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Protein

Ubiquitin-conjugating enzyme E2 D2

Gene

UBE2D2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Accepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. In vitro catalyzes 'Lys-48'-linked polyubiquitination. Mediates the selective degradation of short-lived and abnormal proteins. Functions in the E6/E6-AP-induced ubiquitination of p53/TP53. Mediates ubiquitination of PEX5 and autoubiquitination of STUB1 and TRAF6. Involved in the signal-induced conjugation and subsequent degradation of NFKBIA, FBXW2-mediated GCM1 ubiquitination and degradation, MDM2-dependent degradation of p53/TP53 and the activation of MAVS in the mitochondria by DDX58/RIG-I in response to viral infection. Essential for viral activation of IRF3.9 Publications

Catalytic activityi

S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine.PROSITE-ProRule annotation4 Publications
S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E1 ubiquitin-activating enzyme]-L-cysteine + N(6)-monoubiquitinyl-[acceptor protein]-L-lysine.1 Publication

Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.PROSITE-ProRule annotation
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei85Glycyl thioester intermediatePROSITE-ProRule annotation1

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • ubiquitin conjugating enzyme activity Source: ParkinsonsUK-UCL
  • ubiquitin-protein transferase activity Source: UniProtKB

GO - Biological processi

  • cellular protein modification process Source: ProtInc
  • Fc-epsilon receptor signaling pathway Source: Reactome
  • protein autoubiquitination Source: ParkinsonsUK-UCL
  • protein K48-linked ubiquitination Source: UniProtKB
  • protein polyubiquitination Source: BHF-UCL
  • protein ubiquitination Source: ParkinsonsUK-UCL
  • regulation of transcription from RNA polymerase II promoter in response to hypoxia Source: Reactome
  • stimulatory C-type lectin receptor signaling pathway Source: Reactome
  • T cell receptor signaling pathway Source: Reactome
  • TRIF-dependent toll-like receptor signaling pathway Source: Reactome
  • ubiquitin-dependent protein catabolic process Source: ProtInc
Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Ubl conjugation pathway

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciMetaCyc:HS05542-MONOMER.
ZFISH:HS05542-MONOMER.
BRENDAi2.3.2.B5. 2681.
2.3.2.B6. 2681.
2.3.2.B8. 2681.
ReactomeiR-HSA-1234176. Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha.
R-HSA-202424. Downstream TCR signaling.
R-HSA-2871837. FCERI mediated NF-kB activation.
R-HSA-5607764. CLEC7A (Dectin-1) signaling.
R-HSA-8866652. Synthesis of active ubiquitin: roles of E1 and E2 enzymes.
R-HSA-936440. Negative regulators of RIG-I/MDA5 signaling.
R-HSA-937041. IKK complex recruitment mediated by RIP1.
R-HSA-983168. Antigen processing: Ubiquitination & Proteasome degradation.
SignaLinkiP62837.
UniPathwayiUPA00143.

Protein family/group databases

TCDBi3.A.20.1.1. the peroxisomal protein importer (ppi) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin-conjugating enzyme E2 D2 (EC:2.3.2.234 Publications)
Alternative name(s):
(E3-independent) E2 ubiquitin-conjugating enzyme D2 (EC:2.3.2.241 Publication)
E2 ubiquitin-conjugating enzyme D2
Ubiquitin carrier protein D2
Ubiquitin-conjugating enzyme E2(17)KB 2
Ubiquitin-conjugating enzyme E2-17 kDa 2
Ubiquitin-protein ligase D2
p53-regulated ubiquitin-conjugating enzyme 1
Gene namesi
Name:UBE2D2
Synonyms:PUBC1, UBC4, UBC5B, UBCH4, UBCH5B
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

HGNCiHGNC:12475. UBE2D2.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: Reactome
  • extracellular exosome Source: UniProtKB
  • nucleoplasm Source: Reactome
  • protein complex Source: MGI
  • ubiquitin ligase complex Source: BHF-UCL
Complete GO annotation...

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi63K → A or E: Strongly reduced interaction with CNTO4. 1 Publication1
Mutagenesisi85C → A: Catalytically inactive. Loss of ability to promote FBXW2-mediated GCM1 ubiquitination. Inhibition of TNF-alpha-induced degradation of NFKBIA. 3 Publications1

Organism-specific databases

DisGeNETi7322.
OpenTargetsiENSG00000131508.
PharmGKBiPA37125.

Polymorphism and mutation databases

BioMutaiUBE2D2.
DMDMi51338685.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000824621 – 147Ubiquitin-conjugating enzyme E2 D2Add BLAST147

Proteomic databases

EPDiP62837.
MaxQBiP62837.
PaxDbiP62837.
PeptideAtlasiP62837.
PRIDEiP62837.

PTM databases

iPTMnetiP62837.
PhosphoSitePlusiP62837.

Expressioni

Gene expression databases

BgeeiENSG00000131508.
CleanExiHS_UBE2D2.
ExpressionAtlasiP62837. baseline and differential.
GenevisibleiP62837. HS.

Organism-specific databases

HPAiHPA003920.

Interactioni

Subunit structurei

Interacts with SCF (SKP1-CUL1-F-box protein) E3 ubiquitin ligase complex. Interacts with CNOT4 (via RING domain). Interacts with E3 ubiquitin-protein ligases CBLC, PJA1 and PJA2. Interacts with PDZRN3.4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
MDM4O151512EBI-347677,EBI-398437
MID1O153443EBI-347677,EBI-2340316
ospGQ99PZ63EBI-347677,EBI-9316527From a different organism.
OTUB1Q96FW19EBI-347677,EBI-1058491
RNF11Q9Y3C57EBI-347677,EBI-396669
RNF126Q9BV684EBI-347677,EBI-357322
RNF185Q96GF13EBI-347677,EBI-2340249
RNF43Q68DV72EBI-347677,EBI-1647060
RNF5Q999425EBI-347677,EBI-348482
TRAF6Q9Y4K34EBI-347677,EBI-359276
XIAPP981702EBI-347677,EBI-517127
ZNRF1Q8ND254EBI-347677,EBI-2129250

Protein-protein interaction databases

BioGridi113170. 238 interactors.
DIPiDIP-29267N.
IntActiP62837. 108 interactors.
MINTiMINT-1035011.
STRINGi9606.ENSP00000381717.

Structurei

Secondary structure

1147
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi1 – 15Combined sources15
Beta strandi19 – 28Combined sources10
Beta strandi32 – 38Combined sources7
Beta strandi41 – 43Combined sources3
Turni44 – 47Combined sources4
Beta strandi49 – 55Combined sources7
Turni58 – 61Combined sources4
Beta strandi66 – 71Combined sources6
Beta strandi76 – 78Combined sources3
Beta strandi82 – 84Combined sources3
Helixi87 – 89Combined sources3
Turni90 – 92Combined sources3
Helixi99 – 111Combined sources13
Beta strandi115 – 117Combined sources3
Helixi121 – 129Combined sources9
Helixi131 – 145Combined sources15

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1UR6NMR-A1-147[»]
1W4UNMR-A1-147[»]
2CLWX-ray1.94A/B/C/D1-147[»]
2ESKX-ray1.36A1-147[»]
2ESOX-ray1.50A1-147[»]
2ESPX-ray1.52A1-147[»]
2ESQX-ray1.44A1-147[»]
3A33X-ray2.20A1-147[»]
3JVZX-ray3.30A/B2-147[»]
3JW0X-ray3.10A/B2-147[»]
3L1YX-ray1.60A1-147[»]
3TGDX-ray1.80A1-147[»]
3ZNIX-ray2.21C/G/K/O2-147[»]
4A49X-ray2.21B1-147[»]
4A4BX-ray2.79C1-147[»]
4A4CX-ray2.70C1-147[»]
4AUQX-ray2.18A/D1-147[»]
4DDGX-ray3.30A/B/C/J/K/L1-147[»]
4LDTX-ray1.90C1-147[»]
4V3KX-ray2.04A/D2-147[»]
4V3LX-ray1.53A2-147[»]
4WZ3X-ray2.70A1-147[»]
5D0KX-ray2.65A/D/G/J1-147[»]
5D0MX-ray1.91A1-147[»]
5D1KX-ray1.78A1-147[»]
5D1LX-ray1.62A1-147[»]
5D1MX-ray1.58A1-147[»]
5EDVX-ray3.48C/D/I2-147[»]
ProteinModelPortaliP62837.
SMRiP62837.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP62837.

Family & Domainsi

Sequence similaritiesi

Belongs to the ubiquitin-conjugating enzyme family.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0417. Eukaryota.
COG5078. LUCA.
GeneTreeiENSGT00760000119012.
HOGENOMiHOG000233455.
HOVERGENiHBG063308.
InParanoidiP62837.
KOiK06689.
OMAiYAGGVYF.
PhylomeDBiP62837.
TreeFamiTF101108.

Family and domain databases

Gene3Di3.10.110.10. 1 hit.
InterProiIPR000608. UBQ-conjugat_E2.
IPR023313. UBQ-conjugating_AS.
IPR016135. UBQ-conjugating_enzyme/RWD.
[Graphical view]
PfamiPF00179. UQ_con. 1 hit.
[Graphical view]
SUPFAMiSSF54495. SSF54495. 1 hit.
PROSITEiPS00183. UBIQUITIN_CONJUGAT_1. 1 hit.
PS50127. UBIQUITIN_CONJUGAT_2. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: P62837-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MALKRIHKEL NDLARDPPAQ CSAGPVGDDM FHWQATIMGP NDSPYQGGVF
60 70 80 90 100
FLTIHFPTDY PFKPPKVAFT TRIYHPNINS NGSICLDILR SQWSPALTIS
110 120 130 140
KVLLSICSLL CDPNPDDPLV PEIARIYKTD REKYNRIARE WTQKYAM
Length:147
Mass (Da):16,735
Last modified:August 16, 2004 - v1
Checksum:iC942BE7853CBC355
GO
Isoform 2 (identifier: P62837-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-29: Missing.

Note: No experimental confirmation available.
Show »
Length:118
Mass (Da):13,635
Checksum:iCC29567199FE8084
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti128K → Q in AAC41750 (PubMed:7724550).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0451801 – 29Missing in isoform 2. 1 PublicationAdd BLAST29

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U39317 mRNA. Translation: AAA91460.1.
L40146 Genomic DNA. Translation: AAC41750.1.
AY651263 mRNA. Translation: AAX35690.1.
AF317220 mRNA. Translation: AAK93958.1.
AK001311 mRNA. Translation: BAG50891.1.
AK001428 mRNA. Translation: BAG50911.1.
AC010378 Genomic DNA. No translation available.
CH471062 Genomic DNA. Translation: EAW62095.1.
CH471062 Genomic DNA. Translation: EAW62096.1.
CH471062 Genomic DNA. Translation: EAW62097.1.
BC033349 mRNA. Translation: AAH33349.1.
CCDSiCCDS43369.1. [P62837-1]
CCDS47275.1. [P62837-2]
PIRiI59365.
RefSeqiNP_003330.1. NM_003339.2. [P62837-1]
NP_862821.1. NM_181838.1. [P62837-2]
UniGeneiHs.108332.

Genome annotation databases

EnsembliENST00000398733; ENSP00000381717; ENSG00000131508. [P62837-1]
ENST00000398734; ENSP00000381718; ENSG00000131508. [P62837-1]
ENST00000505548; ENSP00000424941; ENSG00000131508. [P62837-2]
ENST00000511725; ENSP00000429613; ENSG00000131508. [P62837-2]
GeneIDi7322.
KEGGihsa:7322.
UCSCiuc003ler.3. human. [P62837-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U39317 mRNA. Translation: AAA91460.1.
L40146 Genomic DNA. Translation: AAC41750.1.
AY651263 mRNA. Translation: AAX35690.1.
AF317220 mRNA. Translation: AAK93958.1.
AK001311 mRNA. Translation: BAG50891.1.
AK001428 mRNA. Translation: BAG50911.1.
AC010378 Genomic DNA. No translation available.
CH471062 Genomic DNA. Translation: EAW62095.1.
CH471062 Genomic DNA. Translation: EAW62096.1.
CH471062 Genomic DNA. Translation: EAW62097.1.
BC033349 mRNA. Translation: AAH33349.1.
CCDSiCCDS43369.1. [P62837-1]
CCDS47275.1. [P62837-2]
PIRiI59365.
RefSeqiNP_003330.1. NM_003339.2. [P62837-1]
NP_862821.1. NM_181838.1. [P62837-2]
UniGeneiHs.108332.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1UR6NMR-A1-147[»]
1W4UNMR-A1-147[»]
2CLWX-ray1.94A/B/C/D1-147[»]
2ESKX-ray1.36A1-147[»]
2ESOX-ray1.50A1-147[»]
2ESPX-ray1.52A1-147[»]
2ESQX-ray1.44A1-147[»]
3A33X-ray2.20A1-147[»]
3JVZX-ray3.30A/B2-147[»]
3JW0X-ray3.10A/B2-147[»]
3L1YX-ray1.60A1-147[»]
3TGDX-ray1.80A1-147[»]
3ZNIX-ray2.21C/G/K/O2-147[»]
4A49X-ray2.21B1-147[»]
4A4BX-ray2.79C1-147[»]
4A4CX-ray2.70C1-147[»]
4AUQX-ray2.18A/D1-147[»]
4DDGX-ray3.30A/B/C/J/K/L1-147[»]
4LDTX-ray1.90C1-147[»]
4V3KX-ray2.04A/D2-147[»]
4V3LX-ray1.53A2-147[»]
4WZ3X-ray2.70A1-147[»]
5D0KX-ray2.65A/D/G/J1-147[»]
5D0MX-ray1.91A1-147[»]
5D1KX-ray1.78A1-147[»]
5D1LX-ray1.62A1-147[»]
5D1MX-ray1.58A1-147[»]
5EDVX-ray3.48C/D/I2-147[»]
ProteinModelPortaliP62837.
SMRiP62837.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi113170. 238 interactors.
DIPiDIP-29267N.
IntActiP62837. 108 interactors.
MINTiMINT-1035011.
STRINGi9606.ENSP00000381717.

Protein family/group databases

TCDBi3.A.20.1.1. the peroxisomal protein importer (ppi) family.

PTM databases

iPTMnetiP62837.
PhosphoSitePlusiP62837.

Polymorphism and mutation databases

BioMutaiUBE2D2.
DMDMi51338685.

Proteomic databases

EPDiP62837.
MaxQBiP62837.
PaxDbiP62837.
PeptideAtlasiP62837.
PRIDEiP62837.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000398733; ENSP00000381717; ENSG00000131508. [P62837-1]
ENST00000398734; ENSP00000381718; ENSG00000131508. [P62837-1]
ENST00000505548; ENSP00000424941; ENSG00000131508. [P62837-2]
ENST00000511725; ENSP00000429613; ENSG00000131508. [P62837-2]
GeneIDi7322.
KEGGihsa:7322.
UCSCiuc003ler.3. human. [P62837-1]

Organism-specific databases

CTDi7322.
DisGeNETi7322.
GeneCardsiUBE2D2.
H-InvDBHIX0019025.
HIX0028451.
HGNCiHGNC:12475. UBE2D2.
HPAiHPA003920.
MIMi602962. gene.
neXtProtiNX_P62837.
OpenTargetsiENSG00000131508.
PharmGKBiPA37125.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0417. Eukaryota.
COG5078. LUCA.
GeneTreeiENSGT00760000119012.
HOGENOMiHOG000233455.
HOVERGENiHBG063308.
InParanoidiP62837.
KOiK06689.
OMAiYAGGVYF.
PhylomeDBiP62837.
TreeFamiTF101108.

Enzyme and pathway databases

UniPathwayiUPA00143.
BioCyciMetaCyc:HS05542-MONOMER.
ZFISH:HS05542-MONOMER.
BRENDAi2.3.2.B5. 2681.
2.3.2.B6. 2681.
2.3.2.B8. 2681.
ReactomeiR-HSA-1234176. Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha.
R-HSA-202424. Downstream TCR signaling.
R-HSA-2871837. FCERI mediated NF-kB activation.
R-HSA-5607764. CLEC7A (Dectin-1) signaling.
R-HSA-8866652. Synthesis of active ubiquitin: roles of E1 and E2 enzymes.
R-HSA-936440. Negative regulators of RIG-I/MDA5 signaling.
R-HSA-937041. IKK complex recruitment mediated by RIP1.
R-HSA-983168. Antigen processing: Ubiquitination & Proteasome degradation.
SignaLinkiP62837.

Miscellaneous databases

ChiTaRSiUBE2D2. human.
EvolutionaryTraceiP62837.
GeneWikiiUBE2D2.
GenomeRNAii7322.
PROiP62837.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000131508.
CleanExiHS_UBE2D2.
ExpressionAtlasiP62837. baseline and differential.
GenevisibleiP62837. HS.

Family and domain databases

Gene3Di3.10.110.10. 1 hit.
InterProiIPR000608. UBQ-conjugat_E2.
IPR023313. UBQ-conjugating_AS.
IPR016135. UBQ-conjugating_enzyme/RWD.
[Graphical view]
PfamiPF00179. UQ_con. 1 hit.
[Graphical view]
SUPFAMiSSF54495. SSF54495. 1 hit.
PROSITEiPS00183. UBIQUITIN_CONJUGAT_1. 1 hit.
PS50127. UBIQUITIN_CONJUGAT_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiUB2D2_HUMAN
AccessioniPrimary (citable) accession number: P62837
Secondary accession number(s): D3DQC9
, P51669, Q3MN78, Q96RP6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 16, 2004
Last sequence update: August 16, 2004
Last modified: November 30, 2016
This is version 149 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 5
    Human chromosome 5: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  4. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  5. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.