Probe Name	IA-alkyne					Probe Info
Probe concentration	100 uM
Criteria	Quantification: Probe vs (Probe+Competitor)
Quantitative Method	Isotope tag
Competitor Name	Fragment45					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
LDTP04232	4-trimethylaminobutyraldehyde dehydrogenase (ALDH9A1)				C288	20.0
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C413	20.0
LDTP02074	Aldehyde dehydrogenase, mitochondrial (ALDH2)				C319	20.0
LDTP08401	All trans-polyprenyl-diphosphate synthase PDSS2 (PDSS2)				C71	20.0
LDTP03770	Alpha-adducin (ADD1)				C68	20.0
LDTP06211	Caspase-8 (CASP8)				C360	20.0
LDTP13449	Cleavage and polyadenylation specificity factor subunit 3 (CPSF3)				C498	20.0
LDTP15311	Deaminated glutathione amidase (NIT1)				C203	20.0
LDTP12539	DNA dC->dU-editing enzyme APOBEC-3C (APOBEC3C)				C130	20.0
LDTP04690	Double-stranded RNA-specific adenosine deaminase (ADAR)				C1224	20.0
LDTP10386	ERO1-like protein alpha (ERO1A)				C37	20.0
LDTP12405	Fructose-2,6-bisphosphatase TIGAR (TIGAR)				C161	20.0
LDTP05954	GDP-L-fucose synthase (GFUS)				C116	20.0
LDTP02038	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)				C152	20.0
LDTP00479	Histone acetyltransferase type B catalytic subunit (HAT1)				C101	20.0
LDTP12363	Lysophosphatidic acid phosphatase type 6 (ACP6)				C267	20.0
LDTP10177	Medium-chain acyl-CoA ligase ACSF2, mitochondrial (ACSF2)				C64	20.0
LDTP13980	Methionine-R-sulfoxide reductase B2, mitochondrial (MSRB2)				C105	20.0
LDTP09598	Mitochondrial coenzyme A diphosphatase NUDT8 (NUDT8)				C207	20.0
LDTP10878	Parkinson disease protein 7 (PARK7)				C106	20.0
LDTP14888	Pre-rRNA-processing protein TSR1 homolog (TSR1)				C126	20.0
LDTP12313	Putative bifunctional UDP-N-acetylglucosamine transferase and deubiquitinase ALG13 (ALG13)				C86	20.0
LDTP11639	RNA exonuclease 4 (REXO4)				C382	20.0
LDTP19750	RNA ligase 1 (RLIG1)				C302	20.0
LDTP14155	Serine/threonine-protein kinase MRCK beta (CDC42BPB)				C1517	20.0
LDTP11107	Serine/threonine-protein phosphatase CPPED1 (CPPED1)				C54	20.0
LDTP03163	Sterol carrier protein 2 (SCP2)				C94	20.0
LDTP02055	Thymidylate synthase (TYMS)				C199	20.0
LDTP10320	tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A (TRMT61A)				C209	20.0
LDTP09962	Ubiquitin carboxyl-terminal hydrolase 7 (USP7)				C223	20.0
LDTP00481	Ubiquitin/ISG15-conjugating enzyme E2 L6 (UBE2L6)				C98	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
LDTP12627	Peroxisomal 2,4-dienoyl-CoA reductase [(3E)-enoyl-CoA-producing] (DECR2)				C22	17.0
LDTP03163	Sterol carrier protein 2 (SCP2)				C71	16.8
LDTP03786	Glutaredoxin-1 (GLRX)				C23	16.3
LDTP04374	Dynamin-2 (DNM2)				C27	15.4
LDTP03998	3-ketoacyl-CoA thiolase, mitochondrial (ACAA2)				C92	15.1
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C119	12.4
LDTP04262	Alanine--tRNA ligase, cytoplasmic (AARS1)				C773	10.1
LDTP05912	Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 (PIN1)				C113	10.0
LDTP08181	Glutaredoxin-related protein 5, mitochondrial (GLRX5)				C67	9.1
LDTP05795	Nucleoside diphosphate kinase 3 (NME3)				C158	8.8
LDTP13663	Dual specificity protein phosphatase 12 (DUSP12)				C265	7.5
LDTP15427	Ribonuclease P protein subunit p25-like protein (RPP25L)				C131	7.3
LDTP12227	Methylcrotonoyl-CoA carboxylase beta chain, mitochondrial (MCCC2)				C216	7.0
LDTP10973	Thioredoxin, mitochondrial (TXN2)				C90	6.7
LDTP03316	DNA replication licensing factor MCM3 (MCM3)				C119	6.2
LDTP03000	General transcription and DNA repair factor IIH helicase subunit XPB (ERCC3)				C342	5.9
LDTP02502	Thioredoxin (TXN)				C32	5.7
LDTP02552	Glycogen phosphorylase, brain form (PYGB)				C326	5.3
LDTP18330	Haloacid dehalogenase-like hydrolase domain-containing 5 (HDHD5)				C392	4.9
LDTP00642	DNA-directed RNA polymerase I subunit RPA34 (POLR1G)				C86	4.6
LDTP12405	Fructose-2,6-bisphosphatase TIGAR (TIGAR)				C114	4.6
LDTP16095	Ethylmalonyl-CoA decarboxylase (ECHDC1)				C133	4.2
LDTP02611	Inosine-5'-monophosphate dehydrogenase 2 (IMPDH2)				C331	4.1
LDTP11030	Serine/threonine-protein kinase VRK1 (VRK1)				C50	4.1
LDTP07110	Putative transferase CAF17, mitochondrial (IBA57)				C170	3.5
LDTP03496	Protein PML (PML)				C389	3.4
LDTP11059	ADP-ribose glycohydrolase MACROD1 (MACROD1)				C186	3.3
LDTP07407	Desumoylating isopeptidase 1 (DESI1)				C108	3.1
LDTP01633	Persulfide dioxygenase ETHE1, mitochondrial (ETHE1)				C170	3.1
LDTP18123	Isochorismatase domain-containing protein 2 (ISOC2)				C114	3.1
LDTP00601	UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit (OGT)				C758	2.9
LDTP06314	Protein disulfide-isomerase A6 (PDIA6)				C190	2.8
LDTP05346	Methylmalonate-semialdehyde/malonate-semialdehyde dehydrogenase [acylating], mitochondrial (ALDH6A1)				C317	2.6
LDTP03521	Protein disulfide-isomerase A3 (PDIA3)				C57	2.6
LDTP03521	Protein disulfide-isomerase A3 (PDIA3)				C406	2.6
LDTP02677	Protein disulfide-isomerase A4 (PDIA4)				C555	2.6
LDTP10801	ATPase WRNIP1 (WRNIP1)				C272	2.5
LDTP04438	Succinate-semialdehyde dehydrogenase, mitochondrial (ALDH5A1)				C340	2.4
LDTP02223	Cathepsin B (CTSB)				C211	2.4
LDTP12837	Mitogen-activated protein kinase kinase kinase 20 (MAP3K20)				C22	2.3
LDTP05773	Peroxiredoxin-4 (PRDX4)				C51	2.3
LDTP10386	ERO1-like protein alpha (ERO1A)				C241	2.1
LDTP09067	Thioredoxin domain-containing protein 5 (TXNDC5)				C350	2.1
LDTP15290	5'-nucleotidase domain-containing protein 3 (NT5DC3)				C276	2.1
LDTP12428	Omega-amidase NIT2 (NIT2)				C153	2.0
LDTP06314	Protein disulfide-isomerase A6 (PDIA6)				C55	2.0
LDTP02022	Thymidine kinase, cytosolic (TK1)				C230	2.0
LDTP05128	Glutathione S-transferase omega-1 (GSTO1)				C32	1.9
LDTP02677	Protein disulfide-isomerase A4 (PDIA4)				C206	1.9
LDTP02611	Inosine-5'-monophosphate dehydrogenase 2 (IMPDH2)				C140	1.9
LDTP08436	Interferon regulatory factor 2-binding protein 1 (IRF2BP1)				C363	1.7
LDTP04103	Dual specificity mitogen-activated protein kinase kinase 3 (MAP2K3)				C207	1.5
LDTP01055	6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 2 (PFKFB2)				C158	1.3
LDTP06643	Uridine phosphorylase 1 (UPP1)				C162	1.3
LDTP02329	3-ketoacyl-CoA thiolase, peroxisomal (ACAA1)				C381	1.2
LDTP01245	Enoyl-CoA delta isomerase 2 (ECI2)				C380	1.2
LDTP03146	Protein-glutamine gamma-glutamyltransferase 2 (TGM2)				C277	1.1
LDTP02765	Aldo-keto reductase family 1 member B1 (AKR1B1)				C299	1.0
LDTP01245	Enoyl-CoA delta isomerase 2 (ECI2)				C312	0.7

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP05511	Cytoskeleton-associated protein 4 (CKAP4)				C100	20.0
LDTP04801	Gasdermin-D (GSDMD)				C268	20.0
LDTP08769	Nuclear pore complex protein Nup93 (NUP93)				C522	20.0
LDTP08315	THO complex subunit 6 homolog (THOC6)				C35	20.0
LDTP01689	Chloride intracellular channel protein 3 (CLIC3)				C22	13.8
LDTP11103	Thioredoxin domain-containing protein 17 (TXNDC17)				C43	8.0
LDTP09204	Nucleoporin NUP35 (NUP35)				C255	5.5
LDTP03777	Nuclear pore complex protein Nup214 (NUP214)				C728	3.1
LDTP05591	Nuclear cap-binding protein subunit 1 (NCBP1)				C44	2.5
LDTP10642	Chloride intracellular channel protein 6 (CLIC6)				C487	1.8
LDTP14222	Chloride intracellular channel protein 4 (CLIC4)				C35	1.4

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP12507	Chromatin accessibility complex protein 1 (CHRAC1)				C55	20.0
LDTP03280	COUP transcription factor 2 (NR2F2)				C326	20.0
LDTP03969	Signal transducer and activator of transcription 1-alpha/beta (STAT1)				C492	20.0
LDTP01191	Zinc finger protein 217 (ZNF217)				C286	20.0
LDTP06341	Non-POU domain-containing octamer-binding protein (NONO)				C145	3.7
LDTP09311	SWI/SNF complex subunit SMARCC2 (SMARCC2)				C145	2.9

Target ID	Target Name				Binding Sites	Binding Ratio
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
LDTP10252	Elongator complex protein 4 (ELP4)				C218	20.0
LDTP10299	Enhancer of mRNA-decapping protein 3 (EDC3)				C413	20.0
LDTP17802	Glutathione S-transferase C-terminal domain-containing protein (GSTCD)				C140	20.0
LDTP09626	Heterogeneous nuclear ribonucleoprotein L-like (HNRNPLL)				C464	20.0
LDTP03967	Lamina-associated polypeptide 2, isoform alpha (TMPO)				C561	20.0
LDTP13705	LIM and calponin homology domains-containing protein 1 (LIMCH1)				C140	20.0
LDTP09650	LIM domain only protein 7 (LMO7)				C228	20.0
LDTP14217	Lipid droplet-regulating VLDL assembly factor AUP1 (AUP1)				C391	20.0
LDTP06276	MAD2L1-binding protein (MAD2L1BP)				C124	20.0
LDTP10771	Mediator of RNA polymerase II transcription subunit 15 (MED15)				C618	20.0
LDTP12669	Mediator of RNA polymerase II transcription subunit 17 (MED17)				C649	20.0
LDTP11197	Mini-chromosome maintenance complex-binding protein (MCMBP)				C325	20.0
LDTP10843	MMS19 nucleotide excision repair protein homolog (MMS19)				C848	20.0
LDTP10843	MMS19 nucleotide excision repair protein homolog (MMS19)				C819	20.0
LDTP04078	Proliferation marker protein Ki-67 (MKI67)				C903	20.0
LDTP13088	Protein IMPACT (IMPACT)				C195	20.0
LDTP14351	RAB7A-interacting MON1-CCZ1 complex subunit 1 (RIMOC1)				C179	20.0
LDTP05257	Receptor expression-enhancing protein 5 (REEP5)				C18	20.0
LDTP12800	Serine/threonine-protein phosphatase 4 regulatory subunit 2 (PPP4R2)				C22	20.0
LDTP13583	Targeting protein for Xklp2 (TPX2)				C536	20.0
LDTP07205	Telomere-associated protein RIF1 (RIF1)				C2298	20.0
LDTP11191	WW domain-containing adapter protein with coiled-coil (WAC)				C553	19.1
LDTP04952	Heterogeneous nuclear ribonucleoprotein K (HNRNPK)				C132	9.3
LDTP05770	Aminoacyl tRNA synthase complex-interacting multifunctional protein 2 (AIMP2)				C291	7.3
LDTP13622	NFU1 iron-sulfur cluster scaffold homolog, mitochondrial (NFU1)				C213	7.1
LDTP03967	Lamina-associated polypeptide 2, isoform alpha (TMPO)				C684	6.8
LDTP12443	Anillin (ANLN)				C712	5.9
LDTP11235	Protein PAXX (PAXX)				C180	5.5
LDTP07088	Formin-binding protein 1-like (FNBP1L)				C69	5.4
LDTP05867	Treacle protein (TCOF1)				C1298	4.7
LDTP08018	Zinc finger CCCH-type antiviral protein 1 (ZC3HAV1)				C645	4.6
LDTP05770	Aminoacyl tRNA synthase complex-interacting multifunctional protein 2 (AIMP2)				C23	4.4
LDTP04514	Heterogeneous nuclear ribonucleoprotein F (HNRNPF)				C267	4.1
LDTP00463	Interferon-induced protein with tetratricopeptide repeats 3 (IFIT3)				C343	4.0
LDTP12753	Succinate dehydrogenase assembly factor 2, mitochondrial (SDHAF2)				C83	3.7
LDTP03615	Heterogeneous nuclear ribonucleoprotein H (HNRNPH1)				C267	3.6
LDTP01299	WD repeat and HMG-box DNA-binding protein 1 (WDHD1)				C773	3.6
LDTP15896	Ashwin (C2orf49)				C10	3.4
LDTP13580	Coronin-1C (CORO1C)				C420	3.2
LDTP12571	LanC-like protein 2 (LANCL2)				C187	3.1
LDTP01011	Protein diaphanous homolog 1 (DIAPH1)				C1227	3.0
LDTP05867	Treacle protein (TCOF1)				C38	2.8
LDTP12651	TBC1 domain family member 23 (TBC1D23)				C283	2.7
LDTP13402	Dynactin subunit 4 (DCTN4)				C258	2.7
LDTP07037	WD repeat domain phosphoinositide-interacting protein 3 (WDR45B)				C63	2.6
LDTP04487	Cyclin-H (CCNH)				C244	2.4
LDTP13964	MOB-like protein phocein (MOB4)				C134	2.3
LDTP05021	Large ribosomal subunit protein eL30 (RPL30)				C92	2.2
LDTP12144	GrpE protein homolog 1, mitochondrial (GRPEL1)				C124	2.1
LDTP14215	Small ribosomal subunit protein mS40 (MRPS18B)				C128	2.0
LDTP10864	Calponin-2 (CNN2)				C164	1.8
LDTP06366	Poly(rC)-binding protein 1 (PCBP1)				C194	1.5
LDTP04201	T-complex protein 1 subunit epsilon (CCT5)				C253	1.2
LDTP05186	Large ribosomal subunit protein eL24 (RPL24)				C6	1.2
LDTP18494	Tropomodulin-3 (TMOD3)				C132	0.9

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.