Supplementary Table 2. Summary of putative S-nitrosylated cysteines under nitrosative stress in C. reinhardtii.

Supplementary Table 2. Summary of putative S-nitrosylated cysteines under nitrosative stress in C. reinhardtii. Accession number: accession number in UniprotKB protein database. RefSeq accession number: accession number in NCBI protein database. Cysteine number: total number of cysteines in the full-length sequence. Cysteine position: experimental S-nitrosylated cysteine found by SNOSID method. S-NO: Cysteine found as S-nitrosylated in A. thaliana (Fares et al. (2011) Proteomics investigation of endogeneous S-nitrosylation in Arabidopsis. Bioch. Biophys. Res. Commun. 416, 331-336). S-SG: Cysteine found as glutathionylated in C. reinhardtii (Zaffagnini et al. (2012) Glutathionylation in the photosynthetic model organism Chlamydomonas reinhardtii : a proteomic survey. Mol Cell Proteomics. 11, M111.014142). This table is available as an Excel file in the ProteomeXchange database with identifier PXD000569

Accession number Description Cysteine number Cysteine position S-NO sites flanking sequences S-NO S-SG P52908 14-3-3 protein 3 8 MAVDREECVYMAKLAEQAERYDE A8ILN4 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase 12 291 IRVSLTEDPEFEMDPCKRLAGLGERAWGSGL A8ICB3 20S proteasome beta subunit B, type beta 2 3 210 SGVLNDLGSGSNVDLCVITKDGVEYLRNYEY A8IHB3 26S proteasome regulatory subunit 4 402 VMAKDELSGADIKAVCTEAGLLALRERRMRV A8IV67 26S proteasome regulatory subunit 6 383 ARLCPNSTGADIRSVCTEAGMYAIRARRKTV A8J6Q7 3-deoxy-D-arabino-heptulosonate 7-phosphate synthetase 12 93 CEEIARMPPLIFAGECRTLQSRLAKASTGDA A8JEV9 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 5 201 LTDFKEKGVQMVDTTCPWVAKVWNSVDTHTR Q8SAQ6 6-phosphogluconate dehydrogenase, decarboxylating 5 310 ALKSERVAASKSFTSCVTPGPVAGVDKAQLI 338 QLINDVRAALYASKICSYAQGMNIIKAKSVE A8IAT4 acetohydroxy acid isomeroreductase 7 130 IGLRPDSPSWAEAEACGFSKTDGTLGEVFEQ 466 NPYMHARGVAFMVDNCSYTARLGSRKWAPRF A8IX80 acetohydroxyacid dehydratase 10 600 TLYKYIKNVSSASTGCVTDS A8JCR6 acetolactate synthase, small subunit 6 198 FRARVVDVGDETLSLCVTGDPGKLTAMIKVM A8JCQ8 acetyl CoA synthetase 18 427 AIRSLMSFGDQWVSQCDTSSLKLLGSVGEPI A8J933 acetylornithine aminotransferase 7 153 AKRLVENSFADKAFFCNTGTEANEGAIKFAR A8HMQ1 aconitate hydratase 10 400 KNGWPTELKAGLIGSCTNSSYEDMARAASVA X 466 FDKIGGTVLSNScGPCIGQWKRTDVPKGEAN P53498 actin 5 12 MADEGEVSALVCDNGSGMVKAGFAGDD A8IJ60 active subunit of chloroplast ClpP peptidase 5 204 IMYHKANLNRIMADYCQQPLSKIEEDTDRDR Q6UKY4 acyl-carrier protein 1 222 EADKIASVGDAINYICSNPMAK A8HS14 ADP-glucose pyrophosphorylase large subunit 15 112 PIGGAYRLIDVPMSNCINSGISKIYILTQFN X

Q9LLL6 ADP-glucose pyrophosphorylase small subunit 10 123 PLGANYRLIDIPVSNCLNSNVTKIYCLTQFN 133 IPVSNCLNSNVTKIYCLTQFNSASLNRHLSQ 237 KHRNSGAAITIAALPCAEKEASAFGLMKIDE 390 IYTMSRFLPPSKVMDCDVNMSIIGDGcVIKA A8J3Y6 AIR synthase-related protein 23 869 AAVSLRDAMLDLGVACDGGKDSLSMAAAAGG 1098 RDVWEETSFVLERLQCAEEcVAQEQAGLKTA A8JFJ2 alanine-glyoxylate transaminase 6 47 ASEEVVAVDNAARKGCDGVLEVPSRLLMGPG A8JH72 alanine-glyoxylate transaminase 9 299 YLPAVYKMVREAGGVCIADEVQTGFGRTGGH A8J4D3 alpha-amylase 6 129 WNKFGGRLAWDASAICSNNPSFGGRGNPKQG 235 LNYNQDAHRQRTVNWCDSTGGTSAAFDFTTK A8HRR9 alpha-cop 21 1250 GDFVRIGADASGLLICPSQQTR A8IU73 alternative oxidase 10 450 NICDDEMEHVKTMKACQDETVSQDIITRRED A8J173 aspartate semialdehyde dehydrogenase 4 186 MAVTPLDRVANVKRMCVSTYQAASGAGAAAM A8I8X8 ATP citrate lyase, subunit B 10 162 FKIGDTAGTLDNIVACKLHRPGSVGFVSKSG 389 FGGAIDDAARYFKAACDAGQSPSEFVEGLKK P06541 ATP synthase CF1 beta subunit 2 63 TIRAKNSAGTEMAVTCEVQQLLGDNCVRAVS 73 EMAVTCEVQQLLGDNCVRAVSMNPTEGLMRG A8IXF1 ATP-sulfurylase 10 171 VRSTLPANQDVLAFQCRNPIHKAHYELFIRA P38482 beta subunit of mitochondrial ATP synthase 3 137 MNVIGEPVDEQGPIECSEVWSIHREAPEFTE P04690 beta tubulin 2 10 12 MREIVHIQGGQCGNQIGAKFWEVVSDEH X 354 SYFVEWIPNNVKSSVCDIPPKGLKMSATFIG X A8J1S7 bifunctional aspartate kinase/homoserine dehydrogenase 17 655 NFLSSHYIPNRVIVDCTASDAPASKYMTWMQ A8I7T8 binding protein 1 4 571 AVKAKIDARNQLETYCYNMKSTVEDKMKDKI

A8IPQ9 calcium-dependent protein kinase 1 9 434 TATQILQHEWMRENGCAADQPIQLEVLSRMK A8I542 calcium-transporting ATPase, endoplasmic reticulum-type 21 204 SVAVNKGSDPVADPNCELQSKECMLFAGTAI A8IED9 centromere/microtubule binding protein 7 111 SCEAGDPKVTGNLIVCIDRATRLVKAQQAAG Q695H0 cgmp-dependent protein kinase 10 570 LANMTDPEFKELLKACEQTDYNPGEVIAVAN P00877 Chain A, Crystal Structure Of Rubisco From Chlamydomonas Reinhar 12 172 VERDKLNKYGRGLLGCTIKPKLGLSAKNYGR X 247 TGEVKGHYLNATAGTCEEMMKRAVXAKELGV 427 GNAPGAAANRVALEACTQARNEGRDLAREGG X X 459 VIRSACKWSPELAAACEVWKEIKFEFDTIDK P12113 chloroplast ATP synthase gamma chain 6 103 GVNQRVRQEDVDSPLCAVRPVKSVLLVVLTG 152 RYRELTAMGVKVNLVCVGRKGAQYFARRKQY Q66YD3 chloroplast DnaJ-like protein 10 217 VRKTTGVRKGTTPSTCPQCQGTGQVVSAVRT 220 TTGVRKGTTPSTCPQCQGTGQVVSAVRTPLG 243 SAVRTPLGTFQQVSLCPRCEGSGQISQPCTK A8IA39 chloroplast elongation factor G 12 490 LEIIVDRLRREFKVECEVGAPQVNYREGISR Q1G2Y1 chloroplast polyribonucleotide phosphorylase 12 453 THGSALFTRGETQSICVATLGSANDALRSDT Q6RBZ1 circadian RNA-binding protein CHLAMY 1 subunit C1 4 269 QVVQRFGVGSTEVLECPKTMVGRIIGKGGET Q6RBZ0 circadian RNA-binding protein CHLAMY 1 subunit C3 2 83 NITDVHVLNKGNAPGCAFVTYERWAHAEAAM A8I4S9 clathrin heavy chain 29 393 FERLFAAGQYKEAAECAAESPQGQLRTRDVM A8J5T5 COP-II coat subunit 19 769 CGGHTDQAVSYWARNCTGASGTTTEVLQNVI Q9FYV4 copper chaperone 2 13 MSTEVVLKVDMMCNGCVGAVQRVLGKLD 16 MSTEVVLKVDMMCNGCVGAVQRVLGKLDGVD Q4U0V8 coproporphyrinogen III oxidase 7 94 WERDASNPNAGYGITCVLEDGKVLEKAAANI Q9S7V1 coproporphyrinogen III oxidase 6 358 HQPKAGSPEAELLDACRNPRVWV

Q84X73 CR061 protein 5 172 VPGGIIMPDKATLSLCAIEDGEYKHDKIEFW A8J355 cystathionine gamma-synthase 8 254 ILAISRLCHAKGAFVCVDSTFATPINTRALE A8J7T7 cysteine endopeptidase 21 311 GYIRLKMGSTDAEGLCGIAMAPSYPVKTGPN X Q9FQ96 cytochrome c1 6 128 CHSMQYLHWRQLVGVCYTEEEAKALAAETEV A8HQA8 DEAD-box RNA helicase 6 202 VLAPTRELAVQIQQECQRFGASSRIKNTVVY A8ITV1 decapping enzyme complex catalytic component 4 135 GFPRGKVNEGETEATCAIREVLEETGYDIRS A8IU49 dehydrogenase 5 192 PRKSGSILRTQVAEVCVAALTEPAAANKVVE A8J8B3 diaminopimelate epimerase 8 104 LTMRIFNSDGSEPEMCGNGIRCLAKFVSDID A8HPL8 dihydrolipoamide dehydrogenase 9 122 GLKVAVIEGHDIGGTCVNRGCVPSKALLAAS A8J1T4 dihydrolipoyl dehydrogenase 8 65 YVAAIKAAQLGLSVACVEGRGALGGTCLNVG 76 LSVACVEGRGALGGTCLNVGCIPSKALLNSS 81 VEGRGALGGTCLNVGCIPSKALLNSSHMYME A8IDM1 DNA topoisomerase I 6 316 AGHEKDEDEADTVGcCTLKVENIEIMGDNKV A8JI07 dual function alcohol dehydrogenase / acetaldehyde dehydrogenase 15 163 FASEFIYNKYKHTKTCGVIEHDPAGGIQKVA 668 RVYEVPELGKKATMVCIPTTSGTGSEVTPFS A8IQV3 EF-hand and p25-alpha domain containg protein 15 124 AQLKLTAAQAASDQGCDVSATATDAGRQTCP A8JHX9 elongation factor 2 15 131 TAALRITDGALVVVDCVEGVcVQTETVLRQA 372 YEGPLDDTYATAIRNCDPNGPLMVYISKMIP X 474 LDQYITKTATITKEGCDDAFPMKAMKFSVSP 728 RRVIYAAELTAQPRLCEPVYLVEIQAPEQAL A8ISZ1 elongation factor EF-3 16 190 QITRALPDIVPAVSGCMNDSKQSVKDVATET A8J280 elongation factor-like protein 11 298 QSARCGENLRLRLSGCEETDISPGFVLSSVK A8JH98 enolase 8 23 EKHGLEKKVEEVLNLCVKEKPEEPLSFMAKA X

A8HYM2 eukaryotic initiation factor 6 42 KALERPPEYVLKYYGCELGAQTNFDKASGTS A8I232 eukaryotic initiation factor 11 403 KMSKGEVLMLNIGSMCTGARVLAVKGDLAKL A8ILL5 eukaryotic initiation factor 5 248 IKSAIRAAEATSTEECPVKMKLVAPPLYVLT A8IRV6 eukaryotic initiation factor 6 521 GRLGVRELKMLESRACNAISWSPQGRIIVLA A8IW20 eukaryotic initiation factor 8 290 GSDKPLQFRQILLNTCQDEFEGAAEAREALV A8JBN7 eukaryotic initiation factor 5 78 AQSGTGKSSMISVSTCQLVDVQQRECQVLIL A8JDV9 F1F0 ATP synthase gamma subunit 2 119 GKQNITVAVSSDRGLCGGLNSNIAKYTRALL A8JHB4 ferredoxin-dependent glutamate synthase 27 60 KQALTALGCMEHRGACSADDDSGDGAGLMTQ 901 SIDQVEPAAAIMERFCTGGMSLGAISRETHE 1344 KVKLTLTGSGGQSFGCFcVKGLEVKLVGEAN A8J6Y8 ferredoxin-nadp reductase 8 83 RSVEKITGPKATGETCHIIIETEGKIPFWEG 143 SSRYGDDFDGQTASLCVRRAVYVDPETGKED 165 VDPETGKEDPAKKGLCSNFLCDATPGTEISM 170 GKEDPAKKGLCSNFLCDATPGTEISMTGPTG Q84X68 flagella membrane glycoprotein 1B 74 349 IIAAANSTAAKAISGCVLSADGKALLVTLGA 1199 VLEVKAGTTAKGLASCSLAGTTLTVKLLGNN 1397 PFTSTVNGATLTKATCDTIVEVLNGGDATKP 2180 IKMQLPLTSNLGTVNCATTGIKVRVDDATDK 2810 SATGTITTTPATVDDCNKIVTFTPAKTLAAT 2828 IVTFTPAKTLAATSPCSVAGTTLTVNLDKAT Q6JIY9 flagellar adenylate kinase 19 382 RALDQAAQFESSIMPCKTVLFFDCPEEEMEK A8HW56 flagellar associated protein 13 77 GDTVLLKGKKRKDTVCIVLSDDTVDENKIRM 737 ENPDAMMEDEPDPVPCITKAHFEEAMKYARR A8I495 flagellar associated protein 8 54 NLLTKVGVPAENFPFCTIDPNNARVNVPDDR 184 LKSRGLKKEQLEELECAGRILEHLNKEIDVR

A8I748 flagellar associated protein 6 171 TVKLPVDFPAAVASGCAKTEGLLASDVSCDT A8I7W0 flagellar associated protein 12 29 CLAVASAAPLRNSADCVNVDLLKVTGVNVFP A8JG73 flagellar associated protein 1 85 GKMLLSAGDKTVALLCNVPKELQESYPHVKA A8IXD1 flagellar associated protein, adenosine kinase-like protein 10 231 KANGCRPRVVVFTQGCDPTIVAVGGRVSRYP A8IKQ0 fructose-1,6-bisphosphatase 9 233 MDDPQKMMEQCVMNVCQPGSRLKCAGYCLYS A8JCY4 fructose-1,6-bisphosphate aldolase 6 183 RFAKWRAVVKIGEAGCPSTTAVLENAHGLAR Q42690 fructose-1,6-bisphosphate aldolase 6 58 SKGRGILAMDESNATCGKRLDSIGVENTEEN X 142 DKGLVPLSNTNGESWCMGLDGLDKRCAEYYK 256 EGILLKPAMVTPGADCKNKAGPAKVAEYTLK X A8JBY6 gamma tubulin interacting protein 11 577 LDKGAGDVSEVQLNSCLRQAFTATNVVGGSS A8J3F9 GDP-D-mannose pyrophosphorylase 10 324 GWDSKVGAWSRLENHCVLGEDVTVKDELYLN A8HNE8 geranylgeranyl reductase 9 93 RKLRVAVIGGGPSGACAAETLAKGGVETFLL 437 VFYRSNPAREAFVELCEDSYVQKMTFDSYLY A8JHE3 global transcription factor 12 719 QEAEAAVKAGQYAMICLSDRGYGPNRAPVPS 1242 ITLGCIMMRKCHTNTCPVGVATQDPELRAKF A8IWA6 glutamate synthase, NADH-dependent 36 719 QEAEAAVKAGQYAMICLSDRGYGPNRAPVPS 1237 ITLGCIMMRKCHTNTCPVGVATQDPELRAKF 1973 GKKVVVIGGGDTGTDCIATSLRHGATSIVNL Q39566 glutamate-1-semialdehyde aminotransferase 10 127 ALKAQIDKGTSFGAPCELENVLAKMVIDRVP 287 LCFDEVMTGFRIAKGCAQEHFGITPDLTTMG E9N731 glutamyl-trna reductase binding protein 5 123 AAAVEMSNLKSGVNSCSLMVQAATQPARAVG A8I7Q4 glutaredoxin, CGFS type 4 72 KASIAKDKGTPDSPQCGFSRMACVVLNAYGV A8IYH1 glutaredoxin, CPYC type 3 71 IAGKYTVVELENRADCDAMQDALLDITGGRS A8JFT3 glyceraldehyde 3-phosphate dehydrogenase 11 144 APVKDTPAVLNVVVGCNDDKYDPAVDHIVTA

311 TDYVNDARSSIVDAACTQVIDGTMVKIYAWY A8JHS0 glyceraldehyde 3-phosphate dehydrogenase, minor splicing variant 3 272 DEDVVSSDFVTDPASCTVDAKAGIMLSPTFV A8IYT1 glyceraldehyde 3-phosphate dehydrogenase, nonphosphorylating 12 51 ISNPSTRQTAYQVQACTQDEVNKMFESAKVA A8IXZ1 glycerate kinase 4 186 GQKTALVLGISAPQGCGKTTIVEQLELLFNW A8IVM9 glycine cleavage system, P protein 17 255 KFLVSSKcHPQTIAVCQTRAEGLGLEAVVVD A8IWJ3 glycine cleavage system, T protein 6 356 DGKVVGEITSGAFSPCLKKNIAMGYVDKDFA A8IZS5 glycine-rich RNA-binding protein 2 60 GFGFVTLEANAAKSACSECDGTEFMGRTIRV 63 FVTLEANAAKSACSECDGTEFMGRTIRVNEA B2XYE5 guanine nucleotide-binding protein beta subunit-like 3 118 KYTIGEPEGHTEWVSCVRFSPMTTNPIIVSG A8JEU4 heat shock protein 70A 6 609 EVEEFEHHLKELEGVCNPIITRLYQGGAGAG Q39603 heat shock protein 70B 3 342 KHIDTQLTRAKFEEMCNDLLERCKVPVQQAL A8J3P5 heat shock protein 70E 18 556 APKKKKVKKTDVPVQCVGAcGYSKSQLDDFF 560 KKVKKTDVPVQCVGACGYSKSQLDDFFEKEC A8J1U1 heat shock protein 90A 6 545 EKKRKEELASQFEPLCRLMKDILGDKVEKVM Q66T67 heat shock protein 90C 3 656 RVEKVTVSNRLLDSPCALVTSKFGWSANMER A8JE98 heterogeneous nuclear ribonucleoprotein 1 29 MAGGVQGQIGPDGFPCVRLRGLPFDVMEGDI A8I3J7 homoserine dehydrogenase 6 343 AAEADAAGGVVRYVGCVDAENGNASVTLRTY A8I826 homoserine kinase 9 304 MMAVKEAAKAAGAYGCTISGAGPTAVAIVDD A8J841 hydroxymethylpyrimidine phosphate synthase 11 93 KAEDLTFRQAPTIADCFPDSEKMYKEVKYDD 218 RAIIPANKcHLELEPCVIGRNFMTKVNSNFG 581 PAKTAHFCSMCGPKFCSMNITQELRQMVQAE A8J3Y3 hypothetical protein CHLREDRAFT_104778 3 167 GGAAAAAAARDDNPPCNTLFVGNLSDSVDEN

A8JGP5 Ribulose bisphosphate carboxylase small chain 4 64 AYVSNESAIRFGSVSCLYYDNRYWTMWKLPM Q84X75 CR051 protein 3 54 LTKTTAREYSGRTITCNAVAPGFIASDMTAA A8II85 hypothetical protein CHLREDRAFT_114566 4 141 ARAKQQRITPDVQTGCIScASGDGK A8IS20 hypothetical protein CHLREDRAFT_128624 7 76 LEGWRAAGLDVQGIVCDVSDRAQRGELAAKV A8JBL6 hypothetical protein CHLREDRAFT_132158 12 394 DIPLKQKIFADLEKACRPDAILSTNTSTIDI Q84X77 CR027 protein 6 280 QRSPPRPAGGSSAGGCGcGSSGGGGGGCKSG A8I720 hypothetical protein CHLREDRAFT_142787 4 73 NMRRLDSLRHRVRVLCPSVEANEITTEAEAR A8IH45 hypothetical protein CHLREDRAFT_144348 20 267 YVLKGAQRTSGSTQSCCPAGNIAATLPSGRR 268 VLKGAQRTSGSTQSCCPAGNIAATLPSGRRL A8ISA5 hypothetical protein CHLREDRAFT_145585 3 223 SPMFKKGWKKTIIDMCYSPPVDGAKAVIHAA A8JIU3 hypothetical protein CHLREDRAFT_154979 2 114 AKRIESITWHLKDRGCDNFDVVEKATTSPAS A8IRL5 hypothetical protein CHLREDRAFT_156884 3 81 SAAATEGASNAVPADCVSPEGRMLVFTLADS A8HVL0 hypothetical protein CHLREDRAFT_167044 8 383 WEVTARDFADKADEVCVQSVDDIGKVYKKVQ A8IJD8 hypothetical protein CHLREDRAFT_169610 38 1864 STVSLARSTVPGEDVCIGAGTSIGEGSRVVQ A8INI0 hypothetical protein CHLREDRAFT_170113 4 312 ADLDLGYNEIKDDGACALAQALKANPEGAPR A8IT30 hypothetical protein CHLREDRAFT_171013 7 114 AELAKEHEARAAGGECGGGTGEAEcPRVRLV A8J654 hypothetical protein CHLREDRAFT_176301 5 370 AIDAVLARSTGPTGDCYSFERGN A8J7Z6 hypothetical protein CHLREDRAFT_176522 5 298 IPFDATVRISLDTNLCMIKENPEDGPSCAAT A8J725 hypothetical protein CHLREDRAFT_176621 16 86 QELIPLVKFMGNTGGCEPQAWSKDPPLVYIN A8J3W1 hypothetical protein CHLREDRAFT_184434 6 46 APMLTDEEQAAEDAACAKVIDTVFNAAKPAS

A8J538 hypothetical protein CHLREDRAFT_184707 6 46 RTALADTPANRFVNDCTNLVQEQRYEEYVTR A8J5B8 hypothetical protein CHLREDRAFT_184895 2 109 STIKAAELEAVGSAVCAKVHTVTHPGDLWLK X 248 TALEAFHHMALDHKSCLGIVDNTGKLIGSVS X Q6PLP7 hypothetical protein CHLREDRAFT_185335 47 634 WQPCKADGSGFETEGCGELTCDGKTADHGNL 639 ADGSGFETEGCGELTCDGKTADHGNLRRKGT A8HWI6 hypothetical protein CHLREDRAFT_187099 6 37 IGSDLRFGVQLQTMTCDTPKVYKIHDKLYLG A8JAG1 hypothetical protein CHLREDRAFT_193364 12 102 KVALLEKETFPRDKYCGDAVCTPAIRILEDM 107 EKETFPRDKYCGDAVCTPAIRILEDMGVLQE 216 VTSATGTVVRGRVLVCADGATSRLATKLGYC 231 CADGATSRLATKLGYCTEAPKGICSRAFIEG A8JAP7 Inosine-5'-monophosphate dehydrogenase 6 138 SKLYELKNTRGFTSVCVTDTGALGGKLLGVV 326 AGADGLRVGMGSGSICTTQEVCAVGRGQATA 332 RVGMGSGSICTTQEVCAVGRGQATAVYHVAR A8JAQ6 hypothetical protein CHLREDRAFT_193475 8 51 KTLEEVVHEAGAASGCPKAKGNLLYTVASKY A8JFZ2 hypothetical protein CHLREDRAFT_194611 51 60 ADLYGGIGDVSATGDCAGDAKALCKDVNSGD A8JJD2 hypothetical protein CHLREDRAFT_195314 5 223 GLLNRSRDIMRQGATCFPDDQVEAKKALARW A8IZ88 hypothetical protein CHLREDRAFT_205570 2 335 KALIEAMRRGASVAECVQVIESAGGSK A8JG58 hypothetical protein CHLREDRAFT_82920 9 507 VKAKLEAGQTATVSNCDGQTFEIKAGMVEIK A8ISA8 hypothetical protein CHLREDRAFT_94454 5 200 AAGSGGAAATSSGGDCRVLIYGGYSGEAVEG A8J742 hypothetical protein CHLREDRAFT_95661 1 123 TVIRQKQAIRDELQSCDATRESIRAEMRSIR A8INX1 inactive subunit of chloroplast ClpP complex 3 227 MKFTGMNQDQIEQATCRDHFMTPEQAKLEGL Q93Y52 inorganic pyrophosphatase 4 205 WKVIAISADDPKAALCNDVEDVEKHFPGEIQ A8IXE2 intraflagellar transport particle protein 80 13 82 SKKTQAGGTDVFAVACTDGSVKILSRTGRVE

Q39577 isocitrate lyase 4 165 NAYELMKALIEAGASCVHFEDQLASAKKCGH 247 DKPFMTGERTAEGFYCVRGGIDAAIARGLAY 301 AAIHAQYPGKLLAYNCSPSFNWKKLSADEIS A8JG03 isopropylmalate dehydratase, large subunit 14 270 GSAIEGMNMDERMTICNMVVEAGGKNGVIAP 402 TQKVWADVYTMPVPGCDGKTAAEIFEESGCI 444 GGPRDTFARMNEPEVCVSTTNRNFPGRMGHK X A8HYG8 isopropylmalate dehydratase, small subunit 8 109 MKTEYPIIIGGQNFGCGSSREHAPVALGAAG A8HXS9 isopropylmalate synthase 5 150 ANSLAGAQAGARQIECTINGIGERAGNASLE A8JG56 L-ascorbate peroxidase 1 105 EAAIKEVVTTEDGPLCVRLVLNDAADWDPVT A8IT07 LCIB-like gene 14 252 RIARRLAYEKINPLDCSLVDVTKAAERVISA A2SY49 light-harvesting chlorophyll-a/b binding protein Lhcb4 3 248 GAEFYRNTETDPEKRCYPGGVFDPLKLASED A2SY45 light-harvesting chlorophyll-a/b binding protein LhcbM2b 1 76 LELIHARWAMLGALGCITPELLAKNGIPFGE Q75NZ1 low-co2 inducible protein LCIC 7 360 LMAARSLADVPPGDICAGQRGSVLQEIPYGY A8J7C8 lysyl-trna synthetase, LysRS 10 84 NSDLDAEGYAQVHNECKRGDIVGVEGFPGKS 502 NMTERFELFINKREVCNAYTELNDPLKQREL A8IMZ5 magnesium chelatase subunit I 3 445 QGEVNYDFRVKISQICSDLNVDGIRGDIVTN P93106 malate dehydrogenase 5 101 PVKVTGYTGPEELGACLKGADLIVIPAGVPR A8IL08 membrane AAA-metalloprotease 4 265 QEVPETGVVFDDVAGCDGAKLELQEVVDFLK A8J3U9 mitochondrial ATP synthase subunit 5, OSCP subunit 2 157 LAYEELMLAHKKEVHCTVVTAQPLDDAERAV A8HTX7 mitochondrial F1F0 ATP synthase associated 31.2 kda protein 2 312 AAFLEDVKKVQWFDACVAENPAVGPKVTA Q96550 mitochondrial F1F0 ATP synthase, alpha subunit 5 117 ARVYGLKSVQAGELVCFDSGVKGMALNLQAD 527 TKGYLDKVPVNQITACEDVILKHVDPRLFKI

A8J236 molybdopterin biosynthesis protein 4 116 GPAPRDVTPEATEAVCSRMMPGYGEQMRAIS Q6VPQ2 MPBQ/MSBQ methyltransferase 4 123 DPNLKVVDVGGGTGFCTLGVVKTVKPENVTL A8J980 mrna export protein 6 90 ASAWKNDGSGIFLAGCDKAVRLWDLASNQAV A8JGS3 MYG1/GAMM1-like protein 7 260 YCVYQDDRDKSYRVQCVSVGPGSFENRRSLP A8HWC2 NAD malic enzyme 8 364 VMGLPPAALGQQRIVCVGAGSAGMGVARMIA A8JCP5 NAD(P) transhydrogenase 10 186 VEALAKRRATAIGMDCIPRTISRAQMFDSLS Q6V9A9 NADH:ubiquinone oxidoreductase 11 kda subunit 2 53 EMKKANPHFPILIRECAGTEASLTARYDFGA A8IHL3 NADH:ubiquinone oxidoreductase ND9 subunit 4 184 HLLSPRWNNRIRVKVCVDEVTAVPTLCKVFN 195 RVKVCVDEVTAVPTLCKVFNTANWFERETWD P93104 NADP-malate dehydrogenase 3 74 ESVSRNCKVLVVGNPCNTNALIAMENAPNIP A8J544 nucleolar protein, component of C/D snornps 5 386 SRYLANKCSIASRIDCFMDGNTNVFGEKMRE A8I9L3 nucleoredoxin 1 7 10 MSDKPADVICGDVCRRVTPEEAAAR Q39580 outer dynein arm light chain 8 2 26 KNADMSEEMQADAVDCATQALEKYNIEKDIA B1B601 Parkin-co-regulated gene product 3 35 AGKAPPAANLSGTGSCFDTTSLSPARAGAHK A8HUU9 peptidyl-prolyl cis-trans isomerase, cyclophilin-type 5 194 GSRSGETAFDVMVADCGELPAGAARAAAPRQ A8IVQ7 peptidyl-prolyl cis-trans isomerase, cyclophilin-type 8 95 FMIQGGDFVKGDGTGCVSIYGSRFPDENFIA A8JD64 peptidyl-prolyl cis-trans isomerase, cyclophilin-type 5 168 GSSSGKTRATIAIADCGQLA A8HN08 PfkB-type carbohydrate kinase 9 30 EKLRTEKLETQGGGNCANALTAAARLGLYPT A8J0N7 phosphoenolpyruvate carboxykinase, splice variant 9 52 RFTNNTKQDAAVPAPCDMQFVLDSKFTRESG

A8J8Z2 phosphoglucomutase 5 370 WKFFGNLMDAGKcSVCGEESFGTGGDHIREK 439 KQYGRNFFSRYDYEECASADADKMVAHLRDV Q94KV1 phosphoglyceromutase 7 194 VEELEAVLAELRGKGCDIAIASGGGRMQVTM P19824 phosphoribulokinase 5 47 DKDKTVVIGLAADSGCGKSTFMRRMTSIFGG X Q39615 photosystem I reaction center subunit II, 20 kda 2 121 MRQGPNLLKFGKKEQCLALTTQLRNKFKLTP B2X290 photosystem I subunit VII [Chlamydomonas moewusii] 9 11 MAHVVKIYDTCIGCTQCVRACPLDVL 14 MAHVVKIYDTCIGCTQCVRACPLDVL 17 AHVVKIYDTCIGCTQCVRACPLDVLEMPV 54 MASAPRTEDCVGCKRCETACPTDFLSVRVYL 58 PRTEDCVGCKRCETACPTDFLSVRVYLGSES Q6J213 phytoene desaturase 3 406 SRSPLLSVYADMSTTCKEYYDTEKSMLELVF Q93Z22 plasma membrane-type proton ATPase 18 345 ARMSAVEEMAGMDILCSDKTGTLTLNKLSID 516 LFDPPRHDTKDTIEYCHGQGIEVKMVTGDHL A8I8Z4 plastid ribosomal protein L1 1 575 KPPGAKGVYWKSMYVCTTMGPSLRIGVSALQ A8JAL6 plastid ribosomal protein L15 1 62 EKRKGRGYAAGQGGTCGFGNRGQKARSGPSV A8J3Z3 plastid ribosomal protein L31 1 51 KEGIHPQWFEEAKVICNGVEVMTVGGTKATY A8IYS1 plastid ribosomal protein L9 2 154 IADAIYQQTGRNVSDCEITVPEIKSVGTYEC Q70DX8 plastid ribosomal protein S1 2 168 DDGAYVEIGAKAIAFCPVTEcSFARLKTPLE A8J8M5 plastid ribosomal protein S5 5 552 ctaiigngnglvgvgcqagrevatavkralv A8JCR1 PP2A-twin subunit 11 142 DKTVKLWKVYEKKVSCLSNFNLEGRNNGGTA A8HN94 predicted protein 4 80 SLTLTHKGAEVVAQLCTKSLGGLTENDFIVA A8HNF0 predicted protein 4 222 AGAARVIAVDGSAGACDSARRIVRANGLDDR

A8HP72 predicted protein 6 76 KTQVKRALETYVKTDCPSTTAPSSTVWRCMS A8HPV5 predicted protein 1 55 APLDAARMTVDAAGTCAEAARGITQYVPKPK A8HRV2 predicted protein 13 470 TPMTEFRLESVPDMNCDALDAKTPKGEVLIR A8IBN3 predicted protein 6 188 YIPETGRGIQGATSHCLGQNFSKMFNITYED A8IFH0 predicted protein 8 307 TRLAAIEDMAGMNMLCSDKTGTLTLNKMAIQ A8IK94 predicted protein 16 827 YTYKSAREALEDDPECSNPETQALARFSGAE A8ITK6 predicted protein 7 284 DVFTVAGARGQNLVECPNCKADMIFDEYKRV A8ITU2 predicted protein 7 98 DLPKGYQISQYDEPICSGGRLEVEVDGVMKR A8IV25 predicted protein 13 190 QALPQFQKGLGTPGLCAAEGEWVEPKKDAGK A8IVG4 predicted protein 2 126 RDMVTAGQVEEARALCVAQVDEYVGKIASDF A8IXZ2 predicted protein 6 113 LVRFATDNESIGAVICKRADQLQASCVVMAK A8IYA3 predicted protein 2 90 TSEMWHPNVYDDGKVCISILHSPGDDPSGYE A8IYA5 predicted protein 10 268 KAADKAREAAELRAGCEAAVAADQPADVAKL A8IYX9 predicted protein 1 30 LTGVTRVEVQDTSGGCGAMYRIAIQAADFKG X A8IYZ6 predicted protein 3 29 KPANFLVDRAWKVKVCDFGLASNSKAQAGAG A8IZZ6 predicted protein 4 42 NGGRILYPGSDLPTACPVTEDKEWRASHDHA A8J0B3 predicted protein 8 63 ASVSFEQPDEASLVSCRFIVPHHVTKPGQQL 285 PLYEGSGDIQAKVVICNADGSPAVWEPGTTN A8J1C4 predicted protein 3 83 DELVLACRDKLSSGGCSPDGLSKVVSALPLL A8J2L0 predicted protein 6 114 AGEGADGEAPAGDFACGDCDRTFASQQGLRR

117 GADGEAPAGDFACGDCDRTFASQQGLRRHLQ A8JD33 predicted protein 6 172 EFLIKGAPGSTAELLCNASAGDPVSVSPVMG A8JDL8 predicted protein 6 52 SMHGLPTDRPKIERLCADIQSQHGVRVAYSE A8JDU0 predicted protein 6 113 GSSSTYAITHYFNKACPSQWSAVAGSPATK A8JDV3 predicted protein 4 136 LDLLEEVPYAELKALCAEAGLSAAGKKAELQ A8JF87 predicted protein 4 146 ATVTKTGAGVDVALICDGSGAGRSGKDKKDV A8JFA1 predicted protein 4 93 VYGRQMGGVPEESEGCAVcKVDTGLGGQPCY A8JGW7 predicted protein 5 326 PGVDVHDEAAVKDKLCADIAAAGDGDDASAA A8JH69 predicted protein 8 227 SEVLFLETNSERYQLCNVSISDDPKGKDLFT A8JHA6 predicted protein 4 97 NLEEYEAAKEAFEAGCALAPDNTFKTWIRKC A8JHB7 predicted protein 6 417 AQYLFQRRGPLATTGCDHGAFVRTSSSLSQP A8JHF3 predicted protein 4 235 AVRAVRHRALEQAKLCNTGGPAGELKRMEQQ A8JHJ9 predicted protein 3 109 TNMARMNGANGVSFGCVNTAAPVDPKEEPKKE A8JJI9 predicted protein 1 25 DLENVSRSAALINQSCHVRVLDIRKFLDGIY Q84X70 CR084 protein 2 117 GVEITQAALDLGAEECSKRTTDAMRDAHKKS A8HXC5 prephenate dehydratase 7 255 AQIVARQGLQGVGAICSRRAAELYGLDVLEE A8HPV3 presequence protease 19 283 LKELQETPDSPEALACIPALKLSDIPKTITK A8IS98 PRLI-interacting factor L 6 113 QLEAEPQPNQPAPGACPGQAARSVYLSIAES A8HXI4 protein phosphatase 2A regulatory subunit 9 24 LPSMVAYSLFKRLTGCEAGEEEGAAVPRDTF Q8LKK4 protofilament ribbon protein of flagellar microtubules 4 17 SGGAPPIPKLPGYTVCLPQSLSDKGFKKGQT

A8HWA8 pyridine nucleotide binding protein 1 177 PAEFEAAIGSANKIVCAVGAAEDQALNFSAP A8IW49 pyruvate phosphate dikinase 20 613 DAAEARKFGAEGIGLCRTEHMFFASEERIAT VERGRAARPDLKIGICGEQGGEPRTVAFLHE Q27YU3 radial spoke protein 11 2 89 GSGGATLTESQVTGLCQQAGIADAVVAKVME Q39586 RecName: Full=5-methyltetrahydropteroyltriglutamate--homocystein 13 172 PILIGPVTFVSLSRGCELPLDQAVARLLPTY Q9SW75 RecName: Full=60S ribosomal protein L10a 4 72 VPRPRMRVRAGDVKHCEQAGAIGVDAKGVED P12853 RecName: Full=Oxygen-evolving enhancer protein 1, chloroplastic; S 3 74 GLTYLQVKGSGIANTCPVLESGTTNLKELKA 98 NLKELKAGSYKLENFCIEPTSFTVKEESQFK Q6R2V6 RecName: Full=Phosphoenolpyruvate carboxylase 2; Short=PEP car 12 123 GVRRDRATREPNPNSCDAVFARLITEGVDPE P41758 RecName: Full=Phosphoglycerate kinase, chloroplastic; Flags: Precu 5 411 TVSIANTLAGLTPKGCITIIGGGDSVAAVEQ X P23489 RecName: Full=Ribulose bisphosphate carboxylase/oxygenase activa 4 196 TRYREASDIIKKGRMCSLFINDLDAGAGRMG 289 EKYYWNPTREDRIGVCMGIFQEDNVQRREVE P46284 RecName: Full=Sedoheptulose-1,7-bisphosphatase, chloroplastic; Al 10 355 CDGKAVSALDIPILVCDQRTQICYGSIGEVR 362 ALDIPILVCDQRTQICYGSIGEVRRFEEYMY P09205 RecName: Full=Tubulin alpha-2 chain 11 376 TVVPGVDLAKVQRAVCMISNSTAIGEIFSRL A8J597 ribosomal protein L12, component of cytosolic 80S ribosome and 60 4 14 MPPKFDPSDVVEVCVRVTGGEVGAASSLA 142 ANGCKEILGTAVSVGCKVDGKDPRDVISAID A8IKZ2 ribosomal protein L18, component of cytosolic 80S ribosome and 60 4 119 FTETARARITKAGGECLTFDQLALQRPTGKD A8HN50 ribosomal protein L18a, component of cytosolic 80S ribosome and 6 2 66 RKLRRVKKANGQIIACNEIFERKPTLAKNYG A8JI94 ribosomal protein L22, component of cytosolic 80S ribosome and 60 1 25 AKGAAKKKALVFTIDCSKPVEDKIMDISSFE A8J9W0 ribosomal protein L23, component of cytosolic 80S ribosome and 60 3 28 KFRMALGLPVAAVMNCADNTGAKNLYVISVV 57 VVGWGSRLNKLPAAACGDMVMASVKKGKPDL

A8J239 ribosomal protein L23a, component of cytosolic 80S ribosome and 6 1 130 VNTLIRPDGQKKAYVCLTADYDALDVANKIG A8ICT1 ribosomal protein L30, component of cytosolic 80S ribosome and 60 4 86 GVHHYGGNNVDLGTACGKYYRVSVLAITDPG Q8GUQ9 ribosomal protein L38, component of cytosolic 80S ribosome and 60 2 46 TTKFKVRCSKYLYTLCVADSDKADKLKQSLP A8IVK1 ribosomal protein L8, component of cytosolic 80S ribosome and 60S 4 114 GNVKPLGDMPEGTIVCNVEEKAGDRGALARC A8JHC3 ribosomal protein S11, component of cytosolic 80S ribosome and 40 4 128 PCFRVREGDSVVIGQCRPLSKTVRFNVLRVT A8IGY1 ribosomal protein S13, component of cytosolic 80S ribosome and 40 2 38 PSWCKTTGAEVQEMICKFARKGMTPSQIGIV A8HVP2 ribosomal protein S18, component of cytosolic 80S ribosome and 40 2 60 VCKKAEVDLRKRAGECSADELERMMGIVANP A8HME4 ribosomal protein S2, component of cytosolic 80S ribosome and 40S 5 208 ARTPKKVLQMAGIEDCYTCSRGSTKTLGNFV 211 PKKVLQMAGIEDCYTCSRGSTKTLGNFVRAT A8IS22 ribosomal protein S26, component of cytosolic 80S ribosome and 40 2 56 RNIVDASALRDMQEACVVDNYALPKIYRKVY A8HVK4 ribosomal protein S27a, component of cytosolic 80S ribosome and 4 5 YKVDDSGKVQRLRKQCPNcGPGTFMATHFDR A8HS48 ribosomal protein S3a, component of cytosolic 80S ribosome and 40 5 201 AKFIPESIGKDIEKSCQGIYPLQNTFIRKVK A8J2I5 ribosomal protein S5, component of cytosolic 80S ribosome and 40S 3 161 GAREAAFRNIKTIAECLADELVNAAKGSSNR X X A8J1G8 ribosomal protein S6, component of cytosolic 80S ribosome and 40S 3 102 YGRRKGERRRKSVRGCIVSPDLAVLNLVIVK X A8IB25 ribosomal protein Sa, component of cytosolic 80S ribosome and 40S 5 18 LSQKEQDIQMMLAAQCHLGTKNCHYQMERYM A8I9I9 rieske ferredoxin 5 KTALFTAEVKDKCVICPAHGTAFDVKTGEVK A8IBR0 RNA binding rrna processing protein 8 169 VVVRSAGDKRNVLVGCGPGDVAGAVTKEADA A8IXE0 S-Adenosyl homocysteine hydrolase 11 41 LEIDLAEAEMPGLMACRSEFGPAQPFKGAKI X A8HYU5 S-Adenosylmethionine synthetase 9 23 LYTSESVNEGHPDKICDQVSDAVLDACLEQD 34 PDKICDQVSDAVLDACLEQDPDSKVACETCC 76 TTKAKVDYEAIVRKVCKEIGFTSEDVGLDAD

93 EIGFTSEDVGLDADKCKVLVHIEEQSPDIGQ A8JFZ0 serine glyoxylate aminotransferase 7 191 VHNETTTGVTSDIAGCRKAMDAAGHPALLLV A8JFK4 serine hydroxymethyltransferase 2 7 DLRPEGVTGSKMEKACDLCHITLNKNAVVGD A8J4R9 serine hydroxymethyltransferase 3 6 89 SENFTSKAVMQALGSCMTNKYSEGRPNARYY 341 NTEEFRTYQKQVVANCSALCGRLQQHGYKIV A8JHT4 serine/threonine protein kinase 9 218 LAKGSAETGMVEAYMCAKVKRNPLVASSCAE A8I848 seryl trna synthetase 2 49 MPGLQRYGEISSASNCTDYQSRRLNIRYSGG A8IRT6 seryl-trna synthetase 8 365 EAWFPASATFRELVSCSNcLDYQSRRLDVRL A8HNU4 signal peptide peptidase-like protein 5 415 KATSRQVADATADAACNAYDRIADQEALQRE A8I9S6 spliceosome component, nuclear pre-mrna splicing factor 9 3 MFCSISGTVPEQGVVSTK A8J4I2 SR protein factor 3 107 GGPGGPGGREMRcYECGEIGHIARDCRNMRG A8IJ34 sterol-c24-methyltransferase 3 227 FKENTFDGAYAIEATCHAPKLEQVYGEIYRV B2XYH3 striated fiber assemblin 1 24 DIEHLATSLVGKVNECVAAIDEERNGRVQEQ A8JIJ1 subunit of exon junction complex 11 206 DECDKMLEKLDMRADCQEIFKLTPHEKQVMM A8HQF0 subunit of retromer complex 11 631 GSEHRDALTAAATAGCMRLVARREQCRALCA A8JH66 subunit of the signal recognition particle 11 189 KVKPRDSFEVAFNRSCGLVEAGQLASAEGEL A8HP06 succinate dehydrogenase subunit A 12 76 LRAAVGLSELGFNTACITKLFPTRSHTVAAQ 260 GGYGRAYFSATSAHTCTGDGNAMAARAGIPL A8IQ09 succinate-coa ligase beta chain, minor isoform 4 189 AKQIKALYTLFDKSDCTMVEVNPLAEGLDGS A8II42 T-complex protein 1, gamma subunit 13 351 EIKESDIGTGAGLFECVKIGDEFFTFIVDCK 454 VGVAMEVIPRTLAQNCGANVIRTLTKLRAKH

A8J7J2 T-complex protein, epsilon subunit 11 489 KKRQLEEKNPYLGIDCNDTGTNDMREQNVFE 520 TVMGKKQQLFLATQVCKMILKIDDVIKPSDY A8IYP6 thioredoxin h2 4 75 FLKVDVDELADVAGECGVKAMPTFIGYFNGE Q84XS0 thioredoxin o 4 67 SAKLADVAGSGSLMICDFTAKWCGPCRMIAP A8HZZ1 threonine synthase 8 333 MCKELGLVDKMPRLVCAQAQNANPLYQAFSK 472 QSKVAYHSKQVPGMTCQFANPPVQVREDLGA A8J1M9 thylakoid lumenal 17.4 kda protein 4 165 VWEDALIGSQDVGKLCENPTLTGESRAQVGC A8IAN1 transketolase 13 582 TTIALSRQNMPNIPNCSVEGVAKGAYTIHDT C0LL59 translation elongation factor-like protein 4 104 DFIKNMISGAAQADVCLLMVPADGNFTTAIQ A8ISB6 transmembrane protein of CMA family 20 53 YKFSGSGTNTTLTGSCLLSKDFTNQDYCNYA Q5S7Y5 triose phosphate isomerase 7 245 DKLRIIYGGSVSDTNCKDLSKQEDIDGFLVG X 273 LVGGASLKGAAFVTICNAAGPKAKP O64991 tryptophan synthase beta 6 175 AETGAGQHGVATATICARLGLKCIVYMGAKD A2PZB5 UDP-glucose 4-epimerase like protein 3 139 HVSAVVKTLATPDLGCTPINLGTGKGTSVLE A2PZC3 UDP-glucose dehydrogenase 12 273 IGPKFLNASVGFGGSCFQKDILNLCYVCESV A2PZC2 UDP-Glucose:protein transglucosylase 9 244 GRYDDMWAGWCTKVICDHLGVGCKTGLPYVW A8IW47 vacuolar ATP synthase subunit E 3 200 CCGGVVLISGDGRINCSNTLDDRLKIAYQAN X X A8I164 vacuolar ATP synthase, subunit A 10 118 IAIDSGDVFIPRGVACPSLDIVKQWEFQPKG 304 MTLPDGREESIMKRTCLVANTSNMPVAAREA A8J1K0 vacuolar proton translocating ATPase subunit A 8 517 NDFGEPITNTIDPRDCQMVYEGVLKMPPDSA A8I647 zeta-carotene desaturase 13 555 DYIDSMEGATLSGRQCAYSILNATPGIQKSL