RegulonDB RegulonDB 11.1: Gene Form
   

dgcT gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

pgaA dgcT insEF4 insF4 insE4 NhaR NhaR OmpR insFp4 insFp4 insFp5 insFp5 ycdTp ycdTp TSS_1319 TSS_1319 pgaAp pgaAp

Gene      
Name: dgcT    Texpresso search in the literature
Synonym(s): ECK1015, G6532, b1025, ycdT
Genome position(nucleotides): 1092876 --> 1094234
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 38.56
External database links:  
ASAP:
 ABE-0003472
ECHOBASE:
 EB3626
ECOLIHUB:
 ycdT
OU-MICROARRAY:
 b1025
STRING:
 511145.b1025
COLOMBOS: dgcT


Product      
Name: probable diguanylate cyclase DgcT
Synonym(s): DgcT, YcdT
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 51.783
Isoelectric point: 7.117
Motif(s):
 
Type Positions Sequence Comment
8 -> 28 ISSTVLVSLLFGLALVLVNSW UniProt: Helical.
41 -> 274 STYLMVMIALFFIDTVAFIFMQLYFIYDRRQFSNCVLSLAFLSCLIYFVITVIIIQQIIEERLTSSVVQNDIAIYYLFRQMSLCILIFLALVNKVSENTKQRNLFSKKMTLCISLFFVFGGPIVAHILSSHYESYNLHIAELTNENGQVVWKASYVTIMIFMWLTLLSVNLYFNGLRYDIWNGVTVIAFCAVLYNISLLFMSRYSVSTWYISRTIEVVSKLTVMVIFMCHIFSA
46 -> 66 VMIALFFIDTVAFIFMQLYFI UniProt: Helical.
75 -> 95 CVLSLAFLSCLIYFVITVIII UniProt: Helical.
112 -> 132 IAIYYLFRQMSLCILIFLALV UniProt: Helical.

 
Classification:
Multifun Terms (GenProtEC)  
  5 - cell processes --> 5.3 - motility, chemotaxis, energytaxis (aerotaxis, redoxtaxis etc)
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0016021 - integral component of membrane
molecular_function GO:0016740 - transferase activity
GO:0046872 - metal ion binding
GO:0000166 - nucleotide binding
GO:0005525 - GTP binding
GO:0052621 - diguanylate cyclase activity
biological_process GO:0051271 - negative regulation of cellular component movement
GO:0090609 - single-species submerged biofilm formation
Note(s): Note(s): ...[more].
Reference(s): [1] Jorgensen MG., et al., 2013
[2] Steiner S., et al., 2013
External database links:  
ALPHAFOLD:
 P75908
ECOCYC:
 G6532-MONOMER
ECOLIWIKI:
 b1025
INTERPRO:
 IPR043128
INTERPRO:
 IPR033424
INTERPRO:
 IPR029787
INTERPRO:
 IPR000160
PFAM:
 PF00990
PFAM:
 PF17158
PRIDE:
 P75908
PROSITE:
 PS50887
REFSEQ:
 NP_415544
SMART:
 SM00267
SMR:
 P75908
UNIPROT:
 P75908


Operon      
Name: dgcT         
Operon arrangement:
Transcription unit        Promoter
ycdT


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_1319 1092840 forward nd [RS-EPT-CBR] [3]
  promoter insFp5 1095155 reverse nd [COMP-AINF] [4]
  promoter insFp4 1095196 reverse 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] Jorgensen MG., Thomason MK., Havelund J., Valentin-Hansen P., Storz G., 2013, Dual function of the McaS small RNA in controlling biofilm formation., Genes Dev 27(10):1132-45

 [2] Steiner S., Lori C., Boehm A., Jenal U., 2013, Allosteric activation of exopolysaccharide synthesis through cyclic di-GMP-stimulated protein-protein interaction., EMBO J 32(3):354-68

 [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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