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Protein

DNA-(apurinic or apyrimidinic site) lyase

Gene

Apex1

Organism
Rattus norvegicus (Rat)
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Initiates repair of AP sites in DNA by catalyzing hydrolytic incision of the phosphodiester backbone immediately adjacent to the damage, generating a single-strand break with 5'-deoxyribose phosphate and 3'-hydroxyl ends.UniRule annotation

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.UniRule annotation

Cofactori

Mg2+UniRule annotation, Mn2+UniRule annotationNote: Probably binds two magnesium or manganese ions per subunit.UniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

EndonucleaseUniRule annotation, Hydrolase, LyaseUniRule annotation, Nuclease

Keywords - Biological processi

DNA damage, DNA repairUniRule annotation

Keywords - Ligandi

DNA-bindingUniRule annotation, MagnesiumUniRule annotation, Metal-bindingUniRule annotation

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-(apurinic or apyrimidinic site) lyaseUniRule annotation (EC:4.2.99.18UniRule annotation)
Gene namesi
Name:Apex1Imported
Synonyms:ApexImported
OrganismiRattus norvegicus (Rat)Imported
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus

Organism-specific databases

RGDi2126. Apex1.

Subcellular locationi

  • Nucleus UniRule annotation
  • Cytoplasm UniRule annotation
  • Mitochondrion UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

CytoplasmUniRule annotation, MitochondrionUniRule annotation, NucleusUniRule annotation

PTM / Processingi

Proteomic databases

PRIDEiQ99PF3.

Interactioni

Protein-protein interaction databases

IntActiQ99PF3. 1 interaction.
MINTiMINT-4613115.

Structurei

3D structure databases

ProteinModelPortaliQ99PF3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini60 – 14081Endo/exonuclease/phosphataseInterPro annotationAdd
BLAST
Domaini149 – 280132Endo/exonuclease/phosphataseInterPro annotationAdd
BLAST

Sequence similaritiesi

Belongs to the DNA repair enzymes AP/ExoA family.UniRule annotation

Phylogenomic databases

HOVERGENiHBG050531.

Family and domain databases

Gene3Di3.60.10.10. 2 hits.
InterProiIPR004808. AP_endonuc_1.
IPR020847. AP_endonuclease_F1_BS.
IPR020848. AP_endonuclease_F1_CS.
IPR005135. Endo/exonuclease/phosphatase.
[Graphical view]
PANTHERiPTHR22748. PTHR22748. 1 hit.
PfamiPF03372. Exo_endo_phos. 2 hits.
[Graphical view]
SUPFAMiSSF56219. SSF56219. 1 hit.
TIGRFAMsiTIGR00633. xth. 2 hits.
PROSITEiPS00726. AP_NUCLEASE_F1_1. 1 hit.
PS00727. AP_NUCLEASE_F1_2. 1 hit.
PS00728. AP_NUCLEASE_F1_3. 1 hit.
PS51435. AP_NUCLEASE_F1_4. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Fragment.

Q99PF3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
KRAAAEDGEE PKSEPETKKS KGAAKKTEKE AAGEGPVLYE DPPDQKTSAS
60 70 80 90 100
GKSATLKICS WNVDGLRAWI KKKGLDWVKE EAPDILCLQE TKCSENKLPA
110 120 130 140 150
ELQELPGLTH QYWSAPSDKE GYSGVGLLSR QCPLKVSYGI AYVPNAGRGL
160 170 180 190 200
VRLEYRQRWD EAFRKFLKDL ASRKPLVLCG DLNVAHEEID LRNPKGNKKN
210 220 230 240 250
AGFTPQERQG FGEMLQAVPL ADSFRHLYPN TAYAYTFWTY MMNARSKNVG
260 270 280
WRLDYFLLSH SLLPALCDSK IRSKALGSDH CPITLYLAL
Length:289
Mass (Da):32,353
Last modified:June 1, 2001 - v1
Checksum:i67E82454D062CE51
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Non-terminal residuei1 – 11Imported

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF311054 mRNA. Translation: AAG49922.1.
UniGeneiRn.5949.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF311054 mRNA. Translation: AAG49922.1.
UniGeneiRn.5949.

3D structure databases

ProteinModelPortaliQ99PF3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ99PF3. 1 interaction.
MINTiMINT-4613115.

Proteomic databases

PRIDEiQ99PF3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Organism-specific databases

RGDi2126. Apex1.

Phylogenomic databases

HOVERGENiHBG050531.

Family and domain databases

Gene3Di3.60.10.10. 2 hits.
InterProiIPR004808. AP_endonuc_1.
IPR020847. AP_endonuclease_F1_BS.
IPR020848. AP_endonuclease_F1_CS.
IPR005135. Endo/exonuclease/phosphatase.
[Graphical view]
PANTHERiPTHR22748. PTHR22748. 1 hit.
PfamiPF03372. Exo_endo_phos. 2 hits.
[Graphical view]
SUPFAMiSSF56219. SSF56219. 1 hit.
TIGRFAMsiTIGR00633. xth. 2 hits.
PROSITEiPS00726. AP_NUCLEASE_F1_1. 1 hit.
PS00727. AP_NUCLEASE_F1_2. 1 hit.
PS00728. AP_NUCLEASE_F1_3. 1 hit.
PS51435. AP_NUCLEASE_F1_4. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Xie Z.H., Liu C.Z., He Y.H., Wang A.M., Ma C.
    Submitted (OCT-2000) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: NorwayImported.

Entry informationi

Entry nameiQ99PF3_RAT
AccessioniPrimary (citable) accession number: Q99PF3
Entry historyi
Integrated into UniProtKB/TrEMBL: June 1, 2001
Last sequence update: June 1, 2001
Last modified: July 6, 2016
This is version 88 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

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 one 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.