NBN, CPTAC-935 - 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
NBN	NBS, NBS1, P95

Sequence Length (AA)	Molecular Weight (Da)
754	84959

Protein Name
Nibrin

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MWKLLPAAGP	AGGEPYRLLT	GVEYVVGRKN	CAILIENDQS	ISRNHAVLTA
60	70	80	90	100
NFSVTNLSQT	DEIPVLTLKD	NSKYGTFVNE	EKMQNGFSRT	LKSGDGITFG
110	120	130	140	150
VFGSKFRIEY	EPLVACSSCL	DVSGKTALNQ	AILQLGGFTV	NNWTEECTHL
160	170	180	190	200
VMVSVKVTIK	TICALICGRP	IVKPEYFTEF	LKAVESKKQP	PQIESFYPPL
210	220	230	240	250
DEPSIGSKNV	DLSGRQERKQ	IFKGKTFIFL	NAKQHKKLSS	AVVFGGGEAR
260	270	280	290	300
LITEENEEEH	NFFLAPGTCV	VDTGITNSQT	LIPDCQKKWI	QSIMDMLQRQ
310	320	330	340	350
GLRPIPEAEI	GLAVIFMTTK	NYCDPQGHPS	TGLKTTTPGP	SLSQGVSVDE
360	370	380	390	400
KLMPSAPVNT	TTYVADTESE	QADTWDLSER	PKEIKVSKME	QKFRMLSQDA
410	420	430	440	450
PTVKESCKTS	SNNNSMVSNT	LAKMRIPNYQ	LSPTKLPSIN	KSKDRASQQQ
460	470	480	490	500
QTNSIRNYFQ	PSTKKRERDE	ENQEMSSCKS	ARIETSCSLL	EQTQPATPSL
510	520	530	540	550
WKNKEQHLSE	NEPVDTNSDN	NLFTDTDLKS	IVKNSASKSH	AAEKLRSNKK
560	570	580	590	600
REMDDVAIED	EVLEQLFKDT	KPELEIDVKV	QKQEEDVNVR	KRPRMDIETN
610	620	630	640	650
DTFSDEAVPE	SSKISQENEI	GKKRELKEDS	LWSAKEISNN	DKLQDDSEML
660	670	680	690	700
PKKLLLTEFR	SLVIKNSTSR	NPSGINDDYG	QLKNFKKFKK	VTYPGAGKLP
710	720	730	740	750
HIIGGSDLIA	HHARKNTELE	EWLRQEMEVQ	NQHAKEESLA	DDLFRYNPYL
754
KRRR

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 CPTAC-935 Collapse assay details

Data source: Panorama

Official Gene Symbol: NBN
Peptide Modified Sequence: IPNYQLS[+80.0]PTK
Modification Type: Phospho (ST)
Protein - Site of Modification: 432
Peptide - Site of Modification: 7
Peptide Start: 426
Peptide End: 435

CPTAC ID: CPTAC-935
Peptide Molecular Mass: 1,239.5901
Species: Homo sapiens (Human)
Assay Type: Enrichment MRM
Enrichment Method: IMAC
Matrix: cell lysate
Submitting Laboratory: Fred Hutchinson Cancer Research Center
Submitting Lab PI: Amanda Paulovich

Publication

View Details (opens in a new window)

Kennedy JJ, Yan P, Zhao L, Ivey RG, Voytovich U, Moore HD, Lin C, Pogosova-Agadjanyan EL, Stirewalt DL, Reding KW, Whiteaker JR, Paulovich AG. Immobilized metal affinity chromatography coupled to multiple reaction monitoring enables reproducible quantification of phospho-signaling. Molecular and Cellular Proteomics. mcp.O115.054940

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: QTrap 5500 (Sciex)
Internal Standard: Peptide
Peptide Standard Purity: >95%
Peptide Standard Label Type: 13C and 15N at C-terminus K

LC: nanoLC-2D (Eksigent)
Column Packing: ChromXP C18-CL, 3 µm, 120 Å
Column Dimensions: 75 µm x 15cm
Flow Rate: 300 nL/min

Chromatograms

Data source: Panorama

	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
b7-98 (1+)	52.6	14.9	37.6	52.5	13.6	31.9	74.3	20.2	49.3	15	24	15
y8 (2+)	14.4	12	16.9	38.1	11.6	21.2	40.7	16.7	27.1	15	24	15
y9 (2+)	22.8	7.3	7.8	29.3	11	8.9	37.1	13.2	11.8	15	24	15
sum	20	7.2	8.1	27.9	10	10.4	34.3	12.3	13.2	15	24	15

	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
y7 (1+)	19.9	8.5	7.4	20.3	8.3	7.6	28.4	11.9	10.6	15	15	15
y8 (1+)	11.9	9.6	4.7	23.3	15.8	10.7	26.2	18.5	11.7	15	15	15
y4 (1+)	28.5	10.5	5	35.1	14.8	10.2	45.2	18.1	11.4	15	15	15
sum	13.6	7.6	4	17.8	12.1	8.8	22.4	14.3	9.7	15	15	15

	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
y8 (2+)	19	24.5	13	38	27.3	20.9	42.5	36.7	24.6	15	15	15
y8 (1+)	18.2	13	9.8	42.5	18	12.1	46.2	22.2	15.6	15	15	15
y9-98 (2+)	17.6	11.1	8.2	47.2	14.5	12.7	50.4	18.3	15.1	15	15	15
y8-98 (1+)	32	13.3	11.1	47.2	13.7	20	57	19.1	22.9	15	15	15
sum	12.6	11.5	6.8	42.1	15.3	12.5	43.9	19.1	14.2	15	15	15

	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
y13 (2+)	28.6	8	10.1	23.1	11.3	14.8	36.8	13.8	17.9	15	24	15
y14 (2+)	33.1	8.7	9.6	24.2	10.4	12.2	41	13.6	15.5	15	24	15
y15 (2+)	48.5	11.4	8.5	40.3	11.6	14.1	63.1	16.3	16.5	15	24	15
sum	32.1	8.2	8.3	20.9	9.6	12.1	38.3	12.6	14.7	15	24	15

	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+)	86.1	26.9	20.6	90.6	28.8	20	125	39.4	28.7	15	15	15
y12 (2+)	72.5	49.6	54.3	64.7	53.6	76.5	97.2	73	93.8	15	15	15
y14 (2+)	25.5	14.5	17.3	25.5	14.2	16.7	36.1	20.3	24	15	15	15
sum	23.1	12.1	16.7	22.9	12.9	16.3	32.5	17.7	23.3	15	15	15

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NBN

Overview Data source: UniProt

Protein Sequence hover to view complete sequence

Protein Map Collapse protein map

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

Assay Details for CPTAC-935 Collapse assay details

Publication

Assay Parameters Collapse assay parameters

Chromatograms

Response Curves

Repeatability

Additional Resources and Comments

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Assay Details for CPTAC-3238 Collapse assay details

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Assay Parameters Collapse assay parameters

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Response Curves

Repeatability

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Assay Details for CPTAC-3239 Collapse assay details

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Assay Details for CPTAC-934 Collapse assay details

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Assay Details for CPTAC-3236 Collapse assay details

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Assay Parameters Collapse assay parameters

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Assay Details for CPTAC-3237 Collapse assay details

Publication

Assay Parameters Collapse assay parameters

Chromatograms

Response Curves

Repeatability

Additional Resources and Comments

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