RegulonDB RegulonDB 11.1: Gene Form
   

suhB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yfhR suhB trmJ terminator anti-terminator anti-anti-terminator yfhRp2 yfhRp2 yfhRp4 yfhRp4 TSS_2834 TSS_2834 TSS_2833 (cluster) TSS_2833 (cluster) TSS_2832 TSS_2832

Gene      
Name: suhB    Texpresso search in the literature
Synonym(s): ECK2530, EG10983, b2533, ssyA
Genome position(nucleotides): 2663442 --> 2664245
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 54.48


Product      
Name: Nus factor SuhB
Synonym(s): SsyA, SuhB, inositol-phosphate phosphatase
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 29.172
Isoelectric point: 6.971
Motif(s):
 
Type Positions Sequence Comment
2 -> 259 HPMLNIAVRAARKAGNLIAKNYETPDAVEASQKGSNDFVTNVDKAAEAVIIDTIRKSYPQHTIITEESGELEGTDQDVQWVIDPLDGTTNFIKRLPHFAVSIAVRIKGRTEVAVVYDPMRNELFTATRGQGAQLNGYRLRGSTARDLDGTILATGFPFKAKQYATTYINIVGKLFNECADFRRTGSAALDLAYVAAGRVDGFFEIGLRPWDFAAGELLVREAGGIVSDFTGGHNYMLTGNIVAGNPRVVKAMLANMRD
86 -> 89 LDGT UniProt: Substrate binding; Sequence Annotation Type: region of interest.
87 -> 87 D UniProt: Loss of IMPase activity, still complements dnaB121 helicase mutation..
139 -> 139 R UniProt: In suhB10; decreases polypeptide chain elongation rate, grows at 30 but not 25 degrees Celsius; when associated with A-250..
141 -> 141 R UniProt: In Ref. 1; AAA67506..

 
Classification:
Multifun Terms (GenProtEC)  
  3 - regulation --> 3.1 - type of regulation --> 3.1.3 - posttranscriptional
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0005829 - cytosol
molecular_function GO:0042134 - rRNA primary transcript binding
GO:0005515 - protein binding
GO:0016787 - hydrolase activity
GO:0046872 - metal ion binding
GO:0003723 - RNA binding
GO:0008934 - inositol monophosphate 1-phosphatase activity
GO:0000287 - magnesium ion binding
GO:0043175 - RNA polymerase core enzyme binding
GO:0047954 - glycerol-2-phosphatase activity
GO:0070063 - RNA polymerase binding
GO:0031403 - lithium ion binding
GO:0001072 - transcription antitermination factor activity, RNA binding
GO:0052834 - inositol monophosphate phosphatase activity
GO:0052832 - inositol monophosphate 3-phosphatase activity
GO:0052833 - inositol monophosphate 4-phosphatase activity
biological_process GO:0031564 - transcription antitermination
GO:0042254 - ribosome biogenesis
GO:0007165 - signal transduction
GO:0006020 - inositol metabolic process
GO:0046855 - inositol phosphate dephosphorylation
GO:0046854 - phosphatidylinositol phosphate biosynthetic process
GO:0000469 - cleavage involved in rRNA processing
Note(s): Note(s): ...[more].
Reference(s): [1] Court DL., et al., 1995
[2] Peters JM., et al., 2009
External database links:  
ALPHAFOLD:
 P0ADG4
ECOCYC:
 EG10983-MONOMER
ECOLIWIKI:
 b2533
INTERPRO:
 IPR020583
INTERPRO:
 IPR022337
INTERPRO:
 IPR020550
INTERPRO:
 IPR000760
INTERPRO:
 IPR033942
MODBASE:
 P0ADG4
PDB:
 6TQO
PDB:
 6TQN
PDB:
 6IB8
PDB:
 2QFL
PDB:
 6IB7
PFAM:
 PF00459
PRIDE:
 P0ADG4
PRINTS:
 PR00377
PRINTS:
 PR01959
PRODB:
 PRO_000024012
PROSITE:
 PS00630
PROSITE:
 PS00629
REFSEQ:
 NP_417028
SMR:
 P0ADG4
UNIPROT:
 P0ADG4


Operon      
Name: suhB         
Operon arrangement:
Transcription unit        Promoter
suhB


RNA cis-regulatory element    
Attenuation: Transcriptional


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_2832 2663305 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_2833 (cluster) 2663405 forward nd [RS-EPT-CBR] [3]
  promoter TSS_2834 2663415 forward nd [RS-EPT-CBR] [3]
  promoter yfhRp4 2664204 forward nd [COMP-AINF] [4]
  promoter yfhRp2 2664244 forward nd [COMP-AINF] [4]


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] Court DL., Patterson TA., Baker T., Costantino N., Mao X., Friedman DI., 1995, Structural and functional analyses of the transcription-translation proteins NusB and NusE., J Bacteriol 177(9):2589-91

 [2] Peters JM., Mooney RA., Kuan PF., Rowland JL., Keles S., Landick R., 2009, Rho directs widespread termination of intragenic and stable RNA transcription., Proc Natl Acad Sci U S A 106(36):15406-11

 [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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