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protein coding gene - apn2 (SPBC3D6.10) - AP-endonuclease Apn2

Gene summary

Standard name
apn2
Systematic ID
SPBC3D6.10
Product
AP-endonuclease Apn2
Organism
Schizosaccharomyces pombe (fission yeast)
UniProt ID
P87175
ORFeome ID
25/25G11
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome II: 1287389..1290094 forward strand

Annotation

GO biological process

GO:0006284 - base-excision repair

References:

GO:0006281 - DNA repair

References:

GO cellular component

GO:0005634 - nucleus

References:

GO molecular function

GO:0003677 - DNA binding

References:

GO:0003906 - DNA-(apurinic or apyrimidinic site) endonuclease activity

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GO:0008311 - double-stranded DNA 3'-5' DNA exonuclease activity

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GO:0004528 - phosphodiesterase I activity

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GO:0005515 - protein binding

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GO:0008270 - zinc ion binding

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Modification

MOD:00595 - monomannosylated residue

References:

MOD:00046 - O-phospho-L-serine

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Multi-locus phenotype

FYPO:0001355 - decreased vegetative cell population growth

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Genotypes:

FYPO:0002148 - inviable after spore germination, multiple cell divisions, abnormal morphology

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Genotypes:

FYPO:0002061 - inviable vegetative cell population

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Genotypes:

FYPO:0000256 - mutator

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Genotypes:

FYPO:0005775 - sensitive to acetaldehyde

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Genotypes:

FYPO:0003384 - sensitive to chromium

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Genotypes:

FYPO:0000102 - sensitive to cisplatin

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Genotypes:

FYPO:0007330 - sensitive to formaldehyde

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Genotypes:

FYPO:0000087 - sensitive to hydrogen peroxide

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Genotypes:

FYPO:0000089 - sensitive to methyl methanesulfonate

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Genotypes:

FYPO:0002060 - viable vegetative cell population

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Genotypes:

Quantitative gene expression

PBO:0006310 - protein level

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PBO:0011963 - RNA level

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Single locus phenotype

FYPO:0000251 - decreased cell population growth on galactose carbon source

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Genotypes:

FYPO:0001355 - decreased vegetative cell population growth

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Genotypes:

FYPO:0003938 - increased cell population growth during glucose starvation

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Genotypes:

FYPO:0009077 - increased cell population growth on ethanol carbon source

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Genotypes:

FYPO:0009052 - increased cell population growth on glutamate nitrogen source

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Genotypes:

FYPO:0009094 - increased cell population growth on lysine and proline nitrogen source

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Genotypes:

FYPO:0009093 - increased cell population growth on lysine and serine nitrogen source

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Genotypes:

FYPO:0009028 - increased cell population growth on proline nitrogen source

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Genotypes:

FYPO:0009074 - increased cell population growth on serine nitrogen source

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Genotypes:

FYPO:0009096 - increased cell population growth on xylose carbon source

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Genotypes:

FYPO:0006518 - loss of viability in G0

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Genotypes:

FYPO:0000245 - loss of viability in stationary phase

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Genotypes:

FYPO:0000256 - mutator

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Genotypes:

FYPO:0007553 - normal G1 to G0 transition

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Genotypes:

FYPO:0005776 - normal growth on acetaldehyde

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Genotypes:

FYPO:0006679 - normal growth on chromium

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Genotypes:

FYPO:0001164 - normal growth on glucose carbon source

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Genotypes:

FYPO:0000957 - normal growth on methyl methanesulfonate

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Genotypes:

FYPO:0009041 - resistance to 2,2′-dipyridyl

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Genotypes:

FYPO:0009066 - resistance to amorolfine

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Genotypes:

FYPO:0009036 - resistance to benzamidine

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Genotypes:

FYPO:0000763 - resistance to cadmium

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Genotypes:

FYPO:0000764 - resistance to cycloheximide

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Genotypes:

FYPO:0002693 - resistance to diamide

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Genotypes:

FYPO:0009038 - resistance to egtazic acid

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Genotypes:

FYPO:0001034 - resistance to tunicamycin

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Genotypes:

FYPO:0007921 - sensitive to benzamidine

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Genotypes:

FYPO:0000095 - sensitive to bleomycin

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Genotypes:

FYPO:0000097 - sensitive to caffeine during vegetative growth

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Genotypes:

FYPO:0000104 - sensitive to cycloheximide

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Genotypes:

FYPO:0007931 - sensitive to egtazic acid

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Genotypes:

FYPO:0000842 - sensitive to ethanol during vegetative growth

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Genotypes:

FYPO:0007330 - sensitive to formaldehyde

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Genotypes:

FYPO:0000785 - sensitive to formamide

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Genotypes:

FYPO:0000087 - sensitive to hydrogen peroxide

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Genotypes:

FYPO:0000088 - sensitive to hydroxyurea

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Genotypes:

FYPO:0001719 - sensitive to lithium

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Genotypes:

FYPO:0009084 - sensitive to lithium chloride and methyl methanesulfonate

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Genotypes:

FYPO:0009088 - sensitive to magnesium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0000089 - sensitive to methyl methanesulfonate

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Genotypes:

FYPO:0009082 - sensitive to potassium chloride and methyl methanesulfonate

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Genotypes:

FYPO:0007924 - sensitive to potassium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0000111 - sensitive to rapamycin

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Genotypes:

FYPO:0002328 - sensitive to terbinafine

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Genotypes:

FYPO:0000797 - sensitive to tert-butyl hydroperoxide

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Genotypes:

FYPO:0002701 - sensitive to torin1

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Genotypes:

FYPO:0000115 - sensitive to valproic acid

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Genotypes:

FYPO:0009064 - sensitive to X-rays and rapamycin during vegetative growth.

References:

Genotypes:

FYPO:0009063 - sensitive to X-rays during vegetative growth

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Genotypes:

FYPO:0002060 - viable vegetative cell population

References:

Genotypes:

FYPO:0002177 - viable vegetative cell with normal cell morphology

References:

Genotypes:

Taxonomic conservation

PBO:0011067 - conserved in bacteria

PBO:0011065 - conserved in eukaryotes

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
PF03372Exo_endo_phosEndo/exonuclease/phosphatasePfam
cd09088Ape2-like_AP-endoCDD
PS00726AP_NUCLEASE_F1_1AP_endonuclease_F1_BSPROSITE patterns
PS00727AP_NUCLEASE_F1_2AP_endonuclease_F1_CSPROSITE patterns
PS51435AP_NUCLEASE_F1_4AP_endonuc_1PROSITE profiles
PS51999ZF_GRFZnf_GRFPROSITE profiles
G3DSA:3.60.10.10:FF:000079CATH-FunFam
G3DSA:3.60.10.10Endo/exonu/phosph_ase_sfCATH-Gene3D
SSF56219Endo/exonu/phosph_ase_sfSUPERFAMILY
PTHR22748AP_endonuc_1PANTHER
TIGR00633xthAP_endonuc_1NCBIFAM
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Polardisorder_predictionMobiDB-Polar

Orthologs

References / Literature

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:22748672 - Polynucleotide kinase/phosphatase, Pnk1, is involved in base excision repair in Schizosaccharomyces pombe.
Kashkina E et al. DNA Repair (Amst) 2012 Aug 01;11(8):676-83
PMID:16857169 - The role of Schizosaccharomyces pombe DNA repair enzymes Apn1p and Uve1p in the base excision repair of apurinic/apyrimidinic sites.
Tanihigashi H et al. Biochem Biophys Res Commun 2006 Sep 08;347(4):889-94
PMID:18270439 - Involvement of 3-methyladenine DNA glycosylases Mag1p and Mag2p in base excision repair of methyl methanesulfonate-damaged DNA in the fission yeast Schizosaccharomyces pombe.
Kanamitsu K et al. Genes Genet Syst 2007 Dec;82(6):489-94
PMID:18344406 - Schizosaccharomyces pombe Hst4 functions in DNA damage response by regulating histone H3 K56 acetylation.
Haldar D et al. Eukaryot Cell 2008 May;7(5):800-13
PMID:18818364 - Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast.
Roguev A et al. Science 2008 Oct 17;322(5900):405-10
PMID:21183410 - Schizosaccharomyces pombe Mms1 channels repair of perturbed replication into Rhp51 independent homologous recombination.
Vejrup-Hansen R et al. DNA Repair (Amst) 2011 Mar 07;10(3):283-95
PMID:14704348 - The major role of human AP-endonuclease homolog Apn2 in repair of abasic sites in Schizosaccharomyces pombe.
Ribar B et al. Nucleic Acids Res 2004;32(1):115-26
PMID:14599746 - Fission yeast Uve1 and Apn2 function in distinct oxidative damage repair pathways in vivo.
Fraser JL et al. DNA Repair (Amst) 2003 Nov 21;2(11):1253-67
PMID:33260998 - High-Throughput Flow Cytometry Combined with Genetic Analysis Brings New Insights into the Understanding of Chromatin Regulation of Cellular Quiescence.
Zahedi Y et al. Int J Mol Sci 2020 Nov 27;21(23)
PMID:32034465 - Genetic investigation of formaldehyde-induced DNA damage response in Schizosaccharomyces pombe.
Anandarajan V et al. Curr Genet 2020 Jun;66(3):593-605
PMID:37787768 - Broad functional profiling of fission yeast proteins using phenomics and machine learning.
Rodríguez-López M et al. Elife 2023 Oct 03;12
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:25293972 - Increased meiotic crossovers and reduced genome stability in absence of Schizosaccharomyces pombe Rad16 (XPF).
Mastro TL et al. Genetics 2014 Dec;198(4):1457-72
PMID:36793083 - The SAGA histone acetyltransferase module targets SMC5/6 to specific genes.
Mahrik L et al. Epigenetics Chromatin 2023 Feb 16;16(1):6
PMID:22084197 - AP endonuclease independent repair of abasic sites in Schizosaccharomyces pombe.
Nilsen L et al. Nucleic Acids Res 2012 Mar;40(5):2000-9
PMID:24559510 - Interaction of apurinic/apyrimidinic endonuclease 2 (Apn2) with Myh1 DNA glycosylase in fission yeast.
Jin J et al. DNA Repair (Amst) 2014 Mar;15:1-10
PMID:26644575 - Discovery of a nucleocytoplasmic O-mannose glycoproteome in yeast.
Halim A et al. Proc Natl Acad Sci U S A 2015 Dec 22;112(51):15648-53
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: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: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:23245849 - Sculpting of DNA at abasic sites by DNA glycosylase homolog mag2.
Dalhus B et al. Structure 2013 Jan 08;21(1):154-166
PMID:27687866 - Genetic controls of DNA damage avoidance in response to acetaldehyde in fission yeast.
Noguchi C et al. Cell Cycle 2017 Jan 02;16(1):45-58
PMID:34250083 - Barcode sequencing and a high-throughput assay for chronological lifespan uncover ageing-associated genes in fission yeast.
Romila CA et al. Microb Cell 2021 Jul 05;8(7):146-160
PMID:30148840 - Tdp1 processes chromate-induced single-strand DNA breaks that collapse replication forks.
Ganguly A et al. PLoS Genet 2018 Aug;14(8):e1007595
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:15722486 - Biochemical characterization and DNA repair pathway interactions of Mag1-mediated base excision repair in Schizosaccharomyces pombe.
Alseth I et al. Nucleic Acids Res 2005;33(3):1123-31
PMID:17277362 - Brc1-mediated rescue of Smc5/6 deficiency: requirement for multiple nucleases and a novel Rad18 function.
Lee KM et al. Genetics 2007 Apr;175(4):1585-95
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:25795664 - Genetic Interaction Landscape Reveals Critical Requirements for Schizosaccharomyces pombe Brc1 in DNA Damage Response Mutants.
Sánchez A et al. G3 (Bethesda) 2015 Mar 19;5(5):953-62
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: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:16076563 - Roles of base excision repair enzymes Nth1p and Apn2p from Schizosaccharomyces pombe in processing alkylation and oxidative DNA damage.
Sugimoto T et al. DNA Repair (Amst) 2005 Nov 21;4(11):1270-80
GO_REF:0000002 - Comments
PMID:29635344 - Histone H3 lysine 36 methyltransferase mobilizes NER factors to regulate tolerance against alkylation damage in fission yeast.
Lim KK et al. Nucleic Acids Res 2018 Jun 01;46(10):5061-5074