RegulonDB RegulonDB 11.1: Gene Form
   

ridA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

mgtA pyrI ridA Lrp anti-anti-terminator anti-terminator terminator ridAp ridAp TSS_5088 TSS_5088 TSS_5087 TSS_5087

Gene      
Name: ridA    Texpresso search in the literature
Synonym(s): ECK4238, G7877, b4243, yjgF
Genome position(nucleotides): 4470527 <-- 4470913
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 52.97
External database links:  
ASAP:
 ABE-0013886
ECHOBASE:
 EB2415
ECOLIHUB:
 yjgF
OU-MICROARRAY:
 b4243
STRING:
 511145.b4243
COLOMBOS: ridA


Product      
Name: enamine/imine deaminase, redox-regulated chaperone
Synonym(s): RidA, YjgF
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol,membrane
Molecular weight: 13.612
Isoelectric point: 5.156
Motif(s):
 
Type Positions Sequence Comment
2 -> 128 SKTIATENAPAAIGPYVQGVDLGNMIITSGQIPVNPKTGEVPADVAAQARQSLDNVKAIVEAAGLKVGDIVKTTVFVKDLNDFATVNATYEAFFTEHNATFPARSCVEVARLPKDVKIEIEAIAVRR UniProt: 2-iminobutanoate/2-iminopropanoate deaminase.
7 -> 126 TENAPAAIGPYVQGVDLGNMIITSGQIPVNPKTGEVPADVAAQARQSLDNVKAIVEAAGLKVGDIVKTTVFVKDLNDFATVNATYEAFFTEHNATFPARSCVEVARLPKDVKIEIEAIAV

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism
  5 - cell processes --> 5.5 - adaptations --> 5.5.6 - other (mechanical, nutritional, oxidative stress)
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
GO:0016020 - membrane
GO:0032991 - protein-containing complex
molecular_function GO:0120241 - 2-iminobutanoate/2-iminopropanoate deaminase
GO:0120243 - 2-iminopropanoate deaminase activity
GO:0120242 - 2-iminobutanoate deaminase activity
GO:0016787 - hydrolase activity
GO:0051082 - unfolded protein binding
GO:0019239 - deaminase activity
GO:0042802 - identical protein binding
biological_process GO:0008652 - cellular amino acid biosynthetic process
GO:0009082 - branched-chain amino acid biosynthetic process
GO:0009636 - response to toxic substance
GO:0009097 - isoleucine biosynthetic process
GO:1901565 - organonitrogen compound catabolic process
GO:0070207 - protein homotrimerization
Note(s): Note(s): ...[more].
Reference(s): [1] Irving JA., et al., 2001
External database links:  
ALPHAFOLD:
 P0AF93
DIP:
 DIP-36232N
ECOCYC:
 G7877-MONOMER
ECOLIWIKI:
 b4243
INTERPRO:
 IPR019897
INTERPRO:
 IPR035959
INTERPRO:
 IPR006175
INTERPRO:
 IPR006056
MODBASE:
 P0AF93
PANTHER:
 PTHR11803
PDB:
 1QU9
PFAM:
 PF01042
PRIDE:
 P0AF93
PROSITE:
 PS01094
REFSEQ:
 NP_418664
SMR:
 P0AF93
SWISSMODEL:
 P0AF93
UNIPROT:
 P0AF93


Operon      
Name: ridA         
Operon arrangement:
Transcription unit        Promoter
ridA


Transcriptional Regulation      
Display Regulation             
Activated by: Lrp


RNA cis-regulatory element    
Attenuation: Transcriptional


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_5087 4470941 reverse nd [RS-EPT-CBR] [2]
  promoter TSS_5088 4470944 reverse nd [RS-EPT-CBR] [2]


Evidence    

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


Reference(s)    

 [1] Irving JA., Whisstock JC., Lesk AM., 2001, Protein structural alignments and functional genomics., Proteins 42(3):378-82

 [2] 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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