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. 2006 Dec;142(4):1603–1620. doi: 10.1104/pp.106.086231

Table II.

Classification of differential proteins into functional groups and details of observed and predicted Mr and pI

Where a targeting peptide has been predicted, the Mr and pI of the processed protein is indicated in parentheses. The number of unique peptides sequenced by MS/MS is provided to indicate robustness of identification.

Gene Protein Spot Changea Fractionb Targetc Observed Mr Predicted Mrd Observed pI Predicted pI Numbers of Peptides
Defense related
    At1g20020 FNR 7,309 T↑ and P↑ Sol Cpl 34.5 41.48 (35.27) 5.98 8.51 (6.20) 5
    At2g30860 GST AtGSTF9 7,215 A↑ Sol No 28.0 24.13 5.98 6.17 7
    At3g10920 MSD1 6,110 P↑A↓ Sol Mit 26.1 25.44 (22.53) 5.97 8.47 (6.06) 8
    At3g27890 NQR 8,101 A↓ Sol No 25.6 21.51 5.99 7.7 5
    At4g23670 MLP-related 6,004 P↑ and A↓ Sol No 17.2 17.62 5.8 5.91 8
    At5g66190 FNR 4,303 A↑ Sol No 34.4 40.64 5.38 8.32 7
    At1g09340 UDP-Glc 4-epimerase 7,507 P↑ Cpl No 38.3 42.75 6.51 7.17 3
    At4g01050 Hyp-rich glycoprotein 2,802 P↑T↓A↑ Cpl Cpl 59.9 49.36 (47.8) 4.70 5.22 (5.21) 3
    At1g02920 GST AtGSTF7 7,211 P↑ P↑ Sol No 27.7 28.0 23.58 6.00 5.99 6.14 5
8,201 3
    At1g02930 GST AtGSTF6 6,109 P↑ P↑ Sol No 27.4 27.5 23.4 6.00 5.80 6.17 5
6,101 4
    At2g47730 GST AtGSTF8 6,108 P↑A↓ A↑ Sol Sol Cpl 26.8 26.9 29.2 (24.1) 6.0 5.7 8.90 (6.09) 4
5,104 6
    At4g02520 GST AtGSTF2 7,213 P↑ Sol No 28.4 24.11 6.00 5.92 5
    At3g11630 PrxA 1,104 P↓T↑ Sol Cpl 24.8 29.1 (22.8) 4.79 4.91 (5.01) 8
    At3g52960 PrxIIE 1,007 P↑ Sol Cpl 19.3 24.67 (17.3) 4.9 9.12 (5.02) 14
    At5g06290 2-cys-PrxB 111 P↑ and A↓ Sol Cpl 26.6 29.6 (24.6) 4.55 4.71 (5.07) 8
Metabolism
Primary carbon metabolism
    At1g13440 G3PDH 8,410 P↓ Sol No 39.0 37.08 6.00 6.34 7
    At1g32060 PRK 2,502 P↓T↑ Sol Cpl 42.1 44.72 (38.5) 5.09 5.71 (5.22) 17
2,613 T↓ Cpl 42.9 5.00 2
    At1g53240 NAD-dependent MDH 6,316 P↓ Sol Mit 35.1 35.75 (32.37) 5.97 8.54 (5.73) 6
8,403 P↑T↓ Sol 35.3 5.99 10
    At3g01500 CA 2,207 P↓T↑ Sol Cpl 28.8 36.12 (33.38) 5.21 5.46 (5.43) 7
    At3g04790 Rib-5-P isomerase putative 1,207 T↓ Sol Cpl 29.1 29.30 (25.44) 5.00 5.72 (4.98) 4
    At3g15020 MDH 5,202 P↑ Mit Mit 33.9 36.02 (32.6) 5.67 8.30 (6.24) 7
    At5g50850 PDH E1β 4,301 P↑ Mit Mit 36.7 39.45 (35.9) 4.85 5.67 (5.11) 2
    At5g14740 CA2 4,217 P↑ Mit No 29.7 28.68 4.99 5.36 9
4,302 A↓ Sol 31.9 5.36 7
    At2g39730 Rubisco activase 1,609 T↓ Sol Cpl 47.4 51.98 (46.26) 4.97 5.87 (5.09) 10
2,421 P↑ Mit 45.3 4.63 4
    At3g55800 Sedoheptulose-bisphosphatase 1,512 P↓ Sol Cpl 39.2 42.79 (36.09) 4.96 6.71 (5.21) 8
Other metabolic roles
    At4g08900 Putative arginase 5,352 P↑ Mit Mit 35.6 37.55 (35.4) 5.48 6.11 (5.5) 1
    At5g08280 Hydroxymethylbilane synthase 8,409 P↑T↓ Sol Cpl 36.7 41.53 5.99 8.63 7
    At3g14210 Lipase/acylhydrolase, 8,510 P↓ Sol Sec 43.5 44.37 6.00 7.59 7
PSII
    At1g06680 OEC23 1,404 A↑ Cpl Cpl 27.4 28.08 (24.90) 4.57 6.90 (5.79) 2
    At5g66570 OEC1 2,417 T↓A↑ Cpl Cpl 33.2 35.11 (32.10) 4.80 5.68 (5.08) 6
1,417 A↑ Cpl 33.3 4.73 6
Transcription
    At1g20980 SPB-like 2 4,307 T↑ Sol TMR 33.0 79.75 5.45 8.38 3
    At4g36690 Splicing factor-like protein 3,309 P↑ Mit No 34.4 28.86 4.72 5.17 2
    At5g19510 Elongation factor 1B-α 311 T↑ Sol No 32.4 24.24 4.39 4.42 8
Protein folding and turnover
    At1g79210 20S Proteasome PAB1 4,222 A↓ Mit No 28.1 25.71 5.07 5.53 2
    At3g01480 Putative thylakoid lumen Rotamase (cyclophilin) 503 T↑ Sol Cpl 39.3 47.95 4.50 5.06 14
    At3g27850 50S ribosomal protein L12-C. 1,309 A↑ Cpl Cpl 20.8 19.67 (14.1) 4.52 5.99 (4.68) 4
    At3g62030 Peptidylprolyl isomerase ROC4 cyclophilin 1,105 P↓T↑ Sol Cpl 23.4 28.18 (20.0) 4.9 8.83 (5.4) 6
    At5g10450 14-3-3 protein GF14-λ 206u T↑A↓ Sol No 30.3 28.72 4.59 4.77 11
    At3g63190 Ribosome recycling factor 9,201 A↑ Sol Cpl 27.7 32.22 (28.50) 7.46 9.39 (9.33) 5
Cellular transport and ion homeostasis
    At3g26520 Aquaporin tip2.1 4,102 P↓ Mit Mit Tmr 25.2 25.89 (24.31) 4.88 4.92 (4.92) 1
    At4g09650 H+-ATPase-related protein CF1δ 2,109 P↓ Sol Cpl 23.1 25.65 (20.4) 5.2 9.04 (5.31) 10
    At4g11150 V-type H+-ATPase subunit E 7,212 A↓ Sol No 31.3 26.28 5.98 6.04 5
    At4g20260 Endomembrane-associated protein F1C12.180 1,404 A↓ Sol Pm 35.4 24.57 5.02 4.99 2
    At4g32260 H+-ATPase (ATPG) 1,203 T↑ Cpl Cpl 18.2 23.90 (16.24) 4.61 5.80 (4.78) 7
    AtC00120 ATPase α-chain 4,508 A↑ Mit Cpl 52.5 55.35 4.97 5.19 3
    ArthCp029 ATPase CF1β 4,711 A↑ Cpl No 52.7 53.90 5.20 5.38 19
    At5g09650 Inorganic pyrophosphatase-like protein 1,304 T↑A↓ Sol Cpl 32.9 33.3 4.70 5.72 2
Mitochondrial permeability transition
    At5g48810 Cytochrome b5 3,116 A↓ Mit No 18.7 15.15 4.82 4.87 2
    At5g15090 Outer mitochondrial membrane protein porin 2 (VDAC 2) 8,222 P↓ Mit Mit 29.1 29.00 7.91 7.97 8
    At4g03280 Rieske Fe-S protein precursor 7,127 P↑ Mit Mit 19.3 22.80 (19.0) 5.72 8.58 (6.07) 2
Unclassified
    At3g16640 TCTP-like protein 109 T↑A↓ Sol Sec 23.7 18.96 4.6 4.52 5
2,107 A↓ Mit 24.1 3
    At2g37660 3-β-hydroxysteroid dehydrogenase/isomerase putative 3,209 T↓ Sol Cpl 31.1 36.18 (27.62) 5.28 6.23 (5.31) 2
3,218 A↓ Sol 31.1 5.29 3
a

Significant differences in density (P ≤ 0.05) were recorded in response to PAMP (i.e. DC3000 hrpA mutant compared with mock inoculation; P); differentials between DC3000 hrpA and wild-type DC3000 inoculations (T); and difference between DC3000 wild type and DC3000 (avrRpm1) challenge (A).

b

Subcellular fraction from which the protein was recovered. Sol, Soluble, Cpl, chloroplast, Mit, mitochondria.

c

Predicted localization of protein based on N-terminal sequence. Sec, Secreted; Mit, mitochondria targeted; Cpl, chloroplast targeted; Pm, plasma membrane; TMR, predicted transmembrane region; No, no targeting motif recognized.

d

Mr and pI of processed protein in parentheses. Failure to discriminate between related genes is indicated by a “u” beside the spot number.