Electronic Supplementary Material (ESI) for Molecular BioSystems. This journal is © The Royal Society of Chemistry 2015 Table S5 Mass data of proteins identified with label free shotgun proteomics a #Alt. Proteins; b Scores; c #Peptides; d SC [%]; e RMS90 [ppm]; f Rank; g Median(Controls:GLP1); h #(Controls:GLP1); i CV [%](Controls:GLP1); l Median(Controls:Palmitate); m #(Controls:Palmitate) ; n CV [%](Controls:Palmitate); o Median(Controls:GLP1 + Palmitate); p #(Controls:GLP1 + Palmitate); q CV [%](Controls:GLP1 + Palmitate) MW OK Accession Protein pI a b c d e f g h i l m n o p q [kDa] 78 kDa glucose-regulated protein OS=Rattus 1672.6 true GRP78_RAT 72.3 4.9 1 22 39 1.48 1 1.16 6 20.53 1.18 9 9.56 1.24 10 13.52 norvegicus GN=Hspa5 PE=1 SV=1 (M:1672.6) Endoplasmin OS=Rattus norvegicus 1253.0 true ENPL_RAT 92.7 4.6 1 23 29 3.34 2 0.85 8 33.34 1.19 6 39.58 1.18 10 28.11 GN=Hsp90b1 PE=1 SV=2 (M:1253.0) Stress-70 protein, mitochondrial OS=Rattus 1138.8 true GRP75_RAT 73.8 5.9 1 17 28.7 1.18 3 1.21 5 7.62 0.78 1 1.1 8 8.04 norvegicus GN=Hspa9 PE=1 SV=3 (M:1138.8) Protein disulfide-isomerase A3 OS=Rattus 1035.4 true PDIA3_RAT 56.6 5.8 1 16 35.2 2.84 4 0.94 3 17.22 1.15 4 26.62 1.25 4 7.86 norvegicus GN=Pdia3 PE=1 SV=2 (M:1035.4) Aconitate hydratase, mitochondrial 983.8 true ACON_RAT OS=Rattus norvegicus GN=Aco2 PE=1 85.4 8.7 1 19 31.4 2.72 5 0.89 2 23.6 1.21 2 9.25 0.89 3 32.87 (M:983.8) SV=2 60 kDa heat shock protein, mitochondrial 906.9 true CH60_RAT OS=Rattus norvegicus GN=Hspd1 PE=1 60.9 5.8 1 13 32.5 3.26 6 1.05 5 13.15 1.01 2 32.54 1.01 4 10.37 (M:906.9) SV=1 ATP synthase subunit alpha, mitochondrial 826.0 true ATPA_RAT OS=Rattus norvegicus GN=Atp5a1 PE=1 59.7 9.7 1 12 26.2 4.09 7 1.24 3 8.26 1.12 3 3.75 1.14 1 (M:826.0) SV=2 Malate dehydrogenase, mitochondrial 803.8 true MDHM_RAT OS=Rattus norvegicus GN=Mdh2 PE=1 35.7 9.8 1 12 46.4 3.75 8 1.22 4 17.88 0.82 3 14.66 1.11 8 7.11 (M:803.8) SV=2 Protein disulfide-isomerase A6 OS=Rattus 766.4 true PDIA6_RAT 48.1 4.9 1 10 31.4 0.81 9 1.16 5 6.33 1.37 6 8.26 norvegicus GN=Pdia6 PE=1 SV=2 (M:766.4) Voltage-dependent anion-selective channel 727.8 true VDAC1_RAT protein 1 OS=Rattus norvegicus GN=Vdac1 30.7 9.2 1 11 47.3 1.64 10 1.16 2 3.57 (M:727.8) PE=1 SV=4 Glutamate dehydrogenase 1, mitochondrial 721.2 true DHE3_RAT OS=Rattus norvegicus GN=Glud1 PE=1 61.4 8.8 1 11 23.7 1.99 11 0.8 1 1.48 1 0.89 3 30.5 (M:721.2) SV=2 ATP synthase subunit beta, mitochondrial 670.0 true ATPB_RAT OS=Rattus norvegicus GN=Atp5b PE=1 56.3 5.1 1 10 22.1 2.24 12 1.12 3 5.96 0.77 4 62.75 0.96 3 16.44 (M:670.0) SV=2 ADP/ATP translocase 1 OS=Rattus 651.2 true ADT1_RAT 33 10.3 2 14 38.9 4.24 13 0.63 2 61.73 1.21 6 70.35 0.32 2 46.82 norvegicus GN=Slc25a4 PE=1 SV=3 (M:651.2) Hypoxia up-regulated protein 1 OS=Rattus 642.4 true HYOU1_RAT 111.2 5.1 1 11 15.9 3.65 14 0.75 1 1.41 2 16.71 1.35 3 1.88 norvegicus GN=Hyou1 PE=1 SV=1 (M:642.4) Prohibitin OS=Rattus norvegicus GN=Phb 599.7 true PHB_RAT 29.8 5.5 1 9 33.8 2.09 15 1.4 1 0.7 1 1.32 1 PE=1 SV=1 (M:599.7) Trifunctional enzyme subunit alpha, 599.1 true ECHA_RAT mitochondrial OS=Rattus norvegicus 82.6 9.8 1 10 21.5 2.42 16 1.03 1 1.05 2 0.54 (M:599.1) GN=Hadha PE=1 SV=2 Dolichyl-diphosphooligosaccharide--protein 593.9 true RPN1_RAT glycosyltransferase subunit 1 OS=Rattus 68.3 6 1 11 21.5 2.74 17 0.9 3 15.88 1.43 2 2.57 0.86 2 22.5 (M:593.9) norvegicus GN=Rpn1 PE=2 SV=1 Aspartate aminotransferase, mitochondrial 589.0 true AATM_RAT OS=Rattus norvegicus GN=Got2 PE=1 47.3 9.8 1 7 20.9 2.33 18 1.15 4 5.07 1.69 3 31.08 1.07 6 10.02 (M:589.0) SV=2 Sodium/potassium-transporting ATPase 581.2 true AT1A1_RAT subunit alpha-1 OS=Rattus norvegicus 113 5.2 3 8 11.4 1.87 19 0.76 1 (M:581.2) GN=Atp1a1 PE=1 SV=1 Dolichyl-diphosphooligosaccharide--protein 560.9 true RPN2_RAT glycosyltransferase subunit 2 OS=Rattus 69 5.6 1 11 26 2.73 20 0 0.82 1 0 (M:560.9) norvegicus GN=Rpn2 PE=2 SV=2 Heat shock cognate 71 kDa protein 560.3 true HSP7C_RAT OS=Rattus norvegicus GN=Hspa8 PE=1 70.8 5.2 4 8 16.6 0.92 21 0.99 2 16.53 1.21 2 17.89 1.05 2 5.06 (M:560.3) SV=1 Leucine-rich PPR motif-containing protein, 532.2 true LPPRC_RAT mitochondrial OS=Rattus norvegicus 156.6 6.2 1 10 9.9 1.58 22 1.11 2 2.21 1.11 1 1.13 2 8.03 (M:532.2) GN=Lrpprc PE=1 SV=1 Calnexin OS=Rattus norvegicus GN=Canx 524.4 true CALX_RAT 67.2 4.3 1 9 18.4 1.21 23 0.62 1 1.15 3 29.48 0.57 1 PE=1 SV=1 (M:524.4) Sarcoplasmic/endoplasmic reticulum 484.5 true AT2A2_RAT calcium ATPase 2 OS=Rattus norvegicus 114.7 5.2 2 10 12.2 1.41 24 0.77 1 1.19 2 8.13 0.68 1 (M:484.5) GN=Atp2a2 PE=1 SV=1 Actin, cytoplasmic 1 OS=Rattus norvegicus 480.1 true ACTB_RAT 41.7 5.2 6 8 23.7 2.52 25 0.73 1 0.59 2 12.21 0.56 3 6.86 GN=Actb PE=1 SV=1 (M:480.1) Myosin-9 OS=Rattus norvegicus GN=Myh9 467.7 true MYH9_RAT 226.2 5.4 3 7 5.6 1 26 0.87 1 0.79 2 1.11 PE=1 SV=3 (M:467.7) Calreticulin OS=Rattus norvegicus GN=Calr 465.8 true CALR_RAT 48 4.2 1 7 22.6 0.69 27 0.66 1 1.4 1 1.49 3 22.16 PE=1 SV=1 (M:465.8) Voltage-dependent anion-selective channel 442.6 true VDAC2_RAT protein 2 OS=Rattus norvegicus GN=Vdac2 31.7 8.7 1 6 27.8 2.77 28 0.65 1 0.81 2 16.23 0.32 1 (M:442.6) PE=1 SV=2 NADH-ubiquinone oxidoreductase 75 kDa 441.0 true NDUS1_RAT subunit, mitochondrial OS=Rattus 79.4 5.6 1 7 16.4 1.94 29 1.09 2 1.88 1.06 2 2.13 1.14 2 3.77 (M:441.0) norvegicus GN=Ndufs1 PE=1 SV=1 Protein disulfide-isomerase OS=Rattus 426.1 true PDIA1_RAT 56.9 4.7 1 8 14.5 3.05 30 0.99 2 24.44 1.24 2 3.93 1.51 2 8.9 norvegicus GN=P4hb PE=1 SV=2 (M:426.1) Leucine-rich repeat-containing protein 59 408.5 true LRC59_RAT OS=Rattus norvegicus GN=Lrrc59 PE=1 34.8 10.4 1 7 21.5 1.86 31 1.65 1 (M:408.5) SV=1 true IDHP_RAT Isocitrate dehydrogenase [NADP], 50.9 9.6 1 405.2 6 16.2 2.05 32 1.25 1 mitochondrial OS=Rattus norvegicus (M:405.2) GN=Idh2 PE=1 SV=2 Mitochondrial inner membrane protein 404.8 true IMMT_RAT (Fragment) OS=Rattus norvegicus 67.1 5.6 1 7 16.7 0.95 33 0 1.38 1 (M:404.8) GN=Immt PE=1 SV=1 Sodium/potassium-transporting ATPase 398.9 true AT1A3_RAT subunit alpha-3 OS=Rattus norvegicus 111.6 5.1 2 6 8.9 3.15 34 0.76 1 (M:398.9) GN=Atp1a3 PE=1 SV=2 Glyceraldehyde-3-phosphate dehydrogenase 386.3 true G3P_RAT OS=Rattus norvegicus GN=Gapdh PE=1 35.8 9 2 5 22.2 1.83 35 1.19 3 10.46 0.67 3 10.26 1.8 2 18.89 (M:386.3) SV=3 Heat shock protein HSP 90-beta OS=Rattus 379.0 true HS90B_RAT 83.2 4.8 2 6 9.9 1.94 36 1.24 3 45.05 0.75 2 30.85 norvegicus GN=Hsp90ab1 PE=1 SV=4 (M:379.0) Glycerol-3-phosphate dehydrogenase, 370.3 true GPDM_RAT mitochondrial OS=Rattus norvegicus 80.9 6.2 1 8 14 2.37 37 (M:370.3) GN=Gpd2 PE=1 SV=1 Amine oxidase [flavin-containing] B 341.9 true AOFB_RAT OS=Rattus norvegicus GN=Maob PE=1 58.4 9.3 1 6 15.6 2.34 38 1.32 1 1.16 1 1.74 1 (M:341.9) SV=3 Citrate synthase, mitochondrial OS=Rattus 320.4 true CISY_RAT 51.8 9.2 1 5 12.2 4.28 39 1.25 1 norvegicus GN=Cs PE=1 SV=1 (M:320.4) Insulin-2 OS=Rattus norvegicus GN=Ins2 301.5 true INS2_RAT 12.3 5.6 1 3 47.3 1.01 40 0.7 1 0.77 1 1.22 1 PE=1 SV=1 (M:301.5) Sarcoplasmic/endoplasmic reticulum 299.0 true AT2A3_RAT calcium ATPase 3 OS=Rattus norvegicus 116.2 5.5 1 4 5.3 2.17 41 (M:299.0) GN=Atp2a3 PE=1 SV=2 Spectrin alpha chain, non-erythrocytic 1 294.1 true SPTN1_RAT OS=Rattus norvegicus GN=Sptan1 PE=1 284.5 5.1 1 3 2 1.8 42 (M:294.1) SV=2 Voltage-dependent anion-selective channel 284.9 true VDAC3_RAT protein 3 OS=Rattus norvegicus GN=Vdac3 30.8 9.6 1 4 20.8 3.47 43 0.82 1 0.86 3 20.36 (M:284.9) PE=1 SV=2 Tubulin alpha-1A chain OS=Rattus 279.7 true TBA1A_RAT 50.1 4.8 6 4 15.3 1.6 44 0.85 2 0.43 0.64 3 4.11 0.69 2 4.87 norvegicus GN=Tuba1a PE=1 SV=1 (M:279.7) ATP synthase subunit O, mitochondrial 279.5 true ATPO_RAT OS=Rattus norvegicus GN=Atp5o PE=1 23.4 10.5 1 4 27.2 2.8 45 0.99 3 65.02 0.87 1 (M:279.5) SV=1 Elongation factor Tu, mitochondrial 278.8 true EFTU_RAT OS=Rattus norvegicus GN=Tufm PE=1 49.5 7.9 1 5 16.4 1.18 46 1.39 1 0 0 1.06 1 0 (M:278.8) SV=1 Ras-related protein Rab-7a OS=Rattus 269.7 true RAB7A_RAT 23.5 7.2 1 6 36.2 1.89 47 1.05 1 0 norvegicus GN=Rab7a PE=1 SV=2 (M:269.7) Hydroxyacyl-coenzyme A dehydrogenase, 268.5 true HCDH_RAT 34.4 9.5 1 4 19.1 489.75 48 1.13 1 0 1.14 1 0 mitochondrial OS=Rattus norvegicus (M:268.5) GN=Hadh PE=2 SV=1 Cytochrome b-c1 complex subunit 2, 262.5 true QCR2_RAT mitochondrial OS=Rattus norvegicus 48.4 9.6 1 4 12.8 821.02 49 1.23 2 6.79 1.15 2 0.69 (M:262.5) GN=Uqcrc2 PE=1 SV=2 Insulin-1 OS=Rattus norvegicus GN=Ins1 258.8 true INS1_RAT 12.4 5.6 1 3 47.3 0.52 50 0.7 1 0.47 1 1.22 1 PE=1 SV=1 (M:258.8) Histone H4 OS=Rattus norvegicus 256.4 true H4_RAT 11.4 11.8 1 4 38.8 2.59 51 1.37 3 4.92 0 1.34 3 19.48 GN=Hist1h4b PE=1 SV=2 (M:256.4) Peripherin OS=Rattus norvegicus GN=Prph 243.9 true PERI_RAT 53.5 5.2 1 7 16.9 1.4 52 0.67 1 0 PE=1 SV=1 (M:243.9) Cytochrome b-c1 complex subunit 1, 230.2 true QCR1_RAT mitochondrial OS=Rattus norvegicus 52.8 5.5 1 5 14.6 2.56 53 (M:230.2) GN=Uqcrc1 PE=1 SV=1 Peptidyl-prolyl cis-trans isomerase B 228.2 true PPIB_RAT OS=Rattus norvegicus GN=Ppib PE=2 23.8 10 1 4 22.7 2.05 54 1.13 2 3.88 1.19 1 0 (M:228.2) SV=3 10 kDa heat shock protein, mitochondrial 226.3 true CH10_RAT OS=Rattus norvegicus GN=Hspe1 PE=1 10.9 9.4 1 4 42.2 5.48 55 (M:226.3) SV=3 Stomatin-like protein 2, mitochondrial 223.6 true STML2_RAT OS=Rattus norvegicus GN=Stoml2 PE=1 38.4 9.4 1 5 19.5 3.75 56 1.41 1 0.65 1 1.15 2 4.6 (M:223.6) SV=1 Glutaminase kidney isoform, mitochondrial 219.8 true GLSK_RAT 74 9 1 5 10.2 4.89 57 OS=Rattus norvegicus GN=Gls PE=1 SV=2 (M:219.8) Guanine nucleotide-binding protein 219.0 true GBB2_RAT G(I)/G(S)/G(T) subunit beta-2 OS=Rattus 37.3 5.6 3 3 12.1 3.29 58 (M:219.0)