Probe Name	IA-alkyne					Probe Info
Probe concentration	100 uM
Criteria	Quantification: Probe vs (Probe+Competitor)
Quantitative Method	Isotope tag
Competitor Name	Fragment30					Competitor Info
Competitor Concentration	500 uM
In Vivo Experiment Model	Model Type			Cell lysate
	Derived Tissue			Breast
	Disease Model		Breast adenocarcinoma [ICD-11:2C60]
	Model Name		Human breast adenocarcinoma cell lysate (MDA-MB-231)

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP05128	Glutathione S-transferase omega-1 (GSTO1)				C32	20.0
LDTP07651	Monofunctional C1-tetrahydrofolate synthase, mitochondrial (MTHFD1L)				C906	20.0
LDTP07317	Tensin-3 (TNS3)				C888	20.0
LDTP02502	Thioredoxin (TXN)				C32	20.0
LDTP02580	C-1-tetrahydrofolate synthase, cytoplasmic (MTHFD1)				C863	12.3
LDTP03521	Protein disulfide-isomerase A3 (PDIA3)				C406	2.9
LDTP02677	Protein disulfide-isomerase A4 (PDIA4)				C555	2.9
LDTP09598	Mitochondrial coenzyme A diphosphatase NUDT8 (NUDT8)				C207	2.7
LDTP09067	Thioredoxin domain-containing protein 5 (TXNDC5)				C350	2.5
LDTP02677	Protein disulfide-isomerase A4 (PDIA4)				C206	2.4
LDTP05773	Peroxiredoxin-4 (PRDX4)				C51	2.3
LDTP16025	Ketosamine-3-kinase (FN3KRP)				C24	2.3
LDTP06314	Protein disulfide-isomerase A6 (PDIA6)				C55	2.2
LDTP13147	Cathepsin Z (CTSZ)				C173	2.1
LDTP06211	Caspase-8 (CASP8)				C360	2.0
LDTP02611	Inosine-5'-monophosphate dehydrogenase 2 (IMPDH2)				C140	1.8
LDTP05373	Procollagen-lysine,2-oxoglutarate 5-dioxygenase 1 (PLOD1)				C680	1.8
LDTP02223	Cathepsin B (CTSB)				C211	1.7
LDTP17247	5'-nucleotidase domain-containing protein 1 (NT5DC1)				C119	1.7
LDTP04987	26S proteasome regulatory subunit 10B (PSMC6)				C170	1.6
LDTP05314	ATP-dependent 6-phosphofructokinase, platelet type (PFKP)				C179	1.6
LDTP14155	Serine/threonine-protein kinase MRCK beta (CDC42BPB)				C1517	1.4
LDTP12166	Ras-related GTP-binding protein C (RRAGC)				C377	1.4
LDTP14535	6-phosphogluconolactonase (PGLS)				C32	1.4
LDTP10418	Mannose-1-phosphate guanyltransferase alpha (GMPPA)				C389	1.4
LDTP02333	Glutathione S-transferase P (GSTP1)				C48	1.4
LDTP02022	Thymidine kinase, cytosolic (TK1)				C66	1.4
LDTP04601	Arginine--tRNA ligase, cytoplasmic (RARS1)				C34	1.3
LDTP04987	26S proteasome regulatory subunit 10B (PSMC6)				C193	1.3
LDTP03000	General transcription and DNA repair factor IIH helicase subunit XPB (ERCC3)				C342	1.3
LDTP02022	Thymidine kinase, cytosolic (TK1)				C230	1.3
LDTP12960	[Pyruvate dehydrogenase [acetyl-transferring]]-phosphatase 1, mitochondrial (PDP1)				C149	1.3
LDTP10386	ERO1-like protein alpha (ERO1A)				C166	1.2
LDTP17082	Isoamyl acetate-hydrolyzing esterase 1 homolog (IAH1)				C137	1.2
LDTP10878	Parkinson disease protein 7 (PARK7)				C106	1.2
LDTP00701	D-3-phosphoglycerate dehydrogenase (PHGDH)				C369	1.2
LDTP03496	Protein PML (PML)				C389	1.2
LDTP10801	ATPase WRNIP1 (WRNIP1)				C272	1.2
LDTP13147	Cathepsin Z (CTSZ)				C92	1.2
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C126	1.1
LDTP10386	ERO1-like protein alpha (ERO1A)				C241	1.1
LDTP05859	Integrin-linked protein kinase (ILK)				C346	1.1
LDTP03644	Pyrroline-5-carboxylate reductase 1, mitochondrial (PYCR1)				C120	1.1
LDTP03223	Small ribosomal subunit protein uS3 (RPS3)				C97	1.1
LDTP02552	Glycogen phosphorylase, brain form (PYGB)				C326	1.1
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C413	1.1
LDTP03159	Bifunctional phosphoribosylaminoimidazole carboxylase/phosphoribosylaminoimidazole succinocarboxamide synthetase (PAICS)				C374	1.1
LDTP00273	Dynamin-1-like protein (DNM1L)				C367	1.1
LDTP12428	Omega-amidase NIT2 (NIT2)				C153	1.1
LDTP10997	Protein arginine N-methyltransferase 1 (PRMT1)				C109	1.1
LDTP07907	Tubulin alpha-1A chain (TUBA1A)				C376	1.1
LDTP05314	ATP-dependent 6-phosphofructokinase, platelet type (PFKP)				C641	1.1
LDTP04077	Dual specificity mitogen-activated protein kinase kinase 4 (MAP2K4)				C246	1.1
LDTP02765	Aldo-keto reductase family 1 member B1 (AKR1B1)				C299	1.1
LDTP12837	Mitogen-activated protein kinase kinase kinase 20 (MAP3K20)				C22	1.1
LDTP04103	Dual specificity mitogen-activated protein kinase kinase 3 (MAP2K3)				C207	1.1
LDTP10177	Medium-chain acyl-CoA ligase ACSF2, mitochondrial (ACSF2)				C64	1.0
LDTP01633	Persulfide dioxygenase ETHE1, mitochondrial (ETHE1)				C170	1.0
LDTP07907	Tubulin alpha-1A chain (TUBA1A)				C347	1.0
LDTP03146	Protein-glutamine gamma-glutamyltransferase 2 (TGM2)				C277	1.0
LDTP05075	Tubulin alpha-4A chain (TUBA4A)				C295	1.0
LDTP05289	AMP deaminase 2 (AMPD2)				C107	1.0
LDTP09338	NEDD8-activating enzyme E1 catalytic subunit (UBA3)				C237	1.0
LDTP12166	Ras-related GTP-binding protein C (RRAGC)				C358	1.0
LDTP05075	Tubulin alpha-4A chain (TUBA4A)				C315	1.0
LDTP10954	3-hydroxyacyl-CoA dehydrogenase type-2 (HSD17B10)				C214	1.0
LDTP05075	Tubulin alpha-4A chain (TUBA4A)				C347	0.9
LDTP03998	3-ketoacyl-CoA thiolase, mitochondrial (ACAA2)				C92	0.9
LDTP02522	60 kDa heat shock protein, mitochondrial (HSPD1)				C442	0.9
LDTP00089	Glycerol-3-phosphate phosphatase (PGP)				C297	0.9
LDTP02611	Inosine-5'-monophosphate dehydrogenase 2 (IMPDH2)				C331	0.9
LDTP13449	Cleavage and polyadenylation specificity factor subunit 3 (CPSF3)				C498	0.9
LDTP03512	Peroxiredoxin-5, mitochondrial (PRDX5)				C204	0.9
LDTP02733	Pyruvate kinase PKM (PKM)				C423	0.9
LDTP07907	Tubulin alpha-1A chain (TUBA1A)				C129	0.9
LDTP01495	E3 ubiquitin-protein ligase UBR5 (UBR5)				C2267	0.9
LDTP13080	GMP reductase 2 (GMPR2)				C186	0.9
LDTP04061	26S proteasome regulatory subunit 6B (PSMC4)				C210	0.8
LDTP15311	Deaminated glutathione amidase (NIT1)				C203	0.8
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C196	0.8
LDTP02672	Elongation factor 2 (EEF2)				C41	0.8
LDTP01245	Enoyl-CoA delta isomerase 2 (ECI2)				C380	0.8
LDTP04424	Galactokinase (GALK1)				C182	0.8
LDTP05912	Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 (PIN1)				C113	0.8
LDTP00246	Eukaryotic translation initiation factor 3 subunit F (EIF3F)				C256	0.8
LDTP04689	Adenosine kinase (ADK)				C353	0.8
LDTP02672	Elongation factor 2 (EEF2)				C136	0.8
LDTP11388	N-alpha-acetyltransferase 15, NatA auxiliary subunit (NAA15)				C721	0.8
LDTP06643	Uridine phosphorylase 1 (UPP1)				C162	0.8
LDTP04374	Dynamin-2 (DNM2)				C27	0.7
LDTP08181	Glutaredoxin-related protein 5, mitochondrial (GLRX5)				C67	0.7
LDTP06621	Ubiquitin-conjugating enzyme E2 S (UBE2S)				C118	0.7
LDTP01333	Isocitrate dehydrogenase [NADP] cytoplasmic (IDH1)				C269	0.7
LDTP04211	Isocitrate dehydrogenase [NADP], mitochondrial (IDH2)				C308	0.7
LDTP06338	Prostaglandin E synthase 3 (PTGES3)				C58	0.7
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C119	0.7
LDTP03152	Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT1)				C102	0.7
LDTP02576	Pyruvate carboxylase, mitochondrial (PC)				C622	0.7
LDTP06150	DNA replication licensing factor MCM6 (MCM6)				C301	0.7
LDTP06603	Cyclin-dependent kinase inhibitor 3 (CDKN3)				C39	0.7
LDTP02038	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)				C152	0.5
LDTP02580	C-1-tetrahydrofolate synthase, cytoplasmic (MTHFD1)				C918	0.5

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP11103	Thioredoxin domain-containing protein 17 (TXNDC17)				C43	4.9
LDTP00244	Chloride intracellular channel protein 1 (CLIC1)				C24	3.7
LDTP14222	Chloride intracellular channel protein 4 (CLIC4)				C35	3.6
LDTP11855	Pinin (PNN)				C249	1.9
LDTP08769	Nuclear pore complex protein Nup93 (NUP93)				C522	1.7
LDTP04801	Gasdermin-D (GSDMD)				C268	1.3
LDTP05057	Small ribosomal subunit protein RACK1 (RACK1)				C182	1.2
LDTP04662	Exportin-2 (CSE1L)				C842	1.2
LDTP00196	Unconventional myosin-Ic (MYO1C)				C802	1.1
LDTP04707	Protein SEC13 homolog (SEC13)				C187	0.9
LDTP09204	Nucleoporin NUP35 (NUP35)				C255	0.8
LDTP13661	Sorting nexin-6 (SNX6)				C264	0.8
LDTP00501	Exportin-1 (XPO1)				C34	0.7
LDTP04259	Signal recognition particle 9 kDa protein (SRP9)				C48	0.7
LDTP01574	Importin-7 (IPO7)				C757	0.6

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP06341	Non-POU domain-containing octamer-binding protein (NONO)				C145	1.2
LDTP03969	Signal transducer and activator of transcription 1-alpha/beta (STAT1)				C492	1.1
LDTP09311	SWI/SNF complex subunit SMARCC2 (SMARCC2)				C145	1.1
LDTP05485	Recombining binding protein suppressor of hairless (RBPJ)				C313	1.0
LDTP10756	Nucleus accumbens-associated protein 1 (NACC1)				C416	0.8
LDTP07940	eIF5-mimic protein 2 (BZW1)				C35	0.7

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP04560	Cytosolic Fe-S cluster assembly factor NUBP1 (NUBP1)				C235	2.4
LDTP04110	Small ribosomal subunit protein uS7 (RPS5)				C66	1.9
LDTP01532	ZW10 interactor (ZWINT)				C54	1.9
LDTP06366	Poly(rC)-binding protein 1 (PCBP1)				C194	1.7
LDTP06268	Condensin complex subunit 2 (NCAPH)				C418	1.6
LDTP12412	Reticulon-4 (RTN4)				C1101	1.6
LDTP00463	Interferon-induced protein with tetratricopeptide repeats 3 (IFIT3)				C343	1.4
LDTP05186	Large ribosomal subunit protein eL24 (RPL24)				C6	1.4
LDTP09580	Programmed cell death 6-interacting protein (PDCD6IP)				C250	1.4
LDTP00431	Kinetochore protein NDC80 homolog (NDC80)				C449	1.4
LDTP06330	Plectin (PLEC)				C992	1.4
LDTP03987	Small ribosomal subunit protein eS27 (RPS27)				C77	1.3
LDTP04975	Small ribosomal subunit protein uS17 (RPS11)				C60	1.3
LDTP05186	Large ribosomal subunit protein eL24 (RPL24)				C36	1.3
LDTP11191	WW domain-containing adapter protein with coiled-coil (WAC)				C553	1.3
LDTP10864	Calponin-2 (CNN2)				C164	1.3
LDTP18494	Tropomodulin-3 (TMOD3)				C132	1.3
LDTP04092	Crk-like protein (CRKL)				C249	1.3
LDTP02692	Plastin-3 (PLS3)				C33	1.2
LDTP11235	Protein PAXX (PAXX)				C180	1.2
LDTP13979	Cytosolic iron-sulfur assembly component 2B (CIAO2B)				C93	1.2
LDTP02205	Tubulin beta chain (TUBB)				C239	1.2
LDTP12685	Integrator complex subunit 13 (INTS13)				C349	1.2
LDTP00202	AH receptor-interacting protein (AIP)				C122	1.1
LDTP07088	Formin-binding protein 1-like (FNBP1L)				C69	1.1
LDTP03967	Lamina-associated polypeptide 2, isoform alpha (TMPO)				C561	1.1
LDTP03395	Large ribosomal subunit protein uL16 (RPL10)				C105	1.1
LDTP06378	Disks large-associated protein 5 (DLGAP5)				C129	1.1
LDTP10843	MMS19 nucleotide excision repair protein homolog (MMS19)				C848	1.1
LDTP05259	Heterogeneous nuclear ribonucleoprotein U (HNRNPU)				C562	1.1
LDTP11212	Tubulin-specific chaperone D (TBCD)				C850	1.1
LDTP10864	Calponin-2 (CNN2)				C215	1.1
LDTP08238	Kinectin (KTN1)				C303	1.1
LDTP03620	Protein S100-A11 (S100A11)				C91	1.1
LDTP05867	Treacle protein (TCOF1)				C38	1.1
LDTP05484	Proteasome activator complex subunit 1 (PSME1)				C22	1.1
LDTP04117	Ras GTPase-activating-like protein IQGAP1 (IQGAP1)				C781	1.1
LDTP05008	Large ribosomal subunit protein uL14 (RPL23)				C28	1.0
LDTP05021	Large ribosomal subunit protein eL30 (RPL30)				C92	1.0
LDTP04363	Serpin H1 (SERPINH1)				C156	1.0
LDTP06362	Leucine-rich repeat-containing protein 41 (LRRC41)				C297	1.0
LDTP12638	Protein lin-7 homolog C (LIN7C)				C47	1.0
LDTP15677	Ribosomal protein eL42-like (RPL36AL)				C88	1.0
LDTP12780	THUMP domain-containing protein 1 (THUMPD1)				C31	1.0
LDTP10613	Dedicator of cytokinesis protein 7 (DOCK7)				C2125	1.0
LDTP03841	Hippocalcin-like protein 1 (HPCAL1)				C185	1.0
LDTP10771	Mediator of RNA polymerase II transcription subunit 15 (MED15)				C618	1.0
LDTP10781	NudC domain-containing protein 1 (NUDCD1)				C376	1.0
LDTP05233	55 kDa erythrocyte membrane protein (MPP1)				C179	1.0
LDTP02511	cAMP-dependent protein kinase type I-alpha regulatory subunit (PRKAR1A)				C18	1.0
LDTP13580	Coronin-1C (CORO1C)				C456	1.0
LDTP10990	T-complex protein 1 subunit eta (CCT7)				C29	1.0
LDTP13817	Nuclear migration protein nudC (NUDC)				C188	0.9
LDTP05770	Aminoacyl tRNA synthase complex-interacting multifunctional protein 2 (AIMP2)				C23	0.9
LDTP12443	Anillin (ANLN)				C712	0.9
LDTP15730	Ataxin-7-like protein 3B (ATXN7L3B)				C75	0.9
LDTP05867	Treacle protein (TCOF1)				C1298	0.9
LDTP13580	Coronin-1C (CORO1C)				C420	0.9
LDTP06082	Dynactin subunit 1 (DCTN1)				C1252	0.9
LDTP03860	Stress-70 protein, mitochondrial (HSPA9)				C317	0.9
LDTP02205	Tubulin beta chain (TUBB)				C354	0.9
LDTP03815	Large ribosomal subunit protein uL4 (RPL4)				C96	0.9
LDTP11239	Protein misato homolog 1 (MSTO1)				C403	0.9
LDTP12669	Mediator of RNA polymerase II transcription subunit 17 (MED17)				C649	0.9
LDTP07037	WD repeat domain phosphoinositide-interacting protein 3 (WDR45B)				C63	0.9
LDTP03665	Cleavage stimulation factor subunit 2 (CSTF2)				C150	0.8
LDTP04971	Small ribosomal subunit protein uS12 (RPS23)				C90	0.8
LDTP13705	LIM and calponin homology domains-containing protein 1 (LIMCH1)				C140	0.8
LDTP06330	Plectin (PLEC)				C3110	0.8
LDTP05770	Aminoacyl tRNA synthase complex-interacting multifunctional protein 2 (AIMP2)				C291	0.8
LDTP06542	Cysteine and glycine-rich protein 2 (CSRP2)				C33	0.8
LDTP14351	RAB7A-interacting MON1-CCZ1 complex subunit 1 (RIMOC1)				C179	0.8
LDTP04517	Transcription initiation factor IIA subunit 2 (GTF2A2)				C68	0.8
LDTP12651	TBC1 domain family member 23 (TBC1D23)				C283	0.8
LDTP04997	Small ribosomal subunit protein eS4, X isoform (RPS4X)				C41	0.7
LDTP02934	T-complex protein 1 subunit alpha (TCP1)				C76	0.7
LDTP00756	Heterogeneous nuclear ribonucleoprotein R (HNRNPR)				C99	0.7
LDTP01011	Protein diaphanous homolog 1 (DIAPH1)				C1227	0.7
LDTP01299	WD repeat and HMG-box DNA-binding protein 1 (WDHD1)				C773	0.7
LDTP03244	Cofilin-1 (CFL1)				C80	0.7
LDTP12144	GrpE protein homolog 1, mitochondrial (GRPEL1)				C124	0.6
LDTP07947	Eukaryotic translation initiation factor 3 subunit M (EIF3M)				C134	0.6
LDTP04390	T-complex protein 1 subunit theta (CCT8)				C244	0.6
LDTP06366	Poly(rC)-binding protein 1 (PCBP1)				C109	0.6
LDTP12737	BRISC and BRCA1-A complex member 1 (BABAM1)				C222	0.4

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.