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pseudogene - apn1 (SPCC622.17) - AP endonuclease, Apn1

Gene summary

Standard name
apn1
Systematic ID
SPCC622.17
Product
AP endonuclease, Apn1
Organism
Schizosaccharomyces pombe (fission yeast)
ORFeome ID
17/17C08
Feature type
pseudogene
Genomic location
chromosome III: 1435153..1436649 forward strand

Annotation

GO biological process

GO:0006284 - base-excision repair

References:

GO cellular component

GO:0005737 - cytoplasm

References:

GO:0005829 - cytosol

References:

GO:0005739 - mitochondrion

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GO:0005634 - nucleus

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GO molecular function

GO:0003677 - DNA binding

References:

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

References:

GO:0008081 - phosphoric diester hydrolase activity

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GO:0008270 - zinc ion binding

References:

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

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Genome organisation

PBO:0036529 - alternative transcript

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Quantitative gene expression

PBO:0011963 - RNA level

References:

Single locus phenotype

FYPO:0000957 - normal growth on methyl methanesulfonate

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Genotypes:

FYPO:0001234 - slow vegetative cell population growth

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Genotypes:

FYPO:0002060 - viable vegetative cell population

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Genotypes:

FYPO:0002177 - viable vegetative cell with normal cell morphology

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Genotypes:

Taxonomic conservation

PBO:0011067 - conserved in bacteria

PBO:0011065 - conserved in eukaryotes

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

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

Warnings

PBO:0000070 - gene structure updated

References:

PBO:0015269 - major transcript in 972 h- is non-functional as it contains a stop codon

References:

Protein features

IDNameInterPro nameDB name
PF01261AP_endonuc_2Xyl_isomerase-like_TIM-brlPFAM
cd00019AP2EcAP_endonuc_2CDD
PS00729AP_NUCLEASE_F2_1AP_endonuc_F2_Zn_BSPROSITE_PATTERNS
PS00731AP_NUCLEASE_F2_3AP_endonuc_F2_Zn_BSPROSITE_PATTERNS
PS00730AP_NUCLEASE_F2_2AP_endonuc_F2_Zn_BSPROSITE_PATTERNS
PS51432AP_NUCLEASE_F2_4AP_endonuc_2PROSITE_PROFILES
SM00518ap2real3AP_endonuc_2SMART
G3DSA:3.20.20.150:FF:000001FUNFAM
SSF51658Xylose isomerase-likeXyl_isomerase-like_sfSUPERFAMILY
G3DSA:3.20.20.150GENE3D
PTHR21445ENDONUCLEASE IV ENDODEOXYRIBONUCLEASE IVAP_endonuc_2PANTHER
MF_00152NfoAP_endonuc_2HAMAP
mobidb-lite-Disorderdisorder_predictionMOBIDB-Disorder
mobidb-lite-Polyampholytedisorder_predictionMOBIDB-Polyampholyte
TIGR00587nfoAP_endonuc_2NCBIFAM

Orthologs

References / Literature

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: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: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: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
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
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:25452419 - Parallel profiling of fission yeast deletion mutants for proliferation and for lifespan during long-term quiescence.
Sideri T et al. G3 (Bethesda) 2014 Dec 01;5(1):145-55
PMID:21193357 - Schizosaccharomyces pombe encodes a mutated AP endonuclease 1.
Laerdahl JK et al. DNA Repair (Amst) 2011 Mar 07;10(3):296-305
PMID:16914721 - Upf1, an RNA helicase required for nonsense-mediated mRNA decay, modulates the transcriptional response to oxidative stress in fission yeast.
Rodríguez-Gabriel MA et al. Mol Cell Biol 2006 Sep;26(17):6347-56
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
GO_REF:0000002 - Comments
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:9524207 - Schizosaccharomyces pombe apn1 encodes a homologue of the Escherichia coli endonuclease IV family of DNA repair proteins.
Ramotar D et al. Biochim Biophys Acta 1998 Mar 04;1396(1):15-20
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: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