UBE3D Gene
protein-coding GIFtS: 40
GCID: GC06M083603
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ubiquitin protein ligase E3D(Previous names: chromosome 6 open reading frame 157, ubiquitin-conjugating...)
(Previous symbols: C6orf157, UBE2CBP)
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Aliases
for UBE3D gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Ubiquitin Protein Ligase E3D1 2 | | Ubiquitin-Conjugating Enzyme E2C-Binding Protein2 3 | | H10BH1 2 3 5 | | DKFZp434A15201 | | UBE2CBP1 2 3 5 | | Chromosome 6 Open Reading Frame 1571 | | C6orf1571 2 3 | | E3 Ubiquitin-Protein Ligase E3D2 | | YJR141W1 2 | | UBCH10 Binding Protein With A Hect-Like Domain2 | | Ubiquitin-Conjugating Enzyme E2C Binding Protein1 2 | | EC 6.3.2.-3 | | UbcH10-Binding Protein With A HECT-Like Domain2 3 | | |
Export aliases for UBE3D gene to outside databases |
Summaries
for UBE3D gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: UBE3D_HUMAN, Q7Z6J8Function: E3 ubiquitin-protein ligase which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes, andtransfers it to substrates, generally promoting their degradation by the proteasome
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Genomic Views
for UBE3D 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_000006.11 NC_018917.1 NT_007299.13
Regulatory elements:
 Search SABiosciences Regulatory transcription factor binding sites for UBE3D
Other transcription factors
Search SABiosciences Chromatin IP Primers for UBE3D
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat UBE3D |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 6q14.1 Ensembl cytogenetic band: 6q14.1 HGNC cytogenetic band: 6q15UBE3D Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 6 GeneLoc Exon Structure GeneLoc location for GC06M083603: view genomic region
(about GC identifiers)
Start:
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83,602,117 bp from pter |
End:
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83,775,560 bp from pter |
Size:
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173,444 bases |
Orientation:
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minus strand |
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Proteins
for UBE3D 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: UBE3D_HUMAN, Q7Z6J8 (See
protein sequence)Recommended Name: E3 ubiquitin-protein ligase E3D Size: 389 amino acids; 43657 Da
Subunit: Interacts with UBE2C/UbcH10 (E2 ubiquitin-conjugating enzyme). In vitro, interacts with cyclin-B
Subcellular location: Cytoplasm (Potential)
Sequence caution: Sequence=AAH53645.1; Type=Erroneous initiation; Sequence=CAI13740.2; Type=Erroneous gene modelprediction; Sequence=CAI15282.2; Type=Erroneous gene model prediction; Sequence=CAM28304.1; Type=Erroneous gene modelprediction;
Secondary accessions: B4DP63 Q5T4W2 Q6IPR4 Q75UG0 Q9NT42Explore the universe of human proteins at neXtProt for UBE3D: NX_Q7Z6J8
Post-translational modifications:
Ubiquitinated by UBCH10 (E2 ubiquitin-conjugating enzyme)1
View neXtProt modification sites for NX_Q7Z6J8
UBE3D Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_944602.1
ENSEMBL proteins: ENSP00000358762 ENSP00000237186 ENSP00000427101 ENSP00000394749 ENSP00000358761 ENSP00000422755 ENSP00000358760
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005737 | cytoplasm |
IEA | -- |
UBE3D for ontologies About GeneDecksing
UBE3D Antibody Products:
Assay Products for UBE3D: |
Protein
Domains /
Families
for UBE3D gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
UBE3D for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry Q7Z6J8ProtoNet protein and cluster: Q7Z6J8 UniProtKB/Swiss-Prot: UBE3D_HUMAN, Q7Z6J8Domain: The C-terminal half (AA 188-389) is able to bind cyclin-B and shows a self-ubiquitination activity (mono-,poly, or multi-ubiquitination) in a HECT-like sequence dependent manner |
Function
for UBE3D 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: UBE3D_HUMAN, Q7Z6J8Function: E3 ubiquitin-protein ligase which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes, andtransfers it to substrates, generally promoting their degradation by the proteasomeEnzyme Number (IUBMB): EC 6.3.2.-1
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 UBE3D (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for UBE3D
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
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Synthesis Service for UBE3D | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat UBE3D |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for UBE3D |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0016874 | ligase activity |
IEA | -- |
UBE3D for ontologies About GeneDecksing
|
Pathways & Interactions
for UBE3D 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
|
UniProtKB/Swiss-Prot: UBE3D_HUMAN, Q7Z6J8Pathway: Protein modification; protein ubiquitinationInteractions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for UBE3D
STRING Interaction
Network Preview (showing 2 interactants - click image to see more details)
2 Interacting proteins for UBE3D (ENSP000002371864) via UniProtKB, MINT, STRING, and/or I2D About this table
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0016567 | protein ubiquitination |
IEA | -- |
UBE3D for ontologies About GeneDecksing
|
Drugs & Compounds
for UBE3D 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
|
 Browse Tocris compounds for UBE3D
Search CenterWatch for drugs/clinical trials and news about UBE3D
|
Transcripts
for UBE3D 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 UBE3D gene: NM_198920.1 Unigene Cluster for UBE3D: Ubiquitin protein ligase E3D Hs.148609 [show with all ESTs]Unigene Representative Sequence: BC0360498 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000369747(uc003pjp.2 uc011dyx.1) ENST00000237186 ENST00000503942
ENST00000509102 ENST00000430071 ENST00000369746(uc003pjq.3) ENST00000505226(uc003pjr.3)
ENST00000369745
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for UBE3D (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for UBE3D
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript Custom all cDNA clones Services for UBE3D | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for UBE3D | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat UBE3D |
Additional cDNA sequence: AB126062.1 AF026526.1 AK298205.1 AL137544.1 BC036049.1 BC053645.1 BC057845.1 BC071763.1 BC101512.1 BC101538.1 BC143617.1 7 DOTS entries: DT.101979664 DT.99962609 DT.86998464 DT.92423695 DT.441685 DT.70101584 DT.40278814 24/63 AceView cDNA sequences (see all 63): BQ421993 BF438997 BG150480 CR590287 AA706678 CR598717 CR604323 AW469373 AI744564 BE552206 AB126062 AI025408 BU619285 AW611839 AL137544 AV692609 AI478251 NM_198920 AF026526 BM550366 BP873454 BE884019 BX489027 BC071763
GeneLoc Exon Structure
3 Alternative Splicing Database (ASD) splice patterns (SP) for UBE3D About this scheme
| ExUns: | 1a | · | 1b | · | 1c | ^ | 2 | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6 | ^ | 7 | ^ | 8 | ^ | 9 | ^ | 10a | · | 10b | ^ | 11 |
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| SP1: | | | | | - | | | | | | - | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | - | | | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for UBE3D
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Expression
for UBE3D 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
| UBE3D expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TTTCTTTTGT
About this image
See UBE3D Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for UBE3D
SOURCE GeneReport for Unigene cluster: Hs.148609
SABiosciences Custom PCR Arrays for UBE3D
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for UBE3D
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat UBE3D | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat UBE3D | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat UBE3D | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for UBE3D |
Orthologs
for UBE3D 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 chordates.
Orthologs for UBE3D gene from 4/13 species (see all 13) About this table
ENSEMBL Gene Tree for UBE3D (if available)
TreeFam Gene Tree for UBE3D (if available) |
Paralogs
for UBE3D gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for UBE3D 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 6 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for UBE3D (83602117 - 83775560 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for UBE3D: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing UBE3D |
|
Disorders
/ Diseases
for UBE3D gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
 UBE3D for disorders About MalaCards
UBE3D for disorders About GeneDecksing
OMIM gene information: 612495
OMIM disorders: --
Export disorders for UBE3D gene to outside databases
|
Publications
for UBE3D 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 UBE3D gene integrated from 9 sources:
(articles sorted by number of sources associating them with UBE3D) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- A novel UbcH10-binding protein facilitates the ubiquitinylation of cyclin B in vitro. (PubMed id 15749827)1, 2, 3 Kobirumaki F.... Tanaka H. (2005)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
- The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (2007)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
- The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)2 Mungall A.J.... Beck S. (2003)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
|
External Searches for UBE3D gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing UBE3D gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing UBE3D gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing UBE3D 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 UBE3D | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for UBE3D gene:
Search GeneIP for patents involving UBE3D
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for UBE3D 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
|
 | |
 | |
 |
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variant library, vector shuttling | | | OriGene Custom Antibody Services for UBE3D | | OriGene Custom Protein Services for UBE3D | | | OriGene Custom Immunoassay Development | | |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat UBE3D | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing UBE3D | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat UBE3D | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat UBE3D | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat UBE3D | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat UBE3D |
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 | | | UBE3D Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for UBE3D |
|  |  |  | | | | Search ThermoFisher Antibodies for UBE3D |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat UBE3D |
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