Details of the Probe

General Information of Probe

Probe ID
LDPC0612
Probe Name
C393
Synonyms
Z4225958861
Probe Type
PAL-AfBPP Probe
Structure
3D MOL 2D MOL
Ro5 Violations (Lipinski): 0 Molecular Weight (mw) 338.4
Lipid-water partition coefficient (xlogp) 0.9
Rotatable Bond Count (rotbonds) 7
Hydrogen Bond Donor Count (hbonddonor) 1
Hydrogen Bond Acceptor Count (hbondacc) 6
Chemical Identifiers
Formula
C15H22N4O3S
IUPAC Name
N-[2-(3-but-3-ynyldiazirin-3-yl)ethyl]-2-(4,4-dioxo-4lambda6-thia-5-azaspiro[2.5]octan-5-yl)acetamide
Canonical SMILES
C#CCCC1(N=N1)CCNC(=O)CN2CCCC3(S2(=O)=O)CC3
InChI
InChI=1S/C15H22N4O3S/c1-2-3-6-15(17-18-15)9-10-16-13(20)12-19-11-4-5-14(7-8-14)23(19,21)22/h1H,3-12H2,(H,16,20)
InChIKey
GEZZDDNCIAJOAS-UHFFFAOYSA-N

The Probe Interaction Atlas

Target(s) List of this Probe

56 Enzyme Labeled by This Probe
Target Name Target ID Binding Site(Ratio) Interaction ID
5'-3' exonuclease PLD3 (PLD3) LDTP08476 5.94  LDD2052 
5'-3' exonuclease PLD3 (PLD3) LDTP08476 5.94  LDD2052 
7-methylguanosine phosphate-specific 5'-nucleotidase (NT5C3B) LDTP10032 10.20  LDD2052 
7-methylguanosine phosphate-specific 5'-nucleotidase (NT5C3B) LDTP10032 10.20  LDD2052 
Acid ceramidase (ASAH1) LDTP05905 5.31  LDD2052 
Acid ceramidase (ASAH1) LDTP05905 5.31  LDD2052 
Aldehyde dehydrogenase X, mitochondrial (ALDH1B1) LDTP03560 6.06  LDD2052 
Aldehyde dehydrogenase X, mitochondrial (ALDH1B1) LDTP03560 6.06  LDD2052 
Beta-1,4-glucuronyltransferase 1 (B4GAT1) LDTP00783 6.19  LDD2052 
Beta-1,4-glucuronyltransferase 1 (B4GAT1) LDTP00783 6.19  LDD2052 
Bis(monoacylglycero)phosphate synthase CLN5 (CLN5) LDTP01241 7.16  LDD2052 
Bis(monoacylglycero)phosphate synthase CLN5 (CLN5) LDTP01241 7.16  LDD2052 
Choline kinase alpha (CHKA) LDTP03787 42.52  LDD2052 
Choline kinase alpha (CHKA) LDTP03787 42.52  LDD2052 
Endothelin-converting enzyme 1 (ECE1) LDTP04008 5.35  LDD2052 
Endothelin-converting enzyme 1 (ECE1) LDTP04008 5.35  LDD2052 
FAD-dependent oxidoreductase domain-containing protein 1 (FOXRED1) LDTP10188 7.26  LDD2052 
FAD-dependent oxidoreductase domain-containing protein 1 (FOXRED1) LDTP10188 7.26  LDD2052 
Leucyl-cystinyl aminopeptidase (LNPEP) LDTP13358 6.73  LDD2052 
Leucyl-cystinyl aminopeptidase (LNPEP) LDTP13358 6.73  LDD2052 
Lipid droplet-associated hydrolase (LDAH) LDTP16007 10.63  LDD2052 
Lipid droplet-associated hydrolase (LDAH) LDTP16007 10.63  LDD2052 
Lysine-specific histone demethylase 2 (KDM1B) LDTP09043 5.31  LDD2052 
Lysine-specific histone demethylase 2 (KDM1B) LDTP09043 5.31  LDD2052 
Lysophosphatidic acid phosphatase type 6 (ACP6) LDTP12363 15.24  LDD2052 
Lysophosphatidic acid phosphatase type 6 (ACP6) LDTP12363 15.24  LDD2052 
Lysosomal acid phosphatase (ACP2) LDTP02539 5.43  LDD2052 
Lysosomal acid phosphatase (ACP2) LDTP02539 5.43  LDD2052 
Lysosomal Pro-X carboxypeptidase (PRCP) LDTP04004 11.31  LDD2052 
Lysosomal Pro-X carboxypeptidase (PRCP) LDTP04004 11.31  LDD2052 
Palmitoyl-protein thioesterase 1 (PPT1) LDTP04388 5.06  LDD2052 
Palmitoyl-protein thioesterase 1 (PPT1) LDTP04388 5.06  LDD2052 
Phospholipase A2 group XV (PLA2G15) LDTP09088 8.63  LDD2052 
Phospholipase A2 group XV (PLA2G15) LDTP09088 8.63  LDD2052 
Prenylcysteine oxidase 1 (PCYOX1) LDTP13282 13.64  LDD2052 
Prenylcysteine oxidase 1 (PCYOX1) LDTP13282 13.64  LDD2052 
Probable serine carboxypeptidase CPVL (CPVL) LDTP15988 12.38  LDD2052 
Probable serine carboxypeptidase CPVL (CPVL) LDTP15988 12.38  LDD2052 
Proteasome subunit beta type-2 (PSMB2) LDTP04285 8.28  LDD2052 
Proteasome subunit beta type-2 (PSMB2) LDTP04285 8.28  LDD2052 
Proteasome subunit beta type-4 (PSMB4) LDTP03417 4.96  LDD2052 
Proteasome subunit beta type-4 (PSMB4) LDTP03417 4.96  LDD2052 
Puromycin-sensitive aminopeptidase (NPEPPS) LDTP04712 6.77  LDD2052 
Puromycin-sensitive aminopeptidase (NPEPPS) LDTP04712 6.77  LDD2052 
Putative phospholipase B-like 2 (PLBD2) LDTP09256 6.06  LDD2052 
Putative phospholipase B-like 2 (PLBD2) LDTP09256 6.06  LDD2052 
Ras-related protein Rab-11B (RAB11B) LDTP06501 5.17  LDD2052 
Ras-related protein Rab-11B (RAB11B) LDTP06501 5.17  LDD2052 
Retinoid-inducible serine carboxypeptidase (SCPEP1) LDTP16032 8.28  LDD2052 
Retinoid-inducible serine carboxypeptidase (SCPEP1) LDTP16032 8.28  LDD2052 
S-methyl-5'-thioadenosine phosphorylase (MTAP) LDTP05758 8.63  LDD2052 
S-methyl-5'-thioadenosine phosphorylase (MTAP) LDTP05758 8.63  LDD2052 
Saccharopine dehydrogenase-like oxidoreductase (SCCPDH) LDTP15484 16.68  LDD2052 
Saccharopine dehydrogenase-like oxidoreductase (SCCPDH) LDTP15484 16.68  LDD2052 
TLC domain-containing protein 1 (TLCD1) LDTP10182 12.73  LDD2052 
TLC domain-containing protein 1 (TLCD1) LDTP10182 12.73  LDD2052 
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⏷ Show the Full List of 56 Enzyme
28 Transporter and channel Labeled by This Probe
Target Name Target ID Binding Site(Ratio) Interaction ID
ATP synthase subunit a (MT-ATP6) LDTP01804 4.99  LDD2052 
ATP synthase subunit a (MT-ATP6) LDTP01804 4.99  LDD2052 
Cation-dependent mannose-6-phosphate receptor (M6PR) LDTP03061 5.24  LDD2052 
Cation-dependent mannose-6-phosphate receptor (M6PR) LDTP03061 5.24  LDD2052 
Cytochrome c oxidase subunit 4 isoform 1, mitochondrial (COX4I1) LDTP02645 5.35  LDD2052 
Cytochrome c oxidase subunit 4 isoform 1, mitochondrial (COX4I1) LDTP02645 5.35  LDD2052 
Cytoskeleton-associated protein 4 (CKAP4) LDTP05511 5.78  LDD2052 
Cytoskeleton-associated protein 4 (CKAP4) LDTP05511 5.78  LDD2052 
Mitochondrial carnitine/acylcarnitine carrier protein (SLC25A20) LDTP00865 22.01  LDD2052 
Mitochondrial carnitine/acylcarnitine carrier protein (SLC25A20) LDTP00865 22.01  LDD2052 
Molybdate-anion transporter (MFSD5) LDTP07456 4.92  LDD2052 
Molybdate-anion transporter (MFSD5) LDTP07456 4.92  LDD2052 
Mpv17-like protein 2 (MPV17L2) LDTP14952 5.98  LDD2052 
Mpv17-like protein 2 (MPV17L2) LDTP14952 5.98  LDD2052 
Protein GPR107 (GPR107) LDTP07236 5.21  LDD2052 
Protein GPR107 (GPR107) LDTP07236 5.21  LDD2052 
Scavenger receptor class B member 1 (SCARB1) LDTP09547 6.87  LDD2052 
Scavenger receptor class B member 1 (SCARB1) LDTP09547 6.87  LDD2052 
Sigma intracellular receptor 2 (TMEM97) LDTP06945 14.83  LDD2052 
Sigma intracellular receptor 2 (TMEM97) LDTP06945 14.83  LDD2052 
Sigma non-opioid intracellular receptor 1 (SIGMAR1) LDTP10958 15.14  LDD2052 
Sigma non-opioid intracellular receptor 1 (SIGMAR1) LDTP10958 15.14  LDD2052 
Solute carrier family 35 member F2 (SLC35F2) LDTP17641 8.46  LDD2052 
Solute carrier family 35 member F2 (SLC35F2) LDTP17641 8.46  LDD2052 
STARD3 N-terminal-like protein (STARD3NL) LDTP01671 5.10  LDD2052 
STARD3 N-terminal-like protein (STARD3NL) LDTP01671 5.10  LDD2052 
Transmembrane protein 87A (TMEM87A) LDTP15481 6.15  LDD2052 
Transmembrane protein 87A (TMEM87A) LDTP15481 6.15  LDD2052 
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⏷ Show the Full List of 28 Transporter and channel
20 Other Labeled by This Probe
Target Name Target ID Binding Site(Ratio) Interaction ID
Brain-specific angiogenesis inhibitor 1-associated protein 2 (BAIAP2) LDTP13755 10.93  LDD2052 
Brain-specific angiogenesis inhibitor 1-associated protein 2 (BAIAP2) LDTP13755 10.93  LDD2052 
Clustered mitochondria protein homolog (CLUH) LDTP14486 11.55  LDD2052 
Clustered mitochondria protein homolog (CLUH) LDTP14486 11.55  LDD2052 
Cytochrome c oxidase assembly factor 3 homolog, mitochondrial (COA3) LDTP13902 17.88  LDD2052 
Cytochrome c oxidase assembly factor 3 homolog, mitochondrial (COA3) LDTP13902 17.88  LDD2052 
Dymeclin (DYM) LDTP08000 6.32  LDD2052 
Dymeclin (DYM) LDTP08000 6.32  LDD2052 
Endoplasmic reticulum-Golgi intermediate compartment protein 3 (ERGIC3) LDTP13828 6.23  LDD2052 
Endoplasmic reticulum-Golgi intermediate compartment protein 3 (ERGIC3) LDTP13828 6.23  LDD2052 
Neudesin (NENF) LDTP13630 16.34  LDD2052 
Neudesin (NENF) LDTP13630 16.34  LDD2052 
Nucleobindin-1 (NUCB1) LDTP05375 6.73  LDD2052 
Nucleobindin-1 (NUCB1) LDTP05375 6.73  LDD2052 
Nucleobindin-2 (NUCB2) LDTP05160 10.20  LDD2052 
Nucleobindin-2 (NUCB2) LDTP05160 10.20  LDD2052 
RNA-binding protein 3 (RBM3) LDTP05226 5.17  LDD2052 
RNA-binding protein 3 (RBM3) LDTP05226 5.17  LDD2052 
Ubiquinol-cytochrome c reductase complex assembly factor 6 (UQCC6) LDTP15067 9.58  LDD2052 
Ubiquinol-cytochrome c reductase complex assembly factor 6 (UQCC6) LDTP15067 9.58  LDD2052 
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⏷ Show the Full List of 20 Other

Full Information of The Labelling Profiles of This Probe

Quantification: AfBPP Probe vs Negative Probe
  
Experiment 1 Reporting the Labelling Profiles of This Probe
REF [1]
Probe concentration
Probe:50uM; negative probe:50uM
Quantitative Method
TMT
In Vitro Experiment Model
Model Type
Living cell
Derived Tissue
Peripheral blood
Disease Model
Normal
Model Name
Human normal cells (HEK-293T)
Note
Negative probe:C#CCCC1(CCC(NC)=O)N=N1
Interaction Atlas ID
 LDD2052 
Download The Altas

References

1 Large-scale chemoproteomics expedites ligand discovery and predicts ligand behavior in cells. Science. 2024 Apr 26;384(6694):eadk5864. doi: 10.1126/science.adk5864. Epub 2024 Apr 26.
Mass spectrometry data entry: PXD041587