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Supporting Information for Proteomics DOI 10.1002/Pmic.200502070

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Supporting Information for Proteomics DOI 10.1002/Pmic.200502070 Supporting Information for Proteomics DOI 10.1002/pmic.200502070 Ambrosius P. L. Snijders, Jasper Walther, Stefan Peter, Iris Kinnman, Marjon G. J. de Vos, Harmen J. G. van de Werken, Stan J. J. Brouns, John van der Oost and Phillip C. Wright Reconstruction of central carbon metabolism in Sulfolobus solfataricus using a two-dimensional gel electrophoresis map, stable isotope labelling and DNA microarray analysis ª 2005 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim www.proteomics-journal.com Table 1 (supplementary) Proteins identified from 2-DE reference map for S. solfataricus grown on glucose. PI and MW correspond to theoretical values. 1 Table 2 (supplementary) Complete list of the measured transcriptome of S. solfataricus grown on yeast extract + tryptone (YT) or grown on glucose (G). 2 Table 1 Reference Map Spot ID Gene Current Description MW pI seq cov MOWSE score 1 SSO2636 Aldehyde oxidoreductase, b-subunit 31033 9.3 36 290 1 SSO2637 Aldehyde oxidoreductase, g-subunit 18385 7.52 10 96 1 SSO2639 Aldehyde oxidoreductase, a-subunit 83019 6.03 33 639 2 SSO0722 Isoleucine-tRNA synthetase 115221 6.76 24 720 2 SSO1399 Conserved hypothetical protein 35946 7.66 10 65 2 SSO2097 5-amino-6-(5-phosphoribosylamino)ur 123386 7.25 13 274 3 SSO0722 Isoleucine-tRNA synthetase 115221 6.76 23 810 3 SSO3254 DNA-directed RNA polymerase, subu 54176 8.83 5 68 4 SSO0589 Leucyl-tRNA synthetase 109267 7.05 24 637 5 SSO0589 Leucyl-tRNA synthetase 109267 7.05 33 946 6 SSO0589 Leucyl-tRNA synthetase 109267 7.05 30 668 7 SSO0589 Leucyl-tRNA synthetase 109267 7.05 28 751 8 SSO0640 Carbamyl-phosphate synthase, small 118420 5.5 40 1015 9 SSO0651 Conserved hypothetical protein 18151 6.75 23 80 9 SSO2150 Carbon monoxide dehydrogenase, lar 80597 5.87 21 428 10 SSO2150 Carbon monoxide dehydrogenase, lar 80597 5.87 22 351 11 SSO0929 Ribonucleotide reductase 95444 6.47 35 942 12 SSO1095 Aconitase 95888 6.25 42 780 13 SSO0225 DNA-directed RNA polymerase, subu 100192 8.25 4 106 13 SSO0589 Leucyl-tRNA synthetase 109267 7.05 38 783 14 SSO1095 Aconitase 95888 6.25 42 1095 15 SSO1095 Aconitase 95888 6.25 39 793 16 SSO3009 Carbon monoxide dehydrogenase, lar 79609 6.08 20 623 17 SSO2675 Tricorn protease interacting factor F3 90260 5.57 25 472 18 SSO2154 Tricorn protease interacting factor F2 90516 5.61 42 942 19 SSO0883 Phosphoenolpyruvate synthase 89395 5.83 15 219 19 SSO2675 Tricorn protease interacting factor F3 90260 5.57 41 949 20 SSO0176 AAA family ATPase 85987 5.76 42 1050 21 SSO2462 DNA helicase related conserved prote 81455 5.51 3 85 21 SSO2639 Carbon monoxide dehydrogenase, lar 83019 6.03 31 691 21 SSO2942 Carbon monoxide dehydrogenase, lar 75284 5.71 11 208 22 SSO0628 Phosphoribosylformylglycinamidine sy 77331 5.18 13 201 22 SSO2094 Glycogen debranching enzyme 86787 6.04 19 409 23 SSO0081 DNA polymerase III (DNA polymerase 88614 8.44 9 175 23 SSO2462 DNA helicase related conserved prote 81455 5.51 23 538 23 SSO3051 Alpha-glucosidase 80506 5.59 17 265 24 SSO2094 Glycogen debranching enzyme 86787 6.04 42 915 24 SSO2639 Carbon monoxide dehydrogenase, lar 83019 6.03 4 76 25 SSO0421 AAA family ATPase 86583 6.24 40 984 26 SSO0728 Elongation factor 2 81769 6.11 62 1362 27 SSO2863 Acetyl-CoA synthetase (acetate-CoA 75810 6.44 43 919 28 SSO2863 Acetyl-CoA synthetase (acetate-CoA 75810 6.44 38 697 29 SSO1893 ABC transporter, ATP binding protein 59852 8.2 4 57 29 SSO2863 Acetyl-CoA synthetase (acetate-CoA 75810 6.44 44 723 30 SSO2863 Acetyl-CoA synthetase (acetate-CoA 75810 6.44 37 772 31 SSO0182 Glutamate-1-semialdehyde aminotran 47509 6.14 36 458 31 SSO2204 Conserved hypothetical protein 75319 5.7 23 404 32 SSO2069 Indolepyruvate ferredoxin oxidoreduct 68634 5.71 48 802 33 SSO0862 Thermosome alpha subunit (thermoph 59696 5.35 4 53 33 SSO2069 Indolepyruvate ferredoxin oxidoreduct 68634 5.71 35 552 34 SSO2241 BPS2 protein homolog 68510 5.56 28 573 35 SSO0857 Arginyl-tRNA synthetase 71342 6.44 23 474 36 SSO2356 Succinate dehydrogenase, subunit A 62551 6.18 50 1073 37 SSO0563 ATP synthase subunit A 66428 6.09 41 617 38 SSO2059 Acetyl-CoA synthetase (acetate-CoA 70187 7.6 5 67 38 SSO2356 Succinate dehydrogenase, subunit A 62551 6.18 57 967 39 SSO2817 Electron transfer flavoprotein alpha an 67274 6.11 56 845 40 SSO2815 2-oxoacid--ferredoxin oxidoreductase 70184 6.37 45 651 41 SSO2815 2-oxoacid--ferredoxin oxidoreductase 70184 6.37 45 729 42 SSO2815 2-oxoacid--ferredoxin oxidoreductase 70184 6.37 51 871 43 SSO2815 2-oxoacid--ferredoxin oxidoreductase 70184 6.37 50 887 44 SSO2815 2-oxoacid--ferredoxin oxidoreductase 70184 6.37 53 1034 45 SSO2815 2-oxoacid--ferredoxin oxidoreductase 70184 6.37 34 559 46 SSO2815 2-oxoacid--ferredoxin oxidoreductase 70184 6.37 57 855 47 SSO2815 2-oxoacid--ferredoxin oxidoreductase 70184 6.37 24 289 48 SSO0228 Translation initiation factor IF2 homolo 66893 8.64 40 672 49 SSO0552 DNA polymerase I (DNA polymerase 101335 8.91 2 62 49 SSO2989 Diphosphomevalonate decarboxylase 37178 7.03 16 165 50 SSO0899 Valyl-tRNA synthetase 98979 8.34 11 279 51 SSO0899 Valyl-tRNA synthetase 98979 8.34 8 135 52 SSO2885 Oxidoreductase 35059 6.36 39 294 53 SSO0899 Valyl-tRNA synthetase 98979 8.34 9 243 54 SSO2486 Threonyl-tRNA synthetase 63249 6.55 36 589 55 SSO0558 Methionyl-tRNA synthetase 66938 7.13 32 536 56 SSO3107 Dihydroxy-acid dehydratase 59558 6.86 26 401 57 SSO0579 Acetolactate synthase large subunit h 63230 7.12 32 360 59 SSO0189 DNA ligase (polydeoxyribonucleotide 67865 5.85 4 57 59 SSO0282 Thermosome beta subunit(thermophil 60388 5.56 50 944 59 SSO0862 Thermosome alpha subunit (thermoph 59696 5.35 43 828 59 SSO0917 Glycine dehydrogenase subunit 2 56880 6.16 6 96 59 SSO2133 Glycerol kinase 55608 5.57 12 73 59 SSO2463 Propionyl-CoA carboxylase beta subu 57384 6.01 2 63 60 SSO3000 Thermosome gamma subunit (thermo 58733 5.51 29 629 61 SSO0927 Conserved hypothetical protein 54259 5.79 5 58 61 SSO2774 Acetolactate synthase large subunit h 59653 6.03 47 501 62 SSO0170 Acetolactate synthase large subunit h 62766 7.67 8 125 62 SSO2216 Acetyl-CoA synthetase (acetate-CoA 64660 5.93 44 647 62 SSO2553 Hypothetical protein 39673 6.23 6 62 62 SSO2962 Acetolactate synthase large subunit h 61113 5.53 4 69 62 SSO3210 Acetolactate synthase large subunit h 61910 5.98 22 270 63 SSO1419 Acylaminoacyl-peptidase, putative 62151 5.48 26 389 64 SSO2094 Glycogen debranching enzyme 83329 5.34 37 750 66 SSO0232 Glutamyl-tRNA -Gln amidotransferase 52710 6.93 46 562 66 SSO0369 Long-chain-fatty-acid--CoA ligase 51588 6.11 15 131 67 SSO0366 Glutamine synthetase (glutamate amm 53372 5.61 54 452 68 SSO0366 Glutamine synthetase (glutamate amm 53372 5.61 36 485 69 SSO2256 Phosphoenolpyruvate carboxylase 58735 5.72 46 764 70 SSO10340 Transcription regulator, putative 8611 5.36 22 57 70 SSO2256 Phosphoenolpyruvate carboxylase 58735 5.72 35 511 71 SSO0274 Queuine/archaeosine-tRNA -ribosyltra 58571 5.97 6 71 71 SSO2256 Phosphoenolpyruvate carboxylase 58735 5.72 37 635 72 SSO2422 Phytoene dehydrogenase related prot 57966 6.09 23 286 72 SSO2635 Hypothetical protein 52482 5.6 24 413 73 SSO0100 Phenylalanyl-tRNA synthetase alpha s 54126 8.43 27 283 74 SSO0635 Phosphoribosylamine--glycine ligase ( 53474 6.6 6 86 74 SSO3105 Thermostable carboxypeptidase 1 54807 6.17 20 401 75 SSO0366 Glutamine synthetase (glutamate amm 53372 5.61 5 74 75 SSO2766 Conserved hypothetical protein 52010 6.25 50 574 76 SSO3194 Glyceraldehyde-3-phosphate dehydro 56949 6.06 50 811 77 SSO0127 2-isopropylmalate synthase, putative 61342 6.83 15 147 77 SSO2254 Conserved hypothetical protein 54391 6.17 56 631 78 SSO0090 Lysyl-tRNA synthetase 57822 5.88 41 671 79 SSO3194 Glyceraldehyde-3-phosphate dehydro 56949 6.06 48 898 80 SSO3194 Glyceraldehyde-3-phosphate dehydro 56949 6.06 43 735 81 SSO0602 Seryl-tRNA synthetase 53328 6.79 17 227 81 SSO1842 Glyceraldehyde-3-phosphate dehydro 51630 8.35 47 586 82 SSO3117 Aldehyde dehydrogenase 52316 6.82 28 300 83 SSO0966 Conserved hypothetical protein 53145 8.23 34 240 83 SSO0997 Aspartate oxidase 54451 8.44 11 99 84 SSO1151 Conserved hypothetical protein 51736 5.17 36 461 84 SSO2912 Sulfate adenylyltransferase 47198 6.96 6 71 85 SSO0530 Serine hydroxymethyltransferase 48535 6.22 47 706 86 SSO0564 ATP synthase subunit B 51150 5.3 45 586 87 SSO0530 Serine hydroxymethyltransferase 48535 6.22 53 673 87 SSO1333 Isocitrate lyase 48946 5.68 21 137 88 SSO0530 Serine hydroxymethyltransferase 48535 6.22 42 545 89 SSO0938 Asparinase 50043 6.36 15 242 89 SSO0988 Alpha amylase 53666 5.62 13 176 90 SSO0938 Asparinase 50043 6.36 41 458 90 SSO0988 Alpha amylase 53666 5.62 31 368 90 SSO3219 Sugar phosphate nucleotydyl transfer 28549 6.24 10 143 91 SSO0938 Asparinase 50043 6.36 29 262 91 SSO0988 Alpha amylase 53666 5.62 31 404 92 SSO0957 Glutamyl-tRNA amidotransferase, sub 52864 5.78 48 571 93 SSO0755 S-adenosyl-L-homocysteine hydrolase 48965 7.11 5 70 93 SSO2471 3-isopropylmalate dehydratase, large 45514 5.64 49 589 93 SSO3163 Glycolate oxidase glcD subunit. 51409 5.48 7 87 94 SSO2471 3-isopropylmalate dehydratase, large 45514 5.64 32 401 95 SSO0755 S-adenosyl-L-homocysteine hydrolase 45936 6.3 45 680 SSO2592 Triose-phosphate isomerase 24777 6.85 9 123 96 SSO0755 S-adenosyl-L-homocysteine hydrolase 45936 6.3 56 710 97 SSO0279 Histidyl-tRNA synthetase 49113 6.16 50 648 97 SSO0569 Prolyl -tRNA synthetase 51605 8.83 30 348 97 SSO0977 2-isopropylmalate synthase 50908 6.67 9 112 98 SSO0530 Serine hydroxymethyltransferase 48535 6.22 54 667 99 SSO2586 Conserved hypothetical protein 48699 6.18 58 888 100 SSO0755 S-adenosyl-L-homocysteine hydrolase 45936 6.3 19 125 101 SSO0160 Acetylornithine aminotransferase
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