Table S1. Proteins Common to the Exoproteomes of R. Etli CE3 Cultures Grown with Or Without

Table S1. Proteins common to the exoproteomes of R. etli CE3 cultures grown with or without naringenin. Protein accession numbers in bold face indicate proteins also found in our previous study of the R. etli exoproteome (Meneses et al 2010) and in the R. leguminosarum bv. viciae exoproteome (Krehenbrink and Downie 2008).

Functional class and protein(s) / Abbrevi-ation / Accession(s)a
Energy production
2-oxoglutarate dehydrogenase E1 component / SucA / RHE_CH03888*
aconitate hydratase / AcnA / RHE_CH03944*
aldehyde dehydrogenase / RHE_CH04055*
C4-dicarboxylate transporter DctA / DctA / RHE_CH02971T
citrate synthase / GltA / RHE_CH01926
cytochrome B / FbcB / RHE_CH03037T
cytochrome-c oxidase assembly factor protein / SenC / RHE_CH02829
cytochrome-c oxidase, subunit II protein / CtaC / RHE_CH00952ST
cytochrome-c protein / CycM / RHE_CH00133
cytochrome-c protein / RHE_CH02618S
dihydrolipoamide acetyltransferase / PdhB / RHE_CH01935*
dihydrolipoamide dehydrogenase / LpdA / RHE_CH01938
dihydrolipoamide dehydrogenase / LpdAch2 / RHE_CH03882*
dihydrolipoamide succinyltransferase / SucB / RHE_CH03887*
electron transport flavoprotein, beta subunit / EtfBf / RHE_PF00405
electron-transport flavoprotein, alpha-subunit / EtfAf / RHE_PF00404
FOF1 ATP synthase subunit b 1 / AtpF1 / RHE_CH00867T
FOF1 ATP synthase subunit beta / AtpD / RHE_CH03870*
FOF1 ATP synthase subunit delta / AtpH / RHE_CH03873
FOF1 ATP synthase subunit epsilon / AtpC / RHE_CH03869
FOF1 ATP synthase subunit gamma / AtpG / RHE_CH03871
fumarate hydratase / FumC / RHE_CH02383*
inorganic pyrophosphatase / Ppa / RHE_CH03913
inorganic pyrophosphatase protein / RrpP / RHE_CH01527T
isocitrate dehydrogenase, NADP-dependent / Icd / RHE_CH02318
malate dehydrogenase / Mdh / RHE_CH03891*
NADH dehydrogenase / Ndhch / RHE_CH02760T
NADH-quinone oxidoreductase / NuoG1 / RHE_CH01611*
NADH-quinone oxidoreductase subunit B 1 / NuoB1 / RHE_CH01603
NADH-quinone oxidoreductase subunit D 1 / NuoD1 / RHE_CH01606*
NADH-ubiquinone oxidoreductase chain E protein / NuoE1 / RHE_CH01608*
oxidoreductase / RHE_CH01441*
phosphoenolpyruvate carboxykinase / PckA / RHE_CH00037*
pseudoazurin blue-copper protein / AzuPd / RHE_PD00298S
pseudoazurin blue-copper protein / AzuPf / RHE_PF00510S
pyruvate carboxylase / Pyc / RHE_CH04002*
pyruvate dehydrogenase alpha subunit protein / PdhA1 / RHE_CH01933*
pyruvate dehydrogenase subunit beta / PdhA2 / RHE_CH01934*
succinate dehydrogenase flavoprotein subunit / SdhA / RHE_CH03895
succinyl-CoA synthetase subunit alpha / SucD / RHE_CH03889*
succinyl-CoA synthetase subunit beta / SucC / RHE_CH03890*
ubiquinol--cytochrome c reductase, cytochrome c1 subunit protein / FbcC / RHE_CH03036ST
Amino acid transport and metabolism
2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase / DapD / RHE_CH00418
3-dehydroquinate dehydratase / AroQ2 / RHE_CH02289
acetylglutamate kinase / ArgB / RHE_CH00428*
acetylornithine aminotransferase / RocD / RHE_CH03852*
acetylornithine transaminase / ArgD / RHE_CH00516*
alanine dehydrogenase / AldA / RHE_CH01770*
amino acid ABC transporter substrate-binding proteins / RHE_CH02293S, RHE_CH02418S* GEP, RHE_CH04006S*, RHE_PC00118, RHE_PC00160S*, RHE_PE00228S*, RHE_PF00186S, RHE_PF00410S*, RHE_CH03027S, RHE_CH03963S
amino acid ABC transporter, substrate-binding protein / BraC1 / RHE_CH03093S*GEP
amino acid ABC transporter, substrate-binding protein / BraC2 / RHE_CH03321S* GEP
aminopeptidase / RHE_CH00280*
aspartate aminotransferase / AatAch / RHE_CH02998*
aspartate-semialdehyde dehydrogenase / Asd / RHE_CH04100*
branched chain amino-acid ABC transporter substrate-binding proteins / RHE_PE00275S* RHE_CH03445S
branched-chain amino acid aminotransferase / IlvE2 / RHE_CH02730*
carbamoyl phosphate synthase large subunit / CarB / RHE_CH02966*
cysteine synthase / CysK1 / RHE_CH00325*
cysteine synthase A / CysK2 / RHE_CH01775*
D-3-phosphoglycerate dehydrogenase / SerA / RHE_CH03454*
D-amino acid dehydrogenase small subunit / DadA / RHE_PF00436
dihydrodipicolinate synthase / DapAch2 / RHE_CH01381
dipeptide ABC transporter, substrate-binding protein / DppAch1 / RHE_CH00736S* GEP
dipeptide ABC transporter, substrate-binding protein / DppAch2 / RHE_CH02060S
dipeptide ABC transporter, substrate-binding protein / DppAch3 / RHE_CH03992S* GEP
dipeptide ABC transporter, substrate-binding protein / RHE_CH00221S
general L-amino acid ABC transporter, substrate-binding protein / AapJ / RHE_CH01898S*
glutamine synthetase / GlnA2 / RHE_CH02102*
glyoxalase/bleomycin resistance-like protein / RHE_CH02714
histidinol dehydrogenase / HisD / RHE_CH00581*
homospermidine synthase / Hss / RHE_CH03553*
imidazole glycerol phosphate synthase subunit HisF / HisF / RHE_CH00042
ketol-acid reductoisomerase / IlvC / RHE_CH02744*
lactoylglutathione lyase methylglyoxalase / GloA / RHE_CH01884
metallopeptidase / RHE_CH00723
nitrogen regulatory protein P-II / GlnB / RHE_CH02103
O-succinylhomoserine sulfhydrylase / MetZ / RHE_CH00522*
octopine ABC transporter substrate-binding protein / RHE_PE00077S*
octopine ABC transporter, substrate-binding protein / OccT / RHE_CH02144S
oligopeptide ABC transporter substrate-binding proteins / RHE_PB00032, RHE_PB00126S*
oligopeptide ABC transporter, substrate-binding protein / OppA / RHE_CH03096S*
ornithine acetyltransferase/N-acetylglutamate synthase, bifunctional / ArgJ / RHE_CH03768*
peptide ABC transporter substrate-binding protein / RHE_CH02099S*
peptidyl-dipeptidase Dcp protein / Dcp / RHE_CH03916*
phospho-2-dehydro-3-deoxyheptonate aldolase / AroG / RHE_CH02369
phosphoserine aminotransferase / SerC / RHE_CH03455*
polyamine ABC transporter substrate-binding protein / RHE_PC00028S*
proline/glycine betaine ABC transporter, substrate-binding protein / ProX / RHE_CH03085S*
S-adenosylmethionine synthetase / MetK / RHE_CH00370
serine hydroxymethyltransferase / GlyA / RHE_CH01508*
spermidine/putrescine ABC transporter, substrate-binding protein / PotD / RHE_CH03415S*
spermidine/putrescine ABC transporter, substrate-binding protein / PotF / RHE_CH00714S*
Xaa-Pro dipeptidase / RHE_CH03021
Carbohydrate transport and metabolism
5-keto-4-deoxyuronate isomerase / KduI / RHE_PE00400
6-phosphogluconolactonase / Pgl / RHE_CH00703*
alpha-glucoside ABC transporter, substrate-binding protein / AglE / RHE_CH00696S*
alpha-mannosidase / RHE_PF00487*
D-ribulose-5 phosphate 3-epimerase / Rpe / RHE_CH02270
fructose ABC transporter, substrate-binding protein / FrcB / RHE_CH00465S* GEP
fructose-bisphosphate aldolase / FbaB / RHE_CH03500*
glucose-6-phosphate 1-dehydrogenase / Zwf1 / RHE_CH00704*
glucose-6-phosphate isomerase / Pgi / RHE_CH00477*
glyceraldehyde 3-phosphate dehydrogenase / Gap / RHE_CH03496*
glycogen phosphorylase / GlgP / RHE_CH03593
L-arabinose-binding periplasmic protein / RHE_CH03695S
mannonate dehydratase / UxuAb / RHE_PB00006
phosphoglucomutase / Pgm / RHE_CH03597
phosphoglycerate kinase / Pgk / RHE_CH03499*
phosphopyruvate hydratase / Eno / RHE_CH01931*
pyrophosphate--fructose-6-phosphate 1-phosphotransferase / Pfk / RHE_CH02862*
pyruvate kinase / PykA / RHE_CH03542*
ribose ABC transporter substrate-binding protein / RbsBd / RHE_PD00087S
ribose ABC transporter, substrate-binding protein / RbsBch1 / RHE_CH00612
sn-glycerol-3-phosphate ABC transporter substrate-binding protein / UgpBc / RHE_PC00078S*
sucrose ABC transporter substrate-binding protein / RHE_PF00047S
sugar ABC transporter substrate-binding proteins / RHE_PE00100, RHE_PB00025S*, RHE_PB00115S, RHE_PC00103*, RHE_PE00289S, RHE_PF00091S*, RHE_PF00096, RHE_PF00321S, RHE_PF00565S, RHE_PE00245S, RHE_CH00492STAT, RHE_CH01555S*, RHE_CH02085S*, RHE_CH02461S, RHE_CH02898S*, RHE_CH03192S*, RHE_CH03374S, RHE_CH03644S, RHE_CH03709S, RHE_PE00370S*
transaldolase / Tal / RHE_CH03667*
transketolase / Tkt / RHE_CH03495*
TRAP mannitol/C4-dicarboxylate transporter, substrate-binding protein / RHE_CH03619S*
trehalosemaltose ABC transporter sugar-binding protein / ThuE / RHE_PF00210S*
xylose ABC transporter, substrate-binding protein / ChvE / RHE_CH03165S*
xylose ABC transporter, substrate-binding protein / XylF / RHE_CH03172S*
xylose isomerase / XylA / RHE_CH03648*
Lipid metabolism
(3R)-hydroxymyristoyl-(acyl carrier protein)dehydratase / FabZ / RHE_CH01922
3-hydroxybutyryl-CoA dehydrogenase / HbdA / RHE_CH03794*
3-hydroxydecanoyl-(acyl carrier protein) dehydratase / FabA / RHE_CH00107*
3-hydroxyisobutyrate dehydrogenase / RHE_CH02433
3-ketoacyl-(acyl carrier protein) reductase / FabG2 / RHE_CH01443*
3-oxoacyl-(acyl carrier protein) synthase II / RHE_CH02475, RHE_CH02476*
acetoacetyl-CoA reductase / PhbB / RHE_CH04019*
acetyl-CoA acetyltransferase / PhbAch / RHE_CH04018*
acetyl-CoA carboxylase biotin carboxyl carrier protein subunit / AccBch / RHE_CH01870
acetyl-CoA carboxylase biotin carboxylase subunit / AccCch / RHE_CH01869*
acyl-CoA thioesterase / TesA / RHE_CH03937*
enoyl-(acyl carrier protein) reductase / FabI2 / RHE_CH00938*
myo-inositol 2-dehydrogenase / IdhA / RHE_CH03170*
Nucleotide metabolism
2',3'-cyclic nucleotide 2'-phosphodiesterase / CpdB / RHE_CH01766*
5`-nucleotidase / RHE_CH03555S*
adenylate kinase / Adk / RHE_CH01696*
adenylosuccinate lyase / PurB / RHE_CH02273*
adenylosuccinate synthetase / PurA / RHE_CH03344*
pseudouridine-5'-phosphate glycosidase / PsuG / RHE_CH02325
Coenzyme metabolism
deoxyuridine 5'-triphosphate nucleotidohydrolase / Dut / RHE_CH00330
glutathione synthetase / GshB / RHE_CH00322
GMP synthase / GuaA / RHE_CH00297*
hydoxyethylthiazole kinase / ThiM / RHE_PE00337
inosine 5'-monophosphate dehydrogenase / GuaB / RHE_CH00794*
N5-carboxyaminoimidazole ribonucleotide mutase / PurE / RHE_CH03531
nucleoside diphosphate kinase / Ndk / RHE_CH01472* T1SS
riboflavin synthase subunit alpha / RibE / RHE_CH01511
thiamine-phosphate pyrophosphorylase / ThiEch / RHE_CH03527
uridylate kinase / PyrH / RHE_CH01915*
Inorganic ion transport and metabolism
ABC transporter substrate-binding protein / RHE_CH02890S*
ferrichrome ABC transporter substrate-binding protein / RHE_CH02683S
ferrichrome-iron transporter receptor protein / FhuA / RHE_PF00469S
ferroxidase / Bfr / RHE_CH04081*
hemin transport system, hemin-binding protein / HmuT / RHE_CH03269
iron ABC transporter substrate-binding protein / RHE_PF00269
iron(III) ABC transporter, substrate-binding protein / SfuA / RHE_CH04056S
manganese transport protein MntH / MntH / RHE_CH00878T
molybdenum ABC transporter, substrate-binding protein / ModA / RHE_CH04071S
nitrate/sulfonate ABC transporter, substrate-binding protein / RHE_CH03297*
nitrate/sulfonate/bicarbonate ABC transporter, substrate-binding protein / RHE_CH03866S*
oxidase, copper-containing / RHE_CH02520S
phosphate ABC transporter, substrate-binding protein / PstS / RHE_CH00509S*
phosphate transporter (Pit) regulator protein / RHE_CH00947
phosphate uptake transcriptional regulator protein / PhoU / RHE_CH00513*
sulfate uptake ABC transporter substrate-binding protein / RHE_PE00259S*
superoxide dismutase / SodB / RHE_CH01203*
vicibactin biosynthesis non-ribosomal peptide synthase / VbsS / RHE_PF00457
vicibactin biosynthesis, N6-hydroxylysine O-acetyltransferase / VbsA / RHE_PF00459
vicibactin biosynthesis, Putative epimerase / VbsL / RHE_PF00461
zinc ABC transporter substrate-binding protein / RHE_CH00971S
zinc uptake ABC transporter, substrate-binding protein / ZnuA / RHE_CH02712
Replication and repair
DNA gyrase subunit A / GyrA / RHE_CH02110
DNA gyrase subunit B / GyrB / RHE_CH00012
DNA polymerase III subunit beta / DnaN / RHE_CH00318*
nucleoid DNA-binding protein / Hrm / RHE_CH01590
single-stranded DNA-binding protein / Ssb / RHE_CH02108*
Cell cycle control
Maf-like protein / Maf / RHE_CH00585
Translation
30S ribosomal protein S1 / RpsA / RHE_CH00097*
30S ribosomal protein S11 / RpsK / RHE_CH01698
30S ribosomal protein S13 / RpsM / RHE_CH01697
30S ribosomal protein S15 / RpsO / RHE_CH00112
30S ribosomal protein S16 / RpsP / RHE_CH03959
30S ribosomal protein S17 / RpsQ / RHE_CH01684
30S ribosomal protein S19 / RpsS / RHE_CH01679
30S ribosomal protein S2 / RpsB / RHE_CH01913
30S ribosomal protein S3 / RpsC / RHE_CH01681
30S ribosomal protein S4 / RpsD / RHE_CH02312
30S ribosomal protein S5 / RpsE / RHE_CH01692
30S ribosomal protein S6 / Rpsf / RHE_CH01440
30S ribosomal protein S7 / RpsG / RHE_CH01671
30S ribosomal protein S8 / RpsH / RHE_CH01689
30S ribosomal protein S9 / RpsI / RHE_CH01570
50S ribosomal protein L10 / RplJ / RHE_CH01665
50S ribosomal protein L11 / RplK / RHE_CH01663
50S ribosomal protein L13 / RplM / RHE_CH01571
50S ribosomal protein L14 / RplN / RHE_CH01685
50S ribosomal protein L15 / RplO / RHE_CH01694
50S ribosomal protein L16 / RplP / RHE_CH01682
50S ribosomal protein L17 / RplQ / RHE_CH01700
50S ribosomal protein L18 / RplR / RHE_CH01691
50S ribosomal protein L19 / RplS / RHE_CH03962
50S ribosomal protein L2 / RplB / RHE_CH01678
50S ribosomal protein L20 / RplT / RHE_CH00262
50S ribosomal protein L22 / RplV / RHE_CH01680
50S ribosomal protein L23 / RplW / RHE_CH01677
50S ribosomal protein L24 / RplX / RHE_CH01686
50S ribosomal protein L25 / RplY / RHE_CH03025*
50S ribosomal protein L27 / RpmA / RHE_CH04063
50S ribosomal protein L3 / RplC / RHE_CH01675
50S ribosomal protein L30 / RpmD / RHE_CH01693
50S ribosomal protein L31 / RpmE / RHE_CH03506
50S ribosomal protein L4 / RplD / RHE_CH01676
50S ribosomal protein L5 / RplE / RHE_CH01687
50S ribosomal protein L6 / RplF / RHE_CH01690
50S ribosomal protein L9 / RplI / RHE_CH01437*
alanyl-tRNA synthetase / AlaS / RHE_CH02322*
aspartyl/glutamyl-tRNA amidotransferase subunit A / GatA / RHE_CH01855
aspartyl/glutamyl-tRNA amidotransferase subunit B / GatB / RHE_CH01862
elongation factor G / FusA / RHE_CH01672*
elongation factor P / Efp / RHE_CH04040*
elongation factor Ts / Tsf / RHE_CH01914
elongation factor Tu 1 / Tuf1 / RHE_CH01658*
isoleucyl-tRNA synthetase / IleS / RHE_CH00832*
leucyl-tRNA synthetase / LeuS / RHE_CH04116*
lysyl-tRNA synthetase / LysS / RHE_CH03657
phenylalanyl-tRNA synthetase subunit beta / PheT / RHE_CH00264*
polynucleotide phosphorylase/polyadenylase / Pnp / RHE_CH00111*
prolyl-tRNA synthetase / ProS / RHE_CH01623*
ribosome recycling factor / Frr / RHE_CH01916*
ribosome-binding ATPase / YchF / RHE_CH03031
sigma 54 modulation protein / RHE_CH00406
translation initiation factor IF-1 / InfA / RHE_CH00584
translation initiation factor IF-2 / InfB / RHE_CH00116
valyl-tRNA synthetase / ValS / RHE_CH01811*
Transcription
AsnC family transcriptional regulator / RHE_CH02438
cytochrome p450 protein / RHE_CH00051
DNA-directed RNA polymerase subunit alpha / RpoA / RHE_CH01699*
DNA-directed RNA polymerase subunit beta / RpoB / RHE_CH01667*
DNA-directed RNA polymerase subunit beta' / RpoC / RHE_CH01668
metalloprotease inhibitor (transcriptional regulator) protein / RHE_CH01654S
nodulation competitiveness transcriptional regulator / RosR / RHE_CH01249
transcription antitermination protein / NusG / RHE_CH01662*
transcription elongation factor GreA / GreA / RHE_CH02969*
transcription termination factor Rho / Rho / RHE_CH04124*
Post-translational modification, protein turnover, chaperone functions
10 kDa chaperonin / GroESch1 / RHE_CH00829
10 kDa chaperonin / GroESf / RHE_PF00329*
60 kDa chaperonin 1 / GroL1 / RHE_CH00828*
60 kDa chaperonin 2 / GroL2 / RHE_CH01239
60 kDa chaperonin 4 / GroL4 / RHE_PF00330*
ABC transporter involved in Fe-S cluster assembly, ATP-binding protein / SufC / RHE_CH02251*
ABC transporter involved in Fe-S cluster assembly, permease / SufD / RHE_CH02250
anti-oxidant AhpCTSA family protein / RHE_CH01791*
ATP-dependent Clp protease proteolytic subunit / ClpP3 / RHE_CH03069
ATP-dependent protease ATP-binding subunit HslU / HslU / RHE_CH00049*
ATP-dependent protease LA protein / Lon / RHE_CH01589*
ATP-dependent protease peptidase subunit / HslV / RHE_CH00048
ATP-dependent zinc metalloprotease / FtsH / RHE_CH03458T
cysteine desulfurase activator complex subunit SufB / SufB / RHE_CH02253
glutathione S-transferase / Gstch6 / RHE_CH01147
glutathione S-transferase / YghU / RHE_PB00095*
hydrolase serine protease transmembrane subunit C protein / HflC / RHE_CH02796T
hydrolase serine protease transmembrane subunit K protein / HflK / RHE_CH02797T
methionine sulfoxide reductase A / MsrAb / RHE_PB00110
molecular chaperone DnaK / DnaK / RHE_CH00145*
organic hydroperoxide resistance (osmotically inducible) protein / RHE_CH01174
peptidyl prolyl cis-trans isomerase A signal peptide protein / PpiA / RHE_CH02114SGEP
peptidyl prolyl cis-trans isomerase B signal peptide protein / PpiB / RHE_CH02115*
peptidyl prolyl cis-trans isomerase D signal peptide protein / PpiD1 / RHE_CH02173T
peptidyl prolyl cis-trans isomerase D signal peptide protein / PpiD2 / RHE_CH03769S*
peptidyl-prolyl cis-trans isomerase / RHE_CH01451S
peroxiredoxin protein / RHE_CH00968
pilus assembly protein / CpaD / RHE_CH00206 P
protease / SohB / RHE_CH00879
serine protease DO-like protein / DegPch2 / RHE_CH01293*
serine protease DO-like protein / DegPch3 / RHE_CH01707*
thiol-disulfide oxidoreductase / RHE_CH00999S
thioredoxin / TrxA1 / RHE_CH00025
trigger factor / Tig / RHE_CH01842*
Signal transduction
carbon flux regulator / AniA / RHE_CH04017
two-component response regulator / TcrX / RHE_CH03275*
two-component response regulator protein / ActR / RHE_CH00055
two-component response regulator protein / RHE_CH00629
two-component sensor histidine kinase / FixL / RHE_PF00509*
universal stress UspA protein / UspA / RHE_PD00016*
Cell wall/membrane/ envelope biogenesis
C-terminal processing peptidase / CtpA / RHE_CH04078*
exopolysaccharide export protein / PssN / RHE_CH03235*
exopolysaccharide polymerization protein / PssK / RHE_CH03217
exopolysaccharide polymerization protein / PssP / RHE_CH03233T
galactosyltransferase / PssJ / RHE_CH03218
GDP-mannose 4,6-dehydratase / NoeL1 / RHE_CH00762
glycine betaine ABC transporter, substrate binding protein / RHE_CH00485S*
HlyD family protein secretion protein / RHE_CH03298ST
lipid A oxidase / LpxQ / RHE_CH00812S
lipoprotein precursor protein / LppB / RHE_CH01829
lytic murein transglycosylases, membrane-bound / RHE_CH02869SGEP, RHE_CH04101S
mannose-1-phosphate guanylyltransferase (GDP) / NoeJ / RHE_CH03244*
nodulation protein (outer membrane efflux protein) / NodTch / RHE_CH03413S*
O-linked GlcNAc transferase / RHE_CH03608S
OmpA family membrane protein / RHE_CH02417S*
outer membrane lipoprotein / OmpA / RHE_CH02810S
outer membrane lipoprotein / Omp2 / RHE_CH03461S
outer membrane lipoprotein / Omp3 / RHE_CH03554S
outer membrane lipoprotein-related protein / LppA / RHE_CH01288S
outer membrane lipoproteins carrier protein / RHE_CH03971S
outer membrane protein / RopB1 / RHE_CH01481S
outer membrane protein / RopB2 / RHE_CH02933S
outer membrane protein assembly factor / Omp1 / RHE_CH01920S*
Outer membrane protein assembly factor / BamD / RHE_CH02838S
peptidoglycan binding protein (involved in cell wall degradation) / RHE_CH01507S*
peptidoglycan binding protein(LysM domain involved in cell wall degradation) / RHE_CH01416
polysaccharidase / PlyA2 / RHE_CH02606 T1SS
polysaccharide export system protein / RHE_CH01561S
symbiotically induced surface protein / RHE_PE00373S
transcriptional regulator / MraZ / RHE_CH02856T
UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase / LpxD / RHE_CH01921
UDP-glucose 6-dehydrogenase / RkpK / RHE_CH03238*
UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase / MurE / RHE_CH02852
UTP-glucose-1-phosphate uridylyltransferase / ExoN / RHE_CH03561*
Intracellular trafficking and secretion
conjugal transfer protein TrbJ / TrbJ / RHE_PA00174S
membrane protein insertase / YidC / RHE_CH00437T
preprotein translocase / YajC / RHE_CH01831T
protein export protein / SecB / RHE_CH00006*
protein translocase subunit / SecA / RHE_CH03770*
protein transport translocase / SecD1 / RHE_CH00631T
protein transporter / TolR / RHE_CH03465T
protein transporter / TolQ / RHE_CH03466T
translocase transmembrane protein / RHE_CH00008
translocation protein TolB / TolB / RHE_CH03462S*
type IV secretion system protein VirB9 / VirB9a / RHE_PA00050S
Cell motility
flagellar basal-body rod protein / FlgD / RHE_CH00684
flagellar basal-body rod protein / FlgG / RHE_CH00661
flagellar hook protein FlgE / FlgEch / RHE_CH00679 F
flagellin / FlgLch / RHE_CH00681
flagellin C protein / FlaCch1 / RHE_CH00669 F
flagellin C protein / FlaCch2 / RHE_CH00670
flagellin C protein / FlaCch3 / RHE_CH00671 F
flagellin C protein / FlaCch4 / RHE_CH00672
flagellin C protein / FlaCch5 / RHE_CH02811
flagellin C protein / FlaCe / RHE_PE00392
Defense mechanisms
acriflavin resistance efflux transporter / RHE_CH03299T
acriflavin resistance protein, multidrug-efflux system / MexF1 / RHE_CH03348T
catalase-peroxidase / KatG / RHE_PF00004*
heat shock protein 90 / HtpG / RHE_PF00122*
osmotically inducible protein / OsmC / RHE_CH03690
General function prediction only
ATP transporter, substrate-binding protein / RHE_CH03929S*
ABC transporter protein / RHE_CH02346
ABC transporter ATP-binding protein / RHE_CH02873*
ABC transporter, substrate-binding protein / RHE_CH02084S* GEP
aldo/keto reductase family oxidoreductase / RHE_CH03966*
cobalamin synthesis protein, P47K family / RHE_CH03625
glyoxalase / RHE_CH02471
hydrolases / RHE_CH00113S, RHE_CH02726S
lipoprotein / RHE_PB00160S
lipoprotein periplasmic protein / RHE_PB00102
metalloprotease / RHE_CH04027
methanol dehydrogenase regulator MoxR-like protein / RHE_CH03052
modulator of DNA gyrase / PmbA / RHE_CH00841*
outer membrane lipoprotein / RHE_CH00187S*
phosphatidylethanolamine-binding protein / RHE_CH00293S
reductase / RHE_CH04003
signal peptide protein / RHE_CH02100S
Unknown function
CreA protein / CreA / RHE_CH02832S
GguC protein / GguC / RHE_CH03162*
Without GOG
autoaggregation protein / RapAc / RHE_PC00209 T1SS
autoaggregation protein (adhering protein) / RapB1 / RHE_CH02163
autoaggregation protein (adhering protein) / RapB2 / RHE_CH02384
autoaggregation protein (adhering protein) / RapB3 / RHE_CH03450
porin outer membrane protein / RopAch1 / RHE_CH01349S
porin outer membrane protein / RopAch2 / RHE_CH02437S
rhizobiocin/RTX toxin and hemolysin-type calcium binding protein / RzcA / RHE_CH00724 T1SS
RTX toxin hemolysin-type calcium-binding protein / RHE_CH01892 T1SS
RTX toxin hemolysin-type protein / RHE_CH02634
transporter, permease / RHE_CH04095T
Conserved or uncharacterized proteins
RHE_CH00018T, RHE_CH00147T, RHE_CH00201 P, RHE_CH00304S, RHE_CH00402, RHE_CH00479*, RHE_CH00551S, RHE_CH00759, RHE_CH00833S, RHE_CH00851S*, RHE_CH00897, RHE_CH00936S, RHE_CH00951, RHE_CH00980S, RHE_CH01025S, RHE_CH01070, RHE_CH01134S, RHE_CH01168S, RHE_CH01236SGEP, RHE_CH01328, RHE_CH01528S, RHE_CH01538, RHE_CH01866S, RHE_CH01866S, RHE_CH01905, RHE_CH01912S, RHE_CH02119S, RHE_CH02233S, RHE_CH02239S, RHE_CH02271S,RHE_CH02340T, RHE_CH02391, RHE_CH02521S, RHE_CH02538*, RHE_CH02546S, RHE_CH02591, RHE_CH02600, RHE_CH02687, RHE_CH02778S, RHE_CH02882S, RHE_CH02903, RHE_CH03006S, RHE_CH03012S, RHE_CH03024S*, RHE_CH03064S, RHE_CH03109T, RHE_CH03141, RHE_CH03185, RHE_CH03262, RHE_CH03272T, RHE_CH03337S, RHE_CH03343T, RHE_CH03432S*, RHE_CH03460, RHE_CH03489, RHE_CH03508S, RHE_CH03543, RHE_CH03579S, RHE_CH03584S*, RHE_CH03631S, RHE_CH03931S, RHE_CH03987, RHE_CH04113, RHE_CH04117T, RHE_PB00014S, RHE_PC00088S, RHE_PD00077S, RHE_PD00265, RHE_PD00276S, RHE_PE00010S*, RHE_PE00082S, RHE_PE00139, RHE_PE00162S, RHE_PE00318S, RHE_PE00320, RHE_PE00362, RHE_PE00394S, RHE_PE00429S, RHE_PF00158S, RHE_PF00368, RHE_PF00432S, RHE_PF00490*, RHE_PF00511S

aAbbreviations: Predicted secretion system used to export protein based on data for R. leguminosarum bv. viciae secretome orthologs (Krehenbrink and Downie 2008).: GEP, general export system; TAT, twin arginine pathway; P, pilus; T1SS, Type I secretion system; F, flagellum. Astericks denote proteins that were also found in R. etli bacteroids (Resendis-Antonio et al 2011). Superscript S, protein contains N-terminal signal peptide; superscript T, protein has transmembrane domain(s).