Table 1.
Quantification of proteins that are present in larger amountsa in the secretome of the M. smegmatis Δlgt mutant than in the parental strain
| Protein group and name | Function or description | Δlgt/wild-type ratio at: |
|||
|---|---|---|---|---|---|
| t0-1 | t0-2 | t1-1 | t1-2 | ||
| Transport and solute binding | |||||
| MSMEG_3247d | Branched-chain amino acid ABC transporter substrate-binding protein | 4.74 | 7.57 | 4.68 | 4.51 |
| MSMEG_3280 Lipc | Polyamine-binding lipoprotein | 9.93 | 10.64 | 9.15 | 12.00 |
| MSMEG_3598 Lip | Periplasmic sugar-binding proteins | 7.06 | 8.68 | 7.14 | 6.21 |
| MSMEG_3235 Lip | ABC-type amino acid transport system, secreted component | 3.87 | 6.90 | 4.91 | 6.31 |
| MSMEG_2727 Lip | Glutamate-binding protein | 5.68 | 4.80 | 2.53 | 6.06 |
| MSMEG_6804 Lip | Sugar ABC transporter substrate-binding protein | 5.85 | 6.78 | 5.02 | 6.31 |
| MSMEG_1704 Lip | ABC transporter | 5.27 | 5.71 | 5.12 | 7.23 |
| MSMEG_3636 Lip | Ferric iron-binding periplasmic protein of ABC transporter | 9.51 | 7.45 | 5.57 | 5.13 |
| MSMEG_0643 Lip | Extracellular solute-binding protein, family protein 5, putative | 4.29 | 5.56 | 3.66 | 3.50 |
| MSMEG_6524 SPb | ABC polyamine/opine/phosphonate transporter, periplasmic ligand binding protein | 3.17 | 1.84 | 5.80 | 4.35 |
| MSMEG_6047 Lip | Cation ABC transporter, periplasmic cation-binding protein, putative | 5.10 | 4.62 | 3.18 | 2.51 |
| PstS (MSMEG_5782) Lip | Periplasmic phosphate-binding protein | 4.68 | 3.88 | 5.53 | 4.21 |
| EhuB (MSMEG_5368) Lip | Ectoine/hydroxyectoine ABC transporter solute-binding protein | 3.88 | 3.25 | 2.36 | 3.46 |
| MSMEG_4533 Lip | Sulfate-binding protein | 2.21 | 2.93 | 0.72 | 1.74 |
| MSMEG_1712 Lip | ABC transporter periplasmic-binding protein YtfQ | 4.85 | 4.90 | 3.62 | 3.26 |
| MSMEG_5574 Lip | Substrate-binding protein | 3.06 | 4.44 | 3.38 | 6.85 |
| MSMEG_4999 Lip | Bacterial extracellular solute-binding protein, family protein 5 | 1.06 | 1.24 | 3.95 | 4.21 |
| Protein fate: folding, stabilization and degradation | |||||
| MSMEG_3070 Lip | LprG protein | 4.31 | 2.88 | 2.20 | 1.06 |
| MSMEG_3903 SP | Low-molecular-wt antigen MTB12 | 5.67 | 1.98 | 6.11 | 3.10 |
| tig (MSMEG_4674) | TF | 1.09 | 1.30 | 0.88 | 0.91 |
| tig-2 (MSMEG_4674)e | TF | 5.35 | 3.42 | 2.62 | 2.97 |
| MSMEG_5664 | Peptidyl-prolyl cis-trans isomerase | 1.30 | 0.70 | 1.25 | 1.28 |
| MSMEG_5015 SP | Secreted protein | 2.98 | 3.46 | 2.06 | 3.04 |
| Defense mechanisms | |||||
| MSMEG_6567 SP | Iron-dependent peroxidase | 1.46 | 1.05 | 2.33 | 9.89 |
| MSMEG_2658 SP | Beta-lactamase | 1.76 | 1.47 | 1.02 | 1.18 |
| MSMEG_3811 | Universal stress protein family protein, putative | 1.79 | 1.44 | 0.68 | 0.51 |
| Energy, intermediary and fatty acid metabolism | |||||
| MSMEG_0806 | Hydrolase | 4.98 | 4.10 | 3.65 | 5.88 |
| MSMEG_0194 SP | Serine esterase, cutinase family protein | 2.64 | 2.64 | 2.39 | 4.67 |
| MSMEG_1403 SP | Cutinase superfamily protein | 1.85 | 0.94 | 0.70 | 1.38 |
| MSMEG_0361 SP | Glycosyl hydrolase family protein 3 | 1.49 | 1.47 | 1.00 | 0.40 |
| MSMEG_0645 SP | Putative beta-1,3-glucanase | 1.82 | 1.89 | 1.36 | 1.56 |
| MSMEG_3962 | Lactate 2-monooxygenase | 1.07 | 1.27 | 0.51 | 0.73 |
| MSMEG_6398 SP | Antigen 85-A | 1.69 | 1.55 | 1.45 | 1.56 |
| MSMEG_5789 | Putative thiosulfate sulfurtransferase (Rhodanese-like protein) | 2.00 | 1.52 | 1.12 | 1.59 |
| MSMEG_3580 | Antigen 85-C | 1.20 | 1.61 | 1.01 | 1.19 |
| MSMEG_5345 Lip | Glycosyl hydrolase family protein 16 | 1.29 | 2.26 | 0.89 | 1.26 |
| MSMEG_0216 | 3-Hydroxyacyl-coenzyme A dehydrogenase | 1.62 | 1.38 | 0.25 | 0.31 |
| glcB (MSMEG_3640) | Malate synthase G | 0.98 | 1.90 | 1.06 | 0.94 |
| tkt (MSMEG_3103) | Transketolase | 0.43 | 0.62 | 0.99 | 1.31 |
| Other and unknown function | |||||
| MSMEG_5617 SP | Immunogenic protein MPT63 | 2.19 | 1.78 | 0.42 | 5.55 |
| MSMEG_1051 SP | Immunogenic protein MPB64/MPT64 | 1.59 | 1.57 | 1.27 | 0.82 |
| MSMEG_3599 Lip | Sugar-binding transcriptional regulator, LacI family protein | 6.31 | 8.48 | 6.52 | 6.28 |
| MSMEG_2408 | Uncharacterized oxidoreductase MSMEG_2408 | 1.67 | 1.92 | 0.84 | 1.56 |
| MSMEG_1038 | GTP cyclohydrolase II | 1.37 | 1.10 | 0.33 | 0.78 |
| tuf (MSMEG_1401) | Elongation factor Tu (EF-Tu) | 0.56 | 0.49 | 0.14 | 5.28 |
| MSMEG_0233 SP | Lipoprotein LppS | 1.79 | 1.67 | 1.33 | 1.71 |
| MSMEG_3528 SP | ErfK/YbiS/YcfS/YnhG family protein | 6.25 | 7.05 | 6.02 | 9.87 |
| MSMEG_2381 | Putative uncharacterized protein | 4.53 | 2.34 | 3.15 | 1.45 |
| MSMEG_6078 Lip | LpqE protein | 2.31 | 4.04 | 2.22 | 0.29 |
| MSMEG_1322 SP | ErfK/YbiS/YcfS/YnhG family protein | 3.00 | 1.36 | 9.71 | 6.74 |
| MSMEG_0035 | FHA domain protein | 1.74 | 0.97 | 4.52 | 8.20 |
| MSMEG_6289 | Trypsin | 1.32 | 1.23 | 0.94 | 0.16 |
| MSMEG_0065 | Putative uncharacterized protein | 1.92 | 1.17 | 0.67 | 1.17 |
| MSMEG_4187 Lip | Putative uncharacterized protein | 1.65 | 1.79 | 4.92 | 5.70 |
a
Larger amounts indicates that mean values of duplicates of Δlgt/wt ratios are greater than 1.1 for at least one time point (t0 or t1). t0-1 and t0-2 indicate analysis of two biological replicates at t0; t1-1 and t1-2 indicate analysis of two biological replicates at t1.
b
SP, signal peptidase I cleavage site.
c
Lip, lipobox motif according to LipoP 1.0.
d
According to LipoP 1.0, MSMEG_3247 is not a lipoprotein. MSMEG_3247 was identified as a lipoprotein manually based on the lipobox motif IAGC. This gene was not included as a lipoprotein in the calculations.
e
Trigger factor (TF) was identified in two different protein spots (tig and tig-2). tig-2 is a putative processed form of tig.