RegulonDB RegulonDB 10.8: Gene Form
   

fimD gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

fimD fimC fimF terminator anti-terminator TSS_5141 TSS_5141 TSS_5140 TSS_5140 TSS_5139 TSS_5139 TSS_5138 TSS_5138 TSS_5137 TSS_5137

Gene      
Name: fimD    Texpresso search in the literature
Synonym(s): ECK4308, EG10311, b4317, fimD_1, fimD_2
Genome position(nucleotides): 4545096 --> 4547732 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 48.62


Product      
Name: type I fimbriae usher protein
Synonym(s): FimD, FimD_1, FimD_2
Sequence: Get amino acid sequence Fasta Format
Cellular location: outer membrane
Molecular weight: 96.482
Isoelectric point: 7.117
Motif(s):
 
Type Positions Sequence
352 -> 402 DGSTQIFTVPYSSVPLLQREGHTRYSITAGEYRSGNAQQEKTRFFQSTLLH
658 -> 670 GGDGNSGSTGYAT
799 -> 863 LMTLTHNNKPLPFGAMVTSESSQSSGIVADNGQVYLSGMPLAGKVQVKWGEEENAHCVANYQLPP
811 -> 811 F
723 -> 742 APGAKDAKVENQTGVRTDWR

 
Classification:
Multifun Terms (GenProtEC)  
  6 - cell structure --> 6.5 - pilus
Gene Ontology Terms (GO)  
cellular_component GO:0009279 - cell outer membrane
GO:0016020 - membrane
GO:0016021 - integral component of membrane
molecular_function GO:0005515 - protein binding
GO:0015473 - fimbrial usher porin activity
biological_process GO:0009297 - pilus assembly
GO:0055085 - transmembrane transport
Note(s): Note(s): ...[more].
External database links:  
DIP:
 DIP-9612N
ECOCYC:
 EG10311-MONOMER
ECOLIWIKI:
 b4317
INTERPRO:
 IPR018030
INTERPRO:
 IPR000015
INTERPRO:
 IPR025949
INTERPRO:
 IPR042186
INTERPRO:
 IPR037224
INTERPRO:
 IPR025885
MINT:
 P30130
PANTHER:
 PTHR30451
PDB:
 6E14
PDB:
 4J3O
PDB:
 3RFZ
PDB:
 3OHN
PDB:
 3BWU
PDB:
 1ZE3
PDB:
 1ZDX
PDB:
 1ZDV
PDB:
 6E15
PFAM:
 PF13954
PFAM:
 PF00577
PFAM:
 PF13953
PRIDE:
 P30130
PRODB:
 PRO_000022619
PROSITE:
 PS01151
REFSEQ:
 NP_418737
SMR:
 P30130
UNIPROT:
 P30130


Operon      
Name: fimAICDFGH         
Operon arrangement:
Transcription unit        Promoter
fimAICDFGH


Transcriptional Regulation      
Display Regulation             
Activated by: H-NS, IHF, Lrp, QseB


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_5137 4544668 forward nd [RS-EPT-CBR] [1]
  promoter TSS_5138 4544808 forward nd [RS-EPT-CBR] [1]
  promoter TSS_5139 4545062 forward nd [RS-EPT-CBR] [1]
  promoter TSS_5140 4545183 forward nd [RS-EPT-CBR] [1]
  promoter TSS_5141 4547980 forward 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.

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