Revision as of 14:22, 30 November 2010

Description: inhibitor of AbrB activity

Gene name	abbA
Synonyms	ykzF
Essential	no
Product	anti-repressor
Function	inhibition of AbrB
MW, pI	7 kDa, 4.642
Gene length, protein length	195 bp, 65 aa
Immediate neighbours	ykuK, ykuL
Get the DNA and protein sequences (Barbe et al., 2009)
Genetic context This image was kindly provided by SubtiList

The gene

Basic information

Locus tag: BSU14120

Phenotypes of a mutant

Database entries

DBTBS entry: [1]

SubtiList entry: [2]

Additional information

Categories containing this gene/protein

transcription factors and their control

The protein

Basic information/ Evolution

Catalyzed reaction/ biological activity: inhibition of AbrB activity PubMed

Protein family:

Paralogous protein(s):

Extended information on the protein

Kinetic information:

Domains:

Modification:

Cofactor(s):

Effectors of protein activity:

Interactions: AbbA-AbrB PubMed

Localization:

Database entries

Structure:

UniProt: O31697

KEGG entry: [3]

E.C. number:

Additional information

Expression and regulation

Operon: ykuJ-ykuK-abbA-ykuL-ccpC PubMed

Sigma factor:

Regulation:
- repressed by glucose (4.3-fold) (CcpA) PubMed
- expressed under conditions that trigger sporulation (Spo0A) PubMed

Regulatory mechanism:
- CcpA: transcription repression PubMed
- Spo0A: transcription activation by Spo0A~P PubMed

Additional information:

Biological materials

Mutant: GP214 (deletion of ykuJ-ykuK-abbA-ykuL, replaced by aphA3), available in the Stülke lab

Expression vector:

lacZ fusion: pGP708 (in pAC5), available in Stülke lab, pGP712 (in pAC6), available in Stülke lab

GFP fusion:

two-hybrid system:

Antibody:

Labs working on this gene/protein

Richard Losick, Harvard Univ., Cambridge, USA homepage

Your additional remarks

References

@@ Line 1: / Line 1: @@
-* '''Description:''' amino acid permease <br/><br/>
+* '''Description:''' inhibitor of [[AbrB]] activity<br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-
 |style="background:#ABCDEF;" align="center"|'''Gene name'''
-|''aapA''
+|''abbA ''
 |-
-|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ykzF''
 |-
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' || amino acid permease
+|style="background:#ABCDEF;" align="center"| '''Product''' || anti-repressor
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || amino acid uptake
+|style="background:#ABCDEF;" align="center"|'''Function''' || inhibition of [[AbrB]]
 |-
-|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 50 kDa, 9.675
+|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 7 kDa, 4.642
 |-
-|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1377 bp, 459 aa
+|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 195 bp, 65 aa
 |-
-|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[levR]]'', ''[[yrhP]]''
+|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykuK]]'', ''[[ykuL]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14651&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13285&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 |-
-|-
+|colspan="2" | '''Genetic context''' <br/> [[Image:ykzF_context.gif]]
-|-
-|colspan="2" | '''Genetic context''' <br/> [[Image:aapA_context.gif]]
   <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 |-
@@ Line 31: / Line 29: @@
 __TOC__
-<br/><br/><br/><br/>
+<br/><br/>
 =The gene=
@@ Line 37: / Line 35: @@
 === Basic information ===
-* '''Locus tag:''' BSU27090
+* '''Locus tag:''' BSU14120
 ===Phenotypes of a mutant ===
@@ Line 43: / Line 41: @@
 === Database entries ===
-* '''DBTBS entry:''' no entry
+* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ykuJK-ykzF-ykuL-ccpC.html]
-* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12556]
+* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13334]
 === Additional information===
@@ Line 52: / Line 50: @@
 = Categories containing this gene/protein =
-{{SubtiWiki category|[[transporters/ other]]}}
+{{SubtiWiki category|[[transcription factors and their control]]}}
 =The protein=
 === Basic information/ Evolution ===
-* '''Catalyzed reaction/ biological activity:'''
+* '''Catalyzed reaction/ biological activity:''' inhibition of AbrB activity [http://www.ncbi.nlm.nih.gov/sites/entrez/18840696 PubMed]
-* '''Protein family:''' amino acid-polyamine-organocation (APC) superfamily (according to Swiss-Prot)
+* '''Protein family:'''
-* '''Paralogous protein(s):''' [[YtnA]], [[YbxG]], [[YdgF]]
+* '''Paralogous protein(s):'''
 === Extended information on the protein ===
@@ Line 75: / Line 73: @@
 * '''Effectors of protein activity:'''
-* '''Interactions:'''
+* '''Interactions:''' [[AbbA]]-[[AbrB]] [http://www.ncbi.nlm.nih.gov/sites/entrez/18840696 PubMed]
 * '''Localization:'''
@@ Line 83: / Line 81: @@
 * '''Structure:'''
-* '''UniProt:''' [http://www.uniprot.org/uniprot/O06005 O06005]
+* '''UniProt:''' [http://www.uniprot.org/uniprot/O31697 O31697]
-* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU27090]
+* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU14120]
 * '''E.C. number:'''
@@ Line 93: / Line 91: @@
 =Expression and regulation=
-* '''Operon:'''
+* '''Operon:''' ''[[ykuJ]]-[[ykuK]]-[[abbA]]-[[ykuL]]-[[ccpC]]'' {{PubMed|16395550}}
-* '''[[Sigma factor]]:'''
+* '''Sigma factor:'''
 * '''Regulation:'''
+** repressed by glucose (4.3-fold) ([[CcpA]]) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
+** expressed under conditions that trigger sporulation ([[Spo0A]]) {{PubMed|18840696,14651647}}
 * '''Regulatory mechanism:'''
+** [[CcpA]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12850135 PubMed]
+** [[Spo0A]]: transcription activation by [[Spo0A]]~P {{PubMed|18840696,14651647}}
 * '''Additional information:'''
 =Biological materials =
-* '''Mutant:'''
+* '''Mutant:''' GP214 (deletion of ''[[ykuJ]]-[[ykuK]]-[[abbA]]-[[ykuL]]'', replaced by ''aphA3''), available in the [[Stülke]] lab
 * '''Expression vector:'''
-* '''lacZ fusion:'''
+* '''lacZ fusion:''' pGP708 (in [[pAC5]]), available in [[Stülke]] lab, pGP712 (in [[pAC6]]), available in [[Stülke]] lab
 * '''GFP fusion:'''
@@ Line 118: / Line 120: @@
 =Labs working on this gene/protein=
+[[Richard Losick]], Harvard Univ., Cambridge, USA [http://www.mcb.harvard.edu/Losick/ homepage]
 =Your additional remarks=
 =References=
+<pubmed>,18840696,14651647,12850135 18840696 12850135,16395550 </pubmed>
 [[Category:Protein-coding genes]]