CDK12, CPTAC-2959 - 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
CDK12	CRK7, CRKRS, KIAA0904

Sequence Length (AA)	Molecular Weight (Da)
1490	164155

Protein Name
Cyclin-dependent kinase 12

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MPNSERHGGK	KDGSGGASGT	LQPSSGGGSS	NSRERHRLVS	KHKRHKSKHS
60	70	80	90	100
KDMGLVTPEA	ASLGTVIKPL	VEYDDISSDS	DTFSDDMAFK	LDRRENDERR
110	120	130	140	150
GSDRSDRLHK	HRHHQHRRSR	DLLKAKQTEK	EKSQEVSSKS	GSMKDRISGS
160	170	180	190	200
SKRSNEETDD	YGKAQVAKSS	SKESRSSKLH	KEKTRKEREL	KSGHKDRSKS
210	220	230	240	250
HRKRETPKSY	KTVDSPKRRS	RSPHRKWSDS	SKQDDSPSGA	SYGQDYDLSP
260	270	280	290	300
SRSHTSSNYD	SYKKSPGSTS	RRQSVSPPYK	EPSAYQSSTR	SPSPYSRRQR
310	320	330	340	350
SVSPYSRRRS	SSYERSGSYS	GRSPSPYGRR	RSSSPFLSKR	SLSRSPLPSR
360	370	380	390	400
KSMKSRSRSP	AYSRHSSSHS	KKKRSSSRSR	HSSISPVRLP	LNSSLGAELS
410	420	430	440	450
RKKKERAAAA	AAAKMDGKES	KGSPVFLPRK	ENSSVEAKDS	GLESKKLPRS
460	470	480	490	500
VKLEKSAPDT	ELVNVTHLNT	EVKNSSDTGK	VKLDENSEKH	LVKDLKAQGT
510	520	530	540	550
RDSKPIALKE	EIVTPKETET	SEKETPPPLP	TIASPPPPLP	TTTPPPQTPP
560	570	580	590	600
LPPLPPIPAL	PQQPPLPPSQ	PAFSQVPASS	TSTLPPSTHS	KTSAVSSQAN
610	620	630	640	650
SQPPVQVSVK	TQVSVTAAIP	HLKTSTLPPL	PLPPLLPGDD	DMDSPKETLP
660	670	680	690	700
SKPVKKEKEQ	RTRHLLTDLP	LPPELPGGDL	SPPDSPEPKA	ITPPQQPYKK
710	720	730	740	750
RPKICCPRYG	ERRQTESDWG	KRCVDKFDII	GIIGEGTYGQ	VYKAKDKDTG
760	770	780	790	800
ELVALKKVRL	DNEKEGFPIT	AIREIKILRQ	LIHRSVVNMK	EIVTDKQDAL
810	820	830	840	850
DFKKDKGAFY	LVFEYMDHDL	MGLLESGLVH	FSEDHIKSFM	KQLMEGLEYC
860	870	880	890	900
HKKNFLHRDI	KCSNILLNNS	GQIKLADFGL	ARLYNSEESR	PYTNKVITLW
910	920	930	940	950
YRPPELLLGE	ERYTPAIDVW	SCGCILGELF	TKKPIFQANL	ELAQLELISR
960	970	980	990	1000
LCGSPCPAVW	PDVIKLPYFN	TMKPKKQYRR	RLREEFSFIP	SAALDLLDHM
1010	1020	1030	1040	1050
LTLDPSKRCT	AEQTLQSDFL	KDVELSKMAP	PDLPHWQDCH	ELWSKKRRRQ
1060	1070	1080	1090	1100
RQSGVVVEEP	PPSKTSRKET	TSGTSTEPVK	NSSPAPPQPA	PGKVESGAGD
1110	1120	1130	1140	1150
AIGLADITQQ	LNQSELAVLL	NLLQSQTDLS	IPQMAQLLNI	HSNPEMQQQL
1160	1170	1180	1190	1200
EALNQSISAL	TEATSQQQDS	ETMAPEESLK	EAPSAPVILP	SAEQTTLEAS
1210	1220	1230	1240	1250
STPADMQNIL	AVLLSQLMKT	QEPAGSLEEN	NSDKNSGPQG	PRRTPTMPQE
1260	1270	1280	1290	1300
EAAACPPHIL	PPEKRPPEPP	GPPPPPPPPP	LVEGDLSSAP	QELNPAVTAA
1310	1320	1330	1340	1350
LLQLLSQPEA	EPPGHLPHEH	QALRPMEYST	RPRPNRTYGN	TDGPETGFSA
1360	1370	1380	1390	1400
IDTDERNSGP	ALTESLVQTL	VKNRTFSGSL	SHLGESSSYQ	GTGSVQFPGD
1410	1420	1430	1440	1450
QDLRFARVPL	ALHPVVGQPF	LKAEGSSNSV	VHAETKLQNY	GELGPGTTGA
1460	1470	1480	1490
SSSGAGLHWG	GPTQSSAYGK	LYRGPTRVPP	RGGRGRGVPY

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-2959 Collapse assay details

Data source: Panorama

Official Gene Symbol: CDK12
Peptide Sequence: DTGELVALK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 748
Peptide End: 756

CPTAC ID: non-CPTAC-2959
Peptide Molecular Mass: 944.5179
Species: Homo Sapiens
Assay Type: Direct PRM
Matrix: Tumor Digest
Submitting Laboratory: Washington University in St. Louis
Submitting Lab PI: Reid Townsend

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: ThermoFisher, Q-Exactive
Internal Standard: 25 fmol on column
Peptide Standard Purity: >95%
Peptide Standard Label Type: 13C and 15N at C-terminus K

LC: Easy-nLC 1000 Thermo Scientific
Column Packing: C18
Column Dimensions: 75 µm x 50 cm
Flow Rate: 300 nL/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 (1+)	6.3	3.3	5.5	11.1	3.8	4.7	12.8	5	7.2	15	15	15
y7 (1+)	6.2	5.3	7.6	11.6	6.4	5.5	13.2	8.3	9.4	15	15	15
y5 (1+)	5.2	4.4	5.5	10.1	4.5	5.1	11.4	6.3	7.5	15	15	15
sum	4.4	4.1	6.2	10.4	5	4.8	11.3	6.5	7.8	15	15	15

Additional Resources and Comments

Resources

Download SOPs

View Peptide in Panorama

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Comments

Assay Details for non-CPTAC-2958 Collapse assay details

Data source: Panorama

Official Gene Symbol: CDK12
Peptide Modified Sequence: LC[+57.0]GSPC[+57.0]PAVWPDVIK
Modification Type: Carbamidomethyl (C), Carbamidomethyl (C)
Protein - Site of Modification: 953, 957
Peptide - Site of Modification: 2, 6
Peptide Start: 951
Peptide End: 965

CPTAC ID: non-CPTAC-2958
Peptide Molecular Mass: 1,697.8269
Species: Homo Sapiens
Assay Type: Direct PRM
Matrix: Tumor Digest
Submitting Laboratory: Washington University in St. Louis
Submitting Lab PI: Reid Townsend