Table 1.
Identification of the down-regulated proteins by GacS from Pseudomonas chlororaphis O6
| Spot number | Observed migrationa
|
Identified protein
|
Fold change
|
|||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Mr (kDa) | pI | Proteinb | Ion Score or Matching sequenced | Mr (kDa) | pI | Meanc | SEc | p-valued | ||
| 5727R | 81 | 6.12 | Catalase/peroxidase I, KatG (P. fluorescens Pf0-1 YP347933) | FLANPDQLADAFAR(84) FAPLNSWPDNVSLDK(51) DWWPNQLNLK(19) |
83 | 5.30 | >−100 | 0.001 | ||
| 8606R | 62 | 7.64 | Tryptophan halogenase, PrnA (P. chlororaphis ACN AAD46360) | IGVGEATIPSLQK(76) TSLPTNYDYLR(39) DQATADFLNLWGLSDNQPLNQIK(55) |
61 | 5.80 | >−100 | 0.001 | ||
| 4022R | 21 | 5.77 | Single-strand DNA-binding protein, Ssb (P. putida pWWO NP542825) | VAEIAGEYLR(28) VILVGTCGQDPEVR(53) |
21 | 6.13 | >−100 | 0.002 | ||
| 1511R | 50 | 4.99 | Serine protease, PspB (P. brassicaceaum AF286062) | VNLDYDGLLGSR SFSDVGLTPNQR |
107 | 5.19 | >−100 | 0.018 | ||
| 0313R | 37 | 4.59 | Recombination associated protein, RdgC (P. fluorescens Pf-5 AAY93657) | LTQDLPFDAEALET | 34 | 4.93 | >−100 | 0.029 | ||
| 3402R | 40 | 5.30 | Pilus assembly protein, CpaC (P. fluorescens Pf0-1 ABA723932) | LTLTPTLVGNDR | 44 | 8.46 | >−100 | 0.011 | ||
| 0025R | 21 | 4.71 | Outer membrane protein, OprF (P. chlrororaphis AAD24553) | QVLTSQYGVESSR(59) VQSVGYGESRPVADNATEAGR(36) VAPAPAPVPEPTPEPEAPVAEVVR(48) QYPQTTTVVEGHTDSVGPDAYNQK (36) |
34 | 5.59 | −56.6 | 3.65 | 0.012 | |
| 3015R | 17 | 5.44 | Peptidoglycan-binding LysM, LysM (P. fluorescens PfO-1 ABA72026) | LLDLLTPGNANASEQLK(52) | 15 | 5.25 | −4.2 | 0.60 | 0.020 | |
| 2608R | 56 | 5.10 | Anthranilate/para-aminobenzoate synthases component I, TrpE (P. fluorescens Pf0-1 YP 350846) | LADQPNSYLLESVQGGEK(56) EYILAGDCMQVVPSQR (20) |
55 | 5.02 | −2.7 | 0.61 | 0.028 | |
| 2210R | 30. | 5.11 | Glucose 1-phosphate thymidylate transferase, RmlA (P. stutzeri CAC44166) | GFAWLDTGTHDSLLEASQYVQTIEHR (80) | 28 | 4.83 | −2.6 | 0.17 | 0.004 | |
| 0107R | 25 | 4.41 | Isoprenoid biosynthesis protein, GATase1_ES1, ElbP (P. protegens Pf-5 YP263046) | LTQDLPFDAEALET(57) | 23 | 5.28 | −2.6 | 0.17 | 0.011 | |
| 3011R | 21 | 5.38 | Glutathione peroxidase, Gpx (P. fluorescens Pf-5 YP258072) | LLAGEGAEFPGDITWNFEK(80) | 18 | 5.35 | −2.3 | 0.3 | 0.017 | |
The Mr and pI values were estimated from 2-dimensional gels obtained in three independent experiments. Ions score is −10*Log(P), where P is the probability that the observed match is a random event. Individual ions scores > 49 indicate identity or extensive homology (p<0.05). Protein scores are derived from ions scores as a non-probabilistic basis for ranking protein hits. Amino acid sequences without ion scores were determined by Q-TOF analysis.
Annotation from NCBI databases using the MASCOT search program (www.matrixscience.com).
The mean and standard error (SE) of fold change of the selected spot was calculated by comparing spot intensities between wild type and gacS mutant of three independent gels using quantitative image analysis (PDQest 2-D analysis Software).
Student’s t-test.