Difference between revisions of "CitB"

From SubtiWiki
Jump to: navigation, search
(→‎Original publications)
Line 47: Line 47:
  
 
= This gene is a member of the following [[regulons]] =
 
= This gene is a member of the following [[regulons]] =
 +
{{SubtiWiki regulon|[[CcpA regulon]]}},
 
{{SubtiWiki regulon|[[CcpC regulon]]}},
 
{{SubtiWiki regulon|[[CcpC regulon]]}},
 
{{SubtiWiki regulon|[[CodY regulon]]}},
 
{{SubtiWiki regulon|[[CodY regulon]]}},
Line 76: Line 77:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' Citrate = isocitrate (according to Swiss-Prot)  
+
* '''Catalyzed reaction/ biological activity:'''  
 +
** Citrate = isocitrate (according to Swiss-Prot)  
 
** Binding to iron responsive elements (IRE RNA) in the absence of the FeS cluster [http://www.ncbi.nlm.nih.gov/pubmed/10468622 PubMed]
 
** Binding to iron responsive elements (IRE RNA) in the absence of the FeS cluster [http://www.ncbi.nlm.nih.gov/pubmed/10468622 PubMed]
  
Line 116: Line 118:
  
 
=Expression and regulation=
 
=Expression and regulation=
−
 
 
* '''Operon:''' ''[[citB]]'' (according to [http://dbtbs.hgc.jp/COG/prom/citB.html DBTBS])
 
* '''Operon:''' ''[[citB]]'' (according to [http://dbtbs.hgc.jp/COG/prom/citB.html DBTBS])
  
Line 148: Line 149:
  
 
* '''Expression vector:
 
* '''Expression vector:
−
**GP1439 (''citB''-''Strep'' ''(spc)''), purification from ''B. subtilis'', for [[SPINE]], available in [[Stülke]] lab
+
**GP1439 (''citB''-''Strep'' ''(spc)''), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab  
−
**pGP1810 (for expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]], available in [[Stülke]] lab)
+
**pGP1810 (for expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]], available in [[Jörg Stülke]]'s lab  
 
        
 
        
 
* '''lacZ fusion:'''  
 
* '''lacZ fusion:'''  
 
** pGP700 (in [[pAC5]]), available in [[Jörg Stülke]]'s lab
 
** pGP700 (in [[pAC5]]), available in [[Jörg Stülke]]'s lab
  
−
* '''GFP fusion:''' GP1434 (spc, based on [[pGP1870]]), available in the [[Stülke]] lab
+
* '''GFP fusion:''' GP1434 (spc, based on [[pGP1870]]), 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
 
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab
Line 165: Line 166:
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
−
 
+
* [[Linc Sonenshein]], Tufts University, Boston, MA, USA [http://www.tufts.edu/sackler/microbiology/faculty/sonenshein/index.html Homepage]
−
[[Linc Sonenshein|Linc Sonenshein]], Tufts University, Boston, MA, USA [http://www.tufts.edu/sackler/microbiology/faculty/sonenshein/index.html Homepage]
+
* [[Jörg Stülke]], University of Göttingen, Germany
−
 
 
−
[[Stülke|Jörg Stülke]], University of Göttingen, Germany
 
 
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]
 
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]
  
Line 177: Line 176:
 
<pubmed> 12732309 2696478 18261896 18086213 </pubmed>
 
<pubmed> 12732309 2696478 18261896 18086213 </pubmed>
 
==Original publications==
 
==Original publications==
−
<pubmed>18697947, 20097860,2118511,12591885,10656796,12591885,12850135 2413006 10656796 10468622 6143742 12591885 16395550 16923907 9642180 9393699 12591885 2105305,20933603 21099137 21446632 21821766 22389480 23139400</pubmed>
+
'''Additional publications:''' {{PubMed|20817675}}
−
 
+
<pubmed>18697947, 20097860,2118511,12591885,10656796,12591885,12850135 2413006 10656796 10468622 6143742 12591885 16395550 16923907 9642180 9393699 12591885 2105305,20933603 </pubmed>
 +
----
 +
<pubmed>21099137 21446632 21821766 22389480 23139400</pubmed>
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 17:06, 9 December 2012

Gene name citB
Synonyms
Essential no
Product trigger enzyme: aconitate hydratase (aconitase)
Function TCA cycle
Gene expression levels in SubtiExpress: citB
Interactions involving this protein in SubtInteract: CitB
Metabolic function and regulation of this protein in SubtiPathways:
Central C-metabolism
MW, pI 99 kDa, 4.903
Gene length, protein length 2727 bp, 909 aa
Immediate neighbours sspO, yneN
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
CitB context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
CitB expression.png















Categories containing this gene/protein

carbon core metabolism, trigger enzyme, RNA binding regulators

This gene is a member of the following regulons

CcpA regulon, CcpC regulon, CodY regulon, FsrA regulon

The CitB regulon: feuA-feuB-feuC-ybbA

The gene

Basic information

  • Locus tag: BSU18000

Phenotypes of a mutant

glutamate auxotrophy and a defect in sporulation PubMed

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

  • A mutation was found in this gene after evolution under relaxed selection for sporulation PubMed


The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
    • Citrate = isocitrate (according to Swiss-Prot)
    • Binding to iron responsive elements (IRE RNA) in the absence of the FeS cluster PubMed
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s): FeS cluster
  • Effectors of protein activity:

Database entries

  • Structure: 1L5J (E. coli)
  • KEGG entry: [3]

Additional information

  • B. subtilis aconitase is both an enzyme and an RNA binding protein (moonlighting protein) PubMed
  • extensive information on the structure and enzymatic properties of CitB can be found at Proteopedia

Expression and regulation

  • Regulation:
    • repressed during growth in the presence of branched chain amino acids (CodY) PubMed
    • repressed in the presence of glucose and glutamate (CcpC) PubMed
    • expressed upon transition into the stationary phase (AbrB) PubMed, indirect negative regulation by AbrB PubMed
    • repressed by glucose (3.7-fold) (CcpA) PubMed
    • repression by glucose + arginine (CcpC) PubMed
    • less expressed under conditions of extreme iron limitation (FsrA) PubMed
    • part of the iron sparing response (FsrA) PubMed
  • Additional information:

Biological materials

  • Expression vector:
    • GP1439 (citB-Strep (spc)), purification from B. subtilis, for SPINE, available in Jörg Stülke's lab
    • pGP1810 (for expression, purification in E. coli with N-terminal Strep-tag, in pGP172, 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

Labs working on this gene/protein

Homepage

Your additional remarks

References

Reviews

Original publications

Additional publications: PubMed

Retrieved from "http://subtiwiki.uni-goettingen.de/wiki//index.php?title=CitB&oldid=178016"