Table 1 Summary of information on the 49 bacteria having a DIRL protein
From: Investigation of dirigent like domains from bacterial genomes
n° | Bacteria species | Coloration of Gram | UniprotAccession number of DIRL | Secondary metabolism clusters via AntiSMASH version 6.0 | Protein size (AA) | Identity % with AtDIR6 (clustalW) (%) | Similarity % with AtDIR6 (%) | Peptide signal prediction size (AA) by The SignalP 5.0 tool | S–S bridge prediction position/probability Score by AlphaFold | N-Glycosylation prediction in prokaryotes via Glycopp with score > 0,8 | Bacterial family number via phylogenie results |
|---|---|---|---|---|---|---|---|---|---|---|---|
1 | Streptomyces sp. Root1304 | + | A0A0T1SRD5 | 23 | 166 | 22 | 30 | 29 | 84–98 | 0 | I |
2 | Streptomyces sp. PanSC19 | + | A0A3N1Q171 | 22 | 167 | 22 | 27 | 30 | 85–99 | 0 | I |
3 | Streptomyces sp. 62 | + | A0A3D9LXQ3 | 29 | 167 | 22 | 33 | 30 | 85–99 | 0 | i |
4 | Sphaerobacter thermophilus strain DSM 20745 | + | D1C1V3 | 1 | 173 | 21 | 35 | 36 | 155–169 | 0 | NO |
5 | Kutzneria albida DSM 43870 | + | W5WKJ3 | 46 | 164 | 21 | 28 | 34 | no S–S bridge | 0 | NO |
6 | Streptomyces vietnamensis GIMV4.0001 | + | A0A0B5I9B2 | 28 | 160 | 20 | 29 | 32 | 87–101 | 0 | i |
7 | Streptomyces viridochromogenes | + | A0A0L8K704 | 0 | 166 | 20 | 27 | 29 | 84–98 | 0 | i |
8 | Cystobacter fuscus DSM 52655 | − | A0A250IWY0 | 47 | 154 | 20 | 39 | 27 | 81–92 | 0 | IV |
9 | Streptomyces bottropensis ATCC 25435 | + | M3F484 | 30 | 161 | 19 | 30 | 29 | 89–100 | 0 | NO |
10 | Nocardioides iriomotensis NBRC 105384 | + | A0A4Q5J010 | 5 | 152 | 19 | 32 | 24 | 91–92 | 0 | NO |
11 | Methylomicrobium alcaliphilum | − | G4T3L1 | 9 | 147 | 19 | 31 | 19 | 76–87 | 0 | iii |
12 | Archangium violaceum Cb vi76 | − | A0A084SGS8 | 0 | 148 | 19 | 32 | 21 | 75–86 | 0 | IV |
13 | Chloroflexi bacterium GWC2_73_18 | − | A0A1F8LMI0 | 1 | 155 | 18 | 31 | 25 | 82–93 | 0 | NO |
14 | Nocardia mexicana DSM 44952 | + | A0A370GIR3 | 38 | 161 | 18 | 29 | 35 | 87–101 | 0 | NO |
15 | Gammaproteobacteria bacterium HGW | − | A0A2N1ZX47 | 10 | 146 | 18 | 30 | 18 | 75–86 | 0 | III |
16 | Cystobacter fuscus DSM 2262 | − | S9NWQ1 | 44 | 137 | 18 | 27 | ND | 64–75 | 0 | IV |
17 | Archangium gephyra | − | A0A0L8K704 | 41 | 151 | 17 | 27 | 19 | 78–89 | 0 | IV |
18 | Cystobacter ferrugineus str. Cbfe23 | − | A0A1L9B5J6 | 41 | 137 | 17 | 27 | ND | 64–75 | 0 | IV |
19 | Streptomyces sp. SA15 | + | A0A2A2YWR6 | 51 | 206 | 17 | 33 | 30 | 106–118 | 0 | V |
20 | Stigmatella erecta | − | A0A1I0JK20 | 29 | 162 | 17 | 25 | ND | 89–100 | 0 | IV |
21 | Streptomyces alboflavus str. MDJK44 | + | A0A1Z1WCN3 | 29 | 163 | 17 | 32 | 27 | no S–S bridge | 0 | II |
22 | Streptomyces sp. NWU339 | + | A0A2U2Z012 | 32 | 205 | 17 | 32 | 30 | 105–112 | 0 | V |
23 | Streptomyces formicae KY5 | + | A0A291Q4S1 | 45 | 163 | 16 | 28 | 33 | no S–S bridge | 0 | II |
24 | Streptomyces sp. CB02400 | + | A0A1Q5L121 | 33 | 205 | 16 | 28 | 30 | 105–117 | 0 | V |
25 | Streptomyces caelestis | + | A0A0M8QLY2 | 42 | 205 | 16 | 27 | 30 | 105–117 | 0 | V |
26 | Pseudonocardiales bacterium YIM PH 21723 | + | A0A2W6DT35 | 4 | 168 | 16 | 28 | 33 | 96–109 | 0 | NO |
27 | Methylomicrobium kenyense (AMO1) | − | A0A543V9V5 | 7 | 149 | 16 | 27 | ND | 2 S–S bridges:76–148/87/123 | 0 | III |
28 | Streptomyces griseoruber str. DSM 40281 | + | A0A101SV50 | 36 | 161 | 16 | 25 | 29 | 89–100 | 0 | NO |
29 | Chloroflexi bacterium | − | A0A3A0ARB1 | 9 | 201 | 16 | 27 | 27 | only one Cys | 0 | NO |
30 | Thiogranum longum str. DSM 19610 | − | A0A4R1H9Y2 | 3 | 148 | 16 | 25 | 21 | 76–87 | 0 | III |
31 | Streptomyces fungicidicus str. TXX3120 | + | A0A494UTW6 | 17 | 205 | 15 | 28 | ND | 104–116 | 0 | V |
32 | Streptomyces toyocaensis str. NRRL 15009 | + | A0A081XHD4 | 28 | 205 | 15 | 29 | 30 | 105–117 | 0 | V |
33 | Streptomyces showdoensis ATCC 15227 | + | A0A2P2GJ53 | 29 | 167 | 15 | 21 | 29 | 86–99 | 0 | I |
34 | Enterobacter ludwigii str. P101 | − | W0BV16 | 6 | 154 | 15 | 22 | 19 | 83–94 | 0 | NO |
35 | Stigmatella aurantiaca | − | A0A1H7HD66 | 28 | 162 | 15 | 25 | 35 | 89–100 | 0 | IV |
36 | Modestobacter sp. DSM 44400 | + | A0A1H3KGG2 | 5 | 123 | 15 | 25 | ND | 41–52 | 0 | NO |
37 | Streptomyces radiopugnans | + | A0A1H9DCJ1 | 2 | 205 | 15 | 27 | 32 | 105–117 | 0 | V |
38 | Methylomicrobium buryatense str. 5GB1C | − | A0A4P9UY52 | 9 | 131 | 15 | 26 | ND | no S–S bridge | 0 | III |
39 | Vitiosangium sp. GDMCC 1.1324 | − | A0A2T4VJB7 | 56 | 146 | 15 | 25 | ND | 74–85 | 0 | IV |
40 | Archangium sp. Cb G35 | − | A0A1Q3H6L3 | 48 | 145 | 15 | 23 | ND | 72–83 | 0 | IV |
41 | Cellulomonas aerilata | + | A0A512DF30 | 3 | 174 | 14 | 25 | 24 | 99–115 | 0 | NO |
42 | Streptomyces sp. NRRL S-4 | + | A0A0N1K8E7 | 43 | 203 | 14 | 25 | 30 | 105–117 | 0 | V |
43 | Streptomyces silvensis ATCC 53525 | + | A0A0W7X1T4 | 50 | 166 | 14 | 26 | 33 | no S–S bridge | 0 | II |
44 | Streptomyces sp. CNZ306 | + | A0A2M9A2V5 | 7 | 258 | 14 | 27 | ND | 158–170 | 0 | V |
45 | Streptomyces dysideae sp. RV15 | + | A0A124IFP4 | 32 | 187 | 13 | 23 | 36 | 112–124 | 0 | V |
46 | Streptomyces regalis | + | A0A0X3UWY4 | 41 | 122 | 13 | 18 | ND | 47–59 | 0 | V |
47 | Streptomyces sp. 13–12-16 | + | A0A1X4I170 | 42 | 205 | 12 | 24 | 30 | 105–117 | 0 | V |
48 | Streptoalloteichus hindustanus | + | A0A1M5GN54 | 31 | 161 | 12 | 22 | 31 | 87–101 | 0 | V |
49 | Hyalangium minutum | − | A0A085VSV8 | 34 | 96 | 12 | 20 | ND | no S–S bridge | 0 | IV |