RegulonDB RegulonDB 10.7: Gene Form
   

yfdH gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yfdI intS yfdH yfdG ryeG yodE terminator anti-terminator anti-anti-terminator TSS_2659 (cluster) TSS_2659 (cluster) TSS_2658 TSS_2658 TSS_2657 TSS_2657 TSS_2656 TSS_2656 TSS_2655 TSS_2655 yfdGp4 yfdGp4

Gene      
Name: yfdH    Texpresso search in the literature
Synonym(s): ECK2345, G7220, b2351, gtrB
Genome position(nucleotides): 2468214 --> 2469134 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
39.52
External database links:  
ASAP:
ABE-0007763
ECHOBASE:
EB3884
OU-MICROARRAY:
b2351
PORTECO:
yfdH
REGULONDB:
b2351
STRING:
511145.b2351
M3D: yfdH
COLOMBOS: yfdH
PortEco: b2351


Product      
Name: CPS-53 (KpLE1) prophage; bactoprenol glucosyl transferase
Synonym(s): GtrB, YfdH
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 34.635
Isoelectric point: 8.639
Motif(s):
 
Type Positions Sequence
263 -> 283 SLLVSILFLGGIQMIGIGVLG
4 -> 166 SLVVPVFNEEEAIPIFYKTVREFEELKSYEVEIVFINDGSKDATESIINALAVSDPLVVPLSFTRNFGKEPALFAGLDHATGDAIIPIDVDLQDPIEVIPHLIEKWQAGADMVLAKRSDRSTDGRLKRKTAEWFYKLHNKISNPKIEENVGDFRLMSRDVVEN
228 -> 248 IWTYIGLVVASVAFIYGAWMI

 

Classification:
Multifun Terms (GenProtEC)  
  8 - extrachromosomal --> 8.1 - prophage genes and phage related functions
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:0016757 - transferase activity, transferring glycosyl groups
GO:0016740 - transferase activity
Note(s): Note(s): ...[more].
Reference(s): [1] Adams MM., et al., 2001
External database links:  
CAZY:
GT2
DIP:
DIP-11997N
ECOCYC:
G7220-MONOMER
ECOLIWIKI:
b2351
INTERPRO:
IPR001173
INTERPRO:
IPR029044
MODBASE:
P77293
PFAM:
PF00535
PRIDE:
P77293
PROTEINMODELPORTAL:
P77293
REFSEQ:
NP_416852
SMR:
P77293
UNIPROT:
P77293


Operon      
Name: yfdGHI         
Operon arrangement:
Transcription unit        Promoter
 


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 yfdGp4 2467737 forward Similarity to the consensus
Read more >
[ICWHO] [2]
  promoter TSS_2655 2467830 forward nd [RS-EPT-CBR] [3]
  promoter TSS_2656 2468210 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_2657 2468808 forward nd [RS-EPT-CBR] [3]
  promoter TSS_2658 2470649 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_2659 (cluster) 2470665 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]


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] Adams MM., Allison GE., Verma NK., 2001, Type IV O antigen modification genes in the genome of Shigella flexneri NCTC 8296., Microbiology 147(Pt 4):851-60

 [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

 [3] 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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