HypO - Revision history

134.76.70.252 at 14:17, 17 April 2014

2014-04-17T14:17:36Z

134.76.70.252 at 11:24, 17 April 2014

2014-04-17T11:24:58Z

134.76.38.147 at 13:12, 2 April 2014

2014-04-02T13:12:23Z

134.76.70.252 at 12:46, 16 May 2013

2013-05-16T12:46:57Z

134.76.70.252 at 09:42, 14 May 2013

2013-05-14T09:42:55Z

134.76.70.252 at 12:21, 13 May 2013

2013-05-13T12:21:50Z

Raphael2215 at 11:17, 13 August 2012

2012-08-13T11:17:36Z

134.76.70.252 at 15:58, 6 August 2012

2012-08-06T15:58:16Z

134.76.70.252 at 16:00, 18 April 2012

2012-04-18T16:00:47Z

134.76.70.252 at 16:09, 12 April 2012

2012-04-12T16:09:40Z

← Older revision		Revision as of 14:17, 17 April 2014
Line 1:		Line 1:
−	* '''Description:''' NAD(P)H-flavin nitroreductase <br/><br/>	+	{{#bank: HypO}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''hypO''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yfkO''~~
−	\|-
−	~~\|style="background:~~#~~ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background~~:~~#ABCDEF;" align="center"\| '''Product''' \|\| NAD(P)H-flavin nitroreductase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| protection against NaOCl stress~~
−	\|-
−	\|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=BSU07830 hypO]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 25 kDa, 5.667~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 663 bp, 221 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[treR]]'', ''[[yfkN]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07830 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07830 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07830 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yfkO_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=yfkO_854412_855077_1 Expression at a glance]'''   {{PubMed\|22383849}~~}~~<br/>[[Image:hypO_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07830]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−
−
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[electron transport/ other]]}},~~
−	~~{{SubtiWiki category\|[[resistance against oxidative and electrophile stress]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[HypR regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU07830
−
−	~~===Phenotypes of a mutant ===~~
−	* a ''[[hypO]] [[ohrA]]'' mutant is more sensitive to NaOCl stress than ''[[ohrA]]'' single mutant {{PubMed\|22238377}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07830&redirect=T BSU07830]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yfkO.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12931]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' nitroreductase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07830&redirect=T BSU07830]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O34475 O34475]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07830]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''hypO'' {{PubMed\|22238377}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yfkO_854412_855077_1 hypO] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigA]] {{PubMed\|22238377}}
−
−	* '''Regulation:'''
−	** induced under disulfide stress conditions (diamide, NaOCl) ([[HypR]]) {{PubMed\|22238377}}
−
−	* '''Regulatory mechanism:'''
−	** [[HypR]]:transcription activation {{PubMed\|22238377}}
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 292 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 638 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	* [[Haike Antelmann]], University of Greifswald, Germany
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~==Original articles==~~
−	~~<pubmed>20727918</pubmed>~~
−
−	~~Palm GJ, Khanh Chi B, Waack P, Gronau K, Becher D, Albrecht D, Hinrichs W, Read RJ, Antelmann H.~~
−	~~Structural insights into the redox-switch mechanism of the MarR/DUF24-type regulator HypR.~~
−	~~Nucleic Acids Res. 2012, Jan 11. [Epub ahead of print]~~
−	~~{{PubMed\|22238377}}~~
−
−
−
−	~~[[Category:Protein-coding genes]]~~

← Older revision		Revision as of 11:24, 17 April 2014
Line 120:		Line 120:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 292 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 638 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 57: / Line 57: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yfkO.html]
@@ Line 92: / Line 93: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 26: / Line 26: @@
   <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=yfkO_854412_855077_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:hypO_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yfkO_854412_855077_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:hypO_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07830]]
 |-
 |}

@@ Line 21: / Line 21: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[treR]]'', ''[[yfkN]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07830 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07830 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07830 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07830 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07830 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07830 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yfkO_context.gif]]

@@ Line 13: / Line 13: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || protection against NaOCl stress
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU07830 hypO]
+|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=BSU07830 hypO]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 25 kDa, 5.667
@@ Line 21: / Line 21: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[treR]]'', ''[[yfkN]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12612&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07830 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07830 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07830 Advanced_DNA]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yfkO_context.gif]]

@@ Line 1: / Line 1: @@
+* '''Description:''' NAD(P)H-flavin nitroreductase <br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-

@@ Line 98: / Line 98: @@
 * '''Operon:''' ''hypO'' {{PubMed|22238377}}
-* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|22238377}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yfkO_854412_855077_1 hypO] {{PubMed|22383849}}
 * '''Regulation:'''