Hmp - Revision history

Jstuelk: /* References */

2014-05-26T15:50:18Z

‎References

Jstuelk at 15:47, 26 May 2014

2014-05-26T15:47:05Z

134.76.70.252 at 09:56, 17 April 2014

2014-04-17T09:56:11Z

134.76.38.147 at 13:30, 2 April 2014

2014-04-02T13:30:47Z

134.76.70.252 at 10:36, 7 January 2014

2014-01-07T10:36:05Z

134.76.70.252 at 13:04, 16 May 2013

2013-05-16T13:04:39Z

134.76.70.252 at 10:00, 14 May 2013

2013-05-14T10:00:36Z

134.76.70.252 at 12:37, 13 May 2013

2013-05-13T12:37:54Z

134.76.70.252 at 10:50, 8 August 2012

2012-08-08T10:50:00Z

134.76.70.252 at 08:16, 7 August 2012

2012-08-07T08:16:06Z

← Older revision		Revision as of 15:50, 26 May 2014
Line 1:		Line 1:
−	* '''Description:''' flavohemoglobin, involved in resistance to nitric oxide (NO), essential for long-term survival under anaerobic conditions<br/><br/>	+	{{#bank: Hmp}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''hmp''~~
−	\|-
−	~~\|style="background:~~#~~ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ykiA ''~~
−	\|-
−	~~\|style="background~~:~~#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| flavohemoglobin~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| resistance to NO~~
−	\|-
−	\|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=BSU13040 hmp]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Metabolic function and regulation of this protein in [[SubtiPathways\|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=hmp hmp]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 44 kDa, 5.705~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1197 bp, 399 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ykhA]]'', ''[[ykzH]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13040 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13040 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13040 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:hmp_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=hmp_1372792_1373991_1 Expression at a glance]'''   {{PubMed\|22383849~~}~~}<br/>[[Image:hmp_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13040]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<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 other toxic compounds (nitric oxide, phenolic acids, flavonoids, oxalate)]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[NsrR regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[ResD regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU13040
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU13040&redirect=T BSU13040]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/hmp.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11418]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' 2 NO + 2 O<sub>2</sub> + NAD(P)H = 2 NO<sub>3</sub><sup>-</sup> + NAD(P)<sup>+</sup> (according to Swiss-Prot)
−
−	* '''Protein family:''' FAD-binding FR-type domain (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=BSU13040&redirect=T BSU13040]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P49852 P49852]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13040]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−	** ''hmp'' {{PubMed\|8682784}}
−	** ''[[hmp]]-[[ykjA]]'' {{PubMed\|22383849}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=hmp_1372792_1373991_1 hmp] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigA]] {{PubMed\|8682784}}
−
−	* '''Regulation:'''
−	** expressed under anaerobic conditions ([[ResD]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/10972836 PubMed]
−	** induced by nitric oxide under anaerobic conditions ([[NsrR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/16885456 PubMed]
−
−	* '''Regulatory mechanism:'''
−	** [[ResD]]: transcription activation [http://www.ncbi.nlm.nih.gov/sites/entrez/10972836 PubMed]
−	** [[NsrR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/16885456 PubMed]
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 27 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 346 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>8682784,15231799,,10972836,16885456,18487332, 16923910 22383849</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 66: / Line 66: @@
 === Additional information===
 =The protein=
@@ Line 111: / Line 108: @@
 =Expression and regulation=
-* '''Operon:''' ''hmp'' {{PubMed|8682784}}
+* '''Operon:'''
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=hmp_1372792_1373991_1 hmp] {{PubMed|22383849}}
@@ Line 149: / Line 148: @@
 =References=
-<pubmed>8682784,15231799,,10972836,16885456,18487332, 16923910 </pubmed>
+<pubmed>8682784,15231799,,10972836,16885456,18487332, 16923910 22383849</pubmed>
 [[Category:Protein-coding genes]]

← Older revision		Revision as of 09:56, 17 April 2014
Line 126:		Line 126:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 27 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 346 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 59: / Line 59: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/hmp.html]
@@ Line 96: / Line 97: @@
 === Database entries ===
 * '''Structure:'''

@@ 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=BSU13040 hmp]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/stress_response.html Stress]'''
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=hmp hmp]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 44 kDa, 5.705

@@ Line 28: / Line 28: @@
   <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=hmp_1372792_1373991_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:hmp_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=hmp_1372792_1373991_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:hmp_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13040]]
 |-
 |}

@@ Line 23: / Line 23: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykhA]]'', ''[[ykzH]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13040 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13040 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13040 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13040 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13040 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13040 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:hmp_context.gif]]

@@ Line 1: / Line 1: @@
+* '''Description:''' flavohemoglobin, involved in resistance to nitric oxide (NO), essential for long-term survival under anaerobic conditions<br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-