MCM10, CPTAC-1210 - CPTAC Assay Portal (original) (raw)

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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.

MCM10

Protein Sequence hover to view complete sequence

CPTAC-1210: View additional GTNLIIQETR data

CPTAC-1211: View additional IGGETLLPR data

10 20 30 40 50
MDEEEDNLSL LTALLEENES ALDCNSEENN FLTRENGEPD AFDELFDADG
60 70 80 90 100
DGESYTEEAD DGETGETRDE KENLATLFGD MEDLTDEEEV PASQSTENRV
110 120 130 140 150
LPAPAPRREK TNEELQEELR NLQEQMKALQ EQLKVTTIKQ TASPARLQKS
160 170 180 190 200
PVEKSPRPPL KERRVQRIQE STCFSAELDV PALPRTKRVA RTPKASPPDP
210 220 230 240 250
KSSSSRMTSA PSQPLQTISR NKPSGITRGQ IVGTPGSSGE TTQPICVEAF
260 270 280 290 300
SGLRLRRPRV SSTEMNKKMT GRKLIRLSQI KEKMAREKLE EIDWVTFGVI
310 320 330 340 350
LKKVTPQSVN SGKTFSIWKL NDLRDLTQCV SLFLFGEVHK ALWKTEQGTV
360 370 380 390 400
VGILNANPMK PKDGSEEVCL SIDHPQKVLI MGEALDLGTC KAKKKNGEPC
410 420 430 440 450
TQTVNLRDCE YCQYHVQAQY KKLSAKRADL QSTFSGGRIP KKFARRGTSL
460 470 480 490 500
KERLCQDGFY YGGVSSASYA ASIAAAVAPK KKIQTTLSNL VVKGTNLIIQ
510 520 530 540 550
ETRQKLGIPQ KSLSCSEEFK ELMDLPTCGA RNLKQHLAKA TASGIMGSPK
560 570 580 590 600
PAIKSISASA LLKQQKQRML EMRRRKSEEI QKRFLQSSSE VESPAVPSSS
610 620 630 640 650
RQPPAQPPRT GSEFPRLEGA PATMTPKLGR GVLEGDDVLF YDESPPPRPK
660 670 680 690 700
LSALAEAKKL AAITKLRAKG QVLTKTNPNS IKKKQKDPQD ILEVKERVEK
710 720 730 740 750
NTMFSSQAED ELEPARKKRR EQLAYLESEE FQKILKAKSK HTGILKEAEA
760 770 780 790 800
EMQERYFEPL VKKEQMEEKM RNIREVKCRV VTCKTCAYTH FKLLETCVSE
810 820 830 840 850
QHEYHWHDGV KRFFKCPCGN RSISLDRLPN KHCSNCGLYK WERDGMLKEK
860 870 875
TGPKIGGETL LPRGEEHAKF LNSLK

Data source: UniProt

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

Uniprot Database Entry PhosphoSitePlus ®

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Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-1210 Collapse assay details

Data source: Panorama

Official Gene Symbol

MCM10

Peptide Sequence

GTNLIIQETR

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

494

Peptide End

503

CPTAC ID

CPTAC-1210

Peptide Molecular Mass

1,143.6248

Species

Homo sapiens (Human)

Assay Type

Direct MRM or SRM

Matrix

Ovarian cancer tumor tissue lysate

Submitting Laboratory

Pacific Northwest National Laboratory

Submitting Lab PI

Tao Liu

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument

TSQ Vantage

Internal Standard

peptide

Peptide Standard Purity

>95%

Peptide Standard Label Type

13C and 15N at C-terminus R

LC

Waters nanoACQUITY (Part Number 176016000)

Column Packing

Waters BEH C18, 1.7 um 130 Å (Part Number 186007485)

Column Dimensions

100 um x 100 mm

Flow Rate

0.5 uL/min

Assay Multiplexing Expand assay panel

Pacific Northwest National Laboratory-DirectMRM

Chromatograms

Data source: Panorama

Response Curves

Data source: Panorama

Retrieving Data

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Repeatability

Data source: Panorama

| | Average intra-assay CV(within day CV) | Average inter-assay CV(between day CV) | Total CVequation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | y4 (1+) | 21 | 6.6 | 7.6 | 29.2 | 9.7 | 7.4 | 36 | 11.7 | 10.6 | 15 | 15 | 15 | | y5 (1+) | 13.1 | 5.2 | 2.2 | 13 | 9.5 | 3.5 | 18.5 | 10.8 | 4.1 | 15 | 15 | 15 | | y6 (1+) | 13.2 | 8.9 | 3.2 | 14.7 | 11.1 | 5.1 | 19.8 | 14.2 | 6 | 15 | 15 | 15 | | sum | 8.9 | 4.5 | 2.5 | 10.2 | 8.7 | 4 | 13.5 | 9.8 | 4.7 | 15 | 15 | 15 |

Selectivity

Data source: Panorama

Slope of Curve Fit for cell line
fragment_ion 1 2 3 4 5 6
y6 (1+) 0.75 0.77 1.14 0.77 0.79 0.83
y5 (1+) 0.79 0.78 1.19 0.8 0.82 0.86
y4 (1+) 0.77 0.85 1.03 0.91 0.97 1.23
sum 0.77 0.78 1.15 0.8 0.82 0.89

Stability

Data source: Panorama

Fragment ion / Transition control_intra_CV actual_temp_intra_CV frozen_intra_CV FTx1_intra_CV FTx2_intra_CV
y4 (1+) 13.6 9.1 16.8 7.8 5.8
y5 (1+) 3 4.3 1.7 1.4 5.5
y6 (1+) 4.2 6.9 2.5 7.5 3.1
sum 2.4 2.7 0.8 3 1.3
Fragment ion / Transition all_intra_CV all_inter_CV
y4 (1+) 10.4 12.9
y5 (1+) 3.4 6.3
y6 (1+) 5.2 5.6
sum 2.2 3.6

Endogenous

Data source: Panorama

Fragment ion / Transition intra_CV inter_CV total_CV
y6 (1+) 50.2 42.2 65.6
y5 (1+) 52.2 56.9 77.2
y4 (1+) 47.7 45.9 66.2
sum 42.8 41.3 59.5

Additional Resources and Comments

Comments

Assay Details for CPTAC-1211 Collapse assay details

Data source: Panorama

Official Gene Symbol

MCM10

Peptide Sequence

IGGETLLPR

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

855

Peptide End

863

CPTAC ID

CPTAC-1211

Peptide Molecular Mass

954.5498

Species

Homo sapiens (Human)

Assay Type

Direct MRM or SRM

Matrix

Ovarian cancer tumor tissue lysate

Submitting Laboratory

Pacific Northwest National Laboratory

Submitting Lab PI

Tao Liu

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument

TSQ Vantage

Internal Standard

peptide

Peptide Standard Purity

>95%

Peptide Standard Label Type

13C and 15N at C-terminus R

LC

Waters nanoACQUITY (Part Number 176016000)

Column Packing

Waters BEH C18, 1.7 um 130 Å (Part Number 186007485)

Column Dimensions

100 um x 100 mm

Flow Rate

0.5 uL/min

Assay Multiplexing Expand assay panel

Pacific Northwest National Laboratory-DirectMRM

Chromatograms

Data source: Panorama

Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

| | Average intra-assay CV(within day CV) | Average inter-assay CV(between day CV) | Total CVequation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | y5 (1+) | 16.8 | 7.5 | 6.3 | 21.9 | 8.8 | 8.7 | 27.6 | 11.6 | 10.7 | 15 | 15 | 15 | | y7 (1+) | 21.4 | 6.9 | 6.4 | 23.1 | 8.3 | 5.7 | 31.5 | 10.8 | 8.6 | 15 | 15 | 15 | | y8 (1+) | 14 | 5.3 | 4.5 | 18.7 | 9.5 | 5.8 | 23.4 | 10.9 | 7.3 | 15 | 15 | 15 | | sum | 8 | 4.8 | 4.4 | 12.3 | 7.9 | 5 | 14.7 | 9.2 | 6.7 | 15 | 15 | 15 |

Selectivity

Data source: Panorama

Slope of Curve Fit for cell line
fragment_ion 1 2 3 4 5 6
y8 (1+) 1.19 1.23 1.84 1.25 1.33 1.55
y7 (1+) 1.31 1.4 1.85 1.37 1.37 1.65
y5 (1+) 1.23 1.15 1.67 1.07 1.4 1.59
sum 1.23 1.24 1.8 1.23 1.35 1.58

Stability

Data source: Panorama

Fragment ion / Transition control_intra_CV actual_temp_intra_CV frozen_intra_CV FTx1_intra_CV FTx2_intra_CV
Fragment ion / Transition all_intra_CV all_inter_CV

Endogenous

Data source: Panorama

Fragment ion / Transition intra_CV inter_CV total_CV
y8 (1+) 41.7 54.6 68.7
y7 (1+) 53 56.1 77.2
y5 (1+) 43.1 40.5 59.1
sum 34.8 37 50.8

Additional Resources and Comments

Comments