RegulonDB RegulonDB 11.1: Gene Form
   

yafV gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yafV ykfM ivy yafU yafF C0067 TSS_436 (cluster) TSS_436 (cluster) ivyp5 ivyp5 ivyp4 ivyp4 yafVp yafVp

Gene      
Name: yafV    Texpresso search in the literature
Synonym(s): ECK0220, G6103, b0219
Genome position(nucleotides): 239419 <-- 240189
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 54.73
External database links:  
ASAP:
 ABE-0000734
ECHOBASE:
 EB3118
ECOLIHUB:
 yafV
OU-MICROARRAY:
 b0219
STRING:
 511145.b0219
COLOMBOS: yafV


Product      
Name: 2-oxoglutaramate amidase
Synonym(s): YafV
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 28.925
Isoelectric point: 6.504
Motif(s):
 
Type Positions Sequence Comment
4 -> 234 LKITLLQQPLVWMDGPANLRHFDRQLEGITGRDVIVLPEMFTSGFAMEAAASSLAQDDVVNWMTAKAQQCNALIAGSVALQTESGSVNRFLLVEPGGTVHFYDKRHLFRMADEHLHYKAGNARVIVEWRGWRILPLVCYDLRFPVWSRNLNDYDLALYVANWPAPRSLHWQALLTARAIENQAYVAGCNRVGSDGNGCHYRGDSRVINPQGEIIATADAHQATRIDAELSM UniProt: CN hydrolase.
6 -> 241 ITLLQQPLVWMDGPANLRHFDRQLEGITGRDVIVLPEMFTSGFAMEAAASSLAQDDVVNWMTAKAQQCNALIAGSVALQTESGSVNRFLLVEPGGTVHFYDKRHLFRMADEHLHYKAGNARVIVEWRGWRILPLVCYDLRFPVWSRNLNDYDLALYVANWPAPRSLHWQALLTARAIENQAYVAGCNRVGSDGNGCHYRGDSRVINPQGEIIATADAHQATRIDAELSMAALREYR

 
Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0106008 - 2-oxoglutaramate amidase activity
GO:0050152 - omega-amidase activity
GO:0016787 - hydrolase activity
biological_process GO:0006807 - nitrogen compound metabolic process
Note(s): Note(s): ...[more].
External database links:  
ALPHAFOLD:
 Q47679
DIP:
 DIP-11225N
ECOCYC:
 G6103-MONOMER
ECOLIWIKI:
 b0219
INTERPRO:
 IPR003010
INTERPRO:
 IPR036526
INTERPRO:
 IPR001110
MODBASE:
 Q47679
PFAM:
 PF00795
PRIDE:
 Q47679
PROSITE:
 PS01227
PROSITE:
 PS50263
REFSEQ:
 NP_414754
SMR:
 Q47679
UNIPROT:
 Q47679


Operon      
Name: yafV         
Operon arrangement:
Transcription unit        Promoter
yafV


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 ivyp4 240319 forward nd [COMP-AINF] [1]
  promoter ivyp5 240329 forward nd [COMP-AINF] [1]
  promoter TSS_436 (cluster) 240333 forward nd [RS-EPT-CBR] [2]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

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


Reference(s)    

 [1] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [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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