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Please include the following statement when referencing the CPTAC Assay Portal
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.

PSMD1

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
PSMD1 N/A
Sequence Length (AA) Molecular Weight (Da)
953 105836
Protein Name
26S proteasome non-ATPase regulatory subunit 1
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MITSAAGIIS LLDEDEPQLK EFALHKLNAV VNDFWAEISE SVDKIEVLYE
60 70 80 90 100
DEGFRSRQFA ALVASKVFYH LGAFEESLNY ALGAGDLFNV NDNSEYVETI
110 120 130 140 150
IAKCIDHYTK QCVENADLPE GEKKPIDQRL EGIVNKMFQR CLDDHKYKQA
160 170 180 190 200
IGIALETRRL DVFEKTILES NDVPGMLAYS LKLCMSLMQN KQFRNKVLRV
210 220 230 240 250
LVKIYMNLEK PDFINVCQCL IFLDDPQAVS DILEKLVKED NLLMAYQICF
260 270 280 290 300
DLYESASQQF LSSVIQNLRT VGTPIASVPG STNTGTVPGS EKDSDSMETE
310 320 330 340 350
EKTSSAFVGK TPEASPEPKD QTLKMIKILS GEMAIELHLQ FLIRNNNTDL
360 370 380 390 400
MILKNTKDAV RNSVCHTATV IANSFMHCGT TSDQFLRDNL EWLARATNWA
410 420 430 440 450
KFTATASLGV IHKGHEKEAL QLMATYLPKD TSPGSAYQEG GGLYALGLIH
460 470 480 490 500
ANHGGDIIDY LLNQLKNASN DIVRHGGSLG LGLAAMGTAR QDVYDLLKTN
510 520 530 540 550
LYQDDAVTGE AAGLALGLVM LGSKNAQAIE DMVGYAQETQ HEKILRGLAV
560 570 580 590 600
GIALVMYGRM EEADALIESL CRDKDPILRR SGMYTVAMAY CGSGNNKAIR
610 620 630 640 650
RLLHVAVSDV NDDVRRAAVE SLGFILFRTP EQCPSVVSLL SESYNPHVRY
660 670 680 690 700
GAAMALGICC AGTGNKEAIN LLEPMTNDPV NYVRQGALIA SALIMIQQTE
710 720 730 740 750
ITCPKVNQFR QLYSKVINDK HDDVMAKFGA ILAQGILDAG GHNVTISLQS
760 770 780 790 800
RTGHTHMPSV VGVLVFTQFW FWFPLSHFLS LAYTPTCVIG LNKDLKMPKV
810 820 830 840 850
QYKSNCKPST FAYPAPLEVP KEKEKEKVST AVLSITAKAK KKEKEKEKKE
860 870 880 890 900
EEKMEVDEAE KKEEKEKKKE PEPNFQLLDN PARVMPAQLK VLTMPETCRY
910 920 930 940 950
QPFKPLSIGG IIILKDTSED IEELVEPVAA HGPKIEEEEQ EPEPPEPFEY
953
IDD

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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All other points link out to UniProt


Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-119 Collapse assay details

Data source: Panorama

Official Gene Symbol
PSMD1
Peptide Sequence
AAVESLGFILFR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
617
Peptide End
628
CPTAC ID
CPTAC-119
Peptide Molecular Mass
1,321.7394
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

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Repeatability

Data source: Panorama

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  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y8 (1+) 10 7.6 6.7 21.6 18.9 18 23.8 20.4 19.2 15 25 15
y7 (1+) 8.4 8.2 7.2 19.8 18.6 19.6 21.5 20.3 20.9 15 25 15
y6 (1+) 8.8 8.2 4.6 21.6 19.3 19.1 23.3 21 19.6 15 25 15
sum 8.5 7.8 5.5 19.9 19 18.7 21.6 20.5 19.5 15 25 15

Selectivity

Data source: Panorama

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Slope of Curve Fit for cell line
fragment_ion HCC1187 HCC1419 HCC1954 HCC70 MCF12A MDAMB175VII ZR751 ZR7530
y7 (1+) -0.09 -0.08 -0.02 -0.13 -0.2 -0.08 -0.02 -0.02
y8 (1+) -0.1 -0.07 -0.02 -0.14 -0.21 -0.08 -0.03 -0.05
y6 (1+) -0.09 -0.09 -0.03 -0.12 -0.21 -0.09 -0.03 -0.05
sum -0.09 -0.08 -0.03 -0.13 -0.21 -0.09 -0.03 -0.05

Stability

Data source: Panorama

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Fragment ion / Transition control_intra_CV actual_temp_intra_CV frozen_intra_CV FTx1_intra_CV FTx2_intra_CV
y8 (1+) 11.7 15.6 1.7 NA 11.9
y6 (1+) 17.8 22.1 1.5 NA 19.1
y7 (1+) 12.2 17.3 2.5 NA 14.4
sum 15.2 19.7 1.1 NA 16.6
Fragment ion / Transition all_intra_CV all_inter_CV
y8 (1+) 11.3 6.4
y6 (1+) 16.5 11.1
y7 (1+) 12.7 8.7
sum 14.4 9.2

Endogenous

Data source: Panorama

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Fragment ion / Transition intra_CV inter_CV total_CV
y6 (1+) 8.5 19.6 21.4
y7 (1+) 8.4 18.3 20.1
y8 (1+) 7.8 19 20.5
sum 8.1 19.1 20.7

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments

Assay Details for CPTAC-120 Collapse assay details

Data source: Panorama

Official Gene Symbol
PSMD1
Peptide Modified Sequence
TPEQC[+57.0]PSVVSLLSESYNPHVR
Modification Type
Carbamidomethyl Cysteine
Protein - Site of Modification
633
Peptide - Site of Modification
5
Peptide Start
629
Peptide End
649
CPTAC ID
CPTAC-120
Peptide Molecular Mass
2,398.1587
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

view larger image
view larger image
view larger image

Response Curves

Data source: Panorama

view larger image
view larger image
view larger image

Retrieving Data

Loader

Repeatability

Data source: Panorama

view larger image
  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y9 (1+) 9.6 8.1 8.8 16.4 8.1 11.3 19 11.5 14.3 15 25 15
y7 (1+) 31.2 16.5 10.2 27 16.9 25.1 41.3 23.6 27.1 15 25 15
y16 (2+) 20.9 23.1 30.4 28.4 20.7 40.3 35.3 31 50.5 15 25 15
sum 12.6 8.3 7.4 14 8.8 11.4 18.8 12.1 13.6 15 25 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments