RegulonDB RegulonDB 11.1: Gene Form
   

ychO gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ychO narL ychN narX ychOp ychOp ychNp4 ychNp4 TSS_1554 TSS_1554

Gene      
Name: ychO    Texpresso search in the literature
Synonym(s): ECK1214, EG12405, b1220, ychP
Genome position(nucleotides): 1273784 --> 1275178
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 50.54
External database links:  
ASAP:
 ABE-0004095
ECHOBASE:
 EB2305
ECOLIHUB:
 ychO
OU-MICROARRAY:
 b1220
STRING:
 511145.b1220
COLOMBOS: ychO


Product      
Name: putative invasin YchO
Synonym(s): YchO, YchP
Sequence: Get amino acid sequence Fasta Format
Cellular location: periplasmic space,outer membrane
Molecular weight: 52.1
Isoelectric point: 4.965
Motif(s):
 
Type Positions Sequence Comment
1 -> 24 MSRFVPRIIPFYLLLLVAGGTANA
25 -> 464 QSTFEQKAANPFDNNNDGLPDLGMAPENHDGEKHFAEIVKDFGETSMNDNGLDTGEQAKAFALGKVRDALSQQVNQHVESWLSPWGNASVDVKVDNEGHFTGSRGSWFVPLQDNDRYLTWSQLGLTQQDNGLVSNVGVGQRWARGNWLVGYNTFYDNLLDENLQRAGFGAEAWGEYLRLSANFYQPFAAWHEQTATQEQRMARGYDLTARMRMPFYQHLNTSVSLEQYFGDRVDLFNSGTGYHNPVALSLGLNYTPVPLVTVTAQHKQGESGENQNNLGLNLNYRFGVPLKKQLSAGEVAESQSLRGSRYDNPQRNNLPTLEYRQRKTLTVFLATPPWDLKPGETVPLKLQIRSRYGIRQLIWQGDTQILSLTPGAQANSAEGWTLIMPDWQNGEGASNHWRLSVVVEDNQGQRVSSNEITLTLVEPFDALSNDELRWEP UniProt: Uncharacterized protein YchO.
64 -> 341 KDFGETSMNDNGLDTGEQAKAFALGKVRDALSQQVNQHVESWLSPWGNASVDVKVDNEGHFTGSRGSWFVPLQDNDRYLTWSQLGLTQQDNGLVSNVGVGQRWARGNWLVGYNTFYDNLLDENLQRAGFGAEAWGEYLRLSANFYQPFAAWHEQTATQEQRMARGYDLTARMRMPFYQHLNTSVSLEQYFGDRVDLFNSGTGYHNPVALSLGLNYTPVPLVTVTAQHKQGESGENQNNLGLNLNYRFGVPLKKQLSAGEVAESQSLRGSRYDNPQRNN

 
Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0009279 - cell outer membrane
GO:0042597 - periplasmic space
Note(s): Note(s): ...[more].
External database links:  
ALPHAFOLD:
 P39165
ECOCYC:
 EG12405-MONOMER
ECOLIWIKI:
 b1220
INTERPRO:
 IPR024519
INTERPRO:
 IPR038177
PFAM:
 PF11924
PRIDE:
 P39165
REFSEQ:
 NP_415738
SMR:
 P39165
UNIPROT:
 P39165


Operon      
Name: ychO         
Operon arrangement:
Transcription unit        Promoter
ychO


Transcriptional Regulation      
Display Regulation             
Repressed by: FNR


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_1554 1273632 reverse nd [RS-EPT-CBR] [1]
  promoter ychNp4 1273655 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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