gudB
BSGatlas-gene-2699
BSGatlas
| Description | Information |
|---|---|
| Coordinates | 2402067..2403350 |
| Genomic Size | 1284 bp |
| Name | gudB |
| Outside Links | SubtiWiki |
| BsubCyc | |
| Strand | - |
| Type | CDS |
SubtiWiki
| Description | Information |
|---|---|
| Alternative Name | gudB |
| gudB | |
| ypcA | |
| Category | SW 2 Metabolism |
| SW 2.3 Amino acid/ nitrogen metabolism | |
| SW 2.3.2 Utilization of amino acids | |
| SW 2.3.2.1 Utilization of glutamine/ glutamate | |
| SW 3 Information processing | |
| SW 3.4 Regulation of gene expression | |
| SW 3.4.2 Transcription factors and their control | |
| SW 3.4.2.7 Control of transcription factor (other than two-component system) | |
| SW 3.4.3 Trigger enzyme | |
| SW 3.4.3.2 Trigger enzymes that control gene expression by protein-protein interaction with transcription factors | |
| SW 6 Groups of genes | |
| SW 6.4 Phosphoproteins | |
| SW 6.4.1 Phosphorylation on an Arg residue | |
| Description | glutamate dehydrogenase, trigger enzyme |
| Enzyme Classifications | EC 1.4.1.2: glutamate dehydrogenase |
| Function | glutamate utilization, control of [[protein|87BCAE725B02860156D50E1783F6DB68510C811E]] activity |
| Is essential? | no |
| Isoelectric point | 5.58 |
| Locus Tag | BSU_22960 |
| Molecular weight | 47.0484 |
| Name | gudB |
| Product | glutamate dehydrogenase, trigger enzyme |
RefSeq
| Description | Information |
|---|---|
| Alternative Locus Tag | BSU22960 |
| Description | Evidence 1a: Function from experimental evidencesin the studied strain; PubMedId: 9829940, 18326565,22178969, 22720735, 25610436; Product type e: enzyme |
| Enzyme Classifications | EC 1.4.1.2: glutamate dehydrogenase |
| Functions | 16.11: Scavenge (Catabolism) |
| Locus Tag | BSU_22960 |
| Name | gudB |
| Title | cryptic glutamate dehydrogenase (active afterremoval of a 9 bp insert) |
| Type | CDS |
BsubCyc
| Description | Information |
|---|---|
| Alternative Name | ypcA |
| Citation | Gunka K;Stannek L;Care RA;Commichau FM Selection-Driven Accumulation of Suppressor Mutants in Bacillus subtilis: The Apparent High Mutation Frequency of the Cryptic gudB Gene and the Rapid Clonal Expansion of gudB(+) Suppressors Are Due to Growth under Selection. PLoS One 8(6);e66120 (2013) PUBMED: 23785476 |
| Gunka K;Tholen S;Gerwig J;Herzberg C;Stulke J;Commichau FM A high-frequency mutation in Bacillus subtilis: requirements for the decryptification of the gudB glutamate dehydrogenase gene. J Bacteriol 194(5);1036-44 (2012) PUBMED: 22178973 | |
| Lee YH;Kingston AW;Helmann JD Glutamate dehydrogenase affects resistance to cell wall antibiotics in Bacillus subtilis. J Bacteriol 194(5);993-1001 (2012) PUBMED: 22178969 | |
| Stannek L;Gunka K;Care RA;Gerth U;Commichau FM Factors that mediate and prevent degradation of the inactive and unstable GudB protein in Bacillus subtilis. Front Microbiol 5;758 (2014) PUBMED: 25610436 | |
| Stannek L;Thiele MJ;Ischebeck T;Gunka K;Hammer E;Volker U;Commichau FM Evidence for synergistic control of glutamate biosynthesis by glutamate dehydrogenases and glutamate in Bacillus subtilis. Environ Microbiol (2015) PUBMED: 25711804 | |
| Comment | 16.11: Scavenge (Catabolism) |
| Description | cryptic glutamate dehydrogenase |
| Enzyme Classifications | EC 1.4.1.2: glutamate dehydrogenase |
| Gene Ontology | GO:0004352 glutamate dehydrogenase (NAD+) activity |
| GO:0006520 cellular amino acid metabolic process | |
| GO:0016491 oxidoreductase activity | |
| GO:0016639 oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor | |
| GO:0055114 oxidation-reduction process | |
| Locus Tag | BSU22960 |
| Molecular weight | 47.34 |
| Name | gudB |
Nicolas et al. predictions
| Description | Information |
|---|---|
| Expression neg. correlated with | new_4194210_4195441_c, BSU08400, BSU03690, BSU07980, new_1252061_1252565_c, BSU13050, BSU25730, BSU23940, BSU37190, new_3299701_3300252 |
| Expression pos. correlated with | BSU28440, BSU28450, BSU28430, BSU31350, new_2908738_2908833_c, BSU10200, BSU19370, BSU40960, BSU37110, BSU31750 |
| Highly expressed condition | (BI) Cultures were inoculated from frozen glycerol stocks and grown overnight in LB at 37°C. These cultures were thendiluted, plated onto LB plates, and incubated for 16 h at 37°C. Cells were harvested from plates containing individual colonies [BI] andfrom plates with confluen growth [BC]. |
| (dia0) Diamide was added to an exponentially growing culture (OD600 approx. 0.6) at a sub-lethal concentration(0.5 mM) and growth continued at 37°C with vigorous shaking. Samples were collected 0, 5 and 15 minutes after diamide addition [dia0, dia5 and dia15]. | |
| (dia5) Diamide was added to an exponentially growing culture (OD600 approx. 0.6) at a sub-lethal concentration(0.5 mM) and growth continued at 37°C with vigorous shaking. Samples were collected 0, 5 and 15 minutes after diamide addition [dia0, dia5 and dia15]. | |
| (LBexp) Cells were grown in Luria-Bertani medium (Sigma) [LB] at 37°C with vigorous shaking in flasks. Overnight cultures were diluted 2000-fold in fresh pre-warmed medium and samples were collected during the exponential [exp], transition [tran] and stationary [stat] phases of the growth cycle . | |
| (LBGtran) Cells were grown in Luria-Bertani medium (Sigma) supplemented with glucose 0.3 % [LBG] at 37°C with vigorous shaking in flasks. Overnight cultures were diluted 2000-fold in fresh pre-warmed medium and samples were collected during the exponential [exp], transition [tran] and stationary [stat] phases of the growth cycle . | |
| (LBstat) Cells were grown in Luria-Bertani medium (Sigma) [LB] at 37°C with vigorous shaking in flasks. Overnight cultures were diluted 2000-fold in fresh pre-warmed medium and samples were collected during the exponential [exp], transition [tran] and stationary [stat] phases of the growth cycle . | |
| (M0t90) Cells were grown in LB medium at 37°C with vigorous shaking. An exponentially growing culture (O.D.600 approx. 0.25) was divided: one culture acted as the control [no mitomycin C , M0] while mitomycin was added to the second culture to a final concentration of 40 ng/ml [mitomycin, M40]. Samples were harvested at 0, 45 and 90 minutes after mitomycin addition [t0, t45 and t90]. | |
| (M40t90) Cells were grown in LB medium at 37°C with vigorous shaking. An exponentially growing culture (O.D.600 approx. 0.25) was divided: one culture acted as the control [no mitomycin C , M0] while mitomycin was added to the second culture to a final concentration of 40 ng/ml [mitomycin, M40]. Samples were harvested at 0, 45 and 90 minutes after mitomycin addition [t0, t45 and t90]. | |
| (Mt0) Cells were grown in LB medium at 37°C with vigorous shaking. An exponentially growing culture (O.D.600 approx. 0.25) was divided: one culture acted as the control [no mitomycin C , M0] while mitomycin was added to the second culture to a final concentration of 40 ng/ml [mitomycin, M40]. Samples were harvested at 0, 45 and 90 minutes after mitomycin addition [t0, t45 and t90]. | |
| (S0) Cells were grown in CH medium at 37°C and sporulation was induced by resuspension in warm sporulation medium as described by Sterlini and Mandelstam (J. M. Sterlini, J. Mandelstam, Biochem J 113, 29, Jun, 1969). The initiation of sporulation was designated T0, the time of resuspension. Samples were harvested at hourly intervals for 6 hours [S0 to S6] for the first set of experiments and for 8 hours [S0 to S8] for a second set of experiments. | |
| Lowely expressed condition | (G135) Purified spores were obtained by growing cells in DSM medium (P. Schaeffer, J. Millet, J. P. Aubert, Proc Natl Acad Sci U S A 54, 704, Sep, 1965) at 37°C for 48 hours after which they were washed ten times in ice cold distilled waterover a period of 5 days. Purified spores were heat activated at 70°C in Tris 10 mM pH8.4 and germination was initiated by the addition of L-alanine 10 mM (A. Moir, J Bacteriol 146, 1106, Jun, 1981). After incubation for one hour at 37°C, the culture was diluted with an equal volume of 2X LBmedium and germinating cells were harvested at 135, 150 or 180 minutes after addition of L-alanine [G135, G150 and G180]. |
| (H2O2) Cells were grown in LB medium at 37°C. At OD540 of 0.3, the culture were divided into four subcultures and diamide 0.6 mM [Diami], paraquat 0.4 mM [Paraq], H2O2 0.1mM [H2O2] or no oxidative drug [Oxctl] were added to the medium. Samples were taken 10 minutes after addition | |
| (nit) Cells were grown in a synthetic medium (E. Härtig, A. Hartmann, M. Schätzle, A. M. Albertini, D. Jahn, Appl Environ Microbiol 72, 5260, 2006) at 37 °C. For aerobic growth, an overnight culture was used to inoculate 100 ml of the synthetic medium to a starting OD578 of 0.05. The culture was then incubated in a 500 ml baffled flask with shaking at 250 rpm [aero]. Anaerobic growth was carried out (i) in the presence of 10 mM potassium nitrate (nitrate respiration) [nit]; or (ii) in the absence of 10 mM postassium nitrate (fermentative growth) [ferm]. The procedure for anaerobic growth was: medium was inoculated to an OD578 nm of 0.1 in flasks completely filled with medium and sealed with rubber stoppers. They were shaken at 100 rpm to minimize cell aggregation. These cultures were inoculated aerobically with an aerobically grown overnight culture. Anaerobic conditions were achieved in the stoppered flasks after a short time through the consumption of residual oxygen. Cells were harvested during the exponential growth phase. | |
| (S5) Cells were grown in CH medium at 37°C and sporulation was induced by resuspension in warm sporulation medium as described by Sterlini and Mandelstam (J. M. Sterlini, J. Mandelstam, Biochem J 113, 29, Jun, 1969). The initiation of sporulation was designated T0, the time of resuspension. Samples were harvested at hourly intervals for 6 hours [S0 to S6] for the first set of experiments and for 8 hours [S0 to S8] for a second set of experiments. | |
| (S6) Cells were grown in CH medium at 37°C and sporulation was induced by resuspension in warm sporulation medium as described by Sterlini and Mandelstam (J. M. Sterlini, J. Mandelstam, Biochem J 113, 29, Jun, 1969). The initiation of sporulation was designated T0, the time of resuspension. Samples were harvested at hourly intervals for 6 hours [S0 to S6] for the first set of experiments and for 8 hours [S0 to S8] for a second set of experiments. | |
| (S7) Cells were grown in CH medium at 37°C and sporulation was induced by resuspension in warm sporulation medium as described by Sterlini and Mandelstam (J. M. Sterlini, J. Mandelstam, Biochem J 113, 29, Jun, 1969). The initiation of sporulation was designated T0, the time of resuspension. Samples were harvested at hourly intervals for 6 hours [S0 to S6] for the first set of experiments and for 8 hours [S0 to S8] for a second set of experiments. | |
| (S8) Cells were grown in CH medium at 37°C and sporulation was induced by resuspension in warm sporulation medium as described by Sterlini and Mandelstam (J. M. Sterlini, J. Mandelstam, Biochem J 113, 29, Jun, 1969). The initiation of sporulation was designated T0, the time of resuspension. Samples were harvested at hourly intervals for 6 hours [S0 to S6] for the first set of experiments and for 8 hours [S0 to S8] for a second set of experiments. | |
| (Salt) Cells were grown in Spizizen’s minimal medium (SMM) at 37 °C with vigorous shaking. Salt was added, to a final concentration of 0.4 M to an exponentially growing culture of cells at OD500 of 0.4. Samples were harvested before [SMM] and 10 minutes after [Salt] NaCl addition. | |
| (T-5.40H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H]. | |
| (T5.0H) Anon-sporulating B. subtilis strain was grown in a modified M9 medium in batch culture (T. Hardiman, K. Lemuth, M. A. Keller, M. Reuss, M. Siemann-Herzberg, J Biotechnol 132, 359, Dec 1, 2007). Glucose was exhausted when the culture reached an OD600 of approx. 10 and this was designated T0 [T0.0H]. 7 samples were harvested at various times before glucose exhaustion [T-5.40H to T-0.40H] and 10 samples at various times after glucose exhaustion [T0.30H to T5.0H]. | |
| Name | gudB |