Raw file Experiment Enzyme Enzyme mode Enzyme first search Enzyme mode first search Use enzyme first search Variable modifications Fixed modifications Multi modifications Variable modifications first search Use variable modifications first search Requantify Multiplicity Max. missed cleavages Max. labeled AAs Labels0 Labels1 LC-MS run type Time-dependent recalibration MS MS/MS MS3 MS/MS submitted MS/MS submitted (SIL) MS/MS submitted (ISO) MS/MS submitted (PEAK) MS/MS identified MS/MS identified (SIL) MS/MS identified (ISO) MS/MS identified (PEAK) MS/MS identified [%] MS/MS identified (SIL) [%] MS/MS identified (ISO) [%] MS/MS identified (PEAK) [%] Peptide sequences identified Peaks Peaks sequenced Peaks sequenced [%] Peaks repeatedly sequenced Peaks repeatedly sequenced [%] Isotope patterns Isotope patterns sequenced Isotope patterns sequenced (z>1) Isotope patterns sequenced [%] Isotope patterns sequenced (z>1) [%] Isotope patterns repeatedly sequenced Isotope patterns repeatedly sequenced [%] Multiplets Multiplets z=1 Multiplets z=2 Multiplets z=3 Multiplets z=4 Multiplets z=5 Multiplets z=6 Multiplets z=7 Multiplets sequenced Multiplets sequenced [%] Multiplets repeatedly sequenced Multiplets repeatedly sequenced [%] Multiplets identified Multiplets identified [%] Recalibrated Av. absolute mass deviation [ppm] Mass standard deviation [ppm] Av. absolute mass deviation [mDa] Mass standard deviation [mDa] Label free norm param 180122_C3A_2L3H_hPH_rep2_fr2 C3A_2 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6619 54937 0 60279 36233 13362 10684 29556 24686 4225 645 49 68 32 6 12462 1107483 51191 4.6 2392 4.7 164613 38732 36333 24 25 6784 18 36008 3598 13572 12703 4746 1207 151 31 18114 50 10745 59 12343 68 + 0.53658 0.73964 0.35864 0.52713 180122_C3A_2L3H_hPH_rep2_fr3 C3A_2 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6929 53215 0 57895 36349 12186 9360 25248 21514 3292 442 44 59 27 4.7 10144 1080944 50634 4.7 1793 3.5 159905 38131 35797 24 25 6804 18 35324 2825 11542 13012 5829 1814 248 54 17965 51 10867 60 10368 58 + 0.53434 0.72823 0.36402 0.52518 180122_C3A_2L3H_hPH_rep2_fr4 C3A_2 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 7373 50426 0 56502 32916 11426 12160 4186 3653 467 66 7.4 11 4.1 0.54 1551 798744 44919 5.6 3918 8.7 100601 30493 27512 30 33 8442 28 22159 1881 11604 7609 976 56 20 13 13386 60 9356 70 1556 12 + 0.6143 0.83292 0.44543 0.61977 180122_C3A_2L3H_hPH_rep2_fr5 C3A_2 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 7069 52122 0 57483 33697 13062 10724 15881 14086 1585 210 28 42 12 2 6060 953414 48508 5.1 2533 5.2 128174 33277 31390 26 27 8213 25 26003 888 6222 10276 6114 1958 412 133 14741 57 9517 65 6559 44 + 0.50434 0.68705 0.33466 0.47882 180122_C3A_2L3H_hPH_rep2_fr6 C3A_2 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 7138 51291 0 56666 33106 12806 10754 8402 7466 831 105 15 23 6.5 0.98 3636 893541 47475 5.3 2443 5.1 119519 32287 29678 27 28 8268 26 24965 924 6130 10608 5399 1545 277 82 14112 57 9387 67 3876 27 + 0.54918 0.75771 0.39279 0.57802 180127_C3A_2L3H_mpH_fr1 C3A_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 7053 51941 0 57632 31066 15182 11384 13778 11500 1959 319 24 37 13 2.8 5865 974093 48545 5 2464 5.1 127924 35352 30485 28 30 7071 20 26065 4042 12522 7201 1694 465 99 42 14551 56 9301 64 5277 36 + 0.60371 0.81181 0.41807 0.58897 180127_C3A_2L3H_mpH_fr2 C3A_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6443 54498 0 59614 35191 14191 10232 24590 20226 3745 619 41 57 26 6 10091 1047311 51595 4.9 2189 4.2 152453 38249 35347 25 27 7154 19 32147 3321 13622 11051 3344 696 100 13 17068 53 10419 61 9412 55 + 0.5569 0.75803 0.38439 0.55606 180127_C3A_2L3H_mpH_fr3 C3A_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6535 54282 0 59176 35720 13668 9788 26827 22554 3708 565 45 63 27 5.8 10380 1057486 51158 4.8 2301 4.5 150204 37320 34690 25 26 7557 20 31496 3043 11941 11124 4208 1030 123 27 16847 53 10384 62 10337 61 + 0.52938 0.72358 0.36093 0.5246 180127_C3A_2L3H_mpH_fr4 C3A_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6635 53522 0 57969 35250 13825 8894 26640 22446 3686 508 46 64 27 5.7 10307 1077517 50756 4.7 2062 4.1 153310 37444 34886 24 26 7303 20 31791 2504 10771 11629 5173 1494 169 51 16883 53 10310 61 10419 62 + 0.52536 0.71695 0.35148 0.50259 180127_C3A_2L3H_mpH_fr5 C3A_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6595 53816 0 58329 35530 13773 9026 27194 23149 3583 462 47 65 26 5.1 10063 1103201 50783 4.6 2299 4.5 153557 36898 34411 24 25 7713 21 31091 2538 10225 10929 5274 1768 280 77 16597 53 10331 62 10536 63 + 0.53268 0.73292 0.35453 0.52158 180127_C3A_2L3H_mpH_fr6 C3A_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6632 53289 0 58294 35202 13082 10010 26016 22464 3087 465 45 64 24 4.6 9826 1063636 50466 4.7 2027 4 148653 36243 34208 24 25 7586 21 30613 1754 9415 11429 5634 1961 342 78 16476 54 10263 62 10258 62 + 0.51658 0.70865 0.33497 0.48819 180127_C3A_2L3H_mpH_fr7 C3A_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6633 53779 0 59536 36042 11980 11514 27030 23262 3240 528 45 65 27 4.6 9846 981175 49610 5.1 2987 6 138115 35465 33822 26 27 7716 22 30313 1706 10243 12122 5018 1081 117 26 16533 55 10307 62 10638 64 + 0.50999 0.69879 0.32508 0.47287 180127_C3A_2L3H_mpH_fr8 C3A_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6567 53265 0 58196 34927 13407 9862 25412 22520 2568 324 44 64 19 3.3 8702 1024035 49826 4.9 2217 4.4 143446 35617 33591 25 26 8018 23 28787 962 7925 11234 6101 2007 412 146 15942 55 10055 63 10101 63 + 0.49881 0.67825 0.30232 0.43455 170809_SK-HEP-1_2D(L)_3D(H)_fr1 SK_1 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6294 56911 0 63662 36124 14036 13502 21707 17125 3820 762 34 47 27 5.6 10489 1015772 49780 4.9 5717 11 133101 36310 28170 27 30 9065 25 28627 6653 18066 3637 217 38 13 3 15908 56 10212 64 7909 50 + 0.66077 0.89803 0.45746 0.65697 170809_SK-HEP-1_2D(L)_3D(H)_fr2 SK_1 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6348 57833 0 63794 38488 13384 11922 26779 21426 4409 944 42 56 33 7.9 12654 1138618 51716 4.5 4360 8.4 158812 39233 32765 25 27 8149 21 34546 6555 19254 8231 453 26 26 1 17975 52 11225 62 10534 59 + 0.65765 0.89586 0.4579 0.66798 170809_SK-HEP-1_2D(L)_3D(H)_fr3 SK_1 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6262 57393 0 62446 39693 12647 10106 34787 28642 5201 944 56 72 41 9.3 13268 1144985 52062 4.5 3664 7 161570 37659 34648 23 25 8654 23 34913 2909 12715 14176 4083 907 109 14 17757 51 10864 61 12783 72 + 0.57538 0.79274 0.39357 0.58312 170824_SK-HEP1_2D(L)_3D(H)_rep2_fr1 SK_2 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6298 56321 0 62359 37416 12867 12076 26047 20787 4260 1000 42 56 33 8.3 13699 905717 51124 5.6 4079 8 137708 38704 32636 28 31 7683 20 33558 6636 21647 5108 153 6 5 3 17851 53 11189 63 10509 59 + 0.62674 0.86276 0.41568 0.60216 170824_SK-HEP1_2D(L)_3D(H)_rep2_fr2 SK_2 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6295 56175 0 62029 37709 12612 11708 29062 23424 4610 1028 47 62 37 8.8 14710 1008444 51068 5.1 3282 6.4 156207 40015 35632 26 28 6630 17 37674 5031 20684 11066 809 61 18 5 19094 51 11446 60 12492 65 + 0.5975 0.82228 0.40735 0.6028 170824_SK-HEP1_2D(L)_3D(H)_rep2_fr3 SK_2 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6305 55548 0 60492 38910 11694 9888 34321 28741 4788 792 57 74 41 8 14370 1082182 51448 4.8 2621 5.1 161383 38662 36075 24 25 7090 18 37969 2468 13614 15789 4908 1065 103 22 19069 50 11159 59 14083 74 + 0.54608 0.75351 0.37068 0.54696 180107_C3A_2L3H_SILAC_SAX_fr1 C3A_1 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 7209 52900 0 58941 31758 15101 12082 17449 13695 3099 655 30 43 21 5.4 8344 1057540 47922 4.5 3309 6.9 140942 35394 30457 25 28 7594 21 28883 5763 17257 5493 344 7 19 0 15060 52 9127 61 6543 43 + 0.59347 0.81371 0.3358 0.47806 180107_C3A_2L3H_SILAC_SAX_fr2 C3A_1 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6640 55206 0 61056 34541 14815 11700 23157 18215 4122 820 38 53 28 7 10490 1099784 51353 4.7 2919 5.7 160198 38841 35177 24 27 7148 18 34096 5499 18755 8678 1051 85 24 4 17349 51 9993 58 8919 51 + 0.58392 0.80427 0.34729 0.50234 180107_C3A_2L3H_SILAC_SAX_fr3 C3A_1 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6685 54652 0 59928 34870 14504 10554 26869 21481 4557 831 45 62 31 7.9 12130 1108085 51498 4.6 2428 4.7 160559 39647 36212 25 28 6673 17 34523 4970 18056 9828 1469 166 28 6 17924 52 10276 57 10704 60 + 0.57394 0.79556 0.35091 0.50814 180107_C3A_2L3H_SILAC_SAX_fr4 C3A_1 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6687 53761 0 58829 34567 14126 10136 26078 21034 4325 719 44 61 31 7.1 12208 1080305 51096 4.7 1857 3.6 157104 40321 37052 26 28 5989 15 34329 3896 17445 10850 1913 189 30 6 18466 54 10510 57 10911 59 + 0.5654 0.77437 0.35153 0.50358 180107_C3A_2L3H_SILAC_SAX_fr5 C3A_1 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6762 53121 0 57598 34569 14075 8954 25225 20684 4054 487 44 60 29 5.4 11585 1083372 50895 4.7 1412 2.8 156011 40294 37521 26 28 5851 15 33345 2277 14900 12140 3379 590 50 9 18611 56 10494 56 10804 58 + 0.56737 0.77725 0.36957 0.52962 180107_C3A_2L3H_SILAC_SAX_fr6 C3A_1 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6680 53293 0 57939 34591 14052 9296 23366 19087 3816 463 40 55 27 5 11666 1097585 50973 4.6 1390 2.7 163147 41409 37958 25 28 5070 12 35910 3463 18349 11512 2228 313 42 3 19343 54 10692 55 10432 54 + 0.56829 0.77713 0.37593 0.53991 180107_SK-2L3H_SILAC_SAX_fr1 SK_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6330 56968 0 62942 36882 14110 11950 23422 19146 3423 853 37 52 24 7.1 10470 984060 52381 5.3 3546 6.8 148620 38757 34536 26 29 8115 21 33979 5500 18992 8522 874 55 30 6 17389 51 10613 61 8908 51 + 0.60295 0.83213 0.37624 0.54362 180107_SK-2L3H_SILAC_SAX_fr2 SK_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6670 54884 0 60113 36566 13089 10458 25231 20445 3999 787 42 56 31 7.5 11181 1087539 52063 4.8 2199 4.2 163308 40194 36931 25 27 6739 17 37023 4839 19078 11135 1733 194 35 9 18758 51 10992 59 10078 54 + 0.58958 0.81386 0.37625 0.54423 180107_SK-2L3H_SILAC_SAX_fr3 SK_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6589 55770 0 61228 37330 12980 10918 27659 22740 4103 816 45 61 32 7.5 12316 1033011 52345 5.1 2437 4.7 158125 40153 36852 25 28 6898 17 37027 4606 18538 11513 2092 246 28 4 18939 51 11129 59 11404 60 + 0.56027 0.77337 0.35952 0.51779 180107_SK-2L3H_SILAC_SAX_fr4 SK_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6958 54612 0 59528 37015 12677 9836 28051 23036 4244 771 47 62 33 7.8 12530 1051176 51856 4.9 1946 3.8 160920 40385 37292 25 27 6394 16 37443 4277 17769 12202 2724 423 42 6 19226 51 11221 58 11743 61 + 0.55914 0.76644 0.35581 0.50576 180107_SK-2L3H_SILAC_SAX_fr5 SK_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6724 54177 0 58719 37175 12460 9084 27437 22831 3968 638 47 61 32 7 11986 1129385 51706 4.6 1785 3.5 167946 40578 37707 24 26 6028 15 38316 3539 16190 13455 4068 952 102 10 19679 51 11073 56 11760 60 + 0.55919 0.76923 0.37762 0.54236 180107_SK-2L3H_SILAC_SAX_fr6 SK_3 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6809 53581 0 58293 36157 12712 9424 21670 18097 3145 428 37 50 25 4.5 10189 1074313 51146 4.8 1641 3.2 161188 40802 37483 25 28 5617 14 37882 3946 18197 12303 2826 551 48 11 19516 52 11076 57 9543 49 + 0.58865 0.80976 0.4189 0.60259 180122_C3A_2L3H_hPH_rep2_fr1 C3A_2 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6413 55357 0 61556 35288 13870 12398 22803 18953 3299 551 37 54 24 4.4 10240 1000827 51797 5.2 2430 4.7 151403 38581 35422 25 27 6850 18 33556 4017 15689 10643 2521 556 95 35 17513 52 10509 60 9192 52 + 0.565 0.7701 0.37267 0.5306 180202_SK-HEP-1_2L3H_mPH_fr5 SK_4 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6384 55333 0 60500 38083 12081 10336 28750 24105 4018 627 48 63 33 6.1 10001 1008745 50781 5 3483 6.9 140000 36251 33290 26 28 8332 23 31172 3781 12343 10435 3458 956 158 41 16935 54 10626 63 10466 62 + 0.53345 0.73085 0.36218 0.52418 180202_SK-HEP-1_2L3H_mPH_fr6 SK_4 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6493 54912 0 59965 37960 11899 10106 28585 24037 3888 660 48 63 33 6.5 9853 1020500 50320 4.9 3547 7 139031 35885 33081 26 28 8301 23 30747 3061 11706 10782 3856 1103 194 45 16887 55 10490 62 10613 63 + 0.54062 0.73924 0.36383 0.52648 180202_SK-HEP-1_2L3H_mPH_fr7 SK_4 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6508 54349 0 59564 37650 11480 10434 25742 21918 3298 526 43 58 29 5 8988 1007228 49349 4.9 3539 7.2 138560 35570 33099 26 27 7789 22 30789 2531 11475 11714 3961 913 157 38 16977 55 10452 62 9920 58 + 0.52771 0.72605 0.36127 0.52846 180202_SK-HEP-1_2L3H_mPH_fr8 SK_4 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6603 53216 0 58392 35827 12211 10354 19502 16980 2208 314 33 47 18 3 7203 962147 47731 5 3588 7.5 131066 33823 30904 26 28 8166 24 28384 2202 9808 11052 4173 955 163 31 15548 55 9822 63 7832 50 + 0.50704 0.6927 0.33864 0.48526 180202_SK-HEP-1_2L3H_mPH_fr1 SK_4 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6542 53917 0 59401 33959 14474 10968 21234 17150 3517 567 36 51 24 5.2 8781 994110 50313 5.1 2822 5.6 137506 36321 32259 26 29 7825 22 28968 4474 13924 8939 1461 133 32 5 15620 54 9824 63 7712 49 + 0.57133 0.78697 0.37468 0.53544 180202_SK-HEP-1_2L3H_mPH_fr2 SK_4 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6250 55962 0 61366 37363 13195 10808 29531 23989 4646 896 48 64 35 8.3 12163 968107 52401 5.4 2805 5.4 146078 38236 35031 26 29 7900 21 33389 4260 15198 11098 2397 382 47 7 17560 53 10829 62 11110 63 + 0.57961 0.79787 0.3942 0.57704 180202_SK-HEP-1_2L3H_mPH_fr3 SK_4 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6215 56070 0 61093 38225 12822 10046 30332 24949 4566 817 50 65 36 8.1 11737 959551 52240 5.4 3079 5.9 140471 37940 34478 27 29 8379 22 32288 4392 13839 10520 2896 580 52 9 17465 54 11000 63 11315 65 + 0.54817 0.75066 0.37201 0.5393 180202_SK-HEP-1_2L3H_mPH_fr4 SK_4 Trypsin/P Specific False Oxidation (M);Acetyl (Protein N-term) Carbamidomethyl (C) False True 2 2 3 Arg6;Lys8 Standard 6283 55922 0 61226 37969 12647 10610 29936 24659 4481 796 49 65 35 7.5 10760 978697 51362 5.2 3461 6.7 138201 36571 33245 26 29 8612 24 31259 4270 12685 10212 3174 803 97 18 16908 54 10680 63 10805 64 + 0.54315 0.74362 0.36859 0.53367 Total 264457 2178527 0 2390530 1437914 528570 424046 985492 816902 143840 24750 41 57 27 5.8 99354 41244365 5909639 1502044 1368063 25 27 296170 20 1297357 145801 571907 421960 122731 29337 4497 1124 688542 53 418765 61 390704 57 0.56085 0.77086 0.3714 0.53967