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Ddb2 damage specific DNA binding protein 2 [ Mus musculus (house mouse) ]

Gene ID: 107986, updated on 18-Apr-2024

Summary

Official Symbol
Ddb2provided by MGI
Official Full Name
damage specific DNA binding protein 2provided by MGI
Primary source
MGI:MGI:1355314
See related
Ensembl:ENSMUSG00000002109 AllianceGenome:MGI:1355314
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
2610043A19Rik
Summary
Predicted to enable DNA binding activity. Predicted to contribute to damaged DNA binding activity and ubiquitin-protein transferase activity. Acts upstream of or within pyrimidine dimer repair. Predicted to be located in cell junction and nucleoplasm. Predicted to be part of Cul4B-RING E3 ubiquitin ligase complex. Predicted to be active in nucleus. Used to study xeroderma pigmentosum group E. Human ortholog(s) of this gene implicated in xeroderma pigmentosum and xeroderma pigmentosum group E. Orthologous to human DDB2 (damage specific DNA binding protein 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in mammary gland adult (RPKM 18.6), spleen adult (RPKM 15.8) and 28 other tissues See more
Orthologs
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Genomic context

Location:
2 E1; 2 50.56 cM
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (91041924..91067465, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (91211545..91237132, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene MAP-kinase activating death domain Neighboring gene STARR-positive B cell enhancer mm9_chr2:91023256-91023557 Neighboring gene STARR-positive B cell enhancer ABC_E4478 Neighboring gene nuclear receptor subfamily 1, group H, member 3 Neighboring gene STARR-positive B cell enhancer ABC_E9070 Neighboring gene predicted gene, 23390 Neighboring gene acid phosphatase 2, lysosomal Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:91057269-91057452 Neighboring gene RIKEN cDNA A330069E16 gene Neighboring gene STARR-positive B cell enhancer ABC_E8985 Neighboring gene predicted gene, 31054

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (4) 
  • Targeted (3)  1 citation

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC117576

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
contributes_to damaged DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
contributes_to damaged DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
 
contributes_to ubiquitin-protein transferase activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in DNA damage response EXP
Inferred from Experiment
more info
PubMed 
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
 
involved_in DNA repair IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in UV-damage excision repair ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to UV EXP
Inferred from Experiment
more info
PubMed 
involved_in cellular response to UV ISO
Inferred from Sequence Orthology
more info
 
involved_in nucleotide-excision repair ISO
Inferred from Sequence Orthology
more info
 
involved_in protein autoubiquitination ISO
Inferred from Sequence Orthology
more info
 
involved_in protein polyubiquitination ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within pyrimidine dimer repair IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in response to UV IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in response to UV ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
part_of Cul4-RING E3 ubiquitin ligase complex ISO
Inferred from Sequence Orthology
more info
 
part_of Cul4A-RING E3 ubiquitin ligase complex EXP
Inferred from Experiment
more info
PubMed 
part_of Cul4A-RING E3 ubiquitin ligase complex ISO
Inferred from Sequence Orthology
more info
 
part_of Cul4B-RING E3 ubiquitin ligase complex ISO
Inferred from Sequence Orthology
more info
 
located_in cell junction ISO
Inferred from Sequence Orthology
more info
 
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus NAS
Non-traceable Author Statement
more info
PubMed 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 
is_active_in site of DNA damage ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
DNA damage-binding protein 2

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001362705.1NP_001349634.1  DNA damage-binding protein 2 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AK158770, BC099410, CK627126
    UniProtKB/TrEMBL
    Q4FZK4
    Conserved Domains (1) summary
    sd00039
    Location:114151
    7WD40; WD40 repeat [structural motif]
  2. NM_028119.5NP_082395.2  DNA damage-binding protein 2 isoform 1

    See identical proteins and their annotated locations for NP_082395.2

    Status: VALIDATED

    Source sequence(s)
    BC058589, BU515611, CK627126
    Consensus CDS
    CCDS16428.1
    UniProtKB/Swiss-Prot
    Q99J79
    Related
    ENSMUSP00000028696.5, ENSMUST00000028696.5
    Conserved Domains (3) summary
    COG2319
    Location:58431
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:115154
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:115419
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    91041924..91067465 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036157313.1XP_036013206.1  DNA damage-binding protein 2 isoform X1

    Conserved Domains (2) summary
    sd00039
    Location:115154
    7WD40; WD40 repeat [structural motif]
    cl29593
    Location:115293
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

RNA

  1. XR_374383.4 RNA Sequence

  2. XR_001780206.2 RNA Sequence