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Protein

Nuclear factor related to kappa-B-binding protein

Gene

NFRKB

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Binds to the DNA consensus sequence 5'-GGGGAATCTCC-3'.1 Publication
Putative regulatory component of the chromatin remodeling INO80 complex which is involved in transcriptional regulation, DNA replication and probably DNA repair. Modulates the deubiquitinase activity of UCHL5 in the INO80 complex.1 Publication

GO - Molecular functioni

  • DNA binding Source: UniProtKB-KW
  • protease binding Source: UniProtKB

GO - Biological processi

Keywordsi

Molecular functionDNA-binding
Biological processDNA damage, DNA recombination, DNA repair, Transcription, Transcription regulation

Enzyme and pathway databases

ReactomeiR-HSA-5689603 UCH proteinases
R-HSA-5696394 DNA Damage Recognition in GG-NER

Names & Taxonomyi

Protein namesi
Recommended name:
Nuclear factor related to kappa-B-binding protein
Alternative name(s):
DNA-binding protein R kappa-B
INO80 complex subunit G
Gene namesi
Name:NFRKB
Synonyms:INO80G
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 11

Organism-specific databases

EuPathDBiHostDB:ENSG00000170322.14
HGNCiHGNC:7802 NFRKB
MIMi164013 gene
neXtProtiNX_Q6P4R8

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi4798
OpenTargetsiENSG00000170322
PharmGKBiPA31606

Polymorphism and mutation databases

BioMutaiNFRKB
DMDMi90101417

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002278071 – 1299Nuclear factor related to kappa-B-binding proteinAdd BLAST1299

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei228PhosphoserineCombined sources1
Modified residuei298PhosphoserineCombined sources1
Cross-linki327Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei351PhosphoserineCombined sources1
Cross-linki469Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki488Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO1); alternateCombined sources
Cross-linki488Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternateCombined sources
Modified residuei1022PhosphoserineCombined sources1
Modified residuei1237N6-acetyllysineCombined sources1
Modified residuei1291PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ6P4R8
MaxQBiQ6P4R8
PaxDbiQ6P4R8
PeptideAtlasiQ6P4R8
PRIDEiQ6P4R8
ProteomicsDBi66983
66984 [Q6P4R8-2]
66985 [Q6P4R8-3]

PTM databases

CarbonylDBiQ6P4R8
iPTMnetiQ6P4R8
PhosphoSitePlusiQ6P4R8

Expressioni

Tissue specificityi

Expressed in thymus, brain, testes, spleen and liver.1 Publication

Gene expression databases

BgeeiENSG00000170322 Expressed in 217 organ(s), highest expression level in buccal mucosa cell
CleanExiHS_NFRKB
ExpressionAtlasiQ6P4R8 baseline and differential
GenevisibleiQ6P4R8 HS

Organism-specific databases

HPAiHPA007082
HPA007128

Interactioni

Subunit structurei

Component of the chromatin remodeling INO80 complex; specifically part of a complex module associated with the N-terminus of INO80. Interacts with UCHL5; NFRKB competes with ADRM1 for interaction with UCHL5.3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
UCHL5Q9Y5K512EBI-2511210,EBI-1051183

GO - Molecular functioni

Protein-protein interaction databases

BioGridi110864, 46 interactors
ComplexPortaliCPX-846 INO80 chromatin remodeling complex
CORUMiQ6P4R8
IntActiQ6P4R8, 18 interactors
MINTiQ6P4R8
STRINGi9606.ENSP00000436926

Structurei

Secondary structure

11299
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ6P4R8
SMRiQ6P4R8
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ6P4R8

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni370 – 495Winged-helix like domainAdd BLAST126

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi309 – 327Lys-richAdd BLAST19
Compositional biasi665 – 672Poly-Ala8
Compositional biasi684 – 803Ser-richAdd BLAST120
Compositional biasi716 – 739Pro-richAdd BLAST24
Compositional biasi1245 – 1271Gln-richAdd BLAST27

Domaini

NFRKB seems to be mostly disordered. The wing-helix like domain doesn't bind DNA.

Sequence similaritiesi

Belongs to the NFRKB family.Curated

Phylogenomic databases

eggNOGiKOG1927 Eukaryota
ENOG410YHF2 LUCA
GeneTreeiENSGT00390000016213
HOGENOMiHOG000113775
HOVERGENiHBG082022
InParanoidiQ6P4R8
KOiK11671
OMAiVKCPPVP
OrthoDBiEOG091G03IX
PhylomeDBiQ6P4R8
TreeFamiTF324944

Family and domain databases

Gene3Di1.10.10.2430, 1 hit
InterProiView protein in InterPro
IPR024867 NFRKB
IPR025220 NFRKB_winged_dom
IPR038106 NFRKB_winged_sf
PANTHERiPTHR13052 PTHR13052, 1 hit
PfamiView protein in Pfam
PF14465 NFRKB_winged, 1 hit

Sequences (3+)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 3 described isoforms and 6 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q6P4R8-1) [UniParc]FASTAAdd to basket

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.

« Hide
        10         20         30         40         50
MDSLDHMLTD PLELGPCGDG HGTRIMEDCL LGGTRVSLPE DLLEDPEIFF
60 70 80 90 100
DVVSLSTWQE VLSDSQREHL QQFLPQFPED SAEQQNELIL ALFSGENFRF
110 120 130 140 150
GNPLHIAQKL FRDGHFNPEV VKYRQLCFKS QYKRYLNSQQ QYFHRLLKQI
160 170 180 190 200
LASRSDLLEM ARRSGPALPF RQKRPSPSRT PEEREWRTQQ RYLKVLREVK
210 220 230 240 250
EECGDTALSS DEEDLSSWLP SSPARSPSPA VPLRVVPTLS TTDMKTADKV
260 270 280 290 300
ELGDSDLKIM LKKHHEKRKH QPDHPDLLTG DLTLNDIMTR VNAGRKGSLA
310 320 330 340 350
ALYDLAVLKK KVKEKEEKKK KKIKTIKSEA EDLAEPLSST EGVAPLSQAP
360 370 380 390 400
SPLAIPAIKE EPLEDLKPCL GINEISSSFF SLLLEILLLE SQASLPMLEE
410 420 430 440 450
RVLDWQSSPA SSLNSWFSAA PNWAELVLPA LQYLAGESRA VPSSFSPFVE
460 470 480 490 500
FKEKTQQWKL LGQSQDNEKE LAALFQLWLE TKDQAFCKQE NEDSSDATTP
510 520 530 540 550
VPRVRTDYVV RPSTGEEKRV FQEQERYRYS QPHKAFTFRM HGFESVVGPV
560 570 580 590 600
KGVFDKETSL NKAREHSLLR SDRPAYVTIL SLVRDAAARL PNGEGTRAEI
610 620 630 640 650
CELLKDSQFL APDVTSTQVN TVVSGALDRL HYEKDPCVKY DIGRKLWIYL
660 670 680 690 700
HRDRSEEEFE RIHQAQAAAA KARKALQQKP KPPSKVKSSS KESSIKVLSS
710 720 730 740 750
GPSEQSQMSL SDSSMPPTPV TPVTPTTPAL PAIPISPPPV SAVNKSGPST
760 770 780 790 800
VSEPAKSSSG VLLVSSPTMP HLGTMLSPAS SQTAPSSQAA ARVVSHSGSA
810 820 830 840 850
GLSQVRVVAQ PSLPAVPQQS GGPAQTLPQM PAGPQIRVPA TATQTKVVPQ
860 870 880 890 900
TVMATVPVKA QTTAATVQRP GPGQTGLTVT SLPATASPVS KPATSSPGTS
910 920 930 940 950
APSASTAAVI QNVTGQNIIK QVAITGQLGV KPQTGNSIPL TATNFRIQGK
960 970 980 990 1000
DVLRLPPSSI TTDAKGQTVL RITPDMMATL AKSQVTTVKL TQDLFGTGGN
1010 1020 1030 1040 1050
TTGKGISATL HVTSNPVHAA DSPAKASSAS APSSTPTGTT VVKVTPDLKP
1060 1070 1080 1090 1100
TEASSSAFRL MPALGVSVAD QKGKSTVASS EAKPAATIRI VQGLGVMPPK
1110 1120 1130 1140 1150
AGQTITVATH AKQGASVASG SGTVHTSAVS LPSMNAAVSK TVAVASGAAS
1160 1170 1180 1190 1200
TPISISTGAP TVRQVPVSTT VVSTSQAGKL PTRITVPLSV ISQPMKGKSV
1210 1220 1230 1240 1250
VTAPIIKGNL GANLSGLGRN IILTTMPAGT KLIAGNKPVS FLTAQQLQQL
1260 1270 1280 1290
QQQGQATQVR IQTVPASHLQ QGTASGSSKA VSTVVVTTAP SPKQAPEQQ
Length:1,299
Mass (Da):139,001
Last modified:March 21, 2006 - v2
Checksum:i087B212E283C3820
GO
Isoform 2 (identifier: Q6P4R8-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-1: M → MHVFVQSTCGEETM
     213-213: E → EATLDLQEQFSFE

Show »
Length:1,324
Mass (Da):141,860
Checksum:i52A003376E91C5D9
GO
Isoform 3 (identifier: Q6P4R8-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     687-687: Missing.

Note: No experimental confirmation available.
Show »
Length:1,298
Mass (Da):138,873
Checksum:iAE550B9B7DF44736
GO

Computationally mapped potential isoform sequencesi

There are 6 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
E9PQ59E9PQ59_HUMAN
Nuclear factor-related to kappa-B-b...
NFRKB
987Annotation score:
E9PQB0E9PQB0_HUMAN
Nuclear factor-related to kappa-B-b...
NFRKB
122Annotation score:
E9PJG2E9PJG2_HUMAN
Nuclear factor-related to kappa-B-b...
NFRKB
188Annotation score:
E9PJU3E9PJU3_HUMAN
Nuclear factor-related to kappa-B-b...
NFRKB
147Annotation score:
E9PM88E9PM88_HUMAN
Nuclear factor-related to kappa-B-b...
NFRKB
92Annotation score:
E9PJE1E9PJE1_HUMAN
Nuclear factor-related to kappa-B-b...
NFRKB
46Annotation score:

Sequence cautioni

The sequence AAA17871 differs from that shown. Reason: Frameshift at position 1267.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti1178G → E in AAH63280 (PubMed:15489334).Curated1
Sequence conflicti1213N → D in AAH63280 (PubMed:15489334).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0175921M → MHVFVQSTCGEETM in isoform 2. 2 Publications1
Alternative sequenceiVSP_017593213E → EATLDLQEQFSFE in isoform 2. 2 Publications1
Alternative sequenceiVSP_017594687Missing in isoform 3. 1 Publication1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U08191 mRNA Translation: AAA17871.1 Sequence problems.
X80878 mRNA Translation: CAA56846.1
BC063280 mRNA Translation: AAH63280.1
AL512730 mRNA Translation: CAC21663.1
CCDSiCCDS44770.1 [Q6P4R8-1]
CCDS8483.1 [Q6P4R8-2]
PIRiS52863
RefSeqiNP_001137307.1, NM_001143835.1 [Q6P4R8-1]
NP_006156.2, NM_006165.3 [Q6P4R8-2]
XP_011541153.1, XM_011542851.2 [Q6P4R8-2]
XP_011541154.1, XM_011542852.2 [Q6P4R8-2]
XP_016873285.1, XM_017017796.1 [Q6P4R8-1]
UniGeneiHs.530539

Genome annotation databases

EnsembliENST00000446488; ENSP00000400476; ENSG00000170322 [Q6P4R8-1]
ENST00000524746; ENSP00000433572; ENSG00000170322 [Q6P4R8-1]
ENST00000524794; ENSP00000436926; ENSG00000170322 [Q6P4R8-2]
GeneIDi4798
KEGGihsa:4798
UCSCiuc001qfg.4 human [Q6P4R8-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U08191 mRNA Translation: AAA17871.1 Sequence problems.
X80878 mRNA Translation: CAA56846.1
BC063280 mRNA Translation: AAH63280.1
AL512730 mRNA Translation: CAC21663.1
CCDSiCCDS44770.1 [Q6P4R8-1]
CCDS8483.1 [Q6P4R8-2]
PIRiS52863
RefSeqiNP_001137307.1, NM_001143835.1 [Q6P4R8-1]
NP_006156.2, NM_006165.3 [Q6P4R8-2]
XP_011541153.1, XM_011542851.2 [Q6P4R8-2]
XP_011541154.1, XM_011542852.2 [Q6P4R8-2]
XP_016873285.1, XM_017017796.1 [Q6P4R8-1]
UniGeneiHs.530539

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3U21X-ray2.18A/B370-495[»]
4UF5X-ray3.70B40-170[»]
4UF6X-ray3.69C/F/I/L40-101[»]
4WLPX-ray3.10B40-153[»]
ProteinModelPortaliQ6P4R8
SMRiQ6P4R8
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi110864, 46 interactors
ComplexPortaliCPX-846 INO80 chromatin remodeling complex
CORUMiQ6P4R8
IntActiQ6P4R8, 18 interactors
MINTiQ6P4R8
STRINGi9606.ENSP00000436926

PTM databases

CarbonylDBiQ6P4R8
iPTMnetiQ6P4R8
PhosphoSitePlusiQ6P4R8

Polymorphism and mutation databases

BioMutaiNFRKB
DMDMi90101417

Proteomic databases

EPDiQ6P4R8
MaxQBiQ6P4R8
PaxDbiQ6P4R8
PeptideAtlasiQ6P4R8
PRIDEiQ6P4R8
ProteomicsDBi66983
66984 [Q6P4R8-2]
66985 [Q6P4R8-3]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000446488; ENSP00000400476; ENSG00000170322 [Q6P4R8-1]
ENST00000524746; ENSP00000433572; ENSG00000170322 [Q6P4R8-1]
ENST00000524794; ENSP00000436926; ENSG00000170322 [Q6P4R8-2]
GeneIDi4798
KEGGihsa:4798
UCSCiuc001qfg.4 human [Q6P4R8-1]

Organism-specific databases

CTDi4798
DisGeNETi4798
EuPathDBiHostDB:ENSG00000170322.14
GeneCardsiNFRKB
HGNCiHGNC:7802 NFRKB
HPAiHPA007082
HPA007128
MIMi164013 gene
neXtProtiNX_Q6P4R8
OpenTargetsiENSG00000170322
PharmGKBiPA31606
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1927 Eukaryota
ENOG410YHF2 LUCA
GeneTreeiENSGT00390000016213
HOGENOMiHOG000113775
HOVERGENiHBG082022
InParanoidiQ6P4R8
KOiK11671
OMAiVKCPPVP
OrthoDBiEOG091G03IX
PhylomeDBiQ6P4R8
TreeFamiTF324944

Enzyme and pathway databases

ReactomeiR-HSA-5689603 UCH proteinases
R-HSA-5696394 DNA Damage Recognition in GG-NER

Miscellaneous databases

ChiTaRSiNFRKB human
EvolutionaryTraceiQ6P4R8
GeneWikiiNFRKB
GenomeRNAii4798
PROiPR:Q6P4R8
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000170322 Expressed in 217 organ(s), highest expression level in buccal mucosa cell
CleanExiHS_NFRKB
ExpressionAtlasiQ6P4R8 baseline and differential
GenevisibleiQ6P4R8 HS

Family and domain databases

Gene3Di1.10.10.2430, 1 hit
InterProiView protein in InterPro
IPR024867 NFRKB
IPR025220 NFRKB_winged_dom
IPR038106 NFRKB_winged_sf
PANTHERiPTHR13052 PTHR13052, 1 hit
PfamiView protein in Pfam
PF14465 NFRKB_winged, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiNFRKB_HUMAN
AccessioniPrimary (citable) accession number: Q6P4R8
Secondary accession number(s): Q12869, Q15312, Q9H048
Entry historyiIntegrated into UniProtKB/Swiss-Prot: March 21, 2006
Last sequence update: March 21, 2006
Last modified: November 7, 2018
This is version 132 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (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.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. Human chromosome 11
    Human chromosome 11: entries, gene names and cross-references to MIM
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