RegulonDB RegulonDB 10.9: Gene Form
   

secF gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

secD secF yajD terminator anti-terminator anti-anti-terminator yajDp5 yajDp5 yajDp6 yajDp6 TSS_523 (cluster) TSS_523 (cluster) TSS_522 TSS_522 TSS_521 TSS_521 TSS_520 (cluster) TSS_520 (cluster) TSS_519 TSS_519 TSS_518 TSS_518 TSS_517 TSS_517 TSS_516 TSS_516 TSS_515 TSS_515 TSS_514 (cluster) TSS_514 (cluster) TSS_513 TSS_513 TSS_512 TSS_512

Gene      
Name: secF    Texpresso search in the literature
Synonym(s): ECK0403, EG10940, b0409
Genome position(nucleotides): 429505 --> 430476 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
51.65
External database links:  
ASAP:
ABE-0001419
CGSC:
29893
ECHOBASE:
EB0933
ECOLIHUB:
secF
OU-MICROARRAY:
b0409
STRING:
511145.b0409
COLOMBOS: secF


Product      
Name: Sec translocon accessory complex subunit SecF
Synonym(s): SecF
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 35.382
Isoelectric point: 5.652
Motif(s):
 
Type Positions Sequence
213 -> 213 D
23 -> 43 DYWAFGISGLLLIAAIVIMGV
281 -> 301 VSIGTASSIYVASALALKLGM
143 -> 163 AQTGAMALMAALLSILVYVGF
247 -> 247 R

 

Classification:
Multifun Terms (GenProtEC)  
  4 - transport --> 4.3 - Primary Active Transporters --> 4.3.A - Pyrophosphate Bond (ATP; GTP; P2) Hydrolysis-driven Active Transporters --> 4.3.A.5 - The Type II (General) Secretory Pathway (IISP) Family
  6 - cell structure --> 6.1 - membrane
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0016021 - integral component of membrane
molecular_function GO:0015450 - P-P-bond-hydrolysis-driven protein transmembrane transporter activity
biological_process GO:0015031 - protein transport
GO:0006605 - protein targeting
GO:0006886 - intracellular protein transport
GO:0065002 - intracellular protein transmembrane transport
GO:0043952 - protein transport by the Sec complex
Note(s): Note(s): ...[more].
Reference(s): [1] Matsuyama S., et al., 1992
[2] Sagara K., et al., 1994
External database links:  
ECOCYC:
SECF
ECOLIWIKI:
b0409
INTERPRO:
IPR022813
INTERPRO:
IPR022646
INTERPRO:
IPR005665
INTERPRO:
IPR022645
MODBASE:
P0AG93
PANTHER:
PTHR30081
PDB:
5MG3
PFAM:
PF02355
PFAM:
PF07549
PRIDE:
P0AG93
PRINTS:
PR01755
PRODB:
PRO_000023927
REFSEQ:
NP_414943
SMR:
P0AG93
UNIPROT:
P0AG93


Operon      
Name: tgt-yajC-secDF         
Operon arrangement:
Transcription unit        Promoter
tgt-yajC
yajC-secDF


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_512 427649 forward nd [RS-EPT-CBR] [3]
  promoter TSS_513 428779 forward nd [RS-EPT-CBR] [3]
  promoter TSS_514 (cluster) 428782 forward For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_515 428786 forward nd [RS-EPT-CBR] [3]
  promoter TSS_516 429239 forward nd [RS-EPT-CBR] [3]
  promoter TSS_517 429370 forward nd [RS-EPT-CBR] [3]
  promoter TSS_518 429682 forward nd [RS-EPT-CBR] [3]
  promoter TSS_519 430048 forward nd [RS-EPT-CBR] [3]
  promoter TSS_520 (cluster) 430051 forward For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter TSS_521 430054 forward nd [RS-EPT-CBR] [3]
  promoter TSS_522 430059 forward nd [RS-EPT-CBR] [3]
  promoter TSS_523 (cluster) 430063 forward For this promoter, there
Read more >
[RS-EPT-CBR] [3]
  promoter yajDp6 430469 forward Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter yajDp5 430530 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] Matsuyama S., Fujita Y., Sagara K., Mizushima S., 1992, Overproduction, purification and characterization of SecD and SecF, integral membrane components of the protein translocation machinery of Escherichia coli., Biochim Biophys Acta 1122(1):77-84

 [2] Sagara K., Matsuyama S., Mizushima S., 1994, SecF stabilizes SecD and SecY, components of the protein translocation machinery of the Escherichia coli cytoplasmic membrane., J Bacteriol 176(13):4111-6

 [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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