Skip to main content
. 2014 Jun 25;12:35. doi: 10.1186/1477-5956-12-35

Table 1.

Proteins produced by Streptomyces scabiei with a 5-fold greater abundance in casein-suberin medium

Protein assignation a
Gene assignation
Putative function
Abundance (spectrum count/MW b ) in casein-suberin medium
Abundance (spectrum count/MW b ) in casein medium
      Day 1 Day 3 Day 5 Day 1 Day 3 Day 5
Translational, ribosomal structure and biogenesis
 C9Z240
SCAB_25251d
Polyribonucleotide nucleotidyltransferase
0.04 ± 0.03
0.25 ± 0.10
0.22 ± 0.06
0.01 ± 0.01
ndc
0.01 ± 0.01
 C9Z3N7
SCAB_25991d
Ribosome recycling factor
0.43 ± 0.13
nd
nd
0.08 ± 0.07
0.03 ± 0.05
0.10 ± 0.10
 C9Z3P0
SCAB_26021d
30S ribosomal protein S2
0.23 ± 0.12
0.05 ± 0.02
nd
0.03 ± 0.05
nd
nd
 C9Z3Q3
SCAB_26151d
50S ribosomal protein L19
0.67 ± 0.32
1.13 ± 0.56
0.68 ± 0.25
0.10 ± 0.18
nd
nd
 C9YW46
SCAB_36621d
30S ribosomal protein S9
0.42 ± 0.24
0.35 ± 0.20
0.11 ± 0.06
0.12 ± 0.13
nd
nd
 C9YW47
SCAB_36631d
50S ribosomal protein L13
0.25 ± 0.13
0.24 ± 0.10
0.10 ± 0.03
0.02 ± 0.04
nd
nd
 C9YW61
SCAB_36771d
30S ribosomal protein S5
0.33 ± 0.06
0.38 ± 0.05
0.01 ± 0.02
0.13 ± 0.23
nd
nd
 C9YW63
SCAB_36791d
50S ribosomal protein L6
0.18 ± 0.12
0.33 ± 0.16
0.02 ± 0.03
0.02 ± 0.03
nd
nd
 C9YW64
SCAB_36801d
30S ribosomal protein S8
0.17 ± 0.15
0.64 ± 0.45
0.12 ± 0.21
0.02 ± 0.04
nd
nd
 C9YW68
SCAB_36841d
50S ribosomal protein L14
0.21 ± 0.04
0.63 ± 0.47
0.54 ± 0.45
0.05 ± 0.09
nd
nd
 C9YW72
SCAB_36881d
30S ribosomal protein S3
0.17 ± 0.09
0.09 ± 0.08
0.01 ± 0.03
0.02 ± 0.04
nd
nd
 C9YW73
SCAB_36891d
50S ribosomal protein L22
0.44 ± 0.16
0.85 ± 0.60
0.67 ± 0.40
0.08 ± 0.13
nd
nd
 C9YW77
SCAB_36931d
50S ribosomal protein L4
0.62 ± 0.13
1.00 ± 0.20
0.66 ± 0.06
0.10 ± 0.14
nd
nd
 C9YW78
SCAB_36941d
50S ribosomal protein L3
0.55 ± 0.10
0.96 ± 0.26
0.56 ± 0.15
0.04 ± 0.08
nd
nd
 C9YW94
SCAB_37111d
30S ribosomal protein S7
0.51 ± 0.18
0.23 ± 0.24
nd
0.04 ± 0.07
nd
nd
 C9ZAN5
SCAB_4612 d
30S ribosomal protein S18
0.30 ± 0.06
0.17 ± 0.18
0.06 ± 0.09
0.04 ± 0.06
nd
nd
 C9Z656
SCAB_75031d
30S ribosomal protein S4
0.51 ± 0.32
0.45 ± 0.14
0.04 ± 0.04
0.01 ± 0.02
nd
nd
Transcription
 C9ZAB5
SCAB_30041d
Cyclic nucleotide-binding protein
0.03 ± 0.01
0.18 ± 0.11
0.17 ± 0.01
0.03 ± 0.06
nd
nd
Cell wall/membrane/envelope biogenesis
 C9YUC5
SCAB_4961
Glucuronoxylanase XynC
0.15 ± 0.09
0.30 ± 0.21
0.26 ± 0.10
nd
nd
0.04 ± 0.03
 C9Z8V2
SCAB_45141
D-alanyl-D-alanine carboxypeptidase
0.04 ± 0.02
0.42 ± 0.07
0.40 ± 0.12
0.04 ± 0.05
nd
nd
Defense mechanisms and virulence
 C9Z785
SCAB_44161d
β-lactamase
0.43 ± 0.07
0.51 ± 0.17
0.45 ± 0.12
0.02 ± 0.04
nd
nd
 C9Z160
SCAB_56441
Protease
0.39 ± 0.23
0.00 ± 0.01
nd
nd
0.21 ± 0.02
0.11 ± 0.05
Differentiation
 C9Z7Z7
SCAB_89661
Factor C morphological differentiation homolog
nd
0.14 ± 0.05
0.11 ± 0.06
nd
nd
0.01 ± 0.02
Energy production and conversion
 C9Z8E8
SCAB_28761d
ATP synthase subunit β
0.28 ± 0.06
0.48 ± 0.26
0.44 ± 0.15
0.07 ± 0.11
0.06 ± 0.07
0.13 ± 0.04
 C9Z8F0
SCAB_28781d
ATP synthase subunit α
0.17 ± 0.02
0.45 ± 0.11
0.40 ± 0.20
0.05 ± 0.06
0.06 ± 0.05
0.06 ± 0.03
 C9ZGW6
SCAB_34651d
Oxidoreductase
0.05 ± 0.08
0.33 ± 0.08
0.35 ± 0.07
0.02 ± 0.04
0.04 ± 0.05
0.05 ± 0.08
 C9ZE86
SCAB_79151
Cytokinin dehydrogenase
0.14 ± 0.01
0.36 ± 0.08
0.35 ± 0.07
nd
0.08 ± 0.10
0.21 ± 0.03
Lipid metabolism
 C9Z707
SCAB_28481d
Acetyl-CoA C-acetyltransferase FadA
0.04 ± 0.03
0.02 ± 0.03
nd
0.01 ± 0.01
nd
nd
 C9Z5Z2
SCAB_74351
Glycerophosphoryl diester phosphodiesterase
0.09 ± 0.02
0.23 ± 0.07
0.23 ± 0.04
nd
0.05 ± 0.05
0.03 ± 0.05
 C9ZCR0
SCAB_78851
Sphingolipid ceramide N-deacylase
0.24 ± 0.07
0.12 ± 0.05
0.03 ± 0.03
nd
0.15 ± 0.18
0.04 ± 0.03
Carbohydrate metabolism
 C9ZBE6
SCAB_0631
α-L-fucosidase
0.03 ± 0.00
0.08 ± 0.02
0.06 ± 0.03
nd
nd
0.01 ± 0.02
 C9YSR8
SCAB_3851
Fucosidase
0.18 ± 0.02
0.41 ± 0.16
0.35 ± 0.11
nd
nd
0.00 ± 0.01
 C9YSS0
SCAB_3881
Arabinofuranosidase
0.13 ± 0.01
0.39 ± 0.13
0.32 ± 0.15
nd
0.18 ± 0.16
0.04 ± 0.00
 C9YSS1
SCAB_3891
α-galactosidase
0.10 ± 0.06
0.22 ± 0.21
0.13 ± 0.11
nd
0.01 ± 0.01
nd
 C9YVN3
SCAB_5851
Putative secreted protein
0.01 ± 0.01
0.04 ± 0.03
0.04 ± 0.04
nd
0.02 ± 0.01
nd
 C9YVP9
SCAB_6021
Endo β-1.4-xylanase
0.29 ± 0.13
0.67 ± 0.20
0.65 ± 0.19
nd
0.04 ± 0.04
nd
 C9Z0D5
SCAB_8871
Endoglucanase
0.03 ± 0.00
0.05 ± 0.02
0.08 ± 0.05
nd
0.02 ± 0.01
0.02 ± 0.01
 C9Z1T6
SCAB_9291
Lactonase
nd
0.14 ± 0.05
0.20 ± 0.07
nd
0.02 ± 0.03
nd
 C9Z507
SCAB_11431
Glycosyl hydrolase
0.39 ± 0.10
0.88 ± 0.30
0.64 ± 0.17
nd
0.42 ± 0.13
0.33 ± 0.14
 C9Z878
SCAB_13491
Glycosyl hydrolase
nd
0.03 ± 0.02
0.04 ± 0.02
nd
nd
0.01 ± 0.01
 C9ZD50
SCAB_16431
Cellulase
0.43 ± 0.29
1.52 ± 0.86
1.04 ± 0.61
nd
0.93 ± 0.72
0.39 ± 0.04
 C9ZD59
SCAB_16521
Arabinofuranosidase
0.38 ± 0.12
1.07 ± 0.39
0.96 ± 0.36
nd
0.33 ± 0.24
0.33 ± 0.17
 C9ZEP9
SCAB_17001
Cellulase
0.05 ± 0.04
1.05 ± 0.47
1.05 ± 0.38
nd
0.29 ± 0.14
0.19 ± 0.14
 C9ZEQ0
SCAB_17011
Cellulase
0.15 ± 0.04
0.85 ± 0.26
0.73 ± 0.21
nd
0.02 ± 0.02
0.02 ± 0.02
 C9YT14
SCAB_19051
Solute-binding lipoprotein
nd
0.12 ± 0.05
0.21 ± 0.11
nd
0.09 ± 0.08
0.02 ± 0.02
 C9YT63
SCAB_19561
β-xylosidase
0.09 ± 0.10
0.23 ± 0.17
0.24 ± 0.17
nd
0.36 ± 0.18
0.20 ± 0.05
 C9YUL1
SCAB_19941
Glycosyl hydrolase
0.47 ± 0.08
0.46 ± 0.29
0.33 ± 0.18
0.04 ± 0.03
0.38 ± 0.12
0.26 ± 0.12
 C9YYV2
SCAB_22931
Arabinofuranosidase
0.24 ± 0.07
0.40 ± 0.20
0.35 ± 0.14
nd
0.22 ± 0.16
0.12 ± 0.03
 C9Z271
SCAB_25571
Glycosyl hydrolase
nd
0.22 ± 0.17
0.17 ± 0.07
nd
0.10 ± 0.09
nd
 C9YUZ2
SCAB_36371
Xylanase/cellulase
0.24 ± 0.10
0.51 ± 0.16
0.47 ± 0.13
0.02 ± 0.02
0.23 ± 0.18
0.14 ± 0.09
 C9Z5L1
SCAB_42951
Glucose / Sorbosone dehydrogenase
0.87 ± 0.12
4.30 ± 2.73
4.18 ± 1.77
0.14 ± 0.14
0.91 ± 0.35
0.60 ± 0.22
 C9Z737
SCAB_43661
Galactan endo-1.6-β-galactosidase
0.20 ± 0.08
0.32 ± 0.11
0.18 ± 0.08
0.01 ± 0.02
nd
nd
 C9Z7A0
SCAB_44311
α-galactosidase
0.13 ± 0.07
0.15 ± 0.03
0.12 ± 0.07
nd
0.07 ± 0.05
0.06 ± 0.05
 C9Z7A1
SCAB_44321
Glycosyl hydrolase
0.17 ± 0.05
0.05 ± 0.05
0.07 ± 0.04
nd
nd
0.01 ± 0.01
 C9YTK2
SCAB_51081
Cellulase
0.01 ± 0.01
0.57 ± 0.25
0.46 ± 0.13
nd
0.05 ± 0.07
nd
 C9Z2N2
SCAB_57161
Endo-β-1.6-galactanase
0.07 ± 0.03
0.36 ± 0.11
0.35 ± 0.04
nd
nd
0.02 ± 0.02
 C9Z451
SCAB_57751
Cellobiose-binding transport system
nd
0.11 ± 0.07
0.18 ± 0.06
nd
0.02 ± 0.02
nd
 C9ZDW4
SCAB_63891
ABC-type xylose transport system
0.13 ± 0.10
0.63 ± 0.14
0.34 ± 0.18
0.03 ± 0.04
1.00 ± 0.30
0.75 ± 0.15
 C9ZFW2
SCAB_66021
β-xylosidase
0.09 ± 0.02
0.23 ± 0.19
0.23 ± 0.18
nd
0.01 ± 0.02
0.01 ± 0.02
 C9ZFW3
SCAB_66031
Arabinofuranosidase
0.46 ± 0.06
0.73 ± 0.26
0.67 ± 0.14
0.03 ± 0.03
0.32 ± 0.15
0.26 ± 0.12
 C9YY63
SCAB_69711d
Phosphoglycerate kinase
0.07 ± 0.05
0.02 ± 0.02
0.00 ± 0.01
0.02 ± 0.02
nd
nd
 C9Z2V1
SCAB_72711
Endo β-1.4-xylanase
0.29 ± 0.12
0.20 ± 0.11
0.25 ± 0.05
nd
nd
0.05 ± 0.05
 C9Z4J7
SCAB_74141
α-N-furanosidase
0.34 ± 0.14
0.19 ± 0.11
0.20 ± 0.11
nd
0.01 ± 0.01
0.03 ± 0.02
 C9ZB22
SCAB_77441
α-arabinanase
0.06 ± 0.01
0.05 ± 0.01
0.06 ± 0.02
0.01 ± 0.02
0.08 ± 0.02
0.11 ± 0.02
 C9ZCR4
SCAB_78891
Glycosyl hydrolase
0.08 ± 0.06
0.28 ± 0.16
0.16 ± 0.06
nd
0.00 ± 0.01
0.11 ± 0.06
 C9ZE94
SCAB_79241
Arabinofuranosidase
0.60 ± 0.16
1.90 ± 0.61
1.51 ± 0.68
nd
0.25 ± 0.11
0.07 ± 0.06
 C9ZE95
SCAB_79251
Xylanase A
0.79 ± 0.30
3.26 ± 1.60
3.17 ± 1.14
0.04 ± 0.01
0.13 ± 0.06
0.12 ± 0.06
 C9Z041
SCAB_84801
Arabinase
0.17 ± 0.06
0.46 ± 0.20
0.45 ± 0.15
0.03 ± 0.06
0.61 ± 0.11
0.47 ± 0.11
 C9Z1I5
SCAB_85231
Chitinase
0.17 ± 0.02
0.80 ± 0.13
0.46 ± 0.16
nd
0.42 ± 0.19
0.26 ± 0.16
 C9Z351
SCAB_86311
Endoglucanase
nd
0.29 ± 0.16
0.27 ± 0.21
nd
0.01 ± 0.02
0.02 ± 0.03
 C9Z674
SCAB_88071
Arabinofuranosidase
0.05 ± 0.04
0.14 ± 0.04
0.14 ± 0.06
nd
0.05 ± 0.05
0.02 ± 0.03
 C9Z804
SCAB_89741
Cellulose-binding protein
0.33 ± 0.09
0.96 ± 0.23
0.55 ± 0.12
nd
0.33 ± 0.14
0.24 ± 0.03
 C9Z9L5
SCAB_90081
Cellulase B
0.21 0.08
0.21 0.08
0.11 ± 0.03
nd
0.03 0.04
0.03 0.03
 C9Z9L6
SCAB_90091
Cellulase
0.30 ± 0.09
0.85 ± 0.30
0.67 ± 0.22
nd
0.07 ± 0.06
0.06 ± 0.04
 C9Z9L7
SCAB_90101
Cellulase
0.59 ± 0.21
1.03 ± 0.39
0.75 ± 0.40
nd
0.56 ± 0.47
0.19 ± 0.07
Amino acid metabolism
 C9Z1W0
SCAB_9531d
Catalase-peroxidase
0.10 ± 0.01
0.06 ± 0.06
0.04 ± 0.05
0.06 ± 0.05
nd
nd
 C9Z862
SCAB_13321
X-prolyl-dipeptidyl aminopeptidase
0.21 ± 0.16
0.28 ± 0.02
0.18 ± 0.09
0.02 ± 0.03
nd
nd
 C9ZGG7
SCAB_18081
γ-glutamyltranspeptidase
0.39 ± 0.06
0.32 ± 0.08
0.32 ± 0.08
0.01 ± 0.01
nd
0.02 ± 0.02
 C9ZGM2
SCAB_18661
Serine protease
0.19 ± 0.17
nd
nd
0.01 ± 0.02
0.17 ± 0.16
nd
 C9Z6V3
SCAB_27921
Neutral zinc metalloprotease
0.23 ± 0.12
0.04 ± 0.02
0.04 ± 0.01
0.01 ± 0.02
0.03 ± 0.03
nd
 C9ZAN4
SCAB_46111
Single-stranded DNA-binding protein
0.16 ± 0.05
0.26 ± 0.12
0.29 ± 0.09
0.04 ± 0.06
0.05 ± 0.05
0.11 ± 0.05
 C9YTK4
SCAB_51101d
Phosphoserine aminotransferase
0.14 ± 0.09
0.41 ± 0.23
0.50 ± 0.16
0.06 ± 0.05
0.09 ± 0.05
0.07 ± 0.06
 C9Z498
SCAB_58251
Tripeptidyl aminopeptidase
0.26 ± 0.03
0.10 ± 0.06
0.08 ± 0.05
0.10 ± 0.11
0.06 ± 0.05
0.01 ± 0.01
 C9ZHG5
SCAB_66881d
Glutamine synthetase
0.05 ± 0.04
0.30 ± 0.09
0.09 ± 0.05
0.01 ± 0.02
nd
0.03 ± 0.01
 C9YY61
SCAB_69691
Zinc-binding carboxypeptidase
0.16 ± 0.04
0.05 ± 0.01
0.04 ± 0.02
0.02 ± 0.01
0.07 ± 0.02
0.05 ± 0.02
 C9YZP9
SCAB_70761
Solute-binding protein
0.11 ± 0.05
0.46 ± 0.22
0.35 ± 0.17
nd
0.43 ± 0.19
0.29 ± 0.08
 C9Z1E7
SCAB_72231
Serine protease
0.28 ± 0.15
0.58 ± 0.20
0.50 ± 0.13
0.01 ± 0.02
0.25 ± 0.07
0.24 ± 0.12
 C9Z1N0
SCAB_85681d
Tyrosinase
0.31 ± 0.05
0.02 ± 0.03
0.01 ± 0.01
0.01 ± 0.02
0.01 ± 0.02
nd
Nucleotide metabolism
 C9ZGX4
SCAB_49491
5'-nucleotidase
0.17 ± 0.07
0.12 ± 0.05
0.06 ± 0.04
0.01 ± 0.01
nd
nd
Inorganic ion metabolism
 C9ZH91
SCAB_66141
Alkaline phosphatase
0.21 ± 0.07
0.25 ± 0.03
0.18 ± 0.08
nd
nd
0.03 ± 0.03
General function prediction only
 C9Z871
SCAB_13411
Oxidoreductase
1.04 ± 0.30
0.87 ± 0.20
0.70 ± 0.28
0.22 ± 0.16
0.16 ± 0.21
0.02 ± 0.03
 C9ZAW6
SCAB_62471
Aminopeptidase
0.30 ± 0.07
0.54 ± 0.28
0.43 ± 0.17
0.01 ± 0.01
0.19 ± 0.14
0.02 ± 0.02
 C9ZE96
SCAB_79261
Feruloyl esterase
0.30 ± 0.16
0.48 ± 0.29
0.41 ± 0.20
nd
0.03 ± 0.04
0.03 ± 0.02
Unknown function
 C9YVL7
SCAB_5681
 
0.44 ± 0.20
0.61 ± 0.19
0.54 ± 0.31
nd
0.11 ± 0.14
nd
 C9YUN3
SCAB_20171
 
0.11 ± 0.11
0.08 ± 0.06
0.09 ± 0.03
nd
0.09 ± 0.05
0.03 ± 0.05
 C9ZGQ1
SCAB_33981
 
1.19 ± 0.44
3.88 ± 1.18
2.99 ± 0.95
0.18 ± 0.09
1.95 ± 0.48
1.33 ± 0.32
 C9YUT0
SCAB_35731
 
0.14 ± 0.05
nd
nd
nd
nd
0.06 ± 0.05
 C9Z411
SCAB_41931
 
0.07 ± 0.12
nd
nd
nd
0.07 ± 0.12
nd
 C9ZHG0
SCAB_66831
 
0.09 ± 0.04
0.12 ± 0.07
0.09 ± 0.11
0.09 ± 0.00
0.01 ± 0.03
nd
 C9Z4J0
SCAB_74081
 
0.30 ± 0.06
0.44 ± 0.32
0.32 ± 0.17
nd
0.02 ± 0.04
0.01 ± 0.01
 C9Z7P8 SCAB_75721   0.29 ± 0.04 0.34 ± 0.08 0.24 ± 0.09 nd 0.01 ± 0.02 0.10 ± 0.07

aUniprot accession number; bData are the mean of three replicates; cnd: not detected; dProtein with intracellular localisation prediction.