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    ZNF580 zinc finger protein 580 [ Homo sapiens (human) ]

    Gene ID: 51157, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ZNF580provided by HGNC
    Official Full Name
    zinc finger protein 580provided by HGNC
    Primary source
    HGNC:HGNC:29473
    See related
    Ensembl:ENSG00000213015 MIM:617888; AllianceGenome:HGNC:29473
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    Enables sequence-specific double-stranded DNA binding activity. Involved in several processes, including cellular response to hydrogen peroxide; positive regulation of cell migration; and positive regulation of interleukin-8 production. Located in nucleoplasm. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in fat (RPKM 10.9), prostate (RPKM 9.2) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZNF580 in Genome Data Viewer
    Location:
    19q13.42
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (55641002..55643470)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (58736919..58739384)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (56152368..56154836)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:56135913-56136412 Neighboring gene zinc finger protein 784 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15100 Neighboring gene uncharacterized LOC107983998 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15101 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:56146823-56146990 Neighboring gene zinc finger protein 581 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11051 Neighboring gene Sharpr-MPRA regulatory region 1979 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15102 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11053 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:56155949-56156914 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11055 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11056 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15105 Neighboring gene coiled-coil domain containing 106 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15106 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11057 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11058 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11059 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15107 Neighboring gene U2 small nuclear RNA auxiliary factor 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Suppression of zinc finger protein 580 by high oxLDL/LDL-ratios is followed by enhanced expression of endothelial IL-8. Hoffmann CJ, et al. Atherosclerosis, 2011 May. PMID 21310414
    2. ZNF580, a novel C2H2 zinc-finger transcription factor, interacts with the TGF-β signal molecule Smad2. Luo Y, et al. Cell Biol Int, 2011 Nov. PMID 21599657
    3. Sphingosine-1-phosphate induces human endothelial VEGF and MMP-2 production via transcription factor ZNF580: novel insights into angiogenesis. Sun HY, et al. Biochem Biophys Res Commun, 2010 May 7. PMID 20382120
    4. ZNF580 mediates eNOS expression and endothelial cell migration/proliferation via the TGF-β1/ALK5/Smad2 pathway. Luo Y, et al. Mol Cell Biochem, 2014 Aug. PMID 24771066
    5. ROS-induced ZNF580 expression: a key role for H2O2/NF-κB signaling pathway in vascular endothelial inflammation. DangLi R, et al. Mol Cell Biochem, 2012 Jan. PMID 21830064

    See all (21) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. These results suggest that ZNF580 mediates eNOS expression and endothelial cell migration/proliferation via the TGF-b1/ALK5/Smad2 pathway, and thus plays a crucial role in vascular endothelial cells.
      Title: ZNF580 mediates eNOS expression and endothelial cell migration/proliferation via the TGF-β1/ALK5/Smad2 pathway.
    2. H2O2 upregulates the expression of ZNF580 via the NF-kappaB signaling pathway, and overexpression of ZNF580 plays a critical role in augmenting the release of pro-inflammatory cytokine IL-8.
      Title: ROS-induced ZNF580 expression: a key role for H2O2/NF-κB signaling pathway in vascular endothelial inflammation.
    3. ZNF580 is a binding partner of Smad2 and is involved in the signal transduction of the transforming growth factor-beta signalling pathway.
      Title: ZNF580, a novel C2H2 zinc-finger transcription factor, interacts with the TGF-β signal molecule Smad2.
    4. ZNF580 is a novel factor in the lipoprotein-dependent regulation of endothelial IL-8 expression and monocyte arrest.
      Title: Suppression of zinc finger protein 580 by high oxLDL/LDL-ratios is followed by enhanced expression of endothelial IL-8.
    5. These results elucidate the important role that ZNF580 plays in the process of migration and proliferation of endothelial cells, which provides a foundation for a novel approach to regulate angiogenesis.
      Title: Sphingosine-1-phosphate induces human endothelial VEGF and MMP-2 production via transcription factor ZNF580: novel insights into angiogenesis.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific ISA
    Inferred from Sequence Alignment
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables sequence-specific double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cellular response to hydrogen peroxide IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in chemotaxis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of endothelial cell migration IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of endothelial cell proliferation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of gene expression IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of interleukin-8 production IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of leukocyte chemotaxis IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in chromatin ISA
    Inferred from Sequence Alignment
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    zinc finger protein 580
    Names
    LDL-induced EC protein

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001163423.2 → NP_001156895.1  zinc finger protein 580

      See identical proteins and their annotated locations for NP_001156895.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1, 2, and 3 all encode the same protein.
      Source sequence(s)
      AC008735, AF184939, BM793208
      Consensus CDS
      CCDS12931.1
      UniProtKB/Swiss-Prot
      B2RC05, Q9NPP7, Q9UK33
      Related
      ENSP00000446126.1, ENST00000545125.1
      Conserved Domains (2) summary
      sd00017
      Location:94 → 114
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:120 → 142
      zf-C2H2; Zinc finger, C2H2 type

    2. NM_016202.2 → NP_057286.1  zinc finger protein 580

      See identical proteins and their annotated locations for NP_057286.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2, and 3 all encode the same protein.
      Source sequence(s)
      AF184939, BM700178, BM710177, BQ477323
      Consensus CDS
      CCDS12931.1
      UniProtKB/Swiss-Prot
      B2RC05, Q9NPP7, Q9UK33
      Related
      ENSP00000443957.1, ENST00000543039.2
      Conserved Domains (2) summary
      sd00017
      Location:94 → 114
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:120 → 142
      zf-C2H2; Zinc finger, C2H2 type

    3. NM_207115.2 → NP_996998.1  zinc finger protein 580

      See identical proteins and their annotated locations for NP_996998.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents use of an alternate promoter and 5' UTR, compared to variant 1. Variants 1, 2, and 3 all encode the same protein.
      Source sequence(s)
      AC008735, AF184939, AL359054, BU179609
      Consensus CDS
      CCDS12931.1
      UniProtKB/Swiss-Prot
      B2RC05, Q9NPP7, Q9UK33
      Related
      ENSP00000320050.4, ENST00000325333.10
      Conserved Domains (2) summary
      sd00017
      Location:94 → 114
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:120 → 142
      zf-C2H2; Zinc finger, C2H2 type

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      55641002..55643470
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      58736919..58739384
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9UK33.1 GenPept UniProtKB/Swiss-Prot:Q9UK33

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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