exosome Source: UniProt
    2. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA128394571.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 276276CTD small phosphatase-like proteinPRO_0000212569Add
    BLAST

    Proteomic databases

    MaxQBiO15194.
    PaxDbiO15194.
    PRIDEiO15194.

    PTM databases

    PhosphoSiteiO15194.

    Expressioni

    Tissue specificityi

    Expression is restricted to non-neuronal tissues.1 Publication

    Gene expression databases

    ArrayExpressiO15194.
    BgeeiO15194.
    CleanExiHS_CTDSPL.
    GenevestigatoriO15194.

    Organism-specific databases

    HPAiHPA048325.

    Interactioni

    Subunit structurei

    Interacts with REST By similarity. Monomer.By similarity1 Publication

    Protein-protein interaction databases

    BioGridi115512. 5 interactions.
    STRINGi9606.ENSP00000273179.

    Structurei

    Secondary structure

    1
    276
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi93 – 964
    Helixi101 – 1033
    Beta strandi108 – 1114
    Turni115 – 1173
    Beta strandi118 – 1236
    Beta strandi129 – 1368
    Beta strandi139 – 1479
    Helixi151 – 16111
    Beta strandi162 – 1676
    Helixi172 – 18211
    Beta strandi188 – 1925
    Helixi194 – 1963
    Beta strandi198 – 2003
    Beta strandi203 – 2053
    Helixi208 – 2103
    Beta strandi211 – 2133
    Helixi215 – 2173
    Beta strandi218 – 2236
    Helixi225 – 2284
    Helixi232 – 2343
    Beta strandi235 – 2373
    Helixi249 – 26113

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2HHLX-ray2.10A/B/C/D82-265[»]
    ProteinModelPortaliO15194.
    SMRiO15194. Positions 82-264.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiO15194.

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini102 – 260159FCP1 homologyPROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Contains 1 FCP1 homology domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG5190.
    HOGENOMiHOG000236379.
    HOVERGENiHBG053298.
    InParanoidiO15194.
    KOiK15731.
    OMAiHMSIITQ.
    OrthoDBiEOG71P2C3.
    PhylomeDBiO15194.
    TreeFamiTF313556.

    Family and domain databases

    Gene3Di3.40.50.1000. 1 hit.
    InterProiIPR011948. Dullard_phosphatase.
    IPR023214. HAD-like_dom.
    IPR004274. NIF.
    [Graphical view]
    PfamiPF03031. NIF. 1 hit.
    [Graphical view]
    SMARTiSM00577. CPDc. 1 hit.
    [Graphical view]
    SUPFAMiSSF56784. SSF56784. 1 hit.
    TIGRFAMsiTIGR02251. HIF-SF_euk. 1 hit.
    PROSITEiPS50969. FCP1. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: O15194-1) [UniParc]FASTAAdd to Basket

    Also known as: HYA22B

    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

    MDGPAIITQV TNPKEDEGRL PGAGEKASQC NVSLKKQRSR SILSSFFCCF    50
    RDYNVEAPPP SSPSVLPPLV EENGGLQKGD QRQVIPIPSP PAKYLLPEVT 100
    VLDYGKKCVV IDLDETLVHS SFKPISNADF IVPVEIDGTI HQVYVLKRPH 150
    VDEFLQRMGQ LFECVLFTAS LAKYADPVAD LLDRWGVFRA RLFRESCVFH 200
    RGNYVKDLSR LGRELSKVII VDNSPASYIF HPENAVPVQS WFDDMTDTEL 250
    LDLIPFFEGL SREDDVYSML HRLCNR 276
    Length:276
    Mass (Da):31,129
    Last modified:August 31, 2004 - v2
    Checksum:i5C7B32A1127B0F59
    GO
    Isoform 2 (identifier: O15194-2) [UniParc]FASTAAdd to Basket

    Also known as: HYA22A

    The sequence of this isoform differs from the canonical sequence as follows:
         79-89: Missing.

    Show »
    Length:265
    Mass (Da):29,937
    Checksum:iD19C4461386C1C2F
    GO

    Sequence cautioni

    The sequence BAA21667.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti121 – 1211S → P.1 Publication
    VAR_019683
    Natural varianti127 – 1271N → S.1 Publication
    VAR_019684
    Natural varianti132 – 1321V → G.1 Publication
    VAR_019685

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei79 – 8911Missing in isoform 2. 4 PublicationsVSP_011541Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    D88153 mRNA. Translation: BAA21667.1. Different initiation.
    AY279532 mRNA. Translation: AAP34400.1.
    AJ575644 mRNA. Translation: CAE11804.1.
    AJ575645 mRNA. Translation: CAE11805.1.
    AY364238 mRNA. Translation: AAQ76797.1.
    CCDSiCCDS33734.1. [O15194-1]
    CCDS33735.1. [O15194-2]
    PIRiJC5707.
    RefSeqiNP_001008393.1. NM_001008392.1. [O15194-1]
    NP_005799.2. NM_005808.2. [O15194-2]
    UniGeneiHs.475963.

    Genome annotation databases

    EnsembliENST00000273179; ENSP00000273179; ENSG00000144677. [O15194-1]
    ENST00000443503; ENSP00000398288; ENSG00000144677. [O15194-2]
    GeneIDi10217.
    KEGGihsa:10217.
    UCSCiuc003chg.3. human. [O15194-1]
    uc003chh.3. human. [O15194-2]

    Keywords - Coding sequence diversityi

    Alternative splicing, Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    D88153 mRNA. Translation: BAA21667.1 . Different initiation.
    AY279532 mRNA. Translation: AAP34400.1 .
    AJ575644 mRNA. Translation: CAE11804.1 .
    AJ575645 mRNA. Translation: CAE11805.1 .
    AY364238 mRNA. Translation: AAQ76797.1 .
    CCDSi CCDS33734.1. [O15194-1 ]
    CCDS33735.1. [O15194-2 ]
    PIRi JC5707.
    RefSeqi NP_001008393.1. NM_001008392.1. [O15194-1 ]
    NP_005799.2. NM_005808.2. [O15194-2 ]
    UniGenei Hs.475963.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    2HHL X-ray 2.10 A/B/C/D 82-265 [» ]
    ProteinModelPortali O15194.
    SMRi O15194. Positions 82-264.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 115512. 5 interactions.
    STRINGi 9606.ENSP00000273179.

    PTM databases

    PhosphoSitei O15194.

    Proteomic databases

    MaxQBi O15194.
    PaxDbi O15194.
    PRIDEi O15194.

    Protocols and materials databases

    DNASUi 10217.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000273179 ; ENSP00000273179 ; ENSG00000144677 . [O15194-1 ]
    ENST00000443503 ; ENSP00000398288 ; ENSG00000144677 . [O15194-2 ]
    GeneIDi 10217.
    KEGGi hsa:10217.
    UCSCi uc003chg.3. human. [O15194-1 ]
    uc003chh.3. human. [O15194-2 ]

    Organism-specific databases

    CTDi 10217.
    GeneCardsi GC03P037878.
    HGNCi HGNC:16890. CTDSPL.
    HPAi HPA048325.
    MIMi 608592. gene.
    neXtProti NX_O15194.
    PharmGKBi PA128394571.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG5190.
    HOGENOMi HOG000236379.
    HOVERGENi HBG053298.
    InParanoidi O15194.
    KOi K15731.
    OMAi HMSIITQ.
    OrthoDBi EOG71P2C3.
    PhylomeDBi O15194.
    TreeFami TF313556.

    Miscellaneous databases

    EvolutionaryTracei O15194.
    GeneWikii CTDSPL.
    GenomeRNAii 10217.
    NextBioi 38686.
    PROi O15194.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi O15194.
    Bgeei O15194.
    CleanExi HS_CTDSPL.
    Genevestigatori O15194.

    Family and domain databases

    Gene3Di 3.40.50.1000. 1 hit.
    InterProi IPR011948. Dullard_phosphatase.
    IPR023214. HAD-like_dom.
    IPR004274. NIF.
    [Graphical view ]
    Pfami PF03031. NIF. 1 hit.
    [Graphical view ]
    SMARTi SM00577. CPDc. 1 hit.
    [Graphical view ]
    SUPFAMi SSF56784. SSF56784. 1 hit.
    TIGRFAMsi TIGR02251. HIF-SF_euk. 1 hit.
    PROSITEi PS50969. FCP1. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Sequence analysis of a 685-kb genomic region on chromosome 3p22-p21.3 that is homozygously deleted in a lung carcinoma cell line."
      Ishikawa S., Kai M., Tamari M., Takei Y., Takeuchi K., Bandou H., Yamane Y., Ogawa M., Nakamura Y.
      DNA Res. 4:35-43(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2).
      Tissue: Fetal brain, Lung and Pancreas.
    2. "A novel RNA polymerase II C-terminal domain phosphatase that preferentially dephosphorylates serine 5."
      Yeo M., Lin P.S., Dahmus M.E., Gill G.N.
      J. Biol. Chem. 278:26078-26085(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), FUNCTION.
    3. Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2), VARIANTS PRO-121; SER-127 AND GLY-132.
      Tissue: Lung.
    4. "NovelFam3000 -- uncharacterized human protein domains conserved across model organisms."
      Kemmer D., Podowski R.M., Arenillas D., Lim J., Hodges E., Roth P., Sonnhammer E.L.L., Hoeoeg C., Wasserman W.W.
      BMC Genomics 7:48-48(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    5. "Small CTD phosphatases function in silencing neuronal gene expression."
      Yeo M., Lee S.-K., Lee B., Ruiz E.C., Pfaff S.L., Gill G.N.
      Science 307:596-600(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: TISSUE SPECIFICITY.
    6. Cited for: X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS) OF 82-265, SUBUNIT.

    Entry informationi

    Entry nameiCTDSL_HUMAN
    AccessioniPrimary (citable) accession number: O15194
    Secondary accession number(s): Q3ZTU0, Q70KI4, Q7Z5Q2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 13, 2001
    Last sequence update: August 31, 2004
    Last modified: October 1, 2014
    This is version 110 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

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Human chromosome 3
      Human chromosome 3: entries, gene names and cross-references to MIM
    2. Human entries with polymorphisms or disease mutations
      List of human entries with polymorphisms or disease mutations
    3. Human polymorphisms and disease mutations
      Index of human polymorphisms and disease mutations
    4. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    5. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    6. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3