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

Gene ID: 1460, updated on 12-Sep-2021

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
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
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Genomic context

See CSNK2B in Genome Data Viewer
Location:
6p21.33
Exon count:
7
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (31666080..31670067)
105.20201022 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 apolipoprotein M Neighboring gene chromosome 6 open reading frame 47 Neighboring gene G-patch domain and ankyrin repeats 1 Neighboring gene lymphocyte antigen 6 family member G5B Neighboring gene lymphocyte antigen 6 family member G5C

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
Common variants associated with general and MMR vaccine-related febrile seizures.
GeneReviews: Not available
Poirier-Bienvenu neurodevelopmental syndrome
MedGen: C5231482 OMIM: 618732 GeneReviews: Not available
Compare labs
Risk HLA-DQA1 and PLA(2)R1 alleles in idiopathic membranous nephropathy.
GeneReviews: Not available

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

Homology

Clone Names

  • MGC138222, MGC138224

Gene Ontology Provided by GOA

Function Evidence Code Pubs
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
PubMed 
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 ribonucleoprotein complex binding IEA
Inferred from Electronic Annotation
more info
 
enables signaling receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables transcription factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in chromatin IEA
Inferred from Electronic Annotation
more info
 
located_in cilium IEA
Inferred from Electronic Annotation
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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 nuclear matrix IEA
Inferred from Electronic Annotation
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
PubMed 
part_of protein kinase CK2 complex IDA
Inferred from Direct Assay
more info
PubMed 
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)

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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_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/Swiss-Prot
    P67870
    UniProtKB/TrEMBL
    A0A1U9X7J2
    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
    P67870
    UniProtKB/TrEMBL
    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: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

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

Reference GRCh38.p13 ALT_REF_LOCI_2

Genomic

  1. NT_113891.3 Reference GRCh38.p13 ALT_REF_LOCI_2

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

Reference GRCh38.p13 ALT_REF_LOCI_3

Genomic

  1. NT_167245.2 Reference GRCh38.p13 ALT_REF_LOCI_3

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

Reference GRCh38.p13 ALT_REF_LOCI_4

Genomic

  1. NT_167246.2 Reference GRCh38.p13 ALT_REF_LOCI_4

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

Reference GRCh38.p13 ALT_REF_LOCI_5

Genomic

  1. NT_167247.2 Reference GRCh38.p13 ALT_REF_LOCI_5

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

Reference GRCh38.p13 ALT_REF_LOCI_6

Genomic

  1. NT_167248.2 Reference GRCh38.p13 ALT_REF_LOCI_6

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

Reference GRCh38.p13 ALT_REF_LOCI_7

Genomic

  1. NT_167249.2 Reference GRCh38.p13 ALT_REF_LOCI_7

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