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Table 2 Proteins showing significant changed expression levels, compared between iron excess (Fe+) and iron limitation (Fe−) conditions, as well as between the exponential growth phase (early) and the stationary phase (late)

From: Metabolic and proteomic analyses of product selectivity and redox regulation in Clostridium pasteurianum grown on glycerol under varied iron availability

Accession no.

Protein name

Cluster of orthologous groups (COG)

Conserved protein domain

Spot no.

Fold change iron-related

Fold change growth-related

Early phase higher at

Late phase higher at

Fe+ higher at

Fe− higher at

Fe−

Fe+

Fe−

Fe+

Early

Late

Early

Late

Amino acid transport and metabolism

        

 F502_05097

Amino peptidase 1

COG1362

Lap4

298

1.9

 

1.7

     

 F502_05412

Carbamoyl phosphate synthase large subunit

COG0458

CarB

89

 

1.8

  

1.9

   

 F502_07028

Cysteine synthase a

COG0031

CysK

449

1.8

    

2.1

  

 F502_17572

Glutamine synthetase type III

COG3968

GlnA3

187

1.6

    

1.9

  
    

190

1.6

    

1.6

  

 F502_18676

Threonine synthase

COG0498

ThrC

312

 

1.6

  

2.2

   

Carbohydrate transport and metabolism

        

 F502_03412

Propanediol dehydratase small

COG4910

PduE

594

1.9

 

1.9

     

 F502_07638

Subunit flavodoxin

COG0716

FldA

594

        

 F502_03417

Glycerol dehydratase reactivation factor large subunit

No COG

 

220

    

2.1

   

 F502_03937

Glycogen synthase

COG0297

GlgA

329

2.7

    

2.3

  

 F502_06067

Enolase

COG0148

Eno

695

4.1

 

4.0

  

2.0

 

2.0

    

696

4.8

 

1.8

  

2.5

  

 F502_06077

Triosephosphate isomerase

COG0149

TpiA

491

   

1.5

 

2.6

  

 F502_06087

Glyceraldehyde 3-phosphate dehydrogenase

COG0057

GapA

409

 

1.6

  

2.4

   

 F502_07098

Glycoside hydrolase

COG1543

 

277

2.0

    

1.8

  

 F502_12758

Dihydroxyacetone kinase

COG2376

DAK1

158

 

1.7

 

2.0

1.7

 

2.1

 
    

179

 

1.7

 

1.7

2.2

 

2.3

 

Cell cycle control/cell division

        

 F502_08238

Cell division protein

COG3599

DivIVA

503

    

2.7

 

2.0

 

Cell wall/membrane/envelope biogenesis

        

 F502_00655

Peptidoglycan-binding protein

COG1388

LysM

233

7.9

    

6.1

1.6

 

 F502_01965

Spore coat protein Frelated protein

COG5577

CotF

549

1.5

 

2.1

    

1.6

Coenzyme transport and metabolism

        

 F502_07578

Pyridoxal biosynthesis lyase

COG0214

PdxS

460

 

2.5

  

2.2

   

Energy production and conversion

        

 F502_05017

NifU-related domain containing protein

COG0822

IscU

519

0.4

2.4

0.6

1.6

1.3

0.8

0.9

1.1

   

520

 

3.7

 

2.9

1.9

 

1.5

 

 F502_06282

Electron transfer flavoprotein subunit alpha

COG2025

FixB

440

   

1.5

    

 F502_06287

Electron transfer flavoprotein subunit alpha/beta-like protein

COG2086

FixA

487

   

1.7

    

 F502_06447

Bifunctional acetaldehyde-CoA/alcohol dehydrogenase

COG1012

AdhE

119

   

2.1

 

3.7

 

1.6

   

715

1.5

  

2.9

 

5.3

  
    

717

1.6

  

3.0

 

4.7

  

 F502_07493

Nitroreductase

COG0778

NfnB

537

2.3

 

2.9

    

1.8

 F502_07643

Pyruvate: ferredoxin (flavodoxin) oxidoreductase. homodimeric

COG0674

PorA

70

 

2.4

 

2.4

1.5

   
   

75

   

2.4

0.6

1.8

  
    

76

   

2.7

 

1.9

  
    

77

 

1.5

 

2.3

    
    

87

 

2.0

 

2.8

  

1.5

 
    

90

 

2.2

 

2.8

1.6

 

2.0

 

 F502_07648

Pyruvate: ferredoxin oxidoreductase

COG0674

PorA

40

   

2.3

 

1.6

  
   

57

   

2.3

 

2.1

  
    

58

 

1.5

 

2.4

 

2.1

  
    

59

 

2.1

 

2.8

    

 F502_09238

Rubredoxin/flavodoxin/oxidoreductase

COG0426

NorV

131

1.7

    

2.0

  
   

730

     

2.0

 

1.6

 F502_09488

Hydratase (aconitase A)

COG1048

AcnA

156

 

2.4

 

2.5

1.9

 

2.0

 

 F502_11871

Butyrate kinase

COG3426

Buk

383

1.6

    

1.7

  

 F502_11976

Pyruvate carboxylase

COG1038

PycA

71

 

1.5

 

2.7

 

1.7

  

 F502_12091

F0F1 ATP synthase subunit beta

COG0055

AtpD

645

2.1

 

1.9

     
   

646

2.2

 

2.4

     

 F502_12878

Desulfo ferrodoxin

COG2033

SorL

611

 

2.2

 

2.8

    

 F502_13493

Flavodoxin

COG0716

FldA

575

14.3

 

8.0

  

1.6

  

 F502_14390

[Fe] hydrogenase

COG4624

Nar1 PurB

303

 

2.1

  

2.5

   

 F502_04707

Adenylosuccinate lyase

COG0015

 

303

        

 F502_15080

Rubrerythrin

COG1592

YotD

558

 

2.2

 

4.5

 

2.0

  

 F502_16610

Glycolate oxidase

COG0277

GlcD

315

   

1.8

 

2.3

 

1.9

 F502_18287

Hydrogenase-1

COG1034

NuoG

223

 

4.5

 

1.6

2.3

   
    

224

 

5.1

 

1.9

3.6

   

 F502_18651

NADP-dependent glyceraldehyde-3-phosphate dehydrogenase

COG1012

AdhE

736

2.7

 

1.5

  

2.1

  

 F502_19556

Formate acetyltransferase

COG1882

PflD

174

4.5

 

5.7

     
    

175

8.0

 

6.5

     
    

178

2.5

     

3.4

 
    

181

3.7

   

1.7

 

7.4

 

Function unknown/general function prediction only

        

 F502_02435

Aldo/keto reductase

COG1453

 

362

 

2.6

  

2.9

   

 F502_05012

Hypothetical protein (GGGtGRT protein)

No COG

 

400

 

7.1

 

2.2

3.0

   

 F502_05962

Hypothetical protein

No COG

 

635

2.0

    

1.5

  

 F502_06682

Hypothetical protein

COG2607

 

318

 

3.4

 

3.8

1.7

 

2.0

 

 F502_15420

Hypothetical protein

No COG

 

597

1.7

 

2.8

 

1.5

   

 F502_16320

Hypothetical protein

COG0393

YbjQ

637

2.3

 

2.0

     

Lipid transport and metabolism

        

 F502_06297

3-Hydroxybutyryl-CoA dehydratase

COG1024

CaiD

472

 

2.1

  

2.2

   

 F502_10483

Biotin carboxylase

COG0439

AccC

302

2.5

  

1.6

 

2.1

1.9

 

Nucleotide transport and metabolism

        

 F502_17300

Bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase

COG0138

PurH

281

    

1.7

 

1.6

 

Posttranslational modification/Protein turnover/Chaperones

        

 F502_03242

Heat shock protein (molecular chaperone GrpE)

COG0576

GrpE

481

   

2.1

 

2.2

  

 F502_03247

Molecular chaperone DnaK

COG0443

Dank

217

1.6

    

1.8

  

 F502_03987

peptidase

COG1026

Cym1

106

2.3

    

2.1

  
    

107

3.6

 

1.6

  

2.4

  

 F502_05557

ATP-dependent Clp protease ATP-binding subunit

COG0542

ClpA

165

1.8

 

2.1

     
   

168

  

1.9

 

1.7

   

 F502_06242

Chaperonin

COG0459

GroEL

258

1.6

    

2.0

  

 F502_06247

Co-chaperonin

COG0234

GroES

613

   

1.5

 

2.6

  

 F502_07608

Thij/PfpI family protein

COG0693

ThiJ

553

1.8

 

1.6

     

 F502_10228

Heat shock protein (molecular chaperone IbpA)

COG0071

IbpA

600

  

2.5

  

3.0

 

6.9

 F502_15425

Heat shock protein 90

COG0326

HtpG

196

2.2

    

2.4

  
    

206

1.6

    

1.5

  

 F502_18446

Clpb protein

COG0542

ClpA

138

1.8

  

1.5

 

2.8

  
    

716

2.5

  

2.4

 

4.4

  

 F502_18743

ATPase with chaperone activity clpC. two ATP-binding domain protein

COG0542

ClpA

147

2.1

 

2.1

  

2.0

 

2.0

  

ClpA

149

2.5

 

1.7

  

2.4

 

1.6

Signal transduction/stress response/defense mechanism

        

 F502_04082

GTP-binding protein

COG1217

TypA

47

    

1.7

 

1.8

 
    

148

 

1.7

  

2.4

 

2.1

 

 F502_07703

Chemotaxis histidine kinase. CheA (contains CheW-like adaptor domain)

COG0643

CheA

155

3.6

 

2.2

   

1.6

 

 F502_10768

Lipid hydroperoxide peroxidase

COG2077

Tpx

572

3.9

 

2.2

  

2.5

  

 F502_13258

CBS domain-containing protein

COG0517

CBS

606

4.5

 

4.8

  

1.7

 

1.9

 F502_14770

Serine protein kinase

COG2766

PrkA

193

4.7

 

1.5

  

3.4

  
    

197

3.7

 

2.6

  

2.1

  
    

200

6.2

 

1.9

  

3.6

  
    

201

3.8

    

2.6

  

 F502_16565

Nitrogen regulatory protein

P-II

COG0347

GlnK

638

3.1

 

1.8

     

 F502_17612

Alkyl hydroperoxide reductase

COG0450

AhpC

567

5.3

 

2.9

  

2.4

  

 F502_17637

Spore coat protein

COG3546

CotJC

548

2.3

 

3.9

    

2.1

 F502_18092

Stage V sporulation protein T

COG2002

AbrB

544

6.1

 

4.5

  

1.7

  

Transcription/Defense mechanisms

        

 F502_12326

Transcription accessory protein

COG2183

Tex

160

 

1.7

1.8

 

4.7

 

1.5

 

Translation/Ribosomal structure and biogenesis

        

 F502_04537

30S ribosomal protein S2

COG0052

RpsB

497

 

2.1

 

2.1

2.7

 

2.7

 
    

500

 

2.4

 

1.9

    

 F502_06817

Ribosomal 5S rRNA E-loop binding protein Ctc/L25/TL5

COG1825

RplY

504

3.5

    

3.9

  

 F502_12196

Ribosome-associated protein Y (PSrp-1)

COG1544

RaiA

565

2.4

    

2.4

  

 F502_18808

Elongation factor Tu

COG0050

TufB

327

 

1.7

 

1.5

1.5

 

1.4

 

 F502_18833

50S ribosomal protein L1

COG0081

RplA

681

 

2.4

 

1.5

2.0

   

 F502_18948

50S ribosomal protein L5

COG0094

RplE

752

 

2.1

  

1.8

   

 F502_18963

50S ribosomal protein L6

COG0097

RplF

753

 

2.4

  

2.3

   
  1. *1 COG: according to the annotation for C. pasteurianum DSMZ 525 by BioCyc database collection (http://www.biocyc.org/organism-summary?object=CPAS1262449)
  2. *2 Conserved Protein Domain Family: according to the definition by NCBI Conserved Domains and Protein Classification (http://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml)
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