Accession start end. Bifunctional purine biosynthesis protein ADE17 [Includes: Phosphoribosylaminoimidazolecarboxamide formyltransferase

Table S1A. List of 379 unique N-terminal peptides (start position 1 or 2) identified in the proteome of the control yeast strain ( 12 C6 ), the ynata deficient strain expressing hnata ( 13 C6) and/or the ynata deficient strain ( 13 C6 15 N4 L-arginine). UniProt database primary accession number, start and end positions, corresponding peptide sequence identified with initiator Met attached, N-terminal sequence (P1 -P5 ), peptide sequence, modification status/states confirmed by MS/MS, Uniprot entry name, overall α-n-modification status, protein description, number of identified spectra (spectra #), highest Mascot ion score, threshold and, whenever a peptide matched to multiple members of a protein family (redundancy), isoforms are given from all identified unique yeast N-terminal peptides. Accession start end ID initiator Met Score of highest Identity attached Acetylation Free P1'-P5' Sequence Modification_N-term (MS/MS) Overall UNIPROT Description isoforms Spectra # scoring spectra threshold P05737 2 30 AAEKI AAEKILTPESQLKKSKAQQKTAEQVAAER prop / Ace / AcD3 ynata/hnata (partial Ac) RL7A_YEAST 60S ribosomal protein L7-A 16 66 27 Q12189 2 23 no AAGVP AAGVPKIDALESLGNPLEDAKR AcD3 100% free RPIA_YEAST Ribose-5-phosphate isomerase 2 51 28 P04650 2 8 no AAQKS AAQKSFR prop / AcD3 100% free RL39_YEAST 60S ribosomal protein L39 8 58 26 P52871 2 1 AASVP AASVPPGGQR Ace / AcD3 ynata/hnata (partial Ac) SC6B2_YEAST Protein transport protein SEB2 4 42 27 P11633 2 1 AATKE AATKEAKQPKEPKKR prop / Ace / AcD3 ynata/hnata (partial Ac) NHP6B_YEAST Non-histone chromosomal protein 6B 11 54 27 Q03790 2 12? ADLQK ADLQKQENSSR Ace ynata/hnata NUP53_YEAST Nucleoporin NUP53 1 32 28 P40040 2 1 ADYSS ADYSSLTVVQLKDLLTKR AcD3 ynata/hnata (partial Ac) THO1_YEAST Protein THO1 1 76 28 P32288 2 21 AEASI AEASIEKTQILQKYLELDQR prop / Ace / AcD3 ynata/hnata (partial Ac) GLNA_YEAST Glutamine synthetase 26 99 28 Q12434 2 15? AEEST AEESTDFSQFEEER Ace ynata/hnata GDIR_YEAST Rho GDP-dissociation inhibitor 1 93 26 P32563 2 10 (*)? AEKEE AEKEEAIFR Ace ynata/hnata VPH1_YEAST Vacuolar ATP synthase subunit a, vacuolar isoform 1 82 28 P38281 2 11 AFLNI AFLNIFKQKR Ace / AcD3 ynata/hnata (partial Ac) APD1_YEAST Actin patches distal protein 1 10 66 27 P26321 2 1 AFQKD AFQKDAKSSAYSSR prop / Ace / AcD3 <5% Ac (ynata/hnata)* RL5_YEAST 60S ribosomal protein L5 9 95 26 P17255 2 9 AGAIE AGAIENAR prop / Ace / AcD3 ynata/hnata (partial Ac) VATA_YEAST Vacuolar ATP synthase catalytic subunit A 11 62 25 Q06344 2 1 AGENP AGENPKKEGVDAR Ace / AcD3 ynata/hnata (partial Ac) ESF1_YEAST Pre-rRNA-processing protein ESF1 2 58 28 P13663 2 19 AGKKI AGKKIAGVLGATGSVGQR prop / Ace / AcD3 ynata/hnata (partial Ac) DHAS_YEAST Aspartate-semialdehyde dehydrogenase 31 111 27 P0C2H8 2 10 no AGLKD AGLKDVVTR prop / AcD3 100% free RL31A_YEAST 60S ribosomal protein L31-A P0C2H9 (2-10) 7 79 27 Q02256 2 1 AGNAN AGNANSVDEEVTR AcD3 ynata/hnata (partial Ac) PVH1_YEAST Tyrosine-protein phosphatase YVH1 2 77 28 P07245 2 16 no AGQVL AGQVLDGKACAQQFR AcD3 100% free C1TC_YEAST C-1-tetrahydrofolate synthase, cytoplasmic 1 67 28 Q99207 2 16 AGSQL AGSQLKNLKAALKAR AcD3 ynata/hnata (partial Ac) NOP14_YEAST Nucleolar complex protein 14 1 81 26 P39741 2 10 no AGVKA AGVKAYELR prop / AcD3 100% free RL35_YEAST 60S ribosomal protein L35 7 63 27 P07281 1 7? AGVSV AGVSVR AcD3 free- RS19B_YEAST 40S ribosomal protein S19-B (S16a) (RP55B) (YS16B). 1 34 27 P40850 2 13 no AIKSL AIKSLESFLFER AcD3 100% free MKT1_YEAST Protein MKT1 2 74 27 P00045 2 23 no AKEST AKESTGFKPGSAKKGATLFKTR AcD3 100% free CYC7_YEAST Cytochrome c iso-2 1 40 27 P0C2H6 2 15 no AKFLK AKFLKAGKVAVVVR AcD3 100% free RL27A_YEAST 60S ribosomal protein L27-A P0C2H7 (2-15) 12 78 24 Q04500 2 9 no AKKKS AKKKSKSR AcD3 100% free UTP14_YEAST U3 small nucleolar RNA-associated protein 14 1 46 28 P47011 2 14 no AKKVA AKKVAICTLLYSR AcD3 100% free GLG2_YEAST Glycogen synthesis initiator protein GLG2 1 53 27 P05743 2 12 no AKQSL AKQSLDVSSDR prop / AcD3 100% free RL26A_YEAST 60S ribosomal protein L26-A P53221 (2-12) 10 89 27 P53217 2 9 no AKTIK AKTIKVIR AcD3 100% free YG1I _YEAST Uncharacterized membrane protein YGR026W 1 51 27 P38805 2 15 no ALGNE ALGNEINITNKLKR AcD3 100% free RPF1_YEAST Ribosome production factor 1 1 60 27 P48563 2 13? AMNTG AMNTGGFDSMQR Ace ynata/hnata MON2_YEAST Protein MON2 1 62 26 P39516 2 9? ANDLV ANDLVQAR Ace ynata/hnata RS14B_YEAST 40S ribosomal protein S14-B 5 44 25 P38009 2 23 no ANYTK ANYTKTAILSVYDKTGLLDLAR AcD3 100% free PUR92 _ YEAST Bifunctional purine biosynthesis protein ADE17 [Includes: Phosphoribosylaminoimidazolecarboxamide formyltransferase 1 83 27 P17076 2 23 X no APGKK APGKKVAPAPFGAKSTKSNKTR prop / AcD3 100% free RL8A_YEAST 60S ribosomal protein L8-A 3 35 27 Q04373 2 12 no APLTK APLTKKTNGKR prop / AcD3 100% free PUF6_YEAST Protein PUF6 4 60 27 P04456 2 27 no APSAK APSAKATAAKKAVVKGTNGKKALKVR prop / AcD3 100% free RL25_YEAST 60S ribosomal protein L25 16 73 21 P33315 2 16? AQFSD AQFSDIDKLAVSTLR prop free- TKT2_YEAST Transketolase 2 1 57 28 P08524 2 8 ASEKE ASEKEIR prop / AcD3 ynata/hnata (partial Ac) FPPS_YEAST Farnesyl pyrophosphate synthetase UBA1 3 54 28 P43535 2 9 (*) ASIGS ASIGSQVR Ace / AcD3 ynata/hnata (partial Ac) GCN20_YEAST Protein GCN20 VPH1 2 48 27 P38011 2 10 ASNEV ASNEVLVLR prop / Ace / AcD3 ynata/hnata (partial Ac) GBLP_YEAST Guanine nucleotide-binding protein subunit beta-like protein 34 93 25 P38314 2 23? ASTSN ASTSNTFPPSQSNSSNNLPTSR Ace- Ac- YB64_YEAST Uncharacterized protein YBR214W 1 30 27 Q06819 2 10? ASVLL ASVLLPQLR AcD3 free- DIB1_YEAST Spliceosomal protein DIB1 1 40 27 Q12515 2 15? ATFNP ATFNPQNEMENQAR Ace ynata/hnata YD173_YEAST Uncharacterized protein YDL173W 4 72 26 P07259 2 20 ATIAP ATIAPTAPITPPMESTGDR prop / Ace / AcD3 ynata/hnata (partial Ac) Protein URA1 [Includes: Glutamine-dependent carbamoyl- PYR1 _ YEAST phosphate synthase 3 38 28 P40099 2 8? ATKQL ATKQLLR Ace ynata/hnata FTHC_YEAST 5-formyltetrahydrofolate cyclo-ligase 2 58 27 P33297 2 33 ATLEE ATLEELDAQTLPGDDELDQEILNLSTQELQTR AcD3 ynata/hnata (partial Ac) PRS6A_YEAST 26S protease regulatory subunit 6A 1 53 27 Q12163 2 35? ATMET ATMETTTQKDTNILKSGLKKTIGVLNEAVLQNG R Ace- Ac- NBP2_YEAST NAP1-binding protein 2 1 60 27 Q03532 2 8? ATPSN ATPSNKR prop free- HAS1_YEAST ATP-dependent RNA helicase HAS1 2 41 27 P38987 2 16? ATPST ATPSTGANNSIPAVR Ace ynata/hnata TEM1_YEAST Protein TEM1 1 29 27 P23248 2 8 no AVGKN AVGKNKR prop / AcD3 100% free RS3B_YEAST 40S ribosomal protein S1-B P33442 (2-8) 12 54 27 P36006 2 9? AVIKK AVIKKGAR prop free- MYO3_YEAST Myosin-3 1 53 27 P50861 2 19 no AVKGL AVKGLGKPDQVYDGSKIR prop / AcD3 100% free RIB4_YEAST 6,7-dimethyl-8-ribityllumazine synthase 2 42 28 O14455 2 36 AVKTG AVKTGIAIGLNKGKKVTQMTPAPKISYKKGAAS NR AcD3 ynata/hnata (partial Ac) RL36B_YEAST 60S ribosomal protein L36-B 10 33 23 P00924 2 9 no AVSKV AVSKVYAR prop / AcD3 100% free ENO1_YEAST Enolase 1 P00925 (2-9) 26 73 27 Q3E795 2 15? AVSNN AVSNNNNNNNSKER prop free- YL361_YEAST Uncharacterized protein YLR361C-A 3 114 27 P34110 2 17 no AYADS AYADSPENAIAVIKQR AcD3 100% free VPS35_YEAST Vacuolar protein sorting-associated protein 35 1 106 28 P49089 2 9 no CGIFA CGIFAAFR prop / AcD3 100% free ASNS1_YEAST Asparagine synthetase [glutamine-hydrolyzing] 1 6 40 27 Q04773 2 9 X?? DPELQ DPELQAIR NH2-? YMW4_YEAST Uncharacterized protein YMR074C 1 25 25 P06245 2 7 X?? EFVAE EFVAER NH2-? KAPB_YEAST camp-dependent protein kinase type 2 1 26 25 P05748 2 12 X no GAYKY GAYKYLEELQR prop / AcD3 100% free RL15A_YEAST 60S ribosomal protein L15-A 11 65 27 P41818 2 28 GGILK GGILKNPLALSPEQLAQQDPETLEEFR AcD3 ynata/hnata (partial Ac) GLC8_YEAST Protein GLC8 1 49 28 P53295 2 16 no GIIDK GIIDKIKAIEEEMAR AcD3 100% free YG3Y_YEAST Uncharacterized GTP-binding protein YGR173W 1 57 28 P32793 2 9? GINNP GINNPIPR prop free- YSC84_YEAST Protein YSC84 P43603 (2-9) 1 38 28 P22147 2 8 no '/ GIPKF GIPKFFR AcD3 100% free XRN1_YEAST 5'-3' exoribonuclease 1 1 38 27 Q05498 2 8 no GKAKK GKAKKTR AcD3 100% free FCF1_YEAST rrna-processing protein FCF1 1 41 28 P32827 2 7 no GKGKP GKGKPR AcD3 100% free RS23_YEAST 40S ribosomal protein S23 1 29 28

P49166 2 11 no GKGTP GKGTPSFGKR prop / AcD3 100% free RL37A_YEAST 60S ribosomal protein L37-A P51402 (2-11) 10 68 27 P38912 2 13 no GKKNT GKKNTKGGKKGR prop / AcD3 100% fre IF1A_YEAST Eukaryotic translation initiation factor 1A 19 79 27 P38999 2 34 no GKNVL GKNVLLLGSGFVAQPVIDTLAANDDINVTVACR AcD3 100% free LYS9_YEAST Saccharopine dehydrogenase [NADP+, L-glutamate-forming] 5 73 28 P18899 2 40 no GLFDK GLFDKVKQFANSNNNNNDSGNNNQGDYVTKA ENMIGEDR AcD3 100% free DDR48_YEAST Stress protein DDR48 1 52 23 Q07623 2 20 no GSEED GSEEDKKLTKKQLKAQQFR prop / AcD3 100% free NOP6_YEAST Nucleolar protein 6 3 69 27 Q12382 2 17 no GTEDA GTEDAIALPNSTLEPR AcD3 100% free HSD1_YEAST Protein HSD1 1 76 28 P14540 2 9 X no GVEQI GVEQILKR prop / NH2- / AcD3 100% free ALF_YEAST Fructose-bisphosphate aldolase 31 65 27 P14796 1 21 no IIEPS IIEPSLKALASKYNCDKSVCR AcD3 100% free RL40_YEAST 60S ribosomal protein L40 4 33 27 Q08745 2 8? LMPKE LMPKEDR prop free- RS10A_YEAST 40S ribosomal protein S10-A 1 31 28 P36118 1 6 no MAIKK MAIKKR AcD3 100% free NTR2_YEAST Pre-mRNA-splicing factor NTR2 1 29 27 P17076 1 23 X? MAPGK MAPGKKVAPAPFGAKSTKSNKTR Ace- ynatb/c RL8A_YEAST 60S ribosomal protein L8-A 1 36 28 P39523 1 1 1? MDAGL MDAGLSTMATR Ace- ynatb/c YM11_YEAST Uncharacterized protein YMR124W 2 76 25 P07149 1 7? MDAYS MDAYSTR Ace- ynatb/c FAS1_YEAST Fatty acid synthase subunit beta 1 34 27 P53079 1 9? MDEVL MDEVLPLFR Ace- ynatb/c COG1_YEAST Conserved oligomeric Golgi complex subunit 1 2 46 26 P15303 1 1 3? MDFET MDFETNEDINGVR Ace- ynatb/c SEC23_YEAST Protein transport protein SEC23 36 89 24 P33448 1 2 3? MDGMF MDGMFAMPGAAAGAASPQQPKSR Ace- ynatb/c TOM6_YEAST Mitochondrial import receptor subunit TOM6 8 79 25 P22141 1 8? MDIIL MDIILGIR Ace- ynatb/c PSB2_YEAST Proteasome component C11 13 82 26 P53629 1 1 5? MDKKK MDKKKDLLENEQFLR Ace- ynatb/c ARE2_YEAST Sterol O-acyltransferase 2 2 64 28 P36047 1 1 6? MDKNS MDKNSVNKDSEEKDER Ace- ynatb/c SDS22_YEAST Protein phosphatase 1 regulatory subunit SDS22 2 65 27 Q02821 1 1 7? MDNGT MDNGTDSSTSKFVPEYR Ace- ynatb/ IMA1_YEAST Importin subunit alpha 2 84 26 Q3E7X9 1 18? MDNKT MDNKTPVTLAKVIKVLGR Ace- ynatb/c RS28A_YEAST 40S ribosomal protein S28-A 11 86 27 P46958 1 2 1? MDNQQ MDNQQESISEDITGDLAAAVR Ace- Ac- IDS2_YEAST IME2-dependent-signaling protein 1 32 27 Q04773 1 9 X? MDPEL MDPELQAIR Ace- ynatb/c YMW4_YEAST Uncharacterized protein YMR074C 4 47 28 Q12021 1 8? MDPFL MDPFLEFR Ace- ynatb/c RAD28_YEAST Radiation-sensitive protein 28 1 39 29 Q12035 1 1 3? MDQSV MDQSVEDLFGALR Ace- ynatb/c FCF2_YEAST rrna-processing protein FCF2 2 68 27 P60010 1 2 8? MDSEV MDSEVAALVIDNGSGMCKAGFAGDDAPR Ace- ynatb/c ACT_YEAST Actin 24 115 21 P0C0X0 1 18? MDSKT MDSKTPVTLAKVIKVLGR Ace- ynatb/c RS28B_YEAST 40S ribosomal protein S28-B 12 89 27 P32598 1 1 4? MDSQP MDSQPVDVDNIIDR Ace- ynatb/c PP12_YEAST Serine!threonine-protein phosphatase PP1-2 23 81 26 Q02457 1 1 4? MDSQV MDSQVPNNNESLNR Ace- ynatb/c TBF1_YEAST Protein TBF1 4 58 26 P48363 1 1 3? MDTLF MDTLFNSTEKNAR Ace- Ac- PFD3_YEAST Prefoldin subunit 3 2 62 27 Q04007 1 1 6? MDTVG MDTVGTDAAAASINER Ace- ynatb/c YDR86_YEAST Uncharacterized protein YDR186C 1 44 27 P07250 1 8? MDTVN MDTVNNYR Ace- ynatb/c IPMK_YEAST Inositol polyphosphate multikinase 2 64 26 P06245 1 7 X? MEFVA MEFVAER Ace- ynatb/c KAPB_YEAST camp-dependent protein kinase type 2 4 42 25 P53900 1 9? MELLP MELLPQGQR Ace- ynatb/c PFD4_YEAST Prefoldin subunit 4 2 37 27 P52891 1 1 1? MELSP MELSPTYQTER Ace- ynatb/c NUP84_YEAST Nucleoporin NUP84 2 44 26 P0C0V8 1 1 5? MENDK MENDKGQLVELYVPR Ace- ynatb/c RS21A_YEAST 40S ribosomal protein S21-A Q3E754 (1-15) 18 87 27 P22216 1 1 7? MENIT MENITQPTQQSTQATQR Ace- ynatb/c RAD53_YEAST Serine!threonine-protein kinase RAD53 3 53 27 Q06053 1 8? MEQNA MEQNAEKR Ace- ynatb/c DUS3_YEAST trna-dihydrouridine synthase 3 1 52 28 P38713 1 1 4? METID METIDIQNRSFVVR Ace- ynatb/c OSH3_YEAST Oxysterol-binding protein homolog 3 1 29 26 P57743 1 1 5? METPL METPLDLLKLNLDER Ace- ynatb/c LSM3_YEAST U6 snrna-associated Sm-like protein LSm3 2 86 28 P80967 1 15 no MFGLP MFGLPQQEVSEEEKR AcD3 100% free TOM5_YEAST Mitochondrial import receptor subunit TOM5 1 50 28 P89886 1 7? MFKKF MFKKFTR Ace- ynatb/c TMA20_YEAST Translation machinery-associated protein 20 10 40 28 P05748 1 12 X?? MGAYK MGAYKYLEELQR NH2-? RL15A_YEAST 60S ribosomal protein L15-A 1 36 27 P14540 1 9 X no MGVEQ MGVEQILKR prop / AcD3 100% free ALF_YEAST Fructose-bisphosphate aldolase 5 60 27 P32909 1 8? MIAPD MIAPDSQR Ace- Ac- SMY2_YEAST Protein SMY2 1 55 28 P22214 1 9 no MIKST MIKSTLIYR AcD3 100% free SEC22_YEAST Protein transport protein SEC22 2 59 27 P25361 1 12 no MIPAP MIPAPLDASLLR AcD3 100% free YCT3_YEAST Uncharacterized protein YCR043C 1 45 28 P36007 1 1 5 MIVPT MIVPTYGDVLDASNR prop / Ace- (partial Ac) SRY1_YEAST Threo-3-hydroxyaspartate ammonia-lyase 3 67 26 P04051 1 12 no MKEVV MKEVVVSETPKR AcD3 100% free RPC1_YEAST DNA-directed RNA polymerase III subunit RPC1 2 60 28 P41940 1 13 no MKGLI MKGLILVGGYGTR prop / AcD3 100% free MPG1_YEAST Mannose-1-phosphate guanyltransferase 39 65 27 P41811 1 12 no MKLDI MKLDIKKTFSNR AcD3 100% free COPB2_YEAST Coatomer subunit beta' 2 69 28 P53622 1 13 no MKMLT MKMLTKFESKSTR AcD3 100% free COPA_YEAST Coatomer subunit alpha 2 69 28 P25635 1 16 no MKSDF MKSDFKFSNLLGTVYR AcD3 100% free PWP2_YEAST Periodic tryptophan protein 2 1 59 28 Q3E841 1 13 no MKSSI MKSSIPITEVLPR prop / AcD3 100% free YN034_YEAST Uncharacterized protein YNR034W-A 17 70 28 P04449 1 17 no MKVEI MKVEIDSFSGAKIYPGR AcD3 100% free RL24A_YEAST 60S ribosomal protein L24-A 1 44 28 P24000 1 17? MKVEV MKVEVDSFSGAKIYPGR prop free- RL24B_YEAST 60S ribosomal protein L24-B 1 71 28 Q06549 1 9 no MKVGG MKVGGIEDR AcD3 100% free CDD_YEAST Cytidine deaminase 1 35 27 Q07923 1 11 no MKVGI MKVGIIMGSVR AcD3 100% free LOT6_YEAST NAD(P)H-dependent FMN reductase LOT6 4 35 28 P47076 1 7 no MKVLE MKVLEER AcD3 100% free RPC9_YEAST DNA-directed RNA polymerase III subunit RPC9 1 32 27 P12398 1 1 0? MLAAK MLAAKNILNR Ace- ynatb/c HSP77_YEAST Heat shock protein SSC1, mitochondrial precursor 1 64 27 P39676 1 7 no MLAEK MLAEKTR prop / AcD3 100% free FHP_YEAST Flavohemoprotein 10 45 27 P32523 1 1 1? MLCAI MLCAISGKVPR Ace- ynatb/c PRP19_YEAST Pre-mRNA-splicing factor 19 1 62 28 P07284 1 19 no MLDIN MLDINQFIEDKGGNPELIR AcD3 100% free SYSC_YEAST Seryl-tRNA synthetase, cytoplasmic 2 68 28 P33327 1 8 no MLFDN MLFDNKNR prop / AcD3 100% free DHE2_YEAST NAD-specific glutamate dehydrogenase 3 40 27 Q08745 1 8 X no MLMPK MLMPKEDR prop / AcD3 100% free RS10A_YEAST 40S ribosomal protein S10-A 2 30 27 P46784 1 8 no MLMPK MLMPKQER AcD3 100% free RS10B_YEAST 40S ribosomal protein S10-B 2 41 28 P53119 1 9? MLNFT MLNFTGQTR Ace- ynatb/c HUL5_YEAST Probable E3 ubiquitin-protein ligase HUL5 2 43 25 P33749 1 1 2? MLVFG MLVFGPNSSFVR Ace- ynatb/c MSN4_YEAST Zinc finger protein MSN4 4 59 26 P28778 1 10 no MLYEL MLYELIGLVR AcD3 100% free RT06_YEAST Mitochondrial 37S ribosomal protein MRP17 1 52 28 P23202 1 17 X? MMNNN MMNNNGNQVSNLSNALR Ace- ynatb/c URE2_YEAST Protein URE2 1 52 26 P32831 1 1 1? MMSNV MMSNVANASQR Ace- ynatb/c NGR1_YEAST Negative growth regulatory protein NGR1 9 80 26 P31539 1 1 0? MNDQT MNDQTQFTER Ace- ynatb/c HS104_YEAST Heat shock protein 104 19 73 25 Q08581 1 1 0? MNEVP MNEVPTTPVR Ace- ynatb/c SLK19_YEAST Kinetochore protein SLK19 2 41 26 P38624 1 1 0? MNGIQ MNGIQVDINR Ace- ynatb/c PSB6_YEAST Proteasome component PRE3 precursor 4 68 26

P36062 1 1 2? MNGKE MNGKEVSSGSGR Ace- ynatb/c AVT3_YEAST Vacuolar amino acid transporter 3 1 58 27 P38812 1 1 1? MNISG MNISGTLNTLR Ace- ynatb/c YHQ0_YEAST Uncharacterized protein YHR100C 1 72 26 P32599 1 8 MNIVK MNIVKLQR prop / Ace- ynatb/c (partial Ac) FIMB_YEAST Fimbrin 11 41 28 P36103 1 2 0? MNKEE MNKEELLGFLLDDSIDSQKR Ace- ynatb/c YKC3_YEAST Uncharacterized protein YKL023W 2 53 28 P19736 1 7? MNLLE MNLLETR Ace- ynatb/c PRP9_YEAST Pre-mRNA-splicing factor PRP9 2 56 27 P23202 2 17 X? MNNNG MNNNGNQVSNLSNALR Ace- ynatb/c URE2_YEAST Protein URE2 2 84 26 Q03327 1 1 2? MNNNN MNNNNVTEATSR Ace- ynatb/c UGO1_YEAST Protein UGO1 2 75 26 P42939 1 1 0? MNNNV MNNNVEELLR Ace- ynatb/c YG4G_YEAST Uncharacterized protein YGR206W 1 56 26 Q03322 1 2 1? MNNSE MNNSEDPFQQVVKDTKEQLNR Ace- ynatb/c TLG1_YEAST T-SNARE affecting a late Golgi compartment protein 1 1 62 27 P53110 1 1 2? MNNSI MNNSIITDDEVR Ace- ynatb/c YGP9_YEAST Uncharacterized protein YGL159W 3 53 26 P37296 1 9? MNQEE MNQEEAIFR Ace- ynatb/c STV1_YEAST Vacuolar ATP synthase subunit a, Golgi isoform 2 62 26 P47148 1 9? MNQIL MNQILNAQR Ace- ynatb/c YJ81_YEAST Uncharacterized protein YJR111C 3 81 26 P53633 1 1 2? MNQLG MNQLGALAQVSR Ace- ynatb/c PRA1_YEAST Prenylated Rab acceptor 1 16 94 27 P25358 1 1 5? MNSLV MNSLVTQYAAPLFER Ace- ynatb/c ELO2_YEAST Elongation of fatty acids protein 2 2 98 26 P53066 1 1 7? MNTEG MNTEGASLSEQLLDAAR Ace- ynatb/c YGZ2_YEAST Ankyrin repeat-containing protein YGL242C 7 102 27 P13045 1 1 3? MNTNV MNTNVPIFSSPVR Ace- ynatb/c GAL3_YEAST Protein GAL3 2 67 27 P20433 1 1 1? MNVST MNVSTSTFQTR Ace- ynatb/c RPB4_YEAST DNA-directed RNA polymerase II subunit RPB4 6 54 26 P50874 1 1 1? MNVTT MNVTTPEVAFR Ace- ynatb/c ORC5_YEAST Origin recognition complex subunit 5 2 54 29 P00950 1 8 X no MPKLV MPKLVLVR AcD3 100% free PMG1_YEAST Phosphoglycerate mutase 1 1 29 28 P39077 1 1 4? MQAPV MQAPVVFMNASQER Ace- ynatb/c TCPG_YEAST T-complex protein 1 subunit gamma 10 86 26 P38227 1 1 4? MQAQG MQAQGSQSNVGSLR Ace- Ac- YBP3_YEAST Uncharacterized transporter YBR043C 3 69 28 Q06132 1 8? MQKTD MQKTDGIR Ace- ynatb/c SGD1_YEAST Suppressor of glycerol defect protein 1 1 44 27 P53617 1 2 8? MQQDD MQQDDDFQNFVATLESFKDLKSGISGSR Ace- ynatb/c NRD1_YEAST Protein NRD1 2 58 26 P39008 1 9? MQSMN MQSMNVQPR Ace- ynatb/c POP2_YEAST Protein POP2 2 45 26 P16861 1 1 3 MQSQD MQSQDSCYGVAFR Ace- / AcD3 ynatb/c (partial Ac) K6PF1_YEAST 6-phosphofructokinase subunit alpha 9 104 22 Q05584 1 9 no MQVKS MQVKSIKMR prop / AcD3 100% free GLO2_YEAST Hydroxyacylglutathione hydrolase, cytoplasmic isozyme 2 41 28 P06169 1 13 X no MSEIT MSEITLGKYLFER AcD3 100% free PDC1_YEAST Pyruvate decarboxylase isozyme 1 P16467 (1-13)^AP26263 (1-13) 1 71 28 P00044 1 19? MTEFK MTEFKAGSAKKGATLFKTR prop free- CYC1_YEAST Cytochrome c iso-1 2 62 28 P48415 1 8 no MTPEA MTPEAKKR prop / AcD3 100% free SEC16_YEAST COPII coat assembly protein SEC16 4 43 27 P32324 1 10 X MVAFT MVAFTVDQMR Ace- / AcD3 ynatb/c (partial Ac) EF2_YEAST Elongation factor 2 3 87 26 P40064 1 9? MYSTP MYSTPLKKR Ace- ynatb/c NU157_YEAST Nucleoporin NUP157 2 48 28 Q05905 2 7 no PALLK PALLKR prop / AcD3 100% free YL301_YEAST Uncharacterized protein YLR301W 6 47 26 P11353 2 8? PAPQD PAPQDPR prop free- HEM6_YEAST Coproporphyrinogen III oxidase 1 43 27 Q12510 2 11? PELTE PELTEFQKKR prop free- YD156_YEAST WD repeat-containing protein YDL156W 2 71 28 P47082 2 12 no PEQEP PEQEPLSPNGR AcD3 100% free AVT1_YEAST Vacuolar amino acid transporter 1 3 69 28 A6ZWL1 2 24 no PIDQE PIDQEKLAKLQKLSANNKVGGTR prop / NH2- / AcD3 100% free NACB1 _ YEAS7 Nascent polypeptide-associated complex subunit beta-1 - Saccharomyces cerevisiae (strain YJM789) (Baker's yeast Q02642 (2-24) 33 88 26 Q99190 2 8 no PITIK PITIKSR AcD3 100% free TSC13_YEAST Enoyl reductase TSC13 1 41 28 P09938 2 34 no PKETP PKETPSKAAADALSDLEIKDSKSNLNKELETLR AcD3 100% free RIR2_YEAST Ribonucleoside-diphosphate reductase small chain 1 1 30 27 P00950 2 8 X no PKLVL PKLVLVR prop / NH2- / AcD3 100% free PMG1_YEAST Phosphoglycerate mutase 1 16 41 26 P01120 2 9 no PLNKS PLNKSNIR prop / AcD3 100% free RAS2_YEAST Ras-like protein 2 precursor 2 57 27 P19454 2 14 no PLPPS PLPPSTLNQKSNR prop / AcD3 100% free CSK22_YEAST Casein kinase II subunit alpha' 6 112 28 P16120 2 9 no PNASQ PNASQVYR AcD3 100% free THRC_YEAST Threonine synthase 5 62 28 A6ZR80 2 9 no PQNDY PQNDYIER AcD3 100% free Ribosome biogenesis protein NSA2 - Saccharomyces cerevisiae NSA2_YEAS7 (strain YJM789) (Baker's yeast) P40078 (2-9) 1 40 28 P00128 2 1? PQSFT PQSFTSIAR prop free- QCR7_YEAST Cytochrome b-c1 complex subunit 7 1 53 27 P46655 2 23 no PSTLT PSTLTINGKAPIVAYAELIAAR AcD3 100% free SYEC_YEAST Glutamyl-tRNA synthetase, cytoplasmic 8 74 27 P32468 2 2 4 SAATA SAATATAAPVPPPVGISNLPNQR prop / Ace / AcD3 ynata/hnata (partial Ac) CDC12_YEAST Cell division control protein 12 6 55 28 P40013 2 9 SAGIG SAGIGESR AcD3 ynata/hnata (partial Ac) BIM1_YEAST Protein BIM1 1 59 27 A6ZT99 2 2 1 SAIPE SAIPENANVTVLNKNEKKAR prop / Ace ynata/hnata (partial Ac) NACA_YEAS7 Nascent polypeptide-associated complex subunit alpha P38879 (2-21) 3 46 28 P0C0W9 2 10 SAKAQ SAKAQNPMR prop / Ace ynata/hnata (partial Ac) RL11A_YEAST 60S ribosomal protein L11-A 6 37 27 P42940 2 8 SAKQQ SAKQQLR prop / Ace / AcD3 ynata/hnata (partial Ac) ETFB_YEAST Probable electron transfer flavoprotein subunit beta 4 58 27 P32337 2 1 0 SALPE SALPEEVNR AcD3 ynata/hnata (partial Ac IMB3_YEAST Importin subunit beta-3 1 51 28 P40159 2 2 3? SANEF SANEFYSSGQQGQYNQQNNQER Ace ynata/hnata YNU8_YEAST Uncharacterized protein YNL208W 8 71 23 Q12159 2 2 2 SANLD SANLDKSLDEIIGSNKAGSNR Ace / AcD3 ynata/hnata (partial Ac) YRA1_YEAST RNA annealing protein YRA1 4 96 28 P32835 2 31 (*) (*) SAPAA SAPAANGEVPTFKLVLVGDGGTGKTTFVKR AcD3 ynata/hnata (partial Ac) GSP1_YEAST GTP-binding nuclear protein GSP1/CNR1 2 41 27 P39954 2 2 0 SAPAQ SAPAQNYKIADISLAAFGR prop / Ace / AcD3 ynata/hnata (partial Ac) SAHH_YEAST Adenosylhomocysteinase 11 82 28 P25443 2 1? SAPEA SAPEAQQQKR prop free- RS2_YEAST 40S ribosomal protein S2 1 46 28 P23542 2 2 3 SATLF SATLFNNIELLPPDALFGIKQR AcD3 ynata/hnata (partial Ac) AATC_YEAST Aspartate aminotransferase, cytoplasmic 8 68 28 P47093 2 1 2 SATLK SATLKDYLNKR AcD3 ynata/hnata (partial Ac) LSM8_YEAST U6 snrna-associated Sm-like protein LSm8 1 57 28 Q96VH4 2 1 4 SAVAT SAVATYLKTLTAR Ace / AcD3 ynata/hnata (partial Ac) YC026_YEAST Uncharacterized protein YCL026C-B 7 98 27 P13517 2 1 4 SDAQF SDAQFDAALDLLR Ace / AcD3 ynata/hnata (partial Ac) CAPZB_YEAST F-actin-capping protein subunit beta 2 86 28 P26782 2 8 SDAVT SDAVTIR prop / Ace / AcD3 ynata/hnata (partial Ac) RS24_YEAST 40S ribosomal protein S24 6 42 27

P19211 2 2 7? SDEEH SDEEHTFENADAGASATYPMQCSALR Ace ynata/hnat IF5A1_YEAST Eukaryotic translation initiation factor 5A-1 1 26 24 P23301 2 2 7 SDEEH SDEEHTFETADAGSSATYPMQCSALR prop / Ace / AcD3 ynata/hnata (partial Ac IF5A2_YEAST Eukaryotic translation initiation factor 5A-2 3 58 20 P38701 2 2 3 SDFQK SDFQKEKVEEQEQQQQQIIKIR prop / Ace / AcD3 ynata/hnata (partial Ac) RS20_YEAST 40S ribosomal protein S20 5 86 28 P17883 2 1 8 SDIKQ SDIKQLLKEAKQELTNR AcD3 ynata/hnata (partial Ac) SKI3_YEAST Superkiller protein 3 1 67 27 Q05788 2 1 1? SDILN SDILNVSQQR Ace ynata/hnata PNPH_YEAST Purine nucleoside phosphorylase 3 65 26 Q08422 2 1 2 SDINE SDINEIEIPSR AcD3 ynata/hnata (partial Ac) YO052_YEAST AN1-type zinc finger protein YOR052C 1 95 28 P32602 2 10 (*) SDPVE SDPVELLKR prop / Ace ynata/hnata (partial Ac) SEC17_YEAST Alpha-soluble NSF attachment protein 2 52 28 P05453 2 2 8? SDSNQ SDSNQGNNQQNYQQYSQNGNQQQGNNR Ace- Ac- ERF2_YEAST Eukaryotic peptide chain release factor GTP-binding subunit 3 65 27 P16521 2 2 6 SDSQQ SDSQQSIKVLEELFQKLSVATADNR Ace / AcD3 ynata/hnata (partial Ac) EF3A_YEAST Elongation factor 3A 8 76 28 P53095 2 14 SDVLS SDVLSQYKGCSVR AcD3 ynata/hnata (partial Ac) YGU6_YEAST Uncharacterized protein YGL196W 1 64 27 Q06506 2 1 0 SDVTQ SDVTQQKKR AcD3 ynata/hnata (partial Ac) RRP9_YEAST Ribosomal RNA-processing protein 9 1 62 28 Q9P305 2 11? SEDLS SEDLSPTSSR Ace ynata/hnata IGO2_YEAST Protein IGO2 2 53 26 P35202 2 1 1 SEECI SEECIENPER AcD3 ynata/hnata (partial Ac) THI80_YEAST Thiamine pyrophosphokinase 1 43 27 A6ZTA3 2 13? SEEFI SEEFIAVSTLAR Ace ynata/hnata RIX1_YEAS7 Pre-rRNA-processing protein RIX1 P38883 (2-13) 1 31 27 P16370 2 1 1 SEEGP SEEGPQVKIR Ace / AcD3 ynata/hnata (partial Ac) RPB3_YEAST DNA-directed RNA polymerase II subunit RPB3 2 55 28 P33775 2 9 SEEKT SEEKTYKR AcD3 ynata/hnata (partial Ac) PMT1_YEAST Dolichyl-phosphate-mannose--protein mannosyltransferase 1 1 60 28 P38166 2 14? SEEPP SEEPPSDQVNSLR Ace ynata/hnata SFT2_YEAST Protein transport protein SFT2 3 93 26 P38829 2 2 0? SEFLN SEFLNENPDILEENQLPTR Ace- Ac- YHS2_YEAST UPF0195 protein YHR122W 1 41 27 P35207 2 3 2 SEGFS SEGFSSSSIQELYQSLKEITNNADVELFEDR AcD3 ynata/hnata (partial Ac) SKI2_YEAST Antiviral helicase SKI2 1 65 27 P06169 2 13 X (*) (*) SEITL SEITLGKYLFER Ace / AcD3 ynata/hnata (partial Ac) PDC1_YEAST Pyruvate decarboxylase isozyme 1 P16467 (2-13)^AP26263 (2-13) 43 76 27 P17891 2 3 0 SEKFP SEKFPPLEDQNIDFTPNDKKDDDTDFLKR AcD3 ynata/hnata (partial Ac) CLC1_YEAST Clathrin light chain 1 34 27 P33399 2 1 6 SEKPQ SEKPQQEEQEKPQSR AcD3 ynata/hnata (partial Ac) LAH1_YEAST La protein homolog 1 43 28 P47083 2 1 4? SELFG SELFGVLKSNAGR Ace- Ac- MPP10_YEAST U3 small nucleolar RNA-associated protein MPP10 1 47 27 P40056 2 1 0 SELTE SELTEAEKR prop / Ace / AcD3 ynata/hnata (partial Ac) GET2_YEAST Golgi to ER traffic protein 2 3 65 27 SENNEFQSVTESTTAPTTSNPYGPNPADYLSN Q12122 2 4 5 SENNE VKNFQLIDSTLR prop / Ace / AcD3 ynata/hnata (partial Ac) HOSM_YEAST Homocitrate synthase, mitochondrial precursor 4 48 24 Q12176 2 1 5? SENNG SENNGNPLDLSSLR Ace- Ac- MAK21_YEAST Ribosome biogenesis protein MAK21 1 66 27 P46676 2 17? SENTT SENTTAPSDNITNEQR Ace ynata/hnata SUM1_YEAST Suppressor of mar1-1 protein 1 77 26 P07262 2 3 0? SEPEF SEPEFQQAYEEVVSSLEDSTLFEQHPEYR Ace ynata/hnata DHE4_YEAST NADP-specific glutamate dehydrogenase 1 2 37 25 Q12191 2 1 1 SEQES SEQESDEVKR prop / Ace / AcD3 ynata/hnata (partial Ac) BUG1_YEAST Binder of USO1 and GRH1 protein 1 3 63 28 P00931 2 6? SEQLR SEQLR prop free- TRP_YEAST Tryptophan synthase 2 34 28 P32449 2 24? SESPM SESPMFAANGMPKVNQGAEEDVR Ace ynata/hnata AROG_YEAST Phospho-2-dehydro-3-deoxyheptonate aldolase, tyrosine-inhibited 1 73 24 Q04067 2 1 7 SEVAP SEVAPEEIIENADGSR prop / Ace / AcD3 ynata/hnata (partial Ac) EIF3G_YEAST Eukaryotic translation initiation factor 3 RNA-binding subunit 17 77 26 P20081 2 1 3 SEVIE SEVIEGNVKIDR prop / Ace / AcD3 ynata/hnata (partial Ac) FKBP_YEAST FK506-binding protein 1 22 86 27 P17709 2 12? SFDDL SFDDLHKATER Ace ynata/hnata HXKG_YEAST Glucokinase GLK1 1 54 29 P25644 2 13? SFFGL SFFGLENSGNAR Ace ynata/hnata PAT1_YEAST DNA topoisomerase 2-associated protein PAT1 2 69 26 SFIKNLLFGGVKTSEDPTGLTGNGASNTNDSN Q12091 2 4 7 SFIKN KGSEPVVAGNFFPR AcD3 ynata/hnata (partial Ac) DAP1_YEAST Damage response protein 1 1 34 27 P06843 2 1 1 SFLSK SFLSKLSQIR AcD3 ynata/hnata (partial Ac) SPT2_YEAST Protein SPT2 1 44 28 P15992 2 2 3 SFNSP SFNSPFFDFFDNINNEVDAFNR Ace / AcD3 ynata/hnata (partial Ac) HSP26_YEAST Heat shock protein 26 11 83 23 P21243 2 1 4 SGAAA SGAAAASAAGYDR prop / Ace / AcD3 ynata/hnata (partial Ac) PSA6_YEAST Proteasome component C7-alpha 12 111 26 P00546 2 10 no SGELA SGELANYKR AcD3 100% free CDC28_YEAST Cell division control protein 28 1 40 28 P43593 2 1 1 SGETF SGETFEFNIR Ace / AcD3 ynata/hnata (partial Ac) UBP6_YEAST Ubiquitin carboxyl-terminal hydrolase 6 4 44 26 P04911 2 1 9? SGGKG SGGKGGKAGSAAKASQSR Ace- Ac- H2A1_YEAST Histone H2A.1 P04912 (2-19) 20 91 27 P32458 2 12? SGIID SGIIDASSALR Ace ynata/hnata CDC11_YEAST Cell division control protein 11 1 52 28 P04451 2 1 2 SGNGA SGNGAQGTKFR prop / Ace / AcD3 ynata/hnata (partial Ac) RL23_YEAST 60S ribosomal protein L23 10 88 27 P43587 2 19? SGNQM SGNQMAMGSEQQQTVGSR Ace ynata/hnata YFH3_YEAST Uncharacterized protein YFR003C 4 99 25 P40487 2 12? SGSTE SGSTESKKQPR Ace ynata/hnata DPH1_YEAST Diphthamide biosynthesis protein 1 1 37 28 P07283 2 2 8 SIAEF SIAEFAYKEKPETLVLFDVDGTLTPAR AcD3 ynata/hnata (partial Ac) PMM_YEAST Phosphomannomutase 2 70 28 P27616 2 1 7 SITKT SITKTELDGILPLVAR prop / Ace / AcD3 ynata/hnata (partial Ac) PUR7_YEAST Phosphoribosylaminoimidazole-succinocarboxamide synthase 8 76 27 P03962 2 9 SKATY SKATYKER prop / Ace / AcD3 ynata/hnata (partial Ac) PYRF_YEAST Orotidine 5'-phosphate decarboxylase 5 52 27 P53030 2 1 0 SKITS SKITSSQVR prop / Ace / AcD3 ynata/hnata (partial Ac) RL1_YEAST 60S ribosomal protein L1 19 71 27 P34078 2 1 2 SKKFS SKKFSSKNSQR prop / Ace ynata/hnata (partial Ac) LTV1_YEAST Protein LTV1 2 53 28 P47166 2 1 0? SKKLS SKKLSLEER Ace ynata/hnata YJ9C_YEAST Uncharacterized protein YJR134C 2 62 28 P32388 2 1 9 SKVAQ SKVAQQLKFLNKISATTR AcD3 ynata/hnata (partial Ac) RM49_YEAST Mitochondrial 54S ribosomal protein MRP49 1 39 27 P22138 2 1? SKVIK SKVIKPPGQAR prop free- RPA2_YEAST DNA-directed RNA polymerase I subunit RPA2 1 49 28 P53152 2 6? SKVPR SKVPR Ace ynata/hnata MMS2_YEAST Ubiquitin-conjugating enzyme variant MMS2 1 30 25 P33331 2 2 4 SLDFN SLDFNTLAQNFTQFYYNQFDTDR Ace / AcD3 ynata/hnata (partial Ac) NTF2_YEAST Nuclear transport factor 2 14 52 20 Q05050 2 1 0? SLISA SLISAVEDR Ace- Ac- YMS1_YEAST Uncharacterized protein YMR031C 1 66 28 P53154 2 1 9 SLISI SLISILSPLITSEGLDSR AcD3 ynata/hnata (partial Ac) GUP1_YEAST Glycerol uptake protein 1 3 56 28 P33401 2 2 4 SLLID SLLIDSVPTVAYKDQKPGTSGLR prop / Ace ynata/hnata (partial Ac) PGM1_YEAST Phosphoglucomutase-1 2 40 28 Q12377 2 1 2 SLPGS SLPGSKLEEAR AcD3 ynata/hnata (partial Ac) RPN6_YEAST 26S proteasome regulatory subunit RPN6 1 52 28 P39079 2 14? SLQLL SLQLLNPKAESLR prop free- TCPZ_YEAST T-complex protein 1 subunit zeta 1 56 27 P00560 2 1 8 SLSSK SLSSKLSVQDLDLKDKR prop / Ace / AcD3 ynata/hnata (partial Ac) PGK_YEAST Phosphoglycerate kinase 13 88 28

O13563 2 1 1 SMSST SMSSTVIKFR AcD3 ynata/hnata (partial Ac) RPN13_YEAST 26S proteasome regulatory subunit RPN13 1 51 27 Q04458 2 25? SNDGS SNDGSKILNYTPVSKIDEIVEISR AcD3 free- YM00_YEAST Putative aldehyde dehydrogenase-like protein YMR110C 1 72 29 P35719 2 3 2? SNEIE SNEIELLQKQVSELQDLVKKQSLIISKTGER Ace ynata/hnata MRP8_YEAST Uncharacterized protein MRP8 1 33 26 P07703 2 11? SNIVG SNIVGIEYNR Ace ynata/hnata RPAC1_YEAST DNA-directed RNA polymerases I and III subunit RPAC1 4 58 26 P29952 2 7 SNKLF SNKLFR Ace / AcD3 ynata/hnata (partial Ac) MANA_YEAST Mannose-6-phosphate isomerase 2 39 27 Q12156 2 1 2 SNLYK SNLYKIGTETR AcD3 ynata/hnata (partial Ac) YD063_YEAST Uncharacterized protein YDR063W 1 59 28 P20436 2 1 9 SNTLF SNTLFDDIFQVSEVDPGR Ace / AcD3 ynata/hnata (partial Ac) RPAB3_YEAST DNA-directed RNA polymerases I, II, and III subunit RPABC3 3 83 26 Q06592 2 12? SNTSE SNTSEDNITVR Ace ynata/hnata HPA2_YEAST Histone acetyltransferase HPA2 1 31 27 P06367 2 8? SNVVQ SNVVQAR prop free- RS14A_YEAST 40S ribosomal protein S14-A 2 56 28 Q04869 2 1 6 SPLNV SPLNVGIVGTGIFAR AcD3 ynata/hnata (partial Ac) YM94_YEAST Uncharacterized protein YMR315W 5 76 28 Q04304 2 17 no SPMKV SPMKVAVVGASGKVGR prop / AcD3 100% free YMY0_YEAST Uncharacterized protein YMR090W 9 66 28 P04840 2 11 no SPPVY SPPVYSDISR prop / AcD3 100% free VDAC1_YEAST Outer mitochondrial membrane protein porin 1 3 45 28 Q01855 2 1 0 SQAVN SQAVNAKKR prop / Ace / AcD3 ynata/hnata (partial Ac) RS15_YEAST 40S ribosomal protein S15 20 57 28 P29547 2 1 1 SQGTL SQGTLYANFR prop / Ace / AcD3 ynata/hnata (partial Ac) EF1G1_YEAST Elongation factor 1-gamma 1 5 53 26 P36008 2 1 0 SQGTL SQGTLYINR prop / Ace ynata/hnata (partial Ac) EF1G2_YEAST Elongation factor 1-gamma 2 8 75 26 P46988 2 13? SQIAQ SQIAQEMTVSLR Ace ynata/hnata PFD1_YEAST Prefoldin subunit 1 5 75 26 P12612 2 9? SQLFN SQLFNNSR Ace ynata/hnata TCPA_YEAST T-complex protein 1 subunit alpha 1 28 26 Q06151 2 1 4 SQLPT SQLPTDFASLIKR prop / Ace / AcD3 ynata/hnata (partial Ac) DCPS_YEAST Scavenger mrna-decapping enzyme DcpS 5 65 28 P32350 2 10? SQNIQ SQNIQIGTR Ace ynata/hnata KNS1_YEAST Dual specificity protein kinase KNS1 1 65 26 Q9URQ5 2 1 4 SQNNT SQNNTISSMNPER prop / Ace ynata/hnata (partial Ac) HTL1_YEAST High temperature lethal protein 1 3 85 26 P41338 2 1 2 SQNVY SQNVYIVSTAR prop / Ace / AcD3 ynata/hnata (partial Ac) THIL_YEAST Acetyl-CoA acetyltransferase 12 80 26 P06780 2 1 0 SQQVG SQQVGNSIR prop / Ace / AcD3 ynata/hnata (partial Ac) RHO1_YEAST GTP-binding protein RHO1 precursor 8 49 27 P32356 2 1 5 SQVNT SQVNTSQGPVAQGR prop / Ace ynata/hnata (partial Ac) TREA_YEAST Neutral trehalase 9 84 26 P23292 2 2 9? SQVQS SQVQSPLTATNSGLAVNNNTMNSQMPNR Ace- Ac- KC12_YEAST Casein kinase I homolog 2 2 47 26 P14832 2 1 7 SQVYF SQVYFDVEADGQPIGR prop / Ace / AcD3 ynata/hnata (partial Ac) CYPH_YEAST Peptidyl-prolyl cis-trans isomerase 58 87 26 P02294 2 33? SSAAE SSAAEKKPASKAPAEKKPAAKKTSTSVDGKKR prop free- H2B2_YEAST Histone H2B.2 1 59 28 P22203 2 2 5 SSAIT SSAITALTPNQVNDELNKMQAFIR Ace / AcD3 ynata/hnata (partial Ac) VATE_YEAST Vacuolar proton pump subunit E 5 58 28 P40046 2 9? SSAPL SSAPLLQR Ace ynata/hnata VTC1_YEAST Vacuolar transporter chaperone 1 1 42 25 P26637 2 1 2 SSGLV SSGLVLENTAR Ace / AcD3 ynata/hnata (partial Ac) SYLC_YEAST Leucyl-tRNA synthetase, cytoplasmic 6 83 26 P46680 2 18? SSISL SSISLKEIIPPQPSTQR prop / AcD3 free- AIP1_YEAST Actin-interacting protein 1 3 51 28 Q08235 2 3 2? SSIYK SSIYKALAGKSKDNKSEKKQGNVKQFMNKQR Ace ynata/hnata BRX1_YEAST Ribosome biogenesis protein BRX1. 1 30 28 P50623 2 8 SSLCL SSLCLQR prop / Ace / AcD3 ynata/hnata (partial Ac) UBC9_YEAST SUMO-conjugating enzyme UBC9 3 42 26 Q04338 2 3 4 SSLLI SSLLISYESDFKTTLEQAKASLAEAPSQPLSQR AcD3 ynata/hnata (partial Ac) VTI1_YEAST P06787 2 3 8 SSNLT SSNLTEEQIAEFKEAFALFDKDNNGSISSSELA TVMR t-snare VTI1 (Qb-SNARE VTI1) (Vesicle transport v-snare protein VTI1)(VPS10-interacting protein 1). 1 66 28 AcD3 ynata/hnata (partial Ac) CALM_YEAST Calmodulin 4 70 26 P22515 2 21 (*)? SSNNS SSNNSGLSAAGEIDESLYSR Ace ynata/hnata UBA1_YEAST Ubiquitin-activating enzyme E1 1 2 71 26 P20676 2 13? SSNTS SSNTSSVMSSPR Ace ynata/hnata NUP1_YEAST Nucleoporin NUP1 2 56 26 P52870 2 1 1 SSPTP SSPTPPGGQR prop / Ace ynata/hnata (partial Ac) SC6B1_YEAST Protein transport protein SBH1 4 63 25 P38736 2 1 1? SSQPS SSQPSFVTIR Ace ynata/hnata GOS1_YEAST Protein transport protein GOS1 1 36 28 P07170 2 8 SSSES SSSESIR prop / AcD3 ynata/hnata (partial Ac) KAD1_YEAST Adenylate kinase cytosolic 2 68 27 P53723 2 1 5 SSSIF SSSIFGPLTGFLER AcD3 ynata/hnata (partial Ac) YN8B_YEAST Uncharacterized protein YNR021W 5 63 28 P28495 2 2 3 SSSKF SSSKFEEVINKIINDSPPGELR Ace / AcD3 ynata/hnata (partial Ac) CAPZA_YEAST F-actin-capping protein subunit alpha 3 51 28 P32327 2 11 (*) (*) SSSKK SSSKKLAGLR Ace / AcD3 ynata/hnata (partial Ac) PYC2_YEAST Pyruvate carboxylase 2 4 72 27 P54885 2 1 2 SSSQQ SSSQQIAKNAR prop / Ace / AcD3 ynata/hnata (partial Ac) PROA_YEAST Gamma-glutamyl phosphate reductase 8 79 27 Q06142 2 2 2 STAEF STAEFAQLLENSILSPDQNIR prop / AcD3 ynata/hnata (partial Ac IMB1_YEAST Importin subunit beta-1 2 70 28 P53080 2 1 2? STDTM STDTMYFNSSR Ace ynata/hnata EDC1_YEAST Enhancer of mrna-decapping protein 1 2 61 26 P21965 2 1 3 STEEQ STEEQNGVPLQR prop / Ace ynata/hnata (partial Ac) MCK1_YEAST Protein kinase MCK1 4 60 26 Q12213 2 3 0 STEKI STEKILTPESQLKKTKAQQKTAEQIAAER Ace / AcD3 ynata/hnata (partial Ac) RL7B_YEAST 60S ribosomal protein L7-B (L6) (YL8) (RP11). 2 50 27 P26781 2 1 1 STELT STELTVQSER prop / Ace / AcD3 ynata/hnata (partial Ac) RS11_YEAST 40S ribosomal protein S11 12 63 26 P28777 2 9 STFGK STFGKLFR prop / Ace / AcD3 ynata/hnata (partial Ac) AROC_YEAST Chorismate synthase 10 61 27 P32643 2 1 3 STFSA STFSASDFNSER Ace / AcD3 ynata/hnata (partial Ac) YE05_YEAST Uncharacterized protein YER175C 7 132 26 Q07532 2 1 4? STIST STISTTTAPEFIR Ace ynata/hnata IWR1_YEAST Protein IWR1 1 39 26 Q3E757 2 10 STKAQ STKAQNPMR prop / Ace / AcD3 ynata/hnata (partial Ac) RL11B_YEAST 60S ribosomal protein L11-B 11 57 27 P38910 2 1 7? STLLK STLLKSAKSIVPLMDR Ace ynata/hnata CH10_YEAST 10 kda heat shock protein, mitochondrial 5 67 28 Q07508 2 1 2? STMST STMSTPAAEQR Ace ynata/hnata LUC7_YEAST Protein LUC7 2 65 26 P32589 2 2 0 STPFG STPFGLDLGNNNSVLAVAR prop / Ace / AcD3 ynata/hnata (partial Ac) HSP7F_YEAST Heat shock protein homolog SSE1 P32590 (2-20) 28 100 27 P40529 2 1 6 STSVP STSVPVKKALSALLR Ace / AcD3 ynata/hnata (partial Ac) AGE2_YEAST Protein AGE2 4 82 26 P05150 2 1 2 STTAS STTASTPSSLR prop / Ace / AcD3 ynata/hnata (partial Ac) OTC_YEAST Ornithine carbamoyltransferase 12 57 26 P38088 2 1 0 SVEDI SVEDIKKAR Ace / AcD3 ynata/hnata (partial Ac) SYG_YEAST Glycyl-tRNA synthetase 1 4 60 27 Q03435 2 8? SVEEK SVEEKKR Ace ynata/hnata NHP10_YEAST Non-histone protein 10 1 34 28 P32342 2 15 (*)? SVKPI SVKPIDNYITNSVR Ace ynata/hnata SRP21_YEAST Signal recognition particle subunit SRP21 1 41 28 P39076 2 1 4? SVQIF SVQIFGDQVTEER Ace ynata/hnata TCPB_YEAST T-complex protein 1 subunit beta 1 81 26 P38828 2 1 2 SVSLE SVSLEQTLGFR AcD3 ynata/hnata (partial Ac) LSM12_YEAST Protein LSM12 1 52 28 P25343 2 1 2 SWEGF SWEGFKKAINR AcD3 ynata/hnata (partial Ac) RV161_YEAST Reduced viability upon starvation protein 161 1 37 28 A6ZTF2 2 1 7? SYGTI SYGTINDMNESVTNYR Ace ynata/hnata ATG22_YEAS7 Autophagy-related protein 22 P25568 (2-17) 1 43 26 P40510 2 1 5? SYSAA SYSAADNLQDSFQR Ace ynata/hnata SER33_YEAST D-3-phosphoglycerate dehydrogenase 2 2 107 26

O13297 2 12? SYTDN SYTDNPPQTKR Ace ynata/hnata CET1_YEAST mrna-capping enzyme subunit beta 2 40 28 P48570 2 31 no TAAKP TAAKPNPYAAKPGDYLSNVNNFQLIDSTLR AcD3 100% free HOSC_YEAST Homocitrate synthase, cytosolic isozyme 2 41 28 P38840 2 24 no TAGSA TAGSAPPVDYTSLKKNFQPFLSR prop / AcD3 100% free ARO9_YEAST Aromatic amino acid aminotransferase 2 2 35 28 P54860 2 18 no TAIED TAIEDILQITTDPSDTR AcD3 100% free UFD2_YEAST Ubiquitin conjugation factor E4 1 79 28 P05739 2 22 no TAQQA TAQQAPKWYPSEDVAAPKKTR AcD3 100% free RL6B_YEAST 60S ribosomal protein L6-B 1 31 28 P53265 2 22 no TASSN TASSNDDDLIFECYSDPELKR AcD3 100% free YG2W_YEAST Uncharacterized protein YGR111W 2 63 26 Q12008 2 1 TASTP TASTPSNVMTLFLLR AcD3 ynata/hnata (partial Ac) PMG2_YEAST Phosphoglycerate mutase 2 2 54 28 P38972 2 16 TDYIL TDYILPGPKALSQFR prop / Ace / AcD3 ynata/hnata (partial Ac) PUR4_YEAST Phosphoribosylformylglycinamidine synthase 5 53 28 P37303 2 18 (*) (*) TEFEL TEFELPPKYITAANDLR AcD3 ynata/hnata (partial Ac) GLY1_YEAST Low specificity L-threonine aldolase 1 35 28 P00044 2 19 TEFKA TEFKAGSAKKGATLFKTR prop / Ace / AcD3 <5% Ac (ynata/hnata)* CYC1_YEAST Cytochrome c iso-1 33 87 27 P38747 2 19? TGMES TGMESGENLENMEDILAR Ace ynata/hnata OTU2_YEAST OTU domain-containing protein 2 1 28 27 P32316 2 10 no TISNL TISNLLKQR prop / AcD3 100% free ACH1_YEAST Acetyl-CoA hydrolase 3 63 27 A6ZUA1 2 11 no TKEEI TKEEIADKKR AcD3 100% free ATP-dependent RNA helicase DBP3 - Saccharomyces cerevisiae DBP3 _ YEAS7 (strain YJM789) (Baker's yeast) P20447 (2-11) 1 71 27 P39986 2 13 no TKKSF TKKSFVSSPIVR AcD3 100% free ATC6_YEAST Probable cation-transporting ATPase 1 1 73 28 P32582 2 11 no TKSEQ TKSEQQADSR prop / AcD3 100% free CBS_YEAST Cystathionine beta-synthase 7 76 28 P53090 2 20 (*) (*) TLPES TLPESKDFSYLFSDETNAR AcD3 ynata/hnata (partial Ac) ARO8_YEAST Aromatic amino acid aminotransferase 1 3 71 27 P38067 2 18 no TLSKY TLSKYSKPTLNDPNLFR AcD3 100% free UGA2_YEAST Succinate-semialdehyde dehydrogenase [NADP+] 1 50 28 Q12454 2 18 no TLVTP TLVTPLQFSTVQPNLYR AcD3 100% free OCA6_YEAST Putative tyrosine-protein phosphatase OCA6 1 48 28 P23254 2 16 TQFTD TQFTDIDKLAVSTIR prop / AcD3 ynata/hnata (partial Ac) TKT1_YEAST Transketolase 1 7 99 28 P35181 2 12 no TQLKY TQLKYLLLVSR AcD3 100% free AP1S1_YEAST AP-1 complex subunit sigma-1 1 61 27 P40054 2 41? TSIDI TSIDINNLQNTFQQAMNMSGSPGAVCTSPTQS FMNTVPQR Ace- Ac- SERA_YEAST D-3-phosphoglycerate dehydrogenase 1 1 36 21 P21242 2 2 TSIGT TSIGTGYDLSNSVFSPDGR prop / AcD3 ynata/hnata (partial Ac) PSA3_YEAST Proteasome component C1 2 92 27 Q07825 2 1 TSKPS TSKPSTSDGR prop / Ace / AcD3 ynata/hnata (partial Ac) XPP_YEAST Putative Xaa-Pro aminopeptidase 3 43 28 P31688 2 13 TTTAQ TTTAQDNSPKKR prop / Ace / AcD3 ynata/hnata (partial Ac) TPS2_YEAST Trehalose-phosphatase 7 91 27 Q07362 2 1? TTTST TTTSTTSVDGR prop free- PBP4_YEAST Protein PBP4 1 66 27 P32790 2 9 no TVFLG TVFLGIYR AcD3 100% free SLA1_YEAST Cytoskeleton assembly control protein SLA1 2 53 27 P05745 2 36 no TVKTG TVKTGIAIGLNKGKKVTSMTPAPKISYKKGAAS NR AcD3 100% free RL36A_YEAST 60S ribosomal protein L36-A 5 58 25 P08679 2 10? TVPYL TVPYLNSNR prop / AcD3 free- CISY2_YEAST Citrate synthase, peroxisomal 2 33 28 Q3E752 2 29 no VAFLE VAFLELTSDVSQPFVIPSLSPVSQPSSR AcD3 100% free YP036_YEAST Uncharacterized protein YPR036W-A 1 49 27 P32324 2 10 X no VAFTV VAFTVDQMR AcD3 100% free EF2_YEAST Elongation factor 2 1 32 28 P05750 2 9 no VALIS VALISKKR prop / AcD3 100% free RS3_YEAST 40S ribosomal protein S3 14 50 26 P49334 2 21 no VELTE VELTEIKDDVVQLDEPQFSR AcD3 100% free TOM22_YEAST Mitochondrial import receptor subunit TOM22 1 64 28 P07172 2 7? VFDLK VFDLKR prop free- HIS8_YEAST Histidinol-phosphate aminotransferase 2 31 28 Q07527 2 13 no VGGAL VGGALICKYLPR AcD3 100% free TRM3_YEAST trna guanosine-2'-o-methyltransferase TRM3 1 49 28 Q06651 2 13 no VIKED VIKEDCINNLAR AcD3 100% free PIB1_YEAST E3 ubiquitin-protein ligase PIB1 1 65 28 P25294 2 27 no VKETK VKETKLYDLLGVSPSANEQELKKGYR prop / AcD3 100% free SIS1_YEAST Protein SIS1 10 50 28 P38968 2 9 no VKLAE VKLAEFSR prop / AcD3 100% free SEC31_YEAST Protein transport protein SEC31 2 48 27 P20424 2 9 no VLADL VLADLGKR prop / AcD3 100% free SRP54_YEAST Signal recognition particle subunit SRP54 2 59 27 Q01159 2 8 no VLAME VLAMESR AcD3 100% free MCE1_YEAST mrna-capping enzyme subunit alpha 1 40 27 Q06512 2 14 no VLLIS VLLISEIKDIAKR AcD3 100% free NOC4_YEAST Nucleolar complex protein 4 2 86 26 P16140 2 25 no VLSDK VLSDKELFAINKKAVEQGFNVKPR AcD3 100% free VATB_YEAST Vacuolar ATP synthase subunit B 7 65 26 Q02895 2 8 no VLVKQ VLVKQVR AcD3 100% free YP088_YEAST Putative aryl-alcohol dehydrogenase YPL088W 1 38 27 P02405 2 8 no VNVPK VNVPKTR AcD3 100% free RL44_YEAST 60S ribosomal protein L42 1 34 28 Q12125 2 19 no VPAES VPAESNAVQAKLAKTLQR AcD3 100% free YO164_YEAST UPF0363 protein YOR164C 1 58 28 Q06338 2 13 no VQAIK VQAIKLNDLKNR AcD3 100% free BCP1_YEAST Protein BCP1 1 78 27 P00445 2 44 no VQAVA VQAVAVLKGDAGVSGVVKFEQASESEPTTVS YEIAGNSPNAER AcD3 100% free SODC_YEAST Superoxide dismutase [Cu-Zn] 3 42 27 P05694 2 11 no VQSAV VQSAVLGFPR prop / AcD3 100% free METE _YEAST 5-methyltetrahydropteroyltriglutamate--homocysteine methyltransferase 12 63 27 P40204 2 23 no VSTPE VSTPELKKYMDKKILLNINGSR AcD3 100% free RUXG_YEAST Small nuclear ribonucleoprotein G 1 35 27 P52286 2 15 no VTSNV VTSNVVLVSGEGER prop / AcD3 100% free SKP1_YEAST Suppressor of kinetochore protein 1 2 78 28 P53720 2 15 no VTYAG VTYAGKLVLAPMVR AcD3 100% free DUS2_YEAST trna-dihydrouridine synthase 2 1 59 27 Q06090 2 8? VVKAI VVKAIAR prop free- RM51_YEAST Mitochondrial 54S ribosomal protein L51 1 45 27 P07264 2 10 no VYTPS VYTPSKGPR prop / AcD3 100% free LEU2 _YEAST 3-isopropylmalate dehydratase 6 41 28

Table S1 B. Compilation of of the N-terminal acetylation status of 616 yeast N-termini based on this study and previous studies (a) Acetylation: +, acetylated; -, not acetylated; ± partially acetylated; +(-N.D.), acetylated (non acetylated form experimentally not determined); -(+N.D.), non acetylated (acetylated form experimentally not determined); ± & -, reported to be acetylated and not acetylated; % acetylation of some proteins are presented. (b) Nat column: A, NatA substrate; B, NatB substrate; C, NatC substrate; D, NatD (Nat4p) substrate -, not acetylated; N.D., not determined. The assignments of human NatA, NatB and NatC substrates are based primarily on analogy to yeast proteins. Proteins with Ac-MQ- termini have been tentatively assigned as NatB substates. (c) Methods: CO, COFRADIC, N-terminal peptides were isolated prior to LC-MS/MS analysis by COFRADIC; MS, acetylation was determined by MS; 2D, acetylation was determined by detection of a shift of a corresponding protein spot on a 2D-gel in a mutant strain as compared to a control strain; HPLC, acetylation was determined by HPLC separation (i.e. comparative chromatographic analysis) in conjunction with peptide sequencing; a, N-terminal Edman sequencing. (14) referring to this study. (15) referring to Polevoda B, Hoskins J, Sherman F, unpublished. (*) N-terminus identified with and without initiator Met attached. Processed N-termini (such as the N- termini from mitochondrial proteins) are omitted from this list. References are indicated at the bottom of the table. P1'-P5' Acetylation (a) Nat (b) Gene accession UNIPROT Description Ref Methods (c) AAEKI ± & - A RPL7A P05737 RL7A_YEAST 60S ribosomal protein L7-A 14,1,5 2D, MS, CO AAGEQ + A GUA1 P38625 GUAA_YEAST GMP synthase [glutamine-hydrolyzing] 6,8 2D AAGVP - - RKI1 Q12189 RPIA_YEAST Ribose-5-phosphate isomerase 14 CO AAQKS - - RPL39 P04650 RL39_YEAST 60S ribosomal protein L39 14,1 MS, CO AARPQ + A CCT5 P40413 TCPE_YEAST T-complex protein 1 subunit epsilon 6,8 2D AASVP 51 % A SEB2 P52871 SC6B2_YEAST Protein transport protein SEB2 14 CO AATKE ± A NHP6B P11633 NHP6B_YEAST Non-histone chromosomal protein 6B 14 CO ADITD ± A PAB1 P04147 PABP_YEAST Polyadenylate-binding protein, cytoplasmic and nuclear 6,10,8 2D ADLQK +(-N.D.) A NUP53 Q03790 NUP53_YEAST Nucleoporin NUP53 14 CO ADQEN - - COX12 Q01 519 COX1 2_YEAST Cytochrome c oxidase polypeptide VIb 9 a ADYSS 19 % A THO1 P40040 THO1_YEAST Protein THO1 14 CO AEASI 85 % A GLN1 P32288 GLNA_YEAST Glutamine synthetase 14,3,6,10,8 2D, CO AEEST +(-N.D.) A RDI1 Q12434 GDIR_YEAST Rho GDP-dissociation inhibitor 14 CO AEGVF + A SSB1 P11484 HSP75_YEAST Heat shock protein SSB1 3,6,10,8 2D AEGVF + A SSB2 P40150 HSP76_YEAST Heat shock protein SSB2 3,6,10,8 2D AEKEE + A VPH1 P32563 VPH1_YEAST Vacuolar ATP synthase subunit a, vacuolar isoform 14,1 2D, CO AESHR + A RPL33A P05744 RL33A_YEAST 60S ribosomal protein L26-A 1 MS AFLNI 10 % A APD1 P38281 APD1_YEAST Actin patches distal protein 1 14 CO AFQKD <5% A RPL5 P26321 RL5_YEAST 60S ribosomal protein L5 14 CO AGAIE 43 % A VMA1 P17255 VATA_YEAST Vacuolar ATP synthase catalytic subunit A 14,3,6,8 2D, CO AGENP 9 % A ESF1 Q06344 ESF1_YEAST Pre-rRNA-processing protein ESF1 14 CO AGETF ± A HSC82 P15108 HSC82_YEAST ATP-dependent molecular chaperone HSC82 3,6, 10, 8 2D AGKKI 87% (± & -) A HOM2 P13663 DHAS_YEAST Aspartate-semialdehyde dehydrogenase 14,6,1 0,8 2D, CO AGLKD - - RPL31A P0C2H8 (*) RL31A_YEAST 60S ribosomal protein L31-A 14,1 MS, CO AGLKD - - RPL31B P0C2H9 (*) RL31B_YEAST 60S ribosomal protein L31-B 14,1 MS, CO AGNAN 33 % A YVH1 Q02256 PVH1_YEAST Tyrosine-protein phosphatase YVH1 14 CO AGQVL - - ADE3 P07245 C1TC_YEAST C-1-tetrahydrofolate synthase, cytoplasmic 14,9 a, CO AGSQL ± A NOP14 Q99207 NOP14_YEAST Nucleolar complex protein 14 14 CO AGTFL ± A SAM1 P10659 METK1_YEAST S-adenosylmethionine synthetase 1 3, 6,9, 8 2D, a AGVKA - - RPL35B P39741 RL35_YEAST 60S ribosomal protein L35 14 CO AGVSV - - RPS19B P07281 RS19B_YEAST 40S ribosomal protein S19-B 14,1 MS, CO AGWDI - - SAR1 P20606 SAR1_YEAST Small COPII coat GTPase SAR1 6,10,8 2D AHENV - - RPS29A P41057 (*) RS29A_YEAST 40S ribosomal protein S29-A 1 MS AHENV - - RPS29B P41058 (*) RS29B_YEAST 40S ribosomal protein S29-B 1 MS AHIPE - - LCB1 P25045 LCB1_YEAST Serine palmitoyltransferase 1 10 2D AIDYS - - CDC37 P06101 CDC37_YEAST Hsp90 co-chaperone Cdc37 6,8 2D AIKSL - - MKT1 P40850 MKT1_YEAST Protein MKT1 14 CO AKEST - - CYC7 P00045 CYC7_YEAST Cytochrome c iso-2 14,9 a, CO AKFLK - - RPL27A P0C2H6 (*) RL27A_YEAST 60S ribosomal protein L27-A 14,1 MS, CO AKFLK - - RPL27B P0C2H7 (*) RL27B_YEAST 60S ribosomal protein L27-B 14,1 MS, CO AKKKS - - UTP14 Q04500 UTP14_YEAST U3 small nucleolar RNA-associated protein 14 14 CO AKKVA - - GLG2 P47011 GLG2_YEAST Glycogen synthesis initiator protein GLG2 14 CO AKQSL - - RPL26A P05743 (*) RL26A_YEAST 60S ribosomal protein L26-A 14 CO AKQSL - - RPL26B P53221 (*) RL26B_YEAST 60S ribosomal protein L26-B 14 CO AKSKN - - RPL29 P05747 RL29_YEAST 60S ribosomal protein L29 1 MS AKTIK - - YGR026W P53217 YG1I_YEAST Uncharacterized membrane protein YGR026W 14 CO AKVHG - - RPS30A Q12087 RS30_YEAST 40S ribosomal protein S30 1 MS ALGNE - - RPF1 P38805 RPF1_YEAST Ribosome production factor 1 14 CO AMNTG +(-N.D.) A MON2 P48563 MON2_YEAST Protein MON2 14 CO ANDLV +(-N.D.) A RPS14B P39516 RS14B_YEAST 40S ribosomal protein S14-B 14 CO ANLRT - - RPL19A P05735 RL19_YEAST 60S ribosomal protein L19 1,5 2D, MS ANLRT - - RPL19B P05735 RL19_YEAST 60S ribosomal protein L19 5 2D, a ANYTK - - ADE1 7 P38009 PUR92_YEAST Bifunctional purine biosynthesis protein ADE17 14 CO APGKK - - RPL8B P29453 RL8B_YEAST 60S ribosomal protein L8-B 5 2D, a APGKK (*) - - RPL8A P17076 RL8A_YEAST 60S ribosomal protein L8-A 14,1,5 2D, MS, CO APLTK - - PUF6 Q04373 PUF6_YEAST Protein PUF6 14 CO APNTS - - RPL22A P05749 RL22A_YEAST 60S ribosomal protein L22-A 1 MS APPKK - - TIF3 P34167 IF4B_YEAST Eukaryotic translation initiation factor 4B 6,8 2D APSAK - - RPL25 P04456 RL25_YEAST 60S ribosomal protein L25 14,1,5 2D, MS, CO APVKS - - RPL30 P14120 RL30_YEAST 60S ribosomal protein L30 1 MS APVTI - - YDR380W Q06408 ARO10_YEAST Transaminated amino acid decarboxylase 6,8 2D AQEEI + A SPE3 Q12074 SPEE_YEAST Spermidine synthase 6,10,8 2D AQFSD -(+N.D.) - TKL2 P33315 TKT2_YEAST Transketolase 2 14 CO ARDLQ - - GSY1 P23337 GYS1_YEAST Glycogen [starch] synthase isoform 1 9 a AREIT - - RPL38 P49167 RL38_YEAST 60S ribosomal protein L38 1 MS ARGPK - - RPS4A P05753 RS4_YEAST 40S ribosomal protein S4 1 MS ARRPA - - RPL10 P41805 RL10_YEAST 60S ribosomal protein L10 1 MS ARTFF - - TPI1 P00942 TPIS_YEAST Triosephosphate isomerase 3,6,10,8 2D ARYGA - - RPL17A P05740 RL17A_YEAST 60S ribosomal protein L17-A 1 MS ASEKE 35 % A FPP1 P08524 FPPS_YEAST Farnesyl pyrophosphate synthetase 14 CO ASETE ± A HSP82 P02829 HSP82_YEAST ATP-dependent molecular chaperone HSP82 6,8 2D ASIGS 46 % A GCN20 P43535 GCN20_YEAST Protein GCN20 14,6,8 2D, CO ASLPH - - RPL32 P38061 RL32_YEAST 60S ribosomal protein L32 1 MS ASNEV 32 % A ASC1 P38011 GBLP_YEAST Guanine nucleotide-binding protein subunit beta-like protein 14 CO ASTAN + A YDR341C Q05506 SYRC_YEAST Arginyl-tRNA synthetase, cytoplasmic 6,10,8 2D ASTDF + A EFB1 P32471 EF1B_YEAST Elongation factor 1-beta 6,10,8 2D ASTSN + A YBR214W P38314 YB64_YEAST Uncharacterized protein YBR214W 14 CO ASVLL -(+N.D.) - DIB1 Q06819 DIB1_YEAST Spliceosomal protein DIB1 14 CO ATFNP +(-N.D.) A YDL173W Q12515 YD173_YEAST Uncharacterized protein YDL173W 14 CO

ATIAP 52 % A URA2 P07259 PYR1_YEAST Protein URA1 14 CO ATKQL +(-N.D.) A FAU1 P40099 FTHC_YEAST 5-formyltetrahydrofolate cyclo-ligase 14 CO ATLEE ± A RPT5 P33297 PRS6A_YEAST 26S protease regulatory subunit 6A 14 CO ATMET + A NBP2 Q12163 NBP2_YEAST NAP1-binding protein 2 14 CO ATPSN -(+N.D.) - HAS1 Q03532 HAS1_YEAST ATP-dependent RNA helicase HAS1 14 CO ATPST +(-N.D.) A TEM1 P38987 TEM1_YEAST Protein TEM1 14 CO AVGKN - - RPS1A P33442 (*) RS3A_YEAST 40S ribosomal protein S1-A 14,1,5 2D, MS, CO AVGKN - - RPS1B P23248 (*) RS3B_YEAST 40S ribosomal protein S1-B 14,5 2D, α, CO AVIKK -(+N.D.) - MYO3 P36006 MYO3_YEAST Myosin-3 14 CO AVKGL - - RIB4 P50861 RIB4_YEAST 6,7-dimethyl-8-ribityllumazine synthase 14 CO AVKTG ± & - A RPL36B O14455 RL36B_YEAST 60S ribosomal protein L36-B 14,1 MS, CO AVSKV - - ENO1 P00924 ENO1_YEAST Enolase 1 14,3,6,10,8 2D, CO AVSNN -(+N.D.) - YLR361C-A Q3E795 YL361_YEAST Uncharacterized protein YLR361C-A 14 CO AYADS - - VPS35 P34110 VPS35_YEAST Vacuolar protein sorting-associated protein 35 14 CO CGIFA - - ASN1 P49089 ASNS1_YEAST Asparagine synthetase [glutamine-hydrolyzing] 1 14,6,8 2D, CO CGIFA - - ASN2 P49090 ASNS2_YEAST Asparagine synthetase 6,8 2D CGILG ± N.D. ADE4 P04046 PUR1_YEAST Amidophosphoribosyltransferase 6,8 2D DPELQ N.D. N.D. YMR074C Q04773 YMW4_YEAST Uncharacterized protein YMR074C 14 CO EFVAE(*) N.D. N.D. TPK2 P06245 KAPB_YEAST camp-dependent protein kinase type 2 14 CO GAYKY (*) - - RPL15A P05748 RL15A_YEAST 60S ribosomal protein L15-A 14,1,5 2D, MS, CO GEEHK - - CDC48 P25694 CDC48_YEAST Cell division control protein 48 6,10,8 2D GGILK ± A GLC8 P41 818 GLC8_YEAST Protein GLC8 14 CO GGIRE - - RPLA0 P05317 RLA0_YEAST 60S acidic ribosomal protein P0 3,10 2D GIIDK - - YGR1 73W P53295 YG3Y_YEAST Uncharacterized GTP-binding protein YGR173W 14 CO GINNP -(+N.D.) - LSB3 P43603 (*) LSB3_YEAST LAS seventeen-binding protein 3 14 CO GINNP -(+N.D.) - YSC84 P32793 (*) YSC84_YEAST Protein YSC84 14 CO GIPKF - - KEM1 P22147 XRN1_YEAST 5'-3' exoribonuclease 1 14 CO GISRD - - RPS8A P05754 RS8_YEAST 40S ribosomal protein S8 1 MS GITVI - - RBK1 P25332 RBSK_YEAST Probable ribokinase 6,8 2D GKAKK - - FCF1 Q05498 FCF1_YEAST rrna-processing protein FCF1 14 CO GKGKP - - RPS23A P32827 RS23_YEAST 40S ribosomal protein S23 14 CO GKGTP - - RPL37A P49166 (*) RL37A_YEAST 60S ribosomal protein L37-A 14 CO GKGTP - - RPL37B P51 402 (*) RL37B_YEAST 60S ribosomal protein L37-B 14 CO GKKNT - - TIF1 1 P38912 IF1A_YEAST Eukaryotic translation initiation factor 1A 14 CO GKNVL - - LYS9 P38999 LYS9_YEAST Saccharopine dehydrogenase [NADP+, L-glutamate-forming] 14,3,6,1 0,8 2D, CO GKSHG - - RPL21A Q02753 RL21A_YEAST 60S ribosomal protein L21-A 1 MS GLFDK - - DDR48 P18899 DDR48_YEAST Stress protein DDR48 14 CO GLTTK - - GPP2 P40106 GPP2_YEAST (DL)-glycerol-3-phosphatase 2 6,8 2D GRMHS - - RPS13 P05756 RS13_YEAST 40S ribosomal protein S13 1 MS GRVIR - - RPL2A P05736 RL2_YEAST 60S ribosomal protein L2 1 MS GSEED - - NOP6 Q07623 NOP6_YEAST Nucleolar protein 6 14 CO GSRRY + A PRE9 P23638 PSA4_YEAST Proteasome component Y13 6,2,8 2D GSRSE + A CKB2 P38930 CSK2C_YEAST Casein kinase II subunit beta' 7 α GTEDA - - HSD1 Q12382 HSD1_YEAST Protein HSD1 14 CO GVEQI(*) - - FBA1 P14540 ALF_YEAST Fructose-bisphosphate aldolase 14,3,6,10,8 2D, CO IIEPS - - UBI2 P14796 RL40_YEAST 60S ribosomal protein L40 14 CO LMPKE(*) -(+N.D.) - RPS10A Q08745 RS10A_YEAST 40S ribosomal protein S10-A 14 CO MAIKK - - NTR2 P36118 NTR2_YEAST Pre-mRNA-splicing factor NTR2 14 CO MAPGK(*) +(-N.D.) N.D. RPL8A P17076 RL8A_YEAST 60S ribosomal protein L8-A 14 CO MDAGL +(-N.D.) B YMR124W P39523 YM11_YEAST Uncharacterized protein YMR124W 14 CO MDAYS +(-N.D.) B FAS1 P07149 FAS1_YEAST Fatty acid synthase subunit beta 14 CO MDEVL +(-N.D.) B COG1 P53079 COG1_YEAST Conserved oligomeric Golgi complex subunit 1 14 CO MDFET +(-N.D.) B SEC23 P15303 SEC23_YEAST Protein transport protein SEC23 14 CO MDGMF +(-N.D.) B TOM6 P33448 TOM6_YEAST Mitochondrial import receptor subunit TOM6 14 CO MDIIL + B PRE1 P22141 PSB2_YEAST Proteasome component C11 14,2 2D, CO MDKKK +(-N.D.) B ARE2 P53629 ARE2_YEAST Sterol O-acyltransferase 2 14 CO MDKNS +(-N.D.) B SDS22 P36047 SDS22_YEAST Protein phosphatase 1 regulatory subunit SDS22 14 CO MDNEV + B SUP45 P12385 ERF1_YEAST Eukaryotic peptide chain release factor subunit 1 6,8 MS MDNGT +(-N.D.) B SRP1 Q02821 IMA1_YEAST Importin subunit alpha 14 CO MDNKT + B RPS28A Q3E7X9 RS28A_YEAST 40S ribosomal protein S28-A 14,1 MS, CO MDNQQ + B IDS2 P46958 IDS2_YEAST IME2-dependent-signaling protein 14 CO MDPEL +(-N.D.) B YMR074C Q04773 YMW4_YEAST Uncharacterized protein YMR074C 14 CO MDPFL +(-N.D.) B RAD28 Q12021 RAD28_YEAST Radiation-sensitive protein 28 14 CO MDQSV +(-N.D.) B FCF2 Q12035 FCF2_YEAST rrna-processing protein FCF2 14 CO MDSEV + B ACT1 P60010 ACT_YEAST Actin 14,3 2D, CO MDSKT +(-N.D.) B RPS28B P0C0X0 RS28B_YEAST 40S ribosomal protein S28-B 14 CO MDSQP +(-N.D.) B GLC7 P32598 PP12_YEAST Serine/threonine-protein phosphatase PP1-2 14 CO MDSQV +(-N.D.) B TBF1 Q02457 TBF1_YEAST Protein TBF1 14 CO MDTLF + B PAC10 P48363 PFD3_YEAST Prefoldin subunit 3 14 CO MDTVG +(-N.D.) B YDR186C Q04007 YDR86_YEAST Uncharacterized protein YDR186C 14 CO MDTVN +(-N.D.) B ARG82 P07250 IPMK_YEAST Inositol polyphosphate multikinase 14 CO MEAHN + B RNR4 P49723 RIR4_YEAST Ribonucleoside-diphosphate reductase small chain 2 3,6,8 MS, 2D MEFVA(*) +(-N.D.) B TPK2 P06245 KAPB_YEAST camp-dependent protein kinase type 2 14 CO MEHRY + B POM152 P39685 PO152_YEAST Nucleoporin POM152 7 α MELLP +(-N.D.) B GIM3 P53900 PFD4_YEAST Prefoldin subunit 4 14 CO MELSP +(-N.D.) B NUP84 P52891 NUP84_YEAST Nucleoporin NUP84 14 CO MENDK +(-N.D.) B RPS21A P0C0V8 (*) RS21A_YEAST 40S ribosomal protein S21-A 14 CO MENDK +(-N.D.) B RPS21B Q3E754 (*) RS21B_YEAST 40S ribosomal protein S21-B 14 CO MENIT +(-N.D.) B RAD53 P22216 RAD53_YEAST Serine/threonine-protein kinase RAD53 14 CO MEQNA +(-N.D.) B DUS3 Q06053 DUS3_YEAST trna-dihydrouridine synthase 3 14 CO METID +(-N.D.) B OSH3 P38713 OSH3_YEAST Oxysterol-binding protein homolog 3 14 CO METPL +(-N.D.) B LSM3 P57743 LSM3_YEAST U6 snrna-associated Sm-like protein LSm3 14 CO METQP - - CAR1 P00812 ARGI_YEAST Arginase 6,8 2D MFGLP - - TOM5 P80967 TOM5_YEAST Mitochondrial import receptor subunit TOM5 14 CO MFKKF +(-N.D.) C TMA20 P89886 TMA20_YEAST Translation machinery-associated protein 20 14 CO MFLTR + C PUP2 P32379 PSA5_YEAST Proteasome component PUP2 2 2D MFNTT - - HAD1 P47096 3HAO_YEAST 3-hydroxyanthranilate 3,4-dioxygenase 6,8 2D MFRAG + C IMP2 P46972 IMP2_YEAST Mitochondrial inner membrane protease subunit 2 7 α MFRNN + C PRE5 P40302 PSA1_YEAST Proteasome component PRE5 2 2D MFRSV - - LYS12 P40495 LYS12_YEAST Homoisocitrate dehydrogenase, mitochondrial precursor 6,8 2D