PDLIM7, CPTAC-108 - 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
PDLIM7	ENIGMA

Sequence Length (AA)	Molecular Weight (Da)
457	49845

Protein Name
PDZ and LIM domain protein 7

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MDSFKVVLEG	PAPWGFRLQG	GKDFNVPLSI	SRLTPGGKAA	QAGVAVGDWV
60	70	80	90	100
LSIDGENAGS	LTHIEAQNKI	RACGERLSLG	LSRAQPVQSK	PQKASAPAAD
110	120	130	140	150
PPRYTFAPSV	SLNKTARPFG	APPPADSAPQ	QNGQPLRPLV	PDASKQRLME
160	170	180	190	200
NTEDWRPRPG	TGQSRSFRIL	AHLTGTEFMQ	DPDEEHLKKS	SQVPRTEAPA
210	220	230	240	250
PASSTPQEPW	PGPTAPSPTS	RPPWAVDPAF	AERYAPDKTS	TVLTRHSQPA
260	270	280	290	300
TPTPLQSRTS	IVQAAAGGVP	GGGSNNGKTP	VCHQCHKVIR	GRYLVALGHA
310	320	330	340	350
YHPEEFVCSQ	CGKVLEEGGF	FEEKGAIFCP	PCYDVRYAPS	CAKCKKKITG
360	370	380	390	400
EIMHALKMTW	HVHCFTCAAC	KTPIRNRAFY	MEEGVPYCER	DYEKMFGTKC
410	420	430	440	450
HGCDFKIDAG	DRFLEALGFS	WHDTCFVCAI	CQINLEGKTF	YSKKDRPLCK
457
SHAFSHV

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-108 Collapse assay details

Data source: Panorama

Official Gene Symbol: PDLIM7
Peptide Sequence: TSIVQAAAGGVPGGGSNNGK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 259
Peptide End: 278

CPTAC ID: CPTAC-108
Peptide Molecular Mass: 1,740.8755
Species: Homo sapiens (Human)
Assay Type: Direct MRM
Matrix: cell line lysate pool
Submitting Laboratory: Fred Hutchinson Cancer Research Center
Submitting Lab PI: Amanda Paulovich

Publication

View Details (opens in a new window)

Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins. Kennedy JJ, Abbatiello SE, Kim K, Yan P, Whiteaker JR, Lin C, Kim JS, Zhang Y, Wang X, Ivey RG, Zhao L, Min H, Lee Y, Yu MH, Yang EG, Lee C, Wang P, Rodriguez H, Kim Y, Carr SA, Paulovich AG. Nat Methods. 2014 Feb;11(2):149-55. doi: 10.1038/nmeth.2763. Epub 2013 Dec 8. PMID: 24317253

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: 5500 QTRAP (ABSCIEX)
Internal Standard: peptide
Peptide Standard Purity: >95%
Peptide Standard Label Type: 13C,15N

LC: nanoLC-Ultra 2D, cHiPLC-nanoflex (Eksigent)
Column Packing: ChromXP C18-CL, 3 um, 120A
Column Dimensions: 150 x 0.075 mm
Flow Rate: 500 nL / min

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

Repeatability

Data source: Panorama

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	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
y14 (1+)	20.8	5.9	4.1	20.8	7	3.3	29.4	9.2	5.3	15	15	15
y13 (1+)	25.7	4.9	4.3	27.3	4.7	6	37.5	6.8	7.4	15	15	15
y12 (1+)	18	4.2	2.8	19.7	4.5	5.5	26.7	6.2	6.2	15	15	15
sum	14.7	2.9	2.5	14.8	3.1	4.6	20.9	4.2	5.2	15	15	15

Additional Resources and Comments

Resources

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View Peptide in Panorama

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