RegulonDB RegulonDB 10.9: Gene Form
   

sdaB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

sdaB sdaC ygdG TSS_3115 TSS_3115 ygdGp2 ygdGp2

Gene      
Name: sdaB    Texpresso search in the literature
Synonym(s): ECK2792, EG11623, b2797
Genome position(nucleotides): 2929576 --> 2930943 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
54.97
Note(s): By making use of micro arrays analysis it was concluded that anarobiosis do not affect the expression of the sdaB gene, although FNR appears to activate it. A putative FNR binding site, which is not shown in the paper, was identified upstream of this operon Salmon K,2003.
External database links:  
ASAP:
ABE-0009172
CGSC:
33324
ECHOBASE:
EB1580
ECOLIHUB:
sdaB
OU-MICROARRAY:
b2797
STRING:
511145.b2797
COLOMBOS: sdaB


Product      
Name: L-serine deaminase II
Synonym(s): L-SD2, SDH-2, SdaB
Sequence: Get amino acid sequence Fasta Format
Molecular weight: 48.753
Isoelectric point: 5.588
Motif(s):
 
Type Positions Sequence
134 -> 134 G
236 -> 239 VPRR
372 -> 372 A
360 -> 362 ASP
196 -> 197 EL

 

Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.1 - carbon utilization --> 1.1.3 - amino acids
Gene Ontology Terms (GO)  
molecular_function GO:0016829 - lyase activity
GO:0046872 - metal ion binding
GO:0051536 - iron-sulfur cluster binding
GO:0051539 - 4 iron, 4 sulfur cluster binding
GO:0003941 - L-serine ammonia-lyase activity
biological_process GO:0006094 - gluconeogenesis
GO:0006565 - L-serine catabolic process
Note(s): Note(s): ...[more].
External database links:  
ECOCYC:
LSERINEDEAM2-MONOMER
ECOLIWIKI:
b2797
INTERPRO:
IPR004644
INTERPRO:
IPR005130
INTERPRO:
IPR005131
INTERPRO:
IPR029009
PFAM:
PF03315
PFAM:
PF03313
PRIDE:
P30744
PRODB:
PRO_000023916
REFSEQ:
NP_417277
SMR:
P30744
UNIPROT:
P30744


Operon      
Name: sdaCB         
Operon arrangement:
Transcription unit        Promoter
sdaCB


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 ygdGp2 2930873 forward Similarity to the consensus
Read more >
[ICWHO] [1]
  promoter TSS_3115 2931034 forward 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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