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. Author manuscript; available in PMC: 2014 Apr 9.
Published in final edited form as: J Proteomics. 2012 Sep 25;81:15–23. doi: 10.1016/j.jprot.2012.09.015

Table 1.

List of derived MRM transitions for mitochondrial phosphopeptides and their corresponding unmodified peptide.

Peptide Sequence (heavy-labeled) Protein Name Species Modified residue(s) Precursor ion m/z z Product ion m/z Fragment identity a Frag (V) b CE (V) c CV (%)
AApYFGVYDTAK ANT1 (ADP/ATP translocase 1) d M, e H Y191 647.3 2+ 908.5 y8 180 16 7.1
M, H 647.3 2+ 761.4 y7 180 20 8.6
M, H 647.3 2+ 386.1 b3 180 20 6.9
DFLAGGIAAAVpSK ANT1 (ADP/ATP translocase 1) M S22 654.3 2+ 861.4 y9 155 12 3.2
M 654.3 2+ 834.5 y10-H3PO4 155 24 0.7
M 654.3 2+ 263.1 b2 155 20 7.7
M 654.3 2+ 235.1 a2 155 36 7.9
DFLAGGVAAAVpSK ANT1 (ADP/ATP translocase 1) H S22 647.3 2+ 847.4 y9 165 12 8.1
H 647.3 2+ 263.1 b2 165 20 6.8
H 647.3 2+ 235.1 a2 165 36 9.7
YFPpTQALNFAFK ANT1 (ADP/ATP translocase 1) M, H T84 767.9 2+ 612.8 y102+ 215 20 0.1
M, H 767.9 2+ 563.8 y10-H3PO42+ 215 20 4.5
M, H 767.9 2+ 283.1 a2 215 28 0.6
GpTGGALVLVLYDK ANT4 (ADP/ATP translocase 4) M, H T293 697.4 2+ 758.5 y6 120 24 24.9
M, H 697.4 2+ 648.4 M-H3PO4 120 12 29.1
M, H 697.4 2+ 326.1 b5-H3PO4 120 20 37.8
pSVDEVNYWDK BCKDHA (2-oxoisovalerate dehydrogenase subunit alpha) M, H S344 671.8 2+ 1076.5 y8 130 16 6.9
M, H 671.8 2+ 733.3 y5 130 16 3.2
M, H 671.8 2+ 141.1 a2-H3PO4 130 36 0.7
SGLGELILPENEPGSpSIMPGK FH (Fumarate hydratase) M, H S363 1107.0 2+ 720.3 y6 250 40 37.8
M, H 1107.0 2+ 670.4 b7 250 40 50.4
M, H 1107.0 2+ 309.2 y3 250 40 62.4
MAGpSAWVSK IDH3A (Isocitrate dehydrogenase [NADP], cytoplasmic) M S4 512.7 2+ 795.4 y8-H3PO4 130 16 9.4
M 512.7 2+ 724.4 y7-H3PO4 130 12 6.2
M 512.7 2+ 242.2 y2 130 24 21.7
SpSLATMAHAQSLVEAQPNVDK OGDH (2-oxoglutarate dehydrogenase) M S103 762.4 3+ 1050.5 y20-H3PO42+ 160 24 27.5
M 762.4 3+ 729.7 M-H3PO43+ 160 12 26.8
M 762.4 3+ 580.3 y5 160 24 23.3
M 762.4 3+ 270.1 b3-H3PO4 160 36 20.8
GpSLAAVAHAQSLVEAQPNVDK OGDH (2-oxoglutarate dehydrogenase) H S103 731.7 3+ 908.5 y8 160 16 12.6
H 731.7 3+ 807.9 y152+ 160 8 14.7
H 731.7 3+ 580.3 y5 160 20 14.3
VVNAPIFHVNSDDPEAVMpYVCK OGDH (2-oxoglutarate dehydrogenase) M, H Y485 864.7 3+ 1105.0 y182+ 190 20 35.3
M, H 864.7 3+ 592.8 y92+ 190 20 34.9
M, H 864.7 3+ 199.2 b2 190 24 55.7
M, H 864.7 3+ 171.2 a2 190 44 52.0
YHGHpSMSDPGVSYR PDHA1 (Pyruvate dehydrogenase E1 component subunit alpha, somatic form) M, H S293 561.6 3+ 498.2 b82+ 130 8 10.1
M, H 561.6 3+ 344.7 y62+ 130 12 9.7
M, H 561.6 3+ 301.1 b2 130 24 7.9
M, H 561.6 3+ 282.6 b5-H3PO42+ 130 24 8.5
YHGHpSMSDPGVpSYR PDHA1 (Pyruvate dehydrogenase E1 component subunit alpha, somatic form) M, H S293/S300 588.2 3+ 670.4 y6-H3PO4 130 20 10.4
M, H 588.2 3+ 573.3 y5-H3PO4 130 24 7.9
M, H 588.2 3+ 384.7 y62+ 130 12 3.1
M, H 588.2 3+ 301.1 b2 130 32 5.7
M, H 588.2 3+ 282.6 b5-H3PO42+ 130 24 11.2
M, H 588.2 3+ 174.6 y22+ 130 16 28.3
GGSMHMpYGK PDHA1 (Pyruvate dehydrogenase E1 component subunit alpha, testis-specific form) M Y157 528.2 2+ 586.2 y4 130 20 19.0
M 528.2 2+ 455.2 y3 130 20 29.4
M 528.2 2+ 212.1 y2 130 32 3.0
INFDpSNSAYR SUCLA2 (Succinyl-CoA ligase [ADP- forming], subunit beta) M, H S279 638.8 2+ 804.4 y7-H3PO4 130 24 15.7
M, H 638.8 2+ 506.3 y4 130 24 13.0
M, H 638.8 2+ 228.2 y2 130 16 10.9
M, H 638.8 2+ 86.1 I immonium 130 32 10.8
LTFDSSFpSPNTGK VDAC1 (Voltage-dependent anion-selective channel protein 1) M, H S117 744.8 2+ 740.4 y7-H3PO4 215 28 8.6
M, H 744.8 2+ 524.3 y5 215 28 7.6
M, H 744.8 2+ 215.1 b2 215 24 7.0
M, H 744.8 2+ 120.1 F immonium 215 50 9.2
CTTDHISAAGPWLK ACO2 (Aconitate hydratase) M, H Unmodified 522.3 3+ 837.5 y8 130 12 5.9
M, H 522.3 3+ 608.4 y5 130 16 7.5
M, H 522.3 3+ 155.8 y1 130 32 7.7
AAYFGVYDTAK ANT1 (ADP/ATP translocase 1) M, H Unmodified 607.3 2+ 1071.5 y9 135 12 5.4
M, H 607.3 2+ 908.5 y8 135 16 7.5
M, H 607.3 2+ 761.4 y7 135 12 5.4
DFLAGGVAAAVSK ANT1 (ADP/ATP translocase 1) H Unmodified 607.3 2+ 838.5 y10 160 12 9.5
H 607.3 2+ 263.1 b2 160 16 9.1
H 607.3 2+ 235.1 a2 160 32 9.9
YFPTQALNFAFK ANT1 (ADP/ATP translocase 1) M, H Unmodified 727.9 2+ 818.5 y7 185 24 27.4
M, H 727.9 2+ 572.8 y102+ 185 20 25.2
M, H 727.9 2+ 283.1 a2 185 24 23.0
GTGGALVLVLYDK ANT4 (ADP/ATP translocase 4) M, H Unmodified 657.4 2+ 970.6 y8 165 16 0.5
M, H 657.4 2+ 857.5 y7 165 16 1.1
M, H 657.4 2+ 758.5 y6 165 16 6.0
SVDEVNYWDK BCKDHA (2-oxoisovalerate dehydrogenase subunit alpha) M, H Unmodified 631.8 2+ 1076.5 y8 130 16 9.7
M, H 631.8 2+ 187.1 b2 130 12 13.5
M, H 631.8 2+ 159.1 a2 130 28 14.9
AMLDPEGILNPYK D2HGDH (D-2-hydroxyglutarate dehydrogenase) M Unmodified 734.9 2+ 1038.6 y9 160 20 15.4
M 734.9 2+ 203.1 b2 160 24 14.0
M 734.9 2+ 175.1 a2 160 32 14.1
GILNPYK D2HGDH (D-2-hydroxyglutarate dehydrogenase) M, H Unmodified 406.7 2+ 642.4 y5 100 4 16.3
M, H 406.7 2+ 415.2 y3 100 12 11.0
M, H 406.7 2+ 171.1 b2 100 4 6.9
SGLGELILPENEPGSSIMPGK FH (Fumarate hydratase) M, H Unmodified 1067.1 2+ 1350.7 y13 190 32 38.8
M, H 1067.1 2+ 670.4 b7 190 36 33.4
M, H 1067.1 2+ 309.2 y3 190 36 30.9
MAGSAWVSK IDH3A (Isocitrate dehydrogenase [NADP], cytoplasmic) M Unmodified 472.7 2+ 813.5 y8 100 8 10.6
M 472.7 2+ 742.4 y7 100 8 20.9
M 472.7 2+ 175.1 a2 100 12 21.6
GYDSDNPRVR MUTA (Methylmalonyl-CoA mutase) M, H Unmodified 594.8 2+ 427.2 y72+ 130 8 22.5
M, H 594.8 2+ 336.1 b3 130 28 18.8
M, H 594.8 2+ 185.1 y1 130 32 20.4
SSLATMAHAQSLVEAQPNVDK OGDH (2-oxoglutarate dehydrogenase) M Unmodified 735.7 3+ 908.5 y8 160 16 5.7
M 735.7 3+ 779.4 y7 160 16 9.6
M 735.7 3+ 580.3 y5 160 20 7.9
GSLAAVAHAQSLVEAQPNVDK OGDH (2-oxoglutarate dehydrogenase) H Unmodified 705.0 3+ 908.5 y8 130 16 8.3
H 705.0 3+ 779.4 y7 130 12 11.5
H 705.0 3+ 580.3 y5 130 12 10.0
VVNAPIFHVNSDDPEAVMYVCK OGDH (2-oxoglutarate dehydrogenase) M, H Unmodified 838.0 3+ 1157.5 y202+ 160 20 0.0
M, H 838.0 3+ 1065 y182+ 160 20 0.0
M, H 838.0 3+ 552.8 y9 160 20 1.1
IEQLSPFPFDLLLK OGDH (2-oxoglutarate dehydrogenase) M, H Unmodified 834.5 2+ 1297.8 y11 160 28 3.1
M, H 834.5 2+ 1097.7 y9 160 20 3.7
M, H 834.5 2+ 371.2 b3 160 24 7.1
YHGHSMSDPGVSYR PDHA1 (Pyruvate dehydrogenase E1 component subunit alpha, somatic form) M, H Unmodified 534.9 3+ 688.4 y6 130 16 4.0
M, H 534.9 3+ 591.3 y5 130 16 2.6
M, H 534.9 3+ 458.2 b82+ 130 8 4.4
GGSMHMYGK PDHA1 (Pyruvate dehydrogenase E1 component subunit alpha, somatic form) M Unmodified 488.2 2+ 506.3 y4 130 16 17.1
M 488.2 2+ 375.2 y3 130 16 20.8
M 488.2 2+ 202.1 b3 130 16 20.3
INFDSNSAYR SUCLA2 (Succinyl-CoA ligase [ADP- forming], subunit beta) M, H Unmodified 598.8 2+ 969.5 y8 130 16 9.2
M, H 598.8 2+ 822.4 y7 130 20 8.2
M, H 598.8 2+ 228.2 b2 130 16 10.4
LTFDSSFSPNTGK VDAC1 (Voltage-dependent anion-selective channel protein 1) M, H Unmodified 704.8 2+ 845.4 y8 180 20 1.8
M, H 704.8 2+ 524.3 y5 180 28 0.9
M, H 704.8 2+ 215.1 b2 180 20 0.9

All transitions verified for each listed peptide are shown. Amino acid residue numbering is based on the mouse homolog sequence in Uniprot.

a

Frag (V): fragmentor voltage

b

CE (V): collision energy

c

CV: coefficient of variation. Coefficients of variation were calculated from three repeated injections, with the exception of the ANT1 pT84 and OGDH unmodified Y485 peptides, which were based on duplicate injections.

d

M: the listed peptide corresponds to mouse protein sequence

e

H: the listed peptide corresponds to human protein sequence