RegulonDB RegulonDB 10.7: Gene Form
   

ompW gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yciC ompW yciE ArcA NarL CRP FNR FNR RybB ompWp ompWp yciCp yciCp TSS_1685 TSS_1685 yciBp3 yciBp3

Gene      
Name: ompW    Texpresso search in the literature
Synonym(s): ECK1250, EG11124, b1256, yciD
Genome position(nucleotides): 1314020 --> 1314658 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
50.08
External database links:  
ASAP:
ABE-0004210
ECHOBASE:
EB1114
OU-MICROARRAY:
b1256
PORTECO:
ompW
REGULONDB:
b1256
STRING:
511145.b1256
M3D: ompW
COLOMBOS: ompW
PortEco: b1256


Product      
Name: outer membrane protein W
Synonym(s): OmpW, YciD
Sequence: Get amino acid sequence Fasta Format
Cellular location: outer membrane
Molecular weight: 22.928
Isoelectric point: 6.517
Motif(s):
 
Type Positions Sequence
22 -> 212 HEAGEFFMRAGSATVRPTEGAGGTLGSLGGFSVTNNTQLGLTFTYMATDNIGVELLAATPFRHKIGTRATGDIATVHHLPPTLMAQWYFGDASSKFRPYVGAGINYTTFFDNGFNDHGKEAGLSDLSLKDSWGAAGQVGVDYLINRDWLVNMSVWYMDIDTTANYKLGGAQQHDSVRLDPWVFMFSAGYRF
20 -> 20 F
12 -> 12 T
23 -> 212 EAGEFFMRAGSATVRPTEGAGGTLGSLGGFSVTNNTQLGLTFTYMATDNIGVELLAATPFRHKIGTRATGDIATVHHLPPTLMAQWYFGDASSKFRPYVGAGINYTTFFDNGFNDHGKEAGLSDLSLKDSWGAAGQVGVDYLINRDWLVNMSVWYMDIDTTANYKLGGAQQHDSVRLDPWVFMFSAGYRF
1 -> 21 MKKLTVAALAVTTLLSGSAFA

 

Classification:
Multifun Terms (GenProtEC)  
  4 - transport --> 4.1 - Channel-type Transporters --> 4.1.B - Beta barrel porins (The Outer Membrane Porin (OMP) Functional Superfamily)
Gene Ontology Terms (GO)  
cellular_component GO:0009279 - cell outer membrane
GO:0019867 - outer membrane
GO:0016020 - membrane
GO:0016021 - integral component of membrane
molecular_function GO:0005515 - protein binding
biological_process GO:0055085 - transmembrane transport
Note(s): Note(s): ...[more].
Evidence: [IEP] Inferred from expression pattern
[IMP] Inferred from mutant phenotype
Reference(s): [1] Pilsl H., et al., 1999
[2] Xu C., et al., 2006
External database links:  
ECOCYC:
EG11124-MONOMER
ECOLIWIKI:
b1256
INTERPRO:
IPR011250
INTERPRO:
IPR005618
MINT:
P0A915
MODBASE:
P0A915
PANTHER:
PTHR36920
PDB:
2F1V
PDB:
2F1T
PFAM:
PF03922
PRIDE:
P0A915
PRODB:
PRO_000023459
PROTEINMODELPORTAL:
P0A915
REFSEQ:
NP_415772
SMR:
P0A915
SWISSMODEL:
P0A915
UNIPROT:
P0A915


Operon      
Name: ompW         
Operon arrangement:
Transcription unit        Promoter
ompW


Transcriptional Regulation      
Display Regulation             
Activated by: FNR
Repressed by: CRP, FNR, ArcA, NarL


Regulation by small RNA    
  Display Regulation
small RNA rybB


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 yciBp3 1313055 reverse Similarity to the consensus
Read more >
[ICWHO] [3]
  promoter TSS_1685 1313354 reverse nd [RS-EPT-CBR] [4]


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] Pilsl H., Smajs D., Braun V., 1999, Characterization of colicin S4 and its receptor, OmpW, a minor protein of the Escherichia coli outer membrane., J Bacteriol 181(11):3578-81

 [2] Xu C., Lin X., Ren H., Zhang Y., Wang S., Peng X., 2006, Analysis of outer membrane proteome of Escherichia coli related to resistance to ampicillin and tetracycline., Proteomics 6(2):462-73

 [3] 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

 [4] 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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