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NFKB2 nuclear factor kappa B subunit 2 [ Homo sapiens (human) ]

Gene ID: 4791, updated on 19-Sep-2024

Summary

Official Symbol
NFKB2provided by HGNC
Official Full Name
nuclear factor kappa B subunit 2provided by HGNC
Primary source
HGNC:HGNC:7795
See related
Ensembl:ENSG00000077150 MIM:164012; AllianceGenome:HGNC:7795
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
p52; p100; H2TF1; LYT10; CVID10; LYT-10; NF-kB2; p49/p100
Summary
This gene encodes a subunit of the transcription factor complex nuclear factor-kappa-B (NFkB). The NFkB complex is expressed in numerous cell types and functions as a central activator of genes involved in inflammation and immune function. The protein encoded by this gene can function as both a transcriptional activator or repressor depending on its dimerization partner. The p100 full-length protein is co-translationally processed into a p52 active form. Chromosomal rearrangements and translocations of this locus have been observed in B cell lymphomas, some of which may result in the formation of fusion proteins. There is a pseudogene for this gene on chromosome 18. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2013]
Expression
Ubiquitous expression in appendix (RPKM 21.5), bone marrow (RPKM 20.6) and 25 other tissues See more
Orthologs
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Genomic context

See NFKB2 in Genome Data Viewer
Location:
10q24.32
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (102394110..102402529)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (103279058..103287478)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (104153867..104162286)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2752 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2753 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2754 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3925 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3926 Neighboring gene paired like homeodomain 3 Neighboring gene golgi brefeldin A resistant guanine nucleotide exchange factor 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:104029238-104029738 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:104029739-104030239 Neighboring gene Sharpr-MPRA regulatory region 13217 Neighboring gene Sharpr-MPRA regulatory region 15234 Neighboring gene uncharacterized LOC107984263 Neighboring gene MPRA-validated peak1080 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:104147078-104147638 Neighboring gene NANOG hESC enhancer GRCh37_chr10:104151284-104151791 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:104151792-104152298 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3927 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2755 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3928 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3929 Neighboring gene Sharpr-MPRA regulatory region 13585 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2756 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:104160632-104161328 Neighboring gene Sharpr-MPRA regulatory region 3575 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2757 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:104169870-104170552 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:104170553-104171234 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2758 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3930 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2759 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3931 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3932 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3933 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3934 Neighboring gene pleckstrin and Sec7 domain containing Neighboring gene F-box and leucine rich repeat protein 15

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues 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?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env The mRNA expression levels for alpha-tubulin, TRADD, IFN-gamma R2, GAS1, MADD, NF-kappaB, I-kappa B, 14-3-3 protein, APaf1, PARP, IGF-1 receptor, RB1, Rb2/p130, ARC, and caspase 6 are upregulated in human neuronal cells after treatment with HIV-1 gp120 PubMed
Envelope transmembrane glycoprotein gp41 env The HIV-1 gp41 cytoplasmic domain-induced NFkappaB activation requires TAK1, RelA, and NEMO proteins PubMed
env The cytoplasmic domain (residues 704-773) of HIV-1 gp41 induces NFkappaB activation. Deletion of a 12 amino-acid sequence (762CLFSYHRLRDLL) in gp41 leads to a dramatic loss of the NFkappaB activation and tyrosine 766 is particularly important PubMed
Tat tat HIV-1 Tat in combination with IFN-gamma and TNF-alpha increases CXCL10 mRNA and protein in human astrocytes through the activation of the p38, Jnk, and Akt signaling pathways and their downstream transcription factors, NF-kappaB and STAT-1alpha PubMed
tat Treatment of astrocytes with cell-permeable superoxide dismutase (SOD) leads to a decrease in Tat-induced ROS generation and NF-kappaB activation PubMed
tat In HIV-1 Tat-expressing and HIV-infected astrocytes, endothelin-1 (ET-1) is significantly elevated through NF-kappaB (NF-kappaB)-responsive sites in the ET-1 promoter PubMed
tat HIV-1 Tat has been shown to bind NFkappaB in vitro in gel shift, GST-pull down and affinity matrix assays PubMed
tat NFkappaB tethers the p160 nuclear receptor co-activator GRIP1 to the HIV-1 LTR promoter, thereby regulating the full activation of this promoter by HIV-1 Tat PubMed
tat HIV-1 Tat activates NFkappaB through the cellular interferon-inducible, double-stranded RNA dependent protein kinase, PKR PubMed
tat p56-lck plays a critical role in the activation of NFkappaB by HIV-1 Tat PubMed
tat Activation of NFkappaB by HIV-1 Tat is inhibited by Nitric Oxide PubMed
Vpr vpr HIV-1 Vpr stimulates non-canonical NFKappaB pathway by inducing the phosphorylation of NFKappaB2 (p100) at serine 866, which leads to process p100 into RelB/p52 and its subsequent nuclear translocation 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

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in canonical NF-kappaB signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in canonical NF-kappaB signal transduction IDA
Inferred from Direct Assay
more info
PubMed 
involved_in extracellular matrix organization IEA
Inferred from Electronic Annotation
more info
 
involved_in follicular dendritic cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in germinal center formation IEA
Inferred from Electronic Annotation
more info
 
involved_in inflammatory response IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in non-canonical NF-kappaB signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
involved_in response to cytokine IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in response to lipopolysaccharide IEA
Inferred from Electronic Annotation
more info
 
involved_in rhythmic process IEA
Inferred from Electronic Annotation
more info
 
involved_in spleen development IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of Bcl3/NF-kappaB2 complex IDA
Inferred from Direct Assay
more info
PubMed 
located_in chromatin ISA
Inferred from Sequence Alignment
more info
 
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 IDA
Inferred from Direct Assay
more info
 
located_in cytosol TAS
Traceable Author Statement
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
nuclear factor NF-kappa-B p100 subunit
Names
DNA-binding factor KBF2
NFKB, p52/p100 subunit
lymphocyte translocation chromosome 10 protein
nuclear factor Kappa-B, subunit 2
nuclear factor NF-kappa-B p52 subunit
nuclear factor of Kappa light chain gene enhancer in B cells 2
nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100)
oncogene Lyt-10
transcription factor NFKB2

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.

Genomic

  1. NG_033874.2 RefSeqGene

    Range
    6596..13415
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_1347

mRNA and Protein(s)

  1. NM_001077494.3NP_001070962.1  nuclear factor NF-kappa-B p100 subunit isoform a

    See identical proteins and their annotated locations for NP_001070962.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a). Variants 1 and 5 both encode the same isoform (a).
    Source sequence(s)
    AL121928, S76638
    Consensus CDS
    CCDS41564.1
    UniProtKB/Swiss-Prot
    A8K9D9, D3DR83, Q00653, Q04860, Q9BU75, Q9H471, Q9H472
    UniProtKB/TrEMBL
    A0A1P8C958
    Related
    ENSP00000358983.3, ENST00000369966.8
    Conserved Domains (7) summary
    cd07934
    Location:38221
    RHD-n_NFkB2; N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor kappa B2 (NF-kappa B2)
    cd08798
    Location:774849
    Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100
    cd00204
    Location:483620
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    cd01177
    Location:228327
    IPT_NFkappaB; IPT domain of the transcription factor NFkappaB and related transcription factors. NFkappaB is considered a central regulator of stress responses, activated by different stressful conditions, including physical stress, oxidative stress, and exposure to ...
    pfam12796
    Location:531629
    Ank_2; Ankyrin repeats (3 copies)
    pfam13637
    Location:488547
    Ank_4; Ankyrin repeats (many copies)
    sd00045
    Location:599630
    ANK; ANK repeat [structural motif]
  2. NM_001261403.3NP_001248332.1  nuclear factor NF-kappa-B p100 subunit isoform b

    See identical proteins and their annotated locations for NP_001248332.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a. Variants 2, 3, and 4 encode the same isoform (b).
    Source sequence(s)
    AL121928
    Consensus CDS
    CCDS41565.1
    UniProtKB/TrEMBL
    A0A1P8C958
    Related
    ENSP00000498308.1, ENST00000652277.1
    Conserved Domains (7) summary
    cd07934
    Location:38221
    RHD-n_NFkB2; N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor kappa B2 (NF-kappa B2)
    cd08798
    Location:774849
    Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100
    cd00204
    Location:483620
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    cd01177
    Location:228327
    IPT_NFkappaB; IPT domain of the transcription factor NFkappaB and related transcription factors. NFkappaB is considered a central regulator of stress responses, activated by different stressful conditions, including physical stress, oxidative stress, and exposure to ...
    pfam12796
    Location:531629
    Ank_2; Ankyrin repeats (3 copies)
    pfam13637
    Location:488547
    Ank_4; Ankyrin repeats (many copies)
    sd00045
    Location:599630
    ANK; ANK repeat [structural motif]
  3. NM_001288724.1NP_001275653.1  nuclear factor NF-kappa-B p100 subunit isoform b

    See identical proteins and their annotated locations for NP_001275653.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a. Variants 2, 3, and 4 encode the same isoform (b).
    Source sequence(s)
    AL121928, BC002844, DB091090
    Consensus CDS
    CCDS41565.1
    UniProtKB/TrEMBL
    A0A1P8C958
    Related
    ENSP00000410256.1, ENST00000428099.6
    Conserved Domains (7) summary
    cd07934
    Location:38221
    RHD-n_NFkB2; N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor kappa B2 (NF-kappa B2)
    cd08798
    Location:774849
    Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100
    cd00204
    Location:483620
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    cd01177
    Location:228327
    IPT_NFkappaB; IPT domain of the transcription factor NFkappaB and related transcription factors. NFkappaB is considered a central regulator of stress responses, activated by different stressful conditions, including physical stress, oxidative stress, and exposure to ...
    pfam12796
    Location:531629
    Ank_2; Ankyrin repeats (3 copies)
    pfam13637
    Location:488547
    Ank_4; Ankyrin repeats (many copies)
    sd00045
    Location:599630
    ANK; ANK repeat [structural motif]
  4. NM_001322934.2NP_001309863.1  nuclear factor NF-kappa-B p100 subunit isoform a

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) and variant 1 both encode the same isoform (a).
    Source sequence(s)
    AK098415, AL121928, KT935449
    Consensus CDS
    CCDS41564.1
    UniProtKB/Swiss-Prot
    A8K9D9, D3DR83, Q00653, Q04860, Q9BU75, Q9H471, Q9H472
    UniProtKB/TrEMBL
    A0A1P8C958
    Related
    ENSP00000499294.1, ENST00000661543.1
    Conserved Domains (7) summary
    cd07934
    Location:38221
    RHD-n_NFkB2; N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor kappa B2 (NF-kappa B2)
    cd08798
    Location:774849
    Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100
    cd00204
    Location:483620
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    cd01177
    Location:228327
    IPT_NFkappaB; IPT domain of the transcription factor NFkappaB and related transcription factors. NFkappaB is considered a central regulator of stress responses, activated by different stressful conditions, including physical stress, oxidative stress, and exposure to ...
    pfam12796
    Location:531629
    Ank_2; Ankyrin repeats (3 copies)
    pfam13637
    Location:488547
    Ank_4; Ankyrin repeats (many copies)
    sd00045
    Location:599630
    ANK; ANK repeat [structural motif]
  5. NM_001322935.1NP_001309864.1  nuclear factor NF-kappa-B p100 subunit isoform c

    Status: REVIEWED

    Source sequence(s)
    AL121928, BC002844
    UniProtKB/TrEMBL
    A0A1P8C958
  6. NM_002502.6NP_002493.3  nuclear factor NF-kappa-B p100 subunit isoform b

    See identical proteins and their annotated locations for NP_002493.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a. Variants 2, 3, and 4 encode the same isoform (b).
    Source sequence(s)
    AL121928
    Consensus CDS
    CCDS41565.1
    UniProtKB/TrEMBL
    A0A1P8C958
    Related
    ENSP00000189444.6, ENST00000189444.11
    Conserved Domains (7) summary
    cd07934
    Location:38221
    RHD-n_NFkB2; N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor kappa B2 (NF-kappa B2)
    cd08798
    Location:774849
    Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100
    cd00204
    Location:483620
    ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...
    cd01177
    Location:228327
    IPT_NFkappaB; IPT domain of the transcription factor NFkappaB and related transcription factors. NFkappaB is considered a central regulator of stress responses, activated by different stressful conditions, including physical stress, oxidative stress, and exposure to ...
    pfam12796
    Location:531629
    Ank_2; Ankyrin repeats (3 copies)
    pfam13637
    Location:488547
    Ank_4; Ankyrin repeats (many copies)
    sd00045
    Location:599630
    ANK; ANK repeat [structural motif]

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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    102394110..102402529
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    103279058..103287478
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)