CwlO - Revision history

Jstuelk: /* Extended information on the protein */

2015-05-15T09:16:35Z

‎Extended information on the protein

Jstuelk at 18:59, 1 February 2015

2015-02-01T18:59:39Z

134.76.70.252 at 09:27, 17 April 2014

2014-04-17T09:27:07Z

134.76.38.147 at 14:52, 2 April 2014

2014-04-02T14:52:37Z

Jstuelk: /* Expression and regulation */

2014-01-12T17:55:08Z

‎Expression and regulation

Jstuelk at 17:54, 12 January 2014

2014-01-12T17:54:26Z

Jstuelk at 19:34, 14 December 2013

2013-12-14T19:34:41Z

Jstuelk at 17:20, 2 August 2013

2013-08-02T17:20:35Z

Jstuelk at 16:53, 19 July 2013

2013-07-19T16:53:46Z

Jstuelk: /* Categories containing this gene/protein */

2013-07-16T12:41:47Z

‎Categories containing this gene/protein

← Older revision		Revision as of 09:16, 15 May 2015
Line 1:		Line 1:
−	* '''Description:~~''' D,L-endopeptidase-type autolysin, primary autolytic pathway for cell elongation <br/><br/>~~	+	{{#bank: CwlO}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''cwlO''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yzkA, yvcE ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| endopeptidase-type autolysin~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| cell wall synthesis, cell elongation~~
−	\|-
−	\|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=BSU34800 cwlO]
−	\|-
−	\|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=CwlO CwlO]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 50 kDa, 5.326~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1419 bp, 473 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[trxB]]'', ''[[yvcD]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34800 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34800 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34800 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yvcE_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=cwlO_3574363_3575784_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:cwlO_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34800]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[cell wall synthesis]]}},~~
−	~~{{SubtiWiki category\|[[cell wall degradation/ turnover]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[WalR regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU34800
−
−	~~===Phenotypes of a mutant ===~~
−	* a ''[[cwlO]] [[lytE]]'' mutant is not viable {{PubMed\|17581128,22139507}}
−	* shorter, fatter cells, this can be rescued by addition of Mg(2+) {{PubMed\|23869552,23855774}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34800&redirect=T BSU34800]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11023]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' peptidase C40 family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' the C-terminal D,L-endopeptidase domains of [[LytE]], [[LytF]], [[CwlS]], and [[CwlO]] exhibit strong sequence similarity
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−	** C-terminal D,L-endopeptidase domain {{PubMed\|22139507}}
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−	** [[CwlO]] requires activation by [[FtsE]]-[[FtsX]] {{PubMed\|23869552,23855774}}
−	** activity requires functional [[Mbl]] {{PubMed\|23869552}}
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[FtsX]]-[[CwlO]], at the membrane {{PubMed\|23869552}}
−
−	* '''[[Localization]]:'''
−	** extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
−	** localizes to the outer lateral sidewall of the cell (via the N-terminal domain) {{PubMed\|22139507}}
−	** cell membrane in a FtsX-dependent manner {{PubMed\|23869552}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34800&redirect=T BSU34800]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P40767 P40767]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34800]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=cwlO_3574363_3575784_-1 cwlO] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|24163346}}
−
−	* '''Regulation:'''
−	** expressed during exponential growth ([[WalR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/17581128 PubMed]
−
−	* '''Regulatory mechanism:'''
−	** [[WalR]]: transcription activation [http://www.ncbi.nlm.nih.gov/sites/entrez/17581128 PubMed]
−
−	* '''Additional information:'''
−	** The mRNA has a long 5' leader region (187 N). This may indicate RNA-based regulation {{PubMed\|20525796}}
−	** the leader mRNA is subject to cleavage by [[rny\|RNase Y]], this results in limited expression of ''[[cwlO]]'' {{PubMed\|24163346}}
−	** there is a [[SigB]]-dependent anti-sense transcript which is expressed in the stationary phase {{PubMed\|24163346}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 207 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 200 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:''' BKE34800 (''[[cwlO]]''::''erm'', available in the BGSC and 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>23066944</pubmed>~~
−	~~== Original publications ==~~
−	~~<pubmed>21478646 16233686,17581128, 20525796,18957862, 20059685 ,22139507 23855774 23869552 24163346</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 135: / Line 135: @@
 =Biological materials =
-* '''Mutant:'''
+* '''Mutant:''' BKE34800 (''[[cwlO]]''::''erm'', available in the BGSC and in [[Jörg Stülke]]'s lab)
 * '''Expression vector:'''

@@ Line 130: / Line 130: @@
 ** the leader mRNA is subject to cleavage by [[rny|RNase Y]], this results in limited expression of ''[[cwlO]]'' {{PubMed|24163346}}
 ** there is a [[SigB]]-dependent anti-sense transcript which is expressed in the stationary phase {{PubMed|24163346}}
 =Biological materials =

@@ Line 57: / Line 57: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 99: / Line 100: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 126: / Line 126: @@
 * '''Additional information:'''
 ** The mRNA has a long 5' leader region (187 N). This may indicate RNA-based regulation {{PubMed|20525796}}
-** the leader mRNA is subject to cleavage by [[RNase Y|rny]], this results in limited expression of ''[[cwlO]]'' {{PubMed|24163346}}
+** the leader mRNA is subject to cleavage by [[rny|RNase Y]], this results in limited expression of ''[[cwlO]]'' {{PubMed|24163346}}
 ** there is a [[SigB]]-dependent anti-sense transcript which is expressed in the stationary phase {{PubMed|24163346}}

@@ Line 116: / Line 116: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=cwlO_3574363_3575784_-1 cwlO] {{PubMed|22383849}}
-* '''[[Sigma factor]]:''' [[SigA]] (according to {{PubMed|22139507}})
+* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|24163346}}
-* '''Regulation:''' activated by [[WalR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17581128 PubMed]
+* '''Regulation:'''
 * '''Regulatory mechanism:'''
 * '''Additional information:'''
-** The mRNA has a long 5' leader region. This may indicate RNA-based regulation {{PubMed|20525796}}
+** The mRNA has a long 5' leader region (187 N). This may indicate RNA-based regulation {{PubMed|20525796}}
 =Biological materials =
@@ Line 147: / Line 151: @@
 <pubmed>23066944</pubmed>
 == Original publications ==
-<pubmed>21478646 16233686,17581128, 20525796,18957862, 20059685 ,22139507 23855774 23869552</pubmed>
+<pubmed>21478646 16233686,17581128, 20525796,18957862, 20059685 ,22139507 23855774 23869552 24163346</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 15: / Line 15: @@
 |-
 |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=BSU34800 cwlO]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 50 kDa, 5.326
@@ Line 52: / Line 54: @@
 ===Phenotypes of a mutant ===
 * a ''[[cwlO]] [[lytE]]'' mutant is not viable {{PubMed|17581128,22139507}}
-* shorter, fatter cells {{PubMed|23855774}}
+* shorter, fatter cells, this can be rescued by addition of Mg(2+) {{PubMed|23869552,23855774}}
 === Database entries ===
@@ Line 77: / Line 79: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 ** C-terminal D,L-endopeptidase domain {{PubMed|22139507}}
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
-** [[CwlO]] requires activation by [[FtsE]]-[[FtsX]] {{PubMed|23855774}}
+** [[CwlO]] requires activation by [[FtsE]]-[[FtsX]] {{PubMed|23869552,23855774}}
 * '''[[SubtInteract|Interactions]]:'''
 * '''[[Localization]]:'''
 ** extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
 ** localizes to the outer lateral sidewall of the cell (via the N-terminal domain) {{PubMed|22139507}}
 === Database entries ===
@@ Line 111: / Line 116: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=cwlO_3574363_3575784_-1 cwlO] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigA]] (according to {{PubMed|22139507}})
+* '''[[Sigma factor]]:''' [[SigA]] (according to {{PubMed|22139507}})
 * '''Regulation:''' activated by [[WalR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17581128 PubMed]
@@ Line 142: / Line 147: @@
 <pubmed>23066944</pubmed>
 == Original publications ==
-<pubmed>21478646 16233686,17581128, 20525796,18957862, 20059685 ,22139507 23855774</pubmed>
+<pubmed>21478646 16233686,17581128, 20525796,18957862, 20059685 ,22139507 23855774 23869552</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 12: / Line 12: @@
 |style="background:#ABCDEF;" align="center"| '''Product''' || endopeptidase-type autolysin
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || cell wall synthesis, cell proliferation
+|style="background:#ABCDEF;" align="center"|'''Function''' || cell wall synthesis, cell elongation
 |-
 |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=BSU34800 cwlO]

← Older revision		Revision as of 12:41, 16 July 2013
Line 38:		Line 38:

	= [[Categories]] containing this gene/protein =		= [[Categories]] containing this gene/protein =
		+	{{SubtiWiki category\|[[cell wall synthesis]]}},
	{{SubtiWiki category\|[[cell wall degradation/ turnover]]}}		{{SubtiWiki category\|[[cell wall degradation/ turnover]]}}