IDH1, CPTAC-2741 - 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
IDH1	PICD

Sequence Length (AA)	Molecular Weight (Da)
414	46659

Protein Name
Isocitrate dehydrogenase [NADP] cytoplasmic

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MSKKISGGSV	VEMQGDEMTR	IIWELIKEKL	IFPYVELDLH	SYDLGIENRD
60	70	80	90	100
ATNDQVTKDA	AEAIKKHNVG	VKCATITPDE	KRVEEFKLKQ	MWKSPNGTIR
110	120	130	140	150
NILGGTVFRE	AIICKNIPRL	VSGWVKPIII	GRHAYGDQYR	ATDFVVPGPG
160	170	180	190	200
KVEITYTPSD	GTQKVTYLVH	NFEEGGGVAM	GMYNQDKSIE	DFAHSSFQMA
210	220	230	240	250
LSKGWPLYLS	TKNTILKKYD	GRFKDIFQEI	YDKQYKSQFE	AQKIWYEHRL
260	270	280	290	300
IDDMVAQAMK	SEGGFIWACK	NYDGDVQSDS	VAQGYGSLGM	MTSVLVCPDG
310	320	330	340	350
KTVEAEAAHG	TVTRHYRMYQ	KGQETSTNPI	ASIFAWTRGL	AHRAKLDNNK
360	370	380	390	400
ELAFFANALE	EVSIETIEAG	FMTKDLAACI	KGLPNVQRSD	YLNTFEFMDK
410	414
LGENLKIKLA	QAKL

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 non-CPTAC-3715 Collapse assay details

Data source: Panorama

Official Gene Symbol: Idh1
Peptide Sequence: GLPNVQR
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 382
Peptide End: 388

CPTAC ID: non-CPTAC-3715
Peptide Molecular Mass: 782.4399
Species: Mus musculus (Mouse)
Assay Type: Direct PRM
Matrix: Plasma
Submitting Laboratory: UVic-Genome BC Proteomics Centre
Submitting Lab PI: Christoph Borchers

Publication

View Details (opens in a new window)

Molecular phenotyping of laboratory mouse strains using 500 multiple reaction monitoring mass spectrometry plasma assays. Michaud SA, Sinclair NJ, Petrošová H, Palmer AL, Pistawka AJ, Zhang S, Hardie DB, Mohammed Y Eshghi A1, Richard VR, Sickmann A, Borchers CH. Commun Biol. 2018 Jun 27;1:78. doi: 10.1038/s42003-018-0087-6. eCollection 2018.

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: Agilent 6490/6495 QQQ
Internal Standard: synthetic peptide
Peptide Standard Purity: >95%
Peptide Standard Label Type: 13C and 15N at C-terminus R

LC: 1290 LC (Agilent)
Column Packing: Zorbax Eclipse Plus C18, 1.8 µm
Column Dimensions: 2.1 x 150 mm
Flow Rate: 400 µL/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
y3 (2+)	104.8	110.8	132.3	146.1	121.1	81.8	179.8	164.1	155.5	15	15	15
y6 (2+)	34.3	20.1	18.6	39.9	22.5	18.3	52.6	30.2	26.1	15	15	15
y3 (1+)	7.3	4.3	3.5	11	5.6	4.4	13.2	7.1	5.6	15	15	15
y4 (1+)	8.1	2.4	2.3	13	3.4	3.3	15.3	4.2	4	15	15	15
y5 (1+)	6.6	2.2	2.6	15.2	4.7	3.5	16.6	5.2	4.4	15	15	15
sum	4.8	1.7	1.6	12.7	4	2.9	13.6	4.3	3.3	15	15	15

Additional Resources and Comments

Resources

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View Peptide in Panorama

View Protein in Panorama

Comments

Assay Details for CPTAC-2741 Collapse assay details

Data source: Panorama

Official Gene Symbol: IDH1
Peptide Sequence: VEITYTPSDGTQK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 152
Peptide End: 164

CPTAC ID: CPTAC-2741
Peptide Molecular Mass: 1,437.6987
Species: Homo Sapiens
Assay Type: Direct PRM
Matrix: Tumor Digest
Submitting Laboratory: Washington University in St. Louis
Submitting Lab PI: Reid Townsend