Details of the Target

General Information of Target

Target ID LDTP04793
Target Name Poly(rC)-binding protein 3 (PCBP3)
Gene Name PCBP3
Gene ID 54039
Synonyms
PCBP3-OT1; PCBP3OT; Poly(rC)-binding protein 3; Alpha-CP3; PCBP3-overlapping transcript; PCBP3-overlapping transcript 1
3D Structure
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2D Sequence (FASTA)
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3D Structure (PDB)
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Sequence
MGEGDAFWAPSVLPHSTLSTLSHHPQPQFGRRMESKVSEGGLNVTLTIRLLMHGKEVGSI
IGKKGETVKKMREESGARINISEGNCPERIVTITGPTDAIFKAFAMIAYKFEEDIINSMS
NSPATSKPPVTLRLVVPASQCGSLIGKGGSKIKEIRESTGAQVQVAGDMLPNSTERAVTI
SGTPDAIIQCVKQICVVMLESPPKGATIPYRPKPASTPVIFAGGQAYTIQGQYAIPHPDQ
LTKLHQLAMQQTPFPPLGQTNPAFPGEKLPLHSSEEAQNLMGQSSGLDASPPASTHELTI
PNDLIGCIIGRQGTKINEIRQMSGAQIKIANATEGSSERQITITGTPANISLAQYLINAR
LTSEVTGMGTL
Target Bioclass
Other
Subcellular location
Cytoplasm
Function Single-stranded nucleic acid binding protein that binds preferentially to oligo dC.
Uniprot ID
P57721
Ensemble ID
ENST00000400308.5
HGNC ID
HGNC:8651

Target Site Mutations in Different Cell Lines

Cell line Mutation details Probe for labeling this protein in this cell
COLO792 SNV: p.G345R .
JURKAT SNV: p.R211H .
NCIH1793 SNV: p.G62W .

Probe(s) Labeling This Target

ABPP Probe
Click To Hide/Show 24 Probe Related to This Target
Probe name Structure Binding Site(Ratio) Interaction ID Ref
m-APA
 Probe Info  		15.00  LDD0402  [1]
BTD
 Probe Info  		C86(9.01)  LDD1699  [2]
AZ-9
 Probe Info  		E88(1.00)  LDD2208  [3]
IPM
 Probe Info  		C86(0.00); C141(0.00); C195(0.00)  LDD0241  [4]
EA-probe
 Probe Info  		N.A.  LDD0440  [5]
DBIA
 Probe Info  		C141(31.62); C86(14.72)  LDD0209  [6]
4-Iodoacetamidophenylacetylene
 Probe Info  		N.A.  LDD0038  [7]
IA-alkyne
 Probe Info  		C86(0.00); C141(0.00); C195(0.00)  LDD0032  [8]
IPIAA_H
 Probe Info  		C86(0.00); C195(0.00)  LDD0030  [9]
IPIAA_L
 Probe Info  		C195(0.00); C141(0.00); C86(0.00)  LDD0031  [9]
Lodoacetamide azide
 Probe Info  		N.A.  LDD0037  [7]
Dyn-2
 Probe Info  		N.A.  LDD0013  [10]
JW-RF-010
 Probe Info  		C195(0.00); C86(0.00); C141(0.00)  LDD0026  [11]
TFBX
 Probe Info  		C195(0.00); C141(0.00); C86(0.00)  LDD0027  [11]
WYneO
 Probe Info  		C86(0.00); C141(0.00)  LDD0022  [10]
ENE
 Probe Info  		C141(0.00); C86(0.00)  LDD0006  [10]
PPMS
 Probe Info  		C86(0.00); C141(0.00)  LDD0008  [10]
Acrolein
 Probe Info  		C141(0.00); C195(0.00); C86(0.00); H53(0.00)  LDD0217  [12]
Cinnamaldehyde
 Probe Info  		C86(0.00); C141(0.00)  LDD0220  [12]
Crotonaldehyde
 Probe Info  		C86(0.00); C141(0.00); C195(0.00)  LDD0219  [12]
Methacrolein
 Probe Info  		C86(0.00); C141(0.00); C195(0.00)  LDD0218  [12]
W1
 Probe Info  		C141(0.00); C86(0.00); C195(0.00)  LDD0236  [4]
NAIA_5
 Probe Info  		C86(0.00); C141(0.00); C195(0.00)  LDD2223  [13]
HHS-465
 Probe Info  		K63(0.00); K55(0.00)  LDD2240  [14]
PAL-AfBPP Probe
Click To Hide/Show 4 Probe Related to This Target
Probe name Structure Binding Site(Ratio) Interaction ID Ref
FFF probe13
 Probe Info  		9.94  LDD0475  [15]
FFF probe2
 Probe Info  		7.02  LDD0463  [15]
JN0003
 Probe Info  		16.16  LDD0469  [15]
STS-2
 Probe Info  		N.A.  LDD0138  [16]

Competitor(s) Related to This Target

Competitor ID Name Cell line Binding Site(Ratio) Interaction ID Ref
 LDCM0548  1-(4-(Benzo[d][1,3]dioxol-5-ylmethyl)piperazin-1-yl)-2-nitroethan-1-one MDA-MB-231 C195(0.60); C141(0.44)  LDD2142  [2]
 LDCM0519  1-(6-methoxy-3,4-dihydroquinolin-1(2H)-yl)-2-nitroethan-1-one MDA-MB-231 C195(0.70); C141(0.57)  LDD2112  [2]
 LDCM0537  2-Cyano-N,N-dimethylacetamide MDA-MB-231 C141(0.85)  LDD2130  [2]
 LDCM0524  2-Cyano-N-(2-morpholin-4-yl-ethyl)-acetamide MDA-MB-231 C141(0.70)  LDD2117  [2]
 LDCM0558  2-Cyano-N-phenylacetamide MDA-MB-231 C195(1.45)  LDD2152  [2]
 LDCM0510  3-(4-(Hydroxydiphenylmethyl)piperidin-1-yl)-3-oxopropanenitrile MDA-MB-231 C141(1.31)  LDD2103  [2]
 LDCM0539  3-(4-Isopropylpiperazin-1-yl)-3-oxopropanenitrile MDA-MB-231 C141(0.48)  LDD2132  [2]
 LDCM0538  4-(Cyanoacetyl)morpholine MDA-MB-231 C141(0.66)  LDD2131  [2]
 LDCM0545  Acetamide MDA-MB-231 C141(0.41)  LDD2138  [2]
 LDCM0520  AKOS000195272 MDA-MB-231 C195(0.90)  LDD2113  [2]
 LDCM0156  Aniline NCI-H1299 11.79  LDD0403  [1]
 LDCM0020  ARS-1620 HCC44 C141(1.05); C86(0.93)  LDD2171  [17]
 LDCM0498  BS-3668 MDA-MB-231 C195(1.15); C141(0.46)  LDD2091  [2]
 LDCM0108  Chloroacetamide HeLa C195(0.00); C141(0.00); C86(0.00); H53(0.00)  LDD0222  [12]
 LDCM0632  CL-Sc Hep-G2 C195(1.06)  LDD2227  [13]
 LDCM0175  Ethacrynic acid HeLa N.A.  LDD0440  [5]
 LDCM0573  Fragment11 Ramos C195(6.79)  LDD2190  [18]
 LDCM0576  Fragment14 Ramos C195(0.30)  LDD2193  [18]
 LDCM0586  Fragment28 Ramos C195(1.14)  LDD2198  [18]
 LDCM0569  Fragment7 Ramos C195(0.38)  LDD2186  [18]
 LDCM0107  IAA HeLa C195(0.00); C141(0.00); C86(0.00); H53(0.00)  LDD0221  [12]
 LDCM0022  KB02 Ramos C195(0.28)  LDD2182  [18]
 LDCM0023  KB03 Jurkat C141(31.62); C86(14.72)  LDD0209  [6]
 LDCM0024  KB05 COLO792 C141(2.68); C195(1.38)  LDD3310  [19]
 LDCM0509  N-(4-bromo-3,5-dimethylphenyl)-2-nitroacetamide MDA-MB-231 C141(1.13)  LDD2102  [2]
 LDCM0528  N-(4-bromophenyl)-2-cyano-N-phenylacetamide MDA-MB-231 C195(1.26); C141(0.61)  LDD2121  [2]
 LDCM0109  NEM HeLa C141(0.00); H53(0.00); C86(0.00)  LDD0223  [12]
 LDCM0496  Nucleophilic fragment 11a MDA-MB-231 C141(0.55)  LDD2089  [2]
 LDCM0497  Nucleophilic fragment 11b MDA-MB-231 C141(1.34)  LDD2090  [2]
 LDCM0500  Nucleophilic fragment 13a MDA-MB-231 C141(0.98)  LDD2093  [2]
 LDCM0501  Nucleophilic fragment 13b MDA-MB-231 C141(1.26)  LDD2094  [2]
 LDCM0504  Nucleophilic fragment 15a MDA-MB-231 C195(1.19); C141(0.63)  LDD2097  [2]
 LDCM0505  Nucleophilic fragment 15b MDA-MB-231 C195(0.75); C141(0.72)  LDD2098  [2]
 LDCM0506  Nucleophilic fragment 16a MDA-MB-231 C195(1.94); C141(0.80)  LDD2099  [2]
 LDCM0507  Nucleophilic fragment 16b MDA-MB-231 C141(0.48)  LDD2100  [2]
 LDCM0508  Nucleophilic fragment 17a MDA-MB-231 C195(1.01)  LDD2101  [2]
 LDCM0511  Nucleophilic fragment 18b MDA-MB-231 C141(0.50)  LDD2104  [2]
 LDCM0512  Nucleophilic fragment 19a MDA-MB-231 C141(1.81)  LDD2105  [2]
 LDCM0513  Nucleophilic fragment 19b MDA-MB-231 C141(0.54)  LDD2106  [2]
 LDCM0514  Nucleophilic fragment 20a MDA-MB-231 C195(1.11); C141(0.71)  LDD2107  [2]
 LDCM0515  Nucleophilic fragment 20b MDA-MB-231 C141(0.52)  LDD2108  [2]
 LDCM0516  Nucleophilic fragment 21a MDA-MB-231 C195(0.77); C141(0.52)  LDD2109  [2]
 LDCM0518  Nucleophilic fragment 22a MDA-MB-231 C195(1.56)  LDD2111  [2]
 LDCM0521  Nucleophilic fragment 23b MDA-MB-231 C141(0.83)  LDD2114  [2]
 LDCM0525  Nucleophilic fragment 25b MDA-MB-231 C141(0.52)  LDD2118  [2]
 LDCM0526  Nucleophilic fragment 26a MDA-MB-231 C141(2.73)  LDD2119  [2]
 LDCM0527  Nucleophilic fragment 26b MDA-MB-231 C195(0.52); C141(0.67)  LDD2120  [2]
 LDCM0529  Nucleophilic fragment 27b MDA-MB-231 C141(0.40)  LDD2122  [2]
 LDCM0530  Nucleophilic fragment 28a MDA-MB-231 C195(1.20); C141(0.88)  LDD2123  [2]
 LDCM0532  Nucleophilic fragment 29a MDA-MB-231 C195(1.13); C141(0.67)  LDD2125  [2]
 LDCM0533  Nucleophilic fragment 29b MDA-MB-231 C141(0.50)  LDD2126  [2]
 LDCM0534  Nucleophilic fragment 30a MDA-MB-231 C195(1.15); C141(0.79)  LDD2127  [2]
 LDCM0535  Nucleophilic fragment 30b MDA-MB-231 C195(0.65); C141(0.75); C86(1.05)  LDD2128  [2]
 LDCM0536  Nucleophilic fragment 31 MDA-MB-231 C195(1.71); C141(0.98)  LDD2129  [2]
 LDCM0540  Nucleophilic fragment 35 MDA-MB-231 C195(0.74); C141(0.61)  LDD2133  [2]
 LDCM0541  Nucleophilic fragment 36 MDA-MB-231 C195(0.57)  LDD2134  [2]
 LDCM0542  Nucleophilic fragment 37 MDA-MB-231 C195(1.58); C141(1.14)  LDD2135  [2]
 LDCM0543  Nucleophilic fragment 38 MDA-MB-231 C195(1.73); C141(0.94)  LDD2136  [2]
 LDCM0544  Nucleophilic fragment 39 MDA-MB-231 C195(1.15); C141(0.74)  LDD2137  [2]
 LDCM0546  Nucleophilic fragment 40 MDA-MB-231 C195(1.11); C141(0.55)  LDD2140  [2]
 LDCM0549  Nucleophilic fragment 43 MDA-MB-231 C141(0.83)  LDD2143  [2]
 LDCM0550  Nucleophilic fragment 5a MDA-MB-231 C195(1.89); C141(3.14)  LDD2144  [2]
 LDCM0552  Nucleophilic fragment 6a MDA-MB-231 C195(0.93); C141(0.75)  LDD2146  [2]
 LDCM0553  Nucleophilic fragment 6b MDA-MB-231 C195(1.00); C141(1.89)  LDD2147  [2]
 LDCM0554  Nucleophilic fragment 7a MDA-MB-231 C195(0.44)  LDD2148  [2]
 LDCM0556  Nucleophilic fragment 8a MDA-MB-231 C195(0.82); C141(0.40)  LDD2150  [2]
 LDCM0559  Nucleophilic fragment 9b MDA-MB-231 C195(1.61)  LDD2153  [2]
 LDCM0021  THZ1 HCT 116 C141(1.05); C86(0.93)  LDD2173  [17]

The Interaction Atlas With This Target

The Protein(s) Related To This Target

Enzyme
Click To Hide/Show 1 Protein(s) Interacting with This Target
Protein name Family Uniprot ID
E3 ubiquitin-protein ligase RNF4 (RNF4) . P78317
Other
Click To Hide/Show 5 Protein(s) Interacting with This Target
Protein name Family Uniprot ID
DNA damage-inducible transcript 4-like protein (DDIT4L) DDIT4 family Q96D03
RNA-binding protein 47 (RBM47) RRM RBM47 family A0AV96
U1 small nuclear ribonucleoprotein A (SNRPA) RRM U1 A/B'' family P09012
Serine/arginine-rich splicing factor 3 (SRSF3) Splicing factor SR family P84103
Matrin-3 (MATR3) . P43243

References

1 Quantitative and Site-Specific Chemoproteomic Profiling of Targets of Acrolein. Chem Res Toxicol. 2019 Mar 18;32(3):467-473. doi: 10.1021/acs.chemrestox.8b00343. Epub 2019 Jan 15.
2 Nucleophilic covalent ligand discovery for the cysteine redoxome. Nat Chem Biol. 2023 Nov;19(11):1309-1319. doi: 10.1038/s41589-023-01330-5. Epub 2023 May 29.
Mass spectrometry data entry: PXD039908 , PXD029761
3 2H-Azirine-Based Reagents for Chemoselective Bioconjugation at Carboxyl Residues Inside Live Cells. J Am Chem Soc. 2020 Apr 1;142(13):6051-6059. doi: 10.1021/jacs.9b12116. Epub 2020 Mar 23.
4 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.
5 Chemoproteomic Profiling Reveals Ethacrynic Acid Targets Adenine Nucleotide Translocases to Impair Mitochondrial Function. Mol Pharm. 2018 Jun 4;15(6):2413-2422. doi: 10.1021/acs.molpharmaceut.8b00250. Epub 2018 May 15.
6 Covalent Inhibition by a Natural Product-Inspired Latent Electrophile. J Am Chem Soc. 2023 May 24;145(20):11097-11109. doi: 10.1021/jacs.3c00598. Epub 2023 May 15.
7 Enhancing Cysteine Chemoproteomic Coverage through Systematic Assessment of Click Chemistry Product Fragmentation. Anal Chem. 2022 Mar 8;94(9):3800-3810. doi: 10.1021/acs.analchem.1c04402. Epub 2022 Feb 23.
Mass spectrometry data entry: PXD028853
8 SP3-FAIMS Chemoproteomics for High-Coverage Profiling of the Human Cysteinome*. Chembiochem. 2021 May 14;22(10):1841-1851. doi: 10.1002/cbic.202000870. Epub 2021 Feb 18.
Mass spectrometry data entry: PXD023056 , PXD023059 , PXD023058 , PXD023057 , PXD023060
9 SP3-Enabled Rapid and High Coverage Chemoproteomic Identification of Cell-State-Dependent Redox-Sensitive Cysteines. Mol Cell Proteomics. 2022 Apr;21(4):100218. doi: 10.1016/j.mcpro.2022.100218. Epub 2022 Feb 25.
Mass spectrometry data entry: PXD029500 , PXD031647
10 A modification-centric assessment tool for the performance of chemoproteomic probes. Nat Chem Biol. 2022 Aug;18(8):904-912. doi: 10.1038/s41589-022-01074-8. Epub 2022 Jul 21.
Mass spectrometry data entry: PXD027758 , PXD027755 , PXD027760 , PXD027762 , PXD027756 , PXD027591 , PXD007149 , PXD030064 , PXD032392 , PXD027789 , PXD027767 , PXD027764
11 Chemoproteomic Profiling by Cysteine Fluoroalkylation Reveals Myrocin G as an Inhibitor of the Nonhomologous End Joining DNA Repair Pathway. J Am Chem Soc. 2021 Dec 8;143(48):20332-20342. doi: 10.1021/jacs.1c09724. Epub 2021 Nov 24.
Mass spectrometry data entry: PXD029255
12 ACR-Based Probe for the Quantitative Profiling of Histidine Reactivity in the Human Proteome. J Am Chem Soc. 2023 Mar 8;145(9):5252-5260. doi: 10.1021/jacs.2c12653. Epub 2023 Feb 27.
13 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
14 Global profiling identifies a stress-responsive tyrosine site on EDC3 regulating biomolecular condensate formation. Cell Chem Biol. 2022 Dec 15;29(12):1709-1720.e7. doi: 10.1016/j.chembiol.2022.11.008. Epub 2022 Dec 6.
Mass spectrometry data entry: PXD038010
15 Ligand and Target Discovery by Fragment-Based Screening in Human Cells. Cell. 2017 Jan 26;168(3):527-541.e29. doi: 10.1016/j.cell.2016.12.029. Epub 2017 Jan 19.
16 Design and synthesis of minimalist terminal alkyne-containing diazirine photo-crosslinkers and their incorporation into kinase inhibitors for cell- and tissue-based proteome profiling. Angew Chem Int Ed Engl. 2013 Aug 12;52(33):8551-6. doi: 10.1002/anie.201300683. Epub 2013 Jun 10.
17 Reimagining high-throughput profiling of reactive cysteines for cell-based screening of large electrophile libraries. Nat Biotechnol. 2021 May;39(5):630-641. doi: 10.1038/s41587-020-00778-3. Epub 2021 Jan 4.
18 Site-specific quantitative cysteine profiling with data-independent acquisition-based mass spectrometry. Methods Enzymol. 2023;679:295-322. doi: 10.1016/bs.mie.2022.07.037. Epub 2022 Sep 7.
Mass spectrometry data entry: PXD027578
19 DrugMap: A quantitative pan-cancer analysis of cysteine ligandability. Cell. 2024 May 9;187(10):2536-2556.e30. doi: 10.1016/j.cell.2024.03.027. Epub 2024 Apr 22.
Mass spectrometry data entry: PXD047840