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    NFKBIB NFKB inhibitor beta [ Homo sapiens (human) ]

    Gene ID: 4793, updated on 28-Oct-2024

    Summary

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    Official Symbol
    NFKBIBprovided by HGNC
    Official Full Name
    NFKB inhibitor betaprovided by HGNC
    Primary source
    HGNC:HGNC:7798
    See related
    Ensembl:ENSG00000104825 MIM:604495; AllianceGenome:HGNC:7798
    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
    IKBB; TRIP9
    Summary
    The protein encoded by this gene belongs to the NF-kappa-B inhibitor family, which inhibit NF-kappa-B by complexing with, and trapping it in the cytoplasm. Phosphorylation of serine residues on these proteins by kinases marks them for destruction via the ubiquitination pathway, thereby allowing activation of the NF-kappa-B, which translocates to the nucleus to function as a transcription factor. Alternatively spliced transcript variants have been found for this gene.[provided by RefSeq, Jul 2011]
    Expression
    Ubiquitous expression in testis (RPKM 8.2), bone marrow (RPKM 7.5) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See NFKBIB in Genome Data Viewer
    Location:
    19q13.2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (38899666..38908889)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (41703721..41712860)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (39390306..39399529)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14600 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39360061-39360631 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39360661-39361267 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39361268-39361873 Neighboring gene Ras and Rab interactor like Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10589 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14602 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14603 Neighboring gene sirtuin 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39384205-39384706 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39402426-39403052 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39403053-39403677 Neighboring gene coiled-coil glutamate rich protein 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:39408779-39409649 Neighboring gene seryl-tRNA synthetase 2, mitochondrial Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14604

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Assignment of the IkappaB-beta gene NFKBIB to human chromosome band 19q13.1 by in situ hybridization. Okamoto T, et al. Cytogenet Cell Genet, 1998. PMID 9763672
    2. IKBB tumor suppressive role in nasopharyngeal carcinoma via NF-κB-mediated signalling. Phoon YP, et al. Int J Cancer, 2016 Jan 1. PMID 26227166
    3. Regulation of IkappaBbeta expression in testis. Budde LM, et al. Mol Biol Cell, 2002 Dec. PMID 12475944, Free PMC Article
    4. A new regulatory mechanism of NF-kappaB activation by I-kappaBbeta in cancer cells. Kim JM, et al. J Mol Biol, 2008 Dec 26. PMID 18950638
    5. Expression of nuclear factor kappa B components in human endometrium. Page M, et al. J Reprod Immunol, 2002 Mar. PMID 11839392

    See all (100) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The NF-kappaB regulator IkappaBbeta exhibits different molecular interactivity and phosphorylation status from IkappaBalpha in an IKK2-catalysed reaction.
      Title: The NF-κB regulator IκBβ exhibits different molecular interactivity and phosphorylation status from IκBα in an IKK2-catalysed reaction.
    2. The subcellular distributions of IkappaB and NFkappaB are indicative of carcinogenesis. Inhibition of XPO1 results in intranuclear retention of IkappaB, which inhibits NFkappaB and thereby provides a novel mechanism for drug therapy in sarcoma. This effect can be further enhanced in relatively selinexor-resistant sarcoma cell lines by pretreatment with the proteasome inhibitor carfilzomib.
      Title: Selinexor (KPT-330) Induces Tumor Suppression through Nuclear Sequestration of IκB and Downregulation of Survivin.
    3. data suggest that miRNA-4776 modulates Influenza A virus production in infected cells through NFKBIB expression, possibly through the modulation of NF-kappaB.
      Title: Upregulation of miRNA-4776 in Influenza Virus Infected Bronchial Epithelial Cells Is Associated with Downregulation of NFKBIB and Increased Viral Survival.
    4. our data establish the importance of a novel tumor suppressive IKBB gene in abrogating angiogenesis in NPC via the NF-kappaB signalling pathway.
      Title: IKBB tumor suppressive role in nasopharyngeal carcinoma via NF-κB-mediated signalling.
    5. NFKBIBrs3136641TT single nucleotide polymorphism was associated with a significantly decreased risk of developing wheezing.
      Title: Genetic polymorphisms and risk of recurrent wheezing in pediatric age.
    6. Observational study of gene-disease association, gene-environment interaction, and pharmacogenomic / toxicogenomic. (HuGE Navigator)
      Title: Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study.
    7. Observational study of gene-disease association, gene-gene interaction, gene-environment interaction, and genetic testing. (HuGE Navigator)
      Title: Integrative predictive model of coronary artery calcification in atherosclerosis.
    8. NFKBIA and NFKBIB are not likely to harbor ovarian cancer risk alleles.
      Title: Polymorphisms in NF-kappaB inhibitors and risk of epithelial ovarian cancer.
    9. increased I-kappaBbeta expression reversed NF-kappaB activation in cancer cells, compensating for the loss of I-kappaBalpha via TGase 2 polymerization.
      Title: A new regulatory mechanism of NF-kappaB activation by I-kappaBbeta in cancer cells.
    10. Observational study of gene-disease association and gene-gene interaction. (HuGE Navigator)
      Title: MicroRNA-related genetic variations as predictors for risk of second primary tumor and/or recurrence in patients with early-stage head and neck cancer.
    Submit: New GeneRIF Correction See all GeneRIFs (17)

    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

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    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
    Tat tat The gene expression of NFKBIB is significantly upregulated in both clade B and clade C Tat treated SK-N-MC neuroblastoma cells PubMed
    tat I kappa B potently inhibits HIV-1 Tat-mediated transactivation of the HIV-1 LTR promoter PubMed
    tat HIV-1 Tat induces the phosphorylation and degradation of IkappaB through a p56lck dependent mechanism, leading to the activation of NF-kappa B PubMed
    Vpr vpr HIV-1 Vpr induces phosphorylation of IkappaB-beta at serine positions 177 and 181 PubMed
    vpr Overexpression of NFKBIB is induced by HIV-1 Vpr in the transfected 293T cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transcription coactivator activity TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA-templated transcription TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in cellular response to lipopolysaccharide IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of canonical NF-kappaB signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in signal transduction TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    NF-kappa-B inhibitor beta
    Names
    I-kappa-B-beta
    NF-kappa-BIB
    TR-interacting protein 9
    TRIP-9
    ikB-B
    ikB-beta
    ikappaBbeta
    nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, beta
    thyroid receptor-interacting protein 9

    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_029624.1 RefSeqGene

      Range
      5270..14190
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001243116.2 → NP_001230045.1  NF-kappa-B inhibitor beta isoform 2

      See identical proteins and their annotated locations for NP_001230045.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) contains an alternate 5' terminal exon compared to variant 1. This results in translation initiation from an in-frame downstream AUG, and a shorter isoform (2) compared to isoform 1.
      Source sequence(s)
      AC011455, AI684894, BC015528, BI520169
      Consensus CDS
      CCDS74362.1
      UniProtKB/TrEMBL
      G5E9C2, I3L4X3
      Related
      ENSP00000375929.4, ENST00000392079.7
      Conserved Domains (3) summary
      cd00204
      Location:2 → 175
      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 ...
      pfam12796
      Location:125 → 212
      Ank_2; Ankyrin repeats (3 copies)
      sd00045
      Location:120 → 151
      ANK; ANK repeat [structural motif]

    2. NM_001369699.1 → NP_001356628.1  NF-kappa-B inhibitor beta isoform 3

      Status: REVIEWED

      Source sequence(s)
      AB209784, AC011455
      Consensus CDS
      CCDS92612.1
      UniProtKB/TrEMBL
      Q59EM7
      Related
      ENSP00000459728.1, ENST00000572515.5
      Conserved Domains (3) summary
      PHA03095
      Location:203 → 298
      PHA03095; ankyrin-like protein; Provisional
      COG0666
      Location:57 → 148
      ANKYR; Ankyrin repeat [Signal transduction mechanisms]
      sd00045
      Location:206 → 237
      ANK; ANK repeat [structural motif]

    3. NM_001369700.1 → NP_001356629.1  NF-kappa-B inhibitor beta isoform 4

      Status: REVIEWED

      Source sequence(s)
      AC011455
      Conserved Domains (3) summary
      PHA03095
      Location:111 → 206
      PHA03095; ankyrin-like protein; Provisional
      sd00045
      Location:114 → 145
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:52 → 142
      Ank_2; Ankyrin repeats (3 copies)

    4. NM_002503.5 → NP_002494.2  NF-kappa-B inhibitor beta isoform 1

      See identical proteins and their annotated locations for NP_002494.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the predominant transcript and encodes the longest isoform (1).
      Source sequence(s)
      AI684894, BC015528, DA633677
      Consensus CDS
      CCDS12524.1
      UniProtKB/Swiss-Prot
      A8K3F4, Q15653, Q96BJ7
      UniProtKB/TrEMBL
      Q59EM7
      Related
      ENSP00000312988.5, ENST00000313582.6
      Conserved Domains (4) summary
      COG0666
      Location:240 → 299
      ANKYR; Ankyrin repeat [Signal transduction mechanisms]
      cd00204
      Location:88 → 261
      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:206 → 237
      ANK; ANK repeat [structural motif]
      pfam12796
      Location:52 → 118
      Ank_2; Ankyrin repeats (3 copies)

    RNA

    1. NR_040515.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) uses an alternate acceptor splice site at the second exon, and is alternatively spliced at the 3' end compared to variant 1. It is represented as non-coding due to the presence of an upstream ORF (with a strong Kozak signal) that is predicted to interfere with the translation of the downstream longer ORF; translation of the upstream ORF renders this transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AA044256, AB209784, AK057862, BX111397, DA633677
      Related
      ENST00000509705.3

    2. NR_161470.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC011455

    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_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      38899666..38908889
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006723227.4 → XP_006723290.4  NF-kappa-B inhibitor beta isoform X2

      UniProtKB/TrEMBL
      G5E9C2

    2. XM_006723226.3 → XP_006723289.2  NF-kappa-B inhibitor beta isoform X1

      UniProtKB/TrEMBL
      Q96LS1
      Conserved Domains (3) summary
      cd00204
      Location:56 → 229
      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 ...
      pfam12796
      Location:179 → 266
      Ank_2; Ankyrin repeats (3 copies)
      sd00045
      Location:174 → 205
      ANK; ANK repeat [structural motif]

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_014040929.1 Reference GRCh38.p14 PATCHES

      Range
      309338..318561
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054331970.1 → XP_054187945.1  NF-kappa-B inhibitor beta isoform X2

      UniProtKB/TrEMBL
      G5E9C2

    2. XM_054331969.1 → XP_054187944.1  NF-kappa-B inhibitor beta isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      41703721..41712860
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054321077.1 → XP_054177052.1  NF-kappa-B inhibitor beta isoform X2

      UniProtKB/TrEMBL
      G5E9C2

    2. XM_054321076.1 → XP_054177051.1  NF-kappa-B inhibitor beta isoform X1

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001001716.1: Suppressed sequence

      Description
      NM_001001716.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q15653.2 GenPept UniProtKB/Swiss-Prot:Q15653

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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