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ZNF598 Gene

protein-coding   GIFtS: 50
GCID: GC16M002047

Zinc Finger Protein 598

  See related diseases
at  

(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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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Zinc Finger Protein 5981 2

External Ids:    HGNC: 280791   Entrez Gene: 908502   Ensembl: ENSG000001679627   UniProtKB: Q86UK73   
ORGUL members:         

Export aliases for ZNF598 gene to outside databases

Previous GC identifers: GC16M001989 GC16M001990 GC16M001971


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for ZNF598 Gene:
Zinc-finger proteins bind nucleic acids and play important roles in various cellular functions, including cell
proliferation, differentiation, and apoptosis. This protein and Grb10-interacting GYF protein 2 have been
identified as a components of the mammalian 4EHP (m4EHP) complex. The complex is thought to function as a
translation repressor in embryonic development. (provided by RefSeq, Oct 2012)

GeneCards Summary for ZNF598 Gene:
ZNF598 (zinc finger protein 598) is a protein-coding gene. Diseases associated with ZNF598 include malaria, and hiv-1.




(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:
NC_000016.10  NC_018927.2  NT_010393.17  
Regulatory elements:
   Regulatory transcription factor binding sites in the ZNF598 gene promoter:
         Egr-3   USF1   Elk-1   Pax-5   AP-1   Nkx2-5   GATA-2   AREB6   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidZNF598 promoter sequence
   Search Chromatin IP Primers for ZNF598

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ZNF598


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

Entrez Gene cytogenetic band: 16p13.3   Ensembl cytogenetic band:  16p13.3   HGNC cytogenetic band: 16p13.3

ZNF598 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ZNF598 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16M002047:  view genomic region     (about GC identifiers)

Start:
2,047,655 bp from pter      End:
2,059,824 bp from pter
Size:
12,170 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: ZN598_HUMAN, Q86UK7 (See protein sequence)
Recommended Name: Zinc finger protein 598  
Size: 904 amino acids; 98637 Da
Sequence caution: Sequence=BAB15777.1; Type=Erroneous initiation;
Secondary accessions: Q8IW49 Q8N3D9 Q96FG3 Q9H7J3
Alternative splicing: 4 isoforms:  Q86UK7-1   Q86UK7-2   Q86UK7-3   Q86UK7-4   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for ZNF598: NX_Q86UK7

Explore proteomics data for ZNF598 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys263
  • Modification sites at PhosphoSitePlus

  • See ZNF598 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_835461.2  
    ENSEMBL proteins: 
     ENSP00000455882   ENSP00000455308   ENSP00000456128   ENSP00000455292   ENSP00000411409  

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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:
     IPR001841 Znf_RING
     IPR013083 Znf_RING/FYVE/PHD
     IPR015880 Znf_C2H2-like
     IPR007087 Znf_C2H2

    Graphical View of Domain Structure for InterPro Entry Q86UK7

    ProtoNet protein and cluster: Q86UK7

    1 Blocks protein domain: IPB001841 Zn-finger

    UniProtKB/Swiss-Prot: ZN598_HUMAN, Q86UK7
    Similarity: Contains 1 C2H2-type zinc finger
    Similarity: Contains 1 RING-type zinc finger


    ZNF598 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, 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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 4 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
    GO:0008270zinc ion binding IEA--
    GO:0044822poly(A) RNA binding IDA--
    GO:0046872metal ion binding ----
         
    ZNF598 for ontologies           About GeneDecksing


    Animal Models:
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    miRNA
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    miRTarBase miRNAs that target ZNF598:
    hsa-mir-17-5p (MIRT051039), hsa-mir-769-3p (MIRT039063), hsa-mir-34a-5p (MIRT047372), hsa-mir-20a-5p (MIRT050619), hsa-mir-744-5p (MIRT037480), hsa-mir-335-5p (MIRT017723), hsa-mir-106b-5p (MIRT044306), hsa-mir-331-3p (MIRT043538), hsa-mir-106a-5p (MIRT048355), hsa-mir-16-5p (MIRT031687)

    Block miRNA regulation of human, mouse, rat ZNF598 using miScript Target Protectors
    3 qRT-PCR Assays for microRNAs that regulate ZNF598:
    hsa-miR-345 hsa-miR-466 hsa-miR-3941
    SwitchGear 3'UTR luciferase reporter plasmidZNF598 3' UTR sequence
    Inhib. RNA
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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 COMPARTMENTS: 

    CompartmentConfidence
    nucleus3
    cytosol2
    plasma membrane2

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus ----

    ZNF598 for ontologies           About GeneDecksing


    (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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for ZNF598
    Interactions:

        Search GeneGlobe Interaction Network for ZNF598

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for ZNF598 (Q86UK72, 3 ENSP000004114094) via UniProtKB, MINT, STRING, and/or I2D (see all 60)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    DBN1Q166433, ENSP000002923854I2D: score=3 STRING: ENSP00000292385
    CDAP323203, ENSP000003642124I2D: score=1 STRING: ENSP00000364212
    ZIC4Q8N9L13, ENSP000003725534I2D: score=2 STRING: ENSP00000372553
    DIS3LQ8TF462, ENSP000003217114MINT-7993837 STRING: ENSP00000321711
    FAM178BQ8IXR53I2D: score=2 
    About this table

    Gene Ontology (GO): 1 biological process term:    About this table

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

    ZNF598 for ontologies           About GeneDecksing



    (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 ZNF598 (ZN598)



    (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,
    Conferences by KenesGroup, 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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for ZNF598 gene: 
    NM_178167.3  

    Unigene Cluster for ZNF598:

    Zinc finger protein 598
    Hs.343828  [show with all ESTs]
    Unigene Representative Sequence: AK024487
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000562988(uc002coe.1) ENST00000563630 ENST00000565396 ENST00000567008
    ENST00000562103 ENST00000564556 ENST00000564824 ENST00000561787 ENST00000567625
    ENST00000431526(uc002cof.1)
    miRNA
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    3 qRT-PCR Assays for microRNAs that regulate ZNF598:
    hsa-miR-345 hsa-miR-466 hsa-miR-3941
    SwitchGear 3'UTR luciferase reporter plasmidZNF598 3' UTR sequence
    Inhib. RNA
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      QuantiTect SYBR Green Assays in human, mouse, rat ZNF598
      QuantiFast Probe-based Assays in human, mouse, rat ZNF598

    Additional mRNA sequence: 

    AK024487.1 AL834428.1 BC010990.2 BC029270.1 BC041015.1 BC050477.1 

    8 DOTS entries:

    DT.91759334  DT.95099450  DT.100790107  DT.100790110  DT.100790108  DT.40262530  DT.120655029  DT.91868247 

    14 AceView cDNA sequences:

    BC041015 BC029270 AK024487 NM_178167 BC050477 AW956950 BC010990 BG987725 
    AL834428 BQ300013 BF847258 BE711308 BF880653 BX397688 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for ZNF598 (see all 8)    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5a · 5b · 5c · 5d ^ 6a · 6b · 6c ^ 7 ^ 8a · 8b ^ 9a · 9b · 9c · 9d ^ 10a · 10b ^ 11 ^ 12a · 12b · 12c ·
    SP1:                                                              -                                                           -                                 
    SP2:                                                              -           -                 -                             -                                 
    SP3:                                                              -                                                           -                                 
    SP4:                                                              -                             -                                                               
    SP5:                                                                                            -                                                               

    ExUns: 12d
    SP1:      
    SP2:      
    SP3:      
    SP4:      
    SP5:      


    ECgene alternative splicing isoforms for ZNF598

    (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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    ZNF598 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTTCAAGAAT
    ZNF598 Expression
    About this image


    ZNF598 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 7) fully expand
     
     Brain (Nervous System)    fully expand to see all 4 entries
             Cerebral Cortex
     
     Trophoblast (Extraembryonic Tissues)
             Trophoblast Cells Trophoblast
     
     Ovary (Reproductive System)
             Oviduct
     
     Pancreas (Endocrine System)
             Islets of Langerhans
     
     Testis (Reproductive System)
             Leydig Cells Testis Interstitium
    ZNF598 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ZNF598 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.343828
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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 animals and fungi.

    Orthologs for ZNF598 gene from Selected species (see all 16)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Zfp5981 , 5 zinc finger protein 5981, 5 80.81(n)1
    81.07(a)1
      17 (12.46 cM)5
    2137531  NM_183149.11  NP_898972.11 
     246697525 
    chicken
    (Gallus gallus)
    Aves ZNF5981 zinc finger protein 598 63.53(n)
    63.89(a)
      416549  XM_414850.4  XP_414850.2 
    lizard
    (Anolis carolinensis)
    Reptilia ZNF5986
    zinc finger protein 598
    61(a)
    1 ↔ 1
    GL343650.1(87337-102614)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.208912 Xenopus laevis transcribed sequence 81.63(n)    BQ897451.1 
    zebrafish
    (Danio rerio)
    Actinopterygii BC057520.12   -- 77.48(n)    BC057520.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG114146
    --
    30(a)
    1 ↔ 1
    2R(20449132-20452581)
    worm
    (Caenorhabditis elegans)
    Secernentea C52E12.16
    Protein C52E12.1 (C52E12.1) mRNA, complete cds
    19(a)
    1 ↔ 1
    II(7025802-7030162) WBGene00016888
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes --
    Protein of unknown function that may interact with...
    21(a)
    1 ↔ 1
    IV(1000104-1002023) YDR266C


    ENSEMBL Gene Tree for ZNF598 (if available)
    TreeFam Gene Tree for ZNF598 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for ZNF598 gene

    ZNF598 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for ZNF598
    PGOHUM00000236242


    (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 ZNF598 (see all 521)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 16 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs114133821,2
    C--1974910(+) CTCAC-/A/    
       AAAAA
    AAAAA
    1 -- int10--------
    rs80567271,2
    C,F,A,H--1982303(+) TCCCAG/CTGTCC 1 -- ds500112Minor allele frequency- C:0.48NA WA CSA EA 375
    rs1383067841,2
    --1982312(+) CCAAGA/TCCTCA 1 -- ds50010--------
    rs1865614341,2
    --1982360(+) ACCCAA/GCCCCT 1 -- ds50010--------
    rs1909652871,2
    C--1982367(+) CCCTCC/TGCAGC 1 -- ds50010--------
    rs1412924581,2
    C--1982383(+) ACCTTC/G/TGCTCT 1 -- ds50010--------
    rs1507591841,2
    --1982462(+) TATTCC/TTGGCC 1 -- ds50010--------
    rs1809633471,2
    --1982472(+) CTTATC/TTGAAT 1 -- ds50010--------
    rs2019128851,2
    C--1982490(-) TGCTCA/TAAACA 1 -- ds50010--------
    rs1853896041,2
    --1982577(+) CAGATA/TATTAC 1 -- ds50010--------

    HapMap Linkage Disequilibrium report for ZNF598 (2047655 - 2059824 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for ZNF598 (see all 31):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2422427CNV Duplication17116639
    dgv336n27CNV Loss19166990
    dgv2545n71CNV Loss21882294
    dgv2546n71CNV Loss21882294
    nsv905048CNV Loss21882294
    nsv905101CNV Loss21882294
    dgv2551n71CNV Loss21882294
    dgv2540n71CNV Loss21882294
    nsv905102CNV Loss21882294
    nsv523037CNV Loss19592680

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing ZNF598
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    2 diseases for ZNF598:    
    About MalaCards
    malaria    hiv-1


    ZNF598 for disorders           About GeneDecksing


    Export disorders for ZNF598 gene to outside databases

    (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 ZNF598 gene, integrated from 10 sources (see all 20):
    (articles sorted by number of sources associating them with ZNF598)
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    1. Immunoaffinity profiling of tyrosine phosphorylation in cancer cells. (PubMed id 15592455)1, 2 Rush J.... Comb M.J. (Nat. Biotechnol. 2005)
    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. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (Cell 2012)
    5. Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass. (PubMed id 23000965)1 Povlsen L.K....Choudhary C. (Nat. Cell Biol. 2012)
    6. A novel 4EHP-GIGYF2 translational repressor complex is essential for mammalian development. (PubMed id 22751931)1 Morita M....Sonenberg N. (Mol. Cell. Biol. 2012)
    7. Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (amp 2012)
    8. A catalogue of putative HIV-1 protease host cell substrates. (PubMed id 22944692)1 Impens F....Gevaert K. (Biol. Chem. 2012)
    9. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (BMC Syst. Biol. 2011)
    10. Activity-based chemical proteomics accelerates inhibitor development for deubiquitylating enzymes. (PubMed id 22118674)1 Altun M....Kessler B.M. (amp 2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 90850 HGNC: 28079 AceView: ZNF598 Ensembl:ENSG00000167962 euGenes: HUgn90850
    ECgene: ZNF598 H-InvDB: ZNF598

    (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 ZNF598 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 ZNF598 gene:
    Search GeneIP for patents involving ZNF598

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



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