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Table 2 Abundance differences of Y. pestis proteins profiled in membrane fractions of iron-rich vs. iron-starved cells

From: Proteomic analysis of iron acquisition, metabolic and regulatory responses of Yersinia pestis to iron starvation

Spot No

a)

Gene locus

b)

gene name

c)

Protein description c)

Subc. Loc.

d)

Fur/RyhB e)

Mascot Score f)

exp Mr (Da)

exp pI

26°C, Vs (-Fe) g)

26°C, Vs(+Fe) h)

26-ratio -Fe/+Fe i)

26°C P-value j)

37-ratio -Fe/+Fe k)

94

y0032

lamB

Maltoporin

OM

 

331

48645

[4.95 - 5.09]

0.76

1.49

0.516

0.000

1.27

95

y0543

hmuR

hemin outer membrane receptor

OM

Fur

1064

76570

5.05

0.25

0.10

2.600

0.000

4.665

96

y0850

-

putative iron/chelate outer membrane receptor

OM

Fur

57

70302

[5.5 - 6.0]

1.54

0.22

6.978

0.000

2.430

97

y1355

-

hypothetical inner membrane protein y1355

U

 

53

22715

5.59

0.32

0.57

0.560

0.000

0.820

98

y1577

fadL

long-chain fatty acid transport protein (OM receptor)

OM

 

1008

51392

[4.77 - 4.87]

0.37

0.81

0.460

0.000

0.370

99

y1632

nuoC

NADH dehydrogenase I chain C, D

CY

 

654

68079

[5.79 - 5.9]

0.07

0.18

0.367

0.000

0.578

100

y1682

ompX

outer membrane protein X

OM

 

389

18271

5.31

5.65

3.08

1.859

0.000

0.557

101

y1919

arnA

bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase

U

 

346

72392

[5.86 - 5.92]

0.76

0.20

3.748

0.000

> 20

102

y2404

psn

pesticin/yersiniabactin outer membrane receptor

OM

Fur

148

67582

[5.20 - 5.45]

6.80

1.46

4.862

0.000

2.656

103

y2556

fcuA

ferrichrome receptor, TonB dependent

OM

Fur

801

76097

[5.64 - 5.94]

0.20

0.18

1.070

0.710

0.860

104

y2633

ysuR

outer membrane iron/siderophore receptor

OM

Fur

202

73135

6.30

0.11

0.04

2.790

0.001

N.D.

105

y2735

ompA

outer membrane porin A, N-t. fragment

OM

 

686

34018

[5.52 - 5.75]

5.05

0.70

7.245

0.000

3.390

106

y2872

yiuR

putative iron/siderophore outer membrane receptor

OM

Fur

133

67256

5.55

0.65

0.29

2.260

0.000

N.D.

107

y2966

ompC

outer membrane porin protein C

OM

 

1110

43707

[4.78 - 4.88]

2.18

1.45

1.500

0.010

0.487

108

y2980

yfaZ

hypothetical protein y2980

CM

 

96

20054

5.48

0.30

0.66

0.459

0.000

0.202

109

y2983

phoE

putative outer membrane porin

OM

 

65

41703

[4.94 - 5.22]

-

14.60

< 0.05

N.D.

< 0.05

110

y3674

-

putative type VI secretion system protein

U

 

350

63614

[5.52 - 5.58]

0.72

0.44

1.620

0.002

N.D.

  1. a) spot number as denoted in Figure 3; b) protein accession number and locus tag as listed in Y. pestis KIM genome database (NCBI); c) gene name and protein description from the KIM database or a conserved E. coli K12 ortholog http://www.ecocyc.org, if >65 pct. sequence identity; d) subcellular localization based on PSORTb data: CY, cytoplasm; CM: inner membrane; OM: outer membrane; U: unknown; e) proven or putative regulation by Fur or a Fur-dependent small RNA (e.g. RyhB); f) highest Mascot score for a protein from LC-MS/MS or MALDI data; g) Vs (-Fe): average spot volume (n ≥ 3) in 2D gels for iron-depleted growth conditions at 26°C as shown in Figure 3; h) Vs (+Fe): average spot volume (n ≥ 3) in 2D gels for iron-supplemented growth conditions at 26°C; i) spot volume ratio (-Fe/+Fe) at 26°C, N.D.: not determined; -: no spot detected; j) two-tailed t-test p-value for spot abundance change at 26°C, 0.000 stands for < 0.001; k) average spot volume ratio (-Fe/+Fe) at 37°C; additional data for the statistical spot analysis at 37°C are part of Additional Table 1. Experimental pI values span a pH range because proteins were visualized as spot trains.