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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.