TasA - Revision history

Jstuelk: /* Reviews */

2015-04-26T15:36:49Z

‎Reviews

Jstuelk: /* Original publications */

2015-04-22T08:47:36Z

‎Original publications

JGerwig: /* Biological materials */

2015-02-03T15:27:12Z

‎Biological materials

JGerwig: /* Biological materials */

2014-09-30T17:19:28Z

‎Biological materials

Jstuelk: /* Biological materials */

2014-09-24T12:29:35Z

‎Biological materials

Jstuelk: /* Reviews */

2014-07-07T08:15:38Z

‎Reviews

134.76.70.252 at 10:10, 17 April 2014

2014-04-17T10:10:24Z

134.76.38.147 at 14:12, 2 April 2014

2014-04-02T14:12:20Z

Jstuelk at 17:24, 6 February 2014

2014-02-06T17:24:20Z

Jstuelk at 12:46, 6 February 2014

2014-02-06T12:46:00Z

← Older revision		Revision as of 15:36, 26 April 2015
Line 1:		Line 1:
−	* '''Description:~~''' major component of biofilm matrix, forms amyloid fibers<br/><br/>~~	+	{{#bank: TasA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''tasA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''cotN, yqhF ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| major component of biofilm matrix~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| [[biofilm formation]]~~
−	\|-
−	\|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=BSU24620 tasA]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=TasA TasA]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Regulation of this protein in [[SubtiPathways\|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=tasA tasA]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 28 kDa, 5.442~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 783 bp, 261 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[sinR]]'', ''[[sipW]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24620 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24620 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24620 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:tasA_context.gif]]~~
−	~~<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>~~
−	\|-
−	\|colspan="2" \|'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=tasA_2553081_2553866_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:tasA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24620]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[biofilm formation]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[AbrB regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[RemA regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[SinR regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU24620
−
−	~~===Phenotypes of a mutant ===~~
−	* altered cell death pattern in colonies {{PubMed\|23012477}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24620&redirect=T BSU24620]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yqxM-sipW-tasA.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11697]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' forms amyloid fibers that bind cells together in the biofilm {{PubMed\|20080671}}
−
−	* '''Protein family:''' peptidase M73 family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** forms fibers of variable length and 10-15 nm in width {{PubMed\|20080671}}
−	** [[TapA]]-[[TasA]] {{PubMed\|24488317}}
−	** [[SipW]]-[[TasA]] {{PubMed\|10049401}}
−
−	* '''[[Localization]]:'''
−	** extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed], secretion requires [[SipW]] {{PubMed\|10049401}}
−	** membrane [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24620&redirect=T BSU24620]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P54507 P54507]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24620]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[tapA]]-[[sipW]]-[[tasA]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16430695 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=tasA_2553081_2553866_-1 tasA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16430695 PubMed]
−
−	* '''Regulation:'''
−	** repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
−	** repressed by [[SinR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16430695 PubMed]
−	** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/10464223,17720793 PubMed]
−
−	* '''Regulatory mechanism:'''
−	** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/10464223,17720793 PubMed]
−	** [[SinR]]: transcription repression {{PubMed\|16430695}}
−	** [[RemA]]: transcription activation {{PubMed\|23646920}}
−
−	* '''Additional information:'''
−	** induction by sequestration of [[SinR]] by [[SinI]] or [[SlrA]] {{PubMed\|15661000,19788541}} or by SlrR {{PubMed\|20351052}}
−	** the ''[[tapA]]-[[sipW]]-[[tasA]]'' operon is not expressed in a ''[[ymdB]]'' mutant {{PubMed\|21856853}}
−	** the amount of the mRNA is substantially decreased upon depletion of [[Rny\|RNase Y]] (this is likely due to the increased stability of the ''[[sinR]]'' mRNA) {{PubMed\|21815947}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 199 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutants:'''
−	** 1S121 (''tasA''::''spec''), {{PubMed\|10049401}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S121&Search=1S121 BGSC]
−	** GP1571 (cat), available in [[ Jörg Stülke]]'s lab
−	** GP1663 (deletion of ''[[yqhG]]-[[sinI]]-[[sinR]]-[[tasA]]''), available in [[ Jörg Stülke]]'s lab
−	** GP1672 (deletion of ''[[sinR]]-[[tasA]]''::''cat'') {{PubMed\|24493247}}, available in [[ Jörg Stülke]]'s lab
−	** GP1586 (cat) in the NCIB3610 background, available in [[ Jörg Stülke]]'s lab
−	** GP1819 (aphA3), available in [[ Jörg Stülke]]'s lab
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed>20735481 20351052 21488983 24988880 </pubmed>~~
−
−	~~==Original publications==~~
−	<pubmed>23352144 23352134 23632024 23012477 21815947 21856853 18047568,16430695,16430696,10368135,18430133, 18647168 , 10464223,17720793,18957862 12107147 18763711, 20080671 10049401 23646920 24488317 25894589</pubmed>
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 164: / Line 164: @@
 ==Original publications==
-<pubmed>23352144 23352134 23632024 23012477 21815947 21856853 18047568,16430695,16430696,10368135,18430133, 18647168 , 10464223,17720793,18957862 12107147 18763711, 20080671 10049401 23646920 24488317</pubmed>
+<pubmed>23352144 23352134 23632024 23012477 21815947 21856853 18047568,16430695,16430696,10368135,18430133, 18647168 , 10464223,17720793,18957862 12107147 18763711, 20080671 10049401 23646920 24488317 25894589</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 142: / Line 142: @@
 ** GP1663 (deletion of ''[[yqhG]]-[[sinI]]-[[sinR]]-[[tasA]]''), available in [[ Jörg Stülke]]'s lab
 ** GP1672 (deletion of ''[[sinR]]-[[tasA]]''::''cat'') {{PubMed|24493247}}, available in [[ Jörg Stülke]]'s lab
 ** GP1819 (aphA3), available in [[ Jörg Stülke]]'s lab

@@ Line 137: / Line 137: @@
 =Biological materials =
-* '''Mutant:'''
+* '''Mutants:'''
 ** 1S121 (''tasA''::''spec''), {{PubMed|10049401}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S121&Search=1S121 BGSC]
 ** GP1571 (cat), available in [[ Jörg Stülke]]'s lab
 ** GP1819 (aphA3), available in [[ Jörg Stülke]]'s lab
 * '''Expression vector:'''

@@ Line 140: / Line 140: @@
 ** 1S121 (''tasA''::''spec''), {{PubMed|10049401}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S121&Search=1S121 BGSC]
 ** GP1571 (cat), available in [[ Jörg Stülke]]'s lab
 ** GP1672 (deletion of ''[[sinR]]-[[tasA]]''::''cat'') {{PubMed|24493247}}, available in [[ Jörg Stülke]]'s lab
 ** GP1663 (deletion of ''[[yqhG]]-[[sinI]]-[[sinR]]-[[tasA]]''), available in [[ Jörg Stülke]]'s lab

@@ Line 159: / Line 159: @@
 =References=
 ==Reviews==
-<pubmed>20735481 20351052 21488983</pubmed>
+<pubmed>20735481 20351052 21488983 24988880 </pubmed>
 ==Original publications==
 <pubmed>23352144 23352134 23632024 23012477 21815947 21856853 18047568,16430695,16430696,10368135,18430133, 18647168 , 10464223,17720793,18957862 12107147 18763711, 20080671 10049401 23646920 24488317</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 133: / Line 133: @@
 ** the ''[[tapA]]-[[sipW]]-[[tasA]]'' operon is not expressed in a ''[[ymdB]]'' mutant {{PubMed|21856853}}
 ** the amount of the mRNA is substantially decreased upon depletion of [[Rny|RNase Y]] (this is likely due to the increased stability of the ''[[sinR]]'' mRNA) {{PubMed|21815947}}
 =Biological materials =

@@ Line 59: / Line 59: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yqxM-sipW-tasA.html]
@@ Line 98: / Line 99: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 90: / Line 90: @@
 * '''[[SubtInteract|Interactions]]:'''
 ** forms fibers of variable length and 10-15 nm in width {{PubMed|20080671}}
-** [[TapA]]-[[TasA]] {{PubMed|21477127}}
+** [[TapA]]-[[TasA]] {{PubMed|24488317}}
 ** [[SipW]]-[[TasA]] {{PubMed|10049401}}
@@ Line 158: / Line 158: @@
 <pubmed>20735481 20351052 21488983</pubmed>
 ==Original publications==
-<pubmed>23352144 23352134 23632024 23012477 21815947 21856853 18047568,16430695,16430696,10368135,18430133, 18647168 , 10464223,17720793,18957862 12107147 18763711, 20080671 10049401 23646920</pubmed>
+<pubmed>23352144 23352134 23632024 23012477 21815947 21856853 18047568,16430695,16430696,10368135,18430133, 18647168 , 10464223,17720793,18957862 12107147 18763711, 20080671 10049401 23646920 24488317</pubmed>
 [[Category:Protein-coding genes]]