RegulonDB RegulonDB 10.9: Gene Form
   

ybiO gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ybiO rlmF glnQ mcbA glnP CRP TSS_963 TSS_963 ybiOp5 ybiOp5 ybiOp2 ybiOp2 rlmFp7 rlmFp7 rlmFp1 rlmFp1 mcbAp5 mcbAp5

Gene      
Name: ybiO    Texpresso search in the literature
Synonym(s): ECK0797, G6417, b0808
Genome position(nucleotides): 843255 <-- 845480 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 53.32
External database links:  
ASAP:
 ABE-0002760
ECHOBASE:
 EB3104
ECOLIHUB:
 ybiO
OU-MICROARRAY:
 b0808
STRING:
 511145.b0808
COLOMBOS: ybiO


Product      
Name: moderate conductance mechanosensitive channel YbiO
Synonym(s): YbiO
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 81.904
Isoelectric point: 9.604
Motif(s):
 
Type Positions Sequence
515 -> 714 NALAVIISTITIMIVLSEIGVNIAPLLAGAGALGLAISFGSQTLVKDIITGVFIQFENGMNTGDLVTIGPLTGTVERMSIRSVGVRQDTGAYHIIPWSSITTFANFVRGIGSVVANYDVDRHEDADKANQALKDAVAELMENEEIRGLIIGEPNFAGIVGLSNTAFTLRVSFTTLPLKQWTVRFALDSQVKKHFDLAGVR
533 -> 553 IGVNIAPLLAGAGALGLAISF
372 -> 392 FMMGATVRSLAIIGIAAFVSG
1 -> 18 MRWILFILFCLLGAPAHA
466 -> 486 ILIRIALILFFSAVGWTVLAS

 
Classification:
Multifun Terms (GenProtEC)  
  4 - transport --> 4.1 - Channel-type Transporters
  5 - cell processes --> 5.5 - adaptations --> 5.5.1 - osmotic pressure
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0005887 - integral component of plasma membrane
GO:0016021 - integral component of membrane
molecular_function GO:0008381 - mechanosensitive ion channel activity
biological_process GO:0006811 - ion transport
GO:0034220 - ion transmembrane transport
GO:0055085 - transmembrane transport
GO:0071470 - cellular response to osmotic stress
External database links:  
DIP:
 DIP-11435N
ECOCYC:
 G6417-MONOMER
ECOLIWIKI:
 b0808
INTERPRO:
 IPR023408
INTERPRO:
 IPR011066
INTERPRO:
 IPR010920
INTERPRO:
 IPR006685
INTERPRO:
 IPR011014
MODBASE:
 P75783
PFAM:
 PF00924
PRIDE:
 P75783
PROSITE:
 PS01246
REFSEQ:
 NP_415329
SMR:
 P75783
UNIPROT:
 P75783


Operon      
Name: ybiO         
Operon arrangement:
Transcription unit        Promoter
ybiO


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 rlmFp1 842192 forward Similarity to the consensus
Read more > 		[ICWHO] [1]
  promoter rlmFp7 842224 forward Similarity to the consensus
Read more > 		[ICWHO] [1]
  promoter ybiOp2 845509 reverse Similarity to the consensus
Read more > 		[ICWHO] [1]
  promoter ybiOp5 845664 reverse Similarity to the consensus
Read more > 		[ICWHO] [1]
  promoter TSS_963 845736 reverse nd [RS-EPT-CBR] [2]


Evidence    

 [ICWHO] 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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