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ZCCHC11 Gene

protein-coding   GIFtS: 51

GC01M052661
zinc finger, CCHC domain containing 11
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
KIAA0191 1, 3
OTTHUMP00000009913 2
PAPD3 1, 2
Descriptions
PAP associated domain containing 3 2
zinc finger, CCHC domain containing 11 2
External Ids
HGNC: 289811
Entrez Gene: 233182
UniProtKB: Q5TAX33
Ensembl: ENSG000001347447
Search outside databases for aliases for ZCCHC11 gene

Previous GC identifers: GC01M052259 GC01M052601

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: ZCH11_HUMAN, Q5TAX3
Function: Suppresses Toll-like receptor-induced NF-kappa-B activity via binding to T2BP

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the ZCCHC11 gene  

Entrez Gene cytogenetic band: 1p32.3   Ensembl cytogenetic band:  1p32.3   HGNC cytogenetic band: 1p32.3

ZCCHC11 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M052661:     (about GC identifiers)

Start:
52,661,535 bp from pter
End:
52,791,331 bp from pter
Size:
129,797 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000001.9  NT_032977.8  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: ZCH11_HUMAN, Q5TAX3 (See protein sequence)
Recommended Name: Zinc finger CCHC domain-containing protein 11  
Size: 1644 amino acids; 185166 Da
Subunit: Interacts with T2BP
Subcellular location: Nucleus. Cytoplasm. Note=Translocates into the cytoplasm following treatment
of the cell with LPS
Secondary accessions: A2RRP0 Q12764 Q5TAX4 Q86XZ3
Alternative splicing: 2 isoforms:  Q5TAX3-1   Q5TAX3-2   

Post-translational modifications:

  • Phosphorylated upon DNA damage, probably by ATM or ATR1
  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins (3 alternative transcripts): 
    NP_001009881.1  NP_001009882.1  NP_056084.1  


    ENSEMBL proteins: 
    ENSP00000360599 ENSP00000257177 ENSP00000348063 ENSP00000360596 ENSP00000379252 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (ZCH11)
    Human Recombinant Proteins from Abnova (ZCCHC11)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    3 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622 intracellular IEA--
    GO:0005634 nucleus IEA--
    GO:0005737 cytoplasm IEA--
    About this table

    Antibodies for ZCCHC11: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for ZCCHC11
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (ZCH11), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (ZCCHC11)
    Novus Biologicals Antibody for ZCCHC11

    Assays for ZCCHC11: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    4 InterPro domains/families:
     IPR002934 Nucleotidyltransferase
     IPR002058 PAP_assoc
     IPR007087 Znf_C2H2
     IPR001878 Znf_CCHC


       GeneDecks  ZCCHC11 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q5TAX3

    ProtoNet protein and cluster: Q5TAX3

    2 Blocks protein families:
    IPB002058 PAP/25A-associated domain
    IPB002934 DNA polymerase


    UniProtKB/Swiss-Prot: ZCH11_HUMAN, Q5TAX3
    Similarity: Contains 3 CCHC-type zinc fingers

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (ZCCHC11)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (ZCCHC11)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 4): XM_038288

                  Applied Biosystems Silencer® siRNAs for ZCCHC11

                  Sigma-Aldrich siRNA and siRNA Panels for ZCCHC11  
                         Sigma-Aldrich shRNA for ZCCHC11  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for ZCCHC11
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 3): NM_001009881
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 3): NM_001009881
                                     untagged cDNA clones in CMV expression vector (see all 4): NM_001009881 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_001009881

    UniProtKB/Swiss-Prot: ZCH11_HUMAN, Q5TAX3
    Function: Suppresses Toll-like receptor-induced NF-kappa-B activity via binding to T2BP

    5 Gene Ontology (GO) molecular function terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676 nucleic acid binding IEA--
    GO:0005515 protein binding IPI16643855
    GO:0008270 zinc ion binding IEA--
    GO:0016779 nucleotidyltransferase activity IEA--
    GO:0046872 metal ion binding IEA--
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section



    1 Interacting protein for ZCCHC11 (Q5TAX31) via UniProtKB, MINT, and/or STRING
    InteractantInteraction Details
    GeneCardExternal ID(s)
    TIFAQ96CG31EBI-1606425, EBI-740711
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for ZCCHC11

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (ZCCHC11)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (ZCCHC11)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 4): XM_038288

                  Sigma-Aldrich siRNA and siRNA Panels for ZCCHC11  
                         Sigma-Aldrich shRNA for ZCCHC11  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_001009881  NM_001009882  NM_015269  

    REFSEQ mRNAs for ZCCHC11 gene (3 alternative transcripts): 

    NM_001009881.1   NM_001009882.1   NM_015269.1   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_001009881  NM_001009882  NM_015269  

                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 3): NM_001009881
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 3): NM_001009881
                                     untagged cDNA clones in CMV expression vector (see all 4): NM_001009881 

    Additional cDNA sequence: 

    AK025698.1 AK095733.1 AK124868.1 AK303532.1 AK307579.1 AK308427.1 BC012047.1 BC018753.1 
    BC035820.1 BC131734.1 BX648248.1 BX648783.1 BX649065.1 CR604717.1 CR616727.1 D83776.1 

    16 DOTS entries:

    DT.452033  DT.75146298  DT.101983757  DT.101983756  DT.100833179  DT.100718308  DT.121437962  DT.92428730 
    DT.121438013  DT.121438023  DT.91730437  DT.91994395  DT.92056723  DT.40269555  DT.95261567  DT.99949609 

    24/160 AceView cDNA sequences (see all 160 ):

    F10702 BU178489 AV714171 BC012047 AK025698 F13102 AL045167 CB132120 
    BQ889323 BX439159 AA304813 BC018753 CA449372 CR616727 AI076173 AA431368 
    BQ430408 AA428502 AL705626 BG536205 AV709185 AI049962 AK095733 BM450281 

    highest scoring ESTs for ZCCHC11:

    AA813882 AK095733 AL704521 AL710106 AW976716 BC035820 BE274136 BE275797 BG942947 BM467327 

    Unigene Cluster for ZCCHC11:

    Zinc finger, CCHC domain containing 11
    Hs.655407  [show with all ESTs]
    Unigene Representative Sequence: NM_001009881


    GeneLoc Exon Structure

    5/14 Alternative Splicing Database (ASD) splice patterns (SP) for ZCCHC11 (see all 14 )

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14 ^ 15 ^ 16a · 16b ^ 17 ^ 18a · 18b ^ 19a · 19b ^ 20a · 20b ^
    SP1:                                                                                                                          -                 -               
    SP2:                                                                                                                                                            
    SP3:                                                                                                                                                            
    SP4:                                                                                                                                                            
    SP5:                                                                                            -                                                               

    ExUns: 21a · 21b ^ 22 ^ 23 ^ 24a · 24b ^ 25 ^ 26 ^ 27 ^ 28 ^ 29a · 29b · 29c · 29d ^ 30 ^ 31 ^ 32a · 32b ^ 33 ^ 34 ^ 35a · 35b · 35c · 35d
    SP1:                                                                                            -                                                   
    SP2:                                                                                            -                                                   
    SP3:                                                              -                             -                                                   
    SP4:                                                                                            -                             -                     
    SP5:                                                                                                                                                

    About this scheme

    ECgene alternative splicing isoforms for ZCCHC11

    5 Ensembl transcripts including schematic representations:
    ENST00000371544  ENST00000257177  ENST00000355809  ENST00000371541  ENST00000395916  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    ZCCHC11 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for ZCCHC11

    1 / 2 / 3

    8 probe-sets matching ZCCHC11 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    78334_at2 U95-E 1 1.00 1.00 0.94 1.17 -- -- -- -- --

    41669_at2, 3 U95-A 1 1.00 1.00 0.77 0.83 D83776 0.80 1.00 0.91 1

    217594_at2, 3 U133-A 1 1.00 1.00 -- -- R25849 0.40 1.00 0.76 1

    229235_at2 U133-B 1 1.00 1.00 -- -- -- -- -- -- --

    212704_at2, 3 U133-A 1 1.00 1.00 -- -- AI049962 0.40 1.00 0.76 1

    217594_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    229235_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    212704_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: AAGATTCAGA

    SOURCE GeneReport for Unigene cluster: Hs.655407

    Expression variation in blood from EXPOLDB for ZCCHC11

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for ZCCHC11 gene from 5/9 species (see all 9 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    ZCCHC111   -- zinc finger, CCHC domain containing 11 92.65(n)
    91.28(a)
    475349  XM_532573.2  XP_532573.2 
    chimpanzee
    (Pan troglodytes)
    ZCCHC111   -- zinc finger, CCHC domain containing 11 98.68(n)
    98.35(a)
    456859  XM_001146353.1  XP_001146353.1 
    cow
    (Bos taurus)
    ZCCHC111   -- zinc finger, CCHC domain containing 11 93.39(n)
    93.03(a)
    528986  XM_607424.3  XP_607424.3 
    rat
    (Rattus norvegicus)
    Zcchc111   -- zinc finger, CCHC domain containing 11 82.27(n)
    79.2(a)
    313481  XM_233345.4  XP_233345.4 
    mouse
    (Mus musculus)
    Zcchc111, 5 45
    zinc finger, CCHC domain containing 111, 5 88.77(n)1
    88.46(a)1
    2305941  NM_175472.31  NP_780681.21 
     AF1949725  AI4516545  (see all 18)
    About this table        Species with no ortholog for ZCCHC11

    ENSEMBL Gene Tree for ZCCHC11
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for ZCCHC11 gene
    ZCCHC62  PAPD42  

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/488 NCBI SNPs in ZCCHC11 are shown (see all 488 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 124)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 1 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs75529601,2
    A,C,F,H52661424(+) AAATGT/ATACTT 3 -- ng517Minor allele frequency- A:0.16EU EA WA NA 554
    rs121277321,2
    C,F,H52713433(+) AGAGTC/ACTGTC 3 Y/D mis1 ese38Minor allele frequency- A:0.00EU EA WA 836
    --
    rs66627601,2
    A,C52792403(+) GTCACG/TGGCGG 3 -- ng310--------
    rs8350311,2
    C,H52661525(-) GTTAAT/ACTGTT 3 -- ng514Minor allele frequency- A:0.00EU EA WA 414
    rs125648691,2
    H52669518(+) TATTGT/AGCATG 3 L/H mis14Minor allele frequency- A:0.00EU EA WA 418
    rs121236981,2
    A,F,H52764226(+) TTCACC/TGGTGA 3 P/P syn1 ese33Minor allele frequency- T:0.24EA WA 296
    rs37953631,2
    F,H52763932(-) GAAAAA/GTGTGC 3 K/K syn1 trp35Minor allele frequency- G:0.03EA EU WA 1726
    rs37953641,2
    H52763830(-) TCGGAC/TGATTT 3 D/D syn1 ese34Minor allele frequency- T:0.00EU EA WA 416
    rs14933651,2
    A,C,F,H,O52790033(+) TCTCTG/AAATTA 3 -- int112Minor allele frequency- A:0.33MN NA EU EA WA 1160
    rs21315531,2
    A,C,F,H,O52699137(-) GATTTT/CAGCCC 3 -- int16Minor allele frequency- C:0.39EU EA WA NA 590
    About this table

    HapMap Linkage Disequilibrium images for ZCCHC11 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

      --

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    8 PubMed articles for ZCCHC11 gene:
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 23318 HGNC: 28981 AceView: ZCCHC11 Ensembl:ENSG00000134744 euGenes: HUgn23318
    ECgene: ZCCHC11 H-InvDB: ZCCHC11
    (According to HUGE)
    About This Section

    HUGE: KIAA0191
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for ZCCHC11:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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