RegulonDB RegulonDB 11.1: Gene Form
   

ynbD gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ynbC ynbD azoR TSS_1800 TSS_1800

Gene      
Name: ynbD    Texpresso search in the literature
Synonym(s): ECK1404, G6730, b1411
Genome position(nucleotides): 1480909 --> 1482201
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 50.58
External database links:  
ASAP:
 ABE-0004710
ECHOBASE:
 EB3514
ECOLIHUB:
 ynbD
OU-MICROARRAY:
 b1411
STRING:
 511145.b1411
COLOMBOS: ynbD


Product      
Name: phosphatase domain-containing protein YnbD
Synonym(s): YnbD
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 49.563
Isoelectric point: 8.697
Motif(s):
 
Type Positions Sequence Comment
2 -> 22 LQGAGWLLLLAPFFFFTYGSL UniProt: Helical.
46 -> 66 AIPFLPWTIVPYWSLDLLYGF UniProt: Helical.
85 -> 105 ILATVMACCGFLLYPLKFSFI UniProt: Helical.
175 -> 195 HFIDVITGLAVGMLIDWMVPV UniProt: Helical.
209 -> 229 IKIALPYVVGAGSCIVLMELM 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:0005515 - protein binding
GO:0016787 - hydrolase activity
GO:0004721 - phosphoprotein phosphatase activity
GO:0016791 - phosphatase activity
GO:0008138 - protein tyrosine/serine/threonine phosphatase activity
biological_process GO:0006470 - protein dephosphorylation
GO:0016311 - dephosphorylation
Note(s): Note(s): ...[more].
External database links:  
ALPHAFOLD:
 P76093
DIP:
 DIP-12745N
ECOCYC:
 G6730-MONOMER
ECOLIWIKI:
 b1411
INTERPRO:
 IPR029021
INTERPRO:
 IPR020422
INTERPRO:
 IPR003595
INTERPRO:
 IPR000387
INTERPRO:
 IPR016130
MODBASE:
 P76093
PFAM:
 PF00782
PRIDE:
 P76093
PROSITE:
 PS00383
PROSITE:
 PS50056
PROSITE:
 PS50054
REFSEQ:
 NP_415929
SMART:
 SM00195
SMART:
 SM00404
SMR:
 P76093
UNIPROT:
 P76093


Operon      
Name: ynbABCD         
Operon arrangement:
Transcription unit        Promoter
ynbABCD


Transcriptional Regulation      
Display Regulation             
Activated by: RcsB-BglJ


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_1800 1482829 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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