TUBB, CPTAC-5856 - CPTAC Assay Portal | Office of Cancer Clinical Proteomics Research

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.

Overview Data source: UniProt

Official Gene Symbol	Other Aliases
TUBB	TUBB5

Sequence Length (AA)	Molecular Weight (Da)
444	49671

Protein Name
Tubulin beta chain

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MREIVHIQAG	QCGNQIGAKF	WEVISDEHGI	DPTGTYHGDS	DLQLDRISVY
60	70	80	90	100
YNEATGGKYV	PRAILVDLEP	GTMDSVRSGP	FGQIFRPDNF	VFGQSGAGNN
110	120	130	140	150
WAKGHYTEGA	ELVDSVLDVV	RKEAESCDCL	QGFQLTHSLG	GGTGSGMGTL
160	170	180	190	200
LISKIREEYP	DRIMNTFSVV	PSPKVSDTVV	EPYNATLSVH	QLVENTDETY
210	220	230	240	250
CIDNEALYDI	CFRTLKLTTP	TYGDLNHLVS	ATMSGVTTCL	RFPGQLNADL
260	270	280	290	300
RKLAVNMVPF	PRLHFFMPGF	APLTSRGSQQ	YRALTVPELT	QQVFDAKNMM
310	320	330	340	350
AACDPRHGRY	LTVAAVFRGR	MSMKEVDEQM	LNVQNKNSSY	FVEWIPNNVK
360	370	380	390	400
TAVCDIPPRG	LKMAVTFIGN	STAIQELFKR	ISEQFTAMFR	RKAFLHWYTG
410	420	430	440	444
EGMDEMEFTE	AESNMNDLVS	EYQQYQDATA	EEEEDFGEEA	EEEA

Data source: UniProt

Protein Map Collapse protein map

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

Uniprot Database Entry PhosphoSitePlus ®

Click a point on a node

to view detailed assay information below

All other points link out to UniProt

Assay Details for CPTAC-5856 Collapse assay details

Data source: Panorama

Official Gene Symbol: TUBB
Peptide Sequence: ISVYYNEATGGK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 47
Peptide End: 58

CPTAC ID: CPTAC-5856
Peptide Molecular Mass: 1,300.6299
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: Crude
Peptide Standard Label Type: 13C and 15N at C-terminus K

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

view larger image

Response Curves

Data source: Panorama

view larger image

Retrieving Data

Repeatability

Data source: Panorama

view larger image

	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+)	13.8	7.7	7.8	19.4	20.5	14.3	23.8	21.9	16.3	15	17	15
y7 (1+)	26.2	8.6	7.4	19.6	22.7	14.2	32.7	24.3	16	15	17	15
y10 (1+)	24.3	13.1	5.2	27.4	25.2	10.9	36.6	28.4	12.1	15	17	15
y8 (1+)	14.1	9.3	7.3	20.8	20.8	13.2	25.1	22.8	15.1	15	17	15
sum	13.4	7.3	5.7	17.1	21.1	13.2	21.7	22.3	14.4	15	17	15

Additional Resources and Comments

Resources

Download SOPs

View Peptide in Panorama

View Protein in Panorama

View in CPTC Antibody Portal

Comments