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ZNF550 Gene

protein-coding   GIFtS: 43
GCID: GC19M058061

Zinc Finger Protein 550

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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Zinc Finger Protein 5501 2

External Ids:    HGNC: 286431   Entrez Gene: 1629722   Ensembl: ENSG000002513697   UniProtKB: Q7Z3983   

Export aliases for ZNF550 gene to outside databases

Previous GC identifers: GC19M062746 GC19M062747 GC19M058053 GC19M054370


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for ZNF550 Gene:
ZNF550 (zinc finger protein 550) is a protein-coding gene. An important paralog of this gene is ZNF80.

UniProtKB/Swiss-Prot: ZN550_HUMAN, Q7Z398
Function: May be involved in transcriptional regulation




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000019.9  NC_018930.2  NT_011109.17  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZNF550 gene promoter:
         Ik-2   Ik-3   Nkx5-1   Ik-1   C/EBPalpha   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for ZNF550

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZNF550


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 19q13.43   Ensembl cytogenetic band:  19q13.43   HGNC cytogenetic band: 19q13.43

ZNF550 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF550 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M058061:  view genomic region     (about GC identifiers)

Start:
58,046,625 bp from pter      End:
58,071,231 bp from pter
Size:
24,607 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: ZN550_HUMAN, Q7Z398 (See protein sequence)
Recommended Name: Zinc finger protein 550  
Size: 422 amino acids; 48381 Da
Caution: It is uncertain whether Met-1 or Met-10 is the initiator
Sequence caution: Sequence=AAH34810.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Sequence=AAH53858.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Secondary accessions: B3KVF6 O43337 Q7Z6D7 Q8NE45
Alternative splicing: 2 isoforms:  Q7Z398-1   Q7Z398-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for ZNF550: NX_Q7Z398

Explore proteomics data for ZNF550 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See ZNF550 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (4 alternative transcripts): 
    NP_001264019.1  NP_001264020.1  NP_001264021.1  NP_001264022.1  

    ENSEMBL proteins: 
     ENSP00000472973   ENSP00000469679   ENSP00000469537   ENSP00000469580   ENSP00000445978  
     ENSP00000422344   ENSP00000446224  
    Reactome Protein details: Q7Z398

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    ZNF: Zinc fingers, C2H2-type

    4 InterPro protein domains:
     IPR001909 Krueppel-associated_box
     IPR015880 Znf_C2H2-like
     IPR013087 Znf_C2H2/integrase_DNA-bd
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry Q7Z398

    ProtoNet protein and cluster: Q7Z398

    1 Blocks protein domain: IPB001909 KRAB box

    UniProtKB/Swiss-Prot: ZN550_HUMAN, Q7Z398
    Similarity: Belongs to the krueppel C2H2-type zinc-finger protein family
    Similarity: Contains 8 C2H2-type zinc fingers
    Similarity: Contains 1 KRAB domain


    Find genes that share domains with ZNF550           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: ZN550_HUMAN, Q7Z398
    Function: May be involved in transcriptional regulation

         Gene Ontology (GO): 3 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding IEA--
    GO:0046872metal ion binding IEA--
         
    Find genes that share ontologies with ZNF550           About GenesLikeMe


    Phenotypes:
         3 GenomeRNAi human phenotypes for ZNF550:
     Decreased Hepatitis C virus re  Synthetic lethal with Ras  Synthetic lethal with c-Myc af 

    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for ZNF550

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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    ZN550_HUMAN, Q7Z398: Nucleus (Probable)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus4
    cytosol2
    cytoskeleton1
    mitochondrion1

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0005634nucleus IEA--

    Find genes that share ontologies with ZNF550           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for ZNF550 About    
    See pathways by source

    SuperPathContained pathways About
    1Gene Expression
    Generic Transcription Pathway0.40
    Gene Expression0.40


    Find genes that share SuperPaths with ZNF550           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Reactome Pathway for ZNF550
        Generic Transcription Pathway


        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for ZNF550
    Interactions:

        Search GeneGlobe Interaction Network for ZNF550

    Gene Ontology (GO): 2 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-templated IEA--
    GO:0006355regulation of transcription, DNA-templated IEA--

    Find genes that share ontologies with ZNF550           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for ZNF550 (ZN550)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for ZNF550 gene (6 alternative transcripts): 
    NM_001039654.1  NM_153231.2  NM_001277090.1  NM_001277091.1  NM_001277092.1  NM_001277093.1  

    Unigene Cluster for ZNF550:

    Zinc finger protein 550
    Hs.180257  [show with all ESTs]
    Unigene Representative Sequence: NM_001277090
    8 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000601415 ENST00000457177(uc002qpd.3) ENST00000376230(uc010eue.2)
    ENST00000447310(uc002qpc.3) ENST00000344222 ENST00000506609 ENST00000595560
    ENST00000325134(uc002qpe.1)
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      QuantiFast Probe-based Assays in human, mouse, rat ZNF550

    Additional mRNA sequence: 

    AK122867.1 AK312802.1 AL833214.1 

    5 DOTS entries:

    DT.452389  DT.91865600  DT.100814829  DT.95296757  DT.95244737 

    Selected AceView cDNA sequences (see all 62):

    CN480571 AI215417 H85418 BX115353 AL833214 BU621820 BM725868 AA370511 
    BM684850 AI114826 AA744129 AW295604 BM677984 BM929807 AA406399 AA863456 
    CA407295 BU634333 AA370512 BF111555 NM_153231 AK122867 AW188711 BE886287 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    ZNF550 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AGAAATGTAC
    ZNF550 Expression
    About this image

    ZNF550 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZNF550 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.180257
        Custom PCR Arrays for ZNF550
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    In Situ
    Assay Products:
     

     
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of chordates.

    Orthologs for ZNF550 gene from Selected species (see all 5)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    dog
    (Canis familiaris)
    Mammalia ZNF5501 zinc finger protein 550 84.84(n)
    81.9(a)
      102155260  XM_005616075.1  XP_005616132.1 
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    29(a)
    1 → many
    GL344452.1(42241-44649)
    zebrafish
    (Danio rerio)
    Actinopterygii si:dkey-7j22.36
    CU138542.36
    Uncharacterized protein
    35(a)
    29(a)
    many ↔ many
    many ↔ many
    4(50336373-50347976) ENSDARG00000088640
    Zv9_scaffold3506(185121-205552) ENSDARG00000088627


    ENSEMBL Gene Tree for ZNF550 (if available)
    TreeFam Gene Tree for ZNF550 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZNF550 gene
    ZNF802  ZNF4602  ZNF5992  ZNF5432  ZNF8052  ZNF2642  
    Selected SIMAP similar genes for ZNF550 using alignment to 3 protein entries:     ZN550_HUMAN (see all proteins) (see all similar genes):
    ZNF397    kr-znf3    ZNF83    ZNF264    FIK    KIAA1829
    POM121C    ZNF232    ZNF286B    ZNF599    ZNF78L1    DKFZp686B16128
    ZNF211    ZNF323    ZNF502    ZNF70    ZNF883    ZSCAN16

    Find genes that share paralogs with ZNF550           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for ZNF550 (see all 442)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs116723831,2
    H--58052801(+) TTTTGT/GTATTT 4 -- int14Minor allele frequency- G:0.00NS EA 418
    rs1830297971,2
    --58052819(+) TTCCAA/GTTATC 4 -- int10--------
    rs1883197951,2
    --58052857(+) GAGCTA/CACCAG 4 -- int10--------
    rs1424426081,2
    --58052892(+) CCCACC/TTCCTA 4 -- int10--------
    rs1932827321,2
    --58053152(+) AGCAGC/GATAAT 4 -- int10--------
    rs1856113591,2
    --58053245(+) AAATAC/TTTCCA 4 -- ut310--------
    rs455332351,2
    C,F--58053313(+) TGTCAA/GTAGTA 4 -- ut311Minor allele frequency- G:0.02NA 120
    rs1468836531,2
    C--58053354(+) AAATCA/GTATTA 4 -- ut310--------
    rs1888898631,2
    --58053370(+) CAATAA/GAGTAC 4 -- ut310--------
    rs1406578111,2
    --58053394(+) AAATAA/CACAAT 4 -- ut310--------

    HapMap Linkage Disequilibrium report for ZNF550 (58046625 - 58071231 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for ZNF550: --
    Site Specific Mutation Identification with PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing ZNF550
    DNA2.0 Custom Variant and Variant Library Synthesis for ZNF550

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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      --

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for ZNF550 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with ZNF550)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The DNA sequence and biology of human chromosome 19. (PubMed id 15057824)1, 2 Grimwood J.... Lucas S.M. (Nature 2004)
    2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    5. The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (BMC Genomics 2007)
    6. Immunoaffinity profiling of tyrosine phosphorylation in cancer cells. (PubMed id 15592455)1 Rush J.... Comb M.J. (Nat. Biotechnol. 2005)
    7. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (Genome Res. 1996)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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, Kegg, and/or H-InvDB)
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    Entrez Gene: 162972 HGNC: 28643 AceView: ZNF550 Ensembl:ENSG00000251369 euGenes: HUgn162972
    ECgene: ZNF550 H-InvDB: ZNF550

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for ZNF550 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for ZNF550 gene:
    Search GeneIP for patents involving ZNF550

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from genOway)
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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