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    ZNF658 zinc finger protein 658 [ Homo sapiens (human) ]

    Gene ID: 26149, updated on 5-Mar-2024

    Summary

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    Official Symbol
    ZNF658provided by HGNC
    Official Full Name
    zinc finger protein 658provided by HGNC
    Primary source
    HGNC:HGNC:25226
    See related
    Ensembl:ENSG00000274349 MIM:616290; AllianceGenome:HGNC:25226
    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 transcription cis-regulatory region binding activity. Involved in cellular response to zinc ion; negative regulation of transcription, DNA-templated; and ribosome biogenesis. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in skin (RPKM 2.5), thyroid (RPKM 2.1) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    Location:
    9q21.11
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (66900725..66932141)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (78672849..78704251)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (40760700..40792116, complement)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene CNTNAP3 pseudogene 9 Neighboring gene S-phase kinase associated protein 1 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:40713401-40713901 Neighboring gene family with sequence similarity 74 member A3 Neighboring gene SPATA31 subfamily A member 3

    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
    • 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. Genomic Characterization of the Zinc Transcriptional Regulatory Element Reveals Potential Functional Roles of ZNF658. Francis M, et al. Biol Trace Elem Res, 2019 Dec. PMID 30734197, Free PMC Article
    2. The zinc finger protein ZNF658 regulates the transcription of genes involved in zinc homeostasis and affects ribosome biogenesis through the zinc transcriptional regulatory element. Ogo OA, et al. Mol Cell Biol, 2015 Mar. PMID 25582195, Free PMC Article
    3. A whole genome screen for HIV restriction factors. Liu L, et al. Retrovirology, 2011 Nov 14. PMID 22082156, Free PMC Article
    4. DNA sequence and analysis of human chromosome 9. Humphray SJ, et al. Nature, 2004 May 27. PMID 15164053, Free PMC Article
    5. The sequence of the human genome. Venter JC, et al. Science, 2001 Feb 16. PMID 11181995

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Genomic Characterization of the Zinc Transcriptional Regulatory Element Reveals Potential Functional Roles of ZNF658
      Title: Genomic Characterization of the Zinc Transcriptional Regulatory Element Reveals Potential Functional Roles of ZNF658.
    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

    HIV-1 interactions

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    Replication interactions

    Interaction Pubs
    Knockdown of zinc finger protein 658 (ZNF658) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ32813, MGC35232, DKFZp572C163

    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 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 transcription cis-regulatory region binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cellular response to zinc ion IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    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
    		  
    involved_in ribosome biogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein 658

    NCBI Reference Sequences (RefSeq)

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    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_001317916.2 → NP_001304845.1  zinc finger protein 658

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the functional protein. Both variants 1 and 2 encode the same protein.
      Source sequence(s)
      AK292150, AL110217, AL353770, BX664608, DA103495
      Consensus CDS
      CCDS75846.1
      UniProtKB/Swiss-Prot
      Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02
      Related
      ENSP00000482540.1, ENST00000612867.4
      Conserved Domains (5) summary
      smart00349
      Location:8 → 68
      KRAB; krueppel associated box
      COG5048
      Location:628 → 1044
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:940 → 960
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:8 → 47
      KRAB; KRAB box
      pfam13465
      Location:1009 → 1033
      zf-H2C2_2; Zinc-finger double domain

    2. NM_033160.7 → NP_149350.3  zinc finger protein 658

      See identical proteins and their annotated locations for NP_149350.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
      Source sequence(s)
      AK057375, AL110217, AL353770, BX664608, DA103495
      Consensus CDS
      CCDS75846.1
      UniProtKB/Swiss-Prot
      Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02
      Related
      ENSP00000482447.1, ENST00000621410.5
      Conserved Domains (5) summary
      smart00349
      Location:8 → 68
      KRAB; krueppel associated box
      COG5048
      Location:628 → 1044
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:940 → 960
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:8 → 47
      KRAB; KRAB box
      pfam13465
      Location:1009 → 1033
      zf-H2C2_2; Zinc-finger double domain

    RNA

    1. NR_134255.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks a 5' exon and contains two alternate exons in the 3' terminus, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AL353770, BC031626, BX664608
      Related
      ENST00000622180.4

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      66900725..66932141
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047423212.1 → XP_047279168.1  zinc finger protein 658 isoform X1

      UniProtKB/Swiss-Prot
      Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02

    2. XM_005272515.6 → XP_005272572.1  zinc finger protein 658 isoform X1

      See identical proteins and their annotated locations for XP_005272572.1

      UniProtKB/Swiss-Prot
      Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02
      Conserved Domains (5) summary
      smart00349
      Location:8 → 68
      KRAB; krueppel associated box
      COG5048
      Location:628 → 1044
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:940 → 960
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:8 → 47
      KRAB; KRAB box
      pfam13465
      Location:1009 → 1033
      zf-H2C2_2; Zinc-finger double domain

    3. XM_011545679.4 → XP_011543981.1  zinc finger protein 658 isoform X1

      See identical proteins and their annotated locations for XP_011543981.1

      UniProtKB/Swiss-Prot
      Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02
      Conserved Domains (5) summary
      smart00349
      Location:8 → 68
      KRAB; krueppel associated box
      COG5048
      Location:628 → 1044
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:940 → 960
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam01352
      Location:8 → 47
      KRAB; KRAB box
      pfam13465
      Location:1009 → 1033
      zf-H2C2_2; Zinc-finger double domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      78672849..78704251
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054362706.1 → XP_054218681.1  zinc finger protein 658 isoform X1

      UniProtKB/Swiss-Prot
      Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02

    2. XM_054362704.1 → XP_054218679.1  zinc finger protein 658 isoform X1

      UniProtKB/Swiss-Prot
      Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02

    3. XM_054362705.1 → XP_054218680.1  zinc finger protein 658 isoform X1

      UniProtKB/Swiss-Prot
      Q5TYW1, Q6PIP3, Q96M55, Q9H9S6, Q9UG02
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5TYW1.2 GenPept UniProtKB/Swiss-Prot:Q5TYW1

    Gene LinkOut

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

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