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Table 1 Identified proteins of Rhizobium tropici PRF 81 whole cell extracts up-regulated after growth at high temperature (35°C)

From: Proteomic profiling of Rhizobium tropiciPRF 81: identification of conserved and specific responses to heat stress

Spot ID

NCBI ID

Gene

Protein description

Organism (best match)

T/E1 pI

T/E1 mass (Da)

Fold change ratio2

p-value

Cellular location

Metabolism

C - Energy production and conversion

1

gi|46909738

icd

Isocitrate dehydrogenase

Rhizobium leguminosarum

5.9/5.96

45320/49000

↑1.00

-

Cytoplasmic

2

gi|222087461

sucC

Succinyl-coa synthetase beta subunit protein

Agrobacterium radiobacter

4.98/4.96

42028/46000

3.27 ± 0.12

0.001

Cytoplasmic

3

gi|86359524

acnA

Aconitate hydratase

Rhizobium etli

5.48/5.69

97180/98000

1.65 ± 0.06

0.001

Cytoplasmic

4

gi|116254139

atpD

F0F1 ATP synthase subunit beta

Rhizobium leguminosarum

5.03/4.88

50885/56000

2.68 ± 0.03

0.001

Cytoplasmic

E- Amino acid transport and metabolism

5

gi|1245379

glnA

Glutamine synthetase I

Sinorhizobium meliloti

5.2/5.33

52287/61000

2.92 ± 0.08

0.001

Cytoplasmic

6

gi|15887731

argB

Acetylglutamate kinase

Agrobacterium tumefaciens

5.16/5.41

31083/30000

2.19 ± 0.09

0.001

Cytoplasmic

7

gi|89258357

 

Putative periplasmic substrate binding protein

Ochrobactrum anthropi

5.84/5.78

28188/24000

↑1.00

-

Periplasmic

8

gi|222109054

nocP

Opine permease ATP-binding protein

Agrobacterium radiobacter

6.98/5.22

28288/20000

↑1.00

-

Inner Membrane

9

gi|222087066

pepF

Oligoendopeptidase F protein

Agrobacterium radiobacter

5.32/5.33

68989/76000

↑1.00

-

Cytoplasmic

10

gi|222087908

asd

Aspartate-B-semialdehyde dehydrogenase protein

Agrobacterium radiobacter

5.46/5.59

37925/45000

1.38 ± 0.043

0.001

Cytoplasmic

11

gi|222084786

argD

Diaminobutyrate--pyruvate aminotransferase protein

Agrobacterium radiobacter

5.63/6.35

42909/43000

↑1.00

-

Cytoplasmic

12

gi|114765810

ilvE

Branched-chain amino acid aminotransferase

Pelagibaca bermudensis

5.31/5.68

32142/35000

↑1.00

-

Cytoplasmic

F- Nucleotide transport and metabolism

13

gi|86146888

pyrH

Uridylate Kinase

Vibrio sp.

5.08/5.82

26284/33000

1.38 ± 0.13

0.008

Cytoplasmic

G - Carbohydrate transport and metabolism

14

gi|222085874

eno

Phosphopyruvate hydratase

Agrobacterium radiobacter

4.84/4.95

45120/53000

2.88 ± 0.37

0.005

Cytoplasmic

15

gi|282887091

 

Alpha amylase catalytic region

Burkholderia sp.

6.26/5.03

64245/34000

↑1.00

0.001

Cytoplasmic

16

gi|241206422

 

Transaldolase

Rhizobium leguminosarum

5.32/6.12

35091/29000

↑1.00

-

Cytoplasmic

17

gi|11493200

pgm

Phosphoglucomutase

Rhizobium tropici

5.16/5.38

58641/72000

↑1.00

-

Cytoplasmic

18

gi|222084905

aglA

Alpha-glucosidase protein

Agrobacterium radiobacter

4.84/4.86

62592/65000

↑1.00

-

Cytoplasmic

H - Coenzyme transport and metabolism

19

gi|222086485

 

ABC transporter

Agrobacterium radiobacter

5.23/5.21

38975/42000

1.70 ± 0.09

0.001

Periplasmic

20

gi|296105270

 

Biotin protein ligase

Enterobacter cloacae

5.23/5.42

35255/28000

3.98 ± 0.24

0.001

Cytoplasmic

I - Lipid transport and metabolism

21

gi|299768808

 

Acyl-coa dehydrogenase

Agrobacterium tumefaciens

5.37/4.66

65994/40000

↑1.00

-

Cytoplasmic

22

gi|282888281

 

3-Oxoacyl-(acyl-carrier-protein (ACP)) synthase III domain protein

Burkholderia sp.

6.27/5.74

38552/35000

↑1.00

-

Cytoplasmic

23

gi|159186213

pcaF

Beta-ketoadipyl coa thiolase

Agrobacterium tumefaciens

5.51/6.37

41850/46000

2.95 ± 0.07

0.001

Cytoplasmic

P - Inorganic ion transport and metabolism

24

gi|222087891

bfr

Bacterioferritin

Agrobacterium radiobacter

4.81/4.94

16860/19000

2.27 ± 0.07

0.001

Cytoplasmic

25

gi|87199081

 

Tonb-dependent receptor

Novosphingobium aromaticivorans

5.82/5.01

87810/75000

↑1.00

-

Extra Cellular

Cellular processes and signaling

D - Cell cycle control, cell division, chromosome partitioning

26

gi|222086436

ftsZ2

Cell division protein

Agrobacterium radiobacter

5.21/5.39

63014/81000

2.42 ± 0.26

0.003

Cytoplasmic

27

gi|50121473

kicB

Condesin subunit F

Pectobacterium atrosepticum

4.7/4.78

50717/57000

↑1.00

-

Cytoplasmic

T - Signal transduction mechanisms

28

gi|117926246

 

Protein tyrosine phosphatase

Magnetococcus sp

6.29/5.28

18731/19000

↑1.00

-

Cytoplasmic

29

gi|222087232

prkA

Serine protein kinase protein

Agrobacterium radiobacter

5.42/5.69

74417/84000

2.41 ± 0.19

0.001

Cytoplasmic

30

gi|116252038

ntrX

Putative two component response regulator Nitrogen assimilation regulatory protein

Rhizobium leguminosarum

9.15/5.66

30427/34000

↑1.00

-

Cytoplasmic

31

gi|159184131

chvI

Two component response regulator

Agrobacterium tumefaciens

5.56/5.85

27253/30000

1.35 ± 0.10

0.003

Cytoplasmic

O - Posttranslational modification, protein turnover, chaperones

32

gi|222087564

trxA

Thioredoxin

Agrobacterium radiobacter

4.83/4.85

34469/39000

↑1.00

-

Cytoplasmic

33

gi|118590060

bcp

Bacterioferritin comigratory protein

Stappia aggregata

5.63/5.37

16749/22000

3.40 ± 0.26

0.001

Cytoplasmic

34

gi|58826564

dnaK

Dnak

Rhizobium tropici

4.91/5.37

68393/74000

↑1.00

-

Cytoplasmic

35

gi|222085003

groEL

Chaperonin GroEL

Agrobacterium radiobacter

5.03/5.11

57836/69000

1.36 ± 0.19

0.012

Cytoplasmic

M - Cell wall/membrane/envelope biogenesis

36

gi|86359655

 

Putative metalloendopeptidase protein

Rhizobium etli

5.36/4.89

49514/29000

1.31 ± 0.22

0.02

Periplasmic

37

gi|222085864

omp1

Outer membrane lipoprotein

Agrobacterium radiobacter

5.26/5.66

84589/90000

↑1.00

-

Extra Cellular

N - Cell motility

38

gi|18033179

virD4

VirD4

Agrobacterium tumefaciens

6.82/5.24

73380/69000

1.21 ± 0.16

0.024

Cytoplasmic

Information storage and processing

J - Translation, ribosomal structure and biogenesis

39

gi|222085858

tsf

Translation elongation factor Ts

Agrobacterium radiobacter

5.15/5.14

32268/40000

1.86 ± 0.02

0.001

Cytoplasmic

40

gi|227821753

fusA

Elongation factor G

Rhizobium sp.

5.17/5.3

77966/89000

1.98 ± 0.13

0.001

Cytoplasmic

41

gi|86355771

pnp

Polynucleotide phosphorylase/polyadenylase

Rhizobium etli

5.2/5.19

77491/89000

2.23 ± 0.09

0.001

Cytoplasmic

42

gi|294624706

infB

Translation initiation factor IF-2

Xanthomonas fuscans

5.89/5.79

83626/75000

1.29 ± 0.09

0.003

Cytoplasmic

43

gi|218672404

tufB1

Elongation factor EF-Tu protein

Rhizobium etli

4.87/5.31

31884/48000

3.40 ± 0.31

0.0024

Cytoplasmic

K – Transcription

44

gi|89056301

 

LysR family transcriptional regulator

Jannaschia sp.

5.574.48

32077/28000

↑1.00

-

Cytoplasmic

45

gi|159184760

 

AraC family transcriptional regulator

Agrobacterium tumefaciens

7.11/5.74

27498/25000

↑1.00

-

Cytoplasmic

46

gi|222081230

 

Transcriptional regulator protein

Agrobacterium radiobacter

6.38/5.6

98220/98000

4.71 ± 0.09

0.001

Cytoplasmic

47

gi|190895600

 

Probable transcriptional

Rhizobium etli

6.91/5.42

42937/85000

↑1.00

-

Cytoplasmic

48

gi|222106418

 

Transcriptional regulator GntR family

Agrobacterium vitis

5.82/5.78

26366/49000

↑1.00

-

Cytoplasmic

49

gi|222106466

 

Transcriptional regulator ROK family

Agrobacterium vitis

7.03/5.14

41156/42000

↑1.00

-

Cytoplasmic

50

gi|222082875

 

Transcriptional regulator, MarR family

Agrobacterium radiobacter

5.46/5.57

18141/20000

↑1.00

-

Cytoplasmic

L - Replication, recombination and repair

51

gi|222084927

 

ATP-dependent RNA helicase protein

Agrobacterium radiobacter

9.17/5.36

69955/67000

2.29 ± 0.14

0.001

Cytoplasmic

Poorly characterized

R - General function prediction only

52

gi|222086102

sufC

FeS assembly ATPase SufC

Agrobacterium radiobacter

5.08/4.95

27375/32000

↑1.00

-

Inner Membrane

53

gi|222082138

cpo

Chloride peroxidase protein

Agrobacterium radiobacter

7.88/6.37

34965/32000

1.59 ± 0.02

0.001

Periplasmic

54

gi|186472508

wrbA

Flavoprotein WrbA

Burkholderia phymatum

6.19/5.91

20930/26000

2.58 ± 0.14

0.001

Cytoplasmic

55

gi|170699364

 

NADPH-dependent FMN reductase

Burkholderia ambifaria

6.71/6.31

8539/17000

2.03 ± 0.19

0.002

Periplasmic

56

gi|194431754

dkgA

2,5-diketo-D-gluconic acid reductase A

Shigella dysenteriae

6.22/5.15

19399/23000

1.34 ± 0.21

0.002

Cytoplasmic

57

gi|222085370

 

Ferredoxin reductase protein

Agrobacterium radiobacter

5.88/5.65

43777/53000

1.48 ± 0.12

0.003

Cytoplasmic

S - Function Unknown

58

gi|222149801

 

Hypothetical protein Avi_3814

Agrobacterium vitis

5.03/5.01

24632/29000

1.42 ± 0.34

0.033

Periplasmic

NO related COG

59

gi|209547526

 

Hypothetical protein Rleg2_5527

Rhizobium leguminosarum

6.02/5.89

33584/44000

1.57 ± 0.13

0.002

Cytoplasmic

  1. 1Theoretical/Experimental values. Da: Daltons.
  2. 2↑1.00 in the fold change ratio means that the protein was only identified in the experimental condition (35°C).
  3. Matched peptides masses and MS/MS combined results are available in PRIDE (http://ebi.ac.uk/pride/) under the experiment accession number 14817.