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A2A288

- ZC12D_HUMAN

UniProt

A2A288 - ZC12D_HUMAN

Protein

Probable ribonuclease ZC3H12D

Gene

ZC3H12D

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
    • BLAST
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    • History
      Entry version 66 (01 Oct 2014)
      Sequence version 3 (01 Sep 2009)
      Previous versions | rss
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    Functioni

    May regulate cell growth likely by suppressing RB1 phosphorylation. May function as RNase and regulate the levels of target RNA species Potential. Serve as a tumor suppressor in certain leukemia cells. Overexpression inhibits the G1 to S phase progression through suppression of RB1 phosphorylation.2 PublicationsCurated

    Cofactori

    Magnesium.Curated

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri248 – 27932C3H1-typePROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

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

    GO - Biological processi

    1. negative regulation of cell growth Source: UniProtKB
    2. negative regulation of G1/S transition of mitotic cell cycle Source: UniProtKB

    Keywords - Molecular functioni

    Endonuclease, Hydrolase, Nuclease

    Keywords - Ligandi

    Magnesium, Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Probable ribonuclease ZC3H12D (EC:3.1.-.-)
    Alternative name(s):
    MCP-induced protein 41 Publication
    Transformed follicular lymphoma
    Zinc finger CCCH domain-containing protein 12D
    p341 Publication
    Gene namesi
    Name:ZC3H12D
    Synonyms:C6orf95, MCPIP41 Publication, TFL
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 6

    Organism-specific databases

    HGNCiHGNC:21175. ZC3H12D.

    Subcellular locationi

    Isoform 1 : Cytoplasm
    Note: Localized as discrete granules. Colocalized with mRNA-processing body markers, AGO2 and DCP1A, but not with a stress granule maker, TIA1, in the cytoplasm.

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB
    2. nucleus Source: UniProtKB

    Keywords - Cellular componenti

    Cytoplasm, Nucleus

    Pathology & Biotechi

    Involvement in diseasei

    A chromosomal aberration involving ZC3H12D may be the cause of the transformation of follicular lymphoma (FL) to diffuse large B-cell lymphoma (DLBCL). Translocation t(2;6)(p12;q25) with IGK. Resulting protein may not be expressed.

    Organism-specific databases

    PharmGKBiPA134867170.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 527527Probable ribonuclease ZC3H12DPRO_0000348931Add
    BLAST

    Proteomic databases

    MaxQBiA2A288.
    PaxDbiA2A288.
    PRIDEiA2A288.

    PTM databases

    PhosphoSiteiA2A288.

    Expressioni

    Tissue specificityi

    Expressed in normal human lymphocytes but defective in some leukemia/lymphoma cell lines.1 Publication

    Inductioni

    By prolonged exposure to bacterial lipopolysaccharides (LPS) in acute monocytic leukemia cell line THP-1 cells.1 Publication

    Gene expression databases

    ArrayExpressiA2A288.
    BgeeiA2A288.
    CleanExiHS_ZC3H12D.
    GenevestigatoriA2A288.

    Organism-specific databases

    HPAiHPA036897.

    Interactioni

    Protein-protein interaction databases

    STRINGi9606.ENSP00000374592.

    Structurei

    3D structure databases

    ProteinModelPortaliA2A288.
    SMRiA2A288. Positions 89-250.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi357 – 44185Pro-richSequence AnalysisAdd
    BLAST

    Sequence similaritiesi

    Belongs to the ZC3H12 family.By similarity
    Contains 1 C3H1-type zinc finger.By similarityPROSITE-ProRule annotation

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri248 – 27932C3H1-typePROSITE-ProRule annotationAdd
    BLAST

    Keywords - Domaini

    Zinc-finger

    Phylogenomic databases

    eggNOGiNOG259385.
    HOGENOMiHOG000060218.
    HOVERGENiHBG108759.
    InParanoidiA2A288.
    OMAiRPPDDPW.
    OrthoDBiEOG7NSB2F.
    PhylomeDBiA2A288.
    TreeFamiTF315783.

    Family and domain databases

    InterProiIPR021869. RNase_Zc3h12.
    IPR000571. Znf_CCCH.
    [Graphical view]
    PfamiPF11977. RNase_Zc3h12a. 1 hit.
    [Graphical view]
    PROSITEiPS50103. ZF_C3H1. 1 hit.
    [Graphical view]

    Sequences (3)i

    Sequence statusi: Complete.

    This entry describes 3 isoformsi produced by alternative splicing. Align

    Isoform 11 Publication (identifier: A2A288-1) [UniParc]FASTAAdd to Basket

    Also known as: P58TFL, TFL1

    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

    MEHPSKMEFF QKLGYDREDV LRVLGKLGEG ALVNDVLQEL IRTGSRPGAL    50
    EHPAAPRLVP RGSCGVPDSA QRGPGTALEE DFRTLASSLR PIVIDGSNVA 100
    MSHGNKETFS CRGIKLAVDW FRDRGHTYIK VFVPSWRKDP PRADTPIREQ 150
    HVLAELERQA VLVYTPSRKV HGKRLVCYDD RYIVKVAYEQ DGVIVSNDNY 200
    RDLQSENPEW KWFIEQRLLM FSFVNDRFMP PDDPLGRHGP SLSNFLSRKP 250
    KPPEPSWQHC PYGKKCTYGI KCKFYHPERP HHAQLAVADE LRAKTGARPG 300
    AGAEEQRPPR APGGSAGARA APREPFAHSL PPARGSPDLA ALRGSFSRLA 350
    FSDDLGPLGP PLPVPACSLT PRLGGPDWVS AGGRVPGPLS LPSPESQFSP 400
    GDLPPPPGLQ LQPRGEHRPR DLHGDLLSPR RPPDDPWARP PRSDRFPGRS 450
    VWAEPAWGDG ATGGLSVYAT EDDEGDARAR ARIALYSVFP RDQVDRVMAA 500
    FPELSDLARL ILLVQRCQSA GAPLGKP 527
    Length:527
    Mass (Da):58,078
    Last modified:September 1, 2009 - v3
    Checksum:iE330D92548D49DD7
    GO
    Isoform 2 (identifier: A2A288-3) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         228-527: Missing.

    Note: No experimental confirmation available.Curated

    Show »
    Length:227
    Mass (Da):25,951
    Checksum:i5267FCB7B992C467
    GO
    Isoform 3 (identifier: A2A288-4) [UniParc]FASTAAdd to Basket

    Also known as: P36TFL, TFL2

    The sequence of this isoform differs from the canonical sequence as follows:
         300-321: GAGAEEQRPPRAPGGSAGARAA → VLPGRPPASARPAAPAAGRTPP
         322-527: Missing.

    Show »
    Length:321
    Mass (Da):36,199
    Checksum:i268B27A7F6375628
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti135 – 1351S → F in BAH28269. (PubMed:19531561)Curated
    Sequence conflicti140 – 1401P → S in BAH28269. (PubMed:19531561)Curated
    Sequence conflicti140 – 1401P → S in BAC87196. (PubMed:14702039)Curated
    Sequence conflicti299 – 2991P → L in BAH28269. (PubMed:19531561)Curated
    Sequence conflicti299 – 2991P → L in BAC87196. (PubMed:14702039)Curated
    Sequence conflicti405 – 4051P → S in AAI57833. (PubMed:15489334)Curated
    Sequence conflicti499 – 4991A → T in AAI57833. (PubMed:15489334)Curated
    Isoform 3 (identifier: A2A288-4)
    Sequence conflicti300 – 3001V → G in BAH28269. (PubMed:19531561)Curated
    Sequence conflicti300 – 3001V → G in BAC87196. (PubMed:14702039)Curated
    Sequence conflicti301 – 3011L → V in BAH28269. (PubMed:19531561)Curated
    Sequence conflicti301 – 3011L → V in BAC87196. (PubMed:14702039)Curated
    Sequence conflicti302 – 3021P → R in BAH28269. (PubMed:19531561)Curated
    Sequence conflicti302 – 3021P → R in BAC87196. (PubMed:14702039)Curated

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti53 – 531P → L.2 Publications
    Corresponds to variant rs7747948 [ dbSNP | Ensembl ].
    VAR_046199
    Natural varianti106 – 1061K → R in some sporadic lung cancer sample; appears to cause loss of tumor suppressor activity. 1 Publication
    Corresponds to variant rs61997220 [ dbSNP | Ensembl ].
    VAR_046200

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei228 – 527300Missing in isoform 2. 1 PublicationVSP_052853Add
    BLAST
    Alternative sequencei300 – 32122GAGAE…GARAA → VLPGRPPASARPAAPAAGRT PP in isoform 3. 2 PublicationsVSP_040794Add
    BLAST
    Alternative sequencei322 – 527206Missing in isoform 3. 2 PublicationsVSP_040795Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB458221 mRNA. Translation: BAH28268.1.
    AB458222 mRNA. Translation: BAH28269.1.
    AK127932 mRNA. Translation: BAC87196.1.
    AL031133 Genomic DNA. Translation: CAM28211.2.
    BC127762 mRNA. Translation: AAI27763.1.
    BC157832 mRNA. Translation: AAI57833.1.
    RefSeqiNP_997243.2. NM_207360.2. [A2A288-1]
    UniGeneiHs.632618.

    Genome annotation databases

    EnsembliENST00000409806; ENSP00000386616; ENSG00000178199. [A2A288-1]
    GeneIDi340152.
    KEGGihsa:340152.
    UCSCiuc003qmn.1. human. [A2A288-3]
    uc010kid.3. human. [A2A288-1]

    Keywords - Coding sequence diversityi

    Alternative splicing, Chromosomal rearrangement, Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB458221 mRNA. Translation: BAH28268.1 .
    AB458222 mRNA. Translation: BAH28269.1 .
    AK127932 mRNA. Translation: BAC87196.1 .
    AL031133 Genomic DNA. Translation: CAM28211.2 .
    BC127762 mRNA. Translation: AAI27763.1 .
    BC157832 mRNA. Translation: AAI57833.1 .
    RefSeqi NP_997243.2. NM_207360.2. [A2A288-1 ]
    UniGenei Hs.632618.

    3D structure databases

    ProteinModelPortali A2A288.
    SMRi A2A288. Positions 89-250.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 9606.ENSP00000374592.

    PTM databases

    PhosphoSitei A2A288.

    Proteomic databases

    MaxQBi A2A288.
    PaxDbi A2A288.
    PRIDEi A2A288.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000409806 ; ENSP00000386616 ; ENSG00000178199 . [A2A288-1 ]
    GeneIDi 340152.
    KEGGi hsa:340152.
    UCSCi uc003qmn.1. human. [A2A288-3 ]
    uc010kid.3. human. [A2A288-1 ]

    Organism-specific databases

    CTDi 340152.
    GeneCardsi GC06M149811.
    HGNCi HGNC:21175. ZC3H12D.
    HPAi HPA036897.
    MIMi 611106. gene.
    neXtProti NX_A2A288.
    PharmGKBi PA134867170.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG259385.
    HOGENOMi HOG000060218.
    HOVERGENi HBG108759.
    InParanoidi A2A288.
    OMAi RPPDDPW.
    OrthoDBi EOG7NSB2F.
    PhylomeDBi A2A288.
    TreeFami TF315783.

    Miscellaneous databases

    GenomeRNAii 340152.
    NextBioi 97711.
    PROi A2A288.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi A2A288.
    Bgeei A2A288.
    CleanExi HS_ZC3H12D.
    Genevestigatori A2A288.

    Family and domain databases

    InterProi IPR021869. RNase_Zc3h12.
    IPR000571. Znf_CCCH.
    [Graphical view ]
    Pfami PF11977. RNase_Zc3h12a. 1 hit.
    [Graphical view ]
    PROSITEi PS50103. ZF_C3H1. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Inhibition of G(1) to S phase progression by a novel zinc finger protein P58(TFL) at P-bodies."
      Minagawa K., Katayama Y., Nishikawa S., Yamamoto K., Sada A., Okamura A., Shimoyama M., Matsui T.
      Mol. Cancer Res. 7:880-889(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 3), FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, VARIANT LEU-53.
    2. "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] (ISOFORM 3), VARIANT LEU-53.
      Tissue: SpleenImported.
    3. "The DNA sequence and analysis of human chromosome 6."
      Mungall A.J., Palmer S.A., Sims S.K., Edwards C.A., Ashurst J.L., Wilming L., Jones M.C., Horton R., Hunt S.E., Scott C.E., Gilbert J.G.R., Clamp M.E., Bethel G., Milne S., Ainscough R., Almeida J.P., Ambrose K.D., Andrews T.D.
      , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beare D.M., Beasley H., Beasley O., Bird C.P., Blakey S.E., Bray-Allen S., Brook J., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Clark S.Y., Clark G., Clee C.M., Clegg S., Cobley V., Collier R.E., Collins J.E., Colman L.K., Corby N.R., Coville G.J., Culley K.M., Dhami P., Davies J., Dunn M., Earthrowl M.E., Ellington A.E., Evans K.A., Faulkner L., Francis M.D., Frankish A., Frankland J., French L., Garner P., Garnett J., Ghori M.J., Gilby L.M., Gillson C.J., Glithero R.J., Grafham D.V., Grant M., Gribble S., Griffiths C., Griffiths M.N.D., Hall R., Halls K.S., Hammond S., Harley J.L., Hart E.A., Heath P.D., Heathcott R., Holmes S.J., Howden P.J., Howe K.L., Howell G.R., Huckle E., Humphray S.J., Humphries M.D., Hunt A.R., Johnson C.M., Joy A.A., Kay M., Keenan S.J., Kimberley A.M., King A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C.R., Lloyd D.M., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., Maslen G.L., Matthews L., McCann O.T., McLaren S.J., McLay K., McMurray A., Moore M.J.F., Mullikin J.C., Niblett D., Nickerson T., Novik K.L., Oliver K., Overton-Larty E.K., Parker A., Patel R., Pearce A.V., Peck A.I., Phillimore B.J.C.T., Phillips S., Plumb R.W., Porter K.M., Ramsey Y., Ranby S.A., Rice C.M., Ross M.T., Searle S.M., Sehra H.K., Sheridan E., Skuce C.D., Smith S., Smith M., Spraggon L., Squares S.L., Steward C.A., Sycamore N., Tamlyn-Hall G., Tester J., Theaker A.J., Thomas D.W., Thorpe A., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., White S.S., Whitehead S.L., Whittaker H., Wild A., Willey D.J., Wilmer T.E., Wood J.M., Wray P.W., Wyatt J.C., Young L., Younger R.M., Bentley D.R., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Dunham I., Rogers J., Beck S.
      Nature 425:805-811(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    4. "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] (ISOFORMS 1 AND 2).
      Tissue: Brain cortexCurated.
    5. "Deregulation of a possible tumour suppressor gene, ZC3H12D, by translocation of IGK@ in transformed follicular lymphoma with t(2;6)(p12;q25)."
      Minagawa K., Yamamoto K., Nishikawa S., Ito M., Sada A., Yakushijin K., Okamura A., Shimoyama M., Katayama Y., Matsui T.
      Br. J. Haematol. 139:161-163(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: CHROMOSOMAL TRANSLOCATION, INVOLVEMENT IN DIFFUSE LARGE B-CELL LYMPHOMA.
    6. Cited for: FUNCTION, VARIANT ARG-106.
    7. "A novel CCCH-zinc finger protein family regulates proinflammatory activation of macrophages."
      Liang J., Wang J., Azfer A., Song W., Tromp G., Kolattukudy P.E., Fu M.
      J. Biol. Chem. 283:6337-6346(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: INDUCTION.

    Entry informationi

    Entry nameiZC12D_HUMAN
    AccessioniPrimary (citable) accession number: A2A288
    Secondary accession number(s): A1L178
    , B2RXF4, B7WNU7, B9ZZP9, B9ZZQ0, Q6ZRW2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 2, 2008
    Last sequence update: September 1, 2009
    Last modified: October 1, 2014
    This is version 66 of the entry and version 3 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

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome 6
      Human chromosome 6: 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. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3