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Protein

Non-homologous end-joining factor 1

Gene

Nhej1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

DNA repair protein involved in DNA nonhomologous end joining (NHEJ) required for double-strand break (DSB) repair and V(D)J recombination. May serve as a bridge between XRCC4 and the other NHEJ factors located at DNA ends, or may participate in reconfiguration of the end bound NHEJ factors to allow XRCC4 access to the DNA termini. It may act in concert with XRCC6/XRCC5 (Ku) to stimulate XRCC4-mediated joining of blunt ends and several types of mismatched ends that are noncomplementary or partially complementary.1 Publication

GO - Molecular functioni

GO - Biological processi

  • B cell differentiation Source: UniProtKB
  • DNA recombination Source: InterPro
  • double-strand break repair via nonhomologous end joining Source: UniProtKB
  • response to ionizing radiation Source: UniProtKB
  • T cell differentiation Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Non-homologous end-joining factor 1
Alternative name(s):
Protein cernunnos
XRCC4-like factor
Gene namesi
Name:Nhej1
Synonyms:Xlf
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Unplaced

Organism-specific databases

MGIiMGI:1922820. Nhej1.

Subcellular locationi

GO - Cellular componenti

  • nonhomologous end joining complex Source: UniProtKB
  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Embryonic stem cells are highly sensitive to ionizing radiation and have intrinsic DNA double-strand break repair defects.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 295295Non-homologous end-joining factor 1PRO_0000228655Add
BLAST

Proteomic databases

MaxQBiQ3KNJ2.
PRIDEiQ3KNJ2.

PTM databases

PhosphoSiteiQ3KNJ2.

Expressioni

Gene expression databases

BgeeiQ3KNJ2.
CleanExiMM_NHEJ1.
ExpressionAtlasiQ3KNJ2. baseline and differential.
GenevisibleiQ3KNJ2. MM.

Interactioni

Subunit structurei

Exists mainly as a homodimer. Interacts with XRCC4 and the XRCC4-LIG4 complex. Binds DNA in a length-dependent manner (By similarity).By similarity

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000116797.

Structurei

3D structure databases

ProteinModelPortaliQ3KNJ2.
SMRiQ3KNJ2. Positions 1-227.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 135135Globular headBy similarityAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili128 – 17043By similarityAdd
BLAST

Domaini

The coiled-coil region mediates homodimerization.By similarity

Sequence similaritiesi

Belongs to the XLF family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiNOG47408.
HOVERGENiHBG080703.
InParanoidiQ3KNJ2.
KOiK10980.
PhylomeDBiQ3KNJ2.

Family and domain databases

Gene3Di2.170.210.10. 1 hit.
InterProiIPR015381. XLF_fam.
IPR009089. XRCC4_N.
[Graphical view]
PfamiPF09302. XLF. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q3KNJ2-1) [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
MEELEQDLLL QPWAWLQLAE NSLLAKVSIT KHGYALLISD LQQVWHEQVD
60 70 80 90 100
TSVVSQRAKE LNKRLTAPPA ALLCHLDEAL RPLFKDSAHP SKATFSCDRG
110 120 130 140 150
EEGLILRVQS ELSGLPFSWH FHCIPASSSL VSQHLIHPLM GVSLALQSHV
160 170 180 190 200
RELAALLRMK DLEIQAYQES GAVLSRSRLK TEPFEENSFL EQFMAEKLPE
210 220 230 240 250
ACAVGDGKPF AMSLQSLYVA VTKQQIQARQ AHKDSGETQA SSSTSPRGTD
260 270 280 290
NQPEEPVSLS STLSEPEYEP VAASGPMHRA RLVKSKRKKP RGLFS
Length:295
Mass (Da):32,739
Last modified:November 8, 2005 - v1
Checksum:i679D548AC627696D
GO
Isoform 2 (identifier: Q3KNJ2-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     131-196: Missing.

Note: No experimental confirmation available.
Show »
Length:229
Mass (Da):25,233
Checksum:iAE78F572827EBE7C
GO

Sequence cautioni

The sequence BAB24611.1 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti260 – 2601S → P in AAH06063 (PubMed:15489334).Curated
Sequence conflicti281 – 2811R → Q in AAH06063 (PubMed:15489334).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei131 – 19666Missing in isoform 2. 1 PublicationVSP_017690Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK006481 mRNA. Translation: BAB24611.1. Different initiation.
BC006063 mRNA. Translation: AAH06063.1.
BC107252 mRNA. Translation: AAI07253.1.
BC107253 mRNA. Translation: AAI07254.1.
BC132359 mRNA. Translation: AAI32360.1.
BC132361 mRNA. Translation: AAI32362.1.
RefSeqiNP_083618.3. NM_029342.4. [Q3KNJ2-1]
UniGeneiMm.442409.

Genome annotation databases

GeneIDi75570.
KEGGimmu:75570.
UCSCiuc029qpd.1. mouse. [Q3KNJ2-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK006481 mRNA. Translation: BAB24611.1. Different initiation.
BC006063 mRNA. Translation: AAH06063.1.
BC107252 mRNA. Translation: AAI07253.1.
BC107253 mRNA. Translation: AAI07254.1.
BC132359 mRNA. Translation: AAI32360.1.
BC132361 mRNA. Translation: AAI32362.1.
RefSeqiNP_083618.3. NM_029342.4. [Q3KNJ2-1]
UniGeneiMm.442409.

3D structure databases

ProteinModelPortaliQ3KNJ2.
SMRiQ3KNJ2. Positions 1-227.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000116797.

PTM databases

PhosphoSiteiQ3KNJ2.

Proteomic databases

MaxQBiQ3KNJ2.
PRIDEiQ3KNJ2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi75570.
KEGGimmu:75570.
UCSCiuc029qpd.1. mouse. [Q3KNJ2-1]

Organism-specific databases

CTDi79840.
MGIiMGI:1922820. Nhej1.

Phylogenomic databases

eggNOGiNOG47408.
HOVERGENiHBG080703.
InParanoidiQ3KNJ2.
KOiK10980.
PhylomeDBiQ3KNJ2.

Miscellaneous databases

NextBioi343394.
PROiQ3KNJ2.
SOURCEiSearch...

Gene expression databases

BgeeiQ3KNJ2.
CleanExiMM_NHEJ1.
ExpressionAtlasiQ3KNJ2. baseline and differential.
GenevisibleiQ3KNJ2. MM.

Family and domain databases

Gene3Di2.170.210.10. 1 hit.
InterProiIPR015381. XLF_fam.
IPR009089. XRCC4_N.
[Graphical view]
PfamiPF09302. XLF. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Strain: C57BL/6J.
    Tissue: Testis.
  2. "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).
    Strain: Czech II.
    Tissue: Brain and Mammary tumor.
  3. "Defective DNA repair and increased genomic instability in Cernunnos-XLF-deficient murine ES cells."
    Zha S., Alt F.W., Cheng H.-L., Brush J.W., Li G.
    Proc. Natl. Acad. Sci. U.S.A. 104:4518-4523(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DISRUPTION PHENOTYPE.

Entry informationi

Entry nameiNHEJ1_MOUSE
AccessioniPrimary (citable) accession number: Q3KNJ2
Secondary accession number(s): A2RT39, Q99JK0, Q9D9U0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 21, 2006
Last sequence update: November 8, 2005
Last modified: July 22, 2015
This is version 79 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.