Human Gene UBE2I (ENST00000355803.8) from GENCODE V44
  Description: Homo sapiens ubiquitin conjugating enzyme E2 I (UBE2I), transcript variant 3, mRNA. (from RefSeq NM_194260)
RefSeq Summary (NM_194260): The modification of proteins with ubiquitin is an important cellular mechanism for targeting abnormal or short-lived proteins for degradation. Ubiquitination involves at least three classes of enzymes: ubiquitin-activating enzymes, or E1s, ubiquitin-conjugating enzymes, or E2s, and ubiquitin-protein ligases, or E3s. This gene encodes a member of the E2 ubiquitin-conjugating enzyme family. Four alternatively spliced transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Jul 2008].
Gencode Transcript: ENST00000355803.8
Gencode Gene: ENSG00000103275.21
Transcript (Including UTRs)
   Position: hg38 chr16:1,308,880-1,327,018 Size: 18,139 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg38 chr16:1,314,031-1,324,793 Size: 10,763 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:1,308,880-1,327,018)mRNA (may differ from genome)Protein (158 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
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HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: UBC9_HUMAN
DESCRIPTION: RecName: Full=SUMO-conjugating enzyme UBC9; EC=6.3.2.-; AltName: Full=SUMO-protein ligase; AltName: Full=Ubiquitin carrier protein 9; AltName: Full=Ubiquitin carrier protein I; AltName: Full=Ubiquitin-conjugating enzyme E2 I; AltName: Full=Ubiquitin-protein ligase I; AltName: Full=p18;
FUNCTION: Accepts the ubiquitin-like proteins SUMO1, SUMO2, SUMO3 and SUMO4 from the UBLE1A-UBLE1B E1 complex and catalyzes their covalent attachment to other proteins with the help of an E3 ligase such as RANBP2 or CBX4. Can catalyze the formation of poly- SUMO chains. Necessary for sumoylation of FOXL2 and KAT5. Essential for nuclear architecture and chromosome segregation.
CATALYTIC ACTIVITY: ATP + SUMO + protein lysine = AMP + diphosphate + protein N-SUMOyllysine.
PATHWAY: Protein modification; protein sumoylation.
SUBUNIT: Interacts with HIPK1, HIPK2, PPM1J, RASD2 and TCF3 Interacts with NR2C1; the interaction promotes its sumoylation (By similarity). Forms a tight complex with RANGAP1 and RANBP2. Interacts with SIAH1 and PARP. Interacts with various transcription factors such as TFAP2A, TFAP2B, TFAP2C, AR, ETS1 and SOX4. Interacts with RWDD3; the interaction enhances the sumoylation of a number of proteins such as HIF1A and I-kappa-B. Interacts with DNMT1. Interacts with FOXL2. Forms a complex with SENP6 and UBE2I in response to UV irradiation. Interacts with human herpesvirus 6 IE2. Interacts with human adenovirus early E1A protein; this interaction interferes with polysumoylation (Probable). Interacts with DNM1l (via its GTPase and B domains); the interaction promotes sumoylation of DNM1L, mainly in its B domain. Interacts with PML-RARA oncoprotein (via the coiled-colied domain); the interaction is required for sumoylation of the PML- RARA oncoprotein. Interacts with IPO13. Interacts with NFATC2IP; this inhibits formation of poly-SUMO chains.
INTERACTION: O14503:BHLHE40; NbExp=3; IntAct=EBI-80168, EBI-711810; Q9UBC3:DNMT3B; NbExp=3; IntAct=EBI-80168, EBI-80125; P56524:HDAC4; NbExp=3; IntAct=EBI-80168, EBI-308629; O75928:PIAS2; NbExp=5; IntAct=EBI-80168, EBI-348555; Q9Y3V2:RWDD3; NbExp=5; IntAct=EBI-80168, EBI-1549885; Q13485:SMAD4; NbExp=3; IntAct=EBI-80168, EBI-347263; Q92754:TFAP2C; NbExp=3; IntAct=EBI-80168, EBI-937309; P22314:UBA1; NbExp=2; IntAct=EBI-80168, EBI-709688;
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Note=Mainly nuclear. In spermatocytes, localizes in synaptonemal complexes. Recruited by BCL11A into the nuclear body (By similarity).
TISSUE SPECIFICITY: Expressed in heart, skeletal muscle, pancreas, kidney, liver, lung, placenta and brain. Also expressed in testis and thymus.
SIMILARITY: Belongs to the ubiquitin-conjugating enzyme family.
SEQUENCE CAUTION: Sequence=AAH51289.3; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=BAD92225.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  Primer design for this transcript
 

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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


-  MalaCards Disease Associations
  MalaCards Gene Search: UBE2I
Diseases sorted by gene-association score: pediatric fibrosarcoma (9), congenital fibrosarcoma (6), split hand-foot malformation (6)

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 17.47 RPKM in Ovary
Total median expression: 525.64 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 -267.90551-0.486 Picture PostScript Text
3' UTR -875.302225-0.393 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

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1A3S - X-ray MuPIT 1KPS - X-ray MuPIT 1Z5Q - Model 1Z5S - X-ray MuPIT 2GRN - X-ray MuPIT 2GRO - X-ray MuPIT 2GRP - X-ray MuPIT 2GRQ - X-ray MuPIT 2GRR - X-ray MuPIT 2O25 - X-ray MuPIT 2PE6 - X-ray MuPIT 2PX9 - NMR 2XWU - X-ray 3A4S - X-ray MuPIT 3UIN - X-ray MuPIT 3UIO - X-ray MuPIT 3UIP - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P63279
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-  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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003723 RNA binding
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008022 protein C-terminus binding
GO:0008134 transcription factor binding
GO:0016740 transferase activity
GO:0019789 SUMO transferase activity
GO:0019899 enzyme binding
GO:0043398 HLH domain binding
GO:0043425 bHLH transcription factor binding
GO:0044388 small protein activating enzyme binding
GO:0061656 SUMO conjugating enzyme activity
GO:0071535 RING-like zinc finger domain binding
GO:0031625 ubiquitin protein ligase binding
GO:0061630 ubiquitin protein ligase activity

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006464 cellular protein modification process
GO:0006511 ubiquitin-dependent protein catabolic process
GO:0007049 cell cycle
GO:0007059 chromosome segregation
GO:0010469 regulation of receptor activity
GO:0016032 viral process
GO:0016567 protein ubiquitination
GO:0016925 protein sumoylation
GO:0033145 positive regulation of intracellular steroid hormone receptor signaling pathway
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0045892 negative regulation of transcription, DNA-templated
GO:0051091 positive regulation of sequence-specific DNA binding transcription factor activity
GO:0051301 cell division
GO:1903755 positive regulation of SUMO transferase activity

Cellular Component:
GO:0000795 synaptonemal complex
GO:0001650 fibrillar center
GO:0005634 nucleus
GO:0005635 nuclear envelope
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016604 nuclear body
GO:0016605 PML body
GO:0030425 dendrite
GO:0045202 synapse
GO:1990234 transferase complex
GO:1990356 sumoylated E2 ligase complex


-  Descriptions from all associated GenBank mRNAs
  LF385544 - JP 2014500723-A/193047: Polycomb-Associated Non-Coding RNAs.
MA621121 - JP 2018138019-A/193047: Polycomb-Associated Non-Coding RNAs.
LF385171 - JP 2014500723-A/192674: Polycomb-Associated Non-Coding RNAs.
MA620748 - JP 2018138019-A/192674: Polycomb-Associated Non-Coding RNAs.
AK291118 - Homo sapiens cDNA FLJ76182 complete cds, highly similar to Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) (UBE2I), transcript variant 1, mRNA.
U45328 - Homo sapiens ubiquitin-conjugating enzyme (UBE2I) mRNA, complete cds.
X96427 - H.sapiens mRNA for ubiquitin conjugating enzyme type UBC9.
D45050 - Homo sapiens mRNA for ubiquitin conjugating enzyme, complete cds.
U31933 - Human ubiquitin conjugating enzyme homolog mRNA, complete cds.
U38785 - Human RAD6 homolog mRNA, complete cds.
BC051289 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone IMAGE:2824300).
AK093616 - Homo sapiens cDNA FLJ36297 fis, clone THYMU2004336, highly similar to UBIQUITIN-CONJUGATING ENZYME E2-18 KDA (EC 6.3.2.19).
U31882 - Human ubiquitin-conjugating enzyme 9 mRNA, complete cds.
U66818 - Human ubiquitin conjugating enzyme 9 (hUBC9) mRNA, complete cds.
AJ002385 - Homo sapiens mRNA for ubiquitin-conjugating enzyme UBC9.
BC000427 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone MGC:8352 IMAGE:2819764), complete cds.
BC004429 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone MGC:3835 IMAGE:2819764), complete cds.
U66867 - Human ubiquitin conjugating enzyme 9 (hUBC9) mRNA, complete cds.
AB208988 - Homo sapiens mRNA for ubiquitin-conjugating enzyme E2I variant protein.
BC000744 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone IMAGE:2819732), with apparent retained intron.
BC004437 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone IMAGE:2819732), with apparent retained intron.
U29092 - Homo sapiens ubiquitin conjugating enzyme mRNA, complete cds.
DQ894552 - Synthetic construct Homo sapiens clone IMAGE:100009012; FLH176316.01L; RZPDo839B12121D ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) (UBE2I) gene, encodes complete protein.
DQ891373 - Synthetic construct clone IMAGE:100004003; FLH176320.01X; RZPDo839B12122D ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) (UBE2I) gene, encodes complete protein.
KJ892346 - Synthetic construct Homo sapiens clone ccsbBroadEn_01740 UBE2I gene, encodes complete protein.
BT007010 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) mRNA, complete cds.
BT006932 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) mRNA, complete cds.
AL833737 - Homo sapiens mRNA; cDNA DKFZp666M115 (from clone DKFZp666M115).
BC014997 - Homo sapiens ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast), mRNA (cDNA clone IMAGE:4850173), with apparent retained intron.
BC069256 - Homo sapiens cDNA clone IMAGE:6215582, partial cds.
AK024172 - Homo sapiens cDNA FLJ14110 fis, clone MAMMA1001502.
JD095965 - Sequence 76989 from Patent EP1572962.
JD198233 - Sequence 179257 from Patent EP1572962.
JD143930 - Sequence 124954 from Patent EP1572962.
JD424625 - Sequence 405649 from Patent EP1572962.
JD350190 - Sequence 331214 from Patent EP1572962.
JD273332 - Sequence 254356 from Patent EP1572962.
BC064492 - Homo sapiens cDNA clone IMAGE:5090094, partial cds.
JD185235 - Sequence 166259 from Patent EP1572962.
JD108755 - Sequence 89779 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04120 - Ubiquitin mediated proteolysis

BioCarta from NCI Cancer Genome Anatomy Project
h_sumoPathway - Basic Mechanisms of SUMOylation
h_ctbp1Pathway - SUMOylation as a mechanism to modulate CtBP-dependent gene responses
h_eradPathway - ER¿associated degradation (ERAD) Pathway

Reactome (by CSHL, EBI, and GO)

Protein P63279 (Reactome details) participates in the following event(s):

R-HSA-2993769 Transfer of SUMO3 from E1 to UBE2I (UBC9)
R-HSA-2993780 Transfer of SUMO1 from E1 to UBE2I (UBC9)
R-HSA-2993790 Transfer of SUMO2 from E1 to UBE2I (UBC9)
R-HSA-2997616 PIAS1,4 SUMOylates BRCA1 with SUMO2,3
R-HSA-2997706 MDM2 SUMOylates TP53 with SUMO2,3
R-HSA-2997709 PIAS1,4 SUMOylates BRCA1 with SUMO1
R-HSA-2997723 PIAS4 SUMOylates TP53BP1 with SUMO1
R-HSA-3000348 RANBP2 SUMOylates SP100 with SUMO2
R-HSA-3000383 UBE2I, HDAC7 SUMOylate PML with SUMO1
R-HSA-3000399 RANBP2 SUMOylates SP100 with SUMO1
R-HSA-3000411 RANBP2 SUMOylates PML with SUMO2
R-HSA-3000433 SUMOylation of PML with SUMO3
R-HSA-3108212 SMC5-SMC6 Complex SUMOylates Cohesin with SUMO1
R-HSA-3232162 PIAS3 SUMOylates MITF with SUMO1
R-HSA-3234081 SUMOylation of TFAP2A with SUMO1
R-HSA-3234084 SUMOylation of TFAP2B with SUMO1
R-HSA-3234094 SUMOylation of TFAP2C with SUMO1
R-HSA-3247493 PIAS1 SUMOylates SP3 with SUMO1
R-HSA-3465545 PIAS1,3,4 SUMOylate MTA1 with SUMO2,3
R-HSA-3900047 SUMOylation of DDX17 with SUMO1
R-HSA-3968414 UBE2I (UBC9), PIAS1 SUMOylate FOXL2 with SUMO1
R-HSA-4090281 PIAS1,2-1 SUMOylate HIC1 with SUMO1
R-HSA-4546387 PIAS4 SUMOylates VDR with SUMO2
R-HSA-4551604 PIAS4 SUMOylates PARP1 with SUMO1
R-HSA-4551616 SUMOylation of RPA1 (RPA70) with SUMO2,3
R-HSA-4551648 SUMOylation of TDG with SUMO1
R-HSA-4551655 CBX4 SUMOylates BMI1 in PRC1 with SUMO1
R-HSA-4551661 PIAS4 SUMOylates RNF168 with SUMO1
R-HSA-4551724 PIAS4 SUMOylates HERC2 with SUMO1
R-HSA-4551727 CBX4 SUMOylates CBX4 in PRC1 with SUMO1
R-HSA-4551738 SUMOylation of TDG with SUMO2,3
R-HSA-4551768 PIAS4 SUMOylates PARP1 with SUMO2,3
R-HSA-4568846 CDKN2A (p14-ARF) SUMOylates WRN with SUMO1
R-HSA-4568848 PIAS1,2-1 SUMOylates XRCC4 with SUMO1
R-HSA-4568863 SUMOylation of RAD52 with SUMO1
R-HSA-4568914 SUMOylation of BLM with SUMO2,3
R-HSA-4570463 CBX4 (Pc2) SUMOylates CETN2 with SUMO2,3
R-HSA-4570467 SUMOylation of NOP58 with SUMO1
R-HSA-4570485 SUMOylation of Histone H4 with SUMO3
R-HSA-4570489 SUMOylation of NOP58 with SUMO2
R-HSA-4570493 RANBP2 (NUP358) SUMOylates HNRNPC with SUMO1
R-HSA-4570496 SUMOylation of Histone H4 with SUMO1
R-HSA-4570499 CBX4 (Pc2) SUMOylates HNRNPK with SUMO2
R-HSA-4570528 SUMOylation of XPC with SUMO1
R-HSA-4570553 SUMOylation of MDC1 with SUMO2,3
R-HSA-4570554 SUMOylation of MDC1 with SUMO1
R-HSA-4615839 PIAS1 SUMOylates SATB1 with SUMO2,3
R-HSA-4615872 RANBP2 SUMOylates HDAC4 with SUMO1
R-HSA-4615873 PIAS2-2 SUMOylates SUZ12 with SUMO1
R-HSA-4615889 SUMOylation of HDAC1 with SUMO1
R-HSA-4615900 PIAS1 SUMOylates SATB2 with SUMO3
R-HSA-4615905 PIAS1 SUMOylates SATB1 with SUMO1
R-HSA-4615910 SUMOylation of PCNA with SUMO1
R-HSA-4615933 SUMOylation of CBX5 with SUMO1
R-HSA-4615987 RANBP2 SUMOylates HDAC4 with SUMO2,3
R-HSA-4616015 SUMOylation of HDAC2 with SUMO1
R-HSA-4641342 SUMOylation of TOP2A with SUMO1
R-HSA-4641345 SUMOylation of TOP2B with SUMO1
R-HSA-4641350 PIAS4 SUMOylates TOP2A with SUMO2,3
R-HSA-4641362 SUMOylation of TOP1 with SUMO1
R-HSA-5228508 RANBP2 SUMOylates PML with SUMO1
R-HSA-5228525 RANBP2 SUMOylates TOP2A with SUMO1
R-HSA-5682607 PIAS4 SUMOylates HERC2 with SUMO1 at DNA DSBs
R-HSA-5684052 PIAS4 SUMOylates MDC1
R-HSA-6790454 SUMOylation of XPC
R-HSA-6804468 PIAS1 SUMOylates SP3 with SUMO2
R-HSA-6804485 PIAS1 SUMOylates L3MBTL2 with SUMO2
R-HSA-8956365 ZBED1 (DREF) SUMOylates CHD3 with SUMO1
R-HSA-1221632 Meiotic synapsis
R-HSA-3065678 SUMO is transferred from E1 to E2 (UBE2I, UBC9)
R-HSA-3108214 SUMOylation of DNA damage response and repair proteins
R-HSA-3232118 SUMOylation of transcription factors
R-HSA-8866904 Negative regulation of activity of TFAP2 (AP-2) family transcription factors
R-HSA-3899300 SUMOylation of transcription cofactors
R-HSA-196791 Vitamin D (calciferol) metabolism
R-HSA-4551638 SUMOylation of chromatin organization proteins
R-HSA-4570464 SUMOylation of RNA binding proteins
R-HSA-4615885 SUMOylation of DNA replication proteins
R-HSA-5693565 Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-HSA-5693607 Processing of DNA double-strand break ends
R-HSA-5696395 Formation of Incision Complex in GG-NER
R-HSA-1500620 Meiosis
R-HSA-3215018 Processing and activation of SUMO
R-HSA-3108232 SUMO E3 ligases SUMOylate target proteins
R-HSA-8864260 Transcriptional regulation by the AP-2 (TFAP2) family of transcription factors
R-HSA-209943 Steroid hormones
R-HSA-8957322 Metabolism of steroids
R-HSA-5693606 DNA Double Strand Break Response
R-HSA-5693567 HDR through Homologous Recombination (HR) or Single Strand Annealing (SSA)
R-HSA-5696399 Global Genome Nucleotide Excision Repair (GG-NER)
R-HSA-1474165 Reproduction
R-HSA-1640170 Cell Cycle
R-HSA-2990846 SUMOylation
R-HSA-212436 Generic Transcription Pathway
R-HSA-556833 Metabolism of lipids
R-HSA-5693532 DNA Double-Strand Break Repair
R-HSA-5693538 Homology Directed Repair
R-HSA-5696398 Nucleotide Excision Repair
R-HSA-597592 Post-translational protein modification
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-1430728 Metabolism
R-HSA-73894 DNA Repair
R-HSA-392499 Metabolism of proteins
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: D3DU69, ENST00000355803.1, ENST00000355803.2, ENST00000355803.3, ENST00000355803.4, ENST00000355803.5, ENST00000355803.6, ENST00000355803.7, NM_194260, P50550, P63279, Q15698, Q59GX1, Q86VB3, UBC9, UBC9_HUMAN, UBCE9, uc002cld.1, uc002cld.2, uc002cld.3
UCSC ID: ENST00000355803.8
RefSeq Accession: NM_194260
Protein: P63279 (aka UBC9_HUMAN)
CCDS: CCDS10433.1

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