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A2A288

- ZC12D_HUMAN

UniProt

A2A288 - ZC12D_HUMAN

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Protein

Probable ribonuclease ZC3H12D

Gene

ZC3H12D

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli

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
Complete GO annotation...

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
Complete GO annotation...

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

BgeeiA2A288.
CleanExiHS_ZC3H12D.
ExpressionAtlasiA2A288. baseline and differential.
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.
GeneTreeiENSGT00750000117218.
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) [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

        10         20         30         40         50
MEHPSKMEFF QKLGYDREDV LRVLGKLGEG ALVNDVLQEL IRTGSRPGAL
60 70 80 90 100
EHPAAPRLVP RGSCGVPDSA QRGPGTALEE DFRTLASSLR PIVIDGSNVA
110 120 130 140 150
MSHGNKETFS CRGIKLAVDW FRDRGHTYIK VFVPSWRKDP PRADTPIREQ
160 170 180 190 200
HVLAELERQA VLVYTPSRKV HGKRLVCYDD RYIVKVAYEQ DGVIVSNDNY
210 220 230 240 250
RDLQSENPEW KWFIEQRLLM FSFVNDRFMP PDDPLGRHGP SLSNFLSRKP
260 270 280 290 300
KPPEPSWQHC PYGKKCTYGI KCKFYHPERP HHAQLAVADE LRAKTGARPG
310 320 330 340 350
AGAEEQRPPR APGGSAGARA APREPFAHSL PPARGSPDLA ALRGSFSRLA
360 370 380 390 400
FSDDLGPLGP PLPVPACSLT PRLGGPDWVS AGGRVPGPLS LPSPESQFSP
410 420 430 440 450
GDLPPPPGLQ LQPRGEHRPR DLHGDLLSPR RPPDDPWARP PRSDRFPGRS
460 470 480 490 500
VWAEPAWGDG ATGGLSVYAT EDDEGDARAR ARIALYSVFP RDQVDRVMAA
510 520
FPELSDLARL ILLVQRCQSA GAPLGKP
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.
GeneTreei ENSGT00750000117218.
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

Bgeei A2A288.
CleanExi HS_ZC3H12D.
ExpressionAtlasi A2A288. baseline and differential.
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

« Hide 'large scale' publications
  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 29, 2014
This is version 67 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