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Table 1 Abundance differences of Y. pestis proteins profiled in periplasmic 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)
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
  1. 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, 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.