BSGatlas

parB

BSGatlas-gene-4761

BSGatlas

Description	Information
Coordinates	4205556..4206404
Genomic Size	849 bp
Name	parB
Outside Links	SubtiWiki
	BsubCyc
Strand	-
Type	CDS

SubtiWiki

Description	Information
Alternative Name	parB
	parB
	spo0J
	spo0JB
Category	SW 3 Information processing
	SW 3.1 Genetics
	SW 3.1.3 DNA condensation/ segregation
	SW 4 Lifestyles
	SW 4.2 Sporulation
	SW 4.2.3 Sporulation/ other
Description	CTP hydrolase, chromosome positioning near the pole and transport through the polar septum / antagonist of SMC complex to the origin of replication, coordination of early steps in DNA replication with establishment of a medial division site
Function	chromosome positioning before asymmetric septation
Is essential?	no
Isoelectric point	8.42
Locus Tag	BSU_40960
Molecular weight	32.0588
Name	parB
Product	centromer-binding protein

RefSeq

Description	Information
Alternative Locus Tag	BSU40960
Description	Evidence 1a: Function from experimental evidencesin the studied strain; PubMedId: 11532141, 12950914,15659156, 15774898, 15998739, 16677298, 21235642,28407103; Product type f: factor
Functions	16.13: Shape
	16.9: Replicate
Locus Tag	BSU_40960
Name	parB
Title	site-specific DNA-binding protein
Type	CDS

BsubCyc

Description	Information
Alternative Name	spo0J
	spo0JB
Citation	Funnell BE How to build segregation complexes in bacteria: Use bridges. Genes Dev 28(11);1140-2 (2014) PUBMED: 24888585
	Graham TG;Wang X;Song D;Etson CM;van Oijen AM;Rudner DZ;Loparo JJ ParB spreading requires DNA bridging. Genes Dev 28(11);1228-38 (2014) PUBMED: 24829297
	Kleine Borgmann LA;Hummel H;Ulbrich MH;Graumann PL SMC Condensation Centers in Bacillus subtilis Are Dynamic Structures. J Bacteriol 195(10);2136-45 (2013) PUBMED: 23475963
	Lioy VS;Volante A;Soberon NE;Lurz R;Ayora S;Alonso JC ParAB Partition Dynamics in Firmicutes: Nucleoid Bound ParA Captures and Tethers ParB-Plasmid Complexes. PLoS One 10(7);e0131943 (2015) PUBMED: 26161642
	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
	Scholefield G;Whiting R;Errington J;Murray H Spo0J regulates the oligomeric state of Soj to trigger its switch from an activator to an inhibitor of DNA replication initiation. Mol Microbiol 79(4);1089-100 (2011) PUBMED: 21235642
	Song D;Graham TG;Loparo JJ A general approach to visualize protein binding and DNA conformation without protein labelling. Nat Commun 7;10976 (2016) PUBMED: 26952553
	Taylor JA;Pastrana CL;Butterer A;Pernstich C;Gwynn EJ;Sobott F;Moreno-Herrero F;Dillingham MS Specific and non-specific interactions of ParB with DNA: implications for chromosome segregation. Nucleic Acids Res 43(2);719-31 (2015) PUBMED: 25572315
	Wang X;Le TB;Lajoie BR;Dekker J;Laub MT;Rudner DZ Condensin promotes the juxtaposition of DNA flanking its loading site in Bacillus subtilis. Genes Dev 29(15);1661-75 (2015) PUBMED: 26253537
	Wang X;Montero Llopis P;Rudner DZ Bacillus subtilis chromosome organization oscillates between two distinct patterns. Proc Natl Acad Sci U S A 111(35);12877-82 (2014) PUBMED: 25071173
Comment	16.9: Replicate 16.13: Shape
Description	site-specific DNA-binding protein
Gene Ontology	GO:0003677 DNA binding
	GO:0007059 chromosome segregation
	GO:0030435 sporulation resulting in formation of a cellular spore
	GO:0043590 bacterial nucleoid
	GO:0045881 positive regulation of sporulation resulting in formation of a cellular spore
Locus Tag	BSU40960
Molecular weight	32.21
Name	parB

Nicolas et al. predictions

Description	Information
Expression neg. correlated with	new_4194210_4195441_c, new_4159457_4159757_c, new_2701783_2703117, BSU25730, BSU22250, new_1603592_1604734_c, BSU24480, new_2245307_2246150_c, BSU25750, BSU13380
Expression pos. correlated with	BSU40970, BSU29610, BSU14490, BSU27650, BSU06090, new_3645297_3645378_c, BSU36250, BSU15420, BSU35490, BSU38860
Highly expressed condition	(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 .
	(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 .
	(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 .
	(LBtran) 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 .
	(M0t45) 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].
	(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].
	(M40t45) 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].
	(T0.30H) 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].
Lowely expressed condition	(B60) 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].
	(dia15) 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].
	(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.
	(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.
Name	parB

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