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

Gene ID: 4791, updated on 24-Nov-2020

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
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

Genomic context

See NFKB2 in Genome Data Viewer
Location:
10q24.32
Exon count:
25
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 10 NC_000010.11 (102394110..102402529)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (104153867..104162286)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene paired like homeodomain 3 Neighboring gene golgi brefeldin A resistant guanine nucleotide exchange factor 1 Neighboring gene uncharacterized LOC107984263 Neighboring gene pleckstrin and Sec7 domain containing Neighboring gene F-box and leucine rich repeat protein 15 Neighboring gene CUE domain containing 2

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?

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 HIV-1 Tat activates NFkappaB, causing the induction of CD95 ligand, CD69, iNOS, MCP-1, IL-2, IL-6, IL-8, IL-10, TNF-alpha, VCAM-1, ICAM-1, E-selectin, and MMP-9, as well as monocyte adhesion, cellular activation and angiogenesis PubMed
tat HIV-1 Tat-mediated transcriptional activation of the HIV-1 LTR promoter requires NFkappaB binding sites in the promoter and involves the activation of NFkappaB by Tat 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 NFAT-1 negatively regulates HIV-1 Tat-mediated transactivation of the HIV-1 LTR by competing with NFkappaB for its binding to the LTR, thereby blocking the interaction of NFkappaB with Tat PubMed
tat HIV-1 Tat enhances tumor necrosis factor-induced activation of NFkappaB by downregulating manganese-dependent superoxide dismutase (MnSOD) 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 leads to a reduction in adenylyl cyclase activity and an inhibition of cAMP synthesis 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

Homology

Gene Ontology Provided by GOA

Process Evidence Code Pubs
NIK/NF-kappaB signaling TAS
Traceable Author Statement
more info
 
aging IEA
Inferred from Electronic Annotation
more info
 
extracellular matrix organization IEA
Inferred from Electronic Annotation
more info
 
follicular dendritic cell differentiation IEA
Inferred from Electronic Annotation
more info
 
germinal center formation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of NF-kappaB transcription factor activity TAS
Traceable Author Statement
more info
 
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of type I interferon production TAS
Traceable Author Statement
more info
 
regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
response to cytokine IEA
Inferred from Electronic Annotation
more info
 
response to lipopolysaccharide IEA
Inferred from Electronic Annotation
more info
 
rhythmic process IEA
Inferred from Electronic Annotation
more info
 
spleen development IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Bcl3/NF-kappaB2 complex IDA
Inferred from Direct Assay
more info
PubMed 
chromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
chromatin ISA
Inferred from Sequence Alignment
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
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)

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
    Q00653
    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/Swiss-Prot
    Q00653
    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/Swiss-Prot
    Q00653
    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
    Q00653
    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/Swiss-Prot
    Q00653
  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/Swiss-Prot
    Q00653
    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: Homo sapiens Updated Annotation Release 109.20201120

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p13 Primary Assembly

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

mRNA and Protein(s)

  1. XM_024448026.1XP_024303794.1  nuclear factor NF-kappa-B p100 subunit isoform X2

    Conserved Domains (5) summary
    cd08798
    Location:732807
    Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100
    cd00204
    Location:441578
    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:186285
    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 ...
    sd00045
    Location:557588
    ANK; ANK repeat [structural motif]
    cl08275
    Location:6179
    RHD-n; N-terminal sub-domain of the Rel homology domain (RHD)
  2. XM_024448027.1XP_024303795.1  nuclear factor NF-kappa-B p100 subunit isoform X4

    Conserved Domains (3) summary
    cd08798
    Location:419494
    Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100
    cd00204
    Location:128265
    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 ...
    sd00045
    Location:244275
    ANK; ANK repeat [structural motif]
  3. XM_017016278.1XP_016871767.1  nuclear factor NF-kappa-B p100 subunit isoform X1

  4. XM_011539830.3XP_011538132.1  nuclear factor NF-kappa-B p100 subunit isoform X3

    See identical proteins and their annotated locations for XP_011538132.1

    Conserved Domains (7) summary
    cd08798
    Location:629704
    Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100
    cd00204
    Location:338475
    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:83182
    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:386484
    Ank_2; Ankyrin repeats (3 copies)
    pfam13637
    Location:343402
    Ank_4; Ankyrin repeats (many copies)
    sd00045
    Location:454485
    ANK; ANK repeat [structural motif]
    cl08275
    Location:176
    RHD-n; N-terminal sub-domain of the Rel homology domain (RHD)
  5. XM_011539831.2XP_011538133.1  nuclear factor NF-kappa-B p100 subunit isoform X3

    See identical proteins and their annotated locations for XP_011538133.1

    Conserved Domains (7) summary
    cd08798
    Location:629704
    Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100
    cd00204
    Location:338475
    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:83182
    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:386484
    Ank_2; Ankyrin repeats (3 copies)
    pfam13637
    Location:343402
    Ank_4; Ankyrin repeats (many copies)
    sd00045
    Location:454485
    ANK; ANK repeat [structural motif]
    cl08275
    Location:176
    RHD-n; N-terminal sub-domain of the Rel homology domain (RHD)
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