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

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: mouse all
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Genomic context

Location:: 6p21.33

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	6	NC_000006.12 (31666080..31670067)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	6	NC_060930.1 (31519114..31523101)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	6	NC_000006.11 (31633857..31637844)

Chromosome 6 - NC_000006.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Long noncoding RNA HIKER regulates erythropoiesis in Monge's disease via CSNK2B.
Title: Long noncoding RNA HIKER regulates erythropoiesis in Monge's disease via CSNK2B.
CSNK2B modulates IRF1 binding to functional DNA elements and promotes basal and agonist-induced antiviral signaling.
Title: CSNK2B modulates IRF1 binding to functional DNA elements and promotes basal and agonist-induced antiviral signaling.
MicroRNA-1205 Suppresses Hepatocellular Carcinoma Cell Proliferation via a CSNK2B/CDK4 Axis.
Title: MicroRNA-1205 Suppresses Hepatocellular Carcinoma Cell Proliferation via a CSNK2B/CDK4 Axis.
Clinical and genetic analysis of six Chinese children with Poirier-Bienvenu neurodevelopmental syndrome caused by CSNK2B mutation.
Title: Clinical and genetic analysis of six Chinese children with Poirier-Bienvenu neurodevelopmental syndrome caused by CSNK2B mutation.
CSNK2B: A broad spectrum of neurodevelopmental disability and epilepsy severity.
Title: CSNK2B: A broad spectrum of neurodevelopmental disability and epilepsy severity.
Overexpression of NELFE contributes to gastric cancer progression via Wnt/beta-catenin signaling-mediated activation of CSNK2B expression.
Title: Overexpression of NELFE contributes to gastric cancer progression via Wnt/β-catenin signaling-mediated activation of CSNK2B expression.
Poirier-Bienvenu neurodevelopmental syndrome: A report of a patient with a pathogenic variant in CSNK2B with abnormal linear growth.
Title: Poirier-Bienvenu neurodevelopmental syndrome: A report of a patient with a pathogenic variant in CSNK2B with abnormal linear growth.
Protein kinase CK2 contributes to placental development: physiological and pathological implications.
Title: Protein kinase CK2 contributes to placental development: physiological and pathological implications.
Germline de novo variants in CSNK2B in Chinese patients with epilepsy.
Title: Germline de novo variants in CSNK2B in Chinese patients with epilepsy.
Tumor necrosis factor alpha-induced protein 1 as a novel tumor suppressor through selective downregulation of CSNK2B blocks nuclear factor-kappaB activation in hepatocellular carcinoma.
Title: Tumor necrosis factor α-induced protein 1 as a novel tumor suppressor through selective downregulation of CSNK2B blocks nuclear factor-κB activation in hepatocellular carcinoma.

Submit: New GeneRIF Correction See all GeneRIFs (81)

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

Associated conditions

Description	Tests
Poirier-Bienvenu neurodevelopmental syndrome MedGen: C5231482 OMIM: 618732 GeneReviews: CSNK2B-Related Neurodevelopmental Disorder	not available

EBI GWAS Catalog

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

CSNK2B (e-PCR)
- UniSTS:253715

G54110 (e-PCR)
- UniSTS:109347

RH16232 (e-PCR)
- UniSTS:29525

NoName (e-PCR)
- UniSTS:485974

MARC_3347-3348:966881404:1 (e-PCR)
- UniSTS:231017

MARC_3347-3348:991937077:1 (e-PCR)
- UniSTS:231017

G54062 (e-PCR)
- UniSTS:109444

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

Process	Evidence Code	Pubs
involved_in Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in adiponectin-activated signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in endothelial tube morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of blood vessel endothelial cell migration	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of cell population proliferation	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of proteasomal ubiquitin-dependent protein catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of viral life cycle	IDA Inferred from Direct Assay more info	PubMed
involved_in peptidyl-threonine phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of SMAD protein signal transduction	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of activin receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein-containing complex assembly	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of DNA binding	NAS Non-traceable Author Statement more info	PubMed
involved_in signal transduction	TAS Traceable Author Statement more info	PubMed
involved_in symbiont-mediated disruption of host cell PML body	IDA Inferred from Direct Assay 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
is_active_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 cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	TAS Traceable Author Statement more info
located_in extracellular exosome	HDA more info	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 more info	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

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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

EC 2.7.11.1

NP_001311.3

EC 2.7.11.1

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)

NM_001282385.2 → NP_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

Related

ENSP00000502967.1, ENST00000677536.1

Conserved Domains (1) summary

smart01085
Location:8 → 188

CK_II_beta; Casein kinase II regulatory subunit
NM_001320.7 → NP_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

N0E4C7, Q5SRQ3

Related

ENSP00000365042.3, ENST00000375882.7

Conserved Domains (1) summary

smart01085
Location:8 → 191

CK_II_beta; Casein kinase II regulatory subunit