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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.

LIG1

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
LIG1 N/A
Sequence Length (AA) Molecular Weight (Da)
919 101736
Protein Name
DNA ligase 1
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MQRSIMSFFH PKKEGKAKKP EKEASNSSRE TEPPPKAALK EWNGVVSESD
60 70 80 90 100
SPVKRPGRKA ARVLGSEGEE EDEALSPAKG QKPALDCSQV SPPRPATSPE
110 120 130 140 150
NNASLSDTSP MDSSPSGIPK RRTARKQLPK RTIQEVLEEQ SEDEDREAKR
160 170 180 190 200
KKEEEEEETP KESLTEAEVA TEKEGEDGDQ PTTPPKPLKT SKAETPTESV
210 220 230 240 250
SEPEVATKQE LQEEEEQTKP PRRAPKTLSS FFTPRKPAVK KEVKEEEPGA
260 270 280 290 300
PGKEGAAEGP LDPSGYNPAK NNYHPVEDAC WKPGQKVPYL AVARTFEKIE
310 320 330 340 350
EVSARLRMVE TLSNLLRSVV ALSPPDLLPV LYLSLNHLGP PQQGLELGVG
360 370 380 390 400
DGVLLKAVAQ ATGRQLESVR AEAAEKGDVG LVAENSRSTQ RLMLPPPPLT
410 420 430 440 450
ASGVFSKFRD IARLTGSAST AKKIDIIKGL FVACRHSEAR FIARSLSGRL
460 470 480 490 500
RLGLAEQSVL AALSQAVSLT PPGQEFPPAM VDAGKGKTAE ARKTWLEEQG
510 520 530 540 550
MILKQTFCEV PDLDRIIPVL LEHGLERLPE HCKLSPGIPL KPMLAHPTRG
560 570 580 590 600
ISEVLKRFEE AAFTCEYKYD GQRAQIHALE GGEVKIFSRN QEDNTGKYPD
610 620 630 640 650
IISRIPKIKL PSVTSFILDT EAVAWDREKK QIQPFQVLTT RKRKEVDASE
660 670 680 690 700
IQVQVCLYAF DLIYLNGESL VREPLSRRRQ LLRENFVETE GEFVFATSLD
710 720 730 740 750
TKDIEQIAEF LEQSVKDSCE GLMVKTLDVD ATYEIAKRSH NWLKLKKDYL
760 770 780 790 800
DGVGDTLDLV VIGAYLGRGK RAGRYGGFLL ASYDEDSEEL QAICKLGTGF
810 820 830 840 850
SDEELEEHHQ SLKALVLPSP RPYVRIDGAV IPDHWLDPSA VWEVKCADLS
860 870 880 890 900
LSPIYPAARG LVDSDKGISL RFPRFIRVRE DKQPEQATTS AQVACLYRKQ
910 919
SQIQNQQGED SGSDPEDTY

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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All other points link out to UniProt


Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-6217 Collapse assay details

Data source: Panorama

Official Gene Symbol
LIG1
Peptide Sequence
AQIHALEGGEVK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
7
Peptide Start
574
Peptide End
585
CPTAC ID
CPTAC-6217
Peptide Molecular Mass
1,250.6619
Species
Homo Sapiens
Assay Type
Enrichment MRM
Enrichment Method
IMAC
Matrix
Frozen tissue
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 5500
Internal Standard
Extended heavy peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Eksigent
Column Packing
Reprosil C18, 3um
Column Dimensions
75µm x 15cm
Flow Rate
0.3 µL/min

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

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  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y7 (1+) 3.2 1.6 3.6 3.5 5.1 8.5 4.7 5.3 9.2 15 15 15
y8 (1+) 4.1 1.9 5.6 21.3 8.8 8.7 21.7 9 10.3 15 15 15
y6 (1+) 3.8 2.4 3.5 3.7 4.2 6.9 5.3 4.8 7.7 15 15 15
y5 (1+) 2.9 1.7 3.8 4.4 4.1 7.6 5.3 4.4 8.5 15 15 15
sum 2.9 1.4 3.7 5.3 3.8 7.2 6 4 8.1 15 15 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
View in CPTC Antibody Portal
Comments

Assay Details for CPTAC-930 Collapse assay details

Data source: Panorama

Official Gene Symbol
LIG1
Peptide Modified Sequence
EGEDGDQPTT[+80.0]PPKPLK
Modification Type
Phospho (ST)
Protein - Site of Modification
183
Peptide - Site of Modification
10
Peptide Start
174
Peptide End
189
CPTAC ID
CPTAC-930
Peptide Molecular Mass
1,787.7979
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

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Response Curves

Data source: Panorama

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Retrieving Data

Loader

Repeatability

Data source: Panorama

view larger image
  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
b10-98 (1+) 57 14.9 13.2 63 17.3 15.4 85 22.8 20.3 15 24 15
y6 (1+) 22.1 9.5 9.2 33.6 12.6 16.3 40.2 15.8 18.7 15 24 15
y9 (1+) 38.9 8 13.5 41.6 16.7 22.7 57 18.5 26.4 15 24 15
sum 24.3 9.3 10.3 37.7 13.2 16.9 44.9 16.1 19.8 15 24 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments