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Protein

DNA-(apurinic or apyrimidinic site) lyase 1

Gene

apn1

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein uncertaini

Functioni

DNA repair enzyme that cleaves apurinic/apyrimidinic (AP) sites and removes 3'-blocking groups present at single strand breaks of damaged DNA. Provides back-up AP endonuclease (APE) activity to apn2 together with uve1.1 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.

Cofactori

Zn2+By similarityNote: Binds 3 Zn2+ ions.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi61 – 611Zinc 1By similarity
Metal bindingi136 – 1361Zinc 1By similarity
Metal bindingi136 – 1361Zinc 2By similarity
Metal bindingi170 – 1701Zinc 2By similarity
Metal bindingi173 – 1731Zinc 3By similarity
Metal bindingi207 – 2071Zinc 2By similarity
Metal bindingi220 – 2201Zinc 3By similarity
Metal bindingi222 – 2221Zinc 3By similarity
Metal bindingi252 – 2521Zinc 2By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-(apurinic or apyrimidinic site) lyase 1 (EC:4.2.99.18)
Alternative name(s):
Apurinic-apyrimidinic endonuclease 1
Short name:
AP endonuclease 1
Gene namesi
Name:apn1
ORF Names:SPCC622.17
OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Taxonomic identifieri284812 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
ProteomesiUP000002485 Componenti: Chromosome III

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 342342DNA-(apurinic or apyrimidinic site) lyase 1PRO_0000190897Add
BLAST

Interactioni

Protein-protein interaction databases

MINTiMINT-4690690.

Structurei

3D structure databases

ProteinModelPortaliP50525.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the AP endonuclease 2 family.Curated

Phylogenomic databases

eggNOGiCOG0648.
HOGENOMiHOG000224893.
InParanoidiP50525.
OrthoDBiEOG71VT48.
PhylomeDBiP50525.

Family and domain databases

Gene3Di3.20.20.150. 1 hit.
HAMAPiMF_00152. Nfo.
InterProiIPR001719. AP_endonuc_2.
IPR018246. AP_endonuc_F2_Zn_BS.
IPR013022. Xyl_isomerase-like_TIM-brl.
[Graphical view]
PANTHERiPTHR21445. PTHR21445. 1 hit.
PfamiPF01261. AP_endonuc_2. 1 hit.
[Graphical view]
SMARTiSM00518. AP2Ec. 1 hit.
[Graphical view]
SUPFAMiSSF51658. SSF51658. 1 hit.
TIGRFAMsiTIGR00587. nfo. 1 hit.
PROSITEiPS00729. AP_NUCLEASE_F2_1. 1 hit.
PS00730. AP_NUCLEASE_F2_2. 1 hit.
PS00731. AP_NUCLEASE_F2_3. 1 hit.
PS51432. AP_NUCLEASE_F2_4. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P50525-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MCAINKAYLL TKFYISANSC AFFVKSQRKW TSPDLSEDVA QKFLETASEM
60 70 80 90 100
KFDASKQVLV HGSYLINMAN ADEQKREQAF NCFVDDLKRC ERLGVGLYNF
110 120 130 140 150
HPGSTASCTK EEGINNLAEC INRAHEETKS VIIVTENMAG QGNCLGGTFD
160 170 180 190 200
DFAALKSKIK NLDRWRVCLD TCHTFAAGYD IRTEESYKKV IDEFDEKVGA
210 220 230 240 250
KYVSGWHLND SKAPLGSNRD LHENIGLGFL GLEPFRLIMN DSRWDGIPLV
260 270 280 290 300
LETPAKSPEQ WKKEVELLRF MVGKSSDDVE LMKESARLSN LGAASRKEHL
310 320 330 340
NKFEKKEAKK DRKKKSKDGD QTTLLLRKKQ KLGNAEVKSL DE
Length:342
Mass (Da):38,657
Last modified:June 7, 2004 - v3
Checksum:iC6711EC23691C51D
GO

Sequence cautioni

The sequence AAC28163.1 differs from that shown.Intron retention.Curated
The sequence AAC28163.1 differs from that shown. Reason: Frameshift at position 298. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY483157 mRNA. Translation: AAR83751.1.
CU329672 Genomic DNA. No translation available.
U33625 mRNA. Translation: AAC28163.1. Sequence problems.
PIRiT52563.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY483157 mRNA. Translation: AAR83751.1.
CU329672 Genomic DNA. No translation available.
U33625 mRNA. Translation: AAC28163.1. Sequence problems.
PIRiT52563.

3D structure databases

ProteinModelPortaliP50525.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

MINTiMINT-4690690.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

eggNOGiCOG0648.
HOGENOMiHOG000224893.
InParanoidiP50525.
OrthoDBiEOG71VT48.
PhylomeDBiP50525.

Miscellaneous databases

NextBioi20799976.
PROiP50525.

Family and domain databases

Gene3Di3.20.20.150. 1 hit.
HAMAPiMF_00152. Nfo.
InterProiIPR001719. AP_endonuc_2.
IPR018246. AP_endonuc_F2_Zn_BS.
IPR013022. Xyl_isomerase-like_TIM-brl.
[Graphical view]
PANTHERiPTHR21445. PTHR21445. 1 hit.
PfamiPF01261. AP_endonuc_2. 1 hit.
[Graphical view]
SMARTiSM00518. AP2Ec. 1 hit.
[Graphical view]
SUPFAMiSSF51658. SSF51658. 1 hit.
TIGRFAMsiTIGR00587. nfo. 1 hit.
PROSITEiPS00729. AP_NUCLEASE_F2_1. 1 hit.
PS00730. AP_NUCLEASE_F2_2. 1 hit.
PS00731. AP_NUCLEASE_F2_3. 1 hit.
PS51432. AP_NUCLEASE_F2_4. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The major role of human AP-endonuclease homolog Apn2 in repair of abasic sites in Schizosaccharomyces pombe."
    Ribar B., Izumi T., Mitra S.
    Nucleic Acids Res. 32:115-126(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION.
  2. "The genome sequence of Schizosaccharomyces pombe."
    Wood V., Gwilliam R., Rajandream M.A., Lyne M.H., Lyne R., Stewart A., Sgouros J.G., Peat N., Hayles J., Baker S.G., Basham D., Bowman S., Brooks K., Brown D., Brown S., Chillingworth T., Churcher C.M., Collins M.
    , Connor R., Cronin A., Davis P., Feltwell T., Fraser A., Gentles S., Goble A., Hamlin N., Harris D.E., Hidalgo J., Hodgson G., Holroyd S., Hornsby T., Howarth S., Huckle E.J., Hunt S., Jagels K., James K.D., Jones L., Jones M., Leather S., McDonald S., McLean J., Mooney P., Moule S., Mungall K.L., Murphy L.D., Niblett D., Odell C., Oliver K., O'Neil S., Pearson D., Quail M.A., Rabbinowitsch E., Rutherford K.M., Rutter S., Saunders D., Seeger K., Sharp S., Skelton J., Simmonds M.N., Squares R., Squares S., Stevens K., Taylor K., Taylor R.G., Tivey A., Walsh S.V., Warren T., Whitehead S., Woodward J.R., Volckaert G., Aert R., Robben J., Grymonprez B., Weltjens I., Vanstreels E., Rieger M., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Duesterhoeft A., Fritzc C., Holzer E., Moestl D., Hilbert H., Borzym K., Langer I., Beck A., Lehrach H., Reinhardt R., Pohl T.M., Eger P., Zimmermann W., Wedler H., Wambutt R., Purnelle B., Goffeau A., Cadieu E., Dreano S., Gloux S., Lelaure V., Mottier S., Galibert F., Aves S.J., Xiang Z., Hunt C., Moore K., Hurst S.M., Lucas M., Rochet M., Gaillardin C., Tallada V.A., Garzon A., Thode G., Daga R.R., Cruzado L., Jimenez J., Sanchez M., del Rey F., Benito J., Dominguez A., Revuelta J.L., Moreno S., Armstrong J., Forsburg S.L., Cerutti L., Lowe T., McCombie W.R., Paulsen I., Potashkin J., Shpakovski G.V., Ussery D., Barrell B.G., Nurse P.
    Nature 415:871-880(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 972 / ATCC 24843.
  3. Seeger K., Harris D., Lyne M., Rajandream M.A., Barrell B.G.
    Submitted (MAY-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: SEQUENCE REVISION.
  4. "Schizosaccharomyces pombe apn1 encodes a homologue of the Escherichia coli endonuclease IV family of DNA repair proteins."
    Ramotar D., Vadnais J., Masson J.Y., Tremblay S.
    Biochim. Biophys. Acta 1396:15-20(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1-319.
  5. "Schizosaccharomyces pombe encodes a mutated AP endonuclease 1."
    Laerdahl J.K., Korvald H., Nilsen L., Dahl-Michelsen K., Rognes T., Bjoras M., Alseth I.
    DNA Repair 10:296-305(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: LACK OF FUNCTION.

Entry informationi

Entry nameiAPN1_SCHPO
AccessioniPrimary (citable) accession number: P50525
Secondary accession number(s): Q9USI8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: June 7, 2004
Last modified: June 24, 2015
This is version 112 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Caution

Could be the product of a pseudogene. This is a truncated version of AP endonuclease 1. In strain 972 and its derivative FY527, this gene has a stop codon in position 5, which disrupts the gene coding for this protein. PubMed:21193357 shows that the truncated protein is not functional. A full sequence for apn1 can be found in strains SPK19802 (S.pombe var. kambucha), NCYC 132, NCYC 683, NCYC 936 and NCYC 2722 (PubMed:21193357).1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
  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.