TABLE 2.
Proteins identified from 2D electrophoresis
| Spot no. | Protein name | Method for identification | AC Swiss Prot no. | pI/molecular mass (kDa) | Protein description | Protein level ratio (fold changea)
|
|||
|---|---|---|---|---|---|---|---|---|---|
| S2/S1 | S3/S2 | S4/S2 | S5/S2 | ||||||
| 1 | AcnB | Gel match | P36683 | 5.24/75.9 | Aconitate hydratase 2 | 0.66 | 1.5 (Δ) | 0.61 (▿) | 1.6 (Δ) |
| 2 | FusA or EF-G | Gel match | P02996 | 5.21/75.5 | Elongation factor G | 0.57 (▿) | 1.3 | 0.97 | 0.78 |
| 3 | AsnS | Gel match | P17242 | 5.64/92.8 | Asparaginyl-tRNA synthetase | 1.4 | 1.4 | 3.3 (ΔΔΔ) | 1.4 |
| 4 | AceF | Gel match | P06959 | 5.01/77.5 | Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex | 1.5 (Δ) | 1.8 (Δ) | 1.6 (Δ) | 12 (ΔΔΔ) |
| 5 | DnaK | Gel match | P04475 | 4.81/69.6 | Chaperone protein DnaK | 0.87 | 1.5 (Δ) | 1.5 (Δ) | 1.8 (Δ) |
| 6 | PtsI | Gel match | P08839 | 4.78/59.8 | Phosphoenolpyruvate-protein phosphotransferase | 1.0 | 1.0 | 0.89 | 0.85 |
| 7 | NusA | Gel match | P03003 | 4.55/61.1 | N utilization substance protein A (NusA protein) | 3.3 (ΔΔΔ) | 0.52 (▿) | 0.55 (▿) | 0.47 (▿▿) |
| 8 | MopA or GroEL | Gel match | P06139 | 4.85/56.7 | 60-kDa chaperonin (GroEL protein) | 1.1 | 1.5 (Δ) | 1.6 (Δ) | 1.9 (Δ) |
| 9 | Tig | Gel match | P22257 | 4.83/51.0 | Trigger factor | ||||
| 10 | HtpG | Gel match | P10413 | 5.06/65.6 | Chaperone protein HtpG (heat shock protein HtpG) | 0.83 | 1.1 | 1.5 (Δ) | 1.8 (Δ) |
| 11 | AtpD | Gel match | P00824 | 4.90/47.7 | ATP synthase beta chain | 0.68 | 1.5 (Δ) | 1.0 | 0.86 |
| 12 | Icd or IcdA | Gel match | P08200 | 5.02/46.0 | Isocitrate dehydrogenase | 0.96 | 0.94 | 1.1 | 1.0 |
| 13 | GlnA | Gel match | P06711 | 5.25/53.8 | Glutamine synthetase | 0.88 | 0.94 | 1.0 | 0.99 |
| 14 | IlvC | Gel match | P05793 | 5.26/52.0 | Ketol-acid reductoisomerase | 0.91 | 0.69 | 0.89 | 0.71 |
| 15 | GlpK | Gel match | P08859 | 5.30/50.6 | Glycerol kinase (glycerokinase) | 1.0 | 1.1 | 0.95 | 0.58 |
| 16 | Eno | Gel match | P08324 | 5.34/46.5, 5.29/46.2 | Enolase (2-phosphoglycerate dehydratase) | ||||
| 17 | TufA or EF-Tu | Gel match | P02990 | 5.32/44.6 | Elongation factor Tu | 0.60 (▿) | 0.29 (▿▿▿) | 0.95 | 1.2 |
| 18 | FabD or TfpA | Gel match | P25715 | 5.37/44.8 | Malonyl coenzyme A-acyl carrier protein transacylase | 1.3 | 0.90 | 1.4 | 1.0 |
| 19 | LeuC | Gel match | P30127 | 5.42/44.4, 5.95/51.6 | 3-Isopropylmalate dehydratase large subunit | 1.2 | 0.60 (▿) | 0.80 | 0.59 (▿) |
| 20 | SdhA | Gel match | P10444 | 5.74/63.7 | Succinate dehydrogenase flavoprotein subunit | 0.7 | 1.9 (Δ) | 1.63 (Δ) | 1.6 (Δ) |
| 21 | OppA | Gel match | P23843 | 5.93/56.1 | Periplasmic oligopeptide-binding protein | 1.0 | 0.37 (▿▿) | 1.0 | 0.96 |
| 22 | TrpD | Gel match | P00904 | 6.08/55.9 | Anthranilate synthase component II; anthranilate | 1.0 | 0.37 (▿▿) | 0.71 | 1.1 |
| 23 | GuaB or GuaR | Gel match | P06981 | 6.01/55.0 | Inosine-5′-monophosphate dehydrogenase | 1.2 | 1.2 | 1.2 | 1.3 |
| 24 | AtpA | Gel match | P00822 | 5.84/53.1 | ATP synthase alpha chain | 1.3 | 0.85 | 0.69 | 0.82 |
| 25 | LpdA or Lpd | MALDI-TOF | P00391 | 5.81/53.6 | Dihydrolipoamide dehydrogenase | 1.3 | 1.0 | 0.69 | 0.91 |
| 26 | DppA | Gel match | P23847 | 5.69/52.1 | Periplasmic dipeptide transport protein | 1.0 | 0.60 (▿) | 1.0 | 0.95 |
| 27 | GlyA | MALDI-TOF | P00477 | 6.04/45.9, 5.94/46.1 | Serine hydroxymethyltransferase (serine methylase) | 0.60 (▿) | 0.39 (▿▿▿) | 1.3 | 0.58 (▿) |
| 28 | CarA or PyrA | Gel match | P00907 | 5.91/44.0 | Carbamoyl-phosphate synthase small chain | 0.55 (▿) | 0.60 (▿) | 1.1 | 0.94 |
| 29 | FbaA or Fba | MALDI-TOF | P11604 | 5.55/40.6 | Fructose-bisphosphate aldolase class II | 0.80 | 0.69 | 0.72 | 0.75 |
| 30 | SerC or PdxF | Gel match | P23721 | 5.34/40.2 | Phosphoserine aminotransferase | 0.85 | 0.90 | 0.89 | 0.72 |
| 31 | SucC | Gel match | P07460 | 5.30/42.3 | Succinyl-coenzyme A synthetase beta chain | 0.81 | 1.1 | 1.1 | 1.1 |
| 32 | LivJ | Gel match | P02917 | 5.28/41.9 | Leu/Ile/Val-binding protein | 1.0 | 0.6 (▿) | 1.1 | 0.46 (▿▿) |
| 33 | Pgk | Gel match | P11665 | 5.07/41.9, 5.02/41.7 | Phosphoglycerate kinase | 0.60 (▿) | 1.1 | 1.7 (Δ) | 0.79 |
| 34 | MalE | Gel match | P02928 | 5.08/41.1 | Maltose-binding periplasmic protein | 1.3 | 1.5 (Δ) | 0.32 (▿▿) | 0.44 (▿▿) |
| 35 | LivK | Gel match | P04816 | 5.00/41.4 | Leucine-specific binding protein | 1.4 | 0.6 (▿) | 0.73 | 0.95 |
| 36 | RfaD or HtrM | Gel match | P17963 | 4.85/36.8 | ADP-l-glycero-d-manno-heptose-6-epimerase | 1.3 (ΔΔΔ) | 0.08 (▿▿▿) | 0.44 (▿▿) | 0.16 (▿▿▿) |
| 37 | PotD | Gel match | P23861 | 4.77/35.8 | Spermidine/putrescine-binding periplasmic protein | 2.6 (ΔΔ) | 0.84 | 0.36 (▿▿) | 1.1 |
| 38 | TalB | Gel match | P30148 | 5.01/35.8 | Transaldolase B | 1.3 | 0.60 (▿) | 1.5 (Δ) | 0.49 (▿▿) |
| 39 | Tsf or EF-Ts | Gel match | P02997 | 5.15/33.6 | Elongation factor Ts | 1.0 | 0.60 (▿) | 0.83 | 0.63 |
| 40 | Mdh | Gel match | P06994 | 5.55/35.5 | Malate dehydrogenase | 0.92 | 0.99 | 0.86 | 0.76 |
| 41 | CysK | Gel match | P11096 | 5.81/36.0 | Cysteine synthase A | 0.59 (▿) | 0.44 (▿▿) | 12 (ΔΔΔ) | 11 (ΔΔΔ) |
| 42 | ManX or PtsL | Gel match | P08186 | 5.17/26.1 | Phosphotransferase system, mannose-specific IIAB component | 0.80 | 0.50 (▿) | 1.3 | 1.4 |
| 43 | AroG | Gel match | P00886 | 6.12/39.4 | Phospho-2-dehydro-3-deoxyheptonate aldolase | 0.81 | 0.75 | 0.68 | 0.69 |
| 44 | Sbp | MALDI-TOF | P06997 | 6.49/49.5 | Sulfate-binding protein | 0.57 (▿) | 0.77 | 1.5 (Δ) | 1.0 |
| 45 | GapA | Gel match | P06977 | 6.58/36.3 | Glyceraldehyde 3-phosphate dehydrogenase A | 1.1 | 0.49 (▿▿) | 1.5 (Δ) | 0.49 (▿▿) |
| 46 | PyrB | Gel match | P00479 | 6.13/35.3 | Aspartate carbamoyltransferase catalytic chain | 0.69 | 0.87 | 1.4 | 1.4 |
| 47 | FkpA | Gel match | P45523 | 7.08/33.2 | FKBP-type peptidyl-prolyl cis-trans isomerase FkpA | 1.0 | 0.14 (▿▿▿) | 1.2 | 0.58 (▿) |
| 48 | SodA | Gel match | P00448 | 6.44/22.9 | Superoxide dismutase [Mn] | 0.50 (▿) | 0.75 | 1.0 | 0.35 (▿▿) |
| 49 | GpmA or Gpm | MALDI-TOF | P31217 | 5.86/28.4 | Phosphoglycerate mutase 1 | 1.1 | 0.6 (▿) | 0.41 (▿▿) | 0.36 (▿▿) |
| 50 | Udp | Gel match | P12758 | 5.86/27.9 | Uridine phosphorylase | 0.73 | 0.81 | 1.6 (Δ) | 1.3/PICK> |
| 51 | YadK | Gel match | P37016 | 5.55/28.4 | Protein YadK | 1.3 | 1.0 | 1.3 | 0.88 |
| 52 | TpiA or Tpi | Gel match | P04790 | 5.57/26.9 | Triosephosphate isomerase | 1.2 | 0.50 (▿) | 1.5 (Δ) | 0.53 (▿) |
| 53 | Bla | Gel match | P00810 | 5.46/28.9 | β-Lactamase | ∞ (ΔΔΔ) | 1.1 | 1.3 | 0.43 (▿▿) |
| 54 | TrpA | Gel match | P00928 | 5.30/28.7 | Tryptophan synthase alpha chain | 1.2 | 0.56 (▿) | 0.80 | 0.58 (▿) |
| 55 | SspA or Ssp | Gel match | P05838 | 5.24/26.6 | Stringent starvation protein A | 2.4 (ΔΔ) | 0.72 | 1.2 | 0.17 (▿▿▿) |
| 56 | HisJ | Gel match | P39182 | 5.05/28.6 | Histidine-binding periplasmic protein | 1.5 (Δ) | 0.77 | 1.2 | 0.50 (▿) |
| 57 | FliY | Gel match | P39174 | 5.01/26.2, 5.11/25.8 | Cystine-binding periplasmic protein | 2.2 (ΔΔ) | 0.38 (▿▿) | 0.47 (▿▿) | 0.17 (▿▿▿) |
| 58 | HdhA or HsdH | Gel match | P25529 | 5.17/25.0 | 7-Alpha-hydroxysteroid dehydrogenase | 1.3 | 1.5 (Δ) | 0.99 | 0.89 |
| 59 | Upp or UraP | Gel match | P25532 | 5.29/23.8 | Uracil phosphoribosyltransferase | 1.1 | 0.45 (▿▿) | 1.5 (Δ) | 0.66 |
| 60 | GrpE | Gel match | P09372 | 4.68/25.5 | GrpE protein (HSP-70 cofactor) | 1.7 (Δ) | 0.80 | 0.93 | 1.5 (Δ) |
| 61 | AccB or FabE | Gel match | P02905 | 4.57/22.0 | Biotin carboxyl carrier protein of acetyl-coenzyme A carboxylase | ∞ (ΔΔΔ) | 1.1 | 0.99 | 0.74 |
| 62 | AhpC | Gel match | P26427 | 5.01/21.5 | Alkyl hydroperoxide reductase C22 protein | 4.6 (ΔΔΔ) | 0.66 | 0.95 | 0.80 |
| 63 | Crr | Gel match | P08837 | 4.57/20.0, 4.68/18.9 | Phosphotransferase system, glucose-specific IIA component | 1.3 | 0.51 (▿) | 0.94 | 1.4 |
| 64 | DksA | Gel match | P18274 | 4.90/18.7 | DnaK suppressor protein | 1.7 (Δ) | 0.82 | 1.0 | 0.85 |
| 65 | SgaH | Gel match | P39304 | 5.14/19.5 | Probable hexulose-6-phosphate synthase | 9.4 (ΔΔΔ) | 0.47 (▿▿) | 0.54 (▿) | 0.48 (▿▿) |
| 66 | AroK | Gel match | P24167 | 5.30/17.9 | Shikimate kinase I | 2.1 (ΔΔ) | 1.0 | 1.4 | 0.80 |
| 67 | SodB | Gel match | P09157 | 5.53/22.1 | Superoxide dismutase [Fe] | 1.0 | 0.70 | 1.0 | 0.33 (▿▿) |
| 68 | PpiB | Gel match | P23869 | 5.51/17.7 | Peptidyl-prolyl cis-trans isomerase B | 1.1 | 0.73 | 0.93 | 0.29 (▿▿▿) |
| 69 | RplI | Gel match | P02418 | 6.20/19.8, 6.17/15.7 | 50S ribosomal protein L9 | 0.60 (▿) | 1.0 | 1.1 | 1.1 |
| 70 | YfiA | Gel match | P11285 | 6.16/15.2 | Protein YfiA | 0.74 | 0.42 (▿▿) | 0.58 (▿) | 0.72 |
| 71 | YbdQ | Gel match | P39177 | 6.08/15.5 | Unknown protein from 2D polyacurylamide gel electrophoresis | 0.88 | 1.0 | 1.3 | 0.69 |
| 72 | RbfA | Gel match | P09170 | 6.00/15.6 | Ribosome-binding factor A | 0.69 | 1.4 | 0.93 | 1.1 |
| 73 | RplU | Gel match | P02422 | 6.71/10.3 | 50S ribosomal protein L21 | 0.96 | 0.98 | 0.86 | 0.43 (▿) |
| 74 | Hns | Gel match | P08936 | 5.45/15.6 | DNA-binding protein H-NS (histone-like protein HLP-II) | 4.0 (ΔΔΔ) | 0.81 | 0.55 (▿) | 0.64 |
| 75 | Ndk | Gel match | P24233 | 5.59/15.2 | Nucleoside diphosphate kinase | 1.0 | 0.92 | 1.4 | 0.90 |
| 76 | AtpC | Gel match | P00832 | 5.48/14.8 | ATP synthase epsilon chain | 0.97 | 1.5 (Δ) | 0.62 | 0.52 (▿) |
| 77 | RpsF | Gel match | P02358 | 5.31/15.8, 5.15/15.8, 5.26/15.8 | 30S ribosomal protein S6 | 1.4 | 0.53 (▿) | 1.1 | 0.5 (▿) |
| 78 | Bcp | Gel match | P23480 | 5.02/15.8 | Bacterioferritin comigratory protein | 1.3 | 0.60 (▿) | 0.99 | 1.2 |
| 79 | GreA | Gel match | P21346 | 4.68/15.9 | Transcription elongation factor GreA | 1.6 (Δ) | 0.58 (▿) | 0.38 (▿▿) | 0.97 |
| 80 | GroES or MopB | Gel match | P05380 | 5.15/15.6 | 10-kDa chaperonin (GroES protein) | 1.4 | 0.65 | 0.67 | 1.1 |
| 81 | UspA | Gel match | P28242 | 5.14/15.1 | Universal stress protein A | 1.5 (Δ) | 1.7 (Δ) | 0.53 (▿) | 1.1 |
| 82 | YjgF | Gel match | P39330 | 5.29/13.0 | Protein YjgF | 2.3 (ΔΔ) | 1.1 | 0.81 | 1.4 |
| 83 | TrxA or TsnC | Gel match | P00274 | 4.67/11.5 | Thioredoxin I | 2.6 (ΔΔ) | 1.2 | 1.1 | 1.3 |
| 84 | HdeB | Gel match | P26605 | 4.85/11.2 | Protein HdeB (10K-L protein) | 8.9 (ΔΔΔ) | 1.0 | 0.36 (▿▿) | 0.90 |
| 85 | IbpA | MALDI-TOF | P29209 | 5.57/15.8 | 16-kDa heat shock protein A | ∞ (ΔΔΔ) | ∞ (ΔΔΔ) | ||
| 86 | IbpB | MALDI-TOF | P29210 | 5.19/16.1 | 16-kDa heat shock protein B | ∞ (ΔΔΔ) | ∞ (ΔΔΔ) | ||
| 87 | Leptin | MALDI-TOF | P41159 | 5.88/18.6 | Obese protein | ∞ (ΔΔΔ) | ∞ (ΔΔΔ) | ||
| 88 | OmpF | MALDI-TOF | P02931 | 4.61/36.2 | Outer membrane protein F (porin OmpF) | ∞ (ΔΔΔ) | ∞ (ΔΔΔ) | ||
a
▿▿▿, 0- to 0.3-fold; ▿▿, 0.3- to 0.5-fold; ▿, 0.5- to 0.6-fold; Δ, 1.5- to 2-fold; ΔΔ, 2- to 3-fold; ΔΔΔ, >3-fold.