Details of the Target

General Information of Target

Target ID LDTP13927
Target Name Ubiquitin-conjugating enzyme E2 D4 (UBE2D4)
Gene Name UBE2D4
Gene ID 51619
Synonyms
UBCH5D; Ubiquitin-conjugating enzyme E2 D4; EC 2.3.2.23; E2 ubiquitin-conjugating enzyme D4; HBUCE1; Ubiquitin carrier protein D4; Ubiquitin-protein ligase D4
3D Structure
Download
2D Sequence (FASTA)
Download
3D Structure (PDB)
Download
Sequence
MSRKGPRAEVCADCSAPDPGWASISRGVLVCDECCSVHRSLGRHISIVKHLRHSAWPPTL
LQMVHTLASNGANSIWEHSLLDPAQVQSGRRKANPQDKVHPIKSEFIRAKYQMLAFVHKL
PCRDDDGVTAKDLSKQLHSSVRTGNLETCLRLLSLGAQANFFHPEKGTTPLHVAAKAGQT
LQAELLVVYGADPGSPDVNGRTPIDYARQAGHHELAERLVECQYELTDRLAFYLCGRKPD
HKNGHYIIPQMADSLDLSELAKAAKKKLQALSNRLFEELAMDVYDEVDRRENDAVWLATQ
NHSTLVTERSAVPFLPVNPEYSATRNQGRQKLARFNAREFATLIIDILSEAKRRQQGKSL
SSPTDNLELSLRSQSDLDDQHDYDSVASDEDTDQEPLRSTGATRSNRARSMDSSDLSDGA
VTLQEYLELKKALATSEAKVQQLMKVNSSLSDELRRLQREIHKLQAENLQLRQPPGPVPT
PPLPSERAEHTPMAPGGSTHRRDRQAFSMYEPGSALKPFGGPPGDELTTRLQPFHSTELE
DDAIYSVHVPAGLYRIRKGVSASAVPFTPSSPLLSCSQEGSRHTSKLSRHGSGADSDYEN
TQSGDPLLGLEGKRFLELGKEEDFHPELESLDGDLDPGLPSTEDVILKTEQVTKNIQELL
RAAQEFKHDSFVPCSEKIHLAVTEMASLFPKRPALEPVRSSLRLLNASAYRLQSECRKTV
PPEPGAPVDFQLLTQQVIQCAYDIAKAAKQLVTITTREKKQ
Target Bioclass
Enzyme
Family
Ubiquitin-conjugating enzyme family
Function
Accepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. In vitro able to promote polyubiquitination using all 7 ubiquitin Lys residues, but may prefer 'Lys-11' and 'Lys-48'-linked polyubiquitination.
Uniprot ID
Q9Y2X8
Ensemble ID
ENST00000222402.8
HGNC ID
HGNC:21647

Probe(s) Labeling This Target

ABPP Probe
Click To Hide/Show 6 Probe Related to This Target
Probe name Structure Binding Site(Ratio) Interaction ID Ref
IA-alkyne
 Probe Info  		C85(7.13)  LDD2157  [1]
IPM
 Probe Info  		N.A.  LDD0241  [2]
AHL-Pu-1
 Probe Info  		C85(11.17)  LDD0170  [3]
DBIA
 Probe Info  		C111(0.88)  LDD1573  [4]
NAIA_5
 Probe Info  		N.A.  LDD2225  [5]
W1
 Probe Info  		N.A.  LDD0236  [2]
PAL-AfBPP Probe
Click To Hide/Show 1 Probe Related to This Target
Probe name Structure Binding Site(Ratio) Interaction ID Ref
DA-2
 Probe Info  		N.A.  LDD0071  [6]

Competitor(s) Related to This Target

Competitor ID Name Cell line Binding Site(Ratio) Interaction ID Ref
 LDCM0025  4SU-RNA DM93 C85(11.17)  LDD0170  [3]
 LDCM0026  4SU-RNA+native RNA DM93 C85(2.91)  LDD0171  [3]
 LDCM0369  CL100 HEK-293T C111(0.88)  LDD1573  [4]
 LDCM0371  CL102 HEK-293T C111(1.06)  LDD1575  [4]
 LDCM0373  CL104 HEK-293T C111(0.97)  LDD1577  [4]
 LDCM0375  CL106 HEK-293T C111(1.41)  LDD1579  [4]
 LDCM0377  CL108 HEK-293T C111(0.89)  LDD1581  [4]
 LDCM0380  CL110 HEK-293T C111(0.96)  LDD1584  [4]
 LDCM0382  CL112 HEK-293T C111(0.83)  LDD1586  [4]
 LDCM0384  CL114 HEK-293T C111(1.09)  LDD1588  [4]
 LDCM0386  CL116 HEK-293T C111(0.91)  LDD1590  [4]
 LDCM0388  CL118 HEK-293T C111(0.93)  LDD1592  [4]
 LDCM0391  CL120 HEK-293T C111(0.98)  LDD1595  [4]
 LDCM0393  CL122 HEK-293T C111(0.82)  LDD1597  [4]
 LDCM0395  CL124 HEK-293T C111(0.86)  LDD1599  [4]
 LDCM0397  CL126 HEK-293T C111(0.74)  LDD1601  [4]
 LDCM0399  CL128 HEK-293T C111(0.92)  LDD1603  [4]
 LDCM0401  CL14 HEK-293T C111(1.11)  LDD1605  [4]
 LDCM0403  CL16 HEK-293T C111(1.12)  LDD1607  [4]
 LDCM0407  CL2 HEK-293T C111(1.36)  LDD1611  [4]
 LDCM0414  CL26 HEK-293T C111(0.76)  LDD1618  [4]
 LDCM0416  CL28 HEK-293T C111(0.94)  LDD1620  [4]
 LDCM0429  CL4 HEK-293T C111(0.90)  LDD1633  [4]
 LDCM0430  CL40 HEK-293T C111(0.87)  LDD1634  [4]
 LDCM0441  CL50 HEK-293T C111(0.88)  LDD1645  [4]
 LDCM0443  CL52 HEK-293T C111(1.01)  LDD1646  [4]
 LDCM0454  CL62 HEK-293T C111(0.95)  LDD1657  [4]
 LDCM0456  CL64 HEK-293T C111(0.90)  LDD1659  [4]
 LDCM0467  CL74 HEK-293T C111(0.84)  LDD1670  [4]
 LDCM0469  CL76 HEK-293T C111(0.99)  LDD1672  [4]
 LDCM0480  CL86 HEK-293T C111(1.12)  LDD1683  [4]
 LDCM0482  CL88 HEK-293T C111(0.92)  LDD1685  [4]
 LDCM0493  CL98 HEK-293T C111(0.94)  LDD1696  [4]
 LDCM0427  Fragment51 HEK-293T C111(0.95)  LDD1631  [4]
 LDCM0113  W17 Hep-G2 C85(2.37)  LDD0240  [2]

The Interaction Atlas With This Target

The Protein(s) Related To This Target

Enzyme
Click To Hide/Show 26 Protein(s) Interacting with This Target
Protein name Family Uniprot ID
DNA-directed RNA polymerases I, II, and III subunit RPABC1 (POLR2E) Archaeal Rpo5/eukaryotic RPB5 RNA polymerase subunit family P19388
Probable E3 ubiquitin-protein ligase DTX2 (DTX2) Deltex family Q86UW9
Probable E3 ubiquitin-protein ligase DTX3 (DTX3) Deltex family Q8N9I9
Ubiquitin thioesterase OTUB1 (OTUB1) Peptidase C65 family Q96FW1
E3 ubiquitin-protein ligase RNF14 (RNF14) RBR family Q9UBS8
E3 ubiquitin-protein ligase RNF181 (RNF181) RNF181 family Q9P0P0
E3 ubiquitin-protein ligase RNF5 (RNF5) RNF5 family Q99942
E3 ubiquitin-protein ligase Midline-1 (MID1) TRIM/RBCC family O15344
E3 ubiquitin-protein ligase TRIM39 (TRIM39) TRIM/RBCC family Q9HCM9
E3 ubiquitin-protein ligase TRIM50 (TRIM50) TRIM/RBCC family Q86XT4
E3 ubiquitin-protein ligase TRIM62 (TRIM62) TRIM/RBCC family Q9BVG3
E3 ubiquitin-protein ligase TRIM8 (TRIM8) TRIM/RBCC family Q9BZR9
E3 ubiquitin-protein ligase LNX (LNX1) . Q8TBB1
E3 ubiquitin-protein ligase makorin-1 (MKRN1) . Q9UHC7
E3 ubiquitin-protein ligase makorin-2 (MKRN2) . Q9H000
E3 ubiquitin-protein ligase RING1 (RING1) . Q06587
E3 ubiquitin-protein ligase RING2 (RNF2) . Q99496
E3 ubiquitin-protein ligase RNF115 (RNF115) . Q9Y4L5
E3 ubiquitin-protein ligase RNF126 (RNF126) . Q9BV68
E3 ubiquitin-protein ligase RNF166 (RNF166) . Q96A37
E3 ubiquitin-protein ligase RNF185 (RNF185) . Q96GF1
E3 ubiquitin-protein ligase RNF25 (RNF25) . Q96BH1
E3 ubiquitin-protein ligase ZNRF1 (ZNRF1) . Q8ND25
Tripartite motif-containing protein 54 (TRIM54) . Q9BYV2
Ubiquitin domain-containing protein 1 (UBTD1) . Q9HAC8
Ubiquitin domain-containing protein 2 (UBTD2) . Q8WUN7
Transporter and channel
Click To Hide/Show 2 Protein(s) Interacting with This Target
Protein name Family Uniprot ID
Huntingtin (HTT) Huntingtin family P42858
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-2 (GNB2) WD repeat G protein beta family P62879
Other
Click To Hide/Show 5 Protein(s) Interacting with This Target
Protein name Family Uniprot ID
Protein INCA1 (INCA1) INCA family Q0VD86
DAZ-associated protein 2 (DAZAP2) . Q15038
NF-kappa-B essential modulator (IKBKG) . Q9Y6K9
PHD finger protein 7 (PHF7) . Q9BWX1
RING finger protein 11 (RNF11) . Q9Y3C5

References

1 From chemoproteomic-detected amino acids to genomic coordinates: insights into precise multi-omic data integration. Mol Syst Biol. 2021 Feb;17(2):e9840. doi: 10.15252/msb.20209840.
Mass spectrometry data entry: PXD022151
2 Oxidant-Induced Bioconjugation for Protein Labeling in Live Cells. ACS Chem Biol. 2023 Jan 20;18(1):112-122. doi: 10.1021/acschembio.2c00740. Epub 2022 Dec 21.
3 Chemoproteomic capture of RNA binding activity in living cells. Nat Commun. 2023 Oct 7;14(1):6282. doi: 10.1038/s41467-023-41844-z.
Mass spectrometry data entry: PXD044625
4 Accelerating multiplexed profiling of protein-ligand interactions: High-throughput plate-based reactive cysteine profiling with minimal input. Cell Chem Biol. 2024 Mar 21;31(3):565-576.e4. doi: 10.1016/j.chembiol.2023.11.015. Epub 2023 Dec 19.
Mass spectrometry data entry: PXD044402
5 N-Acryloylindole-alkyne (NAIA) enables imaging and profiling new ligandable cysteines and oxidized thiols by chemoproteomics. Nat Commun. 2023 Jun 15;14(1):3564. doi: 10.1038/s41467-023-39268-w.
Mass spectrometry data entry: PXD041264
6 Cell-based proteome profiling of potential dasatinib targets by use of affinity-based probes. J Am Chem Soc. 2012 Feb 15;134(6):3001-14. doi: 10.1021/ja208518u. Epub 2012 Feb 1.