Table 1 Global differential abundance of proteins between the ΔclpP mutant and its parent strains

 AEA95010.1 (OG1RF_12323)

hypothetical protein

2.953

2.642

 AEA94213.1 (OG1RF_11526, gelE)

gelatinase GelE

–

2.577

 AEA93457.1 (OG1RF_10770)

aspartate 4-decarboxylase

–

1.964

 AEA95218.1 (OG1RF_12531, ctsR)

transcriptional regulator CtsR

2.165

1.894

 AEA93816.1 (OG1RF_11129)

hypothetical protein

2.086

–

 AEA95217.1 (OG1RF_12530, clpC)

ATPase/chaperone ClpC, probable specificity factor for ClpP protease

1.906

1.802

 AEA94588.1 (OG1RF_11901)

HD domain protein

–

1.905

 AEA94933.1(OG1RF_12246)

Acetyl esterase/lipase

–

1.873

 AEA94972.1 (OG1RF_12285, cbh)

putative penicillin amidase

–

1.790

  AEA94928.1 (OG1RF_12241)

LysR family transcriptional regulator

1.799

–

  AEA93656.1 (OG1RF_10969)

beta-lactamase

–

1.770

 AEA92985.1 (OG1RF_10298, mtlD)

mannitol-1-phosphate 5-dehydrogenase

1.711

–

 AEA93763.1(OG1RF_11076, hrcA)

heat-inducible transcription repressor HrcA

–

1.692

 AEA93514.1 (OG1RF_10827)

hypothetical protein

1.655

–

 AEA94757.1 (OG1RF_12070)

hypothetical protein

1.651

–

 AEA95193.1 (OG1RF_12506)

cell wall surface anchor family protein

–

1.609

 AEA95024.1 (OG1RF_12337)

Hydrolase

1.585

2.182

 AEA94737.1 (OG1RF_12050)

HAD-superfamily hydrolase

–

1.606

 AEA94733.1 (OG1RF_12046, mecA)

adapter protein MecA

1.560

–

 AEA93419.1 (OG1RF_10732)

FtsZ-interacting cell division protein YlmF

1.560

–

 AEA94308.1 (OG1RF_11621)

NgoFVII restriction endonuclease superfamily protein

–

1.541

 AEA94061.1 (OG1RF_11374, buk)

butyrate kinase

1.544

–

 AEA94734.1 (OG1RF_12047, spxA)

regulatory protein Spx

–

1.524

 AEA94693.1 (OG1RF_12006, groEL)

chaperonin GroEL

–

1.490

 AEA93199.1 (OG1RF_10512)

MutT/NUDIX family protein

1.524

–

 AEA94670.1 (OG1RF_11983, murA2)

UDP-N-acetylglucosamine 1-carboxyvinyltransferase

1.520

1.849

 AEA93452.1 (OG1RF_10765, drrC)

daunorubicin resistance protein

1.507

1.310

 AEA94047.1 (OG1RF_11360, xerC)

tyrosine recombinase XerC

1.500

–

 AEA94288.1 (OG1RF_11601)

GNAT family acetyltransferase

1.497

–

 AEA94227.1 (OG1RF_11540)

PP-loop family protein

1.496

1.546

 AEA93700.1 (OG1RF_11013)

GntR family transcriptional regulator

1.478

–

 AEA93154.1 (OG1RF_10467)

putative thioredoxin

–

1.475

 AEA94591.1 (OG1RF_11904, rimI)

ribosomal-protein-alanine acetyltransferase

–

1.473

 AEA93907.1 (OG1RF_11220, fbp)

fructose-1,6-bisphosphatase

1.455

1.600

  AEA93067.1 (OG1RF_10380)

Nitroreductase

–

1.453

 AEA94513.1 (OG1RF_11826)

NifU family SUF system FeS assembly protein

1.422

–

 AEA93553.1 (OG1RF_10866)

hypothetical protein/Thioredoxin_like

–

1.418

 AEA95234.1 (OG1RF_12547, mycA)

myosin-cross-reactive antigen

1.414

–

 AEA94616.1 (OG1RF_11929)

hypothetical protein

–

1.410

 AEA94405.1 (OG1RF_11718)

hypothetical protein

1.409

–

 AEA93483.1 (OG1RF_10796)

hypothetical protein

1.405

–

 AEA93230.1 (OG1RF_10543)

hypothetical protein

1.395

–

 AEA95035.1 (OG1RF_12348)

GNAT family acetyltransferase

1.394

–

 AEA95136.1 (OG1RF_12449)

M protein trans-acting positive regulator

1.392

–

 AEA94760.1(OG1RF_12073, recX)

recombination regulator RecX

1.389

–

 AEA94771.1(OG1RF_12084)

ABC superfamily ATP binding cassette transporter, ABC protein

1.385

–

 AEA92793.1 (OG1RF_10106)

Oxidoreductase

1.384

–

 AEA93715.1 (OG1RF_11028)

haloacid dehalogenase family hydrolase

–

1.368

 AEA95260.1 (OG1RF_12573)

GntR family transcriptional regulator

1.362

–

 AEA93441.1 (OG1RF_10754)

GNAT family acetyltransferase

1.361

–

  AEA94573.1(OG1RF_11886)

hypothetical protein

1.357

–

 AEA93214.1 (OG1RF_10527)

ABC superfamily ATP binding cassette transporter, ABC protein

1.353

–

 AEA92756.1 (OG1RF_10069)

hypothetical protein

1.350

–

 AEA93410.1(OG1RF_10723)

cell division protein

1.327

–

  AEA94176.1 (OG1RF_11489, purD)

phosphoribosylamine-glycine ligase

1.316

–

 AEA93340.1 (OG1RF_10653)

response regulator

1.316

–

 AEA93256.1 (OG1RF_10569)

L-seryl-tRNA (Sec) selenium transferase

1.314

–

 AEA94441.1 (OG1RF_11754, gloA6)

lactoylglutathione lyase

1.300

–

 AEA94128.1 (OG1RF_11441, aroD)

3-dehydroquinate dehydratase

–

1.297

 AEA94544.1 (OG1RF_11857)

GntR family transcriptional regulator

1.296

–

 AEA94273.1 (OG1RF_11586)

transcriptional regulator

1.294

–

 AEA92934.1 (OG1RF_10247, gloA)

lactoylglutathione lyase

1.290

–

 AEA95077.1 (OG1RF_12390, rpoZ)

DNA-directed RNA polymerase subunit omega

–

1.283

  AEA92957.1 (OG1RF_10270)

hypothetical protein

1.276

–

 AEA94962.1 (OG1RF_12275, agxt)

Aminotransferase

1.276

–

 AEA94536.1 (OG1RF_11849, zurR)

Fur family transcriptional regulator ZurR

1.271

–

 AEA93513.1 (OG1RF_10826)

hypothetical protein

1.268

–

 AEA93713.1 (OG1RF_11026)

protein of hypothetical function DUF1212

1.263

1.278

 AEA94801.1 (OG1RF_12114)

ABC superfamily ATP binding cassette transporter, ABC protein

1.261

–

 AEA93430.1 (OG1RF_10743)

sigma-54 interaction domain protein

–

1.261

 AEA94727.1 (OG1RF_12040, ppnK)

NAD(+) kinase

1.261

–

 AEA94097.1 (OG1RF_11410)

MerR family transcriptional regulator

1.258

–

 AEA93950.1 (OG1RF_11263)

hypothetical protein

1.257

–

 AEA94980.1 (OG1RF_12293)

M protein trans-acting positive regulator

–

1.257

 AEA92806.1 (OG1RF_10119, add)

adenosine deaminase

1.255

–

 AEA93450.1 (OG1RF_10763)

endonuclease/exonuclease/phosphatase

–

1.291

 AEA94787.1 (OG1RF_12100)

Exonuclease

–

1.453

 AEA94745.1 (OG1RF_12058, sbcC)

exonuclease SbcC

1.253

1.218

 AEA95129.1 (OG1RF_12442)

FMN reductase

–

1.255

 AEA93282.1 (OG1RF_10595, opuAA)

glycine betaine/L-proline ABC superfamily ATP binding cassette transporter, ABC protein

–

1.253

 AEA93239.1 (OG1RF_10552, rplY)

50S ribosomal protein L25

1.246

–

 AEA93267.1 (OG1RF_10580)

PemK family transcriptional regulator

–

1.252

 AEA95167.1 (OG1RF_12480)

DEAH-box family ATP-dependent helicase

1.245

–

 AEA94265.1 (OG1RF_11578)

alpha-hemolysin-like protein

–

1.249

 AEA92804.1 (OG1RF_10117)

lipase/acylhydrolase

–

1.247

 AEA93429.1 (OG1RF_10742)

DEAD/DEAH box family ATP-dependent RNA helicase

1.243

–

 AEA92904.1 (OG1RF_10217)

phosphoglycerate mutase

1.241

–

 AEA93066.1 (OG1RF_10379)

phage integrase family site-specific recombinase

–

1.238

 AEA94914.1 (OG1RF_12227)

HAD superfamily hydrolase

1.237

–

 AEA95081.1 (OG1RF_12394)

YicC like protein

1.236

–

 AEA94216.1 (OG1RF_11529, fsrA)

FsrA response regulator

–

1.235

 AEA93148.1 (OG1RF_10461, gatC)

glutamyl-tRNA (Gln) amidotransferase subunit C

–

1.234

 AEA94809.1 (OG1RF_12122, yaaT)

stage 0 sporulation protein YaaT

–

1.234

 AEA94698.1 (OG1RF_12011)

ABC superfamily ATP binding cassette transporter, ABC protein

1.231

–

 AEA94715.1 (OG1RF_12028, coaC)

phosphopantothenoylcysteine decarboxylase

1.230

–

 AEA93059.1 (OG1RF_10372, pgpA)

phosphatidylglycerophosphatase A

1.229

–

 AEA94099.1 (OG1RF_11412)

transcriptional regulator

1.223

–

 AEA93605.1 (OG1RF_10918)

MutT/NUDIX family protein

–

1.222

 AEA93586.1 (OG1RF_10899, murI)

glutamate racemase

1.217

–

 AEA92699.1 (OG1RF_10012, dnaB)

replicative DNA helicase DnaB

1.216

–

 AEA94183.1 (OG1RF_11496, purS)

phosphoribosylformylglycinamidine synthase subunit PurS

1.215

–

 AEA94204.1 (OG1RF_11517, agaS)

sugar isomerase protein AgaS

1.215

–

 AEA94381.1 (OG1RF_11694)

ABC superfamily ATP binding cassette transporter, ABC protein

1.213

–

 AEA92898.1 (OG1RF_10211, dus)

tRNA-dihydrouridine synthase

–

1.213

 AEA93779.1 (OG1RF_11092)

ABC superfamily ATP binding cassette transporter, membrane protein

1.212

–

 AEA94888.1 (OG1RF_12201)

D-isomer specific 2-hydroxyacid dehydrogenase

1.212

–

 AEA93602.1 (OG1RF_10915)

2,5-diketo-D-gluconate reductase

1.212

–

 AEA94423.1 (OG1RF_11736)

group 2 glycosyl transferase

1.211

–

 AEA94516.1 (OG1RF_11829, sufC)

ABC superfamily ATP binding cassette transporter, ABC protein

–

1.208

 AEA93609.1 (OG1RF_10922)

hypothetical protein

–

1.204

 AEA93584.1 (OG1RF_10897)

glutamine ABC superfamily ATP binding cassette transporter, binding protein

1.200

–

 AEA92854.1 (OG1RF_10167, rplR)

50S ribosomal protein L18

0.828

–

 AEA93526.1 (OG1RF_10839)

universal stress protein

–

0.826

 AEA92839.1 (OG1RF_10152, rplD)

ribosomal protein L4/L1 family protein

0.825

–

 AEA95174.1 (OG1RF_12487, rplM)

50S ribosomal protein L13

0.816

–

 AEA95058.1 (OG1RF_12371, acpP2)

acyl carrier protein

0.797

–

 AEA93354.1 (OG1RF_10667)

hypothetical protein

0.794

–

 AEA93187.1 (OG1RF_10500)

ATP-binding protein

–

0.792

 AEA93783.1 (OG1RF_11096)

hypothetical protein

0.787

–

 AEA93274.1 (OG1RF_10587)

hypothetical protein

–

0.787

 AEA94998.1 (OG1RF_12311, traC2)

peptide ABC superfamily ATP binding cassette transporter, binding protein

0.776

–

 AEA93330.1 (OG1RF_10643, rplT)

50S ribosomal protein L20

0.773

–

 AEA94110.1 (OG1RF_11423, pyrE)

orotate phosphoribosyltransferase

–

0.763

 AEA94119.1 (OG1RF_11432, upp)

uracil phosphoribosyltransferase

–

0.747

 AEA94115.1 (OG1RF_11428, carA)

carbamoyl-phosphate synthase, small subunit

–

0.719

 AEA92893.1 (OG1RF_10206)

S1 RNA-binding domain protein

0.705

–

 AEA92696.1 (OG1RF_10009, rpsR)

30S ribosomal protein S18

0.671

–

 AEA95155.1 (OG1RF_12468, rpsN2)

30S ribosomal protein S14

–

0.671

 AEA94111.1 (OG1RF_11424, pyrF)

orotidine-5′-phosphate decarboxylase

0.670

–

 AEA94116.1 (OG1RF_11429, pyrC)

Dihydroorotase

0.650

–

 AEA94767.1 (OG1RF_12080, rplL2)

ribosomal protein L7/L12

0.649

–

 AEA93420.1 (OG1RF_10733, ylmG)

YlmG protein

0.579

–

 AEA94625.1 (OG1RF_11938)

fumarate reductase

0.565

–

 AEA93191.1 (OG1RF_10504)

thioredoxin superfamily protein

0.493

0.289

 AEA93192.1 (OG1RF_10505, clpP)

ATP-dependent Clp protease proteolytic subunit

0.385

0.337