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Table 1 Identification of relevant proteins expressed only on kraft lignin (KL) or vanillic acid (VL) that can assist in lignin degradation

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

Uniprot entry Gene locus tag Protein names LFQ intensity KL Razor + unique peptides KL Sequence coverage (%) Mol. weight (kDa) Intensity
Relevant protein expressed only on kraft lignin (KL)
 A0A1E3LHD6 A9762_20370 Tryptophan 2,3-dioxygenase 22.9781 2 12.3 36.655 0.00043
 A0A1E3LB56 A9762_07750 Benzoyl-CoA oxygenase subunit B 28.4307 15 41.7 54.265 2.06E−87
 A0A1E3LET3 A9762_23815 Acriflavine resistance protein 22.5124 1 1.2 112.36 0.00162
 A0A1E3LL12 A9762_14780 Glycine betaine ABC transporter substrate-binding protein 23.8554 2 6.2 36.204 0.00036
 A0A1E3LI04 A9762_22630 Enoyl-CoA hydratase 23.5827 2 13.3 28.399 1.38E−14
 A0A1E3LPU3 A9762_13345 Pyruvate ferredoxin oxidoreductase 17.3225 3 4 129.05 0.00016
 A0A1E3LLU4 A9762_13050 Carboxyvinyl-carboxyphosphonate phosphorylmutase 24.4057 2 14.3 31.557 0.00039
 A0A1E3LBB9 A9762_07755 Benzoyl-CoA oxygenase/reductase, BoxA protein 23.9233 2 5 45.826 5.25E−07
 A0A1E3LGI4 A9762_03990 SAM-dependent methyltransferase 24.6086 2 9.6 31.525 1.73E−06
 A0A1E3LDW7 A9762_25245 (2Fe–2S)-binding protein 24.4339 2 24.5 20.242 2.06E−06
 A0A1E3LNU5 A9762_10215 LysR family transcriptional regulator 23.5144 2 8.4 33.65 4.15E−07
 A0A1E3LEP7 A9762_23880 Phenylacetic acid degradation protein 24.5346 3 12.4 39.494 4.34E−14
 A0A1E3LJ38 A9762_17050 ABC transporter 26.2152 5 18.3 32.972 3.46E−34
 A0A1E3LB77 A9762_07880 ABC transporter ATP-binding protein 24.5787 2 9.7 25.723 2.69E−12
 A0A1E3LF42 A9762_23860 1,2-Phenylacetyl-CoA epoxidase subunit A (monooxygenase) 25.5084 4 14 37.739 4.64E−20
 A0A1E3LGK2 A9762_23865 1,2-Phenylacetyl-CoA epoxidase subunit B (monooxygenase) 24.5067 2 20.4 11.224 6.77E−06
 A0A1E3LHG4 A9762_23220 Formyl-CoA:oxalate CoA transferase 26.7341 5 17.8 45.737 4.76E−34
 A0A1E3LNE1 A9762_10935 Salicylate hydroxylase 22.5412 1 3.1 41.287 0.00183
 A0A1E3LF93 A9762_23590 Ligand-gated channel protein 24.4315 2 3.4 81.344 8.95E−05
 A0A1E3LHJ6 A9762_19845 NADPH:quinone reductase 23.3346 1 3.1 31.317 0.00029
 A0A1E3LIQ8 A9762_17970 Glycolate oxidase subunit GlcE 24.8966 2 7.3 40.542 3.71E−10
 A0A1E3LEZ8 A9762_23215 2-Hydroxyhepta-2,4-diene-1,7-dioate isomerase 24.1273 2 14.8 27.8 1.39E−06
Relevant protein expressed only on vanillic acid (VA)
 A0A1E3LRS2 A9762_00545 Alkene reductase 26.4047 7 29.1 39.612 3.91E−37
 A0A1E3LLI9 A9762_02605 Alpha/beta hydrolase 25.8742 4 23.2 30.983 3.92E−11
 A0A1E3LLX9 A9762_03340 Tol-pal system-associated acyl-CoA thioesterase 24.2249 2 14.4 17.548 2.38E−05
 A0A1E3LDT8 A9762_25265 Acetyltransferase 24.2249 2 14.4 17.548 2.38E−05
 A0A1E3LPL0 A9762_01420 Glutathione S-transferase 24.4839 2 15.3 24.629 2.35E−07
 A0A1E3LCR5 A9762_26030 Aminomethyltransferase 25.197 2 11 34.276 8.63E−05
 A0A1E3LPI9 A9762_13065 Methyltransferase 22.991 2 7.7 29.85 1.53E−06
 A0A1E3LEN5 A9762_06460 Rieske (2Fe–2S) protein 25.0064 1 6.5 43.065 1.25E−08
 A0A1E3LHR2 A9762_19260 Glycine/betaine ABC transporter permease 24.0824 1 4.9 25.659 0.0001153