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Protein

Ubiquitin-conjugating enzyme E2 D1

Gene

UBE2D1

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

Functioni

Accepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins (PubMed:22496338). In vitro catalyzes 'Lys-48'-linked polyubiquitination (PubMed:20061386). 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 auto-ubiquitination of STUB1, TRAF6 and TRIM63/MURF1 (PubMed:18042044, PubMed:18359941). Ubiquitinates STUB1-associated HSP90AB1 in vitro (PubMed:18042044). Lacks inherent specificity for any particular lysine residue of ubiquitin (PubMed:18042044). Essential for viral activation of IRF3 (PubMed:19854139). Mediates polyubiquitination of CYP3A4 (PubMed:19103148).6 Publications

Caution

PubMed:9362508 cloned and sequenced SFT which consisted of UBE2D1 last coding exon along with intronic sequences on the 5'-end of this exon. A function in iron transport has been described.Curated

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 annotation3 Publications
S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E1 ubiquitin-activating enzyme]-L-cysteine + N6-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: BHF-UCL
  • ubiquitin-protein transferase activity Source: UniProtKB

GO - Biological processi

Keywordsi

Molecular functionTransferase
Biological processUbl conjugation pathway
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BRENDAi2.3.2.B6 2681
2.3.2.B8 2681
ReactomeiR-HSA-1234176 Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha
R-HSA-141430 Inactivation of APC/C via direct inhibition of the APC/C complex
R-HSA-168927 TICAM1, RIP1-mediated IKK complex recruitment
R-HSA-174048 APC/C:Cdc20 mediated degradation of Cyclin B
R-HSA-174084 Autodegradation of Cdh1 by Cdh1:APC/C
R-HSA-174154 APC/C:Cdc20 mediated degradation of Securin
R-HSA-174178 APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1
R-HSA-174184 Cdc20:Phospho-APC/C mediated degradation of Cyclin A
R-HSA-176407 Conversion from APC/C:Cdc20 to APC/C:Cdh1 in late anaphase
R-HSA-176408 Regulation of APC/C activators between G1/S and early anaphase
R-HSA-176409 APC/C:Cdc20 mediated degradation of mitotic proteins
R-HSA-176412 Phosphorylation of the APC/C
R-HSA-179409 APC-Cdc20 mediated degradation of Nek2A
R-HSA-201451 Signaling by BMP
R-HSA-202424 Downstream TCR signaling
R-HSA-2173795 Downregulation of SMAD2/3:SMAD4 transcriptional activity
R-HSA-2467813 Separation of Sister Chromatids
R-HSA-2559582 Senescence-Associated Secretory Phenotype (SASP)
R-HSA-2871837 FCERI mediated NF-kB activation
R-HSA-5607764 CLEC7A (Dectin-1) signaling
R-HSA-5689896 Ovarian tumor domain proteases
R-HSA-69017 CDK-mediated phosphorylation and removal of Cdc6
R-HSA-8866652 Synthesis of active ubiquitin: roles of E1 and E2 enzymes
R-HSA-8866654 E3 ubiquitin ligases ubiquitinate target proteins
R-HSA-8951664 Neddylation
R-HSA-9033241 Peroxisomal protein import
R-HSA-936440 Negative regulators of DDX58/IFIH1 signaling
R-HSA-937041 IKK complex recruitment mediated by RIP1
R-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
SignaLinkiP51668
SIGNORiP51668
UniPathwayiUPA00143

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin-conjugating enzyme E2 D1 (EC:2.3.2.233 Publications)
Alternative name(s):
(E3-independent) E2 ubiquitin-conjugating enzyme D1 (EC:2.3.2.241 Publication)
E2 ubiquitin-conjugating enzyme D1
Stimulator of Fe transport
Short name:
SFT
UBC4/5 homolog
UbcH5
Ubiquitin carrier protein D1
Ubiquitin-conjugating enzyme E2(17)KB 1
Ubiquitin-conjugating enzyme E2-17 kDa 1
Ubiquitin-protein ligase D1
Gene namesi
Name:UBE2D1
Synonyms:SFT, UBC5A, UBCH5, UBCH5A
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 10

Organism-specific databases

EuPathDBiHostDB:ENSG00000072401.14
HGNCiHGNC:12474 UBE2D1
MIMi602961 gene
neXtProtiNX_P51668

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi4K → E: Decrease in autoubiquitination. 1 Publication1
Mutagenesisi42D → R: Decrease in autoubiquitination. 1 Publication1
Mutagenesisi62F → A: Decrease in autoubiquitination. 1 Publication1
Mutagenesisi87D → R: Decrease in autoubiquitination. 1 Publication1
Mutagenesisi94S → E: Decrease in autoubiquitination. 1 Publication1
Mutagenesisi98T → E: Decrease in autoubiquitination. 1 Publication1
Mutagenesisi112D → R: Decrease in autoubiquitination. 1 Publication1
Mutagenesisi116D → R: Decrease in autoubiquitination. 1 Publication1
Mutagenesisi117D → R: Decrease in autoubiquitination. 1 Publication1

Organism-specific databases

DisGeNETi7321
OpenTargetsiENSG00000072401
PharmGKBiPA37124

Polymorphism and mutation databases

BioMutaiUBE2D1
DMDMi1717848

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000824601 – 147Ubiquitin-conjugating enzyme E2 D1Add BLAST147

Post-translational modificationi

Autoubiquitinated in vitro.1 Publication

Keywords - PTMi

Ubl conjugation

Proteomic databases

EPDiP51668
MaxQBiP51668
PaxDbiP51668
PeptideAtlasiP51668
PRIDEiP51668

PTM databases

iPTMnetiP51668
PhosphoSitePlusiP51668

Expressioni

Tissue specificityi

Ubiquitous. Up-regulated in livers of iron-overloaded patients with hereditary hemochromatosis.2 Publications

Gene expression databases

BgeeiENSG00000072401
CleanExiHS_UBE2D1
ExpressionAtlasiP51668 baseline and differential
GenevisibleiP51668 HS

Organism-specific databases

HPAiHPA003920

Interactioni

Subunit structurei

Component of a E3 ubiquitin ligase complex containing UBE2D1, SIAH1, CACYBP/SIP, SKP1, APC and TBL1X. Interacts with RNF11.3 Publications

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi113169, 276 interactors
DIPiDIP-44088N
IntActiP51668, 115 interactors
MINTiP51668
STRINGi9606.ENSP00000363019

Structurei

Secondary structure

1147
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi1 – 15Combined sources15
Beta strandi21 – 26Combined sources6
Beta strandi29 – 38Combined sources10
Beta strandi41 – 43Combined sources3
Turni44 – 47Combined sources4
Beta strandi49 – 55Combined sources7
Turni58 – 61Combined sources4
Beta strandi66 – 69Combined sources4
Helixi87 – 89Combined sources3
Turni90 – 92Combined sources3
Helixi99 – 111Combined sources13
Beta strandi115 – 117Combined sources3
Helixi121 – 129Combined sources9
Helixi131 – 146Combined sources16

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2C4PX-ray2.35A/B1-147[»]
2YHOX-ray2.10B/D/F/H1-147[»]
3OJ4X-ray3.40A/D1-147[»]
3PTFX-ray2.70A/B1-147[»]
4AP4X-ray2.21B/E1-147[»]
4QPLX-ray1.90B/D1-147[»]
5FERX-ray2.34B/E1-147[»]
5TUTX-ray2.60A1-147[»]
ProteinModelPortaliP51668
SMRiP51668
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP51668

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiKOG0417 Eukaryota
COG5078 LUCA
GeneTreeiENSGT00910000143990
HOGENOMiHOG000233455
HOVERGENiHBG063308
InParanoidiP51668
KOiK06689
OMAiREWTANW
OrthoDBiEOG091G0GF8
PhylomeDBiP51668
TreeFamiTF101108

Family and domain databases

CDDicd00195 UBCc, 1 hit
Gene3Di3.10.110.10, 1 hit
InterProiView protein in InterPro
IPR000608 UBQ-conjugat_E2
IPR023313 UBQ-conjugating_AS
IPR016135 UBQ-conjugating_enzyme/RWD
PfamiView protein in Pfam
PF00179 UQ_con, 1 hit
SUPFAMiSSF54495 SSF54495, 1 hit
PROSITEiView protein in PROSITE
PS00183 UBIQUITIN_CONJUGAT_1, 1 hit
PS50127 UBIQUITIN_CONJUGAT_2, 1 hit

Sequencei

Sequence statusi: Complete.

P51668-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MALKRIQKEL SDLQRDPPAH CSAGPVGDDL FHWQATIMGP PDSAYQGGVF
60 70 80 90 100
FLTVHFPTDY PFKPPKIAFT TKIYHPNINS NGSICLDILR SQWSPALTVS
110 120 130 140
KVLLSICSLL CDPNPDDPLV PDIAQIYKSD KEKYNRHARE WTQKYAM
Length:147
Mass (Da):16,602
Last modified:October 1, 1996 - v1
Checksum:i2E96FD0179EE119D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X78140 mRNA Translation: CAA55019.1
AF257220 mRNA Translation: AAM81086.1
AJ272367 mRNA Translation: CAC82177.1
AK291901 mRNA Translation: BAF84590.1
AJ293565 Genomic DNA Translation: CAC82097.1
BT007041 mRNA Translation: AAP35690.1
AC016396 Genomic DNA No translation available.
AC023170 Genomic DNA No translation available.
CH471083 Genomic DNA Translation: EAW54169.1
BC005980 mRNA Translation: AAH05980.1
BC015997 mRNA Translation: AAH15997.1
AF020761 mRNA No translation available.
CCDSiCCDS7252.1
PIRiI39202
RefSeqiNP_003329.1, NM_003338.4
UniGeneiHs.129683

Genome annotation databases

EnsembliENST00000373910; ENSP00000363019; ENSG00000072401
GeneIDi7321
KEGGihsa:7321
UCSCiuc001jke.3 human

Similar proteinsi

Entry informationi

Entry nameiUB2D1_HUMAN
AccessioniPrimary (citable) accession number: P51668
Secondary accession number(s): A6NLF6, A8K786
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: May 23, 2018
This is version 179 of the entry and version 1 of the sequence. See 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, Reference proteome

Documents

  1. Human chromosome 10
    Human chromosome 10: 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

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