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NKRF NFKB repressing factor [ Homo sapiens (human) ]

Gene ID: 55922, updated on 30-Jun-2015
Official Symbol
NKRFprovided by HGNC
Official Full Name
NFKB repressing factorprovided by HGNC
Primary source
HGNC:HGNC:19374
See related
Ensembl:ENSG00000186416; HPRD:02341; MIM:300440; Vega:OTTHUMG00000022277
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
NRF; ITBA4
Summary
This gene encodes a transcriptional repressor that interacts with specific negative regulatory elements to mediate transcriptional repression of certain nuclear factor kappa B responsive genes. The protein localizes predominantly to the nucleolus with a small fraction found in the nucleoplasm and cytoplasm. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Mar 2010]
Orthologs
See NKRF in Epigenomics, MapViewer
Location:
Xq24
Exon count:
5
Annotation release Status Assembly Chr Location
107 current GRCh38.p2 (GCF_000001405.28) X NC_000023.11 (119588337..119606435, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (118722300..118739846, complement)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene chromosome X open reading frame 56 Neighboring gene ubiquitin-conjugating enzyme E2A Neighboring gene septin 6 Neighboring gene microRNA 766 Neighboring gene sosondowah ankyrin repeat domain family member D

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify NFKappaB repressing factor (NKRF), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify NFKappaB repressing factor (NKRF), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Tandem affinity purification and mass spectrometry analysis identify NFKappaB repressing factor (NKRF), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify NFKappaB repressing factor (NKRF), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
retropepsin gag-pol Positional proteomics analysis identifies the cleavage of human NFKB repressing factor (NKRF) at amino acid residues 21-22 by the HIV-1 protease PubMed

Go to the HIV-1, Human Interaction Database

Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
poly(A) RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
negative regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
endoplasmic reticulum IDA
Inferred from Direct Assay
more info
 
nucleolus IDA
Inferred from Direct Assay
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
Preferred Names
NF-kappa-B-repressing factor
Names
transcription factor NRF

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_016800.1 RefSeqGene

    Range
    5001..22547
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001173487.1NP_001166958.1  NF-kappa-B-repressing factor isoform 1

    See identical proteins and their annotated locations for NP_001166958.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AA845622, AL539002, AY208891, BC047878
    Consensus CDS
    CCDS55486.1
    UniProtKB/Swiss-Prot
    O15226
    Related
    ENSP00000442308, ENST00000542113
    Conserved Domains (5) summary
    cd02640
    Location:618677
    R3H_NRF; R3H domain of the NF-kappaB-repression factor (NRF). NRF is a nuclear inhibitor of NF-kappaB proteins that can silence the IFNbeta promoter via binding to a negative regulatory element (NRE). Beside R3H NRF also contains a G-patch domain. The name of the ...
    pfam11952
    Location:1035
    DUF3469; Protein of unknown function (DUF3469)
    smart00443
    Location:564607
    G_patch; glycine rich nucleic binding domain
    smart00358
    Location:466527
    DSRM; Double-stranded RNA binding motif
    pfam00035
    Location:364424
    dsrm; Double-stranded RNA binding motif
  2. NM_001173488.1NP_001166959.1  NF-kappa-B-repressing factor isoform 2

    See identical proteins and their annotated locations for NP_001166959.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1. Variants 2 and 3 encode the same isoform (2).
    Source sequence(s)
    AA845622, AC004913, BC047878, EF216688
    Consensus CDS
    CCDS35375.1
    UniProtKB/TrEMBL
    A3F768
    UniProtKB/TrEMBL
    A3F769
    UniProtKB/Swiss-Prot
    O15226
    Related
    ENSP00000360582, OTTHUMP00000023906, ENST00000371527, OTTHUMT00000058044
    Conserved Domains (4) summary
    cd02640
    Location:603662
    R3H_NRF; R3H domain of the NF-kappaB-repression factor (NRF). NRF is a nuclear inhibitor of NF-kappaB proteins that can silence the IFNbeta promoter via binding to a negative regulatory element (NRE). Beside R3H NRF also contains a G-patch domain. The name of the ...
    smart00358
    Location:451512
    DSRM; Double-stranded RNA binding motif
    pfam00035
    Location:349409
    dsrm; Double-stranded RNA binding motif
    cl02611
    Location:549592
    G-patch; G-patch domain
  3. NM_017544.3NP_060014.2  NF-kappa-B-repressing factor isoform 2

    See identical proteins and their annotated locations for NP_060014.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1. Variants 2 and 3 encode the same isoform (2).
    Source sequence(s)
    AA845622, AY208891
    Consensus CDS
    CCDS35375.1
    UniProtKB/TrEMBL
    A3F769
    UniProtKB/Swiss-Prot
    O15226
    Related
    ENSP00000304803, OTTHUMP00000023907, ENST00000304449, OTTHUMT00000058045
    Conserved Domains (4) summary
    cd02640
    Location:603662
    R3H_NRF; R3H domain of the NF-kappaB-repression factor (NRF). NRF is a nuclear inhibitor of NF-kappaB proteins that can silence the IFNbeta promoter via binding to a negative regulatory element (NRE). Beside R3H NRF also contains a G-patch domain. The name of the ...
    smart00358
    Location:451512
    DSRM; Double-stranded RNA binding motif
    pfam00035
    Location:349409
    dsrm; Double-stranded RNA binding motif
    cl02611
    Location:549592
    G-patch; G-patch domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 107

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

Reference GRCh38.p2 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p2 Primary Assembly

    Range
    119588337..119606435
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011531365.1XP_011529667.1  

    See identical proteins and their annotated locations for XP_011529667.1

    Conserved Domains (4) summary
    cd02640
    Location:603662
    R3H_NRF; R3H domain of the NF-kappaB-repression factor (NRF). NRF is a nuclear inhibitor of NF-kappaB proteins that can silence the IFNbeta promoter via binding to a negative regulatory element (NRE). Beside R3H NRF also contains a G-patch domain. The name of the ...
    smart00358
    Location:451512
    DSRM; Double-stranded RNA binding motif
    pfam00035
    Location:349409
    dsrm; Double-stranded RNA binding motif
    cl02611
    Location:549592
    G-patch; G-patch domain

Alternate CHM1_1.1

Genomic

  1. NC_018934.2 Alternate CHM1_1.1

    Range
    118633590..118651487
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)