Mouse Gene Neil1 (ENSMUST00000190245.6) Description and Page Index
  Description: Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized pyrimidines, such as thymine glycol, formamidopyrimidine (Fapy) and 5-hydroxyuracil. Has marginal activity towards 8- oxoguanine. Has AP (apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Has DNA glycosylase/lyase activity towards mismatched uracil and thymine, in particular in U:C and T:C mismatches (By similarity). (from UniProt Q8K4Q6)
Gencode Transcript: ENSMUST00000190245.6
Gencode Gene: ENSMUSG00000032298.13
Transcript (Including UTRs)
   Position: mm10 chr9:57,142,800-57,148,127 Size: 5,328 Total Exon Count: 10 Strand: -
Coding Region
   Position: mm10 chr9:57,143,256-57,147,034 Size: 3,779 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsCTDRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther NamesModel Information
Methods
Data last updated: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:57,142,800-57,148,127)mRNA (may differ from genome)Protein (389 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaBioGPS
CGAPEnsemblExonPrimerGeneCardsMGIPubMed
ReactomeStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: NEIL1_MOUSE
DESCRIPTION: RecName: Full=Endonuclease 8-like 1; EC=3.2.2.-; EC=4.2.99.18; AltName: Full=DNA glycosylase/AP lyase Neil1; AltName: Full=DNA-(apurinic or apyrimidinic site) lyase Neil1; AltName: Full=Endonuclease VIII-like 1; AltName: Full=Nei homolog 1; Short=NEH1; AltName: Full=Nei-like protein 1;
FUNCTION: Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized pyrimidines, such as thymine glycol, formamidopyrimidine (Fapy) and 5-hydroxyuracil. Has marginal activity towards 8- oxoguanine. Has AP (apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Has DNA glycosylase/lyase activity towards mismatched uracil and thymine, in particular in U:C and T:C mismatches (By similarity).
CATALYTIC ACTIVITY: Removes damaged bases from DNA, leaving an abasic site.
CATALYTIC ACTIVITY: 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.
SUBCELLULAR LOCATION: Cytoplasm, cytoskeleton, centrosome. Nucleus. Chromosome. Note=During mitosis, associates with centrosomes and condensed chromatin (By similarity).
TISSUE SPECIFICITY: Detected in heart, spleen and lung.
INDUCTION: Up-regulated during S-phase (By similarity).
SIMILARITY: Belongs to the FPG family.
SEQUENCE CAUTION: Sequence=BAB28790.1; Type=Frameshift; Positions=344;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -20.4067-0.304 Picture PostScript Text
3' UTR -132.40456-0.290 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR015886 - DNA_glyclase/AP_lyase_DNA-bd
IPR012319 - DNA_glycosylase/AP_lyase_cat
IPR015371 - Endonuclease-VIII_DNA-bd
IPR010979 - Ribosomal_S13-like_H2TH

Pfam Domains:
PF01149 - Formamidopyrimidine-DNA glycosylase N-terminal domain
PF06831 - Formamidopyrimidine-DNA glycosylase H2TH domain
PF09292 - Endonuclease VIII-like 1, DNA bind

SCOP Domains:
46946 - S13-like H2TH domain
81624 - N-terminal domain of MutM-like DNA repair proteins
57716 - Glucocorticoid receptor-like (DNA-binding domain)

ModBase Predicted Comparative 3D Structure on Q8K4Q6
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003684 damaged DNA binding
GO:0003824 catalytic activity
GO:0003906 DNA-(apurinic or apyrimidinic site) lyase activity
GO:0008022 protein C-terminus binding
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0016798 hydrolase activity, acting on glycosyl bonds
GO:0016799 hydrolase activity, hydrolyzing N-glycosyl compounds
GO:0016829 lyase activity
GO:0019104 DNA N-glycosylase activity

Biological Process:
GO:0006281 DNA repair
GO:0006284 base-excision repair
GO:0006289 nucleotide-excision repair
GO:0006974 cellular response to DNA damage stimulus
GO:0006979 response to oxidative stress
GO:0008152 metabolic process
GO:0032074 negative regulation of nuclease activity

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005694 chromosome
GO:0005737 cytoplasm
GO:0005815 microtubule organizing center
GO:0005856 cytoskeleton


-  Descriptions from all associated GenBank mRNAs
  BC043297 - Mus musculus nei endonuclease VIII-like 1 (E. coli), mRNA (cDNA clone MGC:49102 IMAGE:5320651), complete cds.
AK155405 - Mus musculus NOD-derived CD11c +ve dendritic cells cDNA, RIKEN full-length enriched library, clone:F630224P08 product:nei endonuclease VIII-like 1 (E. coli), full insert sequence.
AK013322 - Mus musculus 10, 11 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2810450N13 product:hypothetical Formamidopyrimidine-DNA glycolase containing protein, full insert sequence.
BC034873 - Mus musculus cDNA clone IMAGE:1399170, containing frame-shift errors.
AK040802 - Mus musculus adult male aorta and vein cDNA, RIKEN full-length enriched library, clone:A530026C20 product:unclassifiable, full insert sequence.
AK211559 - Mus musculus cDNA, clone:Y2G0122C14, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000034842, based on BLAT search.
AB079069 - Mus musculus Nei1 mRNA for endonuclease VIII, complete cds.
AK219577 - Mus musculus cDNA, clone:Y2G0148O09, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000034842, based on BLAT search.
AK186023 - Mus musculus cDNA, clone:Y0G0136A03, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000034842, based on BLAT search.
AK217763 - Mus musculus cDNA, clone:Y2G0142O10, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000034842, based on BLAT search.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu03410 - Base excision repair

Reactome (by CSHL, EBI, and GO)

Protein Q8K4Q6 (Reactome details) participates in the following event(s):

R-MMU-5649658 NEIL1 cleaves DHU from damaged DNA
R-MMU-5649664 NEIL1 cleaves FapyG from damaged DNA
R-MMU-5649673 NEIL1 cleaves FapyA from damaged DNA
R-MMU-5649701 NEIL1,NEIL2 displace OGG1 from AP-dsDNA
R-MMU-5649711 NEIL1,NEIL2 incises DNA strand 5' to the AP site
R-MMU-5649726 LIG3:XRCC1 and PNKP bind NEIL1,NEIL2:POLB:SSB(3'Pi)-gap-dsDNA
R-MMU-5649725 POLB excises the NEIL1,NEIL2-bound AP site (5'dRP)
R-MMU-5649723 POLB incorporates a single nucleotide in place of excised AP residue in NEIL1,NEIL2-mediated AP site resolution
R-MMU-5649705 PNKP hydrolyzes the terminal 3'Pi at the NEIL1,NEIL2-generated single strand break (SSB)
R-MMU-5649708 NEIL1,NEIL2 recruits POLB to incised AP site
R-MMU-5649734 LIG3 ligates NEIL1,NEIL2-generated single strand break
R-MMU-110329 Cleavage of the damaged pyrimidine
R-MMU-5649702 APEX1-Independent Resolution of AP Sites via the Single Nucleotide Replacement Pathway
R-MMU-73928 Depyrimidination
R-MMU-73933 Resolution of Abasic Sites (AP sites)
R-MMU-73929 Base-Excision Repair, AP Site Formation
R-MMU-73884 Base Excision Repair
R-MMU-73894 DNA Repair

-  Other Names for This Gene
  Alternate Gene Symbols: AK013322, Nei1, NEIL1_MOUSE, Q80V58, Q8K4Q6, Q9CYT9, uc009puj.1, uc009puj.2
UCSC ID: uc009puj.2
RefSeq Accession: NM_028347
Protein: Q8K4Q6 (aka NEIL1_MOUSE)
CCDS: CCDS23217.1

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.