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O15226 (NKRF_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 142. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
NF-kappa-B-repressing factor

Short name=NFkB-repressing factor
Alternative name(s):
Protein ITBA4
Transcription factor NRF
Gene names
Name:NKRF
Synonyms:ITBA4, NRF
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length690 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Interacts with a specific negative regulatory element (NRE) 5'-AATTCCTCTGA-3' to mediate transcriptional repression of certain NK-kappa-B responsive genes. Involved in the constitutive silencing of the interferon beta promoter, independently of the virus-induced signals, and in the inhibition of the basal and cytokine-induced iNOS promoter activity. Also involved in the regulation of IL-8 transcription. Ref.8

Subunit structure

Interacts with NF-kappa-B.

Subcellular location

Nucleusnucleolus Ref.9.

Tissue specificity

Widely and constitutively expressed. Expressed at lower level in colon, peripheral blood lymphocytes, lung and kidney.

Sequence similarities

Contains 1 G-patch domain.

Contains 1 R3H domain.

Sequence caution

The sequence AL539002 differs from that shown. Reason: Probable cloning artifact.

The sequence CAB56459.1 differs from that shown. Reason: Frameshift at positions 378, 405, 410, 441, 502, 516, 588, 599, 601 and 681.

Ontologies

Keywords
   Biological processTranscription
Transcription regulation
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
   LigandDNA-binding
   Molecular functionRepressor
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processnegative regulation of transcription, DNA-templated

Inferred from direct assay Ref.1. Source: UniProtKB

transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentnucleolus

Inferred from electronic annotation. Source: UniProtKB-SubCell

nucleus

Inferred from direct assay Ref.1. Source: UniProtKB

   Molecular_functionDNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

poly(A) RNA binding

Inferred from direct assay PubMed 22658674PubMed 22681889. Source: UniProtKB

protein binding

Inferred from physical interaction PubMed 21903422. Source: IntAct

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

DHX58Q96C102EBI-766011,EBI-744193

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: O15226-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
Isoform 2 (identifier: O15226-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-1: M → MGFMLPLIFRYSPRLM
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 690690NF-kappa-B-repressing factor
PRO_0000096869

Regions

Domain551 – 59646G-patch
Domain600 – 66465R3H
DNA binding296 – 38893
Region1 – 296296Active repression domain
Motif25 – 4521Nuclear localization signal

Natural variations

Alternative sequence11M → MGFMLPLIFRYSPRLM in isoform 2.
VSP_047377

Experimental info

Sequence conflict711R → G in CAB56459. Ref.1
Sequence conflict4531C → G in CAA68976. Ref.7
Sequence conflict614 – 6152AR → ES in CAB56459. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified August 15, 2003. Version 2.
Checksum: 3067A52671A7AE8F

FASTA69077,673
        10         20         30         40         50         60 
MEKILQMAEG IDIGEMPSYD LVLSKPSKGQ KRHLSTCDGQ NPPKKQAGSK FHARPRFEPV 

        70         80         90        100        110        120 
HFVASSSKDE RQEDPYGPQT KEVNEQTHFA SMPRDIYQDY TQDSFSIQDG NSQYCDSSGF 

       130        140        150        160        170        180 
ILTKDQPVTA NMYFDSGNPA PSTTSQQANS QSTPEPSPSQ TFPESVVAEK QYFIEKLTAT 

       190        200        210        220        230        240 
IWKNLSNPEM TSGSDKINYT YMLTRCIQAC KTNPEYIYAP LKEIPPADIP KNKKLLTDGY 

       250        260        270        280        290        300 
ACEVRCQNIY LTTGYAGSKN GSRDRATELA VKLLQKRIEV RVVRRKFKHT FGEDLVVCQI 

       310        320        330        340        350        360 
GMSSYEFPPA LKPPEDLVVL GKDASGQPIF NASAKHWTNF VITENANDAI GILNNSASFN 

       370        380        390        400        410        420 
KMSIEYKYEM MPNRTWRCRV FLQDHCLAEG YGTKKTSKHA AADEALKILQ KTQPTYPSVK 

       430        440        450        460        470        480 
SSQCHTGSSP RGSGKKKDIK DLVVYENSSN PVCTLNDTAQ FNRMTVEYVY ERMTGLRWKC 

       490        500        510        520        530        540 
KVILESEVIA EAVGVKKTVK YEAAGEAVKT LKKTQPTVIN NLKKGAVEDV ISRNEIQGRS 

       550        560        570        580        590        600 
AEEAYKQQIK EDNIGNQLLR KMGWTGGGLG KSGEGIREPI SVKEQHKREG LGLDVERVNK 

       610        620        630        640        650        660 
IAKRDIEQII RNYARSESHT DLTFSRELTN DERKQIHQIA QKYGLKSKSH GVGHDRYLVV 

       670        680        690 
GRKRRKEDLL DQLKQEGQVG HYELVMPQAN 

« Hide

Isoform 2 [UniParc].

Checksum: 48B245E4929BD14B
Show »

FASTA70579,496

References

« Hide 'large scale' references
[1]"Constitutive silencing of IFN-beta promoter is mediated by NRF (NF-kB-repressing factor), a nuclear inhibitor of NF-kB."
Nourbakhsh M., Hauser H.
EMBO J. 18:6415-6425(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
Tissue: Cervix carcinoma.
[2]"Cloning and identification of human transcription factor NRF complete cDNA."
Mao Y., Xie Y., Dai J.
Submitted (DEC-2002) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
[3]"The DNA sequence of the human X chromosome."
Ross M.T., Grafham D.V., Coffey A.J., Scherer S., McLay K., Muzny D., Platzer M., Howell G.R., Burrows C., Bird C.P., Frankish A., Lovell F.L., Howe K.L., Ashurst J.L., Fulton R.S., Sudbrak R., Wen G., Jones M.C. expand/collapse author list , Hurles M.E., Andrews T.D., Scott C.E., Searle S., Ramser J., Whittaker A., Deadman R., Carter N.P., Hunt S.E., Chen R., Cree A., Gunaratne P., Havlak P., Hodgson A., Metzker M.L., Richards S., Scott G., Steffen D., Sodergren E., Wheeler D.A., Worley K.C., Ainscough R., Ambrose K.D., Ansari-Lari M.A., Aradhya S., Ashwell R.I., Babbage A.K., Bagguley C.L., Ballabio A., Banerjee R., Barker G.E., Barlow K.F., Barrett I.P., Bates K.N., Beare D.M., Beasley H., Beasley O., Beck A., Bethel G., Blechschmidt K., Brady N., Bray-Allen S., Bridgeman A.M., Brown A.J., Brown M.J., Bonnin D., Bruford E.A., Buhay C., Burch P., Burford D., Burgess J., Burrill W., Burton J., Bye J.M., Carder C., Carrel L., Chako J., Chapman J.C., Chavez D., Chen E., Chen G., Chen Y., Chen Z., Chinault C., Ciccodicola A., Clark S.Y., Clarke G., Clee C.M., Clegg S., Clerc-Blankenburg K., Clifford K., Cobley V., Cole C.G., Conquer J.S., Corby N., Connor R.E., David R., Davies J., Davis C., Davis J., Delgado O., Deshazo D., Dhami P., Ding Y., Dinh H., Dodsworth S., Draper H., Dugan-Rocha S., Dunham A., Dunn M., Durbin K.J., Dutta I., Eades T., Ellwood M., Emery-Cohen A., Errington H., Evans K.L., Faulkner L., Francis F., Frankland J., Fraser A.E., Galgoczy P., Gilbert J., Gill R., Gloeckner G., Gregory S.G., Gribble S., Griffiths C., Grocock R., Gu Y., Gwilliam R., Hamilton C., Hart E.A., Hawes A., Heath P.D., Heitmann K., Hennig S., Hernandez J., Hinzmann B., Ho S., Hoffs M., Howden P.J., Huckle E.J., Hume J., Hunt P.J., Hunt A.R., Isherwood J., Jacob L., Johnson D., Jones S., de Jong P.J., Joseph S.S., Keenan S., Kelly S., Kershaw J.K., Khan Z., Kioschis P., Klages S., Knights A.J., Kosiura A., Kovar-Smith C., Laird G.K., Langford C., Lawlor S., Leversha M., Lewis L., Liu W., Lloyd C., Lloyd D.M., Loulseged H., Loveland J.E., Lovell J.D., Lozado R., Lu J., Lyne R., Ma J., Maheshwari M., Matthews L.H., McDowall J., McLaren S., McMurray A., Meidl P., Meitinger T., Milne S., Miner G., Mistry S.L., Morgan M., Morris S., Mueller I., Mullikin J.C., Nguyen N., Nordsiek G., Nyakatura G., O'dell C.N., Okwuonu G., Palmer S., Pandian R., Parker D., Parrish J., Pasternak S., Patel D., Pearce A.V., Pearson D.M., Pelan S.E., Perez L., Porter K.M., Ramsey Y., Reichwald K., Rhodes S., Ridler K.A., Schlessinger D., Schueler M.G., Sehra H.K., Shaw-Smith C., Shen H., Sheridan E.M., Shownkeen R., Skuce C.D., Smith M.L., Sotheran E.C., Steingruber H.E., Steward C.A., Storey R., Swann R.M., Swarbreck D., Tabor P.E., Taudien S., Taylor T., Teague B., Thomas K., Thorpe A., Timms K., Tracey A., Trevanion S., Tromans A.C., d'Urso M., Verduzco D., Villasana D., Waldron L., Wall M., Wang Q., Warren J., Warry G.L., Wei X., West A., Whitehead S.L., Whiteley M.N., Wilkinson J.E., Willey D.L., Williams G., Williams L., Williamson A., Williamson H., Wilming L., Woodmansey R.L., Wray P.W., Yen J., Zhang J., Zhou J., Zoghbi H., Zorilla S., Buck D., Reinhardt R., Poustka A., Rosenthal A., Lehrach H., Meindl A., Minx P.J., Hillier L.W., Willard H.F., Wilson R.K., Waterston R.H., Rice C.M., Vaudin M., Coulson A., Nelson D.L., Weinstock G., Sulston J.E., Durbin R.M., Hubbard T., Gibbs R.A., Beck S., Rogers J., Bentley D.R.
Nature 434:325-337(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]Mural R.J., Istrail S., Sutton G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. expand/collapse author list , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C.
Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
The MGC Project Team
Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
Tissue: Pancreas and Skin.
[6]"Full-length cDNA libraries and normalization."
Li W.B., Gruber C., Jessee J., Polayes D.
Submitted (APR-2003) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-258 (ISOFORM 2).
Tissue: Fetal brain.
[7]"Identification of a new member (ZNF183) of the Ring finger gene family in Xq24-25."
Frattini A., Faranda S., Bagnasco L., Patrosso C., Nulli P., Zucchi I., Vezzoni P.
Gene 192:291-298(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 453-690 (ISOFORM 1/2).
Tissue: Brain.
[8]"Identification of a negative response element in the human inducible nitric-oxide synthase (hiNOS) promoter: the role of NF-kappa B-repressing factor (NRF) in basal repression of the hiNOS gene."
Feng X., Guo Z., Nourbakhsh M., Hauser H., Ganster R., Shao L., Geller D.A.
Proc. Natl. Acad. Sci. U.S.A. 99:14212-14217(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION.
[9]"Functional proteomic analysis of human nucleolus."
Scherl A., Coute Y., Deon C., Calle A., Kindbeiter K., Sanchez J.-C., Greco A., Hochstrasser D.F., Diaz J.-J.
Mol. Biol. Cell 13:4100-4109(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
Tissue: Cervix carcinoma.
[10]"Initial characterization of the human central proteome."
Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J.
BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AJ011812 mRNA. Translation: CAB56459.1. Frameshift.
AY208891 mRNA. Translation: AAP43025.1.
AC004913 Genomic DNA. No translation available.
CH471161 Genomic DNA. Translation: EAW89859.1.
BC040379 mRNA. Translation: AAH40379.1.
BC047878 mRNA. Translation: AAH47878.1.
AL539002 mRNA. No translation available.
Y07707 mRNA. Translation: CAA68976.1.
CCDSCCDS35375.1. [O15226-1]
CCDS55486.1. [O15226-2]
RefSeqNP_001166958.1. NM_001173487.1. [O15226-2]
NP_001166959.1. NM_001173488.1. [O15226-1]
NP_060014.2. NM_017544.3. [O15226-1]
XP_005262500.1. XM_005262443.2. [O15226-2]
UniGeneHs.437084.

3D structure databases

ProteinModelPortalO15226.
SMRO15226. Positions 348-411, 446-518, 604-663.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid121002. 21 interactions.
DIPDIP-34570N.
IntActO15226. 7 interactions.
MINTMINT-4728497.
STRING9606.ENSP00000304803.

Chemistry

ChEMBLCHEMBL3163.

PTM databases

PhosphoSiteO15226.

2D gel databases

SWISS-2DPAGEO15226.

Proteomic databases

MaxQBO15226.
PaxDbO15226.
PeptideAtlasO15226.
PRIDEO15226.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000304449; ENSP00000304803; ENSG00000186416. [O15226-1]
ENST00000371527; ENSP00000360582; ENSG00000186416. [O15226-1]
ENST00000542113; ENSP00000442308; ENSG00000186416. [O15226-2]
GeneID55922.
KEGGhsa:55922.
UCSCuc004erq.3. human. [O15226-1]
uc022cdk.1. human.

Organism-specific databases

CTD55922.
GeneCardsGC0XM118722.
HGNCHGNC:19374. NKRF.
MIM300440. gene.
neXtProtNX_O15226.
PharmGKBPA134990602.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG123689.
HOGENOMHOG000230930.
HOVERGENHBG052630.
InParanoidO15226.
OMAWRYSHES.
OrthoDBEOG7XWPN1.
PhylomeDBO15226.
TreeFamTF326321.

Gene expression databases

ArrayExpressO15226.
BgeeO15226.
CleanExHS_NKRF.
GenevestigatorO15226.

Family and domain databases

Gene3D3.30.1370.50. 1 hit.
3.30.160.20. 1 hit.
InterProIPR014720. dsRNA-bd_dom.
IPR000467. G_patch_dom.
IPR001374. R3H_ss-bd.
[Graphical view]
PfamPF01585. G-patch. 1 hit.
PF01424. R3H. 1 hit.
[Graphical view]
SMARTSM00358. DSRM. 2 hits.
SM00443. G_patch. 1 hit.
SM00393. R3H. 1 hit.
[Graphical view]
SUPFAMSSF82708. SSF82708. 1 hit.
PROSITEPS50174. G_PATCH. 1 hit.
PS51061. R3H. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

GeneWikiNKRF_(gene).
GenomeRNAi55922.
NextBio61327.
PROO15226.
SOURCESearch...

Entry information

Entry nameNKRF_HUMAN
AccessionPrimary (citable) accession number: O15226
Secondary accession number(s): G3V1N1, Q4VC41, Q9UJ91
Entry history
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: August 15, 2003
Last modified: July 9, 2014
This is version 142 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human chromosome X

Human chromosome X: entries, gene names and cross-references to MIM