RegulonDB RegulonDB 11.1: Gene Form
   

yhfA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

prkB crp yhfA Fis Fis Fis Fis CRP Fis Fis Cra CRP Fis ppGpp terminator TSS_3961 (cluster) TSS_3961 (cluster) TSS_3960 (cluster) TSS_3960 (cluster) TSS_3959 TSS_3959 TSS_3958 TSS_3958 TSS_3957 (cluster) TSS_3957 (cluster) TSS_3956 TSS_3956 crpp2 crpp2 crpp3 crpp3 crpp1 crpp1 TSS_3954 TSS_3954 yhfAp yhfAp TSS_3953 (cluster) TSS_3953 (cluster)

Gene      
Name: yhfA    Texpresso search in the literature
Synonym(s): ECK3344, EG11182, b3356
Genome position(nucleotides): 3485414 <-- 3485818
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 51.6
External database links:  
ASAP:
 ABE-0010964
ECHOBASE:
 EB1169
ECOLIHUB:
 yhfA
OU-MICROARRAY:
 b3356
STRING:
 511145.b3356
COLOMBOS: yhfA


Product      
Name: OsmC family protein YhfA
Synonym(s): YhfA
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 14.517
Isoelectric point: 5.614
Motif(s):
 
Type Positions Sequence Comment
30 -> 127 GDKAPSPMEMVLMAAGGCSAIDVVSILQKGRQDVVDCEVKLTSERREEAPRLFTHINLHFIVTGRDLKDAAVARAVDLSAEKYCSVALMLEKAVNITH
77 -> 79 EAP UniProt: In Ref. 1; CAA43921..

 
Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
Note(s): Note(s): ...[more].
External database links:  
ALPHAFOLD:
 P0ADX1
DIP:
 DIP-48201N
ECOCYC:
 EG11182-MONOMER
ECOLIWIKI:
 b3356
INTERPRO:
 IPR015946
INTERPRO:
 IPR036102
INTERPRO:
 IPR003718
MODBASE:
 P0ADX1
PDB:
 1ML8
PFAM:
 PF02566
PRIDE:
 P0ADX1
REFSEQ:
 NP_417815
SMR:
 P0ADX1
SWISSMODEL:
 P0ADX1
UNIPROT:
 P0ADX1


Operon      
Name: yhfA         
Operon arrangement:
Transcription unit        Promoter
yhfA


Transcriptional Regulation      
Display Regulation             
Activated by: CRP
Repressed by: CRP


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_3953 (cluster) 3485846 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_3954 3485952 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_3956 3486049 forward nd [RS-EPT-CBR] [1]
  promoter TSS_3957 (cluster) 3486051 forward nd [RS-EPT-CBR] [1]
  promoter TSS_3958 3486110 forward nd [RS-EPT-CBR] [1]
  promoter TSS_3959 3486595 forward nd [RS-EPT-CBR] [1]
  promoter TSS_3960 (cluster) 3486615 forward nd [RS-EPT-CBR] [1]
  promoter TSS_3961 (cluster) 3486621 forward nd [RS-EPT-CBR] [1]


Evidence    

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


Reference(s)    

 [1] 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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