Table 1 |
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|
Abundance differences of Y. pestis proteins profiled in periplasmic fractions of iron-rich vs. iron-starved cells |
||||||||||||||
|
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) |
|
|
|
||||||||||||||
|
53 |
y0028 |
malE |
periplasmic maltose-binding protein |
PP |
2150 |
43937 |
5.53 |
0.72 |
5.98 |
0.121 |
0.000 |
0.760 |
||
|
54 |
y0137 |
degQ |
serine endoprotease |
PP |
1077 |
55588 |
6.43 |
0.39 |
0.11 |
2.41 |
0.0177 |
0.900 |
||
|
55 |
y0291 |
- |
putative tospovirus resistance protein D |
U |
486 |
18721 |
5.44 |
2.05 |
0.47 |
4.320 |
0.000 |
N.D. |
||
|
56 |
y0541 |
hmuT |
hemin-binding periplasmic protein |
PP |
Fur |
228 |
27164 |
5.85 |
0.46 |
0.11 |
4.328 |
0.000 |
> 20 |
|
|
57 |
y0542 |
hmuS |
hemin uptake system component |
U |
Fur |
989 |
38188 |
5.56 |
0.53 |
0.19 |
2.780 |
0.000 |
2.091 |
|
|
58 |
y0869 |
cybC |
cytochrome b(562) |
PP |
Fur |
626 |
5035 |
5.64 |
0.13 |
0.03 |
4.746 |
N.D. |
3.160 |
|
|
59 |
y0964 |
frsA |
fermentation/respiration switch protein |
U |
586 |
51326 |
5.98 |
0.15 |
0.07 |
2.208 |
0.000 |
1.875 |
||
|
60 |
y1128 |
bglX |
putative beta-glucosidase |
PP |
2324 |
81506 |
5.43 |
3.01 |
0.52 |
5.822 |
0.000 |
1.740 |
||
|
61 |
y1189 |
gltI |
solute-binding periplasmic protein of glutamate/aspartate ABC transporter |
PP |
2512 |
35927 |
7.20 |
0.41 |
2.91 |
0.141 |
0.005 |
N.D. |
||
|
62 |
y1223 |
nrdE |
ribonucleoside-diphosphate reductase 2, alpha subunit |
U |
Fur |
198 |
79914 |
6.32 |
0.03 |
- |
> 20 |
N.D. |
N.D. |
|
|
63 |
y1222 |
nrdF |
ribonucleoside-diphosphate reductase 2, beta chain |
U |
Fur |
561 |
39335 |
5.11 |
0.77 |
- |
> 20 |
N.D. |
> 20 |
|
|
64 |
y1430 |
- |
putative putative periplasmic iron-binding signal peptide protein |
U |
3359 |
41211 |
6.09 |
- |
0.57 |
< 0.05 |
N.D. |
< 0.05 |
||
|
65 |
y1526 |
yfuA |
putative solute-binding protein for iron ABC transporter |
PP |
Fur |
1979 |
39620 |
6.65 |
2.36 |
1.46 |
1.618 |
0.061 |
N.D. |
|
|
66 |
y1607 |
hisJ |
histidine-binding periplasmic protein of high-affinity histidine transport system |
PP |
1494 |
31529 |
5.01 |
0.29 |
0.93 |
0.309 |
0.000 |
0.350 |
||
|
67 |
y1744 |
- |
hypothetical protein y1744 |
CY |
324 |
5183 |
5.92 |
0.38 |
- |
> 20 |
N.D. |
4.510 |
||
|
68 |
y1897 |
yfeA |
periplasmic-binding protein for iron and manganese ABC transporter |
CM |
Fur |
1201 |
31395 |
5.80 |
2.87 |
0.63 |
4.576 |
0.000 |
4.780 |
|
|
69 |
y1936 |
sufC |
iron-sulfur cluster assembly protein SufC, ATPase component |
ML |
Fur |
726 |
28460 |
5.10 |
0.16 |
0.02 |
7.514 |
0.000 |
> 20 |
|
|
70 |
y1937 |
sufD |
cysteine desulfurase activator complex subunit SufD |
U |
Fur |
369 |
60476 |
6.76 |
0.06 |
- |
> 20 |
N.D. |
N.D. |
|
|
71 |
y2358 |
hmsF |
hemin storage system, HmsF protein |
U |
542 |
61790 |
5.47 |
0.40 |
0.12 |
3.467 |
0.000 |
1.480 |
||
|
72 |
y2368 |
- |
putative ferrous iron transport protein |
U |
532 |
13556 |
5.29 |
1.71 |
1.64 |
1.030 |
0.390 |
2.330 |
||
|
73 |
y2394 |
ybtS |
anthranilate synthase |
CY |
Fur |
1323 |
50265 |
5.82 |
1.65 |
0.36 |
4.538 |
0.000 |
> 20 |
|
|
74 |
y2401 |
ybtU |
thiazolinyl-S-HMWP1 reductase of Ybt system |
U |
Fur |
351 |
48765 |
6.63 |
0.33 |
0.11 |
3.057 |
0.006 |
N.D. |
|
|
76 |
y2403 |
ybtE |
salicyl-AMP ligase |
CY |
Fur |
1205 |
58276 |
5.43 |
2.04 |
0.31 |
6.660 |
0.000 |
7.060 |
|
|
77 |
y2451 |
efeO |
putative ferrous iron transport protein |
U |
998 |
38614 |
4.96 |
1.71 |
0.90 |
1.896 |
0.000 |
1.274 |
||
|
78 |
y2638 |
ysuG |
siderophore biosynthetic protein of the Ysu system |
U |
Fur |
182 |
77918 |
5.36 |
0.06 |
- |
> 20 |
N.D. |
N.D. |
|
|
79 |
y2662 |
mglB |
periplasmic D-galactose-binding ABC transport protein |
PP |
1440 |
33113 |
5.40 |
0.51 |
1.53 |
0.330 |
0.000 |
0.251 |
||
|
80 |
y2828 |
pheA |
putative chorismate mutase |
PP |
630 |
14433 |
5.88 |
0.86 |
0.05 |
19.293 |
0.000 |
2.817 |
||
|
81 |
y2842 |
- |
putative periplasmic binding protein of iron/siderophore ABC transporter |
U |
1096 |
51189 |
5.97 |
0.62 |
1.87 |
0.332 |
0.000 |
0.501 |
||
|
82 |
y2875 |
yiuA |
solute-binding periplasmic protein of iron/siderophore ABC transporter |
U |
Fur |
1690 |
46030 |
6.69 |
0.73 |
0.37 |
1.957 |
0.002 |
N.D. |
|
|
83 |
y3037 |
modA |
molybdate-binding periplasmic protein of molybdate ABC transporter |
PP |
2136 |
27031 |
5.55 |
0.17 |
0.72 |
0.234 |
0.000 |
2.089 |
||
|
84 |
y0815 |
sodC |
periplasmic superoxide dismutase (Cu-Zn) |
PP |
695 |
16562 |
7.54 |
0.55 |
0.63 |
0.89 |
0.4490 |
N.D. |
||
|
85 |
y3165 |
ptr |
protease III |
PP |
1794 |
96878 |
5.60 |
2.71 |
1.86 |
1.454 |
0.001 |
1.032 |
||
|
86 |
y3676 |
- |
putative type VI secretion system protein |
CY |
375 |
50035 |
4.81 |
0.29 |
- |
> 20 |
N.D. |
N.D. |
||
|
87 |
y3772 |
lsrB |
putative periplasmic autoinducer II-binding protein |
U |
917 |
36377 |
6.30 |
0.31 |
1.96 |
0.159 |
0.000 |
N.D. |
||
|
88 |
y3812 |
dsbA |
protein disulfide isomerase I |
PP |
1587 |
22454 |
5.91 |
2.57 |
1.18 |
2.176 |
0.000 |
0.910 |
||
|
89 |
y3825 |
dppA |
periplasmic dipeptide transport protein of ABC transporter |
PP |
1253 |
54903 |
5.52 |
0.68 |
2.46 |
0.277 |
0.000 |
0.696 |
||
|
90 |
y3837 |
yhjJ |
predicted zinc-dependent peptidase |
U |
1215 |
62177 |
5.10 |
0.44 |
0.17 |
2.613 |
0.000 |
0.720 |
||
|
91 |
y3956 |
crp |
cAMP-regulatory protein |
CY |
220 |
26494 |
7.82 |
0.06 |
- |
> 20 |
N.D. |
N.D. |
||
|
92 |
y3977 |
fkpA |
FKBP-type peptidyl-prolyl cis-trans isomerase |
PP |
2031 |
33670 |
6.94 |
5.50 |
3.45 |
1.594 |
0.007 |
N.D. |
||
|
93 |
y4125 |
- |
putative solute-binding periplasmic protein precursor for ABC transporter |
PP |
2766 |
30250 |
6.27 |
6.09 |
3.67 |
1.661 |
0.001 |
2.264 |
||
|
|
||||||||||||||
|
a) spot number as denoted in Figures 1 and 2; 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 webcite, if >65 pct. sequence identity; d) subcellular localization based on PSORTb data: CY, cytoplasm; ML: multiple localizations; CM: inner membrane; PP, periplasm; 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 Figures 1-2; 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. exp.pI/Mr = experimental pI and Mr values. |
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|
Pieper et al. BMC Microbiology 2010 10:30 doi:10.1186/1471-2180-10-30 |
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