desK
BSGatlas-gene-2263
BSGatlas
Description | Information |
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Coordinates | 2090574..2091686 |
Genomic Size | 1113 bp |
Name | desK |
Outside Links | SubtiWiki |
BsubCyc | |
Strand | + |
Type | CDS |
SubtiWiki
Description | Information |
---|---|
Alternative Name | desK |
desK | |
yocF | |
Category | SW 2 Metabolism |
SW 2.4 Lipid metabolism | |
SW 2.4.3 Lipid metabolism/ other | |
SW 3 Information processing | |
SW 3.3 Protein synthesis, modification and degradation | |
SW 3.3.4 Protein modification | |
SW 3.3.4.2 Protein kinases | |
SW 3.4 Regulation of gene expression | |
SW 3.4.2 Transcription factors and their control | |
SW 3.4.2.2 Control of two-component response regulators | |
SW 3.4.2.2.1 Two-component sensor kinase | |
SW 4 Lifestyles | |
SW 4.3 Coping with stress | |
SW 4.3.5 Cold stress proteins | |
SW 6 Groups of genes | |
SW 6.2 Membrane proteins | |
SW 6.4 Phosphoproteins | |
SW 6.4.4 Phosphorylation on a His residue | |
Description | two-component sensor kinase, regulation of cold shock expression of [[gene|644C0C354B72FC07222EE45F4D2E0E57434B5EB5]] |
Function | regulation of cold shock expression of [[gene|644C0C354B72FC07222EE45F4D2E0E57434B5EB5]] |
Is essential? | no |
Isoelectric point | 9.43 |
Locus Tag | BSU_19190 |
Molecular weight | 42.5142 |
Name | desK |
Product | two-component sensor kinase |
RefSeq
Description | Information |
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Alternative Locus Tag | BSU19190 |
Description | Evidence 1a: Function from experimental evidencesin the studied strain; PubMedId: 11285232, 11717295,12207704, 14734164, 15090506, 15711796, 23356219,24574048, 26172072, 28475313; Product type rc: receptor |
Functions | 16.12: Sense |
16.3: Control | |
Locus Tag | BSU_19190 |
Name | desK |
Title | two-component thermosensor histidine kinase[DesR-DesK] |
Type | CDS |
BsubCyc
Description | Information |
---|---|
Alternative Name | yocF |
Citation | Albanesi D;Martin M;Trajtenberg F;Mansilla MC;Haouz A;Alzari PM;de Mendoza D;Buschiazzo A Structural plasticity and catalysis regulation of a thermosensor histidine kinase. Proc Natl Acad Sci U S A 106(38);16185-90 (2009) PUBMED: 19805278 |
Cybulski LE;Martin M;Mansilla MC;Fernandez A;de Mendoza D Membrane thickness cue for cold sensing in a bacterium. Curr Biol 20(17);1539-44 (2010) PUBMED: 20705470 | |
Fajardo-Cavazos P;Waters SM;Schuerger AC;George S;Marois JJ;Nicholson WL Evolution of Bacillus subtilis to enhanced growth at low pressure: up-regulated transcription of des-desKR, encoding the fatty acid desaturase system. Astrobiology 12(3);258-70 (2012) PUBMED: 22416764 | |
Inda ME;Vandenbranden M;Fernandez A;de Mendoza D;Ruysschaert JM;Cybulski LE A lipid-mediated conformational switch modulates the thermosensing activity of DesK. Proc Natl Acad Sci U S A 111(9);3579-84 (2014) PUBMED: 24522108 | |
Martin M;de Mendoza D Regulation of Bacillus subtilis DesK thermosensor by lipids. Biochem J 451(2);269-75 (2013) PUBMED: 23356219 | |
Mussi MA;Actis LA;de Mendoza D;Cybulski LE Using a microbial physiologic and genetic approach to investigate how bacteria sense physical stimuli. Biochem Mol Biol Educ 42(5);427-34 (2014) PUBMED: 25052184 | |
Porrini L;Cybulski LE;Altabe SG;Mansilla MC;de Mendoza D Cerulenin inhibits unsaturated fatty acids synthesis in Bacillus subtilis by modifying the input signal of DesK thermosensor. Microbiologyopen 3(2);213-24 (2014) PUBMED: 24574048 | |
Saita E;Abriata LA;Tsai YT;Trajtenberg F;Lemmin T;Buschiazzo A;Dal Peraro M;de Mendoza D;Albanesi D A coiled coil switch mediates cold sensing by the thermosensory protein DesK. Mol Microbiol 98(2);258-71 (2015) PUBMED: 26172072 | |
Trajtenberg F;Albanesi D;Ruetalo N;Botti H;Mechaly AE;Nieves M;Aguilar PS;Cybulski L;Larrieux N;de Mendoza D;Buschiazzo A Allosteric activation of bacterial response regulators: the role of the cognate histidine kinase beyond phosphorylation. MBio 5(6);e02105 (2014) PUBMED: 25406381 | |
Trajtenberg F;Grana M;Ruetalo N;Botti H;Buschiazzo A Structural and enzymatic insights into the ATP binding and autophosphorylation mechanism of a sensor histidine kinase. J Biol Chem 285(32);24892-903 (2010) PUBMED: 20507988 | |
Trajtenberg F;Imelio JA;Machado MR;Larrieux N;Marti MA;Obal G;Mechaly AE;Buschiazzo A Regulation of signaling directionality revealed by 3D snapshots of a kinase:regulator complex in action. Elife 5 (2016) PUBMED: 27938660 | |
Comment | 16.3: Control 16.12: Sense |
Description | DesK two-component sensory histidine kinase, phosphorylated;DesK two-component sensory histidine kinase |
Gene Ontology | GO:0000155 phosphorelay sensor kinase activity |
GO:0000160 phosphorelay signal transduction system | |
GO:0000166 nucleotide binding | |
GO:0004673 protein histidine kinase activity | |
GO:0004721 phosphoprotein phosphatase activity | |
GO:0005524 ATP binding | |
GO:0005886 plasma membrane | |
GO:0016020 membrane | |
GO:0016021 integral component of membrane | |
GO:0016301 kinase activity | |
GO:0016310 phosphorylation | |
GO:0016311 dephosphorylation | |
GO:0016740 transferase activity | |
GO:0018106 peptidyl-histidine phosphorylation | |
GO:0023014 signal transduction by protein phosphorylation | |
GO:0031975 envelope | |
GO:0046983 protein dimerization activity | |
Locus Tag | BSU19190 |
Molecular weight | 42.673 |
Name | desK |
Nicolas et al. predictions
Description | Information |
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Expression neg. correlated with | BSU06020, BSU31890, BSU31875, BSU31900, BSU38350, BSU06030, new_651869_651961, new_3046584_3046684_c, BSU31860, BSU29530 |
Expression pos. correlated with | BSU19200, new_2090455_2090524, BSU34080, new_2295944_2297045, BSU34090, BSU21790, BSU40240, BSU32060, BSU17470, BSU19180 |
Highly expressed condition | (BC) 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]. |
(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]. | |
(Cold) Cells were grown in a synthetic medium (J. Stülke, R. Hanschke, M. Hecker, J Gen Microbiol 139, 2041, Sep, 1993) with 0.2 % glucose as carbon source (Belitsky Minimal Medium/BMM) at 37 °C with vigorous shaking. Stress was applied to exponentially growing cultures at OD500nm of 0.4. Samples were harvested before stress [BMM]; after a rapid temperature up-shift from 37 °C to 48 °C [Heat]; after a temperature down-shift from 37 °C to 18 °C [Cold]. Ethanol stress was imposed by adding ethanol to a final concentration of 4 % (v/v) and cells were harvested 10 minutes after ethanol addition [Etha]. | |
(HiOs) Cells were grown in Spizizen’s minimal medium (SMM) (C. Anagnostopoulos, J. Spizizen, J Bacteriol 81, 741, May, 1961) with vigorous agitation. The control culture was grown at 37 °C [SMMPr]. For growth at high or low temperatures, pre-cultures were grown at 37 °C, diluted to an OD578nm of 0.1 and subsequently transferred to 51 °C [HiTm] and 16 °C [LoTm], respectively. For the growth at high salinity, the salinity of the medium was adjusted by adding NaCl (5 M stock solution) to produce a final concentration of 1.2 M [HiOs]. | |
(LBGstat) 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 . | |
(LoTm) Cells were grown in Spizizen’s minimal medium (SMM) (C. Anagnostopoulos, J. Spizizen, J Bacteriol 81, 741, May, 1961) with vigorous agitation. The control culture was grown at 37 °C [SMMPr]. For growth at high or low temperatures, pre-cultures were grown at 37 °C, diluted to an OD578nm of 0.1 and subsequently transferred to 51 °C [HiTm] and 16 °C [LoTm], respectively. For the growth at high salinity, the salinity of the medium was adjusted by adding NaCl (5 M stock solution) to produce a final concentration of 1.2 M [HiOs]. | |
(LPhT) Cells were harvested (i) during exponential growth in high phosphate defined medium [HPh]; (ii) during exponential growth in low phosphate defined medium [LPh] (J. P. Muller, Z. An, T. Merad, I. C. Hancock, C. R. Harwood, Microbiology 143, 947, Mar, 1997);and (iii) at three hours after the outset of the phosphate-limitation induced stationary phase [LPhT]. | |
(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]. | |
(Sw) Exponentially growing cells were spotted on 1 % agar LB plates and incubated at 37°C. Swarming cells were collected after 16 hours. | |
Lowely expressed condition | (BT) A fresh colony grown on an LB plate was used to inoculate 10 ml of LB and grown for 10 hoursat 30°C. This culture wasused to inoculate 10 ml of MSgg medium (S.S. Branda et al., J Bacteriol 186, 3970, Jun, 2004) and incubated with vigorous shaking. The cultures in MSgg were diluted to the same extent in 96 wells microtiterplates (5 μl for 1.5 ml of medium) and incubated without shaking at 30°C. Cells from the control cultures were harvested after 24 hours of incubation [BT]. Biofilms were harvested from 96 well plates after incubation for 36 hours [B36] and 60 hours [B60]. |
(ferm) 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. | |
(HPh) Cells were harvested (i) during exponential growth in high phosphate defined medium [HPh]; (ii) during exponential growth in low phosphate defined medium [LPh] (J. P. Muller, Z. An, T. Merad, I. C. Hancock, C. R. Harwood, Microbiology 143, 947, Mar, 1997);and (iii) at three hours after the outset of the phosphate-limitation induced stationary phase [LPhT]. | |
(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. | |
(Pyr) A 5 ml aliquot of LB medium was inoculated using frozen culture stocks. After a few hours growth at 37°C, precultures were prepared by inoculating 5 ml of M9 with this LB culture at several different dilutions usually ranging from 500- to 2000-fold. The dilution range was chosen so that one of these precultures had grown to and OD600 of 0.5 - 1.0 after overnight inculation. The chosen M9 medium precultures [at OD600 of 0.5 - 1.0] were used to inoculate 100 mL of M9 medium in 500 mL non-baffled shake flasks to an OD600 of 0.02. Filter-sterilized carbon sources were added separately to the medium M9 at following concentration: D-Glucose 3g/L[Glu], L-Malic acid 4.5g/L[Mal], L-Malic acid + D-Glucose 3 and 2g/L[M+G], D-Fructose 3g/L[Fru], D-Gluconate 4g/L[Glucon], Pyruvate 6g/L[Pyr], Glycerol 6g/L[Gly], Glutamic acid + Succinic acid 2 and 2g/L[G+S]. Where necessary, carbon source solutions were pH neutralized with 4 M NaOH prior to addition to the medium. Cells were harvested during the exponential growth phase. | |
(S3) 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. | |
(S4) 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. | |
(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. | |
(SMMPr) Cells were grown in Spizizen’s minimal medium (SMM) (C. Anagnostopoulos, J. Spizizen, J Bacteriol 81, 741, May, 1961) with vigorous agitation. The control culture was grown at 37 °C [SMMPr]. For growth at high or low temperatures, pre-cultures were grown at 37 °C, diluted to an OD578nm of 0.1 and subsequently transferred to 51 °C [HiTm] and 16 °C [LoTm], respectively. For the growth at high salinity, the salinity of the medium was adjusted by adding NaCl (5 M stock solution) to produce a final concentration of 1.2 M [HiOs]. | |
Name | desK |
KEGG Pathways
Description | Information |
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Pathway | Two-component system (ko02020) |