RegulonDB RegulonDB 10.9: Gene Form
   

rfbB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

rfbB rfbD galF rfbA Cis-reg terminator TSS_2398 TSS_2398 TSS_2397 TSS_2397 TSS_2396 TSS_2396 TSS_2395 TSS_2395 TSS_2394 TSS_2394 TSS_2393 TSS_2393 TSS_2392 TSS_2392 TSS_2391 TSS_2391 TSS_2390 TSS_2390 TSS_2389 (cluster) TSS_2389 (cluster)

Gene      
Name: rfbB    Texpresso search in the literature
Synonym(s): ECK2035, EG12412, b2041, rmlB, som
Genome position(nucleotides): 2111976 <-- 2113061 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
43.65
External database links:  
ASAP:
ABE-0006766
CGSC:
296
ECHOBASE:
EB2311
ECOLIHUB:
rfbB
MIM:
616145
OU-MICROARRAY:
b2041
STRING:
511145.b2041
COLOMBOS: rfbB


Product      
Name: dTDP-glucose 4,6-dehydratase 1
Synonym(s): RfbB, RmlB, Som
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 40.558
Isoelectric point: 5.563
Motif(s):
 
Type Positions Sequence
123 -> 123 K
4 -> 330 LVTGGAGFIGSAVVRHIINNTQDSVVNVDKLTYAGNRESLADVSDSERYVFEHADICDAPAMARIFAQHQPDAVMHLAAESHVDRSITGPAAFIETNIVGTYVLLEAARNYWSALDSDKKNSFRFHHISTDEVYGDLPHPDEVNNTEELPLFTETTAYAPSSPYSASKASSDHLVRAWKRTYGLPTIVTNCSNNYGPYHFPEKLIPLVILNALEGKALPIYGKGDQIRDWLYVEDHARALYTVVTEGKAGETYNIGGHNEKKNIDVVLTICDLLDEIVPKEKSYREQITYVADRPGHDRRYAIDAEKIGRALGWKPQETFESGIRKT
80 -> 84 LAAES
222 -> 224 PIY
11 -> 12 FI

 

Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.5 - biosynthesis of building blocks --> 1.5.3 - cofactors, small molecule carriers --> 1.5.3.7 - nicotinamide adenine dinucleotide
  1 - metabolism --> 1.6 - biosynthesis of macromolecules (cellular constituents) --> 1.6.3 - lipopolysaccharide --> 1.6.3.1 - O antigen
  1 - metabolism --> 1.7 - central intermediary metabolism --> 1.7.10 - sugar nucleotide biosynthesis, conversions
  6 - cell structure --> 6.3 - surface antigens (ECA, O antigen of LPS)
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0016829 - lyase activity
GO:0008460 - dTDP-glucose 4,6-dehydratase activity
GO:0042802 - identical protein binding
GO:0051287 - NAD binding
biological_process GO:0009103 - lipopolysaccharide biosynthetic process
GO:0009225 - nucleotide-sugar metabolic process
GO:0009226 - nucleotide-sugar biosynthetic process
GO:0009243 - O antigen biosynthetic process
GO:0045226 - extracellular polysaccharide biosynthetic process
GO:0019305 - dTDP-rhamnose biosynthetic process
Note(s): Note(s): ...[more].
External database links:  
DIP:
DIP-10680N
ECOCYC:
DTDPGLUCDEHYDRAT-MONOMER
ECOLIWIKI:
b2041
INTERPRO:
IPR005888
INTERPRO:
IPR016040
INTERPRO:
IPR036291
MODBASE:
P37759
PFAM:
PF16363
PRIDE:
P37759
REFSEQ:
NP_416545
SMR:
P37759
SWISSMODEL:
P37759
UNIPROT:
P37759


Operon      
Name: rfbBDACX         
Operon arrangement:
Transcription unit        Promoter
rfbACX
rfbBDACX


RNA cis-regulatory element    
   
Cis-reg JUMPstart RNA
   
   


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_2389 (cluster) 2111073 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [1]
  promoter TSS_2390 2112120 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_2391 2112295 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_2392 2113123 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_2393 2113226 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_2394 2113233 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_2395 2113235 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_2396 2113809 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_2397 2113829 reverse nd [RS-EPT-CBR] [1]
  promoter TSS_2398 2113953 reverse 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.


RegulonDB