RegulonDB RegulonDB 10.8: Gene Form
   

yoaA gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yoaA tsaB yoaB terminator yoaBp4 yoaBp4 TSS_2133 (cluster) TSS_2133 (cluster) TSS_2132 (cluster) TSS_2132 (cluster) TSS_2131 TSS_2131 yoaBp2 yoaBp2 TSS_2130 (cluster) TSS_2130 (cluster)

Gene      
Name: yoaA    Texpresso search in the literature
Synonym(s): ECK1806, G6992, b1808
Genome position(nucleotides): 1891325 <-- 1893235 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
55.21
External database links:  
ASAP:
ABE-0006016
ECHOBASE:
EB3286
OU-MICROARRAY:
b1808
PortEco:
yoaA
STRING:
511145.b1808
COLOMBOS: yoaA


Product      
Name: putative 5' to 3' DNA helicase implicated in DNA repair
Synonym(s): YoaA
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 70.378
Isoelectric point: 7.073
Motif(s):
 
Type Positions Sequence
18 -> 232 FKPREPQRQMAVAVTQAIEKGQPLVVEAGTGTGKTYAYLAPALRAKKKVIISTGSKALQDQLYSRDLPTVSKALKYTGNVALLKGRSNYLCLERLEQQALAGGDLPVQILSDVILLRSWSNQTVDGDISTCVSVAEDSQAWPLVTSTNDNCLGSDCPMYKDCFVVKARKKAMDADVVVVNHHLFLADMVVKESGFGELIPEADVMIFDEAHQLPD
51 -> 51 K
223 -> 228 IFDEAH
579 -> 586 QGVGRLIR
225 -> 228 DEAH

 

Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.1 - DNA related --> 2.1.4 - DNA repair
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0003676 - nucleic acid binding
GO:0003677 - DNA binding
GO:0003678 - DNA helicase activity
GO:0004386 - helicase activity
GO:0005515 - protein binding
GO:0016787 - hydrolase activity
GO:0016818 - hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides
GO:0046872 - metal ion binding
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
GO:0051536 - iron-sulfur cluster binding
biological_process GO:0006139 - nucleobase-containing compound metabolic process
GO:0006281 - DNA repair
GO:0006974 - cellular response to DNA damage stimulus
GO:0032508 - DNA duplex unwinding
GO:0006301 - postreplication repair
Note(s): Note(s): ...[more].
Evidence: [IMP] Inferred from mutant phenotype
[ISM] Inferred from Sequence Model
Reference(s): [1] Brown LT., et al., 2015
[2] Watanabe K., et al., 2016
External database links:  
DIP:
DIP-12786N
ECOCYC:
G6992-MONOMER
ECOLIWIKI:
b1808
INTERPRO:
IPR014013
INTERPRO:
IPR014001
INTERPRO:
IPR027417
INTERPRO:
IPR006555
INTERPRO:
IPR006935
MODBASE:
P76257
PFAM:
PF13307
PFAM:
PF04851
PRIDE:
P76257
PROSITE:
PS51193
REFSEQ:
NP_416322
SMART:
SM00491
SMART:
SM00487
SMR:
P76257
UNIPROT:
P76257


Operon      
Name: yoaA         
Operon arrangement:
Transcription unit        Promoter
 


RNA cis-regulatory element    
Attenuation: Translational


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_2130 (cluster) 1891297 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter yoaBp2 1893321 forward Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter TSS_2131 1893334 forward nd [RS-EPT-CBR] [3]
  promoter TSS_2132 (cluster) 1893336 forward For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_2133 (cluster) 1893342 forward For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter yoaBp4 1893359 forward Similarity to the consensus
Read more >
[ICWHO] [4]


Evidence    

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

 [ICWHO] Inferred computationally without human oversight



Reference(s)    

 [1] Brown LT., Sutera VA., Zhou S., Weitzel CS., Cheng Y., Lovett ST., 2015, Connecting Replication and Repair: YoaA, a Helicase-Related Protein, Promotes Azidothymidine Tolerance through Association with Chi, an Accessory Clamp Loader Protein., PLoS Genet 11(11):e1005651

 [2] Watanabe K., Tominaga K., Kitamura M., Kato JI., 2016, Systematic identification of synthetic lethal mutations with reduced-genome Escherichia coli: synthetic genetic interactions among yoaA, xthA and holC related to survival from MMS exposure., Genes Genet Syst 91(3):183-188

 [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.

 [4] 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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