Table 1.

Identified Proteins from Arabidopsis and Mustard in TAC Preparations

ΔMdxcorre
NCBI Acc. No./AGI Acc. No.aProteinPositionbZcAraSinAraSin
Transcription
gi|7525065RNA polymerase α-chain (RpoA)40–5020.72.60
ArthCp055292–31020.61.26.623.87
322–3282−0.12.60
gi|7525025RNA polymerase β-chain (RpoB)13–312−0.24.30
ArthCp01432–4320.03.95
276–29020.40.04.363.44
322–33720.10.54.984.08
354–38630.73.60
387–39720.73.47
450–4662−0.64.11
603–6212−0.43.16
643–6612−0.23.44
769–7792−0.23.06
907–91720.13.79
918–9322−1.14.64
940–95720.30.13.573.87
993–101730.00.14.734.04
1025–104821.42.72
1056–106920.30.05.124.30
gi|7525024RNA polymerase β′-chain (RpoC1)12–2620.23.26
ArthCp013173–18821.03.34
287–29720.43.60
303–31420.63.54
327–34120.32.69
382–3942−0.63.30
434–45430.25.21
461–47420.30.93.973.27
485–51031.03.78
596–60521.32.72
gi|7525023RNA polymerase β″-chain (RpoC2)44–6820.50.83.303.62
ArthCp01269–8420.36.04
241–2492−0.80.12.982.57
250–26020.3−1.23.722.51
266–27620.14.25
277–28820.32.91
307–3383−1.03.02
434–45430.25.12
485–51031.03.78
526–53520.42.07
590–60820.72.78
610–62021.02.54
720–73021.30.12.992.59
779–80121.13.12
810–8232−0.62.96
824–83420.7−0.32.983.98
1152–116220.0−1.22.613.55
1227–124830.15.12
1309–132520.33.92
1345–135420.32.92
DNA replication, DNA topology, DNA binding
gi|11994141DNA polymerase A, putative (PolA)287–30220.33.92
At3g20540322–33720.33.24
342–35620.64.12
377–39120.54.11
448–4662−1.12.72
gi|15228353DNA gyrase subunit A, putative (GyrA)109–1252−0.3−1.62.892.90
At3g10690194–20110.72.19
220–24830.04.52
352–3652−0.93.91
405–41720.63.79
444–4532−0.82.85
535–54820.60.74.223.97
562–5712−1.6−1.12.903.21
675–6922−1.73.91
gi|15228245DNA gyrase subunit B, putative (GyrB)368–3943−0.43.61
At3g10270484–4992−1.6−0.85.814.75
Translation
gi|15237059Elongation factor Tu (EF-Tu)127–14220.54.22
At4g20360205–22220.52.97
283–3012−0.1−0.14.423.19
316–32620.40.13.443.07
342–3572−0.23.53
gi|15232274Ribosomal protein L12-169–8220.34.57
At3g2783083–9120.62.87
gi|5881732Ribosomal protein S368–8220.04.89
ArthCp06192–10120.53.61
148–1582−0.24.19
159–16720.63.26
184–19210.41.71
gi|15238369Ribosomal protein L2974–862−0.12.82
At5g6522097–10311.21.68
Detoxification, protein modification
gi|15241373Iron superoxide dismutase (FE-SOD1)92–11320.65.80
At5g51100155–16520.03.77
168–18421.14.03
188–1992−0.80.24.283.67
210–2413−0.40.94.724.2
243–25220.03.15
253–26220.30.02.973.17
gi|11358867Iron superoxide dismutase (FE-SOD3)96–10620.73.33
At5g23310145–1613−1.53.83
228–2453−1.53.68
gi|15230779Thioredoxin, putative80–9020.5−1.03.583.41
At3g06730132–14220.30.43.143.40
166–18320.82.91
188–19920.13.65
Metabolism
gi|15222232pfkB-type carbohydrate kinase family protein (PFKB1)89–1193−1.54.75
At1g69200227–23520.72.66
334–34220.12.87
396–41220.64.20
437–45420.83.96
490–50421.10.42.804.23
505–51620.6−0.63.222.52
601–61420.53.83
gi|15232415pfkB-type carbohydrate kinase family protein (PFKB2)146–1603−0.53.05
At3g54090223–2402−0.83.46
327–34120.64.32
364–37320.03.04
401–4132−0.53.93
gi|15222509Mur ligase family protein213–23120.23.34
At1g63680252–2732−1.52.86
318–33820.36.31
389–40921.03.51
746–7672−0.13.43
DNA/RNA binding, unknown function
gi|15223748PTAC1 (DNA binding protein p24-related)64–8020.53.20
At1g1441081–8920.72.91
100–11220.82.60
138–15620.83.36
181–19920.20.73.103.99
200–21320.63.64
214–24730.13.73
248–26320.0−1.43.562.68
gi|15221411 At1g74850PTAC2 (pentatricopeptide repeat-containing protein)57–6920.43.15
103–1132−0.20.83.773.76
192–20120.3−0.53.373.18
224–23920.64.20
718–74020.42.98
741–75320.43.48
gi|15229259PTAC3 (SAP domain-containing protein)74–8320.03.30
At3g0426088–1092−0.34.90
178–18920.14.59
162–17120.92.92
304–3192−0.33.86
353–37621.44.77
384–39520.40.04.253.01
414–43820.65.10
459–47920.85.30
496–51521.13.55
547–56020.63.43
618–63121.00.74.273.82
703–71321.04.30
gi|18408237PTAC4 (PspA/IM30 family protein)84–9820.73.10
At1g6526099–1132−0.45.19
116–12620.23.54
146–15210.21.71
166–17620.13.47
167–1762−0.53.43
184–1942−0.13.13
223–24120.55.91
246–26721.15.08
268–2843−0.54.35
313–32420.14.58
gi|15236331 At4g13670PTAC5 (peptidoglycan binding domain-containing protein)80–922−0.1−0.64.784.40
221–2292−0.12.96
gi|18395008PTAC6 (expressed protein)83–11221.16.16
At1g21600113–1292−0.33.21
149–16121.03.06
162–17721.12.84
232–25020.85.19
gi|22327025PTAC7 (expressed protein)64–7220.62.73
At5g2431480–912−0.84.50
96–11220.92.80
123–1312−0.92.80
132–16120.74.79
gi|18407178PTAC8 (expressed protein)64–8821.04.80
At2g46820127–1482−0.23.96
gi|18415421PTAC9 (expressed protein)121–13021.50.02.633.59
At4g20010288–29920.73.47
gi|15228384PTAC10 (S1 domain-containing protein)41–5620.7−0.43.364.10
At3g4850077–932−1.10.03.874.15
95–11420.24.61
127–13820.93.04
194–20110.72.19
244–25220.22.67
354–3622−0.32.69
404–42420.65.64
444–45320.43.35
468–47820.13.86
503–5152−0.34.35
532–54320.30.43.223.21
553–5712−0.35.68
gi|15227028PTAC11 (DNA binding protein p24-related)69–8420.73.02
At2g0274081–8920.72.91
96–10320.02.58
104–11620.40.43.833.78
120–13420.1−0.63.734.33
133–14620.83.99
196–20420.10.13.343.26
205–21820.3−0.63.235.77
219–25230.63.76
gi|15226791PTAC12 (unknown protein)106–12120.62.66
At2g34640127–14220.64.41
190–20620.13.03
225–23620.43.28
250–25920.43.28
269–2832−0.14.55
280–29420.34.79
304–3152−0.42.70
329–35130.24.88
340–36230.24.65
gi|18398425At3g09210PTAC13 (KOW domain-containing transcription factor family protein)65–701−0.91.69
122–1382−0.53.05
174–18520.62.51
198–2092−0.73.97
285–29820.14.11
gi|42566980PTAC14 (SET domain-containing protein)118–13120.83.29
At4g20130224–23010.61.70
250–26020.12.92
337–3502−0.33.61
357–38330.55.15
384–39720.24.61
398–41521.02.72
gi|15239573At5g54180PTAC15 (mitochondrial transcription termination factor-related)222–2372−0.24.15
259–27321.33.57
347–36120.73.70
gi|42565672PTAC16 (expressed protein)120–13020.23.10
At3g46780149–16420.33.13
237–24820.82.87
249–2602−1.9−0.14.422.68
gi|15220146At1g80480PTAC17 (cobW domain-containing protein)89–10220.42.66
208–2182−1.73.10
gi|15225202PTAC18 (expressed protein)75–9320.7−1.14.004.64
At2g32180116–13020.55.68
  • Analysis of tandem MS (MS/MS) spectra is based on the Arabidopsis database (ftp://ftp.arabidopsis.org/home/tair/sequences/blast_datasets/).

  • a National Center for Biotechnology Information/Arabidopsis Genome Initiative accession numbers.

  • b Position of identified peptides within the database protein sequence.

  • c The charge state of the measured ion (z).

  • d The calculated deviation of the experimentally determined mass from the theoretical average mass of the peptide. Ara, Arabidopsis; Sin, S. alba.

  • e xcorr value calculated using the sequest algorithm.