EfeB - Revision history

Jstuelk: /* Original publications */

2015-08-05T17:16:38Z

‎Original publications

134.76.70.252 at 11:26, 17 April 2014

2014-04-17T11:26:08Z

134.76.70.252 at 11:45, 8 April 2014

2014-04-08T11:45:05Z

Jstuelk: /* Original publications */

2014-03-14T08:41:33Z

‎Original publications

Jstuelk: /* Original publications */

2014-03-14T08:38:27Z

‎Original publications

Jstuelk at 14:12, 6 December 2013

2013-12-06T14:12:44Z

Jstuelk: /* References */

2013-07-30T06:21:00Z

‎References

Jstuelk at 16:35, 21 June 2013

2013-06-21T16:35:42Z

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

2013-06-21T16:32:32Z

‎Categories containing this gene/protein

Jstuelk at 16:29, 21 June 2013

2013-06-21T16:29:38Z

← Older revision		Revision as of 17:16, 5 August 2015
Line 1:		Line 1:
−	* '''Description:''' elemental iron uptake system, heme peroxidase, converts ferrous iron (Fe(II) to ferric iron (FeIII)) for uptake by [[EfeO]]-[[EfeU]], peroxide detoxification under microaerobic conditions<br/><br/>	+	{{#bank: EfeB}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''efeB''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ipa-29d, ywbN ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| heme peroxidase in elemental iron uptake~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| ferrous iron conversion~~
−	\|-
−	\|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=BSU38260 efeB]
−	\|-
−	\|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/EfeB EfeB]
−	\|-
−	\|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=EfeB EfeB]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 45 kDa, 8.64~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1248 bp, 416 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ywbO]]'', ''[[efeO]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU38260 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU38260 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU38260 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ywbN_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=efeN_3926682_3927932_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:ywbN_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU38260]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[acquisition of iron]]}},~~
−	~~{{SubtiWiki category\|[[iron metabolism]]}},~~
−	~~{{SubtiWiki category\|[[cell envelope stress proteins (controlled by SigM, V, W, X, Y)]]}},~~
−	~~{{SubtiWiki category\|[[resistance against oxidative and electrophile stress]]}},~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[Fur regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[SigM regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[SigW regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[SigX regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU38260
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywbLMN.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10575]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** oxidizes ferrous iron to ferric iron for uptake by [[EfeO]]-[[EfeU]] {{PubMed\|23764491}}
−	** eliminates reactive oxygen species that accumulate in the presence of ferrous iron {{PubMed\|23764491}}
−	** peroxide detoxification under microaerobic conditions {{PubMed\|23764491}}
−
−	* '''Protein family:''' DyP-type peroxidase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−	** protoheme IX {{PubMed\|23764491}}
−
−	* '''Effectors of protein activity:'''
−	** activity is increased in the presence of [[EfeO]] due to the displacement of ferric iron {{PubMed\|23764491}}
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[EfeO]]-[[EfeU]]-[[EfeB]] {{PubMed\|23180473,23764491}}
−
−	* '''[[Localization]]:'''
−	** extracellular, secreted by the [[TatAY]]-[[TatCY]] complex {{PubMed\|15554971}}
−	** [[TatAY]]-[[TatCY]]-dependent export of [[EfeB]] requires a functional [[WprA]] {{PubMed\|23180473}}
−	** forms a membrane-bound complex with [[EfeU]] and [[EfeO]] for iron uptake {{PubMed\|23180473,23764491}}
−	** attached to the membrane via [[EfeU]] {{PubMed\|23764491}}
−
−	~~=== Database entries ===~~
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P39597 P39597]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU38260]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−	* '''Operon:'''
−	** ''[[efeU]]-[[efeO]]-[[efeB]]'' {{PubMed\|9353933}}
−	** ''[[efeB]]-[[ywbO]]'' {{PubMed\|18179421}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=efeN_3926682_3927932_-1 efeB] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−	** ''[[efeU]]'': [[SigA]] {{PubMed\|23764491}}
−	** ''[[efeB]]'': [[SigM]] {{PubMed\|18179421}}, [[SigX]], [[SigW]] {{PubMed\|9683469}}
−
−	* '''Regulation:'''
−	** induced upon iron starvation ([[Fur]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12354229 PubMed]
−
−	* '''Regulatory mechanism:'''
−	** [[Fur]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12354229 PubMed]
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 141 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~[[Jan Maarten van Dijl]], Groningen, Netherlands~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~== Reviews ==~~
−	~~<pubmed> 24140208 </pubmed>~~
−	~~== Original publications ==~~
−	~~<pubmed>16672620,19180538,12354229, 19383693 9353933 9683469 15554971 21479178 18179421 22923395 23180473 23560556 23764491 23820555 24620988 18931290 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

← Older revision		Revision as of 11:26, 17 April 2014
Line 137:		Line 137:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 141 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 18: / Line 18: @@
 |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/EfeB EfeB]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''
+|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=EfeB EfeB]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 45 kDa, 8.64

@@ Line 162: / Line 162: @@
 <pubmed> 24140208 </pubmed>
 == Original publications ==
-<pubmed>16672620,19180538,12354229, 19383693 9353933 9683469 15554971 21479178 18179421 22923395 23180473 23560556 23764491 23820555 24620988 </pubmed>
+<pubmed>16672620,19180538,12354229, 19383693 9353933 9683469 15554971 21479178 18179421 22923395 23180473 23560556 23764491 23820555 24620988 18931290 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 162: / Line 162: @@
 <pubmed> 24140208 </pubmed>
 == Original publications ==
-<pubmed>16672620,19180538,12354229, 19383693 9353933 9683469 15554971 21479178 18179421 22923395 23180473 23560556 23764491 23820555 </pubmed>
+<pubmed>16672620,19180538,12354229, 19383693 9353933 9683469 15554971 21479178 18179421 22923395 23180473 23560556 23764491 23820555 24620988 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 88: / Line 88: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 ** protoheme IX {{PubMed|23764491}}
@@ Line 159: / Line 159: @@
 =References=
 <pubmed>16672620,19180538,12354229, 19383693 9353933 9683469 15554971 21479178 18179421 22923395 23180473 23560556 23764491 23820555 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 42: / Line 42: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[acquisition of iron]]}},
 {{SubtiWiki category|[[iron metabolism]]}},

@@ Line 46: / Line 46: @@
 {{SubtiWiki category|[[iron metabolism]]}},
 {{SubtiWiki category|[[cell envelope stress proteins (controlled by SigM, V, W, X, Y)]]}},
 {{SubtiWiki category|[[membrane proteins]]}}

@@ Line 1: / Line 1: @@
-* '''Description:''' elemental iron uptake system, heme peroxidase converts ferrous iron (Fe(II) to ferric iron (FeIII))  for uptake by [[EfeO]]-[[EfeU]], peroxide detoxification under microaerobic conditions<br/><br/>
+* '''Description:''' elemental iron uptake system, heme peroxidase, converts ferrous iron (Fe(II) to ferric iron (FeIII))  for uptake by [[EfeO]]-[[EfeU]], peroxide detoxification under microaerobic conditions<br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 10: / Line 10: @@
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' || elemental iron uptake
+|style="background:#ABCDEF;" align="center"| '''Product''' || heme peroxidase in elemental iron uptake
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || ferrous iron conversion
@@ Line 76: / Line 76: @@
 * '''Catalyzed reaction/ biological activity:'''
 * '''Protein family:''' DyP-type peroxidase family (according to Swiss-Prot)
@@ Line 90: / Line 93: @@
 * '''Cofactor(s):'''
 * '''Effectors of protein activity:'''
 * '''[[SubtInteract|Interactions]]:'''