Table 4.
Riboswitches identified in B. methanolicus MGA3 and their respective transcriptional organization, ligand and function
| Riboswitch and its transcriptional organization | Ligand | Related function | Locus tag(s) |
|---|---|---|---|
| (AdoCbl)*-yvrC-yvrB-BMMGA3_01180-cobD-BMMGA3_01190-cobU-cobQ | Adenosylcobalamin | Cobalamin biosynthesis and transport | BMMGA3_01170- BMMGA3_01200 |
| (AdoCbl)-metE | B12-independent methionine synthase | BMMGA3_08635 | |
| (AdoCbl)-nrdAB | Ribonucleotide-diphosphate reductase | BMMGA3_09290 | |
| (FMN)-ribD-ribE-ribBA-ribH | Flavin mononucleotide | Riboflavin biosynthesis | BMMGA3_09890-BMMGA3_09905 |
| (FMN)-fmnP | Riboflavin transport | BMMGA3_10940 | |
| (SAM)-BMMGA3_009040 | S-adenosylmethionine | Unknown function | BMMGA3_09040 |
| (SAM)-metK | S-adenosylmethionine synthesis | BMMGA3_13565 | |
| (SAM)-cysH-sat-cysC-nirA-BMMGA3_02575-cobA-sirB1-ytnM | Sulfur assimilation | BMMGA3_02555-BMMGA3_02595 | |
| (SAM)-metN-metP-metQ | Methionine ABC transporter | BMMGA3_14365-BMMGA3_14375 | |
| (SAM)-mtnW-mtnX-mtnB-mtnD | Methionine salvage | BMMGA3_05045-BMMGA3_05060 | |
| (SAM)-BMMGA3_01840-BMMGA3_01845-BMMGA3_01850 | Unknown function | BMMGA3_01840-BMMGA3_01850 | |
| (SAM)-dmoA | DMS degradation | BMMGA3_09055 | |
| (SAM)-mtnK | Methionine salvage | BMMGA3_05030 | |
| (SAM)-BMMGA3_08645-BMMGA3_08640 | Unknown function | BMMGA3_08640-BMMGA3_08645 | |
| (SAM)-BMMGA3_03025 | Methionine biosynthesis | BMMGA3_03025 | |
| (SAM)-BMMGA3_14380 | Methionine biosynthesis | BMMGA3_14380 | |
| (SAM)-metI-metC-yitJ-metH | Methionine biosynthesis | BMMGA3_08600-BMMGA3_08615 | |
| (SAM)-(PyrR)- BMMGA3_09265-BMMGA3_09270 | Major Facilitator Superfamily (MFS) transporter | BMMGA3_09265-BMMGA3_09270 | |
| (SAM)-(PyrR)-BMMGA3_03030-ssuA1-ssuC1-ssuB1-acsA1-thrA | Sulfonate uptake | BMMGA3_03030-BMMGA3_03055 | |
| (SAM)-(PyrR)-metN1-metP1-metQ1 | Methionine ABC transporter | BMMGA3_08730-BMMGA3_08740 | |
| (TPP)-thiD-thiE | Thiamine pyrophosphate | Biosynthesis of thiamine | BMMGA3_03005-BMMGA3_03010 |
| (TPP)-tenA-tauB-tauC | ABC transporter | BMMGA3_07350-BMMGA3_07360 | |
| (TPP)-thiW | Thiamine uptake | BMMGA3_01780 | |
| (TPP)-tauA-BMMGA3_09465-tauC-tauB-tatD | ABC transporter | BMMGA3_09450-BMMGA3_09470 | |
| (TPP)-tenI-thiO-thiS-thiG-moeB | Biosynthesis of thiamine | BMMGA3_01095-BMMGA3_01115 | |
| (Gly)-gcvT-gcvPA-gcvPB | Glycine | Glycine utilization | BMMGA3_11545-BMMGA3_11555 |
| (Gly)-BMMGA3_03000 | Unknown function | BMMGA3_03000 | |
| (Lys)-BMMGA3_01150 | Lysine | Arginine/ornithine antiporter | BMMGA3_01150 |
| (Pur)-pbuG | Purines | Hypoxanthine and guanine uptake | BMMGA3_01600 |
| (Pur)-guaA | Purine salvage | BMMGA3_01595 | |
| (Pur)-purE-purK-purB-purC-purS-purQ-purL-purF-purM-purN-purH | Purine biosynthesis | BMMGA3_01635-BMMGA3_01690 | |
| (Pur)-xpt-pbuX | Xanthine salvage and catabolism | BMMGA3_10440-BMMGA3_10445 | |
| (PreQ1)-queF | 7-amminomethyl-7-deazaguanine | Queuosine biosynthesis | BMMGA3_03100 |
| (PreQ1)-queC-queD-queE | Queuosine biosynthesis | BMMGA3_09070-BMMGA3_09080 | |
| (c-di-GMP)-BMMGA3_15625 | Cyclic di-GMP | Unknown function | BMMGA3_15625 |
| (c-di-GMP)-BMMGA3_04760-BMMGA3_04765 | Intracellular signal transduction | BMMGA3_04760-BMMGA3_04765 | |
| (c-di-GMP)-sinI | Control of biofilm formation | BMMGA3_08510 | |
| (c-di-GMP)-BMMGA3_15380 | Unknown function | BMMGA3_15380 | |
| (ydaO/yuaA)-BMMGA3_02260 | Cyclic di-AMP | Membrane protein | BMMGA3_02260 |
| (ydaO/yuaA)-BMMGA3_14870 | Amino acid permease | BMMGA3_14870 | |
| (glmS)-glmS | Glucosamine-6-phosphate | Glutamine-fructose-6-phosphate transaminase | BMMGA3_01020 |