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Protein

DNA-(apurinic or apyrimidinic site) lyase 2

Gene

APN2

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

DNA repair enzyme that cleaves apurinic/apyrimidinic (AP) sites and removes 3'-blocking groups present at single strand breaks of damaged DNA.

Miscellaneous

Present with 414 molecules/cell in log phase SD medium.1 Publication

Catalytic activityi

The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate.PROSITE-ProRule annotation

Cofactori

Mg2+By similarity, Mn2+By similarityNote: Probably binds two magnesium or manganese ions per subunit.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi59Magnesium 1By similarity1
Active sitei181By similarity1
Active sitei222Proton donor/acceptorBy similarity1
Metal bindingi222Magnesium 2By similarity1
Metal bindingi224Magnesium 2By similarity1
Sitei224Transition state stabilizerBy similarity1
Sitei328Important for catalytic activityBy similarity1
Metal bindingi353Magnesium 1By similarity1

GO - Molecular functioni

  • DNA-(apurinic or apyrimidinic site) lyase activity Source: SGD
  • DNA binding Source: InterPro
  • double-stranded DNA 3'-5' exodeoxyribonuclease activity Source: SGD
  • phosphoric diester hydrolase activity Source: SGD
  • zinc ion binding Source: InterPro

GO - Biological processi

  • base-excision repair Source: SGD

Keywordsi

Molecular functionLyase
Biological processDNA damage, DNA repair
LigandMagnesium, Metal-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-28922-MONOMER.
ReactomeiR-SCE-110357. Displacement of DNA glycosylase by APEX1.
R-SCE-110373. Resolution of AP sites via the multiple-nucleotide patch replacement pathway.
R-SCE-5651801. PCNA-Dependent Long Patch Base Excision Repair.
R-SCE-73933. Resolution of Abasic Sites (AP sites).

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-(apurinic or apyrimidinic site) lyase 2 (EC:4.2.99.18)
Alternative name(s):
AP endonuclease 2
Apurinic-apyrimidinic endonuclease 2
Gene namesi
Name:APN2
Synonyms:ETH1
Ordered Locus Names:YBL019W
ORF Names:YBL0443
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome II

Organism-specific databases

EuPathDBiFungiDB:YBL019W.
SGDiS000000115. APN2.

Subcellular locationi

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

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002000201 – 520DNA-(apurinic or apyrimidinic site) lyase 2Add BLAST520

Proteomic databases

MaxQBiP38207.
PRIDEiP38207.

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei354Interaction with DNA substrateBy similarity1

Protein-protein interaction databases

BioGridi32679. 71 interactors.
DIPiDIP-3930N.
IntActiP38207. 7 interactors.
MINTiMINT-515848.
STRINGi4932.YBL019W.

Structurei

3D structure databases

ProteinModelPortaliP38207.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the DNA repair enzymes AP/ExoA family.Curated

Phylogenomic databases

GeneTreeiENSGT00530000063540.
HOGENOMiHOG000246560.
InParanoidiP38207.
KOiK10772.
OMAiMYTVWNT.
OrthoDBiEOG092C1JOF.

Family and domain databases

Gene3Di3.60.10.10. 1 hit.
InterProiView protein in InterPro
IPR004808. AP_endonuc_1.
IPR020848. AP_endonuclease_F1_CS.
IPR005135. Endo/exonuclease/phosphatase.
IPR010666. Znf_GRF.
PANTHERiPTHR22748. PTHR22748. 1 hit.
PfamiView protein in Pfam
PF03372. Exo_endo_phos. 1 hit.
PF06839. zf-GRF. 1 hit.
SUPFAMiSSF56219. SSF56219. 2 hits.
PROSITEiView protein in PROSITE
PS00728. AP_NUCLEASE_F1_3. 1 hit.
PS51435. AP_NUCLEASE_F1_4. 1 hit.

Sequencei

Sequence statusi: Complete.

P38207-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSSENTLLD GKSENTIRFL TFNVNGIRTF FHYQPFSQMN QSLRSVFDFF
60 70 80 90 100
RADIITFQEL KTEKLSISKW GRVDGFYSFI SIPQTRKGYS GVGCWIRIPE
110 120 130 140 150
KNHPLYHALQ VVKAEEGITG YLTIKNGKHS AISYRNDVNQ GIGGYDSLDP
160 170 180 190 200
DLDEKSALEL DSEGRCVMVE LACGIVIISV YCPANSNSSE EGEMFRLRFL
210 220 230 240 250
KVLLRRVRNL DKIGKKIVLM GDVNVCRDLI DSADTLEQFS IPITDPMGGT
260 270 280 290 300
KLEAQYRDKA IQFIINPDTP HRRIFNQILA DSLLPDASKR GILIDTTRLI
310 320 330 340 350
QTRNRLKMYT VWNMLKNLRP SNYGSRIDFI LVSLKLERCI KAADILPDIL
360 370 380 390 400
GSDHCPVYSD LDILDDRIEP GTTQVPIPKF EARYKYNLRN HNVLEMFAKK
410 420 430 440 450
DTNKESNKQK YCVSKVMNTK KNSNIKNKSL DSFFQKVNGE KDDRIKESSE
460 470 480 490 500
IPQQAKKRIS TPKLNFKDVF GKPPLCRHGE ESMLKTSKTS ANPGRKFWIC
510 520
KRSRGDSNNT ESSCGFFQWV
Length:520
Mass (Da):59,445
Last modified:October 1, 1994 - v1
Checksum:iE3947C4D904C53FB
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti15N → D in AAT93202 (PubMed:17322287).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z35780 Genomic DNA. Translation: CAA84838.1.
AY693183 Genomic DNA. Translation: AAT93202.1.
BK006936 Genomic DNA. Translation: DAA07101.1.
PIRiS45753.
RefSeqiNP_009534.1. NM_001178259.1.

Genome annotation databases

EnsemblFungiiYBL019W; YBL019W; YBL019W.
GeneIDi852262.
KEGGisce:YBL019W.

Similar proteinsi

Entry informationi

Entry nameiAPN2_YEAST
AccessioniPrimary (citable) accession number: P38207
Secondary accession number(s): D6VPY1, E9P926
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1994
Last sequence update: October 1, 1994
Last modified: September 27, 2017
This is version 133 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome II
    Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names