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Table 3 An example of optimized analytical conditions for multiplexed SRM/MRM analysis in API5000 and QTRAP5500

From: A study protocol for quantitative targeted absolute proteomics (QTAP) by LC-MS/MS: application for inter-strain differences in protein expression levels of transporters, receptors, claudin-5, and marker proteins at the blood–brain barrier in ddY, FVB, and C57BL/6J mice

Molecule name AA Seq. St/IS Transition number Q1 m/z Q3 m/z Dwell time (msec) DP CE
Mdr1a NTTGALTTR St 1 467.8 719.4 10 51 30
2 467.8 618.4 10 51 30
3 467.8 561.3 10 51 30
4 467.8 377.2 10 51 30
NTTGAL* TTR IS 1 471.3 726.4 10 51 30
2 471.3 625.4 10 51 30
3 471.3 568.3 10 51 30
4 471.3 377.2 10 51 30
Tfr1 SSVGTGLLLK St 1 487.8 800.5 10 56 25
2 487.8 701.5 10 56 23
3 487.8 644.4 10 56 20
4 487.8 543.4 10 56 21
SSVGTGLLL*K IS 1 491.3 807.5 10 56 25
2 491.3 708.5 10 56 23
3 491.3 651.4 10 56 20
4 491.3 550.4 10 56 21
Na+/K+-ATPase AAVPDAVGK St 1 414.2 685.4 10 50 17
2 414.2 586.3 10 50 17
3 414.2 489.3 10 50 27
4 414.2 374.2 10 50 27
AAVPDAV* GK IS 1 417.2 691.4 10 50 17
2 417.2 592.3 10 50 17
3 417.2 495.3 10 50 27
4 417.2 380.2 10 50 27
  1. Bold letters with asterisks indicate amino acid residues that are labeled with a stable isotope (13C and 15 N).
  2. Abbreviations: AA amino acid; St standard; IS internal standard; DP declustering potential; CE collision energy.