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    VRK1 VRK serine/threonine kinase 1 [ Homo sapiens (human) ]

    Gene ID: 7443, updated on 10-Dec-2024

    Summary

    Official Symbol
    VRK1provided by HGNC
    Official Full Name
    VRK serine/threonine kinase 1provided by HGNC
    Primary source
    HGNC:HGNC:12718
    See related
    Ensembl:ENSG00000100749 MIM:602168; AllianceGenome:HGNC:12718
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    PCH1; PCH1A; HMNR10
    Summary
    This gene encodes a member of the vaccinia-related kinase (VRK) family of serine/threonine protein kinases. This gene is widely expressed in human tissues and has increased expression in actively dividing cells, such as those in testis, thymus, fetal liver, and carcinomas. Its protein localizes to the nucleus and has been shown to promote the stability and nuclear accumulation of a transcriptionally active p53 molecule and, in vitro, to phosphorylate Thr18 of p53 and reduce p53 ubiquitination. This gene, therefore, may regulate cell proliferation. This protein also phosphorylates histone, casein, and the transcription factors ATF2 (activating transcription factor 2) and c-JUN. [provided by RefSeq, Jul 2008]
    Expression
    Broad expression in bone marrow (RPKM 15.9), testis (RPKM 12.9) and 23 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See VRK1 in Genome Data Viewer
    Location:
    14q32.2
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (96797382..96881609)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (91029172..91113426)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (97263719..97347946)

    Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370645 Neighboring gene NANOG hESC enhancer GRCh37_chr14:97142464-97143129 Neighboring gene NANOG hESC enhancer GRCh37_chr14:97160138-97160738 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8990 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8991 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:97207194-97207694 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6057 Neighboring gene long intergenic non-protein coding RNA 2299 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:97221641-97222451 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8992 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6058 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:97264045-97264576 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8993 Neighboring gene long intergenic non-protein coding RNA 618 Neighboring gene MPRA-validated peak2247 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:97455145-97455646 Neighboring gene uncharacterized LOC124903376

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    Associated conditions

    Description Tests
    Neuronopathy, distal hereditary motor, autosomal recessive 10
    MedGen: C5882703 OMIM: 620542 GeneReviews: Not available
    Compare labs
    Pontocerebellar hypoplasia type 1A
    MedGen: C1843504 OMIM: 607596 GeneReviews: Not available
    Compare labs

    EBI GWAS Catalog

    Description
    Duffy-null-associated low neutrophil counts influence HIV-1 susceptibility in high-risk South African black women.
    EBI GWAS Catalog
    Genome wide association study of SNP-, gene-, and pathway-based approaches to identify genes influencing susceptibility to Staphylococcus aureus infections.
    EBI GWAS Catalog
    Heritability and genetic association analysis of cognition in the Diabetes Heart Study.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC117401, MGC138280, MGC142070

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables 3-phosphoinositide-dependent protein kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables AMP-activated protein kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-dependent protein kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables Rho-dependent protein serine/threonine kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables eukaryotic translation initiation factor 2alpha kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H2AS1 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H2AS121 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H2AT120 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H2AX kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables histone H2AXS139 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H2BS14 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H2BS36 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H3S10 kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables histone H3S28 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H3S57 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H3T11 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H3T3 kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables histone H3T45 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H3T6 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H4S1 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables nucleosomal DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein kinase binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein serine kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein serine/threonine kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein serine/threonine kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein serine/threonine kinase activity TAS
    Traceable Author Statement
    more info
     
    enables ribosomal protein S6 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in Cajal body organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in DNA damage response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in DNA damage response IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in Golgi disassembly IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chromatin remodeling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in mitotic nuclear membrane disassembly TAS
    Traceable Author Statement
    more info
     
    involved_in neuron projection development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of protein localization to chromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in protein autophosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in protein phosphorylation TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in regulation of neuron migration ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    located_in Cajal body IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in Golgi stack IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in chromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    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

    Preferred Names
    serine/threonine-protein kinase VRK1
    Names
    vaccinia related kinase 1
    vaccinia virus B1R-related kinase 1
    NP_001397980.1
    NP_001397982.1
    NP_003375.1
    XP_016877114.1
    XP_016877115.1
    XP_047287708.1
    XP_047287709.1
    XP_047287710.1
    XP_047287711.1
    XP_047287712.1
    XP_054232665.1
    XP_054232666.1
    XP_054232667.1
    XP_054232668.1
    XP_054232669.1
    XP_054232670.1

    NCBI Reference Sequences (RefSeq)

    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.

    Genomic

    1. NG_016293.1 RefSeqGene

      Range
      5036..89263
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001411051.1NP_001397980.1  serine/threonine-protein kinase VRK1 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AL133168
      Consensus CDS
      CCDS91928.1
      UniProtKB/TrEMBL
      A0A7P0T952, A0A7P0Z3Z7, H0YJF7
      Related
      ENSP00000451412.2, ENST00000553683.2
    2. NM_001411053.1NP_001397982.1  serine/threonine-protein kinase VRK1 isoform 3

      Status: REVIEWED

      Source sequence(s)
      AL133168
      Consensus CDS
      CCDS91929.1
      UniProtKB/TrEMBL
      A0A7P0T838, A0A7P0T9E5, A0A7P0TA65, A8K245
      Related
      ENSP00000504933.1, ENST00000681195.1
    3. NM_003384.3NP_003375.1  serine/threonine-protein kinase VRK1 isoform 1

      See identical proteins and their annotated locations for NP_003375.1

      Status: REVIEWED

      Source sequence(s)
      AL133168, BU535261, CA436761
      Consensus CDS
      CCDS9947.1
      UniProtKB/Swiss-Prot
      Q3SYL2, Q99986
      UniProtKB/TrEMBL
      A0A7P0T9E5, A8K245
      Related
      ENSP00000216639.3, ENST00000216639.8
      Conserved Domains (1) summary
      cd14122
      Location:26326
      STKc_VRK1; Catalytic domain of the Serine/Threonine protein kinase, Vaccinia Related Kinase 1

    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_000014.9 Reference GRCh38.p14 Primary Assembly

      Range
      96797382..96881609
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047431755.1XP_047287711.1  serine/threonine-protein kinase VRK1 isoform X3

      UniProtKB/TrEMBL
      A0A7P0T952, A0A7P0Z3Z7
    2. XM_017021626.3XP_016877115.1  serine/threonine-protein kinase VRK1 isoform X6

      UniProtKB/TrEMBL
      A0A7P0T814, A0A7P0TB08
      Related
      ENSP00000506517.1, ENST00000679736.1
    3. XM_047431752.1XP_047287708.1  serine/threonine-protein kinase VRK1 isoform X1

      UniProtKB/TrEMBL
      A0A7P0T952, A0A7P0Z3Z7
    4. XM_017021625.2XP_016877114.1  serine/threonine-protein kinase VRK1 isoform X4

      UniProtKB/TrEMBL
      A0A7P0T9E5, A8K245
    5. XM_047431754.1XP_047287710.1  serine/threonine-protein kinase VRK1 isoform X2

      UniProtKB/TrEMBL
      A0A7P0T952, A0A7P0Z3Z7
    6. XM_047431756.1XP_047287712.1  serine/threonine-protein kinase VRK1 isoform X5

      UniProtKB/TrEMBL
      A0A7P0T9E5, A0A7P0TA65, A8K245
    7. XM_047431753.1XP_047287709.1  serine/threonine-protein kinase VRK1 isoform X1

      UniProtKB/TrEMBL
      A0A7P0T952, A0A7P0Z3Z7

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060938.1 Alternate T2T-CHM13v2.0

      Range
      91029172..91113426
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054376692.1XP_054232667.1  serine/threonine-protein kinase VRK1 isoform X3

      UniProtKB/TrEMBL
      A0A7P0T952, A0A7P0Z3Z7
    2. XM_054376695.1XP_054232670.1  serine/threonine-protein kinase VRK1 isoform X6

      UniProtKB/TrEMBL
      A0A7P0T814, A0A7P0TB08
    3. XM_054376690.1XP_054232665.1  serine/threonine-protein kinase VRK1 isoform X1

      UniProtKB/TrEMBL
      A0A7P0T952, A0A7P0Z3Z7
    4. XM_054376693.1XP_054232668.1  serine/threonine-protein kinase VRK1 isoform X4

      UniProtKB/TrEMBL
      A0A7P0T9E5, A8K245
    5. XM_054376691.1XP_054232666.1  serine/threonine-protein kinase VRK1 isoform X2

      UniProtKB/TrEMBL
      A0A7P0T952, A0A7P0Z3Z7
    6. XM_054376694.1XP_054232669.1  serine/threonine-protein kinase VRK1 isoform X5

      UniProtKB/TrEMBL
      A0A7P0T9E5, A0A7P0TA65, A8K245