Probe Name	IA-alkyne					Probe Info
Probe concentration	100 uM
Criteria	Quantification: Probe vs (Probe+Competitor)
Quantitative Method	Isotope tag
Competitor Name	KB02					Competitor Info
Competitor Concentration	200 uM
In Vivo Experiment Model	Model Type			Living cell
	Derived Tissue			Breast
	Disease Model		Breast adenocarcinoma [ICD-11:2C60]
	Model Name		Human breast adenocarcinoma cells (MDA-MB-231)

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP03998	3-ketoacyl-CoA thiolase, mitochondrial (ACAA2)				C92	20.0
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C413	20.0
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C196	20.0
LDTP10982	Aconitate hydratase, mitochondrial (ACO2)				C385	20.0
LDTP08401	All trans-polyprenyl-diphosphate synthase PDSS2 (PDSS2)				C71	20.0
LDTP06211	Caspase-8 (CASP8)				C360	20.0
LDTP00701	D-3-phosphoglycerate dehydrogenase (PHGDH)				C369	20.0
LDTP07407	Desumoylating isopeptidase 1 (DESI1)				C108	20.0
LDTP12539	DNA dC->dU-editing enzyme APOBEC-3C (APOBEC3C)				C130	20.0
LDTP05954	GDP-L-fucose synthase (GFUS)				C116	20.0
LDTP02038	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)				C152	20.0
LDTP01470	Lysine-specific demethylase 4B (KDM4B)				C694	20.0
LDTP10177	Medium-chain acyl-CoA ligase ACSF2, mitochondrial (ACSF2)				C64	20.0
LDTP09598	Mitochondrial coenzyme A diphosphatase NUDT8 (NUDT8)				C207	20.0
LDTP05912	Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 (PIN1)				C113	20.0
LDTP14888	Pre-rRNA-processing protein TSR1 homolog (TSR1)				C126	20.0
LDTP09126	Probable aminopeptidase NPEPL1 (NPEPL1)				C81	20.0
LDTP12313	Putative bifunctional UDP-N-acetylglucosamine transferase and deubiquitinase ALG13 (ALG13)				C86	20.0
LDTP14155	Serine/threonine-protein kinase MRCK beta (CDC42BPB)				C1517	20.0
LDTP03163	Sterol carrier protein 2 (SCP2)				C307	20.0
LDTP02055	Thymidylate synthase (TYMS)				C199	20.0
LDTP10320	tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A (TRMT61A)				C209	20.0
LDTP11111	Tudor-interacting repair regulator protein (NUDT16L1)				C88	20.0
LDTP08254	Ubiquitin carboxyl-terminal hydrolase 48 (USP48)				C39	20.0
LDTP06320	[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 1, mitochondrial (PDK1)				C71	20.0
LDTP12960	[Pyruvate dehydrogenase [acetyl-transferring]]-phosphatase 1, mitochondrial (PDP1)				C149	20.0
LDTP03496	Protein PML (PML)				C389	15.6
LDTP14535	6-phosphogluconolactonase (PGLS)				C32	14.9
LDTP07110	Putative transferase CAF17, mitochondrial (IBA57)				C170	14.0
LDTP12428	Omega-amidase NIT2 (NIT2)				C153	13.1
LDTP14092	Protein phosphatase methylesterase 1 (PPME1)				C381	12.6
LDTP02611	Inosine-5'-monophosphate dehydrogenase 2 (IMPDH2)				C331	12.1
LDTP05346	Methylmalonate-semialdehyde/malonate-semialdehyde dehydrogenase [acylating], mitochondrial (ALDH6A1)				C317	10.3
LDTP10973	Thioredoxin, mitochondrial (TXN2)				C90	10.1
LDTP05075	Tubulin alpha-4A chain (TUBA4A)				C54	9.7
LDTP04690	Double-stranded RNA-specific adenosine deaminase (ADAR)				C1224	9.1
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C126	9.1
LDTP02502	Thioredoxin (TXN)				C32	7.9
LDTP14159	Ubiquitin carboxyl-terminal hydrolase 16 (USP16)				C205	7.9
LDTP16025	Ketosamine-3-kinase (FN3KRP)				C24	6.3
LDTP13449	Cleavage and polyadenylation specificity factor subunit 3 (CPSF3)				C498	6.2
LDTP09200	FAD synthase (FLAD1)				C499	6.2
LDTP12405	Fructose-2,6-bisphosphatase TIGAR (TIGAR)				C161	6.0
LDTP03770	Alpha-adducin (ADD1)				C68	5.8
LDTP12837	Mitogen-activated protein kinase kinase kinase 20 (MAP3K20)				C22	5.5
LDTP11059	ADP-ribose glycohydrolase MACROD1 (MACROD1)				C186	4.8
LDTP12227	Methylcrotonoyl-CoA carboxylase beta chain, mitochondrial (MCCC2)				C216	4.6
LDTP04374	Dynamin-2 (DNM2)				C27	4.6
LDTP05773	Peroxiredoxin-4 (PRDX4)				C51	4.6
LDTP05289	AMP deaminase 2 (AMPD2)				C107	4.4
LDTP00642	DNA-directed RNA polymerase I subunit RPA34 (POLR1G)				C86	3.9
LDTP15290	5'-nucleotidase domain-containing protein 3 (NT5DC3)				C276	3.8
LDTP01633	Persulfide dioxygenase ETHE1, mitochondrial (ETHE1)				C170	3.8
LDTP18330	Haloacid dehalogenase-like hydrolase domain-containing 5 (HDHD5)				C392	3.6
LDTP03316	DNA replication licensing factor MCM3 (MCM3)				C119	3.5
LDTP12166	Ras-related GTP-binding protein C (RRAGC)				C377	3.3
LDTP03521	Protein disulfide-isomerase A3 (PDIA3)				C406	3.2
LDTP02677	Protein disulfide-isomerase A4 (PDIA4)				C555	3.2
LDTP03163	Sterol carrier protein 2 (SCP2)				C71	3.2
LDTP03401	Multifunctional protein CAD (CAD)				C73	3.1
LDTP06314	Protein disulfide-isomerase A6 (PDIA6)				C55	3.0
LDTP12405	Fructose-2,6-bisphosphatase TIGAR (TIGAR)				C114	2.8
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C119	2.6
LDTP02677	Protein disulfide-isomerase A4 (PDIA4)				C206	2.6
LDTP00601	UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit (OGT)				C758	2.6
LDTP10386	ERO1-like protein alpha (ERO1A)				C241	2.4
LDTP10801	ATPase WRNIP1 (WRNIP1)				C272	2.2
LDTP03521	Protein disulfide-isomerase A3 (PDIA3)				C57	2.2
LDTP04438	Succinate-semialdehyde dehydrogenase, mitochondrial (ALDH5A1)				C340	1.9
LDTP02022	Thymidine kinase, cytosolic (TK1)				C230	1.9
LDTP18123	Isochorismatase domain-containing protein 2 (ISOC2)				C114	1.6
LDTP16095	Ethylmalonyl-CoA decarboxylase (ECHDC1)				C133	1.5
LDTP05859	Integrin-linked protein kinase (ILK)				C346	1.4
LDTP02611	Inosine-5'-monophosphate dehydrogenase 2 (IMPDH2)				C140	1.3
LDTP06643	Uridine phosphorylase 1 (UPP1)				C162	1.2
LDTP08181	Glutaredoxin-related protein 5, mitochondrial (GLRX5)				C67	1.1
LDTP02765	Aldo-keto reductase family 1 member B1 (AKR1B1)				C299	0.9
LDTP04572	Dipeptidyl peptidase 1 (CTSC)				C258	0.9
LDTP04103	Dual specificity mitogen-activated protein kinase kinase 3 (MAP2K3)				C207	0.8
LDTP01245	Enoyl-CoA delta isomerase 2 (ECI2)				C312	0.7
LDTP03146	Protein-glutamine gamma-glutamyltransferase 2 (TGM2)				C277	0.7
LDTP01055	6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 2 (PFKFB2)				C158	0.7
LDTP01245	Enoyl-CoA delta isomerase 2 (ECI2)				C380	0.6

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP00501	Exportin-1 (XPO1)				C528	20.0
LDTP04801	Gasdermin-D (GSDMD)				C268	20.0
LDTP11103	Thioredoxin domain-containing protein 17 (TXNDC17)				C43	15.5
LDTP00244	Chloride intracellular channel protein 1 (CLIC1)				C24	9.5
LDTP13498	Nuclear pore complex protein Nup50 (NUP50)				C151	6.1
LDTP09204	Nucleoporin NUP35 (NUP35)				C255	5.1
LDTP03777	Nuclear pore complex protein Nup214 (NUP214)				C728	3.9
LDTP13824	Voltage-dependent anion-selective channel protein 3 (VDAC3)				C65	3.3
LDTP05591	Nuclear cap-binding protein subunit 1 (NCBP1)				C44	2.1
LDTP14222	Chloride intracellular channel protein 4 (CLIC4)				C35	1.7

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP12792	CDKN2A-interacting protein (CDKN2AIP)				C516	20.0
LDTP12507	Chromatin accessibility complex protein 1 (CHRAC1)				C55	20.0
LDTP03280	COUP transcription factor 2 (NR2F2)				C326	20.0
LDTP06475	Mothers against decapentaplegic homolog 2 (SMAD2)				C81	20.0
LDTP03969	Signal transducer and activator of transcription 1-alpha/beta (STAT1)				C492	16.9
LDTP01191	Zinc finger protein 217 (ZNF217)				C286	8.9
LDTP10262	THAP domain-containing protein 11 (THAP11)				C48	7.9
LDTP09311	SWI/SNF complex subunit SMARCC2 (SMARCC2)				C145	4.6

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP05770	Aminoacyl tRNA synthase complex-interacting multifunctional protein 2 (AIMP2)				C291	20.0
LDTP06268	Condensin complex subunit 2 (NCAPH)				C418	20.0
LDTP04092	Crk-like protein (CRKL)				C249	20.0
LDTP13979	Cytosolic iron-sulfur assembly component 2B (CIAO2B)				C93	20.0
LDTP06378	Disks large-associated protein 5 (DLGAP5)				C129	20.0
LDTP10299	Enhancer of mRNA-decapping protein 3 (EDC3)				C413	20.0
LDTP05772	FAS-associated death domain protein (FADD)				C98	20.0
LDTP07088	Formin-binding protein 1-like (FNBP1L)				C69	20.0
LDTP13705	LIM and calponin homology domains-containing protein 1 (LIMCH1)				C140	20.0
LDTP04078	Proliferation marker protein Ki-67 (MKI67)				C903	20.0
LDTP06046	Ribosome biogenesis protein BOP1 (BOP1)				C404	20.0
LDTP12800	Serine/threonine-protein phosphatase 4 regulatory subunit 2 (PPP4R2)				C22	20.0
LDTP13583	Targeting protein for Xklp2 (TPX2)				C536	20.0
LDTP08094	Wings apart-like protein homolog (WAPL)				C160	20.0
LDTP11191	WW domain-containing adapter protein with coiled-coil (WAC)				C553	17.6
LDTP12412	Reticulon-4 (RTN4)				C1101	12.0
LDTP03967	Lamina-associated polypeptide 2, isoform alpha (TMPO)				C341	10.4
LDTP14215	Small ribosomal subunit protein mS40 (MRPS18B)				C128	10.2
LDTP03967	Lamina-associated polypeptide 2, isoform alpha (TMPO)				C561	8.3
LDTP12669	Mediator of RNA polymerase II transcription subunit 17 (MED17)				C649	7.7
LDTP00463	Interferon-induced protein with tetratricopeptide repeats 3 (IFIT3)				C343	7.6
LDTP13622	NFU1 iron-sulfur cluster scaffold homolog, mitochondrial (NFU1)				C213	7.4
LDTP19787	RING finger protein 214 (RNF214)				C655	6.5
LDTP10771	Mediator of RNA polymerase II transcription subunit 15 (MED15)				C618	6.4
LDTP10657	Arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1 (ARAP1)				C900	5.5
LDTP14179	Cytosolic Fe-S cluster assembly factor NUBP2 (NUBP2)				C72	5.3
LDTP06366	Poly(rC)-binding protein 1 (PCBP1)				C194	5.1
LDTP04952	Heterogeneous nuclear ribonucleoprotein K (HNRNPK)				C132	5.0
LDTP05867	Treacle protein (TCOF1)				C1298	4.7
LDTP03967	Lamina-associated polypeptide 2, isoform alpha (TMPO)				C629	4.4
LDTP16117	Mediator of RNA polymerase II transcription subunit 9 (MED9)				C139	4.3
LDTP14351	RAB7A-interacting MON1-CCZ1 complex subunit 1 (RIMOC1)				C179	4.2
LDTP04514	Heterogeneous nuclear ribonucleoprotein F (HNRNPF)				C267	4.2
LDTP10284	Multivesicular body subunit 12A (MVB12A)				C231	4.1
LDTP12651	TBC1 domain family member 23 (TBC1D23)				C283	4.1
LDTP04434	Host cell factor 1 (HCFC1)				C1872	4.1
LDTP13402	Dynactin subunit 4 (DCTN4)				C258	4.0
LDTP10843	MMS19 nucleotide excision repair protein homolog (MMS19)				C848	3.9
LDTP03615	Heterogeneous nuclear ribonucleoprotein H (HNRNPH1)				C267	3.8
LDTP01532	ZW10 interactor (ZWINT)				C54	3.4
LDTP05867	Treacle protein (TCOF1)				C38	3.3
LDTP12144	GrpE protein homolog 1, mitochondrial (GRPEL1)				C124	3.2
LDTP12753	Succinate dehydrogenase assembly factor 2, mitochondrial (SDHAF2)				C83	3.1
LDTP13580	Coronin-1C (CORO1C)				C420	3.0
LDTP17182	Uncharacterized protein C3orf38 (C3orf38)				C308	2.9
LDTP06250	Proteasome activator complex subunit 4 (PSME4)				C1840	2.8
LDTP15896	Ashwin (C2orf49)				C10	2.7
LDTP05186	Large ribosomal subunit protein eL24 (RPL24)				C6	2.4
LDTP01011	Protein diaphanous homolog 1 (DIAPH1)				C1227	2.2
LDTP18494	Tropomodulin-3 (TMOD3)				C132	2.2
LDTP04487	Cyclin-H (CCNH)				C244	1.9
LDTP09821	Stalled ribosome sensor GCN1 (GCN1)				C1692	1.4
LDTP05021	Large ribosomal subunit protein eL30 (RPL30)				C92	1.0

1	Proteome-wide covalent ligand discovery in native biological systems. Nature. 2016 Jun 23;534(7608):570-4. doi: 10.1038/nature18002. Epub 2016 Jun 15.