Probe Name	IA-alkyne					Probe Info
Probe concentration	100 uM
Criteria	Quantification: Probe vs (Probe+Competitor)
Quantitative Method	Isotope tag
Competitor Name	Fragment51					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
LDTP02611	Inosine-5'-monophosphate dehydrogenase 2 (IMPDH2)				C140	4.6
LDTP02677	Protein disulfide-isomerase A4 (PDIA4)				C206	4.5
LDTP00701	D-3-phosphoglycerate dehydrogenase (PHGDH)				C369	4.4
LDTP05128	Glutathione S-transferase omega-1 (GSTO1)				C32	3.6
LDTP12960	[Pyruvate dehydrogenase [acetyl-transferring]]-phosphatase 1, mitochondrial (PDP1)				C149	3.5
LDTP07651	Monofunctional C1-tetrahydrofolate synthase, mitochondrial (MTHFD1L)				C906	2.5
LDTP06314	Protein disulfide-isomerase A6 (PDIA6)				C55	2.5
LDTP03146	Protein-glutamine gamma-glutamyltransferase 2 (TGM2)				C277	2.4
LDTP16025	Ketosamine-3-kinase (FN3KRP)				C24	2.2
LDTP13449	Cleavage and polyadenylation specificity factor subunit 3 (CPSF3)				C498	1.9
LDTP03223	Small ribosomal subunit protein uS3 (RPS3)				C97	1.9
LDTP14535	6-phosphogluconolactonase (PGLS)				C32	1.8
LDTP02672	Elongation factor 2 (EEF2)				C136	1.7
LDTP13080	GMP reductase 2 (GMPR2)				C186	1.7
LDTP14159	Ubiquitin carboxyl-terminal hydrolase 16 (USP16)				C205	1.7
LDTP17384	Lysine-specific demethylase RSBN1L (RSBN1L)				C280	1.6
LDTP17082	Isoamyl acetate-hydrolyzing esterase 1 homolog (IAH1)				C137	1.6
LDTP02611	Inosine-5'-monophosphate dehydrogenase 2 (IMPDH2)				C331	1.5
LDTP03000	General transcription and DNA repair factor IIH helicase subunit XPB (ERCC3)				C342	1.4
LDTP05314	ATP-dependent 6-phosphofructokinase, platelet type (PFKP)				C179	1.4
LDTP13663	Dual specificity protein phosphatase 12 (DUSP12)				C265	1.3
LDTP08181	Glutaredoxin-related protein 5, mitochondrial (GLRX5)				C67	1.3
LDTP11340	Cyclin-dependent kinase 19 (CDK19)				C349	1.3
LDTP10801	ATPase WRNIP1 (WRNIP1)				C272	1.2
LDTP02038	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)				C152	1.2
LDTP04690	Double-stranded RNA-specific adenosine deaminase (ADAR)				C1224	1.2
LDTP03512	Peroxiredoxin-5, mitochondrial (PRDX5)				C100	1.2
LDTP05075	Tubulin alpha-4A chain (TUBA4A)				C315	1.2
LDTP11111	Tudor-interacting repair regulator protein (NUDT16L1)				C88	1.2
LDTP10386	ERO1-like protein alpha (ERO1A)				C241	1.2
LDTP01005	Multifunctional procollagen lysine hydroxylase and glycosyltransferase LH3 (PLOD3)				C691	1.2
LDTP04061	26S proteasome regulatory subunit 6B (PSMC4)				C210	1.1
LDTP11030	Serine/threonine-protein kinase VRK1 (VRK1)				C50	1.1
LDTP02333	Glutathione S-transferase P (GSTP1)				C48	1.1
LDTP01245	Enoyl-CoA delta isomerase 2 (ECI2)				C380	1.1
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C196	1.1
LDTP01633	Persulfide dioxygenase ETHE1, mitochondrial (ETHE1)				C170	1.1
LDTP03644	Pyrroline-5-carboxylate reductase 1, mitochondrial (PYCR1)				C120	1.1
LDTP02580	C-1-tetrahydrofolate synthase, cytoplasmic (MTHFD1)				C918	1.1
LDTP04987	26S proteasome regulatory subunit 10B (PSMC6)				C170	1.0
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C126	1.0
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C413	1.0
LDTP02522	60 kDa heat shock protein, mitochondrial (HSPD1)				C442	1.0
LDTP10954	3-hydroxyacyl-CoA dehydrogenase type-2 (HSD17B10)				C214	1.0
LDTP14888	Pre-rRNA-processing protein TSR1 homolog (TSR1)				C126	1.0
LDTP07907	Tubulin alpha-1A chain (TUBA1A)				C376	1.0
LDTP04374	Dynamin-2 (DNM2)				C27	1.0
LDTP04987	26S proteasome regulatory subunit 10B (PSMC6)				C193	0.9
LDTP05373	Procollagen-lysine,2-oxoglutarate 5-dioxygenase 1 (PLOD1)				C680	0.9
LDTP10997	Protein arginine N-methyltransferase 1 (PRMT1)				C109	0.9
LDTP00246	Eukaryotic translation initiation factor 3 subunit F (EIF3F)				C256	0.9
LDTP11388	N-alpha-acetyltransferase 15, NatA auxiliary subunit (NAA15)				C322	0.9
LDTP02502	Thioredoxin (TXN)				C32	0.9
LDTP05075	Tubulin alpha-4A chain (TUBA4A)				C347	0.9
LDTP06338	Prostaglandin E synthase 3 (PTGES3)				C58	0.9
LDTP05075	Tubulin alpha-4A chain (TUBA4A)				C295	0.9
LDTP02765	Aldo-keto reductase family 1 member B1 (AKR1B1)				C299	0.9
LDTP05912	Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 (PIN1)				C113	0.9
LDTP04689	Adenosine kinase (ADK)				C353	0.9
LDTP06199	Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit delta isoform (PPP2R5D)				C17	0.9
LDTP15484	Saccharopine dehydrogenase-like oxidoreductase (SCCPDH)				C238	0.9
LDTP02223	Cathepsin B (CTSB)				C211	0.8
LDTP07907	Tubulin alpha-1A chain (TUBA1A)				C347	0.8
LDTP09446	Ribonuclease H2 subunit C (RNASEH2C)				C34	0.8
LDTP03291	Acetyl-CoA acetyltransferase, mitochondrial (ACAT1)				C119	0.8
LDTP03512	Peroxiredoxin-5, mitochondrial (PRDX5)				C204	0.8
LDTP04251	Elongation factor Tu, mitochondrial (TUFM)				C147	0.7
LDTP11388	N-alpha-acetyltransferase 15, NatA auxiliary subunit (NAA15)				C721	0.7
LDTP12166	Ras-related GTP-binding protein C (RRAGC)				C377	0.6
LDTP00482	Peripheral plasma membrane protein CASK (CASK)				C914	0.6

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP14222	Chloride intracellular channel protein 4 (CLIC4)				C35	2.2
LDTP08769	Nuclear pore complex protein Nup93 (NUP93)				C522	1.9
LDTP11855	Pinin (PNN)				C249	1.5
LDTP09204	Nucleoporin NUP35 (NUP35)				C255	1.2
LDTP03327	ATP synthase subunit alpha, mitochondrial (ATP5F1A)				C294	1.0
LDTP00196	Unconventional myosin-Ic (MYO1C)				C802	1.0
LDTP04707	Protein SEC13 homolog (SEC13)				C187	1.0
LDTP00501	Exportin-1 (XPO1)				C34	0.9
LDTP04662	Exportin-2 (CSE1L)				C842	0.7
LDTP05057	Small ribosomal subunit protein RACK1 (RACK1)				C182	0.7
LDTP04259	Signal recognition particle 9 kDa protein (SRP9)				C48	0.6

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP06341	Non-POU domain-containing octamer-binding protein (NONO)				C145	1.5
LDTP07940	eIF5-mimic protein 2 (BZW1)				C35	0.9
LDTP05485	Recombining binding protein suppressor of hairless (RBPJ)				C313	0.9
LDTP01191	Zinc finger protein 217 (ZNF217)				C286	0.9
LDTP12792	CDKN2A-interacting protein (CDKN2AIP)				C516	0.8

Target ID	Target Name				Binding Sites	Binding Ratio
LDTP10299	Enhancer of mRNA-decapping protein 3 (EDC3)				C413	2.7
LDTP07088	Formin-binding protein 1-like (FNBP1L)				C69	1.7
LDTP06542	Cysteine and glycine-rich protein 2 (CSRP2)				C33	1.6
LDTP12651	TBC1 domain family member 23 (TBC1D23)				C283	1.5
LDTP12669	Mediator of RNA polymerase II transcription subunit 17 (MED17)				C649	1.5
LDTP00202	AH receptor-interacting protein (AIP)				C122	1.4
LDTP10771	Mediator of RNA polymerase II transcription subunit 15 (MED15)				C618	1.4
LDTP11235	Protein PAXX (PAXX)				C180	1.2
LDTP06681	Inverted formin-2 (INF2)				C971	1.2
LDTP15677	Ribosomal protein eL42-like (RPL36AL)				C88	1.2
LDTP04363	Serpin H1 (SERPINH1)				C156	1.2
LDTP04517	Transcription initiation factor IIA subunit 2 (GTF2A2)				C68	1.2
LDTP04514	Heterogeneous nuclear ribonucleoprotein F (HNRNPF)				C267	1.2
LDTP03815	Large ribosomal subunit protein uL4 (RPL4)				C96	1.2
LDTP08885	Actin filament-associated protein 1 (AFAP1)				C713	1.1
LDTP04117	Ras GTPase-activating-like protein IQGAP1 (IQGAP1)				C781	1.1
LDTP07037	WD repeat domain phosphoinositide-interacting protein 3 (WDR45B)				C63	1.1
LDTP10990	T-complex protein 1 subunit eta (CCT7)				C29	1.1
LDTP03860	Stress-70 protein, mitochondrial (HSPA9)				C317	1.1
LDTP04975	Small ribosomal subunit protein uS17 (RPS11)				C60	1.1
LDTP03841	Hippocalcin-like protein 1 (HPCAL1)				C185	1.1
LDTP06083	Cytoplasmic dynein 1 heavy chain 1 (DYNC1H1)				C1059	1.1
LDTP15730	Ataxin-7-like protein 3B (ATXN7L3B)				C75	1.0
LDTP11191	WW domain-containing adapter protein with coiled-coil (WAC)				C553	1.0
LDTP05008	Large ribosomal subunit protein uL14 (RPL23)				C28	1.0
LDTP13964	MOB-like protein phocein (MOB4)				C134	1.0
LDTP06330	Plectin (PLEC)				C3110	1.0
LDTP06366	Poly(rC)-binding protein 1 (PCBP1)				C194	1.0
LDTP03987	Small ribosomal subunit protein eS27 (RPS27)				C77	1.0
LDTP03395	Large ribosomal subunit protein uL16 (RPL10)				C105	1.0
LDTP10864	Calponin-2 (CNN2)				C164	1.0
LDTP12754	H/ACA ribonucleoprotein complex subunit 2 (NHP2)				C18	1.0
LDTP05259	Heterogeneous nuclear ribonucleoprotein U (HNRNPU)				C562	0.9
LDTP06082	Dynactin subunit 1 (DCTN1)				C1252	0.9
LDTP02205	Tubulin beta chain (TUBB)				C239	0.9
LDTP10864	Calponin-2 (CNN2)				C215	0.9
LDTP03967	Lamina-associated polypeptide 2, isoform alpha (TMPO)				C561	0.9
LDTP05186	Large ribosomal subunit protein eL24 (RPL24)				C36	0.9
LDTP12412	Reticulon-4 (RTN4)				C1101	0.9
LDTP06330	Plectin (PLEC)				C992	0.9
LDTP13580	Coronin-1C (CORO1C)				C420	0.9
LDTP08238	Kinectin (KTN1)				C303	0.9
LDTP05186	Large ribosomal subunit protein eL24 (RPL24)				C6	0.9
LDTP04110	Small ribosomal subunit protein uS7 (RPS5)				C66	0.9
LDTP05021	Large ribosomal subunit protein eL30 (RPL30)				C92	0.8
LDTP05597	Neuroblast differentiation-associated protein AHNAK (AHNAK)				C108	0.8
LDTP07947	Eukaryotic translation initiation factor 3 subunit M (EIF3M)				C134	0.8
LDTP06366	Poly(rC)-binding protein 1 (PCBP1)				C109	0.8
LDTP04971	Small ribosomal subunit protein uS12 (RPS23)				C90	0.8
LDTP03665	Cleavage stimulation factor subunit 2 (CSTF2)				C150	0.8
LDTP04997	Small ribosomal subunit protein eS4, X isoform (RPS4X)				C41	0.8
LDTP02934	T-complex protein 1 subunit alpha (TCP1)				C76	0.8
LDTP04028	DNA mismatch repair protein Msh2 (MSH2)				C843	0.8
LDTP13817	Nuclear migration protein nudC (NUDC)				C188	0.8
LDTP03620	Protein S100-A11 (S100A11)				C91	0.8
LDTP04390	T-complex protein 1 subunit theta (CCT8)				C244	0.8
LDTP18494	Tropomodulin-3 (TMOD3)				C132	0.8
LDTP03967	Lamina-associated polypeptide 2, isoform alpha (TMPO)				C280	0.7
LDTP02631	Alpha-actinin-1 (ACTN1)				C370	0.7
LDTP13580	Coronin-1C (CORO1C)				C456	0.6

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.