SubtiWiki - User contributions [en]

ParB

2013-08-15T09:13:02Z

Hmurray: /* Labs working on this gene/protein */

* '''Description:''' chromosome positioning near the pole and transport through the polar septum / antagonist of [[Soj]]-dependent inhibition of sporulation initiation 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''spo0J''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0JB ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || site-specific DNA-binding protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || chromosome positioning before asymmetric septation,

specifying its orientation, and imposing directionality on

its subsequent transport through the septum; required for sporulation

(antagonist of [[Soj]]-dependent inhibition of sporulation initiation)
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU40960 spo0J]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/Spo0J Spo0J]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 32 kDa, 8.417
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 846 bp, 282 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yyaC]]'', ''[[soj]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU40960 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU40960 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU40960 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:spo0J_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=parB_4205556_4206404_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:spo0J_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU40960]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[DNA condensation/ segregation]]}},
{{SubtiWiki category|[[sporulation/ other]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[Spo0A regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU40960

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10054]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' inhibits [[Soj]] dimerization and concomitant DNA-binding activity by stimulating Soj ATPase activity {{PubMed|21235642}}

* '''Protein family:''' parB family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[Noc]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:''' [[Spo0J]]-[[Soj]] {{PubMed|21235642}}

* '''[[Localization]]:'''
** chromosome centromer {{PubMed|23475963}}

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P26497 P26497]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU40960]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[soj]]-[[spo0J]]'' (according to [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html DBTBS])

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=parB_4205556_4206404_-1 spo0J] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** 1S135 ( ''spo0J''::''spec''), {{PubMed| }}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S135&Search=1S135 BGSC]
** 1S136 ( ''spo0J''::''spec''), {{PubMed| }}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S136&Search=1S136 BGSC]
** 1S137 ( ''spo0J''::''spec''), {{PubMed| }}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S137&Search=1S137 BGSC]

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=
* [[Heath Murray]], Centre for Bacterial Cell Biology, Newcastle, UK [http://www.ncl.ac.uk/camb/staff/profile/heath.murray homepage]

=Your additional remarks=

=References=
== Reviews ==
<pubmed> 22934648 </pubmed>
== Original publications ==
<pubmed>17462018 16677298 12562803, 10852876, 10482533, 9506522, 8071208, 17932079 19450517 21235642 9663676,11532141,19450516,15659156,18854156,9159397,8866474,9778525,16925562,1900505,9364919,9701805,12950914,,14651647, 19450517, 19450516, 14563866 23475963 21911367</pubmed>

[[Category:Protein-coding genes]]

ParA

2013-08-15T09:12:27Z

Hmurray: /* Labs working on this gene/protein */

* '''Description:''' ATPase, centromere-like function involved in forespore chromosome partitioning / negative regulation of sporulation initiation 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''soj''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0JA ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || negative regulator of sporulation initiation
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || forespore chromosome partitioning / negative regulation of sporulation initiation
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU40970 soj]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/Soj Soj]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 4.903
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 759 bp, 253 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spo0J]]'', ''[[yyaB]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU40970 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU40970 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU40970 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:soj_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=parA_4206397_4207158_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:soj_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU40970]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[DNA condensation/ segregation]]}},
{{SubtiWiki category|[[sporulation/ other]]}},
{{SubtiWiki category|[[membrane proteins]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[Spo0A regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU40970

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10055]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' regulates [[DNA replication]] initiation by either inhibiting or activating the [[DNA replication]] initiator protein [[DnaA]] {{PubMed|21235642}}; regulation of ''Spo0A'' expression {{PubMed|10852876}}

* '''Protein family:''' parA family (according to Swiss-Prot)

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''
** [[Spo0J]] inhibits [[Soj]] dimerization and concomitant DNA-binding activity by stimulating Soj ATPase activity {{PubMed|21235642}}

* '''[[SubtInteract|Interactions]]:'''
** [[Spo0J]]-[[Soj]] {{PubMed|21235642}}
** [[Soj]]-[[DnaA]] {{PubMed|22286949}}

* '''[[Localization]]:'''
** polar/ septal at the cell membrane {{PubMed|20566861}}
** polar localization depends on the proton motive force {{PubMed|20566861}}

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P37522 P37522]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU40970]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[soj]]-[[spo0J]]'' (according to [http://dbtbs.hgc.jp/COG/prom/soj-spo0J.html DBTBS])

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=parA_4206397_4207158_-1 soj] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=
* [[Heath Murray]], Centre for Bacterial Cell Biology, Newcastle, UK [http://www.ncl.ac.uk/camb/staff/profile/heath.murray homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 20157337 22934648 </pubmed>
== Original publications ==
<pubmed>15659156,11532141,19450516,18854156,10619015,8866474,12492861,9701805,12950914,14651647, 19450516 20566861 21235642 10852876 14563866 22286949 21911367</pubmed>

[[Category:Protein-coding genes]]

DnaA

2013-08-15T09:11:18Z

Hmurray: /* Labs working on this gene/protein */

* '''Description:''' AAA+ ATPase, replication initiation protein 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''dnaA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''dnaH, dnaJ, dnaK ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || replication initiation protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[DNA replication]]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00010 dnaA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/DnaA DnaA]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 50 kDa, 6.035
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1338 bp, 446 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpmH]]'', ''[[dnaN]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00010 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00010 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00010 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:DnaA_dnaN_yaaA_recF_yaaB_gyrB_context.png]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dnaA_410_1750_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:dnaA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00010]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[DNA replication]]}},
{{SubtiWiki category|[[essential genes]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[Spo0A regulon]]}}
=The [[DnaA regulon]]=
=The gene=

=== Basic information ===

* '''Locus tag:''' BSU00010

===Phenotypes of a mutant ===

essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/dnaAN.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10065]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''
** binds multiple regions in the oriC region, required for recruitment of proteins needed to load the replicative helicase [[DnaC]]

* '''Protein family:''' dnaA family (according to Swiss-Prot)

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:''' AAA+ domain

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''
** [[SirA]] displaces [[DnaA]] from the replication origin {{PubMed|19682252}}
** [[YabA]] inhibits co-operative binding of DnaA to the ''oriC'' DNA {{PubMed|21895792}}
** DnaA helix formation (and thus replication initiation) is inhibited by the interaction of either [[Soj]], [[YabA]] or [[DnaN]] with the AAA+ domain of DnaA {{PubMed|23909787,22286949}}
** interaction with [[DnaD]] inhibits the ability of [[DnaA]] to cooperatively bind to DNA {{PubMed|22821970}}

* '''[[SubtInteract|Interactions]]:'''
** [[DnaA]] assembles into a right-handed helical oligomer built upon interactions between neighbouring AAA+ domains {{PubMed|23909787}}
** [[Soj]]-[[DnaA]] {{PubMed|22286949}}
** [[DnaA]]-[[YabA]] {{PubMed|23909787,12060778}}
** [[DnaA]]-[[YabA]]-[[DnaN]] {{PubMed|12060778}}
** [[DnaA]]-[[DnaD]] {{PubMed|22821970,11222620}}
** [[SirA]]-[[DnaA]] {{PubMed|19682252,21239581}}
** [[YqaH]]-[[DnaA]] {{PubMed|12060778}}
** part of the [[primosome]]: [[DnaA]]-[[DnaG]]-[[DnaC]]-[[DnaI]]-[[DnaD]]-[[DnaB]] {{PubMed|22797751}}

* '''[[Localization]]:'''
** throughout the cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/10844689 PubMed]

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P05648 P05648]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00010]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[dnaA]]-[[dnaN]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dnaA_410_1750_1 dnaA] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]

* '''Regulation:'''
** negatively controlled by [[DnaA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2168872 PubMed] and [[Spo0A]] [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=
* [[Philippe Noirot]], Jouy-en-Josas, France [http://locus.jouy.inra.fr/cms/index.php?id=18 homepage]
* [[Peter Graumann]], Freiburg University, Germany [http://www.biologie.uni-freiburg.de/data/bio2/graumann/index.htm homepage]
* [[Alan Grossman]], MIT, Cambridge, MA, USA
* [[Heath Murray]], Centre for Bacterial Cell Biology, Newcastle, UK [http://www.ncl.ac.uk/camb/staff/profile/heath.murray homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 20157337 21035377 21639790 22575476 22797751</pubmed>

==The [[DnaA regulon]]==
<pubmed> 16120674, </pubmed>
==Original publications==
<pubmed>18854156,19011033, 11222620,14651647,17140409 10844689 ,11222620 12060778 16461910 2987848 2168872 11207367, 19737352 19081080 17932079 19968790 19682252 20511500 21097613 21239581 21895792 22286949 22821970 23909787 22396664,21911367</pubmed>

[[Category:Protein-coding genes]]

DnaA

2013-08-15T09:10:30Z

Hmurray: /* Labs working on this gene/protein */

* '''Description:''' AAA+ ATPase, replication initiation protein 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''dnaA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''dnaH, dnaJ, dnaK ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || replication initiation protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[DNA replication]]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00010 dnaA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/DnaA DnaA]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 50 kDa, 6.035
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1338 bp, 446 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpmH]]'', ''[[dnaN]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00010 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00010 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00010 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:DnaA_dnaN_yaaA_recF_yaaB_gyrB_context.png]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dnaA_410_1750_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:dnaA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00010]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[DNA replication]]}},
{{SubtiWiki category|[[essential genes]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[Spo0A regulon]]}}
=The [[DnaA regulon]]=
=The gene=

=== Basic information ===

* '''Locus tag:''' BSU00010

===Phenotypes of a mutant ===

essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/dnaAN.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10065]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''
** binds multiple regions in the oriC region, required for recruitment of proteins needed to load the replicative helicase [[DnaC]]

* '''Protein family:''' dnaA family (according to Swiss-Prot)

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:''' AAA+ domain

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''
** [[SirA]] displaces [[DnaA]] from the replication origin {{PubMed|19682252}}
** [[YabA]] inhibits co-operative binding of DnaA to the ''oriC'' DNA {{PubMed|21895792}}
** DnaA helix formation (and thus replication initiation) is inhibited by the interaction of either [[Soj]], [[YabA]] or [[DnaN]] with the AAA+ domain of DnaA {{PubMed|23909787,22286949}}
** interaction with [[DnaD]] inhibits the ability of [[DnaA]] to cooperatively bind to DNA {{PubMed|22821970}}

* '''[[SubtInteract|Interactions]]:'''
** [[DnaA]] assembles into a right-handed helical oligomer built upon interactions between neighbouring AAA+ domains {{PubMed|23909787}}
** [[Soj]]-[[DnaA]] {{PubMed|22286949}}
** [[DnaA]]-[[YabA]] {{PubMed|23909787,12060778}}
** [[DnaA]]-[[YabA]]-[[DnaN]] {{PubMed|12060778}}
** [[DnaA]]-[[DnaD]] {{PubMed|22821970,11222620}}
** [[SirA]]-[[DnaA]] {{PubMed|19682252,21239581}}
** [[YqaH]]-[[DnaA]] {{PubMed|12060778}}
** part of the [[primosome]]: [[DnaA]]-[[DnaG]]-[[DnaC]]-[[DnaI]]-[[DnaD]]-[[DnaB]] {{PubMed|22797751}}

* '''[[Localization]]:'''
** throughout the cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/10844689 PubMed]

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P05648 P05648]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00010]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[dnaA]]-[[dnaN]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dnaA_410_1750_1 dnaA] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]

* '''Regulation:'''
** negatively controlled by [[DnaA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2168872 PubMed] and [[Spo0A]] [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=
* [[Philippe Noirot]], Jouy-en-Josas, France [http://locus.jouy.inra.fr/cms/index.php?id=18 homepage]
* [[Peter Graumann]], Freiburg University, Germany [http://www.biologie.uni-freiburg.de/data/bio2/graumann/index.htm homepage]
* [[Alan Grossman]], MIT, Cambridge, MA, USA
* [[Heath Murray]], Centre for Bacterial Cell Biology, Newcastle, UK[http://www.ncl.ac.uk/camb/staff/profile/heath.murray homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 20157337 21035377 21639790 22575476 22797751</pubmed>

==The [[DnaA regulon]]==
<pubmed> 16120674, </pubmed>
==Original publications==
<pubmed>18854156,19011033, 11222620,14651647,17140409 10844689 ,11222620 12060778 16461910 2987848 2168872 11207367, 19737352 19081080 17932079 19968790 19682252 20511500 21097613 21239581 21895792 22286949 22821970 23909787 22396664,21911367</pubmed>

[[Category:Protein-coding genes]]

DnaA

2013-08-15T09:09:43Z

Hmurray: /* Labs working on this gene/protein */

* '''Description:''' AAA+ ATPase, replication initiation protein 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''dnaA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''dnaH, dnaJ, dnaK ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || replication initiation protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[DNA replication]]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00010 dnaA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/DnaA DnaA]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 50 kDa, 6.035
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1338 bp, 446 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpmH]]'', ''[[dnaN]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00010 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00010 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00010 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:DnaA_dnaN_yaaA_recF_yaaB_gyrB_context.png]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dnaA_410_1750_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:dnaA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00010]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[DNA replication]]}},
{{SubtiWiki category|[[essential genes]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[Spo0A regulon]]}}
=The [[DnaA regulon]]=
=The gene=

=== Basic information ===

* '''Locus tag:''' BSU00010

===Phenotypes of a mutant ===

essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/dnaAN.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10065]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''
** binds multiple regions in the oriC region, required for recruitment of proteins needed to load the replicative helicase [[DnaC]]

* '''Protein family:''' dnaA family (according to Swiss-Prot)

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:''' AAA+ domain

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''
** [[SirA]] displaces [[DnaA]] from the replication origin {{PubMed|19682252}}
** [[YabA]] inhibits co-operative binding of DnaA to the ''oriC'' DNA {{PubMed|21895792}}
** DnaA helix formation (and thus replication initiation) is inhibited by the interaction of either [[Soj]], [[YabA]] or [[DnaN]] with the AAA+ domain of DnaA {{PubMed|23909787,22286949}}
** interaction with [[DnaD]] inhibits the ability of [[DnaA]] to cooperatively bind to DNA {{PubMed|22821970}}

* '''[[SubtInteract|Interactions]]:'''
** [[DnaA]] assembles into a right-handed helical oligomer built upon interactions between neighbouring AAA+ domains {{PubMed|23909787}}
** [[Soj]]-[[DnaA]] {{PubMed|22286949}}
** [[DnaA]]-[[YabA]] {{PubMed|23909787,12060778}}
** [[DnaA]]-[[YabA]]-[[DnaN]] {{PubMed|12060778}}
** [[DnaA]]-[[DnaD]] {{PubMed|22821970,11222620}}
** [[SirA]]-[[DnaA]] {{PubMed|19682252,21239581}}
** [[YqaH]]-[[DnaA]] {{PubMed|12060778}}
** part of the [[primosome]]: [[DnaA]]-[[DnaG]]-[[DnaC]]-[[DnaI]]-[[DnaD]]-[[DnaB]] {{PubMed|22797751}}

* '''[[Localization]]:'''
** throughout the cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/10844689 PubMed]

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P05648 P05648]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00010]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[dnaA]]-[[dnaN]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dnaA_410_1750_1 dnaA] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2987848 PubMed]

* '''Regulation:'''
** negatively controlled by [[DnaA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/2168872 PubMed] and [[Spo0A]] [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=
* [[Philippe Noirot]], Jouy-en-Josas, France [http://locus.jouy.inra.fr/cms/index.php?id=18 homepage]
* [[Peter Graumann]], Freiburg University, Germany [http://www.biologie.uni-freiburg.de/data/bio2/graumann/index.htm homepage]
* [[Alan Grossman]], MIT, Cambridge, MA, USA
* [[Heath Murray]], Centre for Bacterial Cell Biology, Newcastle, UK[http://www.ncl.ac.uk/camb/staff/profile/heath.murray]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 20157337 21035377 21639790 22575476 22797751</pubmed>

==The [[DnaA regulon]]==
<pubmed> 16120674, </pubmed>
==Original publications==
<pubmed>18854156,19011033, 11222620,14651647,17140409 10844689 ,11222620 12060778 16461910 2987848 2168872 11207367, 19737352 19081080 17932079 19968790 19682252 20511500 21097613 21239581 21895792 22286949 22821970 23909787 22396664,21911367</pubmed>

[[Category:Protein-coding genes]]