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Table 2 Differentially expressed proteins for phenylacetic acid, benzene degradation, and various oxidoreductases on kraft lignin

From: Genomic and proteomic analysis of lignin degrading and polyhydroxyalkanoate accumulating β-proteobacterium Pandoraea sp. ISTKB

Uniprot IDs Locus tag Name Log2 fold change Unique peptides Sequence coverage (%) Mol. weight (kDa) Intensity
   Phenylacetic acid degradation protein      
A0A1E3LF26 A9762_23720 Phenylacetic acid degradation protein PaaD 0.529261 3 27.3 15.022 8.65E−26
A0A1E3LF48 A9762_23735 Phenylacetic acid degradation protein PaaN 0.244067 18 58.3 60.008 1.24E−140
A0A1E3LFB3 A9762_23725 2-(1,2-Epoxy-1,2-dihydrophenyl)acetyl-CoA isomerase 0.724358 9 56.1 27.854 1.32E−76
A0A1E3LFJ2 A9762_22495 Phenylacetic acid degradation protein 0.790541 4 36.3 15.888 3.07E−15
A0A1E3LHE3 A9762_23715 Phenylacetate–coenzyme A 0.514503 14 57.5 47.386 1.43E−109
A0A1E3LQE8 A9762_10500 Phenylacetic acid degradation protein 1.426558 5 44.4 14.521 5.16E−22
   Peroxidases      
A0A1E3LDX8 A9762_24250 Dyp-type peroxidase 1.43239 15 72 40.756 1.29E−104
A0A1E3LHN8 A9762_20355 Peroxidase − 1.69967 18 90.6 23.753 0
A0A1E3LPA6 A9762_00985 Chloroperoxidase − 1.927944 16 84.7 30.075 8.73E−175
A0A1E3LF97 A9762_25345 Peroxidase-like protein 1.353771 7 59 18.981 4.85E−31
A0A1E3LNE3 A9762_13620 Laccase − 0.13346 10 57.5 28.644 5.45E−43
   Oxidases      
A0A1E3LC86 A9762_26490 Glycolate oxidase subunit GlcE 1.96696 9 38.1 38.774 4.18E−40
A0A1E3LDU3 A9762_25250 Aldehyde oxidase 1.94888 25 43.2 106.43 3.40E−153
A0A1E3LG04 A9762_25240 Cytochrome C oxidase Cbb3 1.88749 12 44.8 44.919 5.64E−68
A0A1E3LL61 A9762_17965 Glycolate oxidase iron–sulfur subunit 1.88269 5 14.3 46.4 1.56E−20
A0A1E3LCC6 A9762_07195 Oxidase 1.12594 23 67.7 43.498 4.04E−279
A0A1E3LQ45 A9762_00290 FAD-linked oxidase 0.7576 46 47.6 148.68 8.22E−260
A0A1E3LDS7 A9762_25555 Ubiquinol oxidase subunit 2 − 0.72481 3 21.5 35.767 2.50E−21
A0A1E3LLY2 A9762_16250 l-Aspartate oxidase − 1.51593 5 14.2 58.534 1.25E−24
A0A1E3LRG9 A9762_02095 Cytochrome c oxidase assembly protein − 1.76256 6 49.8 22.192 2.52E−27
A0A1E3LCR8 A9762_26505 2-Hydroxy-acid oxidase − 1.92172 13 43.3 51.242 1.38E−99
   Oxidoreductases      
A0A1E3L9T7 A9762_09290 NADH–quinone oxidoreductase subunit I 1.983 13 54.6 18.63 1.26E−66
A0A1E3LC99 A9762_26255 Oxidoreductase 1.46342 9 62.5 26.21 1.99E−100
A0A1E3LAC9 A9762_09275 NADH oxidoreductase (quinone) subunit F 0.86275 19 70.7 47.093 5.72E−135
A0A1E3LMK8 A9762_03120 NADP oxidoreductase 0.82498 10 55.5 32.458 3.02E−38
A0A1E3LHK5 A9762_23470 FAD-dependent oxidoreductase 0.33833 3 14.7 38.458 4.28E−15
A0A1E3LLW4 A9762_03220 GMC family oxidoreductase 0.24372 23 54.8 64.908 3.74E−163
A0A1E3LFG3 A9762_22500 NADP-dependent oxidoreductase 0.05857 13 63.4 35.64 5.98E−106
A0A1E3LKB2 A9762_03335 Oxidoreductase − 0.24038 18 82.3 31.785 3.07E−157
A0A1E3LGB9 A9762_21450 YggW family oxidoreductase − 0.68269 3 10.3 45.723 1.71E−14
A0A1E3LC87 A9762_26930 Fe–S oxidoreductase − 1.47441 6 49.8 26.119 2.01E−34
A0A1E3LG91 A9762_21265 Vanillate O-demethylase ferredoxin subunit − 1.5017 15 57.9 33.723 1.13E−114
A0A1E3LG83 A9762_21255 Vanillate O-demethylase oxidoreductase 0.298001 15 48.1 50.745 1.80E−76
A0A1E3LFZ4 A9762_25310 FAD-dependent oxidoreductase − 1.67016 5 17.9 54.42 2.53E−15
A0A1E3LA58 A9762_09270 NADH-quinone oxidoreductase subunit E − 1.69506 9 80.1 18.129 9.41E−90
A0A1E3LFR2 A9762_22175 Oxidoreductase − 1.8627 9 61.8 30.679 4.89E−178
A0A1E3LCB2 A9762_09255 NADH-quinone oxidoreductase subunit B − 1.96385 10 72.3 17.519 1.56E−64
A0A1E3LEJ8 A9762_05735 Oxidoreductase − 1.97509 18 85.7 26.372 6.17E−220
A0A1E3LKX1 A9762_15740 Quinone oxidoreductase − 1.99406 18 90.7 34.556 1.06E−219
   Oxygenases      
A0A1E3LHN5 A9762_23090 2-Nitropropane dioxygenase 1.84558 3 15.1 38.789 7.50E−15
A0A1E3LFU3 A9762_22350 Quercetin 2,3-dioxygenase 1.82796 7 51.5 26.31 4.21E−24
A0A1E3LFX1 A9762_21815 Homogentisate 1,2-dioxygenase 1.51818 13 56.9 48.611 5.10E−81
A0A1E3LPA9 A9762_00970 4-Hydroxyphenylpyruvate dioxygenase 1.43964 2 5.9 40.191 3.14E−09
A0A1E3LFB4 A9762_23095 2-Nitropropane dioxygenase 1.31977 9 45.1 39.332 6.27E−61
A0A1E3LDU6 A9762_24595 Phytanoyl-CoA dioxygenase − 0.60384 6 38.3 27.846 2.72E−52
A0A1E3LF51 A9762_25450 Putative dioxygenase − 0.666263 9 88.7 15.676 1.86E−122
A0A1E3LIM3 A9762_17955 Dioxygenase − 0.91661 8 52 29.958 6.54E−31
A0A1E3LI70 A9762_22255 2-Nitropropane dioxygenase − 1.45193 12 64.4 33.509 1.71E−146
A0A1E3LIR0 A9762_17450 Protocatechuate 3,4-dioxygenase subunit alpha − 1.63442 13 83.4 21.895 2.50E−246
A0A1E3LJ07 A9762_17445 Protocatechuate 3,4-dioxygenase subunit beta − 1.71052 16 78.4 26.513 2.43E−152
A0A1E3LG93 A9762_21285 Protocatechuate 4,5-dioxygenase subunit alpha − 1.83931 6 80.7 13.769 6.11E−47
A0A1E3LG93 A9762_21285 Protocatechuate 4,5-dioxygenase subunit beta − 1.83931 6 80.7 13.769 6.11E−47
A0A1E3LEL8 A9762_04935 Antibiotic biosynthesis monooxygenase − 1.86712 6 81.8 11.026 1.02E−172
A0A1E3LBV9 A9762_07570 2OG-Fe(II) oxygenase − 1.682965 7 50.7 30.695 9.21E−31
A0A1E3LL67 A9762_14910 2OG-Fe(II) oxygenase − 0.037474 8 43 37.152 3.47E−45
   Benzoate degradation      
A0A1E3LBS0 A9762_08405 2-Aminobenzoate–CoA ligase 1.569646 5 15.2 59.58 4.06E−18
A0A1E3LF67 A9762_23480 3-Octaprenyl-4-hydroxybenzoate carboxy-lyase (Fragment) − 1.471879 4 32.4 15.528 1.01E−27
A0A1E3LLJ4 A9762_17745 3-Octaprenyl-4-hydroxybenzoate carboxy-lyase 1.567849 11 32.8 57.345 1.54E−68
A0A1E3LM76 A9762_12465 2-Nonaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase − 1.895105 5 47.4 23.511 1.50E−34
A0A1E3LDW9 A9762_24905 Carboxymethylenebutenolidase − 1.707803 8 49 27.008 1.57E−119
A0A1E3LDA6 A9762_06440 Carboxymethylenebutenolidase − 1.951469 18 77 31.135 1.41E−118