Human Gene UBE2E1 (ENST00000306627.8_4) from GENCODE V47lift37
  Description: ubiquitin conjugating enzyme E2 E1, transcript variant 1 (from RefSeq NM_003341.5)
Gencode Transcript: ENST00000306627.8_4
Gencode Gene: ENSG00000170142.12_11
Transcript (Including UTRs)
   Position: hg19 chr3:23,847,446-23,933,131 Size: 85,686 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr3:23,848,761-23,932,097 Size: 83,337 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:23,847,446-23,933,131)mRNA (may differ from genome)Protein (193 aa)
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-  Comments and Description Text from UniProtKB
  ID: UB2E1_HUMAN
DESCRIPTION: RecName: Full=Ubiquitin-conjugating enzyme E2 E1; EC=6.3.2.19; AltName: Full=UbcH6; AltName: Full=Ubiquitin carrier protein E1; AltName: Full=Ubiquitin-protein ligase E1;
FUNCTION: Accepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. Catalyzes the covalent attachment of ISG15 to other proteins. Mediates the selective degradation of short-lived and abnormal proteins. In vitro also catalyzes 'Lys-48'-linked polyubiquitination.
CATALYTIC ACTIVITY: ATP + ubiquitin + protein lysine = AMP + diphosphate + protein N-ubiquityllysine.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Interacts with RNF14.
INTERACTION: Q8N7H5:PAF1; NbExp=2; IntAct=EBI-348546, EBI-2607770; Q9Y3C5:RNF11; NbExp=2; IntAct=EBI-348546, EBI-396669; Q5VTR2:RNF20; NbExp=2; IntAct=EBI-348546, EBI-2372238; Q8ND25:ZNRF1; NbExp=3; IntAct=EBI-348546, EBI-2129250;
SUBCELLULAR LOCATION: Nucleus.
PTM: ISGylation suppresses ubiquitin E2 enzyme activity.
SIMILARITY: Belongs to the ubiquitin-conjugating enzyme family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 63.80 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 1140.53 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -61.00167-0.365 Picture PostScript Text
3' UTR -252.001034-0.244 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
IPR000608 - UBQ-conjugat_E2
IPR023313 - UBQ-conjugating_AS
IPR016135 - UBQ-conjugating_enzyme/RWD

Pfam Domains:
PF00179 - Ubiquitin-conjugating enzyme

SCOP Domains:
54495 - UBC-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1XR9 - X-ray MuPIT 3BZH - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P51965
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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.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016740 transferase activity
GO:0042296 ISG15 transferase activity
GO:0061631 ubiquitin conjugating enzyme activity

Biological Process:
GO:0000209 protein polyubiquitination
GO:0006511 ubiquitin-dependent protein catabolic process
GO:0010390 histone monoubiquitination
GO:0016567 protein ubiquitination
GO:0031145 anaphase-promoting complex-dependent catabolic process
GO:0032020 ISG15-protein conjugation
GO:0033523 histone H2B ubiquitination
GO:0070936 protein K48-linked ubiquitination

Cellular Component:
GO:0000151 ubiquitin ligase complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  BC009139 - Homo sapiens ubiquitin-conjugating enzyme E2E 1 (UBC4/5 homolog, yeast), mRNA (cDNA clone MGC:9268 IMAGE:3853408), complete cds.
AK314854 - Homo sapiens cDNA, FLJ95752, Homo sapiens ubiquitin-conjugating enzyme E2E 1 (UBC4/5 homolog, yeast) (UBE2E1), mRNA.
X92963 - H.sapiens mRNA for ubiquitin conjugating enzyme, UbcH6.
AK295354 - Homo sapiens cDNA FLJ52264 complete cds, highly similar to Ubiquitin-conjugating enzyme E2 E1 (EC 6.3.2.19).
LF384962 - JP 2014500723-A/192465: Polycomb-Associated Non-Coding RNAs.
MA620539 - JP 2018138019-A/192465: Polycomb-Associated Non-Coding RNAs.
LF332987 - JP 2014500723-A/140490: Polycomb-Associated Non-Coding RNAs.
JD428475 - Sequence 409499 from Patent EP1572962.
JD387569 - Sequence 368593 from Patent EP1572962.
LF332986 - JP 2014500723-A/140489: Polycomb-Associated Non-Coding RNAs.
MA568564 - JP 2018138019-A/140490: Polycomb-Associated Non-Coding RNAs.
MA568563 - JP 2018138019-A/140489: Polycomb-Associated Non-Coding RNAs.
LF332976 - JP 2014500723-A/140479: Polycomb-Associated Non-Coding RNAs.
LF332975 - JP 2014500723-A/140478: Polycomb-Associated Non-Coding RNAs.
JD369337 - Sequence 350361 from Patent EP1572962.
JD328061 - Sequence 309085 from Patent EP1572962.
JD280291 - Sequence 261315 from Patent EP1572962.
JD329989 - Sequence 311013 from Patent EP1572962.
JD060903 - Sequence 41927 from Patent EP1572962.
JD280090 - Sequence 261114 from Patent EP1572962.
MA568553 - JP 2018138019-A/140479: Polycomb-Associated Non-Coding RNAs.
MA568552 - JP 2018138019-A/140478: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY-7511 - protein ubiquitination

Reactome (by CSHL, EBI, and GO)

Protein P51965 (Reactome details) participates in the following event(s):

R-HSA-174119 Free APC/C phosphorylated by Plk1
R-HSA-174132 Free APC/C phosphorylated by Cyclin B:Cdc2
R-HSA-174139 Dissociation of phospho-Cdh1 from the APC/C complex
R-HSA-141423 Binding of the MCC complex to the APC/C complex
R-HSA-174070 Association of Cdh1 with the APC/C
R-HSA-174224 Dissociation of Cdc20 from APC/C complex
R-HSA-1169402 ISGylation of E2 conjugating enzymes
R-HSA-1169406 ISGylation of host proteins
R-HSA-983152 Transfer of ubiquitin from E1 to E2
R-HSA-983140 Transfer of Ub from E2 to substrate and release of E2
R-HSA-8852130 UBA1 conjugates ubiquitin to nuclear E2 enzymes
R-HSA-174057 Multiubiquitination of APC/C-associated Cdh1
R-HSA-188371 Association of Cyclin A:Cdk2 with Cdh1
R-HSA-3788708 CDKN1A (p21) prevents association of Cyclin A:Cdk2 with Cdh1
R-HSA-3788725 Cdh1:APC/C complex binds EHMT1:EHMT2
R-HSA-174171 Association of Cyclin A with the APC/C
R-HSA-174238 Activation of APC/C:Cdc20 by dissociation of Cdc20:phospho-APC/C from Cdc20:phospho-APC/C:Mad2:Bub3:BubR1
R-HSA-179410 Association of Nek2A with MCC:APC/C
R-HSA-174120 Association of Cyclin B:Cdc2 with Cdc20:APC/C complex
R-HSA-174121 Association of Securin with Cdc20:APC/C complex
R-HSA-174088 Association of cell cycle proteins with the APC/C:Cdh1 complex
R-HSA-983157 Interaction of E3 with substrate and E2-Ub complex
R-HSA-8939323 RNF181 binds BCL10 and Ubiquitin:E2
R-HSA-174079 Phosphorylation of Cdh1 by Cyclin A:Cdk2
R-HSA-3788705 CDKN1A (p21) prevents phosphorylation of Cdh1 by Cyclin A:Cdk2
R-HSA-3788724 Cdh1:APC/C ubiquitinates EHMT1 and EHMT2
R-HSA-174104 Ubiquitination of Cyclin A by APC/C:Cdc20 complex
R-HSA-179417 Multiubiquitination of Nek2A
R-HSA-174227 Ubiquitination of Cyclin B by phospho-APC/C:Cdc20 complex
R-HSA-174144 Ubiquitination of Securin by phospho-APC/C:Cdc20 complex
R-HSA-174195 Ubiquitination of cell cycle proteins targeted by the APC/C:Cdh1complex
R-HSA-69015 Cytoplasmic phosphorylated Cdc6 is ubiquitinated by the anaphase-promoting complex
R-HSA-176412 Phosphorylation of the APC/C
R-HSA-174084 Autodegradation of Cdh1 by Cdh1:APC/C
R-HSA-176408 Regulation of APC/C activators between G1/S and early anaphase
R-HSA-141430 Inactivation of APC/C via direct inhibition of the APC/C complex
R-HSA-176407 Conversion from APC/C:Cdc20 to APC/C:Cdh1 in late anaphase
R-HSA-1169408 ISG15 antiviral mechanism
R-HSA-8866654 E3 ubiquitin ligases ubiquitinate target proteins
R-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
R-HSA-8866652 Synthesis of active ubiquitin: roles of E1 and E2 enzymes
R-HSA-176814 Activation of APC/C and APC/C:Cdc20 mediated degradation of mitotic proteins
R-HSA-2559582 Senescence-Associated Secretory Phenotype (SASP)
R-HSA-174143 APC/C-mediated degradation of cell cycle proteins
R-HSA-174184 Cdc20:Phospho-APC/C mediated degradation of Cyclin A
R-HSA-176409 APC/C:Cdc20 mediated degradation of mitotic proteins
R-HSA-179409 APC-Cdc20 mediated degradation of Nek2A
R-HSA-174048 APC/C:Cdc20 mediated degradation of Cyclin B
R-HSA-174154 APC/C:Cdc20 mediated degradation of Securin
R-HSA-2467813 Separation of Sister Chromatids
R-HSA-174178 APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1
R-HSA-141405 Inhibition of the proteolytic activity of APC/C required for the onset of anaphase by mitotic spindle checkpoint components
R-HSA-1169410 Antiviral mechanism by IFN-stimulated genes
R-HSA-8852135 Protein ubiquitination
R-HSA-983169 Class I MHC mediated antigen processing & presentation
R-HSA-2559583 Cellular Senescence
R-HSA-453276 Regulation of mitotic cell cycle
R-HSA-179419 APC:Cdc20 mediated degradation of cell cycle proteins prior to satisfation of the cell cycle checkpoint
R-HSA-68882 Mitotic Anaphase
R-HSA-69017 CDK-mediated phosphorylation and removal of Cdc6
R-HSA-69618 Mitotic Spindle Checkpoint
R-HSA-913531 Interferon Signaling
R-HSA-597592 Post-translational protein modification
R-HSA-1280218 Adaptive Immune System
R-HSA-2262752 Cellular responses to stress
R-HSA-69278 Cell Cycle (Mitotic)
R-HSA-2555396 Mitotic Metaphase and Anaphase
R-HSA-69052 Switching of origins to a post-replicative state
R-HSA-69620 Cell Cycle Checkpoints
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-392499 Metabolism of proteins
R-HSA-168256 Immune System
R-HSA-8953897 Cellular responses to external stimuli
R-HSA-1640170 Cell Cycle
R-HSA-68886 M Phase
R-HSA-69239 Synthesis of DNA
R-HSA-69242 S Phase
R-HSA-69306 DNA Replication

-  Other Names for This Gene
  Alternate Gene Symbols: B2RBX4, C9J8K2, ENST00000306627.1, ENST00000306627.2, ENST00000306627.3, ENST00000306627.4, ENST00000306627.5, ENST00000306627.6, ENST00000306627.7, K4DI90, NM_003341, P51965, UB2E1_HUMAN, UBCH6, uc317nwv.1, uc317nwv.2
UCSC ID: ENST00000306627.8_4
RefSeq Accession: NM_003341.5
Protein: P51965 (aka UB2E1_HUMAN or UBC6_HUMAN)

-  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.