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protein coding gene - xlf1 (SPCC24B10.14c) - XRCC4-like nonhomologous end joining factor, Cernunnon Xlf1/Nej1

Gene summary

Standard name
xlf1
Systematic ID
SPCC24B10.14c
Product
XRCC4-like nonhomologous end joining factor, Cernunnon Xlf1/Nej1
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
nej1, mug104
UniProt ID
Q9P7J2
ORFeome ID
08/08F04
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome III: 924212..925091 reverse strand

Annotation

Disease association

MONDO:0012650 - Cernunnos-XLF deficiency

References:

MONDO:0975809 - microphthalmia/coloboma 13

References:

GO biological process

GO:0006302 - double-strand break repair

References:

GO:0097680 - double-strand break repair via classical nonhomologous end joining

References:

GO:0006303 - double-strand break repair via nonhomologous end joining

References:

GO:0000724 - double-strand break repair via homologous recombination

References:

GO cellular component

GO:0032807 - DNA ligase IV complex

References:

GO:0005634 - nucleus

References:

GO molecular function

GO:0003677 - DNA binding

References:

Modification

MOD:00046 - O-phospho-L-serine

References:

MOD:00047 - O-phospho-L-threonine

References:

MOD:00696 - phosphorylated residue

References:

Multi-locus phenotype

FYPO:0004789 - circularized chromosome during mitotic G2 phase

References:

Genotypes:

FYPO:0003584 - increased double-strand break repair via nonhomologous end joining

References:

Genotypes:

FYPO:0000085 - sensitive to camptothecin

References:

Genotypes:

FYPO:0000267 - sensitive to ionizing radiation during vegetative growth

References:

Genotypes:

FYPO:0003929 - spores sensitive to ionizing radiation

References:

Genotypes:

Qualitative gene expression

PomGeneEx:0000018 - protein level increased

References:

PomGeneEx:0000011 - RNA level increased

References:

Quantitative gene expression

PBO:0011963 - RNA level

References:

Single locus phenotype

FYPO:0003661 - abnormal double-strand break repair via nonhomologous end joining

References:

Genotypes:

FYPO:0002678 - abolished protein phosphorylation

References:

Genotypes:

FYPO:0003928 - altered double-strand break repair junction in presence of persistent double-strand breaks

References:

Genotypes:

FYPO:0003912 - decreased double-strand break repair via homologous recombination

References:

Genotypes:

FYPO:0004287 - decreased double-strand break repair via nonhomologous end joining

References:

Genotypes:

FYPO:0000482 - decreased mitotic recombination

References:

Genotypes:

FYPO:0003927 - decreased population viability in presence of persistent double-strand breaks

References:

Genotypes:

FYPO:0002679 - decreased protein phosphorylation

References:

Genotypes:

FYPO:0004781 - delayed onset of mitotic G2 DNA damage checkpoint

References:

Genotypes:

FYPO:0003584 - increased double-strand break repair via nonhomologous end joining

References:

Genotypes:

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

FYPO:0004229 - normal growth during cellular response to ionizing radiation

References:

Genotypes:

FYPO:0001690 - normal growth on camptothecin

References:

Genotypes:

FYPO:0000089 - sensitive to methyl methanesulfonate

References:

Genotypes:

FYPO:0002344 - sensitive to phleomycin

References:

Genotypes:

FYPO:0000797 - sensitive to tert-butyl hydroperoxide

References:

Genotypes:

FYPO:0004782 - spores resistant to ionizing radiation

References:

Genotypes:

FYPO:0003929 - spores sensitive to ionizing radiation

References:

Genotypes:

FYPO:0002060 - viable vegetative cell population

References:

Genotypes:

FYPO:0002177 - viable vegetative cell with normal cell morphology

References:

Genotypes:

Subunit composition

PBO:0015212 - homomeric(2)

References:

Taxonomic conservation

PBO:0011065 - conserved in eukaryotes

PBO:0011071 - conserved in eukaryotes only

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

PBO:0006222 - predominantly single copy (one to one)

Protein features

IDNameInterPro nameDB name
PF09302XLFXLF-like_NPfam
PF21928XLF_CCXLF-like_CCPfam
cd22285HD_XLF_NCDD
G3DSA:2.170.210.10XRCC4-like_N_sfCATH-Gene3D

Orthologs

References / Literature

PMID:21712547 - Mitotic substrates of the kinase aurora with roles in chromatin regulation identified through quantitative phosphoproteomics of fission yeast.
Koch A et al. Sci Signal 2011 Jun 28;4(179):rs6
PMID:22681890 - Hierarchical modularity and the evolution of genetic interactomes across species.
Ryan CJ et al. Mol Cell 2012 Jun 08;46(5):691-704
PMID:18257517 - Phosphoproteome analysis of fission yeast.
Wilson-Grady JT et al. J Proteome Res 2008 Mar;7(3):1088-97
PMID:25533340 - Cdk1 restrains NHEJ through phosphorylation of XRCC4-like factor Xlf1.
Hentges P et al. Cell Rep 2014 Dec 24;9(6):2011-7
PMID:28974540 - The fission yeast nucleoporin Alm1 is required for proteasomal degradation of kinetochore components.
Salas-Pino S et al. J Cell Biol 2017 Nov 06;216(11):3591-3608
PMID:16823372 - ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.
Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7
PMID:25720772 - Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.
Kettenbach AN et al. Mol Cell Proteomics 2015 May;14(5):1275-87
PMID:30726745 - Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex.
Tay YD et al. Cell Rep 2019 Feb 05;26(6):1654-1667.e7
PMID:22093869 - Multiple end joining mechanisms repair a chromosomal DNA break in fission yeast.
Li P et al. DNA Repair (Amst) 2012 Feb 01;11(2):120-30
PMID:23697806 - A genome-wide resource of cell cycle and cell shape genes of fission yeast.
Hayles J et al. Open Biol 2013 May 22;3(5):130053
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:17151234 - Xlf1 is required for DNA repair by nonhomologous end joining in Schizosaccharomyces pombe.
Cavero S et al. Genetics 2007 Feb;175(2):963-7
PMID:23101633 - Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.
Marguerat S et al. Cell 2012 Oct 26;151(3):671-83
PMID:39367033 - Quantitative proteomics and phosphoproteomics profiling of meiotic divisions in the fission yeast Schizosaccharomyces pombe.
Sivakova B et al. Sci Rep 2024 Oct 04;14(1):23105
PMID:17038309 - Evolutionary and functional conservation of the DNA non-homologous end-joining protein, XLF/Cernunnos.
Hentges P et al. J Biol Chem 2006 Dec 08;281(49):37517-26
PMID:19547744 - Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species.
Beltrao P et al. PLoS Biol 2009 Jun 16;7(6):e1000134
PMID:20473289 - Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.
Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623
PMID:12161753 - The transcriptional program of meiosis and sporulation in fission yeast.
Mata J et al. Nat Genet 2002 Sep;32(1):143-7
PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
PMID:21931565 - Release of Ku and MRN from DNA ends by Mre11 nuclease activity and Ctp1 is required for homologous recombination repair of double-strand breaks.
Langerak P et al. PLoS Genet 2011 Sep;7(9):e1002271
PMID:24847916 - Genome-wide screens for sensitivity to ionizing radiation identify the fission yeast nonhomologous end joining factor Xrc4.
Li J et al. G3 (Bethesda) 2014 May 21;4(7):1297-306
PMID:33823663 - A TOR (target of rapamycin) and nutritional phosphoproteome of fission yeast reveals novel targets in networks conserved in humans.
Halova L et al. Open Biol 2021 Apr;11(4):200405
PMID:39476757 - Characterization of Ksg1 protein kinase-dependent phosphoproteome in the fission yeast S. pombe.
Cipak L et al. Biochem Biophys Res Commun 2024 Oct 25;736:150895
PMID:28357272 - A central role for TOR signalling in a yeast model for juvenile CLN3 disease.
Bond ME et al. Microb Cell 2015 Nov 11;2(12):466-480
PMID:24763107 - Absolute proteome and phosphoproteome dynamics during the cell cycle of Schizosaccharomyces pombe (Fission Yeast).
Carpy A et al. Mol Cell Proteomics 2014 Aug;13(8):1925-36