DDB1 Gene
protein-coding GIFtS: 63
GCID: GC11M061066
|
|
damage-specific DNA binding protein 1, 127kDa(Previous name: damage-specific DNA binding protein 1 (127kD) )
| |
Aliases
for DDB1 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Damage-Specific DNA Binding Protein 1, 127kDa1 2 | | UV-DDB 12 3 | | XPE1 2 | | XPE-Binding Factor2 3 | | Xeroderma Pigmentosum Group E-Complementing Protein2 3 | | Damage-Specific DNA Binding Protein 1 (127kD)1 | | XAP-12 3 | | DDBA2 | | XAP12 3 | | UV-DDB12 | | XPE-BF2 3 | | XPCE2 | | DDB P127 Subunit2 3 | | DNA Damage-Binding Protein 12 | | DNA Damage-Binding Protein A2 3 | | DDBa3 | | HBV X-Associated Protein 12 3 | | XPCe3 | | UV-Damaged DNA-Binding Factor2 3 | | Damage-Specific DNA-Binding Protein 13 | | UV-Damaged DNA-Binding Protein 12 3 | | |
Export aliases for DDB1 gene to outside databasesPrevious GC identifers: GC11P063499 GC11M062579 GC11M061317 GC11M060842 GC11M060823 GC11M057394 |
Summaries
for DDB1 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for DDB1:
The protein encoded by this gene is the large subunit (p127) of the heterodimeric DNA damage-binding (DDB) complexwhile another protein (p48) forms the small subunit. This protein complex functions in nucleotide-excision repair andbinds to DNA following UV damage. Defective activity of this complex causes the repair defect in patients withxeroderma pigmentosum complementation group E (XPE) - an autosomal recessive disorder characterized byphotosensitivity and early onset of carcinomas. However, it remains for mutation analysis to demonstrate whether thedefect in XPE patients is in this gene or the gene encoding the small subunit. In addition, Best vitelliform masculardystrophy is mapped to the same region as this gene on 11q, but no sequence alternations of this gene are demonstratedin Best disease patients. The protein encoded by this gene also functions as an adaptor molecule for the cullin 4(CUL4) ubiquitin E3 ligase complex by facilitating the binding of substrates to this complex and the ubiquitination ofproteins. (provided by RefSeq, May 2012)
UniProtKB/Swiss-Prot: DDB1_HUMAN, Q16531Function: Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDBcomplex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excisionrepair pathway (the NER pathway) to initiate DNA repair. The UV-DDB complex preferentially binds to cyclobutanepyrimidine dimers (CPD), 6-4 photoproducts (6-4 PP), apurinic sites and short mismatches. Also appears to function asa component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate theubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1.DCX(DDB2) (also known as DDB1-CUL4-ROC1, CUL4-DDB-ROC1 and CUL4-DDB-RBX1) may ubiquitinate histone H2A, histone H3 andhistone H4 at sites of UV-induced DNA damage. The ubiquitination of histones may facilitate their removal from thenucleosome and promote subsequent DNA repair. DCX(DDB2) also ubiquitinates XPC, which may enhance DNA-binding by XPCand promote NER. DCX(DTL) plays a role in PCNA-dependent polyubiquitination of CDT1 and MDM2-dependent ubiquitinationof TP53 in response to radiation-induced DNA damage and during DNA replication. DCX(ERCC8) (the CSA complex) plays arole in transcription-coupled repair (TCR). May also play a role in ubiquitination of CDKN1B/p27kip when associatedwith CUL4 and SKP2
Gene Wiki entry for DDB1
|
Genomic Views
for DDB1 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000011.9 NC_018922.1 NT_167190.1
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the DDB1 gene promoter:
NF-1 STAT3 CUTL1 Tal-1beta ITF-2 YY1
Other transcription factors
Search SABiosciences Chromatin IP Primers for DDB1
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat DDB1 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 11q12-q13 Ensembl cytogenetic band: 11q12.2 HGNC cytogenetic band: 11q12-q13DDB1 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 11 GeneLoc Exon Structure GeneLoc location for GC11M061066: view genomic region
(about GC identifiers)
Start:
|
61,066,919 bp from pter |
End:
|
61,110,068 bp from pter |
Size:
|
43,150 bases |
Orientation:
|
minus strand |
|
Proteins
for DDB1 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: DDB1_HUMAN, Q16531 (See
protein sequence)Recommended Name: DNA damage-binding protein 1 Size: 1140 amino acids; 126968 Da
Subunit: Component of the UV-DDB complex which includes DDB1 and DDB2. The UV-DDB complex interacts withmonoubiquitinated histone H2A and binds to XPC via the DDB2 subunit. Component of numerous DCX (DDB1-CUL4-X-box) E3ubiquitin-protein ligase complexes which consist of a core of DDB1, CUL4A or CUL4B and RBX1. DDB1 may recruit specificsubstrate targeting subunits to the DCX complex. These substrate targeting subunits are generally known as DCAF (DDB1-and CUL4-associated factor) or CDW (CUL4-DDB1-associated WD40-repeat) proteins. Interacts with AMBRA1, ATG16L1, BTRC,DCAF1, DCAF17, DCAF16, DCAF15, DDA1, DET1, DTL, ERCC8, FBXW5, FBXW8, GRWD1, DCAF6, KATNB1, NLE1, NUP43, PAFAH1B1,PHIP, PWP1, RBBP4, RBBP5, RBBP7, RFWD2, SNRNP40, VPRBP, WDR5, WDR5B, WDR12, DCAF4, DCAF5, DCAF11, WDR26, DCAF10,WDR39, DCAF12, WDR42, DCAF8, WDR53, WDR59, WDR61, DCAF7, WSB1, WSB2 and WDTC1. DCX complexes may associate with theCOP9 signalosome, and this inhibits the E3 ubiquitin-protein ligase activity of the complex. Interacts with NF2, TSC1and TSC2. Interacts with Simian virus 5 protein V and the HBV X protein. Interaction with SV5 protein V may preventthe recruitment of DCAF proteins to DCX complexes. Interacts with EIF2C1 and EIF2C2. Associates with the E3 ligasecomplex containing DYRK2, EDD/UBR5, DDB1 and VPRBP proteins (EDVP complex). Interacts directly with DYRK2
Subcellular location: Cytoplasm. Nucleus. Note=Primarily cytoplasmic. Translocates to the nucleus following UVirradiation and subsequently accumulates at sites of DNA damage
6/27 PDB 3D structures from  and Proteopedia  for DDB1 (see all 27):2B5L (3D)
2B5M (3D)
2B5N (3D)
2HYE (3D)
3E0C (3D)
3EI1 (3D)
Secondary accessions: A6NG77 B2R648 O15176 Q13289 Q58F96Explore the universe of human proteins at neXtProt for DDB1: NX_Q16531
Post-translational modifications:
Phosphorylated by ABL1 (By similarity)1
Ubiquitinated by CUL4A. Subsequently degraded by ubiquitin-dependent proteolysis1
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q16531
DDB1 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_001914.3
ENSEMBL proteins: ENSP00000301764 ENSP00000399813 ENSP00000440269 ENSP00000441522 ENSP00000439787 ENSP00000445844 ENSP00000444650 ENSP00000442732 ENSP00000437713 ENSP00000445563 ENSP00000446044 ENSP00000442660 ENSP00000445554 ENSP00000441825 ENSP00000444105 ENSP00000440660 ENSP00000388705 Reactome Protein details: Q16531
Human Recombinant Protein Products:
Gene Ontology (GO): 5/6 cellular component terms (GO ID links to tree view) (see all 6): About this table
DDB1 for ontologies About GeneDecksing
DDB1 Antibody Products:
Assay Products for DDB1: |
Protein
Domains /
Families
for DDB1 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
DDB1 for domains About GeneDecksing
2 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q16531ProtoNet protein and cluster: Q16531 1 Blocks protein family: IPB004871 CPSF A subunit C-terminal
UniProtKB/Swiss-Prot: DDB1_HUMAN, Q16531Similarity: Belongs to the DDB1 family |
Function
for DDB1 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: DDB1_HUMAN, Q16531Function: Required for DNA repair. Binds to DDB2 to form the UV-damaged DNA-binding protein complex (the UV-DDBcomplex). The UV-DDB complex may recognize UV-induced DNA damage and recruit proteins of the nucleotide excisionrepair pathway (the NER pathway) to initiate DNA repair. The UV-DDB complex preferentially binds to cyclobutanepyrimidine dimers (CPD), 6-4 photoproducts (6-4 PP), apurinic sites and short mismatches. Also appears to function asa component of numerous distinct DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes which mediate theubiquitination and subsequent proteasomal degradation of target proteins. The functional specificity of the DCX E3ubiquitin-protein ligase complex is determined by the variable substrate recognition component recruited by DDB1.DCX(DDB2) (also known as DDB1-CUL4-ROC1, CUL4-DDB-ROC1 and CUL4-DDB-RBX1) may ubiquitinate histone H2A, histone H3 andhistone H4 at sites of UV-induced DNA damage. The ubiquitination of histones may facilitate their removal from thenucleosome and promote subsequent DNA repair. DCX(DDB2) also ubiquitinates XPC, which may enhance DNA-binding by XPCand promote NER. DCX(DTL) plays a role in PCNA-dependent polyubiquitination of CDT1 and MDM2-dependent ubiquitinationof TP53 in response to radiation-induced DNA damage and during DNA replication. DCX(ERCC8) (the CSA complex) plays arole in transcription-coupled repair (TCR). May also play a role in ubiquitination of CDKN1B/p27kip when associatedwith CUL4 and SKP2 Genatlas biochemistry entry for DDB1:damage specific DNA binding protein 1,p127 subunit,absent from cell strains from a minority of individuals withXP-E,possibly involved in nucleotide excision repair
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for DDB1 (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for DDB1
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: DDB1 (NM_001923) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for DDB1 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat DDB1 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for DDB1 |
Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view): About this table
DDB1 for ontologies About GeneDecksing
8 GenomeRNAi human phenotypes for DDB1:
Animal Models:
Mouse knock-out Ddb1tm1.1Spg for DDB1
5 MGI mutant phenotypes (inferred from 2 alleles ) (MGI details for Ddb1):
DDB1 for phenotypes About GeneDecksing
|
Pathways & Interactions
for DDB1 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Unified GeneCards pathways About this table
See pathways by source
| Super-pathway | contained gene-specific pathways |
|---|
| 1 | Global Genomic NER (GG-NER) | | | 2 | Nucleotide Excision Repair | | | 3 | Protein Stability | | | 4 | DNA Damage | | | 5 | Antigen processing: Ubiquitination & Proteasome degradation | |
Pathway sources
See GeneCards unified pathways
Show all pathways
2 
Cell Signaling Technology (CST) Pathways for DDB1
5 
Reactome Pathways for DDB1
2 
Kegg Pathways (Kegg details for DDB1):
UniProtKB/Swiss-Prot: DDB1_HUMAN, Q16531Pathway: Protein modification; protein ubiquitination
DDB1 for pathways About GeneDecksing
Interactions:
SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for DDB1
STRING Interaction
Network Preview (showing 5 interactants - click image to see 25)
5/808 Interacting proteins for DDB1 (Q165311, 2, 3 ENSP000003017644) via UniProtKB, MINT, STRING, and/or I2D (see all 808)
About this table
Gene Ontology (GO): 5/9 biological process terms (GO ID links to tree view) (see all 9): About this table
DDB1 for ontologies About GeneDecksing
|
Drugs & Compounds
for DDB1 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
DDB1 for compounds About GeneDecksing
 Browse Tocris compounds for DDB1
1 HMDB Compound for DDB1 About this table
3 Novoseek chemical compound relationships for DDB1 gene About this table
Search CenterWatch for drugs/clinical trials and news about DDB1
|
Transcripts
for DDB1 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for DDB1 gene: NM_001923.4 Unigene Cluster for DDB1: Damage-specific DNA binding protein 1, 127kDa Hs.290758 [show with all ESTs]Unigene Representative Sequence: NM_00192318/26 Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 26): ENST00000301764(uc001nrc.4 uc010rle.1 uc001nrd.2 uc009ynl.1)
ENST00000451943 ENST00000545894 ENST00000540166(uc010rlf.1) ENST00000538470
ENST00000539332 ENST00000543658 ENST00000535147 ENST00000537877 ENST00000414411
ENST00000535967 ENST00000539739 ENST00000540784 ENST00000538280 ENST00000545930(uc010rlg.1)
ENST00000535174 ENST00000539712 ENST00000541513
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for DDB1 (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for DDB1
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: DDB1 (NM_001923) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for DDB1 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat DDB1 |
Additional cDNA sequence: AJ002955.1 AK294341.1 AK294493.1 AK302924.1 AK303032.1 AK311112.1 AK311476.1 AK312436.1 BC011686.2 BC021044.1 BC032080.1 BC050530.1 BC051764.2 L40326.1 U18299.1 U32986.1 24/45 DOTS entries (see all 45): DT.100887611 DT.100887618 DT.92463405 DT.97808133 DT.87017915 DT.95139100 DT.95082821 DT.95244963 DT.100887634 DT.120694269 DT.100887610 DT.87017916 DT.120694373 DT.100887613 DT.120694233 DT.99963513 DT.99999519 DT.120694209 DT.120694240 DT.120694248 DT.450673 DT.95138964 DT.100887633 DT.100887636 24/1044 AceView cDNA sequences (see all 1044): AU140653 AI273870 BE781135 CD613383 AL572720 AA291628 AI251469 AI924125 BE695060 BQ772669 AA708351 BM456004 BX283675 AW028839 BM666103 BU848704 BU688954 BQ639260 BQ330998 AI969089 BQ637443 R53165 AW081952 AA298052
GeneLoc Exon Structure
5/9 Alternative Splicing Database (ASD) splice patterns (SP) for DDB1 (see all 9) About this scheme
| ExUns: | 1 | ^ | 2a | · | 2b | ^ | 3 | ^ | 4 | ^ | 5a | · | 5b | ^ | 6 | ^ | 7a | · | 7b | ^ | 8 | ^ | 9 | ^ | 10 | ^ | 11 | ^ | 12 | ^ | 13 | ^ | 14 | ^ | 15 | ^ | 16 | ^ | 17 | ^ | 18a | · | 18b | ^ | 19 | ^ | 20 | ^ | 21 | ^ | 22 | ^ |
|---|
|
| SP1: | | | | | | | - | | | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - | | - | | - | | - | | - | | |
| SP4: | | | - | | | | - | | | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | - | | | | - | | - | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| ExUns: | 23 | ^ | 24 | ^ | 25a | · | 25b | ^ | 26a | · | 26b | · | 26c | · | 26d | ^ | 27a | · | 27b | · | 27c | · | 27d | · | 27e | ^ | 28 | ^ | 29a | · | 29b |
|---|
|
| SP1: | | | | | - | | | | | | | | | | | | - | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP3: | - | | - | | - | | - | | - | | | | | | | | - | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for DDB1
|
Expression
for DDB1 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| DDB1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: GGTAGCCTGG
About this image
See DDB1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for DDB1
SOURCE GeneReport for Unigene cluster: Hs.290758
SABiosciences Expression via Pathway-Focused PCR Arrays including DDB1:
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for DDB1
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat DDB1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat DDB1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat DDB1 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for DDB1 |
Orthologs
for DDB1 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of eukaryotes.
Orthologs for DDB1 gene from 8/33 species (see all 33) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
chicken
(Gallus gallus) |
Aves |
DDB11 |
damage-specific DNA binding protein 1, 127kDa |
83.77(n)
97.11(a) |
|
374050 NM_204216.2 NP_989547.1 |
lizard
(Anolis carolinensis) |
Reptilia |
DDB16 |
-- |
96(a) |
1 ↔ 1 |
GL343235.1(749901-783107) |
African clawed frog
(Xenopus laevis) |
Amphibia |
MGC684762 |
hypothetical protein MGC68476 |
78.85(n) |
|
BC061946.1 |
zebrafish
(Danio rerio) |
Actinopterygii |
zgc638402 |
hypothetical protein MGC63840 |
78.83(n) |
|
393599 BC056837.1 |
fruit fly
(Drosophila melanogaster) |
Insecta |
DDB13
pic1 |
nucleotide-excision repair damaged DNA
binding3
piccolo1 |
60(a)3
60.53(n)1
61.59(a)1 |
|
87D113
416111 NM_142000.21 NP_650257.11 |
worm
(Caenorhabditis elegans) |
Secernentea |
M18.53 |
DNA repair protein like |
37(a) |
|
IV(12115373-12121295) -- |
thale cress
(Arabidopsis thaliana) |
eudicotyledons |
DDB1A1 |
DNA damage-binding protein 1a |
55.85(n)
55.98(a) |
|
825890 NM_116781.2 NP_192451.1 |
rice
(Oryza sativa) |
Liliopsida |
Os.4192 |
Oryza sativa (japonica cultivar-group) OsUV-DDB mRNA more |
73.64(n) |
|
AK065508.1 |
ENSEMBL Gene Tree for DDB1 (if available)
TreeFam Gene Tree for DDB1 (if available) |
Paralogs
for DDB1 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for DDB1 gene
- SF3B32
DDB1 for paralogs About GeneDecksing
|
Genomic Variants
for DDB1 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 11 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for DDB1 (61066919 - 61110068 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 3 variations for DDB1
3 CNVs: 4748 85813 3854 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing DDB1 |
|
Disorders
/ Diseases
for DDB1 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database, Novoseek,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
DDB1 for disorders About GeneDecksing
OMIM gene information: 600045
OMIM disorders: --
13  diseases for DDB1: About MalaCardsxeroderma pigmentosum xeroderma pigmentosum, group e, subtype 2 photosensitive trichthiodystrophy vitelliform macular dystrophy
anaplastic large cell lymphoma macular dystrophy carcinoma cockayne syndrome
hepatitis b adrenocortical carcinoma liver cancer hepatitis
immunodeficiency
3 diseases from the University of Copenhagen DISEASES database for DDB1:Xeroderma pigmentosum Cockayne syndrome Photosensitive trichothiodystrophy 7 Novoseek disease relationships for DDB1 gene About this table
| Disease |
-log (P-Val) |
Hits |
PubMed IDs for Articles with Shared Sentences (# sentences) |
| xeroderma pigmentosum, complementation group e |
95.4 |
5 |
16260596 (1), 7523888 (1), 8538642 (1), 19382146 (1) |
| xeroderma pigmentosum |
87 |
8 |
9632823 (1), 7523888 (1), 12181326 (1), 19181111 (1) (see all 6) |
| macular dystrophy, vitelliform |
63.9 |
1 |
9781049 (1) |
| parainfluenza |
44.8 |
2 |
9740790 (1) |
| hepatitis b |
22.6 |
5 |
9020796 (2), 9740790 (1) |
| cancer |
18.5 |
1 |
16260596 (1) |
| tumors |
7.61 |
6 |
2333286 (2), 2201976 (1), 18324346 (1) |
Export disorders for DDB1 gene to outside databases
|
Publications
for DDB1 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for DDB1 gene, integrated from 9 sources (see all 249):
(articles sorted by number of sources associating them with DDB1) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Chromosomal localization and cDNA cloning of the genes (DDB1 and DDB2) for the p127 and p48 subunits of a human damage-specific DNA binding protein. (PubMed id 8530102)1, 2, 3 Dualan R.... Linn S. (1995)
- DDB1 maintains genome integrity through regulation of Cdt1. (PubMed id 16940174)1, 2, 9 Lovejoy C.A....Cortez D. (2006)
- Targeted ubiquitination of CDT1 by the DDB1-CUL4A-ROC1 ligase in response to DNA damage. (PubMed id 15448697)1, 2, 9 Hu J.... Xiong Y. (2004)
- Isolation of a cDNA encoding a UV-damaged DNA binding factor defective in xeroderma pigmentosum group E cells. (PubMed id 8538642)1, 2, 9 Hwang B.J.... Chu G. (1996)
- Human immunodeficiency virus type 1 Vpr-binding protein VprBP, a WD40 protein associated with the DDB1-CUL4 E3 ubiquitin ligase, is essential for DNA replication and embryonic development. (PubMed id 18606781)1, 2, 9 McCall C.M.... Xiong Y. (2008)
- Xeroderma pigmentosum complementation group E protein (XPE/DDB2): purification of various complexes of XPE and analyses of their damaged DNA binding and putative DNA repair properties. (PubMed id 16260596)1, 2, 9 Kulaksiz G.... Sancar A. (2005)
- Hepatitis B virus X protein interacts with a probable cellular DNA repair protein. (PubMed id 7815490)1, 2, 9 Lee T.H.... Butel J.S. (1995)
- WD40 protein FBW5 promotes ubiquitination of tumor suppressor TSC2 by DDB1-CUL4-ROC1 ligase. (PubMed id 18381890)1, 2, 9 Hu J....Xiong Y. (2008)
- The cullin 4B-based UV-damaged DNA-binding protein ligase binds to UV-damaged chromatin and ubiquitinates histone H2A. (PubMed id 18593899)1, 2, 9 Guerrero-Santoro J.... Rapic-Otrin V. (2008)
- A family of diverse Cul4-Ddb1-interacting proteins includes Cdt2, which is required for S phase destruction of the replication factor Cdt1. (PubMed id 16949367)1, 2, 9 Jin J.... Walter J.C. (2006)
|
External Searches for DDB1 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing DDB1 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing DDB1 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing DDB1 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for DDB1 | Pharmacogenomics, SNPs, Pathways | | ATLAS Chromosomes in Cancer entry for DDB1 | Genetics and Cytogenetics in Oncology and Haematology | | Allelic variations of the XP genes | http://www.xpmutations.org/ | | NIEHS-SNPs | http://egp.gs.washington.edu/data/ddb1/ |
|
| | |
About This Section
| Patent Information for DDB1 gene:
Search GeneIP for patents involving DDB1
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for DDB1 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
| | |  | OriGene Antibodies for DDB1 | | OriGene shRNA RFP for DDB1 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for DDB1 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for DDB1 | | | OriGene Protein Over-expression Lysate for DDB1 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for DDB1 | | OriGene 3'-UTR Clone for DDB1 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for DDB1 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for DDB1 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for DDB1 | | OriGene Custom Protein Services for DDB1 | | | OriGene Custom Immunoassay Development | | |
| |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat DDB1 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing DDB1 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat DDB1 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat DDB1 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat DDB1 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat DDB1 |
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| | Antibodies & Assays for DDB1 |
| | | | Search Tocris compounds for DDB1 |
| |  |  |  |  | | | | |
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| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for DDB1 |
|  |  |  | | | | ThermoFisher Antibody for DDB1 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat DDB1 |
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