KRT7, CPTAC-5843 - 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
KRT7	SCL

Sequence Length (AA)	Molecular Weight (Da)
469	51386

Protein Name
Keratin, type II cytoskeletal 7

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MSIHFSSPVF	TSRSAAFSGR	GAQVRLSSAR	PGGLGSSSLY	GLGASRPRVA
60	70	80	90	100
VRSAYGGPVG	AGIREVTINQ	SLLAPLRLDA	DPSLQRVRQE	ESEQIKTLNN
110	120	130	140	150
KFASFIDKVR	FLEQQNKLLE	TKWTLLQEQK	SAKSSRLPDI	FEAQIAGLRG
160	170	180	190	200
QLEALQVDGG	RLEAELRSMQ	DVVEDFKNKY	EDEINHRTAA	ENEFVVLKKD
210	220	230	240	250
VDAAYMSKVE	LEAKVDALND	EINFLRTLNE	TELTELQSQI	SDTSVVLSMD
260	270	280	290	300
NSRSLDLDGI	IAEVKAQYEE	MAKCSRAEAE	AWYQTKFETL	QAQAGKHGDD
310	320	330	340	350
LRNTRNEISE	MNRAIQRLQA	EIDNIKNQRA	KLEAAIAEAE	ERGELALKDA
360	370	380	390	400
RAKQEELEAA	LQRGKQDMAR	QLREYQELMS	VKLALDIEIA	TYRKLLEGEE
410	420	430	440	450
SRLAGDGVGA	VNISVMNSTG	GSSSGGGIGL	TLGGTMGSNA	LSFSSSAGPG
460	469
LLKAYSIRTA	SASRRSARD

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-5843 Collapse assay details

Data source: Panorama

Official Gene Symbol: KRT7
Peptide Sequence: LPDIFEAQIAGLR
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: 6
Peptide Start: 137
Peptide End: 149

CPTAC ID: CPTAC-5843
Peptide Molecular Mass: 1,441.7929
Species: Homo sapiens (Human)
Assay Type: Enrichment MRM
Enrichment Method: peptide immunoaffinity
Matrix: Frozen breast cancer tumor tissue lysate pool
Submitting Laboratory: Fred Hutchinson Cancer Research Center
Submitting Lab PI: Amanda Paulovich

Publication

View Details (opens in a new window)

Quantification of Human Epidermal Growth Factor Receptor 2 by Immunopeptide Enrichment and Targeted Mass Spectrometry in Formalin-Fixed Paraffin-Embedded and Frozen Breast Cancer Tissues. Kennedy JJ, Whiteaker JR, Kennedy LC, Bosch DE, Lerch ML, Schoenherr RM, Zhao L, Lin C, Chowdhury S, Kilgore MR, Allison KH, Wang P, Hoofnagle AN, Baird GS, Paulovich AG. Clin Chem. 2021 Jun 17:hvab047. doi: 10.1093/clinchem/hvab047. Online ahead of print. PMID: 34136904

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: QTRAP 6500
Internal Standard: peptide
Peptide Standard Purity: >95%
Peptide Standard Label Type: 13C and 15N at C-terminus R

LC: Eksigent nanoLC 425
Column Packing: 3 µm ChromXP C18EP, 120 Å
Column Dimensions: 150 x 0.3 mm
Flow Rate: 10.0 µL/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
y11 (1+)	20	34.4	19.7	36.7	68.3	70	41.8	76.5	72.7	15	17	15
y9 (1+)	17.4	29.1	20.2	35.2	65.2	67.5	39.3	71.4	70.5	15	17	15
y8 (1+)	17.2	30.1	17.8	33.9	66.5	66.6	38	73	68.9	15	17	15
y7 (1+)	13.6	31.6	21.1	34	68.1	70.4	36.6	75.1	73.5	15	17	15
y12 (2+)	17	30.2	20	38.3	64.8	70.3	41.9	71.5	73.1	15	17	15
sum	16.2	30.1	19.6	35.2	66.1	68.6	38.7	72.6	71.3	15	17	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
y7 (1+)	12.3	7.2	25.3	10	10.7	27.3	15.9	12.9	37.2	12	12	12
y8 (1+)	11.7	8.9	21.6	8.6	10.6	23.1	14.5	13.8	31.6	12	12	12
y9 (1+)	11.3	8.8	19.9	11	13.4	23.1	15.8	16	30.5	12	12	12
y11 (1+)	15.7	11.3	21.6	15.8	14.7	26.4	22.3	18.5	34.1	12	12	12
y12 (2+)	8.2	6.3	16.8	6.5	14.2	20.8	10.5	15.5	26.7	12	12	12
sum	9.8	7.7	20.5	8.8	11.9	23.3	13.2	14.2	31	12	12	12

	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
y8 (1+)	12.9	3.4	4.5	12	6	4.9	17.6	6.9	6.7	15	17	15
y10 (1+)	13.1	3.9	2.3	10.1	4.8	2.7	16.5	6.2	3.5	15	17	15
y9 (1+)	12.4	3.6	3.9	10.4	6	4.4	16.2	7	5.9	15	17	15
y7 (1+)	12.5	3.5	3.7	11	5.5	3.4	16.7	6.5	5	15	17	15
y10 (2+)	11.1	2.2	3	11	4.4	3.5	15.6	4.9	4.6	15	17	15
sum	11.5	1.7	2.3	10	4.6	2.3	15.2	4.9	3.3	15	17	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
y10 (2+)	10.9	3.1	4.9	11.2	4.1	5.7	15.6	5.1	7.5	12	12	12
y7 (1+)	12.9	3.6	4.3	13.5	3.6	3.3	18.7	5.1	5.4	12	12	12
y8 (1+)	11.4	4.9	2.6	13.2	6.3	2.4	17.4	8	3.5	12	12	12
y9 (1+)	14.2	4.8	2.2	14.3	4.7	2.4	20.2	6.7	3.3	12	12	12
y10 (1+)	14.5	6.5	2.1	14.6	6.4	2.5	20.6	9.1	3.3	12	12	12
sum	11.9	2.9	2.4	12.2	3.3	2.6	17	4.4	3.5	12	12	12

	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+)	8.6	5.9	1.6	51	39.2	43.1	51.7	39.6	43.1	15	15	15
y8 (1+)	5.6	5.2	2.8	47.9	40.9	44.6	48.2	41.2	44.7	15	15	15
y10 (1+)	4.6	5.3	3.1	52.2	41.5	44.6	52.4	41.8	44.7	15	15	15
sum	3.7	5.1	2	50.2	40.7	44.2	50.3	41	44.2	15	15	15

Search form

KRT7

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-5843 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-5868 Collapse assay details

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Assay Details for CPTAC-5844 Collapse assay details

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Assay Details for CPTAC-5869 Collapse assay details

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Assay Details for CPTAC-1520 Collapse assay details

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Assay Details for CPTAC-1521 Collapse assay details

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