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    CSNK2B casein kinase 2 beta [ Homo sapiens (human) ]

    Gene ID: 1460, updated on 3-Dec-2023

    Summary

    Official Symbol
    CSNK2Bprovided by HGNC
    Official Full Name
    casein kinase 2 betaprovided by HGNC
    Primary source
    HGNC:HGNC:2460
    See related
    Ensembl:ENSG00000204435 MIM:115441; AllianceGenome:HGNC:2460
    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
    G5A; CK2B; CK2N; Ckb1; Ckb2; CSK2B; POBINDS
    Summary
    This gene encodes the beta subunit of casein kinase II, a ubiquitous protein kinase which regulates metabolic pathways, signal transduction, transcription, translation, and replication. The enzyme is composed of three subunits, alpha, alpha prime and beta, which form a tetrameric holoenzyme. The alpha and alpha prime subunits are catalytic, while the beta subunit serves regulatory functions. The enzyme localizes to the endoplasmic reticulum and the Golgi apparatus. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2013]
    Expression
    Ubiquitous expression in testis (RPKM 91.5), skin (RPKM 69.4) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See CSNK2B in Genome Data Viewer
    Location:
    6p21.33
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (31666080..31670067)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (31519114..31523101)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (31633857..31637844)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene BAG cochaperone 6 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31619887-31620466 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31620467-31621046 Neighboring gene apolipoprotein M Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31627653-31628190 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31628191-31628727 Neighboring gene chromosome 6 open reading frame 47 Neighboring gene G-patch domain and ankyrin repeats 1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:31633065-31633659 Neighboring gene lymphocyte antigen 6 family member G5B Neighboring gene ReSE screen-validated silencer GRCh37_chr6:31647890-31648097 Neighboring gene lymphocyte antigen 6 family member G5C Neighboring gene uncharacterized LOC105375019

    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
    Poirier-Bienvenu neurodevelopmental syndrome
    MedGen: C5231482 OMIM: 618732 GeneReviews: Not available
    Compare labs

    EBI GWAS Catalog

    Description
    Common variants associated with general and MMR vaccine-related febrile seizures.
    EBI GWAS Catalog
    Risk HLA-DQA1 and PLA(2)R1 alleles in idiopathic membranous nephropathy.
    EBI GWAS Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Rev rev HIV-1 Rev interacting protein, casein kinase 2 beta polypeptide (CSNK2B), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with CSNK2B is decreased by RRE PubMed
    rev Rev activates CK2, an effect hypothesized to promote HIV-1 replication PubMed
    rev phosphorylation of Rev is dependent on the beta subunit of CK2 PubMed
    rev amino acids 35-50 of Rev are involved with electrostatic interactions with CK2 while amino acids 12-24 of Rev are involved with hydrophobic interactions PubMed
    rev CK2 phosphorylates Rev on Serine 5 and Serine 8 PubMed
    rev CK2 modulates the interaction of Rev with nucleolar phosphoprotein B23 by phosphorylating B23 PubMed
    Vpu vpu Phosphorylation of HIV-1 Vpu by casein kinase 2 is required for Vpu-mediated degradation of CD4, regulation of HIV-1 envelope secretion and control of syncytium formation PubMed
    vpu The presence of the casein kinase II phosphorylation sites of HIV-1 Vpu enhances CD4(+) T cell loss in a non-human primate model for HIV-1 infection PubMed
    vpu The HIV-1 Vpu protein is phosphorylated by casein kinase 2 on serine amino acids 52 and 56 PubMed
    matrix gag CK2 has been shown to phosphorylate HIV-1 Matrix in vitro PubMed
    retropepsin gag-pol Purified recombinant HIV-1 protease (rPR) is phosphorylated by casein kinase II, and the activity of rPR is stimulated approximately 2.9-fold as a result of this phosphorylation PubMed
    reverse transcriptase gag-pol Casein kinase II phosphorylates HIV-1 RT p66 and p51 in human cells PubMed
    gag-pol Phosphorylation of HIV-1 RT p66 and p51 by Casein kinase II mediates the stimulation of RNA-dependent DNA polymerase (RDDP) activity in vitro PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Potential readthrough

    Included gene: LY6G5B

    Clone Names

    • MGC138222, MGC138224

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA polymerase II-specific DNA-binding transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein domain specific binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein kinase regulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein kinase regulator activity NAS
    Non-traceable Author Statement
    more info
    PubMed 
    enables protein serine/threonine kinase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    contributes_to protein serine/threonine kinase activity TAS
    Traceable Author Statement
    more info
    PubMed 
    enables protein-macromolecule adaptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables signaling receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in PML body IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of PcG protein complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of chromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in extracellular exosome HDA PubMed 
    located_in extracellular region TAS
    Traceable Author Statement
    more info
     
    located_in ficolin-1-rich granule lumen TAS
    Traceable Author Statement
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus HDA PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    colocalizes_with plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of protein kinase CK2 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of protein kinase CK2 complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of protein kinase CK2 complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    part_of protein kinase CK2 complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of protein kinase CK2 complex NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in secretory granule lumen TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    casein kinase II subunit beta
    Names
    CK II beta
    CSNK2B-LY6G5B-1072
    CSNK2B-LY6G5B-1103
    CSNK2B-LY6G5B-532
    CSNK2B-LY6G5B-560
    CSNK2B-LY6G5B-562
    Casein kinase II beta subunit
    alternative name: G5a, phosvitin
    casein kinase 2, beta polypeptide
    phosvitin
    protein G5a
    NP_001269314.1
    NP_001311.3

    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.

    mRNA and Protein(s)

    1. NM_001282385.2NP_001269314.1  casein kinase II subunit beta isoform 2

      See identical proteins and their annotated locations for NP_001269314.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice junction in the 3' coding sequence compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      BC112017, BQ643177, DB570461
      UniProtKB/TrEMBL
      A0A1U9X7J2, A0A7I2YQ78
      Related
      ENSP00000502967.1, ENST00000677536.1
      Conserved Domains (1) summary
      smart01085
      Location:8188
      CK_II_beta; Casein kinase II regulatory subunit
    2. NM_001320.7NP_001311.3  casein kinase II subunit beta isoform 1

      See identical proteins and their annotated locations for NP_001311.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BC112017, DB570461
      Consensus CDS
      CCDS4712.1
      UniProtKB/Swiss-Prot
      B0UXA9, P07312, P13862, P67870, Q4VX47
      UniProtKB/TrEMBL
      A0A7I2YQ78, N0E4C7
      Related
      ENSP00000365042.3, ENST00000375882.7
      Conserved Domains (1) summary
      smart01085
      Location:8191
      CK_II_beta; Casein kinase II regulatory subunit

    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_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      31666080..31670067
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_2

    Genomic

    1. NT_113891.3 Reference GRCh38.p14 ALT_REF_LOCI_2

      Range
      3143371..3147358
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_3

    Genomic

    1. NT_167245.2 Reference GRCh38.p14 ALT_REF_LOCI_3

      Range
      2913852..2917839
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_4

    Genomic

    1. NT_167246.2 Reference GRCh38.p14 ALT_REF_LOCI_4

      Range
      2971127..2975114
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_5

    Genomic

    1. NT_167247.2 Reference GRCh38.p14 ALT_REF_LOCI_5

      Range
      3007952..3011939
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_6

    Genomic

    1. NT_167248.2 Reference GRCh38.p14 ALT_REF_LOCI_6

      Range
      2921904..2925891
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_7

    Genomic

    1. NT_167249.2 Reference GRCh38.p14 ALT_REF_LOCI_7

      Range
      2965364..2969351
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      31519114..31523101
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)