Difference between revisions of "Easter egg"

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−
* '''Description:''' [[small RNAs|small regulatory RNA]] controlling [[AhrC]] expression, peptide controlling the stability of the ''[[cggR]]-[[gapA]]'' mRNA <br/><br/>
+
* '''Description:''' aminoglycoside 6-adenylyltransferase <br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''sr1''
+
|''aadK''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykzW ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || [[small RNAs|small regulatory RNA]]/ regulatory peptide
+
|style="background:#ABCDEF;" align="center"| '''Product''' || aminoglycoside 6-adenylyltransferase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || control of arginine metabolism and glycolysis
+
|style="background:#ABCDEF;" align="center"|'''Function''' || resistance to streptomycin
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 4.4 kDa, 3.89
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33 kDa, 4.755 
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 205 bp (RNA), 120 bp (ORF), 39 aa
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 852 bp, 284 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[slp]]'', ''[[speA]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yrdA]]'', ''[[yrpB]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/sr1_nucleotide.txt    Gene sequence        ]'''  
+
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14620&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
−
|style="background:#FAF8CC;" align="center"|
 
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:sr1_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:aadK_context.gif]]
 +
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
|-
 
|-
 
|}
 
|}
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__TOC__
 
__TOC__
  
−
<br/><br/><br/>
+
<br/><br/>
  
−
 
 
=The gene=
 
=The gene=
  
 
=== Basic information ===
 
=== Basic information ===
  
−
* '''Locus tag:'''
+
* '''Locus tag:''' BSU26790
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
Line 43: Line 42:
  
 
* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
 +
 +
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11037]
  
 
=== Additional information===
 
=== Additional information===
−
Located between the ''[[slp]]'' and ''[[speA]]'' genes.
 
  
  
  
 
= Categories containing this gene/protein =
 
= Categories containing this gene/protein =
−
{{SubtiWiki category|[[biosynthesis/ acquisition of amino acids]]}},
+
{{SubtiWiki category|[[resistance against toxins/ antibiotics]]}}
−
{{SubtiWiki category|[[utilization of amino acids]]}},
+
=The protein=
−
{{SubtiWiki category|[[ncRNA]]}}
 
−
=The RNA=
 
  
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:''' hybridizes to ''[[ahrC]]'' mRNA and inhibits [[AhrC]] translation. [http://www.ncbi.nlm.nih.gov/sites/entrez/17020585 PubMed]
+
* '''Catalyzed reaction/ biological activity:'''  
−
 
 
−
=== Extended information on the RNA===
 
−
 
 
−
* '''Kinetic information'''
 
−
 
 
−
* '''Interactions:''' Binds ''[[ahrC]]'' mRNA [http://www.ncbi.nlm.nih.gov/sites/entrez/17020585 PubMed]
 
−
 
 
−
* '''Localization'''
 
−
 
 
−
=== Database entries ===
 
  
−
* '''Structure''':
+
* '''Protein family:'''
−
 
 
−
=== Additional information===
 
−
 
 
−
Information on the structure of the RNA can be found in [http://www.ncbi.nlm.nih.gov/pubmed/17020585?ordinalpos=8&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DefaultReportPanel.Pubmed_RVDocSum Heidrich ''et al''., 2006 ]
 
−
 
 
−
=The peptide=
 
−
 
 
−
=== Basic information/ Evolution ===
 
−
 
 
−
* '''Catalyzed reaction/ biological activity:''' the peptide controls the stability of the ''[[cggR]]-[[gapA]]'' mRNA {{PubMed|20444087}}
 
−
 
 
−
* '''Protein family:''' the peptide is conserved in bacilli
 
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''  
+
* '''Interactions:'''
−
** [[GapA]]-[[YkzW]] {{PubMed|20444087}}
 
  
 
* '''Localization:'''
 
* '''Localization:'''
Line 104: Line 79:
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''Structure:'''
+
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2PBE 2PBE]
  
−
* '''UniProt:''' [http://www.uniprot.org/uniprot/C0H410 C0H410]
+
* '''UniProt:''' [http://www.uniprot.org/uniprot/P17585 P17585]
  
−
* '''KEGG entry:'''
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU26790]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 116: Line 91:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:''' sr1 [http://www.ncbi.nlm.nih.gov/sites/entrez/16164558 PubMed]
+
* '''Operon:'''  
  
−
* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16164558 PubMed]
+
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:''' Repressed in the presence of glucose by [[CcpN]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16164558 PubMed]
+
* '''Regulation:'''  
  
−
* '''Regulatory mechanism:''' transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/16164558 PubMed]
+
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''
+
* '''Additional information:'''  
  
 
=Biological materials =
 
=Biological materials =
  
−
* '''Mutant:''' 168 sr1::cat, available in [[Brantl]] lab
+
* '''Mutant:'''
  
 
* '''Expression vector:'''
 
* '''Expression vector:'''
−
+
       
 
* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
 +
 +
* '''GFP fusion:'''
 +
 +
* '''two-hybrid system:'''
 +
 +
* '''Antibody:'''
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
−
 
−
[[Sabine Brantl |Sabine Brantl]], Bacterial Genetics, Friedrich-Schiller-University of Jena, Germany [http://www.uni-jena.de/AG_Bakteriengenetik_(_Doz__Dr__Sabine_Brantl_).html homepage]
 
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
−
<pubmed>16164558 17020585 17576690, 20444087 </pubmed>
+
<pubmed>2550327,8293959,, </pubmed>
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 15:21, 30 November 2010

  • Description: aminoglycoside 6-adenylyltransferase

Gene name aadK
Synonyms
Essential no
Product aminoglycoside 6-adenylyltransferase
Function resistance to streptomycin
MW, pI 33 kDa, 4.755
Gene length, protein length 852 bp, 284 aa
Immediate neighbours yrdA, yrpB
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
AadK context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Locus tag: BSU26790

Phenotypes of a mutant

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]

Additional information

Categories containing this gene/protein

resistance against toxins/ antibiotics

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization:

Database entries

  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Regulation:
  • Regulatory mechanism:
  • Additional information:

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/protein

Your additional remarks

References

N Noguchi, M Sasatsu, M Kono
Genetic mapping in Bacillus subtilis 168 of the aadK gene which encodes aminoglycoside 6-adenylyltransferase.
FEMS Microbiol Lett: 1993, 114(1);47-52
[PubMed:8293959] [WorldCat.org] [DOI] (P p)

K Ohmiya, T Tanaka, N Noguchi, K O'Hara, M Kono
Nucleotide sequence of the chromosomal gene coding for the aminoglycoside 6-adenylyltransferase from Bacillus subtilis Marburg 168.
Gene: 1989, 78(2);377-8
[PubMed:2550327] [WorldCat.org] [DOI] (P p)

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