FANCD2, CPTAC-3228 - 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
FANCD2	FACD

Sequence Length (AA)	Molecular Weight (Da)
1451	164128

Protein Name
Fanconi anemia group D2 protein

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MVSKRRLSKS	EDKESLTEDA	SKTRKQPLSK	KTKKSHIANE	VEENDSIFVK
60	70	80	90	100
LLKISGIILK	TGESQNQLAV	DQIAFQKKLF	QTLRRHPSYP	KIIEEFVSGL
110	120	130	140	150
ESYIEDEDSF	RNCLLSCERL	QDEEASMGAS	YSKSLIKLLL	GIDILQPAII
160	170	180	190	200
KTLFEKLPEY	FFENKNSDEI	NIPRLIVSQL	KWLDRVVDGK	DLTTKIMQLI
210	220	230	240	250
SIAPENLQHD	IITSLPEILG	DSQHADVGKE	LSDLLIENTS	LTVPILDVLS
260	270	280	290	300
SLRLDPNFLL	KVRQLVMDKL	SSIRLEDLPV	IIKFILHSVT	AMDTLEVISE
310	320	330	340	350
LREKLDLQHC	VLPSRLQASQ	VKLKSKGRAS	SSGNQESSGQ	SCIILLFDVI
360	370	380	390	400
KSAIRYEKTI	SEAWIKAIEN	TASVSEHKVF	DLVMLFIIYS	TNTQTKKYID
410	420	430	440	450
RVLRNKIRSG	CIQEQLLQST	FSVHYLVLKD	MCSSILSLAQ	SLLHSLDQSI
460	470	480	490	500
ISFGSLLYKY	AFKFFDTYCQ	QEVVGALVTH	ICSGNEAEVD	TALDVLLELV
510	520	530	540	550
VLNPSAMMMN	AVFVKGILDY	LDNISPQQIR	KLFYVLSTLA	FSKQNEASSH
560	570	580	590	600
IQDDMHLVIR	KQLSSTVFKY	KLIGIIGAVT	MAGIMAADRS	ESPSLTQERA
610	620	630	640	650
NLSDEQCTQV	TSLLQLVHSC	SEQSPQASAL	YYDEFANLIQ	HEKLDPKALE
660	670	680	690	700
WVGHTICNDF	QDAFVVDSCV	VPEGDFPFPV	KALYGLEEYD	TQDGIAINLL
710	720	730	740	750
PLLFSQDFAK	DGGPVTSQES	GQKLVSPLCL	APYFRLLRLC	VERQHNGNLE
760	770	780	790	800
EIDGLLDCPI	FLTDLEPGEK	LESMSAKERS	FMCSLIFLTL	NWFREIVNAF
810	820	830	840	850
CQETSPEMKG	KVLTRLKHIV	ELQIILEKYL	AVTPDYVPPL	GNFDVETLDI
860	870	880	890	900
TPHTVTAISA	KIRKKGKIER	KQKTDGSKTS	SSDTLSEEKN	SECDPTPSHR
910	920	930	940	950
GQLNKEFTGK	EEKTSLLLHN	SHAFFRELDI	EVFSILHCGL	VTKFILDTEM
960	970	980	990	1000
HTEATEVVQL	GPPELLFLLE	DLSQKLESML	TPPIARRVPF	LKNKGSRNIG
1010	1020	1030	1040	1050
FSHLQQRSAQ	EIVHCVFQLL	TPMCNHLENI	HNYFQCLAAE	NHGVVDGPGV
1060	1070	1080	1090	1100
KVQEYHIMSS	CYQRLLQIFH	GLFAWSGFSQ	PENQNLLYSA	LHVLSSRLKQ
1110	1120	1130	1140	1150
GEHSQPLEEL	LSQSVHYLQN	FHQSIPSFQC	ALYLIRLLMV	ILEKSTASAQ
1160	1170	1180	1190	1200
NKEKIASLAR	QFLCRVWPSG	DKEKSNISND	QLHALLCIYL	EHTESILKAI
1210	1220	1230	1240	1250
EEIAGVGVPE	LINSPKDASS	STFPTLTRHT	FVVFFRVMMA	ELEKTVKKIE
1260	1270	1280	1290	1300
PGTAADSQQI	HEEKLLYWNM	AVRDFSILIN	LIKVFDSHPV	LHVCLKYGRL
1310	1320	1330	1340	1350
FVEAFLKQCM	PLLDFSFRKH	REDVLSLLET	FQLDTRLLHH	LCGHSKIHQD
1360	1370	1380	1390	1400
TRLTQHVPLL	KKTLELLVCR	VKAMLTLNNC	REAFWLGNLK	NRDLQGEEIK
1410	1420	1430	1440	1450
SQNSQESTAD	ESEDDMSSQA	SKSKATEDGE	EDEVSAGEKE	QDSDESYDDS
1451
D

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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to view detailed assay information below

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Assay Details for CPTAC-3227 Collapse assay details

Data source: Panorama

Official Gene Symbol: FANCD2
Peptide Sequence: KQLSSTVFK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 561
Peptide End: 569

CPTAC ID: CPTAC-3227
Peptide Molecular Mass: 1,036.5917
Species: Homo sapiens (Human)
Assay Type: Enrichment ImmunoMRM
Enrichment Method: peptide immunoaffinity
Matrix: cell lysate
Submitting Laboratory: Fred Hutchinson Cancer Research Center
Submitting Lab PI: Amanda Paulovich

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: 6500 QTRAP (Sciex)
Internal Standard: synthetic peptide
Peptide Standard Purity: >95%
Peptide Standard Label Type: 13C and 15N at C-terminus K

LC: Ultra NanoLC 2D+ (Eksigent)
Column Packing: ReproSil-Pur C18-AQ 3um
Column Dimensions: 100 x 0.075 mm
Flow Rate: 300 uL/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
y6 (1+)	25.3	9.6	9.6	29	14.1	11.1	38.5	17.1	14.7	15	15	15
y5 (1+)	28.7	26.3	20.8	50.1	27.9	20.8	57.7	38.3	29.4	15	15	15
y7 (1+)	16.4	6.4	7	16.1	10.3	11.9	23	12.1	13.8	15	15	15
sum	12.4	4.8	6.5	14.3	10.7	10	18.9	11.7	11.9	15	15	15

Additional Resources and Comments

Resources

Download SOPs

View Peptide in Panorama

View Protein in Panorama

Comments

Assay Details for CPTAC-3228 Collapse assay details

Data source: Panorama

Official Gene Symbol: FANCD2
Peptide Modified Sequence: K[+114.0]QLSSTVFK
Modification Type: Ubiquitin
Protein - Site of Modification: 561
Peptide - Site of Modification: 1
Peptide Start: 561
Peptide End: 569

CPTAC ID: CPTAC-3228
Peptide Molecular Mass: 1,150.6347
Species: Homo sapiens (Human)
Assay Type: Enrichment ImmunoMRM
Enrichment Method: peptide immunoaffinity
Matrix: cell lysate
Submitting Laboratory: Fred Hutchinson Cancer Research Center
Submitting Lab PI: Amanda Paulovich

Publication

View Details (opens in a new window)

Targeted mass spectrometry enables robust quantification of FANCD2 mono-ubiquitination in response to DNA damage. Whiteaker JR, Zhao L, Ivey RG, Sanchez-Bonilla M, Moore HD, Schoenherr RM, Yan P, Lin C, Shimamura A, Paulovich AG. DNA Repair (Amst). 2018 May;65:47-53. doi: 10.1016/j.dnarep.2018.03.003. Epub 2018 Mar 21.