RegulonDB RegulonDB 11.1: Gene Form
   

pdeA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

pdeA insL3 alaX yfeAp6 yfeAp6 yfeAp5 yfeAp5 TSS_2679 TSS_2679 TSS_2678 TSS_2678

Gene      
Name: pdeA    Texpresso search in the literature
Synonym(s): ECK2389, EG11145, b2395, yfeA
Genome position(nucleotides): 2515643 <-- 2517832
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 49.0
External database links:  
ASAP:
 ABE-0007899
ECHOBASE:
 EB1135
ECOLIHUB:
 yfeA
OU-MICROARRAY:
 b2395
STRING:
 511145.b2395
COLOMBOS: pdeA


Product      
Name: putative c-di-GMP phosphodiesterase PdeA
Synonym(s): PdeA, YfeA
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 83.524
Isoelectric point: 8.361
Motif(s):
 
Type Positions Sequence Comment
16 -> 314 LAFTLTVVLIQLSRFISPLAIIHSSYIFLAWMPLCVMLSILFIFGWRGVVPVLCGMFCTNLWNFHLSFLQTAVMLGSQTFVVLCACAILRWQLGTRWRYGLTSRYVWQRLFWLGLVTPIGIKCSMYLVGSFFDFPLKISTFFGDADAIFTVVDLLSLFTAVLIYNMLFYYLTRMIVSPHFAQILWRRDIAPSLGKEKRAFTLSWLAALSVLLLLLCTPYENDFIAGYLVPVFFIIFTLGVGKLRYPFLNLTWAVSTLCLLNYNQNFLQGVETEYSLAFILAVLISFSVCLLYMVRIYHR
17 -> 37 AFTLTVVLIQLSRFISPLAII UniProt: Helical.
41 -> 61 YIFLAWMPLCVMLSILFIFGW UniProt: Helical.
83 -> 103 FLQTAVMLGSQTFVVLCACAI UniProt: Helical.
126 -> 146 FWLGLVTPIGIKCSMYLVGSF UniProt: Helical.

 
Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0016021 - integral component of membrane
molecular_function GO:0016787 - hydrolase activity
GO:0071111 - cyclic-guanylate-specific phosphodiesterase activity
Note(s): Note(s): ...[more].
External database links:  
ALPHAFOLD:
 P23842
DIP:
 DIP-12011N
ECOCYC:
 EG11145-MONOMER
ECOLIWIKI:
 b2395
INTERPRO:
 IPR001633
INTERPRO:
 IPR007895
INTERPRO:
 IPR000160
INTERPRO:
 IPR035919
INTERPRO:
 IPR043128
INTERPRO:
 IPR029787
PFAM:
 PF00563
PFAM:
 PF05231
PRIDE:
 P23842
PROSITE:
 PS50887
PROSITE:
 PS50883
REFSEQ:
 NP_416896
SMART:
 SM00267
SMART:
 SM00052
SMR:
 P23842
UNIPROT:
 P23842


Operon      
Name: pdeA         
Operon arrangement:
Transcription unit        Promoter
pdeA


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_2678 2514349 forward nd [RS-EPT-CBR] [1]
  promoter TSS_2679 2517867 reverse nd [RS-EPT-CBR] [1]
  promoter yfeAp5 2517869 reverse nd [COMP-AINF] [2]
  promoter yfeAp6 2517892 reverse nd [COMP-AINF] [2]


Evidence    

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

 [COMP-AINF] Inferred computationally without human oversight


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.

 [2] 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

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