HemQ - Revision history

Jstuelk: /* Biological materials */

2015-04-01T12:14:32Z

‎Biological materials

Jgundlach: /* Biological materials */

2015-04-01T11:40:24Z

‎Biological materials

Jgundlach: /* Biological materials */

2015-04-01T11:38:17Z

‎Biological materials

Jgundlach: /* Biological materials */

2015-04-01T11:37:23Z

‎Biological materials

Jgundlach: /* Biological materials */

2015-04-01T11:36:43Z

‎Biological materials

Jstuelk: /* Biological materials */

2014-09-24T14:06:33Z

‎Biological materials

Jstuelk: /* Database entries */

2014-08-29T13:48:30Z

‎Database entries

134.76.70.252 at 11:25, 17 April 2014

2014-04-17T11:25:12Z

134.76.70.252 at 11:47, 8 April 2014

2014-04-08T11:47:28Z

134.76.38.147 at 15:05, 2 April 2014

2014-04-02T15:05:50Z

← Older revision		Revision as of 12:14, 1 April 2015
Line 1:		Line 1:
−	* '''Description:~~''' heme-binding protein, essential for heme biosynthesis <br/><br/>~~	+	{{#bank: HemQ}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''hemQ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ipa-87r, ywfI ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| heme-binding protein~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| biosynthesis of heme~~
−	\|-
−	\|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=BSU37670 hemQ]
−	\|-
−	\|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=HemQ HemQ]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 29 kDa, 4.972~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 762 bp, 254 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[pta]]'', ''[[bacG]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU37670 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU37670 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU37670 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ywfI_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=ywfI_3866596_3867360_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:hemQ_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU37670]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[biosynthesis of cofactors]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU37670
−
−	~~===Phenotypes of a mutant ===~~
−	~~defect in heme biosynthesis~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU37670&redirect=T BSU37670]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywfI.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10633]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' UPF0447 family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:''' phosphorylation on Ser-41 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
−
−	* '''Cofactor(s):''' heme
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU37670&redirect=T BSU37670]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1T0T 1T0T] (''Geobacillus stearothermophilus'')
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P39645 P39645]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU37670]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''hemQ'' {{PubMed\|9353933}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywfI_3866596_3867360_1 hemQ] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 358 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 1041 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−	**pGP2643: IPTG inducible expression, purification in ''E. coli'' with N-terminal His-tag, in [[pWH844]], available in [[Jörg Stülke]]'s lab
−	**pGP2644: IPTG inducible expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]], available in [[Jörg Stülke]]'s lab
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab
−
−	* '''FLAG-tag vector:'''
−	** pGP2658 ''hemQ-3xFLAG ermC'' (based on [[pBQ200]]), available in [[Jörg Stülke]]'s lab
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>17218307, 9353933 20543190 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

← Older revision		Revision as of 11:40, 1 April 2015
Line 135:		Line 135:

	* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab		* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab
		+
		+	* '''FLAG-tag vector:'''
		+	** pGP2658 ''hemQ-3xFLAG ermC'' (based on [[pBQ200]]), available in [[Jörg Stülke]]'s lab

	* '''Antibody:'''		* '''Antibody:'''

@@ Line 134: / Line 134: @@
 * '''GFP fusion:'''
-* '''two-hybrid system:'''
+* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab
 * '''Antibody:'''

← Older revision		Revision as of 11:37, 1 April 2015
Line 127:		Line 127:

	* '''Expression vector:'''		* '''Expression vector:'''
		+	**pGP2643: IPTG inducible expression, purification in ''E. coli'' with N-terminal His-tag, in [[pWH844]], available in [[Jörg Stülke]]'s lab
	**pGP2644: IPTG inducible expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]], available in [[Jörg Stülke]]'s lab		**pGP2644: IPTG inducible expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]], available in [[Jörg Stülke]]'s lab

@@ Line 127: / Line 127: @@
 * '''Expression vector:'''
-** pGP2633, constitutive expression of Strep-HemQ in ''B. subtilis'', for [[SPINE]] (based on [[pGP380]]), available in [[Jörg Stülke]]'s lab
+**pGP2644: IPTG inducible expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]], available in [[Jörg Stülke]]'s lab
 * '''lacZ fusion:'''

@@ Line 96: / Line 96: @@
 * '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU37670&redirect=T BSU37670]
-* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1TOT 1TOT] (Geobacillus stearothermophilus)
+* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1T0T 1T0T] (''Geobacillus stearothermophilus'')
 * '''UniProt:''' [http://www.uniprot.org/uniprot/P39645 P39645]

← Older revision		Revision as of 11:25, 17 April 2014
Line 119:		Line 119:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 358 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 1041 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ 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=BSU37670 hemQ]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 4.972

@@ Line 54: / Line 54: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywfI.html]
@@ Line 91: / Line 92: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1TOT 1TOT] (Geobacillus stearothermophilus)