CDH2, CPTAC-5371 - CPTAC Assay Portal | Office of Cancer Clinical Proteomics Research

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We would like to acknowledge the National Cancer Institute’s Clinical Proteomic Tumor Analysis Consortium (CPTAC) Assay Portal (assays.cancer.gov) for developing assays and establishing criteria for the assays described in this publication.

Overview Data source: UniProt

Official Gene Symbol	Other Aliases
CDH2	CDHN, NCAD

Sequence Length (AA)	Molecular Weight (Da)
906	99809

Protein Name
Cadherin-2

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MCRIAGALRT	LLPLLAALLQ	ASVEASGEIA	LCKTGFPEDV	YSAVLSKDVH
60	70	80	90	100
EGQPLLNVKF	SNCNGKRKVQ	YESSEPADFK	VDEDGMVYAV	RSFPLSSEHA
110	120	130	140	150
KFLIYAQDKE	TQEKWQVAVK	LSLKPTLTEE	SVKESAEVEE	IVFPRQFSKH
160	170	180	190	200
SGHLQRQKRD	WVIPPINLPE	NSRGPFPQEL	VRIRSDRDKN	LSLRYSVTGP
210	220	230	240	250
GADQPPTGIF	IINPISGQLS	VTKPLDREQI	ARFHLRAHAV	DINGNQVENP
260	270	280	290	300
IDIVINVIDM	NDNRPEFLHQ	VWNGTVPEGS	KPGTYVMTVT	AIDADDPNAL
310	320	330	340	350
NGMLRYRIVS	QAPSTPSPNM	FTINNETGDI	ITVAAGLDRE	KVQQYTLIIQ
360	370	380	390	400
ATDMEGNPTY	GLSNTATAVI	TVTDVNDNPP	EFTAMTFYGE	VPENRVDIIV
410	420	430	440	450
ANLTVTDKDQ	PHTPAWNAVY	RISGGDPTGR	FAIQTDPNSN	DGLVTVVKPI
460	470	480	490	500
DFETNRMFVL	TVAAENQVPL	AKGIQHPPQS	TATVSVTVID	VNENPYFAPN
510	520	530	540	550
PKIIRQEEGL	HAGTMLTTFT	AQDPDRYMQQ	NIRYTKLSDP	ANWLKIDPVN
560	570	580	590	600
GQITTIAVLD	RESPNVKNNI	YNATFLASDN	GIPPMSGTGT	LQIYLLDIND
610	620	630	640	650
NAPQVLPQEA	ETCETPDPNS	INITALDYDI	DPNAGPFAFD	LPLSPVTIKR
660	670	680	690	700
NWTITRLNGD	FAQLNLKIKF	LEAGIYEVPI	IITDSGNPPK	SNISILRVKV
710	720	730	740	750
CQCDSNGDCT	DVDRIVGAGL	GTGAIIAILL	CIIILLILVL	MFVVWMKRRD
760	770	780	790	800
KERQAKQLLI	DPEDDVRDNI	LKYDEEGGGE	EDQDYDLSQL	QQPDTVEPDA
810	820	830	840	850
IKPVGIRRMD	ERPIHAEPQY	PVRSAAPHPG	DIGDFINEGL	KAADNDPTAP
860	870	880	890	900
PYDSLLVFDY	EGSGSTAGSL	SSLNSSSSGG	EQDYDYLNDW	GPRFKKLADM
906
YGGGDD

Data source: UniProt

Protein Map Collapse protein map

Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs

Uniprot Database Entry PhosphoSitePlus ®

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Assay Details for CPTAC-5770 Collapse assay details

Data source: Panorama

Official Gene Symbol: CDH2
Peptide Sequence: LSDPANWLK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: 3
Peptide Start: 537
Peptide End: 545

CPTAC ID: CPTAC-5770
Peptide Molecular Mass: 1,042.5447
Species: Homo sapiens (Human)
Assay Type: Enrichment MRM
Enrichment Method: N/A
Matrix: Cell Lysate
Submitting Laboratory: Fred Hutchinson Cancer Research Center, H. Lee Moffitt Cancer Center & Research Institute, Broad Institute
Submitting Lab PI: Amanda Paulovich, John Koomen, Steven A. Carr

Publication

View Details (opens in a new window)

Targeted mass spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP Kinase, and AKT signaling. Whiteaker JR, Sharma K, Hoffman MA, Kuhn E, Zhao L, Cocco AR, Schoenherr RM, Kennedy JJ, Voytovich U, Lin C, Fang B, Bowers K, Whiteley G, Colantonio S, Bocik W, Roberts R, Hiltke T, Boja E, Rodriguez H, McCormick F, Holderfield M, Carr SA, Koomen JM, Paulovich AG. Cell Reports Methods doi: 10.1016/j.crmeth.2021.100015.

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: SCIEX 5500 / Thermo Quantiva
Internal Standard: Stable Isotope Labeled Standard
Peptide Standard Purity: >95%
Peptide Standard Label Type: 13C and 15N at C-terminus K

LC: Dionex Ultimate 3000
Column Packing: C18 PepMap 100
Column Dimensions: 75 micron ID x 25 cm length
Flow Rate: 300 nL/min

Chromatograms

Data source: Panorama

	Average intra-assay CV (within day CV)			Average inter-assay CV (between day CV)			Total CV			n=
Fragment ion / Transition	Low	Med	High	Low	Med	High	Low	Med	High	Low	Med	High
y7 (1+)	50.3	11.1	15.3	49.4	18.4	16	70.5	21.5	22.1	14	15	15
y8 (1+)	76.6	13.4	15.6	83.5	26.8	15.8	113.3	30	22.2	14	15	15
y6 (1+)	41.4	16.1	7.4	45.6	25.4	11.5	61.6	30.1	13.7	14	15	15
sum	35.5	10.9	9.9	36.6	20.3	12	51	23	15.6	14	15	15

	Average intra-assay CV (within day CV)			Average inter-assay CV (between day CV)			Total CV			n=
Fragment ion / Transition	Low	Med	High	Low	Med	High	Low	Med	High	Low	Med	High
b3 (1+)	10	2.7	1.9	12.5	3.9	1.8	16	4.7	2.6	15	15	15
y5 (1+)	15.6	2.6	2.2	15.2	2.5	3.1	21.8	3.6	3.8	15	15	15
y6 (1+)	2.4	1.6	1	3.5	1.9	2.1	4.2	2.5	2.3	15	15	15
y7 (1+)	4.4	3.1	2.2	7.4	3.7	2.8	8.6	4.8	3.6	15	15	15
sum	3.1	1.1	0.7	4.2	1.8	1.7	5.2	2.1	1.8	15	15	15

	Average intra-assay CV (within day CV)			Average inter-assay CV (between day CV)			Total CV			n=
Fragment ion / Transition	Low	Med	High	Low	Med	High	Low	Med	High	Low	Med	High
y9 (1+)	42.3	14.3	1.7	36	11.9	2.5	55.5	18.6	3	15	15	15
y11 (1+)	49.1	17.4	2.8	39.7	12.1	5.1	63.1	21.2	5.8	15	15	15
y12 (1+)	45.7	16.1	3	39	10.2	5.4	60.1	19.1	6.2	15	15	15
y5 (1+)	38.3	15.5	3.1	34.1	10.7	5.2	51.3	18.8	6.1	15	15	15
y8 (1+)	46.8	14	2.1	37.3	11.8	4	59.8	18.3	4.5	15	15	15
sum	44	14.8	1.6	36.3	10.7	3.9	57	18.3	4.2	15	15	15

	Average intra-assay CV (within day CV)			Average inter-assay CV (between day CV)			Total CV			n=
Fragment ion / Transition	Low	Med	High	Low	Med	High	Low	Med	High	Low	Med	High
y9 (1+)	6.5	4.2	1.8	8.5	6.6	2.7	10.7	7.8	3.2	15	15	15
y6 (1+)	7.9	2.8	1.8	8.1	3.4	2.9	11.3	4.4	3.4	15	15	15
y7 (1+)	5.3	5.1	2.5	5.2	6.2	2.6	7.4	8	3.6	15	15	15
sum	4.3	2.1	1.2	4.6	4	2.2	6.3	4.5	2.5	15	15	15

	Average intra-assay CV (within day CV)			Average inter-assay CV (between day CV)			Total CV			n=
Fragment ion / Transition	Low	Med	High	Low	Med	High	Low	Med	High	Low	Med	High
y5 (1+)	65.5	20.2	16.3	84.3	35	24.3	106.8	40.4	29.3	10	11	11
y6 (1+)	17.8	17.4	5.2	31.4	27.3	10.5	36.1	32.4	11.7	10	11	11
y7 (1+)	46.5	11.8	13	30.1	20.7	17.6	55.4	23.8	21.9	10	11	11
y8 (1+)	50.3	14.6	9.9	36.1	24.8	16.5	61.9	28.8	19.2	10	11	11
sum	18.7	11.6	6.6	17.3	21.3	13.3	25.5	24.3	14.8	10	11	11

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CDH2

Overview Data source: UniProt

Protein Sequence hover to view complete sequence

Protein Map Collapse protein map

Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs

Assay Details for CPTAC-5770 Collapse assay details

Publication

Assay Parameters Collapse assay parameters

Chromatograms

Response Curves

Repeatability

Additional Resources and Comments

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Assay Details for CPTAC-5769 Collapse assay details

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Assay Parameters Collapse assay parameters

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Repeatability

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Assay Details for non-CPTAC-5371 Collapse assay details

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Assay Parameters Collapse assay parameters

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Assay Details for non-CPTAC-5373 Collapse assay details

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Assay Parameters Collapse assay parameters

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Response Curves

Repeatability

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Assay Details for non-CPTAC-5374 Collapse assay details

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Assay Parameters Collapse assay parameters

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Response Curves

Repeatability

Additional Resources and Comments

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Assay Details for non-CPTAC-5543 Collapse assay details

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Assay Parameters Collapse assay parameters

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Response Curves

Repeatability

Additional Resources and Comments

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Assay Details for non-CPTAC-5544 Collapse assay details

Publication

Assay Parameters Collapse assay parameters

Chromatograms

Response Curves

Repeatability

Additional Resources and Comments

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