RegulonDB RegulonDB 10.10: Gene Form
   

fabR gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

sthA trmA fabR yijD oxyR terminator TSS_4694 TSS_4694 TSS_4693 TSS_4693 TSS_4692 TSS_4692 TSS_4691 TSS_4691 TSS_4690 TSS_4690 TSS_4689 TSS_4689 TSS_4688 TSS_4688 sthAp sthAp

Gene      
Name: fabR    Texpresso search in the literature
Synonym(s): ECK3955, EG11394, b3963, yijC
Genome position(nucleotides): 4161067 --> 4161771 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 52.62
External database links:  
ASAP:
 ABE-0012979
ECHOBASE:
 EB1367
ECOLIHUB:
 fabR
OU-MICROARRAY:
 b3963
STRING:
 511145.b3963
COLOMBOS: fabR


Product      
Name: DNA-binding transcriptional repressor FabR
Synonym(s): FabR, YijC
Sequence: Get amino acid sequence Fasta Format
Regulator Family: TetR/AcrR
Cellular location: cytosol
Molecular weight: 26.553
Isoelectric point: 9.341
Motif(s):
 
Type Positions Sequence
29 -> 89 KTRRSLVEAAFSQLSAERSFASLSLREVAREAGIAPTSFYRHFRDVDELGLTMVDESGLML
93 -> 94 MR
88 -> 89 ML
47 -> 47 S
61 -> 61 G

 
Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.2 - RNA related --> 2.2.2 - Transcription related
  3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.3 - repressor
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0003677 - DNA binding
GO:0003700 - DNA-binding transcription factor activity
biological_process GO:0006355 - regulation of transcription, DNA-templated
GO:0006629 - lipid metabolic process
GO:0006631 - fatty acid metabolic process
GO:0045892 - negative regulation of transcription, DNA-templated
GO:0006633 - fatty acid biosynthetic process
GO:0045717 - negative regulation of fatty acid biosynthetic process
Note(s): Note(s): ...[more].
Evidence: [IDA] Inferred from direct assay
[IEP] Inferred from expression pattern
[IPI] Inferred from physical interaction
Reference(s): [1] McCue L., et al., 2001
[2] Zhang YM., et al., 2002
External database links:  
DIP:
 DIP-12520N
ECOCYC:
 EG11394-MONOMER
ECOLIWIKI:
 b3963
INTERPRO:
 IPR023764
INTERPRO:
 IPR009057
INTERPRO:
 IPR001647
MODBASE:
 P0ACU5
PFAM:
 PF00440
PRIDE:
 P0ACU5
PRODB:
 PRO_000022566
PROSITE:
 PS50977
REFSEQ:
 NP_418398
SMR:
 P0ACU5
UNIPROT:
 P0ACU5


Operon      
Name: fabR-yijD         
Operon arrangement:
Transcription unit        Promoter
fabR-yijD


RNA cis-regulatory element    
Attenuation: Translational


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References
  promoter TSS_4688 4161094 forward nd [RS-EPT-CBR] [3]
  promoter TSS_4689 4161458 forward nd [RS-EPT-CBR] [3]
  promoter TSS_4690 4161554 forward nd [RS-EPT-CBR] [3]
  promoter TSS_4691 4161556 forward nd [RS-EPT-CBR] [3]
  promoter TSS_4692 4161745 forward nd [RS-EPT-CBR] [3]
  promoter TSS_4693 4162891 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_4694 4162924 reverse nd [RS-EPT-CBR] [3]


Evidence    

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates


Reference(s)    

 [1] McCue L., Thompson W., Carmack C., Ryan MP., Liu JS., Derbyshire V., Lawrence CE., 2001, Phylogenetic footprinting of transcription factor binding sites in proteobacterial genomes., Nucleic Acids Res 29(3):774-82

 [2] Zhang YM., Marrakchi H., Rock CO., 2002, The FabR (YijC) transcription factor regulates unsaturated fatty acid biosynthesis in Escherichia coli., J Biol Chem 277(18):15558-65

 [3] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

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