dnaA
BSGatlas-gene-4
BSGatlas
Description | Information |
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Coordinates | 410..1750 |
Genomic Size | 1341 bp |
Name | dnaA |
Outside Links | SubtiWiki |
BsubCyc | |
Strand | + |
Type | CDS |
SubtiWiki
Description | Information |
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Alternative Name | dnaA |
Category | SW 3 Information processing |
SW 3.1 Genetics | |
SW 3.1.1 DNA replication | |
SW 6 Groups of genes | |
SW 6.1 Essential genes | |
Description | AAA ATPase, [[category|SW 3.1.1|replication]] initiation protein |
Function | [[category|SW 3.1.1]] |
Is essential? | yes |
Isoelectric point | 6.03 |
Locus Tag | BSU_00010 |
Molecular weight | 50.695 |
Name | dnaA |
Product | replication initiation protein |
RefSeq
Description | Information |
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Alternative Locus Tag | BSU00010 |
Description | Evidence 1a: Function from experimental evidencesin the studied strain; PubMedId: 2167836, 2846289,12682299, 16120674, 1779750, 28166228; Product type f :factor |
Functions | 16.9: Replicate |
Locus Tag | BSU_00010 |
Name | dnaA |
Title | chromosomal replication initiator informationalATPase |
Type | CDS |
BsubCyc
Description | Information |
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Alternative Name | dnaH |
dnaJ | |
dnaK | |
Citation | Bonilla CY;Grossman AD The primosomal protein DnaD inhibits cooperative DNA binding by the replication initiator DnaA in Bacillus subtilis. J Bacteriol 194(18);5110-7 (2012) PUBMED: 22821970 |
Duan Y;Huey JD;Herman JK The DnaA inhibitor SirA acts in the same pathway as Soj (ParA) to facilitate oriC segregation during Bacillus subtilis sporulation. Mol Microbiol 102(3);530-544 (2016) PUBMED: 27489185 | |
Hill NS;Kadoya R;Chattoraj DK;Levin PA Cell size and the initiation of DNA replication in bacteria. PLoS Genet 8(3);e1002549 (2012) PUBMED: 22396664 | |
Hoover SE;Xu W;Xiao W;Burkholder WF Changes in DnaA-dependent gene expression contribute to the transcriptional and developmental response of Bacillus subtilis to manganese limitation in Luria-Bertani medium. J Bacteriol 192(15);3915-24 (2010) PUBMED: 20511500 | |
Jameson KH;Rostami N;Fogg MJ;Turkenburg JP;Grahl A;Murray H;Wilkinson AJ Structure and interactions of the Bacillus subtilis sporulation inhibitor of DNA replication, SirA, with domain I of DnaA. Mol Microbiol 93(5);975-91 (2014) PUBMED: 25041308 | |
Merrikh H;Grossman AD Control of the replication initiator DnaA by an anti-cooperativity factor. Mol Microbiol 82(2);434-46 (2011) PUBMED: 21895792 | |
Murray H;Koh A Multiple Regulatory Systems Coordinate DNA Replication with Cell Growth in Bacillus subtilis. PLoS Genet 10(10);e1004731 (2014) PUBMED: 25340815 | |
Okumura H;Yoshimura M;Ueki M;Oshima T;Ogasawara N;Ishikawa S Regulation of chromosomal replication initiation by oriC-proximal DnaA-box clusters in Bacillus subtilis. Nucleic Acids Res 40(1);220-34 (2012) PUBMED: 21911367 | |
Rahn-Lee L;Merrikh H;Grossman AD;Losick R The sporulation protein SirA inhibits the binding of DnaA to the origin of replication by contacting a patch of clustered amino acids. J Bacteriol 193(6);1302-7 (2011) PUBMED: 21239581 | |
Richardson TT;Harran O;Murray H The bacterial DnaA-trio replication origin element specifies single-stranded DNA initiator binding. Nature 534(7607);412-6 (2016) PUBMED: 27281207 | |
Scholefield G;Errington J;Murray H Soj/ParA stalls DNA replication by inhibiting helix formation of the initiator protein DnaA. EMBO J 31(6);1542-55 (2012) PUBMED: 22286949 | |
Scholefield G;Murray H YabA and DnaD inhibit helix assembly of the DNA replication initiation protein DnaA. Mol Microbiol 90(1);147-59 (2013) PUBMED: 23909787 | |
Seid CA;Smith JL;Grossman AD Genetic and biochemical interactions between the bacterial replication initiator DnaA and the nucleoid-associated protein Rok in Bacillus subtilis. Mol Microbiol 103(5);798-817 (2017) PUBMED: 27902860 | |
Smith JL;Grossman AD In Vitro Whole Genome DNA Binding Analysis of the Bacterial Replication Initiator and Transcription Factor DnaA. PLoS Genet 11(5);e1005258 (2015) PUBMED: 26020636 | |
Smits WK;Goranov AI;Grossman AD Ordered association of helicase loader proteins with the Bacillus subtilis origin of replication in vivo. Mol Microbiol 75(2);452-61 (2010) PUBMED: 19968790 | |
Comment | Review: |CITS: [28075389]| 16.9: Replicate |
Description | chromosomal replication initiator protein DnaA |
Gene Ontology | GO:0000166 nucleotide binding |
GO:0003677 DNA binding | |
GO:0003688 DNA replication origin binding | |
GO:0005515 protein binding | |
GO:0005524 ATP binding | |
GO:0005737 cytoplasm | |
GO:0006260 DNA replication | |
GO:0006270 DNA replication initiation | |
GO:0006275 regulation of DNA replication | |
GO:0017111 nucleoside-triphosphatase activity | |
GO:0043565 sequence-specific DNA binding | |
GO:0098847 sequence-specific single stranded DNA binding | |
Locus Tag | BSU00010 |
Molecular weight | 50.859 |
Name | dnaA |
Nicolas et al. predictions
Description | Information |
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Expression neg. correlated with | BSU19430, BSU18250, BSU18210, new_1211286_1211370, BSU18230, BSU27450, BSU18220, BSU18240, BSU27460, BSU27440 |
Expression pos. correlated with | BSU00020, new_1751_1938, new_150_409, BSU00100, BSU37600, BSU30540, new_17453_17533, BSU24540, BSU23210, new_3127676_3127799_c |
Highly expressed condition | (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]. |
(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]. | |
(G150) 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]. | |
(G180) 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]. | |
(Heat) 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]. | |
(LBGexp) 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 . | |
(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 . | |
(Oxctl) 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 | |
(Paraq) 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 | |
(S1) 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 | (B36) 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]. |
(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]. | |
(Etha) 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]. | |
(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]. | |
(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. | |
(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. | |
Name | dnaA |
KEGG Pathways
Description | Information |
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Pathway | Two-component system (ko02020) |