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

Gene ID: 1460, updated on 13-Aug-2020

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

Genomic context

See CSNK2B in Genome Data Viewer
Location:
6p21.33
Exon count:
7
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (31665880..31670070)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (31632995..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
POIRIER-BIENVENU NEURODEVELOPMENTAL SYNDROME
MedGen: C5231482 OMIM: 618732 GeneReviews: Not available
not available

NHGRI GWAS Catalog

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

Homology

Clone Names

  • MGC138222, MGC138224

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein domain specific binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein kinase regulator activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein kinase regulator activity NAS
Non-traceable Author Statement
more info
PubMed 
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 
ribonucleoprotein complex binding IEA
Inferred from Electronic Annotation
more info
 
signaling receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
adiponectin-activated signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
cellular protein-containing complex assembly NAS
Non-traceable Author Statement
more info
PubMed 
endothelial tube morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
liver regeneration IEA
Inferred from Electronic Annotation
more info
 
macroautophagy TAS
Traceable Author Statement
more info
 
negative regulation of blood vessel endothelial cell migration IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of cell proliferation TAS
Traceable Author Statement
more info
PubMed 
neutrophil degranulation TAS
Traceable Author Statement
more info
 
peptidyl-threonine phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
phosphatidylcholine biosynthetic process TAS
Traceable Author Statement
more info
 
positive regulation of activin receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of pathway-restricted SMAD protein phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
protein folding TAS
Traceable Author Statement
more info
 
regulation of DNA binding NAS
Non-traceable Author Statement
more info
PubMed 
regulation of protein kinase activity IEA
Inferred from Electronic Annotation
more info
 
regulation of signal transduction by p53 class mediator TAS
Traceable Author Statement
more info
 
response to testosterone IEA
Inferred from Electronic Annotation
more info
 
signal transduction TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
colocalizes_with PcG protein complex IDA
Inferred from Direct Assay
more info
PubMed 
chromatin IEA
Inferred from Electronic Annotation
more info
 
cilium IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
extracellular exosome HDA PubMed 
extracellular region TAS
Traceable Author Statement
more info
 
ficolin-1-rich granule lumen TAS
Traceable Author Statement
more info
 
nuclear matrix IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus HDA PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
colocalizes_with plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
protein kinase CK2 complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein kinase CK2 complex IDA
Inferred from Direct Assay
more info
PubMed 
protein kinase CK2 complex NAS
Non-traceable Author Statement
more info
PubMed 
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
casein kinase II b subunit splicing isoform 132
casein kinase II b subunit splicing isoform 247
casein kinase II b subunit splicing isoform 318
casein kinase II b subunit splicing isoform 660
casein kinase II b subunit splicing isoform 806
chimera CSNK2B-LY6G5B splicing isoform 1072
chimera CSNK2B-LY6G5B splicing isoform 1103
chimera CSNK2B-LY6G5B splicing isoform 532
chimera CSNK2B-LY6G5B splicing isoform 560
chimera CSNK2B-LY6G5B splicing isoform 562
phosvitin
protein G5a
NP_001269314.1
NP_001311.3

NCBI Reference Sequences (RefSeq)

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
    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
    ENSP00000365042.2, ENST00000375882.6
    Conserved Domains (1) summary
    smart01085
    Location:8191
    CK_II_beta; Casein kinase II regulatory subunit

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20200522

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
    31665880..31670070
    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
    3143171..3147361
    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
    2913651..2917842
    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
    2970927..2975117
    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
    3007752..3011942
    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
    2921704..2925894
    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
    2965164..2969354
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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