Understanding the physiological roles of polyhydroxybutyrate (PHB) in Rhodospirillum rubrum S1 under aerobic chemoheterotrophic conditions

Applied Microbiology and Biotechnology

Tanja Narancic, Elisa Scollica, Shane T. Kenny, Helena Gibbons, Eibhlin Carr, Lorraine

Brennan, Gerard Cagney, Kieran Wynne, Cormac Murphy, Matthias Raberg, Daniel

Heinrich, Alexander Steinbüchel, Kevin E. O’Connor*

*Corresponding author: Professor Kevin E. O’Connor, School of Biomolecular and Biomedical Sciences, Earth Institute, O’Brien Centre for Science, University College Dublin, Belfield, Dublin 4, Ireland Telephone: +353 1 716 2198; Fax: +353 1 716 1183; E-mail: kevin.oconnor@ucd.ie

1

T24 T30 T72 T30 T72Q2RN35 Uncharacterizedprotein 0.2 ND ND ND NDQ2RNN3 Transcriptionalregulator,AsnC 1.0 ND ND ND NDQ2RPL3 Diguanylatecyclase/phosphodiesterase 0.6 ND ND ND NDQ2RRN9 Responseregulatorreceivermodulateddiguanylatecyclase/phosphodiesterasewithPAS/PACsensor(S) 1.4 ND ND ND NDQ2RPU6 RibonucleaseH ND 1.8 ND ND NDQ2RNY8 PAS/PACsensorsignaltransductionhistidinekinase ND 1.2 ND ND NDQ2RPS5 PermeaseYjgP/YjgQ ND 1.1 ND ND NDQ2RQ22 ChlorophyllidereductasesubunitZ ND 0.1 ND ND NDQ2RQH8 Multi-sensorhybridhistidinekinase/cellcyclecontrolhistidinekinaseCckA ND 10.5 ND ND NDQ2RQK8 Transcriptionalregulator,MarRfamily ND 0.1 ND ND NDQ2RUW2 Twocomponenttranscriptionalregulator,wingedhelixfamily ND 4.4 ND ND NDQ2RVX6 Histidinekinase ND 1.2 ND ND NDQ2RWQ3 Uncharacterizedprotein ND 0.3 ND ND NDQ2RXI2 Hemeoxygenase ND 1.5 ND ND NDQ2RYE4 Uncharacterizedprotein ND 1.9 ND ND NDQ2RTH1 CondensinsubunitScpB ND ND 0.2 ND NDQ2RTU3 Transcriptionalregulator,LysRfamily ND ND 0.2 ND NDQ2RU56 Molybdenum-pterinbindingprotein ND ND 0.2 ND NDQ2RUW9 Uncharacterizedprotein ND ND 1.0 ND NDQ2RVG0 5-formyltetrahydrofolatecyclo-ligase ND ND 1.6 ND NDQ2RVL2 Ethanolamineammonia-lyaseheavychain ND ND 0.2 ND NDQ2RVS9 (2Fe-2S)-bindingprotein ND ND 1.2 ND NDQ2RVZ8 Uncharacterizedprotein ND ND 0.7 ND NDQ2RWA4 Cysteinesynthase ND ND 1.6 ND NDQ2RWF0 Signaltransductionhistidinekinase ND ND 1.0 ND NDQ2RWH2 Uncharacterizedprotein ND ND 0.4 ND NDQ2RWW4 Uncharacterizedprotein ND ND 1.2 ND NDQ2RWX0 RibosomalRNAsmallsubunitmethyltransferaseE ND ND 1.3 ND NDQ2RX79 Transcriptionalregulator,LysRfamily ND ND 0.9 ND NDQ2RXJ9 CRISPR-associatedprotein,Cse1family ND ND 5.4 ND NDQ2RY31 Exodeoxyribonuclease7largesubunit ND ND 0.4 ND NDQ2RY58 PeptidaseS13,D-Ala-D-AlacarboxypeptidaseC ND ND 0.2 ND NDQ2RYF7 CytochromeCbiogenesisprotein ND ND 0.8 ND NDQ2RT12 Uroporphyrinogen-IIIC-methyltransferase ND ND ND 0.8 NDQ2RT57 ProteintranslocasesubunitsecG ND ND ND 1.3 NDQ2RTE5 Prevent-host-deathprotein ND ND ND 0.9 NDQ2RTH4 Sec-independentproteintranslocaseproteinTatC ND ND ND 2.2 NDQ2RTP6 Beta-lactamase-like ND ND ND 1.0 NDQ2RTX4 tRNA-dihydrouridinesynthase ND ND ND 0.2 NDQ2RU58 Uncharacterizedprotein ND ND ND 0.4 NDQ2RUA6 Metallophosphoesterase ND ND ND 0.8 NDQ2RUS1 Malonatedecarboxylasedeltasubunit ND ND ND 0.9 NDQ2RUX6 HAD-superfamilyhydrolasesubfamilyIA,variant3 ND ND ND 0.8 NDQ2RV25 Sigma54SpecificTranscriptionalRegulatorcontainingPAS,andFisDNA-bindingdomains ND ND ND 0.6 NDQ2RV47 Chemotaxissensorytransducer ND ND ND 0.2 NDQ2RV67 Chemotaxissensorytransducer ND ND ND 1.1 NDQ2RVL9 RarelipoproteinA ND ND ND 1.3 NDQ2RVZ5 Uncharacterizedprotein ND ND ND 0.7 NDQ2RX00 MotA/TolQ/ExbBprotonchannel ND ND ND 0.6 NDQ2RX23 Cyclicpyranopterinmonophosphatesynthase ND ND ND 0.6 NDQ2RX37 PeptidaseM23B ND ND ND 1.4 NDQ2RX81 Uncharacterizedprotein ND ND ND 0.3 NDQ2RX82 Uncharacterizedprotein ND ND ND 0.7 NDQ2RXA6 OrganicsolventtoleranceproteinOstA-like ND ND ND 1.6 NDQ2RXD0 DnaBhelicase ND ND ND 0.5 NDQ2RXR2 Transcriptionalregulator,XREfamily ND ND ND 0.6 NDQ2RY88 Putativediguanylatecyclase(GGDEFdomain) ND ND ND 0.2 NDQ2RYH7 Uncharacterizedprotein ND ND ND 1.9 NDQ2RWI9 MolybdenumimportATP-bindingproteinModC ND ND ND ND 0.3Q2RMY5 Polysaccharideexportprotein ND ND ND ND 0.5Q2RNR6 Uncharacterizedprotein ND ND ND ND 0.1Q2RPT9 Uncharacterizedprotein ND ND ND ND 0.9Q2RQ05 Uncharacterizedprotein ND ND ND ND 0.2Q2RR11 Uncharacterizedprotein ND ND ND ND 0.2Q2RR18 N-acetylglucosaminekinase ND ND ND ND 0.4Q2RR52 Uncharacterizedprotein ND ND ND ND 0.1Q2RRT7 Binding-protein-dependenttransportsystemsinnermembranecomponent ND ND ND ND 1.3Q2RS52 Uncharacterizedprotein ND ND ND ND 0.2Q2RS78 Uncharacterizedprotein ND ND ND ND 1.2Q2RSJ1 ABCtransportercomponent ND ND ND ND 1.2Q2RSK6 AminoacidABCtransporter,permeaseprotein,3-TMregion,His/Glu/Gln/Arg/opine ND ND ND ND 0.0Q2RSQ9 Uncharacterizedprotein ND ND ND ND 0.4Q2RTN6 ProbableribonucleaseVapC ND ND ND ND 0.2Q2RV86 OsmosensitiveK+channelsignaltransductionhistidinekinase ND ND ND ND 0.9Q2RVC6 Hydrophobe/amphiphileefflux-1HAE1 ND ND ND ND 1.1Q2RWG3 Uncharacterizedprotein ND ND ND ND 0.1Q2RWV0 Binding-protein-dependenttransportsystemsinnermembranecomponent ND ND ND ND 0.9Q2RX22 Uncharacterizedprotein ND ND ND ND 1.3Q2RXB3 Short-chaindehydrogenase/reductaseSDR ND ND ND ND 0.2Q2RXM7 Aldehydeferredoxinoxidoreductase ND ND ND ND 0.6Q2RY30 Uncharacterizedprotein ND ND ND ND 0.4P00144 Cytochromec' 88 46 123 109 311Q2RMK5 Glycosyltransferase,family2 2 2 4 5 2Q2RMK9 TypeIsecretionmembranefusionprotein,HlyD 23 41 18 35 5Q2RML0 TypeIsecretionsystemATPase,PrtD 131 212 104 191 52Q2RML8 Uncharacterizedprotein 2 0 1 0 3Q2RML9 Hemolysin-typecalcium-bindingregion 21 13 47 22 53Q2RMP2 Glycosyltransferase,group1 25 41 15 31 3Q2RMP6 Glycosyltransferase,group1 1 3 0 1 2Q2RMQ1 Uncharacterizedprotein 17 27 17 13 16Q2RMQ2 Formamidopyrimidine-DNAglycosylase 0 0 3 0 2Q2RMQ5 Phosphopantothenate-cysteineligase/Phosphopantothenoylcysteinedecarboxylase 11 8 9 13 12Q2RMQ6 Transcriptionalregulator,BadM/Rrf2family 11 13 7 11 12Q2RMR4 2-nitropropanedioxygenase,NPD 172 154 135 102 123

UNIPROT Proteinname Malate Malate+acetate

TableS1.ListofproteinsdetectedbyLC-MS/MSanalysisinmalateandmalate-acetategrowncellsatdifferenttimepoints.Theproteinsaredividedindifferentsectionsforexclusive,differentiallyexpressedanddetectedproteins.TheproteinexpressionlevelsarepresentedasLabelFreeQuantification(LFQ)andallvaluesareexpressedas*10^8.T24isacommontimepointformalateandmalate-acetategrowncells.

Exclusiveproteins

2

Q2RMS3 RibosomematurationfactorRimP 55 78 57 40 53Q2RMS7 ApolipoproteinN-acyltransferase 2 2 3 4 2Q2RMT1 (Dimethylallyl)adenosinetRNAmethylthiotransferaseMiaB 5 17 3 7 0Q2RMV5 50SribosomalproteinL25 1632 2106 1645 1266 1440Q2RMV7 Predictedsignal-transductionproteincontainingCBSdomains 33 22 28 24 16Q2RMW0 3-dehydroquinatesynthase 75 64 72 76 44Q2RMW6 Uncharacterizedprotein 4 1 2 4 1Q2RMX2 Creatininase 126 141 116 139 67Q2RMX3 Extracellularligand-bindingreceptor 315 375 319 459 202Q2RMX6 ABCtransportercomponent 4 5 4 6 2Q2RMX7 ABCtransportercomponent 32 42 27 39 13Q2RMY6 Lipopolysaccharidebiosynthesis 0 18 8 10 9Q2RMZ5 Aminotransferase 76 84 75 53 76Q2RN01 SecretionproteinHlyD 13 6 11 11 12Q2RN17 Sulfotransferase 30 12 16 29 16Q2RN20 YceI 486 194 627 125 1224Q2RN23 TRAPdicarboxylatetransporter-DctPsubunit 49 23 68 39 24Q2RN24 TripartiteATP-independentperiplasmictransporter,DctQcomponent 36 13 25 24 14Q2RN31 Potassiumeffluxsystemprotein 9 7 12 5 7Q2RN34 Short-chaindehydrogenase/reductaseSDR 28 26 25 25 16Q2RN37 ABCtransportercomponent 2 3 2 2 2Q2RN38 Glutamatedehydrogenase(NAD) 709 650 673 614 441Q2RN39 Uncharacterizedprotein 45 49 39 46 20Q2RN48 Uncharacterizedprotein 23 34 18 22 12Q2RN50 ABCtransportercomponent 30 38 23 27 15Q2RN51 Lipolyticenzyme,G-D-S-L 0 4 2 2 1Q2RN84 Ferrochelatase 13 14 16 14 10Q2RN88 Shikimatedehydrogenase 11 15 11 8 9Q2RN92 FxsAcytoplasmicmembraneprotein 7 6 6 5 3Q2RN94 Mureindegradingtransglycosylaseprotein 12 27 10 17 8Q2RN96 Iron-sulfurclusterbindingprotein 8 7 14 18 17Q2RN98 Uncharacterizedprotein 13 14 11 15 22Q2RNC6 Acetyl-coenzymeAsynthetase 1681 1452 1874 1218 1165Q2RND9 Uncharacterizedprotein 23 21 16 13 12Q2RNE5 Uncharacterizedprotein 43 46 28 33 12Q2RNF7 Phosphate-specifictransportsystemaccessoryproteinPhoU 114 149 82 191 40Q2RNG0 DNAmismatchrepairproteinMutS 0 5 1 4 5Q2RNG2 [Protein-PII]uridylyltransferase 4 7 5 4 3Q2RNI3 2-dehydropantoate2-reductase 107 103 116 84 74Q2RNJ5 Putativebranched-chainaminoacidtransportsystemsubstrate-bindingprotein 38 23 43 29 21Q2RNJ6 ABCtransportercomponent 1 1 3 3 0Q2RNM7 Bacterioferritin 0 0 0 0 1Q2RNM8 DNA-directedDNApolymerase 6 6 6 9 4Q2RNN4 Amidinotransferase 2 1 1 21 1Q2RNN5 Ornithineaminotransferase 15 7 19 18 24Q2RNN8 Transcriptionalregulator,AsnCfamily 9 7 12 13 16Q2RNP4 Uncharacterizedprotein 14 19 15 12 15Q2RNQ7 Adenosylhomocysteinase 887 869 905 556 1077Q2RNQ8 PAS/PACsensorsignaltransductionhistidinekinase 0 1 1 1 0Q2RNR2 Ferredoxin--NADPreductase 20 12 19 21 23Q2RNR4 Aminoglycosidephosphotransferase 10 18 6 13 2Q2RNR7 UvrD/REPhelicase 3 4 3 4 2Q2RNT3 Transcriptionalregulator,TetRfamily 1 0 0 1 1Q2RNT4 Extracellularligand-bindingreceptor 38 44 47 117 34Q2RNT8 ABCtransportercomponent 5 4 5 8 5Q2RNU4 6-phosphofructokinase 188 160 253 169 394Q2RNV1 Thiosulphate-bindingprotein 137 46 179 87 261Q2RNV2 Transcriptionalregulator,BadM/Rrf2family 4 3 1 2 0Q2RNV3 Transcriptionalregulator,XREfamily 86 126 71 109 44Q2RNV9 Uncharacterizedprotein 21 25 12 16 12Q2RNY4 Cob(I)yrinicacida,c-diamideadenosyltransferase 17 21 15 15 9Q2RNY6 Elongationfactor4 79 94 83 60 64Q2RNY7 Uncharacterizedprotein 2 3 4 4 2Q2RNY9 Uroporphyrinogen-IIIC-methyltransferase 2 3 2 4 2Q2RNZ2 CobyrinicacidA,C-diamidesynthase 4 4 3 2 1Q2RP02 Transcriptionactivator,effectorbinding 173 220 205 142 167Q2RP03 Uncharacterizedprotein 20 4 22 28 23Q2RP09 4-hydroxy-tetrahydrodipicolinatesynthase 8 13 11 7 8Q2RP22 Dual-specificityRNAmethyltransferaseRlmN 13 25 13 12 6Q2RP23 OmpA/MotB 690 823 549 691 217Q2RP24 Uncharacterizedprotein 30 18 16 18 8Q2RP27 Copper-translocatingP-typeATPase 3 2 5 9 4Q2RP31 Pantothenatesynthetase 36 41 41 36 19Q2RP45 ABCtransportercomponent 2 0 4 0 1Q2RP46 ABCtransportercomponent 7 6 7 4 5Q2RP61 Diacylglycerolkinase,catalyticregion 0 1 2 2 0Q2RP62 Signaltransductionhistidinekinase 2 5 2 2 2Q2RP64 Uncharacterizedprotein 56 20 29 40 22Q2RP66 SecretionchaperoneCsaA 16 5 15 10 62Q2RP67 Phasin 1267 963 1549 1486 4857Q2RP71 Uncharacterizedprotein 200 102 241 158 261Q2RP72 ADP-glyceromanno-heptose6-epimerase 15 14 20 24 19Q2RP74 Ornithinecarbamoyltransferase 16 13 14 14 22Q2RP75 Hsp33protein 14 18 16 10 14Q2RP84 HomoserineO-acetyltransferase 10 11 8 5 4Q2RP87 Prephenatedehydrogenase 0 4 1 2 0Q2RP89 Uncharacterizedprotein 9 7 8 4 10Q2RPA3 Uncharacterizedprotein 0 1 0 1 0Q2RPB2 Uncharacterizedprotein 1 0 0 1 0Q2RPB6 Processingpeptidase 5 12 5 15 2Q2RPC1 Twocomponenttranscriptionalregulator,LuxRfamily 4 4 5 3 3Q2RPC3 Uncharacterizedprotein 9 23 13 28 5Q2RPC4 Enoyl-[acyl-carrier-protein]reductase[NADH] 388 302 465 578 1242Q2RPD6 O-succinylhomoserinesulfhydrylase 139 137 161 151 298Q2RPF6 SMFprotein 4 4 1 3 4Q2RPF7 GlutathioneS-transferase-like 19 13 28 20 27Q2RPF9 Dihydroorotase 7 6 10 8 18Q2RPH3 Aspartyl/glutamyl-tRNA(Asn/Gln)amidotransferasesubunitC 31 19 19 23 32Q2RPI0 Surfacepresentationofantigens(SPOA)protein 16 19 25 21 14Q2RPJ1 Generalsubstratetransporter 68 100 59 58 29Q2RPJ3 Uncharacterizedprotein 4 4 3 4 5Q2RPJ8 Uncharacterizedprotein 8 6 7 10 5Q2RPK3 Uncharacterizedprotein 14 4 10 2 3

3

Q2RPK4 Uncharacterizedprotein 4 11 4 11 0Q2RPK9 Homoserinedehydrogenase,NAD-binding 44 79 49 76 19Q2RPR6 GTPaseDer 53 78 63 45 50Q2RPR7 NADPH-dependentFMNreductase 74 47 101 80 140Q2RPT8 Methylmalonyl-CoAmutase 17 17 16 22 7Q2RPU1 UPF0301proteinRru_A3059 3 3 6 5 4Q2RPU8 Uncharacterizedprotein 6 3 2 3 6Q2RPW5 Nuclease(SNase-like) 29 74 17 28 2Q2RPW9 Phosphoglycolatephosphatase 18 34 15 17 4Q2RPX0 BifunctionalproteinGlmU 24 16 26 35 38Q2RPY2 Uncharacterizedprotein 22 8 12 14 10Q2RPZ0 Transcriptionalregulator,DeoRfamily 17 48 12 73 5Q2RPZ1 Aminotransferase 1 1 1 0 1Q2RPZ6 Aminotransferase,classIandII 14 27 14 75 9Q2RQ00 Formateacetyltransferase 24 42 20 20 1Q2RQ03 Phosphateacetyltransferase 25 45 12 18 0Q2RQ16 CrtDprotein 0 0 0 0 1Q2RQ17 Farnesyl-diphosphatesynthase 0 20 0 7 5Q2RQ20 ChlorophyllidereductaseironproteinsubunitX 5 19 7 6 2Q2RQ21 ChlorophyllidereductasesubunitY 324 292 240 168 0Q2RQ30 Precorrin-6Asynthase(Deacetylating) 10 12 10 20 11Q2RQ31 Alanyl-tRNAsynthetaserelatedprotein 0 2 1 2 0Q2RQ32 Uncharacterizedprotein 30 26 32 40 35Q2RQ46 Methyltransferasesmall 2 1 2 1 1Q2RQ52 DNAmismatchrepairproteinMutL 42 38 39 26 25Q2RQ54 ArgKprotein 6 8 6 3 5Q2RQ63 PAS/PACsensorhybridhistidinekinase 6 6 10 7 2Q2RQ65 Uncharacterizedprotein 1 0 1 3 0Q2RQ77 TPRrepeat 0 0 1 1 1Q2RQ86 Propeptide,PepSYamdpeptidaseM4 56 18 54 25 114Q2RQ95 Deoxyribodipyrimidinephoto-lyasetypeI 5 1 10 5 11Q2RQA1 Alkylhydroperoxidereductase/Thiolspecificantioxidant/Malallergen 3 2 3 1 2Q2RQB0 Uncharacterizedprotein 1 2 1 2 1Q2RQB4 GatB/Yqey 88 113 91 71 75Q2RQB8 Uncharacterizedprotein 6 5 4 5 8Q2RQC2 Aldo/ketoreductase 5 4 3 5 2Q2RQC6 L-2-amino-thiazoline-4-carboxylicacidhydrolase 32 61 29 101 10Q2RQD3 PeptidaseM24 59 113 46 127 16Q2RQD7 Uncharacterizedprotein 4 3 4 5 3Q2RQE3 Uncharacterizedprotein 6 8 6 4 6Q2RQF8 FlagellarmotorswitchproteinFliM 8 12 9 10 4Q2RQG0 Uncharacterizedprotein 12 17 8 15 2Q2RQG2 Uncharacterizedprotein 10 14 13 13 8Q2RQH4 Flagellarhook-basalbodycomplexproteinFliE 8 20 4 11 1Q2RQI1 Phasin 210 48 443 923 4503Q2RQI4 MolybdopterinsynthasesubunitMoaD 16 21 10 13 8Q2RQI9 IronpermeaseFTR1 30 70 20 44 5Q2RQJ0 Periplasmicprotein-probablyinvolvedinhigh-affinityFe2+transport 148 226 135 291 85Q2RQJ3 Uncharacterizedprotein 3 1 2 3 1Q2RQJ6 Cytochromec,classI 15 21 17 10 19Q2RQL4 Basicmembranelipoprotein 35 47 47 41 73Q2RQM8 UPF0262proteinRru_A2770 0 1 2 1 1Q2RQN4 Uncharacterizedprotein 9 11 10 24 24Q2RQQ8 UDP-N-acetylglucosamine2-epimerase 6 3 8 2 5Q2RQR1 Glycosyltransferase,family2 2 3 2 1 0Q2RQT1 Isochorismatasehydrolase 59 35 83 61 65Q2RQT4 Uncharacterizedprotein 16 15 20 14 12Q2RQV4 DNA-directedRNApolymerasesubunitbeta' 1309 1775 1320 1141 1421Q2RQV8 ElongationfactorTu1 369 838 628 429 849Q2RQW0 50SribosomalproteinL3 1389 1418 1264 918 1138Q2RQW7 50SribosomalproteinL16 665 847 722 526 827Q2RQW9 30SribosomalproteinS17 124 156 126 102 174Q2RQX2 50SribosomalproteinL5 649 899 684 544 692Q2RQX6 50SribosomalproteinL18 60 77 40 37 46Q2RQY1 Adenylatekinase 229 273 205 177 189Q2RQY9 Pseudouridinesynthase 2 3 4 3 2Q2RQZ1 AsmA 298 251 329 382 496Q2RR16 Peptidoglycan-bindingdomain1 9 21 3 0 1Q2RR45 Twocomponenttranscriptionalregulator,LuxRfamily 2 2 2 21 21Q2RR48 Uncharacterizedprotein 186 500 125 443 3Q2RR73 Uncharacterizedprotein 15 4 6 8 10Q2RR78 Cysteinedesulfurase 149 164 134 154 86Q2RR79 Uncharacterizedprotein 33 16 25 26 8Q2RR86 Uncharacterizedprotein 10 16 10 15 5Q2RR87 Transglutaminase-like 32 33 35 26 23Q2RR96 HAD-superfamilyhydrolasesubfamilyIIB 3 2 4 2 1Q2RRB0 Flagellarhook-associatedprotein2(FliD,filamentcapprotein) 2 7 2 6 7Q2RRB1 Flagellin-like 154 266 109 302 59Q2RRB9 Uncharacterizedprotein 3 0 5 9 2Q2RRC1 PeptidaseU32 7 7 6 11 2Q2RRC3 Uncharacterizedprotein 4 2 3 1 3Q2RRD6 Fructose-bisphosphatealdolase 41 61 52 113 44Q2RRD7 5-aminolevulinatesynthase 22 41 28 132 8Q2RRF3 Glycosyltransferase,group1 6 7 5 7 8Q2RRF6 Catalase 8 5 7 7 3Q2RRG5 Methylmalonyl-CoAmutase 120 159 110 146 71Q2RRG6 Methylmalonyl-CoAmutase 108 129 103 124 67Q2RRG8 Substrate-bindingregionofABC-typeglycinebetainetransportsystem 373 496 372 179 317Q2RRH5 FerrousirontransportproteinB 3 5 1 12 1Q2RRH8 50SribosomalproteinL36 10 7 14 8 29Q2RRI7 Uncharacterizedprotein 5 6 6 5 3Q2RRI9 D-3-phosphoglyceratedehydrogenase 246 234 252 391 319Q2RRJ8 Mammaliancellentryrelated 2 4 2 3 1Q2RRK4 Ribonucleoside-diphosphatereductaseclassII 247 467 156 428 1Q2RRK6 Mammaliancellentryrelated 4 4 7 7 7Q2RRM5 Transferasehexapeptiderepeat 1 0 1 2 1Q2RRN3 OmpA/MotB 4 11 6 13 14Q2RRN6 Fructose-1,6-bisphosphatase 57 65 56 42 46Q2RRP2 Fructose-1,6-bisphosphataseclass1 3 2 1 1 0Q2RRP5 Ribulosebisphosphatecarboxylase 63 78 58 74 30Q2RRQ8 ABCtransporter,periplasmicsubstrate-bindingprotein,putative 21 47 18 35 7Q2RRR0 Substrate-bindingregionofABC-typeglycinebetainetransportsystem 79 88 81 49 72Q2RRR4 Lipocalin-likeprotein 0 2 1 2 3

Diffe

rentiallyexpressed

proteins(foldchange≥1.5)

4

Q2RRS4 Hydroxyacylglutathionehydrolase 2 1 2 3 3Q2RRT4 Multi-sensorhybridhistidinekinase 10 13 8 8 7Q2RRT8 Binding-protein-dependenttransportsystemsinnermembranecomponent 4 2 6 5 0Q2RRU1 Adenylatecyclase 41 23 41 36 40Q2RRU4 Macrocin-O-methyltransferase 4 4 4 4 2Q2RRU8 Uncharacterizedprotein 12 11 12 7 9Q2RRW1 Nucleoside-diphosphate-sugarepimerase 2 4 3 0 2Q2RRZ2 Deoxyribose-phosphatealdolase 88 87 74 85 42Q2RRZ3 Periplasmicbindingprotein/LacItranscriptionalregulator 210 217 267 183 108Q2RRZ4 ABCtransportercomponent 18 21 18 15 8Q2RRZ7 Uncharacterizedprotein 49 56 52 42 22Q2RRZ8 Ribokinase 36 45 36 34 19Q2RS01 Alphaamylase,catalyticregion 6 3 8 6 8Q2RS05 Sulfateadenylyltransferasesubunit1/adenylylsulfatekinase 201 268 196 165 198Q2RS06 Sulfateadenylyltransferasesubunit2 175 222 172 148 179Q2RS28 Electrontransferflavoproteinbeta-subunit 1 2 1 15 1Q2RS29 Electrontransferflavoprotein 3 4 3 71 3Q2RS30 Electrontransferflavoprotein-ubiquinoneoxidoreductase 1 1 2 21 3Q2RS37 Uncharacterizedprotein 196 109 178 169 213Q2RS49 Glucose-1-phosphateadenylyltransferase 41 26 45 46 41Q2RS54 Uncharacterizedprotein 8 11 8 7 5Q2RS56 TRAPdicarboxylatetransporter-DctPsubunit 151 198 172 126 119Q2RS62 Transcriptionalregulatoryprotein 0 6 2 4 2Q2RS65 Glycosyltransferase,family9 1 1 1 1 1Q2RS67 Responseregulatorreceivermodulateddiguanylatecyclase 0 3 4 3 1Q2RS72 Branchedchainaminoacid:2-keto-4-methylthiobutyrateaminotransferase/branchedchainaminoacidaminotransferase 36 37 32 60 31Q2RS84 Porin,Gram-negativetype 12 16 8 16 1Q2RS92 HflK 609 737 637 472 716Q2RS96 Uncharacterizedprotein 15 19 13 15 8Q2RSA0 Bacterioferritin 0 1 4 5 2Q2RSA1 MaoC-likedehydratase 3 4 3 3 2Q2RSA2 Abc1protein 70 79 69 46 50Q2RSB5 PeptidaseS33,tricorninteractingfactor1 3 2 5 1 5Q2RSC0 Oligopeptide/dipeptideABCtransporter,ATP-bindingprotein-like 4 2 1 1 0Q2RSC4 Extracellularligand-bindingreceptor 328 746 359 662 549Q2RSC5 ABCtransportercomponent 1 4 1 1 1Q2RSC7 Phosphoribosylglycinamideformyltransferase 5 5 7 5 5Q2RSD5 Ppx/GppAphosphatase 3 4 8 8 9Q2RSE0 MotA/TolQ/ExbBprotonchannel 9 11 10 38 2Q2RSE1 BiopolymertransportproteinExbD/TolR 7 9 8 20 1Q2RSE5 Uncharacterizedprotein 2 0 4 1 8Q2RSE8 Penicillin-bindingprotein1A 10 10 10 22 5Q2RSH6 Molybdopterinoxidoreductase 1 0 1 1 1Q2RSI4 Uncharacterizedprotein 149 6 200 11 391Q2RSI6 ATP-dependentClpproteaseATP-bindingsubunitClpA 62 90 55 66 36Q2RSI7 Hptsensorhybridhistidinekinase 2 5 3 5 2Q2RSJ2 L-carnitinedehydratase/bileacid-inducibleproteinF 14 15 11 12 18Q2RSJ4 Twocomponent,sigma54specific,transcriptionalregulator,Fisfamily 9 6 5 2 6Q2RSK0 SecretionproteinHlyD 3 3 1 2 3Q2RSK2 MethyltransferaseFkbM 1 1 1 1 1Q2RSK7 AminoacidABCtransporter,permeaseprotein,3-TMregion,His/Glu/Gln/Arg/opine 9 11 8 6 4Q2RSL6 L-glutaminesynthetase 12 10 12 15 14Q2RSL9 Chemotaxissensorytransducer 0 0 1 0 2Q2RSM4 Methylmalonate-semialdehydedehydrogenase(Acylating) 289 311 280 249 154Q2RSN3 Uncharacterizedprotein 41 18 49 28 49Q2RSN4 Uncharacterizedprotein 187 260 175 219 109Q2RSN8 Molybdopterin-guaninedinucleotidebiosynthesisMobBregion 3 2 8 10 3Q2RSP4 Hydrophobe/amphiphileefflux-1HAE1 53 57 59 144 52Q2RSP5 SecretionproteinHlyD 76 69 73 181 82Q2RSP7 ABCtransportercomponent 32 30 30 26 18Q2RSP9 Binding-protein-dependenttransportsystemsinnermembranecomponent 6 11 3 6 5Q2RSR6 Serineacetyltransferase 20 42 25 36 15Q2RSR7 Transcriptionalregulator,BadM/Rrf2family 58 67 76 55 51Q2RSR8 Aminotransferase,classV 12 13 10 6 5Q2RST0 ChaperoneDnaJ 20 13 15 31 17Q2RST1 Twin-argininetranslocationpathwaysignal 247 286 269 325 509Q2RST7 Phosphomethylpyrimidinesynthase 474 961 283 544 70Q2RST9 L-carnitinedehydratase/bileacid-inducibleproteinF 0 0 0 1 1Q2RSU0 Glutaryl-CoAdehydrogenase 15 11 13 36 31Q2RSU4 Uncharacterizedprotein 25 26 14 17 2Q2RSV2 Uncharacterizedprotein 5 8 3 5 2Q2RSV6 Asparaginesynthetase 20 30 25 13 19Q2RSW2 Uncharacterizedprotein 22 29 23 60 47Q2RSW4 Succinylglutamatedesuccinylase/aspartoacylase 3 3 3 3 1Q2RT11 Transcriptionalregulator,TetRfamily 0 3 5 1 6Q2RT13 Uncharacterizedprotein 43 79 39 55 24Q2RT14 Ferredoxin--nitritereductase 39 83 36 53 14Q2RT15 UncharacterizedconservedproteinUCP030820 27 44 19 19 6Q2RT16 Phosphoadenylylsulfatereductase(Thioredoxin) 11 14 7 6 3Q2RT17 2-isopropylmalatesynthase 247 159 285 139 466Q2RT18 Acetyl-CoAhydrolase 142 158 160 292 465Q2RT25 ABCtransportercomponent 23 31 25 21 18Q2RT30 DEAD/DEAHboxhelicase 8 15 5 4 0Q2RT35 Cyclopropane-fatty-acyl-phospholipidsynthase 1 1 1 2 1Q2RT38 Protein-methionine-S-oxidereductase 44 60 48 40 30Q2RT42 Inner-membranetranslocator 3 4 1 2 1Q2RT43 Basicmembranelipoprotein 32 13 53 51 65Q2RT52 Uncharacterizedprotein 2 6 1 2 0Q2RT53 Heavymetaltransport/detoxificationprotein 9 8 12 7 8Q2RT59 2-dehydro-3-deoxyphosphooctonatealdolase 58 63 55 41 55Q2RT63 Septumformationinitiator 90 105 69 69 71Q2RT64 Pyruvatedehydrogenase(Lipoamide) 1002 855 881 685 385Q2RT65 Pyruvatedehydrogenasebetasubunit 1025 1291 995 684 486Q2RT66 Dihydrolipoamideacetyltransferase,longform 932 990 893 625 409Q2RT67 Dihydrolipoyldehydrogenase 90 68 91 75 40Q2RT68 Lipoylsynthase 29 85 18 15 1Q2RT79 Lytictransglycosylase,catalytic 13 23 10 16 7Q2RT81 SsrA-bindingprotein 16 20 16 12 18Q2RT82 Glutathioneperoxidase 1 2 0 1 0Q2RT86 Uncharacterizedprotein 41 21 10 9 6Q2RT88 DNA-directedRNApolymerasesubunitomega 188 232 177 137 178Q2RT91 Pyridoxine5'-phosphatesynthase 15 20 17 28 10Q2RT94 GTPaseEra 9 10 10 6 8

Diffe

rentiallyexpressed

proteins(foldchange≥1.5)

5

Q2RTA1 RDD 0 3 2 5 7Q2RTA3 MotA,chemotaxis(motilityproteinA) 0 0 2 2 1Q2RTA6 TRAP-typeC4-dicarboxylatetransportsystemperiplasmiccomponent-like 1 2 1 1 1Q2RTA9 O-acetylhomoserine/O-acetylserinesulfhydrylase 285 239 244 388 290Q2RTC0 RiboflavinbiosynthesisproteinRibD 0 0 2 0 1Q2RTC8 TPRrepeat 3 3 4 3 2Q2RTD5 Uncharacterizedprotein 2 4 2 2 2Q2RTE3 Chemotaxissensorytransducer 1 1 1 2 1Q2RTE7 TypeIsecretionoutermembraneprotein,TolC 12 35 12 27 6Q2RTF0 HAD-superfamilyhydrolase,subfamilyIIA 14 15 10 7 11Q2RTG0 Membraneprotein-like 2 0 1 2 3Q2RTG7 Uncharacterizedprotein 38 60 33 56 16Q2RTI9 Uncharacterizedprotein 27 14 34 26 40Q2RTJ4 Inner-membranetranslocator 13 5 14 7 11Q2RTJ5 Inner-membranetranslocator 20 15 22 8 15Q2RTJ9 Extracellularligand-bindingreceptor 131 70 123 109 144Q2RTL9 Transcription-repaircouplingfactor 108 125 100 80 115Q2RTM0 Carbonatedehydratase 76 91 87 58 67Q2RTM7 5-methyltetrahydropteroyltriglutamate--homocysteinemethyltransferase 2294 2331 2109 1455 2008Q2RTP1 Serine-typeD-Ala-D-Alacarboxypeptidase 204 281 205 169 198Q2RTP3 DNApolymeraseIII,deltaprimesubunit 2 3 2 2 1Q2RTP5 TatD-relateddeoxyribonuclease 2 4 1 2 1Q2RTQ3 S-adenosylmethioninedecarboxylaseproenzyme 18 25 17 22 8Q2RTR2 HAD-superfamilyhydrolase,subfamilyIA,variant1 17 17 13 13 8Q2RTR8 Signaltransductionhistidinekinase,nitrogenspecific,NtrB 3 7 1 4 1Q2RTS6 Transcriptionalregulator,MerRfamily 10 6 17 8 11Q2RTS7 Integrationhostfactorsubunitalpha 13 6 19 4 30Q2RTT0 50SribosomalproteinL32 76 52 119 129 20Q2RTU9 ETCcomplexIsubunitconservedregion 9 5 9 8 15Q2RTW8 Uncharacterizedprotein 12 8 6 6 11Q2RTX5 Uncharacterizedprotein 25 31 33 18 36Q2RU00 OutermembranechaperoneSkp(OmpH) 193 133 138 202 140Q2RU02 RsePpeptidase.Metallopeptidase.MEROPSfamilyM50B 7 10 1 3 0Q2RU03 1-deoxy-D-xylulose5-phosphatereductoisomerase 13 23 11 17 5Q2RU18 ThiJ/PfpI 2 1 1 2 1Q2RU23 Methylmalonyl-CoAepimerase 50 68 66 109 36Q2RU26 Biotin--acetyl-CoA-carboxylaseligase 1 0 1 0 1Q2RU28 Proton-translocatingNADH-quinoneoxidoreductase,chainM 3 4 4 6 1Q2RU29 NADH-plastoquinoneoxidoreductase,chain5 62 73 66 71 43Q2RU31 NADH-ubiquinone/plastoquinoneoxidoreductase,chain6 4 1 1 2 2Q2RU33 NADH-quinoneoxidoreductasesubunitH 43 54 29 31 31Q2RU41 Methyl-acceptingchemotaxissensorytransducer 13 7 17 5 8Q2RU53 Methylmalonate-semialdehydedehydrogenase(Acylating) 4 4 4 12 8Q2RU60 Plasmidmaintenancesystemantidoteprotein 3 2 1 3 2Q2RU64 Methioninesynthase(B12-dependent) 30 97 35 21 0Q2RU65 Methylenetetrahydrofolatereductase 55 75 48 36 49Q2RU67 Toluenetolerance 292 267 324 412 351Q2RU70 Nucleosidediphosphatepyrophosphatase 4 4 5 5 3Q2RUA8 UDP-glucose4-epimerase 30 39 21 41 4Q2RUE6 Arsenicalresistanceoperontrans-actingrepressorArsD 2 4 1 3 1Q2RUE8 Uncharacterizedprotein 201 103 245 176 228Q2RUE9 Ribonucleoside-diphosphatereductasesubunitbeta 22 43 22 24 9Q2RUF0 Ribonucleoside-diphosphatereductase 11 9 5 4 0Q2RUF1 Uncharacterizedprotein 2 5 0 3 0Q2RUG0 QuinolinatesynthaseA 2 0 5 0 20Q2RUG1 L-aspartateoxidase 11 2 21 2 102Q2RUH7 Thioredoxin-disulfidereductase 71 110 73 116 37Q2RUI6 Chemotaxissensorytransducer 4 5 10 5 7Q2RUK8 DEAD/DEAHboxhelicase 5 17 5 6 2Q2RUM1 PeptidaseC14,caspasecatalyticsubunitp20 3 0 3 1 1Q2RUM2 Uncharacterizedprotein 4 0 3 0 1Q2RUM9 RiboseABCtransporter,periplasmicbindingprotein 205 419 270 223 94Q2RUN0 ABCtransportercomponent 0 5 2 2 1Q2RUN1 Inner-membranetranslocator 22 31 15 23 4Q2RUN2 Xyloseisomerase-likeTIMbarrel 31 45 30 33 4Q2RUN3 Glyceronekinase 73 83 67 72 27Q2RUN4 Dakphosphatase 33 57 24 27 7Q2RUN6 Triosephosphateisomerase 26 30 23 24 10Q2RUN9 Uncharacterizedprotein 413 323 431 422 273Q2RUQ3 Dakphosphatase 75 103 80 93 52Q2RUQ7 ABCtransportercomponent 6 12 6 12 4Q2RUR6 Biotin/lipoylattachment 29 20 32 33 28Q2RUS7 Electron-transferring-flavoproteindehydrogenase 20 14 10 4 0Q2RUS8 AMP-dependentsynthetaseandligase 1103 1186 1155 805 547Q2RUS9 Sterol-binding 4 5 1 2 0Q2RUT0 Uncharacterizedprotein 11 37 7 14 0Q2RUT1 Membraneproteininvolvedinaromatichydrocarbondegradation 10 47 23 4 1Q2RUT2 AMP-dependentsynthetaseandligase 276 278 272 181 116Q2RUT3 Transcriptionalregulator,MerRfamily 191 169 189 117 94Q2RUT4 Acetyl-CoAC-acyltransferase 975 787 959 541 365Q2RUT5 3-hydroxyacyl-CoAdehydrogenase 1072 1002 1032 705 362Q2RUT6 Acyl-CoAdehydrogenase 471 542 487 435 166Q2RUT7 Thioesterasesuperfamily 6 5 3 3 4Q2RUT8 Short-chaindehydrogenase/reductaseSDR 345 343 342 216 184Q2RUU6 ABCtransportercomponent 7 8 7 5 8Q2RUV7 Trimethylamine-N-oxidereductase(Cytochromec) 195 244 216 421 140Q2RUW0 CytoplasmicchaperoneTorD 9 21 8 10 2Q2RUW1 Membrane-boundtetrahaemcytochromeTorC/YecK 5 12 3 6 0Q2RUW4 Hpr(Ser)kinase/phosphatase 24 35 21 14 15Q2RUW8 ATP-cone 126 195 100 106 49Q2RUX0 RadicalSAM 3 6 1 3 0Q2RUX4 Uncharacterizedprotein 2 1 1 1 2Q2RUY0 Short-chaindehydrogenase/reductaseSDR 19 9 22 16 20Q2RUY2 Extracellularsolute-bindingprotein,family1 73 22 103 29 161Q2RV02 50SribosomalproteinL21 34 52 37 35 58Q2RV08 RibosomalsilencingfactorRsfS 7 25 15 18 4Q2RV26 PhageshockproteinA,PspA 43 22 36 31 65Q2RV29 Dihydrolipoyldehydrogenase 144 107 123 169 169Q2RV42 SuccinatedehydrogenasesubunitC 83 67 115 123 98Q2RV54 3-isopropylmalatedehydratasesmallsubunit 88 107 108 57 111Q2RV56 50SribosomalproteinL19 521 671 502 445 567Q2RV58 RibosomematurationfactorRimM 23 24 24 14 26Q2RV69 CsbD-like 248 183 257 352 220

Diffe

rentiallyexpressed

proteins(foldchange≥1.5)

6

Q2RV70 EndoribonucleaseL-PSP 2 2 4 5 4Q2RV73 Transcriptionalregulator,BadM/Rrf2family 12 23 16 14 19Q2RV93 Uncharacterizedprotein 7 5 8 2 10Q2RVA5 Blue(Type1)coppersubtype 124 227 110 113 105Q2RVB4 NitrogenregulatoryproteinP-II 220 33 228 32 462Q2RVC1 Ala-tRNA(Pro)hydrolase 14 23 15 14 16Q2RVD5 Chemotaxissensorytransducer 7 3 9 7 20Q2RVE0 Phosphoserineaminotransferase 146 174 155 199 240Q2RVF2 BiopolymertransportproteinExbD/TolR 8 4 10 8 16Q2RVF5 HollidayjunctionATP-dependentDNAhelicaseRuvB 6 10 7 9 4Q2RVF7 CrossoverjunctionendodeoxyribonucleaseRuvC 0 2 0 1 0Q2RVF8 ProbabletranscriptionalregulatoryproteinRru_A1086 65 74 66 78 40Q2RVF9 Metallophosphoesterase 3 4 3 3 1Q2RVG1 Uncharacterizedprotein 0 0 2 0 5Q2RVG5 Sodium/hydrogenexchanger 13 7 11 9 20Q2RVG8 Inositolmonophosphatase 78 89 76 50 91Q2RVH4 HeatshockproteinHsp20 8 3 8 19 1Q2RVI6 Putativethioesterase 2 2 1 3 3Q2RVK0 Peptidedeformylase 2 0 2 0 5Q2RVL1 Uncharacterizedprotein 347 186 292 265 174Q2RVM2 Uncharacterizedprotein 26 38 25 22 30Q2RVN4 Nitrogenaseironprotein 6 0 5 0 2Q2RVP6 NifT/FixU 15 16 18 19 10Q2RVR7 Uncharacterizedprotein 1 3 1 1 0Q2RVS1 Uncharacterizedprotein 25 21 30 33 19Q2RVS2 Prephenatedehydrogenase 5 7 10 4 0Q2RVS6 ATPaseassociatedwithvariouscellularactivities,AAA_5 3 4 3 3 1Q2RVS7 Carbon-monoxidedehydrogenase 8 9 10 11 5Q2RVS8 Xanthinedehydrogenase,molybdenumbindingsubunitapoprotein 31 39 36 40 16Q2RVT5 ProteinMraZ 5 3 4 4 6Q2RVU0 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanineligase 9 15 9 13 6Q2RVU6 UDP-N-acetylenolpyruvoylglucosaminereductase 10 18 7 11 5Q2RVU9 CelldivisionproteinftsA 18 27 13 18 8Q2RVV0 CelldivisionproteinFtsZ 88 148 74 154 14Q2RVW2 Sigma54SpecificTranscriptionalRegulatorcontainingGAF,andFisDNA-bindingdomains 20 25 14 6 0Q2RVW4 Iron-containingalcoholdehydrogenase 1231 1984 806 1564 137Q2RVW5 Uncharacterizedprotein 27 68 30 32 8Q2RVW7 Luciferase-like 3 2 2 2 3Q2RW03 TelluriteresistanceTerB 361 428 328 386 180Q2RW06 Transcriptionalregulator,TetRfamily 4 6 7 37 7Q2RW16 ABCtransportercomponent 12 8 10 3 5Q2RW73 Hpr(Ser)kinase/phosphatase 8 9 2 3 6Q2RWA5 Cystathioninegamma-lyase 55 63 44 34 43Q2RWA7 O-acetylhomoserine/O-acetylserinesulfhydrylase 59 37 46 72 117Q2RWC2 Extracellularsolute-bindingprotein,family1 944 1553 680 996 423Q2RWC5 Adeninedeaminase 26 35 29 18 21Q2RWD4 Isochorismatasehydrolase 3 4 4 8 5Q2RWD5 Uncharacterizedprotein 5 5 5 5 9Q2RWE2 Glutamyl-tRNAreductase 9 12 8 7 9Q2RWE4 4-hydroxy-3-methylbut-2-en-1-yldiphosphatesynthase 97 162 70 198 15Q2RWE8 Aspartokinase 120 94 108 142 122Q2RWF5 Uncharacterizedprotein 14 25 14 15 9Q2RWF6 Sugarfermentationstimulationproteinhomolog 29 37 29 25 25Q2RWG4 Uncharacterizedprotein 25 20 27 17 42Q2RWH3 Chemotaxissensorytransducer 9 6 9 11 7Q2RWH9 Transcriptionalregulator,XREfamily 12 4 11 11 20Q2RWJ5 RNAmethyltransferaseTrmH,group1 2 3 3 2 2Q2RWJ6 2-isopropylmalatesynthase 73 80 71 50 68Q2RWM1 Adenosylcobinamidekinase 2 3 3 6 3Q2RWM4 Nicotinate-nucleotide--dimethylbenzimidazolephosphoribosyltransferase 28 18 20 32 38Q2RWM7 Signaltransductionhistidinekinase 8 7 6 6 10Q2RWN5 L-prolinedehydrogenase/delta-1-pyrroline-5-carboxylatedehydrogenase 9 7 11 28 28Q2RWN8 Uncharacterizedprotein 3 0 4 0 1Q2RWQ4 Uncharacterizedprotein 13 5 13 11 25Q2RWQ6 Na+/solutesymporter 11 6 13 7 5Q2RWR2 Geranylgeranylreductase 4 3 3 3 2Q2RWS0 Hydrogenobyrinicacida,c-diamidecobaltochelatase 3 5 1 5 2Q2RWS1 Light-independentprotochlorophyllidereductaseiron-sulfurATP-bindingprotein 7 12 6 8 3Q2RWS2 MagnesiumprotoporphyrinO-methyltransferase 11 16 11 20 4Q2RWS5 Photosyntheticcomplexassemblyprotein 40 55 32 36 25Q2RWS6 Photosyntheticcomplexassemblyprotein 2 4 3 2 1Q2RWU3 PhosphateABCtransporter,periplasmicbindingprotein 29 61 24 110 20Q2RWU5 Fructose-bisphosphatealdolase 1090 862 1082 1326 984Q2RWU8 SulfoxidereductasecatalyticsubunitYedY 4 22 7 12 2Q2RWU9 Extracellularsolute-bindingprotein,family5 325 415 367 264 275Q2RWV2 Oligopeptide/dipeptideABCtransporter,ATP-bindingprotein-like 2 2 3 3 1Q2RWX2 Chorismatemutase 2 1 1 2 1Q2RWX8 Twin-argininetranslocationpathwaysignal 50 3 29 2 214Q2RX11 Ferredoxin--NADP+reductase 144 272 142 509 16Q2RX13 HeatshockproteinDnaJ-like 0 9 7 0 21Q2RX15 ATPaseFliI/YscN 2 4 3 2 3Q2RX26 HAD-superfamilysubfamilyIIAhydrolase 20 20 13 19 7Q2RX28 Uncharacterizedprotein 55 61 43 38 55Q2RX34 Alphaamylase,catalyticregion 34 31 35 20 32Q2RX44 Cyclicnucleotide-bindingdomain(CNMP-BD)protein 11 5 10 11 10Q2RX47 Phytoenedesaturase 60 94 59 55 38Q2RX52 TonB-dependentreceptor 28 71 31 9 3Q2RX87 CRISPR-associatedendonuclease,Csn1family 0 0 1 0 0Q2RX96 TranslationfactorSUA5 6 5 2 3 6Q2RXA3 OmpAfamilyprotein 679 366 266 461 167Q2RXA8 4-hydroxythreonine-4-phosphatedehydrogenase 21 28 21 17 19Q2RXA9 RibosomalRNAsmallsubunitmethyltransferaseA 3 2 4 0 2Q2RXB1 Guanylatekinase 16 16 22 26 19Q2RXB2 Uncharacterizedprotein 6 10 3 8 7Q2RXB7 Uncharacterizedprotein 0 0 1 1 1Q2RXC0 Uncharacterizedprotein 7 13 8 10 5Q2RXD2 Uncharacterizedprotein 8 9 9 9 5Q2RXD6 Amidophosphoribosyltransferase 55 66 37 47 23Q2RXF5 Gamma-glutamyltransferase1.Threoninepeptidase.MEROPSfamilyT03 1 0 1 0 2Q2RXG4 Transcriptionalregulator,LytR/AlgRfamily 5 3 4 3 2Q2RXG5 Pirin-like 41 18 39 18 66Q2RXG7 NAD(P)Hdehydrogenase(quinone) 23 16 31 10 65Q2RXH2 Uncharacterizedprotein 14 17 13 12 7

Diffe

rentiallyexpressed

proteins(foldchange≥1.5)

7

Q2RXH6 Ubiquinol-cytochromecreductaseiron-sulfursubunit 92 53 57 83 75Q2RXH9 S-methyl-5'-thioadenosinephosphorylase 29 39 50 62 53Q2RXI1 ClassIIaldolase/adducin-like 3 3 4 4 3Q2RXK6 Transcriptionalregulator,LysRfamily 18 8 19 13 15Q2RXK7 FerritinandDps 42 67 33 103 35Q2RXN8 HydrogenaseaccessoryproteinHypB 20 38 21 38 8Q2RXN9 AlkylhydroperoxidaseAhpDcore 4 3 4 5 4Q2RXP9 Uncharacterizedprotein 2 1 2 2 4Q2RXQ6 Acetolactatesynthase,largesubunit 20 28 18 14 15Q2RXR9 GTPcyclohydrolase1 38 44 39 70 29Q2RXS2 Molybdopterinbindingdomain 26 31 18 30 5Q2RXS7 4-diphosphocytidyl-2-C-methyl-D-erythritolkinase 0 6 1 2 4Q2RXT1 CarbonstarvationproteinCstA 144 154 149 134 81Q2RXT7 GDP-mannose4,6-dehydratase 7 6 9 10 9Q2RXU4 Ppx/GppAphosphatase 2 15 2 6 2Q2RXU6 Inosine-5'-monophosphatedehydrogenase 334 339 333 222 341Q2RXW2 Twin-argininetranslocationpathwaysignal 2 14 2 5 0Q2RXW7 Polyphosphate:AMPphosphotransferase 1 1 1 1 2Q2RXX0 Uncharacterizedprotein 2 2 4 3 3Q2RXX6 MutT/nudixfamilyprotein 0 0 1 3 4Q2RXY2 SNF2helicase-relatedprotein 32 38 32 24 32Q2RXY6 TranscriptionalregulatorBolA 7 5 11 16 11Q2RXY8 PhospholipaseD/Transphosphatidylase 9 8 6 6 3Q2RY07 Cold-shockDNA-bindingproteinfamily 1 0 1 0 2Q2RY29 10kDachaperonin 690 1169 671 1970 317Q2RY34 SecretionproteinHlyD 2 2 1 15 1Q2RY35 Transcriptionalregulator,TetRfamily 2 4 1 7 3Q2RY36 4-hydroxy-tetrahydrodipicolinatereductase 34 36 33 123 92Q2RY46 NADH:flavinoxidoreductase/NADHoxidase 152 145 159 478 217Q2RY49 Delta-aminolevulinicaciddehydratase 2 5 3 2 3Q2RY84 TPRrepeat,TetratricopeptideTPR_4 0 0 1 0 1Q2RY91 Serinephosphatase 0 1 0 1 0Q2RY92 Cystathioninegamma-synthase 11 9 11 16 10Q2RYA6 Prolineiminopeptidase 2 5 2 5 1Q2RYB1 Transcriptionalregulator,CarDfamily 4 5 2 11 0Q2RYB4 Uncharacterizedprotein 1 4 2 1 0Q2RYB6 Helicase-like 78 88 71 149 51Q2RYC1 ABCtransportercomponent 37 62 29 35 16Q2RYC8 Terpenesynthase,squalenecyclase 19 28 9 37 1Q2RYD0 RadicalSAM 109 191 62 158 5Q2RYD1 4-hydroxy-3-methylbut-2-enyldiphosphatereductase 147 207 116 171 56Q2RYD6 1-deoxy-D-xylulose-5-phosphatesynthase1 223 338 152 306 64Q2RYF0 CytochromecbiogenesisATP-bindingexportproteinCcmA 2 3 2 2 2Q2RYG5 Uncharacterizedprotein 11 6 12 11 10Q2RYH6 KpsF/GutQ 16 28 19 26 30Q2RYI0 RNApolymerasesigma-54factor 1 1 2 2 1Q2RYI7 DNAreplicationandrepairproteinRecF 12 14 13 9 12Q2RYI9 ChromosomalreplicationinitiatorproteinDnaA 1 4 2 6 1Q53046 Pyruvate-flavodoxinoxidoreductase 0 1 0 8 0Q9ZA11 Aldehydedehydrogenase 1827 3898 1422 3081 312O68460 K(+)-insensitivepyrophosphate-energizedprotonpump 494 347 500 474 534Q2RMJ9 dTDP-glucose4,6-dehydratase 261 289 251 259 248Q2RMK0 dTDP-4-dehydrorhamnosereductase 74 84 64 57 58Q2RMK1 Glucose-1-phosphatethymidylyltransferase 179 183 175 171 175Q2RMK3 Mannose-1-phosphateguanylyltransferase(GDP) 29 31 30 33 24Q2RMK4 Phosphomannomutase 92 78 110 79 117Q2RML1 dTDP-4-dehydrorhamnose3,5-epimerase 106 110 108 98 97Q2RML2 Hemolysin-typecalcium-bindingregion 1349 1224 1716 1168 1469Q2RML3 Uncharacterizedprotein 35 40 33 38 33Q2RMM1 ABCtransporterrelated 39 39 42 39 38Q2RMM3 SapC 59 67 74 67 65Q2RMM4 Uncharacterizedprotein 97 112 84 136 82Q2RMP3 NAD-dependentepimerase/dehydratase 44 39 46 33 45Q2RMP4 Glycosyltransferase 75 68 84 62 75Q2RMP7 Uncharacterizedprotein 0 0 1 0 0Q2RMP8 Putativepartitionprotein 0 0 1 0 0Q2RMP9 30SribosomalproteinS20 296 131 144 129 113Q2RMQ0 Shortchainenoyl-CoAhydratase 249 261 292 233 275Q2RMQ3 Ubiquinone/menaquinonebiosynthesismethyltransferaseubiE 124 103 161 103 149Q2RMQ4 2-octaprenylphenolhydroxylase 45 40 45 37 44Q2RMQ7 Cysteinesynthase 1447 1984 1219 1874 1160Q2RMQ8 Molybdopterinbiosynthesisprotein 11 10 13 8 8Q2RMQ9 Uncharacterizedprotein 0 0 5 8 0Q2RMR1 Glycolatereductase 213 182 258 252 312Q2RMR2 Uncharacterizedprotein 0 0 3 0 0Q2RMR5 Glycerophosphodiesterphosphodiesterase 9 10 8 8 9Q2RMR6 Polyribonucleotidenucleotidyltransferase 1832 1840 1820 1473 1970Q2RMR7 30SribosomalproteinS15 308 273 312 287 437Q2RMR8 tRNApseudouridinesynthaseB 28 35 37 26 29Q2RMR9 Ribosome-bindingfactorA 13 18 22 16 22Q2RMS0 TranslationinitiationfactorIF-2 671 728 567 621 478Q2RMS1 LSUribosomalproteinL7AE 14 9 11 10 11Q2RMS2 NusAantiterminationfactor 219 246 229 167 223Q2RMS4 tRNA(guanine-N(7)-)-methyltransferase 9 8 10 7 8Q2RMS5 S-adenosylmethioninesynthase2 517 466 536 489 653Q2RMS6 Transcriptionalregulator,XREfamily 4 0 6 1 7Q2RMS8 CBSdomainprotein 43 52 39 48 32Q2RMT0 PhoH-likeprotein 22 29 22 21 21Q2RMT3 Ornithine-acyl[acylcarrierprotein]N-acyltransferase 33 35 35 33 33Q2RMT4 Ferricuptakeregulator(FUR)family 30 21 29 25 26Q2RMT5 Transcriptionalregulator,MucRfamily 193 147 207 155 268Q2RMT8 PeptidaseM22,glycoprotease 6 5 4 6 4Q2RMT9 PeptidaseM15D,vanXD-ala-D-aladipeptidase 3 0 0 8 3Q2RMU6 HeatshockproteinHsp20 2 0 1 0 0Q2RMU9 Uncharacterizedprotein 13 4 11 5 0Q2RMV0 Argininosuccinatesynthase 602 626 654 593 719Q2RMV2 Uncharacterizedprotein 4 5 5 3 5Q2RMV3 Uncharacterizedprotein 101 111 105 75 107Q2RMV4 Peptidyl-tRNAhydrolase 1 4 2 4 2Q2RMW2 Uncharacterizedprotein 75 80 82 66 86Q2RMW9 Uncharacterizedprotein 21 16 20 22 15Q2RMX8 Glutathionylspermidineamidase 9 12 11 11 8Q2RMY2 MethyltransferaseFkbM 8 9 9 8 7

Detected

Diffe

rentiallyexpressed

proteins(foldchange≥1.5)

8

Q2RMZ0 Thioredoxin-related 202 190 189 162 165Q2RMZ1 PeptidaseS16,lon-like 37 35 36 37 42Q2RMZ2 UPF0434proteinRru_A3709 80 55 52 40 35Q2RMZ4 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinolhydroxylase/2-octaprenyl-6-methoxyphenolhydroxylase 76 70 76 71 75Q2RMZ7 Periplasmicsolutebindingprotein 2 6 1 0 0Q2RN00 Transcriptionalregulator,TetRfamily 11 11 7 10 7Q2RN02 Acriflavinresistanceprotein 17 16 19 17 19Q2RN03 OutermembranelipoproteincarrierproteinLolA 80 121 80 84 96Q2RN04 Fumarylacetoacetate(FAA)hydrolase 63 75 65 79 54Q2RN06 Acetoacetyl-CoAsynthase 93 86 81 77 79Q2RN07 Uncharacterizedprotein 66 63 62 59 71Q2RN08 Uncharacterizedprotein 2 2 2 2 2Q2RN11 Glutathionesynthetase 46 36 40 35 40Q2RN12 MaoC-likedehydratase 18 5 5 5 6Q2RN13 ABCtransportercomponent 0 0 1 0 0Q2RN15 Alaninedehydrogenase 20 26 22 18 18Q2RN26 GlutathioneS-transferase-like 13 9 12 11 9Q2RN30 ProteintranslocasesubunitsecD/proteintranslocasesubunitsecF 57 67 60 46 58Q2RN36 Chemotaxissensorytransducer 166 173 134 140 116Q2RN40 MajorfacilitatorsuperfamilyMFS_1 0 0 0 0 0Q2RN41 tRNAandrRNAcytosine-C5-methylase 16 21 16 18 18Q2RN45 PolysaccharidebiosynthesisproteinCapD 3 7 3 5 3Q2RN46 BifunctionalpurinebiosynthesisproteinPurH 430 443 453 443 531Q2RN49 Uncharacterizedprotein 11 11 14 8 10Q2RN52 2',5'RNAligase 26 21 20 18 19Q2RN56 NAD-dependentproteindeacylase 9 12 9 10 12Q2RN58 ProteinGrpE 315 302 309 290 242Q2RN59 Heat-inducibletranscriptionrepressorhrcA 12 9 10 10 10Q2RN60 RibonucleasePH 54 50 46 49 45Q2RN61 Non-canonicalpurineNTPpyrophosphatase 21 23 18 17 17Q2RN63 Twocomponenttranscriptionalregulator,wingedhelixfamily 0 0 0 1 0Q2RN64 GTPcyclohydrolaseII 37 42 37 39 32Q2RN67 Uncharacterizedprotein 29 28 29 31 29Q2RN69 Uncharacterizedprotein 106 121 112 103 104Q2RN70 Leucine--tRNAligase 374 395 381 372 363Q2RN72 DNApolymeraseIII,deltasubunit 0 0 0 1 0Q2RN73 ChromosomesegregationDNA-bindingprotein 18 11 15 15 18Q2RN74 ChromosomesegregationATPase 18 22 15 25 12Q2RN75 RibosomalRNAsmallsubunitmethyltransferaseG 1 1 2 1 1Q2RN77 tRNAmodificationGTPaseMnmE 9 9 8 7 9Q2RN78 Uncharacterizedprotein 11 9 10 9 10Q2RN79 Uncharacterizedprotein 36 27 37 28 38Q2RN81 Zinc-containingalcoholdehydrogenasesuperfamily 108 109 101 98 82Q2RN82 TranscriptionterminationfactorRho 119 141 137 123 154Q2RN85 Uroporphyrinogendecarboxylase 480 529 528 376 480Q2RN86 Putativepyruvate,phosphatedikinaseregulatoryprotein 14 17 16 12 15Q2RN87 Maf-likeproteinRru_A3614 4 0 2 0 2Q2RN90 DNApolymeraseIII,epsilonsubunit 1 2 1 2 0Q2RN91 Protein-exportproteinSecB 63 49 46 48 34Q2RN93 Uncharacterizedprotein 212 246 197 168 218Q2RNA1 ATP-dependentproteaseATPasesubunitHslU 383 319 436 280 457Q2RNA2 ATP-dependentproteasesubunitHslV 35 32 36 28 28Q2RNA3 Transcriptionalregulator,XREfamily 275 324 276 315 233Q2RNA5 ImidazoleglycerolphosphatesynthasesubunitHisH 43 32 36 34 44Q2RNA6 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamideisomerase 41 35 49 29 47Q2RNA7 ImidazoleglycerolphosphatesynthasesubunitHisF 44 42 51 42 49Q2RNA8 Phosphoribosyl-ATPpyrophosphatase 1 1 2 1 1Q2RNA9 Histidinetriad(HIT)protein 146 145 141 128 165Q2RNB0 Uncharacterizedprotein 2 1 2 2 2Q2RNB3 CytochromeB561 24 35 25 38 27Q2RNB5 Peptidoglycan-bindingLysM 2 0 0 0 0Q2RNB6 Phosphatidylserinedecarboxylaseproenzyme 15 11 13 10 12Q2RNB8 ATP-dependentprotease-like 21 24 23 17 22Q2RNB9 Uncharacterizedprotein 18 12 26 13 24Q2RNC0 Putativepterin-4-alpha-carbinolaminedehydratase 6 3 5 3 4Q2RNC2 ProteaseHtpXhomolog 9 12 8 16 8Q2RNC5 UDP-glucuronate5'-epimerase 2 0 4 5 5Q2RNC8 Uncharacterizedprotein 17 10 16 13 21Q2RNC9 YCII-related 69 65 101 78 89Q2RND0 Glycerol-3-phosphatedehydrogenase[NAD(P)+] 42 44 41 34 29Q2RND3 Porphobilinogendeaminase 333 340 366 305 407Q2RND4 UroporphyrinogenIIIsynthaseHEM4 395 378 363 376 456Q2RND5 HemY-like 171 165 155 168 204Q2RND7 D,D-heptose1,7-bisphosphatephosphatase 1 0 2 2 0Q2RND8 Chemotaxissensorytransducer 4 4 2 4 0Q2RNE0 ABCtransporter,transmembraneregion 0 0 0 1 0Q2RNE6 ChaperoneproteinDnaK 954 1015 968 924 1052Q2RNE7 ChaperoneproteinDnaJ 167 175 176 142 160Q2RNF0 Aldo/ketoreductase 137 143 144 159 144Q2RNF1 Cobyricacidsynthase 22 28 23 19 21Q2RNF2 Cobyricacidsynthase 46 42 52 36 44Q2RNF3 Magnesium-protoporphyrinIXmonomethylesteranaerobicoxidativecyclase 199 269 231 360 160Q2RNF9 Malatedehydrogenase 132 129 128 96 111Q2RNG5 Cob(II)yrinicacida,c-diamidereductase 22 25 18 18 22Q2RNG6 Tryptophan--tRNAligase 102 114 113 127 149Q2RNG9 UspA 32 46 30 31 31Q2RNH0 Nitrogen-fixingNifU-like 107 118 85 132 68Q2RNH7 Phenylalanine--tRNAligasebetasubunit 577 674 570 483 583Q2RNH8 Phenylalanine--tRNAligasealphasubunit 179 173 198 165 182Q2RNH9 50SribosomalproteinL20 171 160 229 149 214Q2RNI0 50SribosomalproteinL35 341 245 209 234 262Q2RNI7 DNApolymeraseA 24 25 28 21 26Q2RNI9 Glutamineamidotransferaseclass-I 37 35 46 30 34Q2RNJ0 Aconitase 1399 1160 1396 1623 1779Q2RNJ2 AMP-dependentsynthetaseandligase 12 12 15 12 10Q2RNJ7 Putativephenylacetate-CoAligase 76 37 70 48 85Q2RNK0 Lipoprotein,putative 41 54 54 44 62Q2RNK2 Uncharacterizedprotein 11 11 18 8 20Q2RNK3 UbiquinonebiosynthesisproteinCOQ7 53 31 49 39 69Q2RNK7 Putativediguanylatephosphodiesterase(EALdomain)withResponseRegulatorReceivermodulation 11 9 15 9 12Q2RNL2 Uncharacterizedprotein 1 0 1 0 1Q2RNL3 TranslationinitiationfactorIF-3 49 49 59 38 70Q2RNL4 Threonine--tRNAligase 287 314 311 311 362

Detected

9

Q2RNL6 Uncharacterizedprotein 26 36 21 25 15Q2RNM1 Succinyl-diaminopimelatedesuccinylase 23 18 22 19 21Q2RNM2 2,3,4,5-tetrahydropyridine-2,6-dicarboxylateN-succinyltransferase 141 139 147 113 138Q2RNM3 Putativediguanylatecyclase(GGDEFdomain)withPAS/PACsensordomain 5 6 5 9 5Q2RNM6 CysteinedesulfurationproteinSufE 9 12 12 12 12Q2RNM9 Nucleoid-associatedproteinRru_A3472 57 85 57 82 55Q2RNN1 Uncharacterizedprotein 7 7 8 6 7Q2RNN2 Uncharacterizedprotein 124 125 118 113 106Q2RNN9 Cold-shockDNA-bindingproteinfamily 101 92 88 119 113Q2RNP0 Carbohydratekinase,FGGY 10 13 15 11 13Q2RNP1 Cyclicnucleotide-bindingdomain(CNMP-BD)protein 5 5 5 4 4Q2RNP2 Uncharacterizedprotein 14 9 16 14 16Q2RNP3 GCN5-relatedN-acetyltransferase 4 4 4 3 3Q2RNP5 Uncharacterizedprotein 164 208 187 217 222Q2RNP8 ABCtransportercomponent 8 8 8 9 6Q2RNQ4 PTSsystemfructosesubfamilyIIAcomponent 26 24 31 26 37Q2RNQ6 Phosphoenolpyruvate-proteinphosphotransferase 2 0 0 0 0Q2RNR0 Transcriptionalregulator,PadRfamily 29 25 19 29 20Q2RNR3 Uncharacterizedprotein 2 3 6 0 0Q2RNR5 Nucleotidyltransferase 15 20 19 16 18Q2RNR8 Thioredoxin 209 246 235 251 206Q2RNS1 Acetyl-coenzymeAcarboxylasecarboxyltransferasesubunitbeta 157 126 142 155 168Q2RNS3 Tryptophansynthasealphachain 123 148 124 119 108Q2RNS4 Tryptophansynthasebetachain 214 192 199 209 159Q2RNS5 Uncharacterizedprotein 0 0 6 0 8Q2RNS6 N-(5'-phosphoribosyl)anthranilateisomerase 18 9 13 9 11Q2RNS7 Orotidine5'-phosphatedecarboxylase 51 58 58 41 67Q2RNS9 Twocomponenttranscriptionalregulator,wingedhelixfamily 58 54 63 65 55Q2RNT0 Uncharacterizedprotein 52 64 66 47 62Q2RNT2 Phosphoenolpyruvatecarboxykinase[GTP] 903 818 923 753 822Q2RNT7 ABCtransportercomponent 4 4 8 6 6Q2RNU2 Uncharacterizedprotein 10 12 9 17 9Q2RNU5 Carboxylesterase 28 31 30 25 22Q2RNU6 Formaldehydedehydrogenase(Glutathione) 240 222 226 221 171Q2RNU8 Sulphatetransportsystempermeaseprotein1 41 41 36 32 35Q2RNV5 Autoinducersynthesisprotein 9 5 14 4 10Q2RNW1 Uncharacterizedprotein 44 27 53 26 63Q2RNW2 Uncharacterizedprotein 6 2 7 2 6Q2RNW4 Acetyl-CoAC-acetyltransferase 6 6 6 5 7Q2RNW7 Precorrin-4C11-methyltransferase 2 2 2 2 2Q2RNX1 Uncharacterizedprotein 21 10 19 12 20Q2RNX3 Uncharacterizedprotein 0 0 1 0 0Q2RNX4 Alpha/betahydrolasefold 54 52 45 41 41Q2RNX5 Glycosyltransferase,group1 27 28 30 24 36Q2RNX6 Glycosyltransferase,family9 6 7 7 9 7Q2RNX8 Uncharacterizedprotein 472 490 507 421 532Q2RNX9 tRNA/rRNAmethyltransferase(SpoU) 7 9 8 8 8Q2RNY0 Zinc-containingalcoholdehydrogenasesuperfamily 19 12 18 11 16Q2RNZ1 ElectrontransportproteinSCO1/SenC 22 24 21 23 24Q2RNZ5 Polyhydroxyalkanoatedepolymerase 253 187 266 215 276Q2RP00 Methionyl-tRNAformyltransferase 29 34 27 24 24Q2RP01 Peptidedeformylase 5 6 4 0 0Q2RP08 Pyrimidine5-nucleotidase 2 3 1 3 0Q2RP10 Acetylglutamatekinase 56 55 67 73 65Q2RP11 ProbableGTP-bindingproteinEngB 14 15 14 17 15Q2RP12 MembraneproteininsertaseYidC 86 102 71 77 79Q2RP16 PeriplasmicSensorSignalTransductionHistidineKinase 6 4 7 5 5Q2RP18 SAM-dependentmethyltransferase 127 131 128 99 139Q2RP19 Cytochromecoxidasecbb3-type,subunitI 2 2 1 2 0Q2RP20 CytochromeCoxidase,mono-hemesubunit/FixO 114 177 110 198 112Q2RP21 Cbb3-typecytochromecoxidasesubunit 134 128 136 166 145Q2RP25 4Fe-4Sferredoxin,iron-sulfurbinding 40 39 41 45 45Q2RP30 3-methyl-2-oxobutanoatehydroxymethyltransferase 78 102 98 98 84Q2RP32 Xanthine-guaninephosphoribosyltransferase 226 263 243 235 264Q2RP33 Gamma-glutamyltransferase 17 19 18 15 18Q2RP34 Uncharacterizedprotein 168 130 187 146 214Q2RP39 Plasmidmaintenancesystemantidoteprotein 0 0 1 0 0Q2RP49 Uncharacterizedprotein 16 17 13 16 12Q2RP51 Glycosidehydrolase,family3-like 71 63 79 54 92Q2RP55 CircadianclockproteinKaiC 0 0 0 0 0Q2RP60 Metallophosphoesterase 0 4 0 0 0Q2RP63 Sigma-24(FecI) 32 28 31 35 26Q2RP65 Responseregulatorreceiverdomainprotein(CheY) 911 1225 728 855 664Q2RP68 Uncharacterizedprotein 71 47 60 44 57Q2RP69 Pyrroline-5-carboxylatereductase 108 130 103 125 147Q2RP73 Acetylornithineaminotransferase 117 141 127 95 153Q2RP76 Uncharacterizedprotein 22 19 21 17 31Q2RP79 GlutathioneS-transferasefamilyprotein 518 529 524 457 460Q2RP80 Hydroxyacylglutathionehydrolase 9 5 7 7 7Q2RP81 Uncharacterizedprotein 0 0 1 0 0Q2RP83 MethioninebiosynthesisMetW 13 19 13 13 10Q2RP85 Chorismatemutase 60 58 59 62 61Q2RP86 Histidinol-phosphateaminotransferase 118 155 112 166 117Q2RP88 Uncharacterizedprotein 20 8 23 8 35Q2RP90 Uncharacterizedprotein 13 17 14 15 10Q2RP92 Ribonucleotidereductaselargesubunit 49 51 45 40 46Q2RP93 1-acyl-sn-glycerol-3-phosphateacyltransferase 10 18 11 16 10Q2RP97 MJ0042finger-likeregion 28 39 32 27 32Q2RP98 dTDP-glucose4,6-dehydratase 42 30 48 39 43Q2RPA1 DSBAoxidoreductase 225 389 235 264 237Q2RPA6 ATPsynthasesubunitb2 223 244 234 195 292Q2RPA7 ATPsynthasesubunitb1 356 383 367 324 373Q2RPA9 Chemotaxissensorytransducer 37 21 36 21 35Q2RPB7 L-threoninesynthase 108 102 105 105 93Q2RPB8 Thermostablecarboxypeptidase1 26 32 23 28 23Q2RPB9 ThiJ/PfpI 47 45 52 41 48Q2RPC2 Cyclase/dehydrase 10 12 12 9 8Q2RPD4 Uncharacterizedprotein 29 38 31 31 22Q2RPD5 Uncharacterizedprotein 0 0 1 7 2Q2RPE0 DNAmethylaseN-4/N-6 41 71 15 79 10Q2RPE2 Uncharacterizedprotein 0 0 0 4 1Q2RPE4 Responseregulatorreceiverprotein 10 14 13 13 15Q2RPE5 50SribosomalproteinL33 84 60 56 66 64

10

Q2RPE7 RibonucleaseR 2 2 2 2 2Q2RPE8 DNAtopoisomerase 99 91 106 90 124Q2RPF1 Extracellularsolute-bindingprotein,family1 29 41 42 41 44Q2RPF5 Helix-turn-helixprotein,CopG 0 0 0 0 0Q2RPF8 Glycerol-3-phosphateacyltransferase 16 17 18 17 17Q2RPG0 Aspartatecarbamoyltransferase 42 48 53 48 41Q2RPH4 Glutamyl-tRNA(Gln)amidotransferasesubunitA 655 688 690 623 839Q2RPH5 Aspartyl/glutamyl-tRNA(Asn/Gln)amidotransferasesubunitB 400 451 430 433 589Q2RPH7 Transcriptionalregulator,TetRfamily 2 23 0 0 0Q2RPH9 Uncharacterizedprotein 8 6 8 7 8Q2RPI1 ABCtransportercomponent 16 18 18 16 17Q2RPI4 Extracellularsolute-bindingprotein,family5 119 132 134 117 136Q2RPI5 Histidinol-phosphatephosphatase,putative,inositolmonophosphatase 57 46 47 35 39Q2RPI7 3-deoxy-manno-octulosonatecytidylyltransferase 43 48 45 35 46Q2RPI8 Prephenatedehydratase 64 55 63 67 70Q2RPJ4 vonWillebrandfactor,typeA 16 16 17 15 23Q2RPJ5 Uncharacterizedprotein 32 32 38 40 44Q2RPJ6 Uncharacterizedprotein 58 47 64 56 60Q2RPJ7 Conservedvirulencefactorprotein 52 52 57 58 56Q2RPJ9 Serine/threonineproteinkinase 47 46 49 46 62Q2RPK0 ABCtransportercomponent 0 0 0 0 1Q2RPK2 Uncharacterizedprotein 16 13 16 15 18Q2RPK5 Twin-argininetranslocationpathwaysignal 157 169 168 128 144Q2RPL2 Uncharacterizedprotein 9 9 10 9 10Q2RPL4 Putativepartition-relatedprotein 8 7 7 6 8Q2RPM3 Pyridoxamine5'-phosphateoxidase-related,FMN-binding 0 0 0 13 0Q2RPN3 Polysaccharideexportprotein 2 1 2 1 2Q2RPR3 Uncharacterizedprotein 3 0 0 3 0Q2RPR4 Uncharacterizedprotein 92 114 106 99 114Q2RPR5 Pyrrolo-quinolinequinone 20 24 23 19 29Q2RPS1 3-hydroxyacyl-CoAdehydrogenase 384 313 334 366 376Q2RPS2 Electrontransferflavoprotein 570 600 619 770 652Q2RPS3 Electrontransferflavoproteinbeta-subunit 724 729 598 757 682Q2RPS4 ATP:cob(I)alaminadenosyltransferase 132 132 142 114 135Q2RPS8 MscSMechanosensitiveionchannel 23 15 20 15 17Q2RPT6 Isovaleryl-CoAdehydrogenase 75 71 77 90 69Q2RPT7 Crotonyl-CoAreductase 18 19 18 26 20Q2RPU2 Putativesuppressorforcopper-sensitivityB 9 8 7 7 6Q2RPU3 Alkylhydroperoxidereductase/Thiolspecificantioxidant/Malallergen 445 375 470 427 389Q2RPU7 Homoserinekinase 8 7 8 7 6Q2RPU9 Aminomethyltransferase 25 24 24 20 34Q2RPV0 GlycinecleavagesystemHprotein 6 5 7 5 7Q2RPV1 Probableglycinedehydrogenase[decarboxylating]subunit1 22 25 26 20 37Q2RPV2 Glycinedehydrogenase(Decarboxylating)betasubunit 44 44 43 36 55Q2RPV3 Uncharacterizedprotein 5 2 3 2 2Q2RPV5 Uncharacterizedprotein 0 0 2 0 0Q2RPW1 PAS/PACsensorhybridhistidinekinase 8 6 8 7 8Q2RPW2 Uncharacterizedprotein 176 165 157 128 168Q2RPW3 Chemotaxissensorytransducer 1 3 1 2 0Q2RPX1 Glutamine--fructose-6-phosphateaminotransferase[isomerizing] 110 120 107 155 142Q2RPY1 Uncharacterizedprotein 1 0 2 1 2Q2RPY5 Twin-argininetranslocationpathwaysignal 3 0 6 1 8Q2RPY9 Isochorismatasehydrolase 5 6 4 4 3Q2RPZ3 SOULheme-bindingprotein 17 12 19 15 25Q2RPZ4 Uncharacterizedprotein 0 0 0 0 0Q2RPZ7 Transcriptionalregulator,GntRfamily 0 3 4 0 0Q2RPZ8 Nicotinamidase 16 9 15 10 13Q2RQ02 Acetatekinase 12 15 7 0 0Q2RQ06 Uncharacterizedprotein 20 12 18 13 12Q2RQ07 Uncharacterizedprotein 9 7 8 6 7Q2RQ08 Precorrin-6YC5,15-methyltransferase(Decarboxylating) 56 47 55 47 60Q2RQ09 Precorrin-8Xmethylmutase 23 25 21 22 22Q2RQ10 Precorrin-2C20-methyltransferase/cobalt-factorIIC20-methyltransferase 20 19 17 15 15Q2RQ12 Precorrin-6Areductase 4 4 3 4 4Q2RQ15 Hydroxyneurosporenesynthase 17 24 20 18 20Q2RQ18 Hydroxyneurosporene-O-methyltransferase 29 19 35 22 35Q2RQ19 2-desacetyl-2-hydroxyethylbacteriochlorophyllide 56 42 56 35 60Q2RQ27 PeptidaseM16-like 10 15 8 14 6Q2RQ28 PeptidaseM16-like 24 35 28 39 20Q2RQ34 Isoleucine--tRNAligase 570 607 532 427 518Q2RQ35 FMNadenylyltransferase/riboflavinkinase 14 13 14 14 14Q2RQ36 MaoC-likedehydratase 6 7 8 7 6Q2RQ38 Zinc-containingalcoholdehydrogenasesuperfamily 110 105 110 110 92Q2RQ42 Pyruvatephosphatedikinase 287 290 304 275 281Q2RQ43 Glycine--tRNAligasebetasubunit 194 222 199 198 219Q2RQ44 Glycine--tRNAligasealphasubunit 40 50 49 43 49Q2RQ48 Farnesyltranstransferase 67 69 67 68 72Q2RQ51 Glucose-6-phosphateisomerase 51 48 45 45 44Q2RQ53 Uncharacterizedprotein 12 7 13 6 13Q2RQ56 ABCtransporter,transmembraneregion 0 0 0 0 0Q2RQ58 GlycinecleavageTprotein(Aminomethyltransferase) 23 21 23 14 20Q2RQ59 Uncharacterizedprotein 23 24 23 21 24Q2RQ60 Glycosyltransferase,group1 28 22 21 18 20Q2RQ61 Asparaginesynthetase 30 31 31 24 32Q2RQ62 Dihydroorotasemultifunctionalcomplextype 88 66 82 77 82Q2RQ67 UDP-N-acetylglucosamine1-carboxyvinyltransferase 17 16 19 12 22Q2RQ76 Uncharacterizedprotein 26 12 31 16 29Q2RQ83 Uncharacterizedprotein 12 12 10 9 12Q2RQ87 ABC-typeuncharacterizedtransportsystemauxiliarycomponent-like 44 40 68 60 82Q2RQ97 Histidinetriad(HIT)protein 59 50 69 53 75Q2RQ99 Transcriptionalregulator,LysRfamily 12 10 10 7 8Q2RQA0 Thioredoxinreductase 30 28 35 23 26Q2RQA2 Transcriptionalregulator,AsnCfamily 0 0 0 2 4Q2RQA3 Twin-argininetranslocationpathwaysignal 18 11 18 12 17Q2RQA4 ABCtransportercomponent 6 5 7 6 6Q2RQA9 Uncharacterizedprotein 4 4 2 0 0Q2RQB1 TranscriptionelongationfactorGreA 155 88 145 111 178Q2RQB2 Carbamoyl-phosphatesynthaselargechain 361 393 380 447 393Q2RQB3 Carbamoyl-phosphatesynthasesmallchain 93 112 95 119 84Q2RQB6 RNApolymerasesigmafactor 152 185 136 136 119Q2RQB7 Virulenceprotein 7 7 11 8 8Q2RQC0 Uncharacterizedprotein 15 11 20 11 24Q2RQC1 L-threonineammonia-lyase 87 80 71 116 66

11

Q2RQC4 FADdependentoxidoreductase 12 12 10 14 13Q2RQC5 Extracellularligand-bindingreceptor 4 6 5 5 5Q2RQC7 PeptidaseM20D,amidohydrolase 127 179 121 221 115Q2RQC8 IntegralmembraneproteinTerC 40 43 42 32 36Q2RQD1 Ornithinecyclodeaminase 14 13 13 12 15Q2RQD2 LSUribosomalproteinL11Pmethyltransferase 83 70 78 92 77Q2RQD8 Uncharacterizedprotein 0 0 3 0 0Q2RQD9 Uncharacterizedprotein 44 37 44 35 41Q2RQE0 Flagellin-like 68 65 78 66 79Q2RQE1 FlagellarFlbT 13 10 12 14 12Q2RQE2 PutativeflagellarproteinFlaF 9 9 13 11 12Q2RQF0 Uncharacterizedprotein 16 20 16 15 14Q2RQF1 RNApolymerase-bindingtranscriptionfactorDksA 28 31 29 28 26Q2RQF7 Flagellarbasalbody-associatedproteinFliL 10 10 8 10 8Q2RQF9 Uncharacterizedprotein 40 50 32 53 25Q2RQG1 Responseregulatorreceiverdomainprotein(CheY) 245 264 258 209 254Q2RQG6 Uncharacterizedprotein 27 27 31 31 27Q2RQH0 Uncharacterizedprotein 2 0 4 1 3Q2RQH3 Flagellarbasal-bodyrodproteinFlgC 6 6 6 6 6Q2RQH9 ProteinRecA 225 217 187 187 167Q2RQI0 Alanine--tRNAligase 215 208 241 237 224Q2RQI3 MolybdopterinsynthasesubunitMoaE 46 60 36 44 44Q2RQI5 Cyclicpyranopterinmonophosphatesynthaseaccessoryprotein 51 61 50 49 51Q2RQI7 RibosomalproteinS12methylthiotransferaseRimO 34 41 39 40 27Q2RQJ2 Uncharacterizedprotein 9 14 9 13 10Q2RQJ4 ABCtransportercomponent 6 6 4 6 4Q2RQK0 Uncharacterizedprotein 35 36 33 47 45Q2RQK1 Uncharacterizedprotein 74 95 60 90 57Q2RQK2 HeavymetaltranslocatinP-typeATPase 38 34 27 26 32Q2RQK3 Uncharacterizedprotein 4 4 7 4 0Q2RQK4 Deoxycytidinetriphosphatedeaminase 32 22 30 24 31Q2RQK6 ThymidylatesynthaseThyX 60 67 58 49 55Q2RQK7 Deoxyuridine5'-triphosphatenucleotidohydrolase 53 64 61 47 48Q2RQL0 N-isopropylammelideisopropylaminohydrolase 22 23 24 18 22Q2RQL5 Predictedperiplasmicligand-bindingsensorprotein 70 80 57 79 56Q2RQL7 UPF0261proteinRru_A2781 57 52 46 60 43Q2RQL8 Uncharacterizedprotein 221 246 219 293 220Q2RQM3 Dienelactonehydrolase 94 75 117 77 116Q2RQM4 Chemotaxissensorytransducer 56 48 59 41 67Q2RQM6 ATPphosphoribosyltransferase 18 26 17 20 18Q2RQM7 Histidinoldehydrogenase 90 87 96 97 91Q2RQN0 Maf-likeproteinRru_A2768 13 15 11 11 16Q2RQN1 RibonucleaseG(RNaseG) 14 14 12 10 11Q2RQP0 Responseregulatorreceiverdomainprotein(CheY) 118 119 115 115 133Q2RQQ7 PolysaccharidebiosynthesisproteinCapD 26 15 38 14 38Q2RQQ9 Uncharacterizedprotein 4 4 5 3 4Q2RQR0 Glycosyltransferase,group1 13 6 14 6 10Q2RQR8 Uncharacterizedprotein 0 0 0 2 0Q2RQR9 Uncharacterizedprotein 60 51 62 42 50Q2RQS1 Uncharacterizedprotein 3 0 0 0 0Q2RQS3 Multi-sensorhybridhistidinekinase 3 0 0 0 0Q2RQS4 Phospholipase/Carboxylesterase 41 44 34 33 36Q2RQS5 Rubrerythrin 70 78 71 70 69Q2RQS6 2-oxoglutaratesynthase,betasubunit 156 146 149 120 141Q2RQS7 2-oxoglutaratesynthase,alphasubunit 231 199 232 214 185Q2RQS9 Phenylpyruvatedecarboxylase 13 19 9 13 13Q2RQT0 DEAD/DEAHboxhelicase 163 130 146 163 149Q2RQT6 Transcriptionalregulator,TetRfamily 10 24 5 23 5Q2RQT7 GCN5-relatedN-acetyltransferase 0 0 0 1 0Q2RQT8 GramnegativetopoisomeraseIV,subunitB 13 15 10 14 8Q2RQT9 Thioesterasesuperfamily 12 10 14 10 13Q2RQU0 Uncharacterizedprotein 32 11 14 11 20Q2RQU1 Alpha/betahydrolasefold 5 0 8 6 0Q2RQU5 RNAmethyltransferaseTrmH,group3 13 12 16 14 12Q2RQU6 ElongationfactorTu2 5572 5575 6011 5146 6117Q2RQU8 Transcriptiontermination/antiterminationproteinnusG 118 117 102 106 100Q2RQU9 50SribosomalproteinL11 347 501 399 339 466Q2RQV0 50SribosomalproteinL1 630 585 557 461 561Q2RQV1 50SribosomalproteinL10 742 783 772 589 840Q2RQV2 50SribosomalproteinL7/L12 2392 2169 1754 1780 1945Q2RQV3 DNA-directedRNApolymerasesubunitbeta 1431 1706 1407 1214 1409Q2RQV5 30SribosomalproteinS12 904 673 730 660 871Q2RQV6 30SribosomalproteinS7 790 758 687 551 787Q2RQV7 ElongationfactorG 2328 2565 2456 1911 2395Q2RQV9 30SribosomalproteinS10 387 317 296 250 291Q2RQW1 50SribosomalproteinL4 1477 1633 1467 1212 1492Q2RQW2 50SribosomalproteinL23 456 325 324 265 362Q2RQW3 50SribosomalproteinL2 950 828 813 723 985Q2RQW4 30SribosomalproteinS19 505 458 527 394 543Q2RQW5 50SribosomalproteinL22 108 98 98 73 105Q2RQW6 30SribosomalproteinS3 1578 1304 1325 1208 1522Q2RQW8 50SribosomalproteinL29 306 276 280 187 211Q2RQX0 50SribosomalproteinL14 58 46 23 35 31Q2RQX1 50SribosomalproteinL24 557 517 567 490 587Q2RQX3 30SribosomalproteinS14 517 228 316 194 459Q2RQX4 30SribosomalproteinS8 309 205 246 240 271Q2RQX5 50SribosomalproteinL6 781 839 723 636 721Q2RQX7 30SribosomalproteinS5 674 634 560 519 623Q2RQX8 50SribosomalproteinL30 382 278 394 230 359Q2RQX9 50SribosomalproteinL15 266 247 196 172 231Q2RQY0 ProteintranslocasesubunitSecY 29 28 14 29 14Q2RQY2 30SribosomalproteinS13 153 114 116 106 100Q2RQY3 30SribosomalproteinS11 540 578 592 445 623Q2RQY4 DNA-directedRNApolymerasesubunitalpha 743 847 709 605 756Q2RQY5 50SribosomalproteinL17 514 431 394 391 404Q2RQY6 PeptidaseS1C,Do 51 44 47 45 59Q2RQZ0 Haloaciddehalogenase-likehydrolase 0 0 0 1 0Q2RQZ2 ATP12ATPase 31 22 29 28 31Q2RQZ4 Acylphosphatase 2 1 3 1 4Q2RQZ5 Uncharacterizedprotein 23 16 26 20 25Q2RQZ7 Aminotransferase 0 0 0 1 0Q2RQZ9 Extracellularendoalpha-14polygalactosaminidaseorrelatedpolysaccharidehydrolase-like 26 20 23 19 31Q2RR00 FADdependentoxidoreductase 7 6 10 6 8

12

Q2RR01 Uncharacterizedprotein 9 11 10 11 13Q2RR06 Alpha/betahydrolasefold 3 0 0 2 7Q2RR08 Uncharacterizedprotein 48 42 44 34 32Q2RR09 Uncharacterizedprotein 62 73 72 62 70Q2RR10 Uncharacterizedprotein 22 23 23 23 26Q2RR17 Uncharacterizedprotein 8 8 7 9 7Q2RR19 Beta-lactamase-like 6 6 6 5 5Q2RR21 Pyridoxine/pyridoxamine5'-phosphateoxidase 5 5 6 5 6Q2RR22 ChaperoneDnaJ 20 14 16 17 17Q2RR24 Enoyl-[acyl-carrier-protein]reductase[NADH] 221 157 248 176 254Q2RR25 Chorismatesynthase 40 33 37 32 43Q2RR28 HemolysinA 6 7 9 7 9Q2RR30 Farnesyl-diphosphatesynthase 161 154 177 104 152Q2RR35 Uncharacterizedprotein 23 28 31 29 32Q2RR36 UspA 188 105 170 149 206Q2RR41 Uncharacterizedprotein 107 102 106 87 94Q2RR46 Periplasmicsensordiguanylatecyclase/phosphodiesterase 1 0 2 0 2Q2RR49 Tat-translocatedenzyme 15 21 10 31 0Q2RR50 Uncharacterizedprotein 19 40 14 34 0Q2RR72 1,4-alpha-glucanbranchingenzymeGlgB 167 146 187 144 176Q2RR74 Transcriptionalregulator,BadM/Rrf2family 2 1 1 0 1Q2RR75 Iron-regulatedABCtransportermembranecomponentSufB 67 74 64 73 43Q2RR76 FeSassemblyATPaseSufC 120 139 108 144 83Q2RR77 FeSassemblyproteinSufD 107 123 81 98 63Q2RR83 CheWprotein 32 36 27 29 24Q2RR88 Uncharacterizedprotein 488 458 553 487 546Q2RR89 Mandelateracemase/muconatelactonizingenzyme 76 94 84 70 69Q2RR92 Methylaseinvolvedinubiquinone/menaquinonebiosynthesis-like 8 10 7 7 6Q2RR93 Uncharacterizedprotein 78 70 82 51 93Q2RR98 N-formylglutamateamidohydrolase 0 3 0 0 0Q2RRA1 Signaltransductionhistidinekinase 10 12 9 10 10Q2RRA2 KaiB 22 25 20 18 20Q2RRA3 CircadianclockproteinKaiC 59 54 57 40 52Q2RRA9 Uncharacterizedprotein 19 43 15 46 10Q2RRC4 DNAhelicase,putative 11 12 10 8 8Q2RRC5 Penicillin-bindingprotein1A 4 6 6 4 5Q2RRC8 AMP-dependentsynthetaseandligase 37 42 36 30 30Q2RRD2 Acetyl-CoAhydrolase/transferase 102 82 131 65 95Q2RRD3 3-oxoacyl-(Acyl-carrier-protein)reductase 100 88 111 75 105Q2RRD5 Uncharacterizedprotein 55 50 63 38 54Q2RRD8 Orotatephosphoribosyltransferase 25 18 26 26 20Q2RRD9 Enoyl-CoAhydratase/shortchainenoyl-CoAhydratase 3 2 3 3 3Q2RRE0 Responseregulatorreceiverdomainprotein(CheY) 0 0 0 0 0Q2RRE1 CoproporphyrinogenIIIoxidase,anaerobic 50 82 48 64 32Q2RRE2 Hydroxypyruvateisomerase 21 13 14 9 16Q2RRE5 Rhodanese-like 0 0 3 9 3Q2RRE7 ABCtransportercomponent 24 23 19 17 20Q2RRE8 Peptidechainreleasefactor3 54 58 60 49 67Q2RRF9 Glucokinase 24 24 26 22 24Q2RRG0 Alpha,alpha-trehalose-phosphatesynthase(UDP-forming) 13 9 12 7 11Q2RRG1 Chemotaxissensorytransducer 3 5 1 4 0Q2RRG2 5'-Nucleotidase 17 14 21 16 25Q2RRG7 ArgKprotein 83 65 86 70 76Q2RRH0 Glycinebetaine/L-prolinetransportATP-bindingsubunit 3 5 0 0 0Q2RRH2 PAS/PACsensorsignaltransductionhistidinekinase 1 1 1 2 1Q2RRH7 FeoA 0 0 2 7 0Q2RRH9 Glyoxalase/bleomycinresistanceprotein/dioxygenase 148 185 185 216 135Q2RRI0 Pyruvatekinase 802 1026 824 905 685Q2RRI1 Hydroxypyruvatereductase 34 24 31 26 30Q2RRI5 Chemotaxissensorytransducer 120 113 134 153 125Q2RRJ5 PeptidaseM48,Ste24p 85 73 81 74 92Q2RRK7 Mammaliancellentryrelated 7 5 9 6 7Q2RRK8 Cellulase-likeprotein 7 7 11 7 8Q2RRL0 Acetyl-CoAcarboxylase,biotincarboxylase 74 83 95 90 98Q2RRL1 Biotincarboxylcarrierprotein 57 71 74 80 76Q2RRL3 Thiazolesynthase 21 23 23 29 25Q2RRL7 DSBAoxidoreductase 56 63 54 45 41Q2RRM0 PeptidaseM48 12 13 12 11 16Q2RRM1 Gamma-glutamyltranspeptidase 27 18 20 20 22Q2RRM2 Aminotransferase 39 39 46 29 41Q2RRM4 N-acetyl-gamma-glutamyl-phosphatereductase 109 68 143 91 195Q2RRM6 ABCtransportercomponent 41 53 40 38 33Q2RRM8 LipoproteinYaeC 313 125 439 104 645Q2RRN2 Poly(R)-hydroxyalkanoicacidsynthase,classI 543 456 614 400 479Q2RRN4 Aminotransferase 106 141 96 107 81Q2RRN5 Homoserinedehydrogenase 232 226 230 179 252Q2RRP1 Phosphoribulokinase 6 5 6 6 9Q2RRQ1 PepSY-associatedTMhelix 0 0 0 1 0Q2RRQ5 Twin-argininetranslocationpathwaysignal 0 0 0 0 0Q2RRR9 Uncharacterizedprotein 0 0 3 0 0Q2RRT3 PeptidemethioninesulfoxidereductaseMsrA 54 59 64 57 73Q2RRT5 Oligopeptide/dipeptideABCtransporter,ATP-bindingprotein-like 84 72 96 71 88Q2RRT6 Oligopeptide/dipeptideABCtransporter,ATP-bindingprotein-like 39 26 45 37 42Q2RRT9 Extracellularsolute-bindingprotein,family5 7248 6599 7833 7711 11565Q2RRU2 TetratricopeptideTPR_4 59 62 61 72 54Q2RRU9 Uncharacterizedprotein 41 37 45 27 57Q2RRW5 Responseregulatorreceiverdomainprotein(CheY) 2 3 1 0 0Q2RRY6 NADHperoxidase 128 112 121 133 165Q2RS03 Uncharacterizedprotein 24 22 21 20 17Q2RS31 Ferredoxin 0 0 0 3 0Q2RS35 Uncharacterizedprotein 99 64 101 73 101Q2RS36 Uncharacterizedprotein 8 7 7 9 5Q2RS40 Uracilphosphoribosyltransferase 160 182 151 123 144Q2RS44 Extracellularsolute-bindingprotein,family3 41 32 49 22 72Q2RS45 ABCtransportercomponent 28 16 27 21 32Q2RS46 L-threoninealdolase 57 51 55 54 50Q2RS47 Uncharacterizedprotein 0 0 0 0 0Q2RS50 Glycogensynthase 32 32 38 29 39Q2RS51 Phosphorylase 228 172 235 217 278Q2RS53 Glutathione-dependentformaldehyde-activating,GFA 13 9 16 9 17Q2RS55 Shortchainenoyl-CoAhydratase/Enoyl-CoAhydratase 11 7 9 6 9Q2RS59 UspA 40 25 47 25 44Q2RS61 Responseregulatorreceiverdomainprotein(CheY) 7 10 9 10 8

13

Q2RS63 Twocomponenttranscriptionalregulator,LuxRfamily 64 52 98 60 109Q2RS68 GCN5-relatedN-acetyltransferase 4 3 0 0 2Q2RS73 Molybdopterinmolybdochelatase 97 108 81 94 71Q2RS76 Dihydroneopterinaldolasefamily 0 0 0 4 0Q2RS77 Short-chaindehydrogenase/reductaseSDR 12 9 11 10 8Q2RS82 Sulfotransferase 12 16 13 13 9Q2RS85 Phosphoglycerate/bisphosphoglyceratemutase 63 54 60 53 58Q2RS87 Uncharacterizedprotein 118 128 102 149 97Q2RS89 Fumarase 95 84 107 103 145Q2RS90 Uncharacterizedprotein 38 42 36 48 30Q2RS91 Uncharacterizedprotein 105 92 96 132 103Q2RS93 ProteinHflC 157 171 172 125 204Q2RS94 PeptidaseS1C,Do 309 282 314 309 323Q2RS97 Uncharacterizedprotein 22 20 20 29 20Q2RSA3 PeptidaseM3B,oligoendopeptidase-relatedclade3 378 470 396 405 327Q2RSA4 AMP-dependentsynthetaseandligase 96 85 95 71 84Q2RSB1 Pyridoxamine5'-phosphateoxidase-related,FMN-binding 3 3 2 3 2Q2RSB2 NAD(P)transhydrogenasesubunitalphapart1 479 431 450 392 608Q2RSB4 NAD(P)transhydrogenasesubunitbeta 338 368 394 348 430Q2RSB7 Extracellularsolute-bindingprotein,family5 49 44 58 39 52Q2RSC1 Oligopeptide/dipeptideABCtransporter,ATP-bindingprotein-like 0 0 1 0 0Q2RSC2 Leucylaminopeptidase 79 77 85 69 70Q2RSC6 Nucleosidediphosphatekinase 326 344 352 414 517Q2RSC8 Phosphoribosylformylglycinamidinecyclo-ligase 53 61 49 41 45Q2RSC9 Uncharacterizedprotein 19 22 19 19 20Q2RSD4 Polyphosphatekinase 100 85 95 84 81Q2RSD6 Creatininase 126 136 134 136 179Q2RSD9 Shortchainenoyl-CoAhydratase 50 47 60 49 63Q2RSE2 TonB-like 0 0 0 0 0Q2RSE3 50SribosomalproteinL13 513 444 343 323 332Q2RSE4 30SribosomalproteinS9 603 615 599 452 557Q2RSE6 RNAseE 226 248 203 218 218Q2RSE7 N-acetylmuramoyl-L-alanineamidase 3 0 0 0 0Q2RSF3 Chemotaxissensorytransducer 3 3 3 4 3Q2RSG0 Twin-argininetranslocationpathwaysignal 112 87 123 88 142Q2RSG2 Glycosyltransferase,group2familyprotein 5 5 4 3 5Q2RSG6 FumaratehydrataseclassII 56 43 64 51 62Q2RSG8 Serine3-dehydrogenase 109 118 106 126 100Q2RSG9 5-oxopent-3-ene-1,2,5-tricarboxylatedecarboxylase 15 16 14 15 14Q2RSH7 ATPase 25 26 25 22 24Q2RSH8 UDP-glucosepyrophosphorylase 627 653 664 653 675Q2RSH9 UDP-glucose6-dehydrogenase 261 258 297 251 313Q2RSI0 Phosphoglucomutase/phosphomannomutase 169 174 187 164 177Q2RSI3 Uncharacterizedprotein 5 6 6 8 7Q2RSI5 ATP-dependentClpproteaseadaptorproteinClpS 0 0 0 1 0Q2RSI8 23SrRNA(Uracil-5-)-methyltransferaseRumA 4 4 4 5 4Q2RSI9 Uncharacterizedprotein 213 217 248 200 273Q2RSJ6 Surfaceantigen 9 7 8 8 7Q2RSJ7 Uncharacterizedprotein 7 5 7 4 6Q2RSJ8 Uncharacterizedprotein 44 40 45 38 40Q2RSJ9 CelldivisionFtsK/SpoIIIE 127 135 131 119 104Q2RSK4 Uncharacterizedprotein 4 5 2 4 2Q2RSK5 ABCtransportercomponent 56 55 49 39 41Q2RSK8 Extracellularsolute-bindingprotein,family3 542 476 600 401 675Q2RSK9 Glutaminesynthetase 3297 2905 3895 3025 4409Q2RSL1 Aminotransferase 17 18 23 22 29Q2RSL2 CreA 4 0 8 9 9Q2RSL3 HemerythrinHHEcationbindingregion 13 9 13 12 17Q2RSL5 Uncharacterizedprotein 0 0 0 1 0Q2RSL7 Chemotaxissensorytransducer 146 135 146 143 128Q2RSM0 O-acetylhomoserine/O-acetylserinesulfhydrylase 46 45 41 35 35Q2RSM1 Thiosulphate-bindingprotein 4 5 6 5 8Q2RSM2 RibonucleaseD 27 26 32 24 30Q2RSM3 Aspartate--tRNAligase 527 565 562 606 766Q2RSM5 FADdependentoxidoreductase 2 0 2 1 0Q2RSM6 Uncharacterizedprotein 8 7 6 9 7Q2RSM7 Methylglyoxalsynthase 16 13 13 13 11Q2RSM9 Dihydrodipicolinatesynthetase 23 32 28 22 23Q2RSN0 Prolineracemase 7 7 7 6 9Q2RSN5 FADlinkedoxidase 6 7 6 7 7Q2RSN9 Carbonicanhydrase 60 56 53 71 62Q2RSP3 RNDeffluxsystem,outermembranelipoprotein,NodT 6 10 9 8 8Q2RSP8 Extracellularsolute-bindingprotein,family1 171 122 182 151 157Q2RSQ4 Aminotransferase 406 402 387 529 491Q2RSQ5 Bacterialpeptidechainreleasefactor2(BRF-2) 46 52 48 34 48Q2RSQ7 Glutamate-ammonia-ligaseadenylyltransferase 37 32 40 37 35Q2RSR3 Tyrosine--tRNAligase 502 515 466 409 400Q2RSR5 Uncharacterizedprotein 36 56 44 52 38Q2RSR9 Ferredoxin 19 19 17 15 15Q2RSS0 Transcriptionalactivator,TenAfamily 15 19 13 15 14Q2RSS9 Uncharacterizedprotein 17 14 13 17 13Q2RST4 ABCtransportercomponent 53 79 46 55 38Q2RST5 Aminotransferase,classV 20 20 20 20 20Q2RST6 Glycerolkinase 98 83 113 75 111Q2RSU3 D-isomerspecific2-hydroxyaciddehydrogenase,NAD-binding 14 13 15 12 13Q2RSU5 Uncharacterizedprotein 20 21 15 16 10Q2RSU7 Ribulose-1,5-bisphosphatecarboxylase/oxygenaselargesubunit 31 36 39 29 33Q2RSV3 Arsenatereductase 2 2 0 2 1Q2RSW3 SEC-Cdomainprotein 45 50 54 62 61Q2RSW6 Tryptophansynthasebetachain 164 154 198 181 188Q2RSX2 Transcriptionalregulator,LacIfamily 1 0 1 0 1Q2RSX3 Phosphoenolpyruvate--proteinphosphotransferase 52 58 49 52 36Q2RSX4 Phosphofructokinase 9 16 8 16 8Q2RSX5 PTSfructoseIICcomponent 26 26 27 29 27Q2RSZ6 Uncharacterizedprotein 3 5 3 4 3Q2RSZ8 Nucleotidyltransferase-like 9 11 7 11 7Q2RT00 Short-chaindehydrogenase/reductaseSDR 23 15 27 18 26Q2RT06 Pseudouridinesynthase 3 0 4 3 4Q2RT27 Binding-protein-dependenttransportsystemsinnermembranecomponent 0 0 0 0 14Q2RT28 Extracellularsolute-bindingprotein,family5 923 1130 1080 1023 1071Q2RT29 Ferredoxin 10 0 9 0 0Q2RT31 Cold-shockDNA-bindingproteinfamily 114 116 86 91 113Q2RT32 Uncharacterizedprotein 4 4 4 3 6

14

Q2RT33 Short-chaindehydrogenase/reductaseSDR 73 51 64 59 65Q2RT34 Ferricuptakeregulator(FUR)family 0 0 0 0 1Q2RT36 Uncharacterizedprotein 87 60 89 63 125Q2RT39 Sulfatetransporter/antisigma-factorantagonist 5 5 5 5 5Q2RT40 ABCtransportercomponent 0 0 1 0 0Q2RT48 Indole-3-glycerolphosphatesynthase 21 17 20 17 19Q2RT49 Anthranilatephosphoribosyltransferase 50 52 51 42 53Q2RT50 Anthranilatesynthase,componentII 66 54 53 46 56Q2RT51 HeavymetaltranslocatingP-typeATPase 22 25 21 20 20Q2RT54 Anthranilatesynthase,componentI 84 65 74 81 78Q2RT55 Uncharacterizedprotein 119 113 116 128 126Q2RT56 Triosephosphateisomerase 411 372 419 355 437Q2RT58 CTPsynthase 144 130 147 103 142Q2RT60 Enolase 1240 1305 1105 1033 1282Q2RT62 MagnesiumandcobalttransportproteinCorA 25 19 26 25 24Q2RT75 CinA-like 13 19 16 14 15Q2RT78 Uncharacterizedprotein 30 30 24 41 28Q2RT80 4-hydroxy-tetrahydrodipicolinatesynthase 354 335 384 280 466Q2RT87 7,8-Dihydro-6-hydroxymethylpterin-pyrophosphokinase,HPPK 4 3 6 4 5Q2RT89 (P)ppGppsynthetaseI(GTPpyrophosphokinase),SpoT/RelA 23 23 25 23 26Q2RT92 SignalpeptidaseI 67 54 54 52 74Q2RT93 Ribonuclease3 10 8 7 8 8Q2RT97 DNAtopoisomeraseIVsubunitA 12 27 13 21 14Q2RT98 Transglutaminase-like 8 6 10 8 9Q2RTA2 OmpA/MotB 11 16 9 16 12Q2RTA4 Flavinreductase-like,FMN-binding 75 96 85 87 78Q2RTA7 Alpha/betahydrolasefold 72 70 78 58 80Q2RTA8 Delta-aminolevulinicaciddehydratase 224 217 219 284 329Q2RTB1 Enoyl-CoAhydratase/isomerase 18 20 21 19 19Q2RTB5 Uncharacterizedprotein 2 4 2 0 0Q2RTB6 Transcriptionalregulator,MucRfamily 124 95 99 141 121Q2RTB7 Ribose-5-phosphateisomerase 80 74 96 82 95Q2RTB8 Serinehydroxymethyltransferase2 1198 1279 1136 1349 1155Q2RTB9 TranscriptionalrepressorNrdR 9 6 9 8 11Q2RTC1 Lumazine-bindingprotein 42 32 35 45 53Q2RTC2 GTPcyclohydrolaseII 209 224 209 179 232Q2RTC3 6,7-dimethyl-8-ribityllumazinesynthase 107 73 86 68 91Q2RTC4 NutilizationsubstanceproteinBhomolog 15 7 12 8 12Q2RTD0 Glycolatereductase 11 16 16 16 13Q2RTD1 CarbonmonoxidedehydrogenasesubunitG 14 13 5 15 5Q2RTD2 PeptidaseM20D,amidohydrolase 8 7 7 6 8Q2RTD8 OmpA/MotB 11 11 17 14 18Q2RTD9 MotA/TolQ/ExbBprotonchannel 18 14 16 18 13Q2RTE0 Diguanylatecyclase/phosphodiesterasewithPAS/PACsensor(S) 2 2 0 0 0Q2RTE1 N-acetyltransferase 69 53 68 48 55Q2RTE6 Protein-L-isoaspartate(D-aspartate)O-methyltransferase 45 64 56 61 54Q2RTE8 Uncharacterizedprotein 34 25 38 31 32Q2RTE9 Valine--tRNAligase 235 246 242 222 257Q2RTF6 Cytochrome-cperoxidase 4 16 5 15 0Q2RTF9 Dihydroxy-aciddehydratase 291 248 281 357 289Q2RTG1 ExodeoxyribonucleaseIII 17 21 15 16 16Q2RTG3 Copper/Zincsuperoxidedismutase 44 35 46 36 51Q2RTG4 HesB/YadR/YfhF 4 5 2 5 2Q2RTG5 Deoxyguanosinetriphosphatetriphosphohydrolase-likeprotein 5 6 4 7 5Q2RTG6 Arginine--tRNAligase 152 138 150 140 136Q2RTG8 Beta-N-acetylhexosaminidase 63 66 60 50 60Q2RTH2 Sec-independentproteintranslocaseproteinTatA 52 66 67 57 51Q2RTH5 Serine--tRNAligase 175 187 192 173 215Q2RTH6 5'-nucleotidaseSurE 25 29 27 20 22Q2RTH8 PeptidaseM23B 13 20 14 16 11Q2RTH9 Uncharacterizedprotein 101 106 95 94 103Q2RTI0 ProteintranslocasesubunityajC 228 220 251 208 256Q2RTI4 GCN5-relatedN-acetyltransferase 178 135 239 186 230Q2RTI5 Superoxidedismutase 117 232 207 226 251Q2RTI8 Methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferaseTrmFO 74 77 68 65 61Q2RTJ1 Uncharacterizedprotein 20 23 21 18 26Q2RTJ3 UvrABCsystemproteinA 59 76 53 60 46Q2RTJ6 ABCtransportercomponent 136 112 129 80 110Q2RTJ7 ABCtransportercomponent 159 127 179 106 144Q2RTK0 Single-strandedDNA-bindingprotein 44 38 49 41 36Q2RTK1 DNAgyrasesubunitA 220 221 200 175 199Q2RTK2 Phosphopantetheineadenylyltransferase 6 12 11 11 11Q2RTK3 Peptidyl-prolylcis-transisomerase 420 459 481 441 593Q2RTL0 Uncharacterizedprotein 56 48 51 56 59Q2RTL4 Uncharacterizedprotein 28 22 36 21 51Q2RTL6 Uncharacterizedprotein 10 7 6 8 9Q2RTL7 ATP-dependentDNAhelicaseRecG 0 0 1 0 1Q2RTL8 Uncharacterizedprotein 6 8 13 8 9Q2RTM1 ThiJ/PfpI 46 29 53 29 59Q2RTM5 Carboxymuconolactonedecarboxylase 2 0 0 0 0Q2RTM6 Thioesterasesuperfamily 136 170 148 121 139Q2RTN9 Lyticmureintransglycosylase 65 74 68 58 68Q2RTP0 RarelipoproteinA 4 3 3 5 3Q2RTP2 Thymidylatekinase 9 6 7 7 8Q2RTP4 Methionine--tRNAligase 90 101 84 87 91Q2RTQ4 Spermidinesynthase 61 52 59 51 65Q2RTQ5 MazG 57 79 62 53 48Q2RTR0 GTPaseHflX 37 41 44 29 43Q2RTR3 Branchedchainaminoacid:2-keto-4-methylthiobutyrateaminotransferase 392 322 385 429 419Q2RTR4 Potassiumuptakeprotein 10 10 9 8 8Q2RTR5 Twocomponent,sigma54specific,transcriptionalregulator,Fisfamily 14 14 19 13 17Q2RTR7 Nitrogenmetabolismtranscriptionalregulator,NtrC,Fisfamily 3 8 5 8 6Q2RTS1 BifunctionalenzymeIspD/IspF 30 40 34 33 43Q2RTS8 3-oxoacyl-[acyl-carrier-protein]synthase3 66 58 60 50 75Q2RTS9 Phosphateacyltransferase 60 73 52 64 38Q2RTT1 Conservedhypotheticalcytosolicprotein 54 46 49 48 38Q2RTT2 Ubiquinol-cytochromeCchaperone 13 10 13 10 14Q2RTT3 SmpA/OmlA 13 11 8 12 9Q2RTT7 AMP-dependentsynthetaseandligase 204 173 208 146 149Q2RTT9 Uncharacterizedprotein 7 3 2 4 1Q2RTU1 Responseregulatorreceiverdomainprotein(CheY) 69 63 78 60 72Q2RTV3 Putativesulfonate/nitratetransportsystemsubstrate-bindingprotein 34 41 35 30 33Q2RTW5 Uncharacterizedprotein 5 2 3 0 4

15

Q2RTX2 Aminoacid-bindingACT 61 59 79 79 82Q2RTX8 Uncharacterizedprotein 17 21 19 23 20Q2RTX9 Cysteinesynthase 8 7 6 6 8Q2RTY0 Sulfurtransferase 23 18 23 16 21Q2RTY2 Cystathioninebeta-lyase 172 138 145 175 124Q2RTY3 Phosphoribosyl-AMPcyclohydrolase 15 16 13 15 13Q2RTY4 Cobalaminsynthesisprotein/P47K 50 50 57 59 63Q2RTY7 MscSMechanosensitiveionchannel 18 16 17 23 24Q2RTY8 4-alpha-glucanotransferase 105 112 91 78 75Q2RTY9 GlycogendebranchingenzymeGlgX 27 17 24 12 19Q2RTZ0 Alphaamylase,catalyticregion 299 267 274 201 217Q2RTZ1 Alpha-1,4-glucan:maltose-1-phosphatemaltosyltransferase 162 156 137 116 113Q2RTZ4 Glutamate--tRNAligase2 380 323 381 375 423Q2RTZ5 Citratesynthase 1187 1078 1150 1218 1160Q2RTZ8 Acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamineO-acyltransferase 89 75 98 88 99Q2RU01 OutermembraneproteinassemblyfactorBamA 129 145 135 109 149Q2RU04 Phosphatidatecytidylyltransferase 5 8 8 8 8Q2RU05 Isoprenyltransferase 0 0 0 2 0Q2RU06 Ribosome-recyclingfactor 196 158 149 175 175Q2RU07 Uridylatekinase 55 67 63 46 74Q2RU08 ElongationfactorTs 1140 1077 1083 979 1263Q2RU09 30SribosomalproteinS2 1048 1042 973 895 1021Q2RU10 Putativedepolymerase 1 0 0 1 1Q2RU16 Lipoprotein-releasingsystemATP-bindingproteinLolD1 21 10 13 13 15Q2RU19 Proline--tRNAligase 182 145 173 141 192Q2RU24 Metallo-beta-lactamase 260 260 241 201 233Q2RU32 NADH-quinoneoxidoreductasesubunitI 28 23 25 24 21Q2RU34 NADH-quinoneoxidoreductase,chainG 306 321 302 341 313Q2RU35 NADH-quinoneoxidoreductase,Fsubunit 420 532 418 484 392Q2RU36 NADHdehydrogenase(Ubiquinone) 82 67 72 98 79Q2RU37 NADH-quinoneoxidoreductasesubunitD 233 251 246 242 250Q2RU38 NADH-quinoneoxidoreductasesubunitC 97 65 69 88 73Q2RU39 NADH-quinoneoxidoreductasesubunitB 152 157 143 160 144Q2RU42 Histone-likeDNA-bindingprotein 1701 1542 1726 1305 1746Q2RU43 Lonprotease 451 563 434 513 377Q2RU44 ATP-dependentClpproteaseATP-bindingsubunitClpX 326 349 304 375 298Q2RU45 ATP-dependentClpproteaseproteolyticsubunit 146 104 160 117 162Q2RU46 Triggerfactor 1113 1009 1110 995 1199Q2RU48 Uncharacterizedprotein 2 0 2 1 1Q2RU49 FADdependentoxidoreductase 1 0 0 1 1Q2RU50 Putativediguanylatecyclase(GGDEFdomain) 23 27 24 18 19Q2RU59 ATP-dependentDNAhelicase,Repfamily 7 7 7 6 6Q2RU63 TPRrepeat 22 19 26 20 21Q2RU68 ABCtransportercomponent 336 343 339 292 318Q2RU72 Hemerythrin 5 9 3 7 4Q2RU73 Beta-lactamase-like 16 21 20 17 14Q2RU74 Cold-shockDNA-bindingproteinfamily 109 116 160 91 175Q2RU91 Zinc-containingalcoholdehydrogenasesuperfamily 89 90 106 96 102Q2RU93 Transport-associated 138 85 109 109 140Q2RUA4 Protein-tyrosinekinase 60 46 64 45 58Q2RUA7 Polysaccharideexportprotein 167 197 161 193 196Q2RUA9 Parallelbeta-helixrepeat 53 39 47 43 33Q2RUB0 GlycosyltransferaseWecB/TagA/CpsF 14 13 12 12 9Q2RUB1 Asparaginesynthetase 17 16 19 16 13Q2RUB5 Uncharacterizedprotein 231 220 254 165 212Q2RUB8 PhnAprotein 26 19 22 18 18Q2RUC5 Acetyl-CoAacetyltransferase 2 3 4 3 4Q2RUE4 Transcriptionalregulator,ArsRfamily 9 7 7 8 0Q2RUE7 Arsenite-transportingATPase 8 9 7 7 8Q2RUF7 C4-dicarboxylatetransportprotein 18 33 25 36 17Q2RUH5 Carboxylyase-relatedprotein 0 0 2 0 0Q2RUI8 Chemotaxisresponseregulatorprotein-glutamatemethylesterase2 14 0 3 0 0Q2RUJ2 CheWprotein 2 5 4 7 0Q2RUJ3 Chemotaxissensorytransducer 30 40 29 38 23Q2RUJ6 Responseregulatorreceiverdomainprotein(CheY) 24 34 26 29 20Q2RUL7 Uncharacterizedprotein 6 0 8 0 9Q2RUL8 Uncharacterizedprotein 2 0 4 1 0Q2RUM7 Hexulose-6-phosphateisomerase 0 0 1 0 0Q2RUP0 Uncharacterizedprotein 15 8 15 11 15Q2RUP1 Uncharacterizedprotein 269 127 301 133 389Q2RUP5 Gamma-glutamyltransferase2.Threoninepeptidase.MEROPSfamilyT03 3 4 4 4 5Q2RUQ1 Uncharacterizedprotein 59 64 57 56 75Q2RUQ5 Transcriptionalregulator,DeoRfamily 0 4 5 4 4Q2RUQ8 Periplasmicbindingprotein/LacItranscriptionalregulator 214 265 231 278 166Q2RUR0 Ribose-5-phosphateisomerase 9 10 4 11 0Q2RUR9 Uncharacterizedprotein 3 8 2 9 0Q2RUS0 Betasubunitofmalonatedecarboxylase 36 55 21 45 26Q2RUS6 Uncharacterizedprotein 6 6 2 7 2Q2RUU0 Urocanatehydratase 46 40 39 33 45Q2RUU1 Imidazolonepropionase 0 0 0 1 0Q2RUU2 Formimidoylglutamatedeiminase 2 0 3 0 0Q2RUU4 N-formylglutamatedeformylase 1 0 0 0 1Q2RUU5 FADlinkedoxidase-like 0 0 1 0 0Q2RUU9 Extracellularsolute-bindingprotein,family3 382 473 482 355 372Q2RUX1 Alpha/betahydrolasefold 5 4 6 4 5Q2RUX3 Metallophosphoesterase 1 0 0 0 0Q2RUX7 Carbohydratekinase,FGGY 0 0 2 0 2Q2RUX8 PhotosystemIassemblyBtpA 13 10 16 13 14Q2RUY4 ABCtransportercomponent 0 0 0 0 1Q2RUZ0 Aminotransferase 45 50 40 39 59Q2RUZ2 L-glutaminesynthetase 1 0 0 2 1Q2RV03 50SribosomalproteinL27 255 292 304 253 323Q2RV04 GTPaseobg 58 62 59 52 60Q2RV05 Glutamate5-kinase 33 42 32 37 39Q2RV06 Gamma-glutamylphosphatereductase 53 50 47 46 47Q2RV10 2,3-bisphosphoglycerate-independentphosphoglyceratemutase 211 273 215 315 189Q2RV12 C-terminalprocessingpeptidaseS41A 389 423 395 350 423Q2RV13 Uncharacterizedprotein 24 21 19 20 19Q2RV14 RNApyrophosphohydrolase 7 9 7 9 0Q2RV17 ATPsynthaseepsilonchain 160 135 147 137 202Q2RV18 ATPsynthasesubunitbeta 2935 3515 2905 2875 3321Q2RV19 ATPsynthasegammachain 248 206 247 224 261Q2RV20 ATPsynthasesubunitalpha 1185 1057 1062 1132 1338

16

Q2RV21 ATPsynthasesubunitdelta 407 271 400 400 419Q2RV23 Uncharacterizedprotein 5 9 7 11 5Q2RV30 2-oxoglutaratedehydrogenaseE2component 649 673 600 845 757Q2RV31 2-oxoglutaratedehydrogenaseE1component 979 1006 939 1187 1056Q2RV32 Succinyl-CoAligase[ADP-forming]subunitalpha 445 374 474 412 560Q2RV33 Succinyl-CoAligase[ADP-forming]subunitbeta 797 801 790 851 853Q2RV34 Malatedehydrogenase 320 254 371 365 288Q2RV37 Exopolyphosphatase-relatedprotein 99 88 102 93 103Q2RV39 SuccinatedehydrogenasesubunitB 191 192 205 172 242Q2RV40 SuccinatedehydrogenasesubunitA 1003 772 1045 881 1107Q2RV43 MaoC-likedehydratase 94 98 85 81 83Q2RV44 Citratelyase 89 75 93 80 82Q2RV45 Pyridoxalkinase 5 7 6 8 5Q2RV48 Aspartate-semialdehydedehydrogenase 544 569 577 502 743Q2RV53 3-isopropylmalatedehydrogenase 256 222 263 220 257Q2RV55 3-isopropylmalatedehydrataselargesubunit 315 334 361 249 388Q2RV57 tRNA(guanine-N(1)-)-methyltransferase 3 7 4 0 0Q2RV59 30SribosomalproteinS16 187 96 92 103 104Q2RV60 Signalrecognitionparticleprotein 86 90 90 72 79Q2RV61 Diaminopimelateepimerase 6 5 7 5 6Q2RV63 SignalrecognitionparticlereceptorFtsY 124 127 131 116 127Q2RV68 Histonedeacetylasesuperfamily 7 8 8 10 11Q2RV84 Chemotaxissensorytransducer 78 71 92 67 138Q2RV94 Uncharacterizedprotein 17 8 21 6 31Q2RV95 Uncharacterizedprotein 9 2 11 2 14Q2RV96 Uncharacterizedprotein 12 3 15 3 17Q2RVA4 ElongationfactorG 260 217 269 275 279Q2RVA6 ABCtransportercomponent 7 6 6 6 5Q2RVA8 Periplasmicbindingprotein 879 1107 1001 988 1055Q2RVA9 Aminotransferase 408 394 428 575 548Q2RVB1 UvrABCsystemproteinB 16 22 16 16 14Q2RVC0 D-lactatedehydrogenase(Cytochrome) 18 21 16 15 19Q2RVC3 Pyruvatecarboxylase 341 288 335 260 411Q2RVD2 Uncharacterizedprotein 13 10 6 10 8Q2RVD7 Uncharacterizedprotein 13 18 15 17 22Q2RVD8 Adenylosuccinatesynthetase 358 298 343 378 360Q2RVD9 ATPphosphoribosyltransferaseregulatorysubunit 75 76 67 71 76Q2RVE1 PhenazinebiosynthesisPhzC/PhzFprotein 17 19 20 18 23Q2RVE2 Phosphomethylpyrimidinekinase 54 49 54 42 52Q2RVE3 Uncharacterizedprotein 521 468 543 388 531Q2RVE4 Phosphoglucosaminemutase 28 34 24 39 20Q2RVE5 Dihydropteroatesynthase 8 12 8 9 6Q2RVE6 ATP-dependentzincmetalloproteaseFtsH 576 625 553 568 583Q2RVE8 Uncharacterizedprotein 81 81 77 70 94Q2RVE9 OmpA/MotB 573 335 427 316 515Q2RVF0 ProteinTolB 380 309 417 443 572Q2RVF1 Uncharacterizedprotein 8 9 9 7 9Q2RVG4 Thiamine-phosphatesynthase 85 64 63 57 72Q2RVG7 ElongationfactorP 95 96 108 90 120Q2RVG9 Uncharacterizedprotein 33 31 28 26 26Q2RVH0 MotA/TolQ/ExbBprotonchannelfamilyprotein 47 58 53 39 52Q2RVH1 OmpA/MotB 20 20 16 16 15Q2RVH2 50SribosomalproteinL31 144 103 113 118 124Q2RVH3 Adenylate/guanylatecyclase 8 7 8 9 10Q2RVI7 3-hydroxybutyratedehydrogenase 101 73 115 69 169Q2RVI8 Zinc-containingalcoholdehydrogenasesuperfamily 25 16 24 21 28Q2RVI9 Uncharacterizedprotein 168 148 203 165 207Q2RVJ2 Responseregulatorreceiverdomainprotein(CheY) 12 11 13 12 11Q2RVJ3 Phosphoribosylaminoimidazolecarboxylase 8 9 8 8 8Q2RVJ4 N5-carboxyaminoimidazoleribonucleotidemutase 12 16 12 12 15Q2RVJ6 Uncharacterizedprotein 17 10 16 13 17Q2RVJ7 6-phosphofructokinase 597 538 620 549 595Q2RVJ8 AMP-dependentsynthetaseandligase 215 161 219 173 149Q2RVJ9 Uncharacterizedprotein 54 38 76 41 88Q2RVK1 30SribosomalproteinS21 213 63 57 75 54Q2RVK2 Uncharacterizedprotein 150 237 118 195 109Q2RVK4 Leucinedehydrogenase 5 6 6 8 4Q2RVL0 Multi-sensorsignaltransductionhistidinekinase 7 10 7 9 8Q2RVM4 Cytochromec2 1245 988 1638 924 1277Q2RVM6 Extracellularsolute-bindingprotein,family1 279 126 348 153 492Q2RVM7 Spermidine/putrescineABCtransporterATP-bindingsubunit 39 30 40 33 36Q2RVN1 ABCtransportercomponent 23 20 22 25 25Q2RVN9 Glycosyltransferase,family2 43 47 40 53 56Q2RVP1 AminoacidABCtransporter,permeaseprotein,3-TMregion,His/Glu/Gln/Arg/opine 2 0 2 2 3Q2RVP3 ABCtransportercomponent 59 37 41 41 29Q2RVQ1 Transcriptionalregulator,NifA,Fisfamily 11 4 13 3 18Q2RVQ4 Diguanylatecyclase/phosphodiesterase 5 5 2 0 2Q2RVQ7 GlutathioneS-transferase-like 6 4 7 6 4Q2RVR5 Extracellularsolute-bindingprotein,family5 7 2 10 3 13Q2RVS0 Linocin_M18bacteriocinprotein 383 504 388 486 354Q2RVS3 Uncharacterizedprotein 0 0 0 0 0Q2RVS4 Uncharacterizedprotein 5 5 5 4 4Q2RVT3 Uncharacterizedprotein 14 9 16 11 17Q2RVT6 RibosomalRNAsmallsubunitmethyltransferaseH 14 11 13 14 13Q2RVT9 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2,6-diaminopimelateligase 31 44 31 31 28Q2RVU2 UDP-N-acetylmuramoylalanine--D-glutamateligase 89 78 89 68 110Q2RVU4 UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide)pyrophosphoryl-undecaprenolN-acetylglucosaminetransferase 23 27 20 23 24Q2RVU5 UDP-N-acetylmuramate--L-alanineligase 61 56 60 56 49Q2RVU7 D-alanine--D-alanineligase 24 25 28 23 24Q2RVV3 OutermembraneproteinassemblyfactorBamD 8 10 7 7 7Q2RVV4 DNArepairproteinRecN 7 8 10 9 9Q2RVV5 DNAligase 52 63 59 49 53Q2RVV8 Uncharacterizedprotein 39 40 41 31 31Q2RVV9 NAD-dependentepimerase/dehydratase 83 100 90 71 71Q2RVW0 Uncharacterizedprotein 145 154 145 126 120Q2RVW1 DegT/DnrJ/EryC1/StrSaminotransferase 10 11 12 9 9Q2RVY6 Microcompartmentsprotein 0 0 0 1 0Q2RW00 Stressprotein 1325 1147 1406 1086 1380Q2RW01 Stressprotein 179 216 157 168 106Q2RW02 Stressprotein 345 283 325 212 282Q2RW07 SecretionproteinHlyD 6 11 0 10 0Q2RW08 Hydrophobe/amphiphileefflux-1HAE1 0 0 0 19 0Q2RW42 Uncharacterizedprotein 4 11 2 0 0

17

Q2RW57 Leucine-richrepeat 16 0 27 12 31Q2RW63 CRISPR-associatedprotein,Csd2family 53 17 76 19 89Q2RW64 CRISPR-associatedprotein,Csd1family 1 0 2 0 2Q2RW70 Cupinregion 16 10 13 12 12Q2RW81 Uncharacterizedprotein 3 4 4 3 5Q2RW82 Uncharacterizedprotein 23 15 26 21 23Q2RWA0 NLPAlipoprotein 45 45 49 35 55Q2RWB6 2OG-Fe(II)oxygenase 2 1 2 1 3Q2RWB7 O-acetylhomoserine/O-acetylserinesulfhydrylase 3 3 3 4 4Q2RWC6 Uncharacterizedprotein 14 10 15 11 16Q2RWD6 Chemotaxissensorytransducer 44 38 55 41 56Q2RWD8 ChaperoneclpB 161 128 158 169 125Q2RWD9 Uncharacterizedprotein 54 70 41 57 33Q2RWE0 Releasefactorglutaminemethyltransferase 0 2 0 0 0Q2RWE1 Peptidechainreleasefactor1 84 76 64 56 45Q2RWE3 Histidine--tRNAligase 75 69 81 73 94Q2RWE5 Uncharacterizedprotein 7 8 5 9 6Q2RWE6 PTSINtrwithGAFdomain,PtsP 8 10 9 9 11Q2RWE7 2-nitropropanedioxygenase,NPD 30 38 34 43 31Q2RWE9 3-demethylubiquinone-93-methyltransferase 148 112 167 155 187Q2RWF1 Uncharacterizedprotein 0 0 0 0 0Q2RWF2 Nitrilase/cyanidehydrataseandapolipoproteinN-acyltransferase 68 64 73 45 66Q2RWF3 Glutaredoxin,GrxC 29 28 26 31 31Q2RWF8 Methionineaminopeptidase 157 215 135 151 120Q2RWG2 Short-chaindehydrogenase/reductaseSDR 0 0 0 0 1Q2RWG8 Amineoxidase 7 12 7 9 6Q2RWH1 Transcriptionalregulator,MarRfamily 41 28 31 28 32Q2RWH5 Adenylosuccinatelyase 170 176 174 210 165Q2RWH8 Uncharacterizedprotein 0 0 1 3 0Q2RWI0 Phosphoribosylaminoimidazole-succinocarboxamidesynthase 114 110 97 104 101Q2RWI1 PhosphoribosylformylglycinamidinesynthetasePurS 26 20 22 26 30Q2RWI2 Phosphoribosylformylglycinamidinesynthase1 190 173 175 182 202Q2RWI3 Phosphoribosylformylglycinamidinesynthase2 177 185 191 202 265Q2RWI4 BolA-likeprotein 112 110 138 100 125Q2RWI6 Glutaredoxin 450 701 489 765 333Q2RWJ0 30SribosomalproteinS4 1052 1166 1148 897 1148Q2RWK2 Cysteine--tRNAligase 41 54 37 38 49Q2RWK3 Glutamate--tRNAligase1 45 52 52 55 58Q2RWK4 NH(3)-dependentNAD(+)synthetase 47 47 56 41 56Q2RWK7 Uncharacterizedprotein 52 54 57 43 51Q2RWK8 3-deoxy-D-arabinoheptulosonate-7-phosphatesynthase 117 170 117 168 84Q2RWK9 NADPH-glutathionereductase 52 44 51 44 59Q2RWL0 Uncharacterizedprotein 9 11 13 9 12Q2RWM0 CobalaminsynthesisCobWprotein 46 48 47 52 48Q2RWM3 Cobalaminsynthase 1 0 1 0 1Q2RWM5 Multi-sensorsignaltransductionhistidinekinase 34 35 40 30 41Q2RWM6 Responseregulatorreceiverdomainprotein(CheY) 94 97 99 95 104Q2RWM9 TranslationinitiationfactorIF-1 44 46 53 43 47Q2RWN9 Pseudouridinesynthase 13 11 12 12 15Q2RWP0 Glutamineamidotransferaseclass-I 9 4 5 6 4Q2RWP4 L-threonineammonia-lyase 42 41 42 36 42Q2RWP5 Phosphoribosylamine--glycineligase 22 24 20 22 21Q2RWP6 Ribose-phosphatepyrophosphokinase 244 291 247 244 344Q2RWP7 Uncharacterizedprotein 6 7 7 5 7Q2RWP8 Uncharacterizedprotein 211 229 198 160 208Q2RWR8 Light-independentprotochlorophyllidereductasesubunitN 25 9 5 10 6Q2RWR9 Light-independentprotochlorophyllidereductasesubunitB 12 18 17 14 19Q2RWS4 Photosyntheticreactioncenter,H-chain 1 3 2 3 2Q2RWS8 Bacteriochlorophyll4-vinylreductase 40 29 37 31 38Q2RWS9 Diguanylatecyclase/phosphodiesterasewithPAS/PACsensor(S) 2 2 2 2 0Q2RWT1 Uncharacterizedprotein 128 114 144 113 131Q2RWT2 UspA 12 8 10 9 9Q2RWT4 Adeninephosphoribosyltransferase 41 39 36 45 28Q2RWT9 Phosphate-specifictransportsystemaccessoryproteinPhoU 2 2 2 3 3Q2RWU6 Transketolase 902 784 833 1036 749Q2RWV3 Oligopeptide/dipeptideABCtransporter,ATP-bindingprotein-like 17 14 14 11 15Q2RWV4 60kDachaperonin2 7927 8767 6870 8297 6253Q2RWV5 10kDachaperonin 1568 1415 1171 1518 1374Q2RWW1 OsmC-likeprotein 222 182 156 202 184Q2RWW6 Uncharacterizedprotein 88 76 85 81 73Q2RWW7 3-octaprenyl-4hydroxybenzoatedecarboxylase 168 196 156 156 160Q2RWX1 Glutamate--cysteineligase 72 94 70 91 66Q2RWX3 Chemotaxissensorytransducer 16 12 14 11 14Q2RWX4 Uncharacterizedprotein 149 150 150 146 137Q2RWX6 Uncharacterizedprotein 184 120 205 94 277Q2RWY2 Alpha/betahydrolasefold 24 8 31 10 41Q2RWY4 BifunctionalproteinFolD 71 62 70 51 52Q2RWY5 Formyltetrahydrofolatedeformylase 40 38 52 41 51Q2RWY6 NitrogenregulatoryproteinP-II 31 20 32 27 30Q2RWY8 ResponseRegulatorReceiverSignalTransductionHistidineKinase 2 3 4 4 4Q2RWZ9 Surfacepresentationofantigens(SPOA)protein 17 18 16 24 12Q2RX01 Twocomponent,sigma54specific,transcriptionalregulator,Fisfamily 10 6 9 8 9Q2RX08 GTP-bindingsignalrecognitionparticleSRP54,G-domain 30 23 27 21 33Q2RX09 Site-determiningprotein 8 6 8 5 7Q2RX12 Uncharacterizedprotein 8 6 11 8 13Q2RX16 Twocomponenttranscriptionalregulator,wingedhelixfamily/cellcycletranscriptionalregulatorCtrA 51 48 54 43 61Q2RX17 MCPmethyltransferase,CheR-type 88 76 73 70 71Q2RX18 Chemotaxisresponseregulatorprotein-glutamatemethylesterase1 44 51 43 38 31Q2RX20 CheASignalTransductionHistidineKinases(STHK) 369 424 362 374 279Q2RX21 Uncharacterizedprotein 17 16 16 15 17Q2RX27 Dihydroorotatedehydrogenase(quinone) 91 100 102 87 99Q2RX35 Malto-oligosyltrehalosetrehalohydrolase 26 15 23 17 27Q2RX36 GlycogendebranchingenzymeGlgX 68 41 80 45 78Q2RX38 Lysine--tRNAligase 117 119 112 92 89Q2RX40 Extracellularsolute-bindingprotein,family1 3 6 4 7 5Q2RX49 ABCtransportercomponent 4 2 4 2 3Q2RX51 Periplasmicbindingprotein 2 0 2 1 0Q2RX53 Alpha/betahydrolasefold 68 70 72 57 60Q2RX54 ProtoporphyrinIXmagnesium-chelatase 59 54 51 42 59Q2RX55 ProtoporphyrinIXmagnesium-chelatase 293 220 246 225 300Q2RX64 OsmC-likeprotein 30 30 31 21 29Q2RX65 NADH:flavinoxidoreductase/NADHoxidase 1036 1145 918 956 652Q2RX66 Zinc-containingalcoholdehydrogenasesuperfamily 291 337 273 319 213

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Q2RX70 Rodshape-determiningproteinMreB 238 237 263 251 341Q2RX72 Acetolactatesynthase,smallsubunit 81 95 90 126 104Q2RX73 Acetolactatesynthase,largesubunit 182 240 148 247 130Q2RX75 Phosphoserinephosphatase 2 0 2 1 2Q2RX76 Uncharacterizedprotein 30 24 33 24 36Q2RX77 Alanineracemase-like 25 20 19 18 16Q2RX78 Aldehydedehydrogenase 299 282 305 302 232Q2RX80 NADPoxidoreductase,coenzymeF420-dependent 4 0 0 0 0Q2RX86 Probablecytosolaminopeptidase 1038 1089 880 1229 933Q2RX93 AMMECR1 13 10 13 8 11Q2RX95 3(2),5-bisphosphatenucleotidase 20 26 22 19 22Q2RXA0 Xyloseisomerase-likeTIMbarrel 5 8 2 7 2Q2RXA4 Uncharacterizedprotein 128 300 92 383 64Q2RXA5 Acyl-CoAdehydrogenase 48 42 66 34 63Q2RXB4 Uncharacterizedprotein 0 0 4 72 4Q2RXB5 Uncharacterizedprotein 0 0 0 75 0Q2RXB8 Uncharacterizedprotein 75 21 98 22 147Q2RXB9 Uncharacterizedprotein 15 15 24 15 34Q2RXC1 Aminodeoxychorismatelyase 3 3 1 0 0Q2RXC2 3-oxoacyl-[acyl-carrier-protein]synthase2 446 486 485 505 531Q2RXC3 Acylcarrierprotein 471 476 439 503 607Q2RXC4 3-oxoacyl-[acyl-carrier-protein]reductase 187 176 190 171 240Q2RXC5 MalonylCoA-acylcarrierproteintransacylase 257 253 218 249 260Q2RXC6 30SribosomalproteinS6 400 492 377 328 358Q2RXC7 30SribosomalproteinS18 52 49 49 52 69Q2RXC9 50SribosomalproteinL9 674 719 634 620 790Q2RXD1 Alanineracemase 27 24 27 27 36Q2RXD3 ABCtransportercomponent 6 11 9 11 13Q2RXD4 DNArepairproteinradA 7 9 14 10 15Q2RXD7 Short-chaindehydrogenase/reductaseSDR 20 25 23 21 26Q2RXE2 Thiol-disulfideisomeraseandthioredoxins-like 3 12 3 9 3Q2RXE3 Argininosuccinatelyase 40 34 46 43 50Q2RXE4 Diaminopimelatedecarboxylase 54 47 52 49 46Q2RXE5 PpiC-typepeptidyl-prolylcis-transisomerase 76 69 79 68 108Q2RXE6 ArgininebiosynthesisbifunctionalproteinArgJ 170 142 147 148 157Q2RXE8 Molybdopterinbindingdomain 30 34 37 30 35Q2RXF1 Antibioticbiosynthesismonooxygenase 60 66 83 67 65Q2RXF6 NADPH-quinonereductase 36 24 33 26 34Q2RXG1 Flavodoxin 99 100 107 126 131Q2RXG2 Uncharacterizedprotein 50 71 59 50 53Q2RXG9 Double-transmembraneregion-like 0 1 1 0 1Q2RXH1 ATPaseassociatedwithvariouscellularactivities,AAA_3 64 59 67 55 60Q2RXH4 Polynucleotideadenylyltransferaseregion 5 4 3 4 2Q2RXH7 Cytochromeb 56 35 50 52 46Q2RXH8 Cytochromec1 187 159 161 162 180Q2RXI0 Methylthioribose-1-phosphateisomerase 110 97 100 103 94Q2RXI3 Uncharacterizedprotein 117 140 134 132 103Q2RXI4 Isocitratedehydrogenase[NADP] 1178 1399 1208 1325 1300Q2RXI5 GMPsynthase[glutamine-hydrolyzing] 192 192 195 160 196Q2RXJ4 CRISPR-associatedprotein,CT1974family 14 11 12 8 16Q2RXJ5 CRISPR-associatedprotein,Cas5efamily 5 5 6 4 7Q2RXJ6 CRISPR-associatedprotein,Cse4family 33 25 41 20 46Q2RXJ7 Uncharacterizedprotein 55 66 80 48 81Q2RXK1 Short-chaindehydrogenase/reductaseSDR 20 22 21 20 17Q2RXK5 YbaK/prolyl-tRNAsynthetaseassociatedregion 37 52 33 44 23Q2RXK8 GlutathioneS-transferase-like 372 364 361 334 273Q2RXP0 Aminotransferase,classIV 155 147 133 130 165Q2RXP1 Glutamineamidotransferaseclass-I 21 19 28 18 24Q2RXP2 Aldehydedehydrogenase(Acceptor) 26 22 26 20 28Q2RXP4 Uncharacterizedprotein 29 22 25 22 25Q2RXP5 3-phosphoshikimate1-carboxyvinyltransferase 181 195 194 154 176Q2RXP6 Cytidylatekinase 27 25 27 21 28Q2RXP7 30SribosomalproteinS1 1526 1594 1224 1143 1672Q2RXP8 Integrationhostfactorsubunitbeta 27 14 25 18 28Q2RXQ1 NUDIXhydrolase 8 14 8 10 6Q2RXQ2 2,5-didehydrogluconatereductase 101 104 94 90 112Q2RXQ3 Uncharacterizedprotein 6 7 6 5 7Q2RXQ5 Aldehydedehydrogenase 9 9 7 8 6Q2RXQ9 S-adenosylmethionine:tRNAribosyltransferase-isomerase 14 17 13 14 12Q2RXR0 QueuinetRNA-ribosyltransferase 12 14 12 14 14Q2RXR4 PolyhydroxyalkanoatesynthesisrepressorPhaR 96 71 122 72 171Q2RXR6 Acetyl-CoAacetyltransferase 1060 806 1055 682 780Q2RXR7 3-oxoacyl-[acyl-carrier-protein]reductase 128 103 153 72 124Q2RXS0 ProteinApaG 3 0 4 4 0Q2RXS5 Electron-transferring-flavoproteindehydrogenase 166 113 185 140 218Q2RXS6 TPRrepeat 29 38 34 36 35Q2RXT6 NAD-dependentepimerase/dehydratase 9 7 8 8 6Q2RXT8 Zinc-containingalcoholdehydrogenasesuperfamily 4 6 4 5 5Q2RXU3 Periplasmicbindingprotein/LacItranscriptionalregulator 135 165 157 111 106Q2RXU5 RibosomalRNAlargesubunitmethyltransferaseE 3 5 2 5 0Q2RXU7 tRNA/rRNAcytosine-C5-methylase 31 20 25 22 31Q2RXU8 TypeIIIrestrictionenzyme,ressubunit 0 2 3 0 0Q2RXU9 DNAmethylaseN-4/N-6 16 21 20 20 16Q2RXV3 Uncharacterizedprotein 0 0 1 3 0Q2RXV5 ProteintranslocasesubunitSecA 192 159 184 210 221Q2RXW0 Asparaginesynthetase 26 30 29 25 32Q2RXW1 Glycosyltransferase,group1 11 13 17 13 16Q2RXW3 Uncharacterizedprotein 9 12 9 8 7Q2RXW8 Glyceraldehyde-3-phosphatedehydrogenase 3026 3346 2812 3963 3151Q2RXW9 Phosphoglyceratekinase 1085 995 1123 1143 1001Q2RXX2 Acetyl-coenzymeAcarboxylasecarboxyltransferasesubunitalpha 103 88 129 126 128Q2RXX3 Citratelyase 513 554 624 458 512Q2RXX7 Uncharacterizedprotein 28 25 29 26 24Q2RXX9 Uncharacterizedprotein 23 24 21 19 17Q2RXY0 50SribosomalproteinL28 99 71 68 70 86Q2RXY3 Cobaltchelatase,CobTsubunit 18 21 21 16 19Q2RXY4 Hydrogenobyrinicacida,c-diamidecobaltochelatase 175 145 170 128 187Q2RXZ5 Uncharacterizedprotein 10 3 10 2 14Q2RY05 Uncharacterizedprotein 2 1 3 0 3Q2RY06 Uncharacterizedprotein 44 34 88 42 75Q2RY18 CRISPR-associatedprotein,Cse4family 6 8 8 9 10Q2RY26 Sulfatetransporter/antisigma-factorantagonist 0 0 1 0 0Q2RY28 60kDachaperonin1 1988 2547 1969 3266 1579

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Q2RY39 Uncharacterizedprotein 123 115 107 123 95Q2RY41 PfkB 15 19 15 15 18Q2RY42 GTP-bindingproteinTypA 195 196 209 199 246Q2RY48 Putativecyclase 119 204 127 172 145Q2RY51 Transcriptionalregulator,MarRfamily 28 37 36 27 38Q2RY52 Leucylaminopeptidase 158 141 143 124 147Q2RY56 Succinatesemialdehydedehydrogenase 432 384 415 452 452Q2RY59 Uncharacterizedprotein 27 24 24 19 16Q2RY60 Chemotaxissensorytransducer 0 1 1 1 0Q2RY67 BifunctionalproteinHldE 57 55 51 49 49Q2RY68 Uncharacterizedprotein 14 17 19 18 16Q2RY77 TypeIIsecretionsystemproteinE 51 36 51 34 61Q2RY86 Alpha-2-macroglobulin-likeprotein 339 248 350 204 418Q2RY87 ProteinSlyXhomolog 0 0 4 12 0Q2RY89 Uncharacterizedprotein 1 2 2 3 1Q2RY90 Uncharacterizedprotein 5 8 6 8 8Q2RY94 SecretionproteinHlyD 17 17 19 14 23Q2RY95 ABCtransportercomponent 4 2 3 2 3Q2RY98 Extracellularsolute-bindingprotein,family1 78 63 85 64 78Q2RYA2 Zinc-containingalcoholdehydrogenasesuperfamily 423 391 368 368 325Q2RYB0 Chemotaxissensorytransducer 4 7 2 6 0Q2RYB3 4Fe-4Sferredoxin,iron-sulfurbinding 64 48 58 62 60Q2RYB7 Ribosomalsubunitinterfaceprotein,putative 230 179 230 194 218Q2RYB8 ChaperoneproteinHtpG 1414 1448 1603 1552 1690Q2RYB9 Uncharacterizedprotein 7 7 9 7 8Q2RYC5 Squalene/phytoenesynthase 8 6 7 6 7Q2RYC6 Squalene-phytoenesynthase 77 94 77 75 82Q2RYC7 Amineoxidase 11 11 10 8 11Q2RYC9 Purineandotherphosphorylases,family1 4 4 5 3 6Q2RYD2 Dihydrokaempferol4-reductase 44 44 48 41 46Q2RYD3 Uncharacterizedprotein 28 32 34 27 35Q2RYD5 VacJ-likelipoprotein 162 108 173 80 206Q2RYD7 Carboxyltransferase 81 79 103 68 110Q2RYD8 Biotincarboxylase 108 64 110 88 112Q2RYD9 Carboxyltransferase 89 70 92 81 113Q2RYE0 Uncharacterizedprotein 11 12 11 12 14Q2RYE1 Biotin/lipoylattachment 21 18 16 15 18Q2RYE5 3-oxoacyl-[acyl-carrier-protein]synthaseII 64 67 73 64 80Q2RYE7 UDP-3-O-acylglucosamineN-acyltransferase 57 59 55 61 69Q2RYE9 Cytochromec,classII 12 7 12 8 12Q2RYF5 Cytochromec-typebiogenesisproteinCcmF 4 3 3 0 0Q2RYF6 Periplasmicproteinthiol-disulfideoxidoreductaseDsbE 0 0 2 5 0Q2RYF8 TPRrepeat 4 5 3 4 2Q2RYG4 Uncharacterizedprotein 32 34 28 29 27Q2RYG6 Peptidase 41 47 34 42 33Q2RYH0 Glutathioneperoxidase 33 16 40 19 40Q2RYH1 Glutamatesynthase(NADPH)largesubunit 453 569 406 426 392Q2RYH2 Glutamatesynthase(NADPH)smallsubunit 70 70 60 51 59Q2RYH4 3-beta-hydroxy-delta(5)-steroiddehydrogenase 232 203 215 195 261Q2RYH5 3'-5'exonuclease 34 41 31 31 34Q2RYH9 ABCtransportercomponent 13 13 18 12 18Q2RYI1 PTSIIA-likenitrogen-regulatoryproteinPtsN 50 71 50 81 34Q2RYI6 DNAgyrasesubunitB 185 215 165 173 136Q2RYI8 DNApolymeraseIIIsubunitbeta 186 191 159 129 171Q53044 NitrogenregulatoryproteinP-II 279 263 319 269 315Q9RGQ1 Inorganicpyrophosphatase 376 402 405 367 351

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A

B

Fig S1 Mass spectrum of 3-hydroxybutyric acid methyl ester. A – The fragmentation pattern for non-labelled (R)-3-hydroxybutyric acid methyl esters. The inset shows the key fragment of the compound analysed for isotope enrichment. B – The fragmentation pattern of 13C labelled (R)-3-hydroxybutyric acid methyl esters

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Fig S2 ATP (A) and NADPH/NADP+ ratio (B) of R. rubrum S1 grown with malate (black bars) and malate-acetate (grey bars). Acetate was added at T24. *Statistically significant difference (p<0.05) in NADPH/NADP+ ratio (A) and ATP content (B) between different time points. The error bars represent standard deviation between three biological replicates

Fig S3 Growth profile of R. rubrum S1 when malate (M) was used as a sole source of carbon and energy. A) Cell dry weight, CDW (●), nitrogen (▲) and PHB accumulation (grey bars) when M supplied as 1.08 gC L-1 at T0 and additional 1.08 gC L-1 at T24. B) malate (dotted line) consumption over time. Malate consumption in the control experiment without acetate addition was 0.017 gC L-1 h-1.

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Fig S4 RuBisCO activity was assayed by following the rate of NADH oxidation by cell free extracts of malate (M; black bars) and malate and acetate (MA; grey bars) grown R. rubrum. *Statistically significant difference between M and MA grown cells. Error bars represent standard deviation between biological triplicates

Fig S5 Comparison of Ccr activity exhibited by cell free extracts of malate (M; black bars) and malate-acetate (MA; grey bars) grown R. rubrum. The Ccr activity is expressed as the rate of NADH oxidation. *Statistically significant difference (p<0.05) in Ccr activity between M and MA grown cells. Error bars represent standard deviation between biological triplicates

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Table S2 Metabolite* levels in R. rubrum grown on malate or malate-acetate. All values are obtained as average of 10 biological replicates.

MT24 MA36 MA72

Metabolites* Mean SD Mean SD Mean SD P

Value** 3-Hydroxybutyrate 1.21a 0.67 4.72b 0.78 10.67c 3.80 <0.001 Acetate 8.80a 4.27 23.99b 3.01 15.46c 5.20 <0.001 Butyrate 2.10a 0.98 16.41b 2.60 8.42c 1.61 <0.001 Fumarate 0.47a 0.23 0.22b 0.07 0.39ab 0.23 0.029 Glutamate 25.87ab 9.22 20.44a 2.93 31.08b 6.10 0.007 Lactate 3.19a 1.39 3.74a 1.05 6.69b 2.13 <0.000 Malate 51.56a 14.25 9.55b 3.60 12.62b 3.55 <0.001 Propionate 1.25a 0.68 3.79b 0.93 4.49b 0.54 <0.001 Succinate 5.55a 2.40 17.14b 2.17 10.17c 2.11 <0.001

Metabolites are a percentage of the most abundant metabolites. * One-Way Analysis of Variance followed by Bonferroni’s Test. abc Different subscript letters indicate significance between the time points. M - malate grown cells; MA - malate and acetate grown cells; SD – standard deviation

MT24 MT36 MT72

Metabolites* Mean SD Mean SD Mean SD P Value** 3-Hydroxybutyrate 1.21a 0.67 3.25b 0.71 2.86b 1.47 <0.001 Acetate 8.80a 4.27 13.99ab 2.76 16.11b 6.11 0.005 Butyrate 2.10a 0.98 15.41b 4.34 12.18b 3.49 <0.001 Fumarate 0.47 0.23 0.65 0.11 0.37 0.35 0.076 Glutamate 25.87 9.22 25.42 3.11 23.52 5.72 0.689 Lactate 3.19a 1.39 5.36b 1.03 5.04b 2.67 0.037 Malate 51.56a 14.25 21.75b 9.14 24.76b 13.21 <0.001 Propionate 1.25a 0.68 3.12b 0.72 2.34b 0.65 <0.001 Succinate 5.55a 2.40 11.05b 2.23 12.82b 4.43 <0.001

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