RegulonDB RegulonDB 10.9: Gene Form
   

napF gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

napA napF napD yojO ModE IscR FNR NarP NarL NarP NarL napFp3 napFp3 napFp2 napFp2 napFp1 napFp1

Gene      
Name: napF    Texpresso search in the literature
Synonym(s): ECK2200, EG12068, b2208, yojG
Genome position(nucleotides): 2303003 <-- 2303497 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
55.35
External database links:  
ASAP:
ABE-0007293
CGSC:
36544
ECHOBASE:
EB1995
ECOLIHUB:
napF
OU-MICROARRAY:
b2208
STRING:
511145.b2208
COLOMBOS: napF


Product      
Name: ferredoxin-type protein
Synonym(s): NapF, YojG
Sequence: Get amino acid sequence Fasta Format
Cellular location: periplasmic space,cytosol
Molecular weight: 18.047
Isoelectric point: 7.702
Motif(s):
 
Type Positions Sequence
24 -> 24 P
132 -> 161 YQPQLNSQLCNGCGACAASCPVSAITAEYL
7 -> 8 RR
28 -> 57 GDESHFLTHCTRCDACINACENNILQRGAG
101 -> 118 ACLAYQSVECRRCQDSCE

 

Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.3 - energy metabolism, carbon --> 1.3.7 - anaerobic respiration
Gene Ontology Terms (GO)  
cellular_component GO:0005737 - cytoplasm
GO:0030288 - outer membrane-bounded periplasmic space
molecular_function GO:0005515 - protein binding
GO:0046872 - metal ion binding
GO:0051536 - iron-sulfur cluster binding
GO:0051539 - 4 iron, 4 sulfur cluster binding
biological_process GO:0006979 - response to oxidative stress
Note(s): Note(s): ...[more].
Evidence: [IMP] Inferred from mutant phenotype
Reference(s): [1] Brondijk TH., et al., 2002
[2] Giel JL., et al., 2006
[3] Kurata T., et al., 2013
[4] Lin AV., et al., 2010
[5] McNicholas PM., et al., 2002
[6] Nesbit AD., et al., 2009
[7] Stewart V., et al., 2003
[8] Stewart V., et al., 2009
[9] Stewart V., et al., 2003
[10] Stewart V., et al., 2002
[11] Wang H., et al., 1999
External database links:  
ECOCYC:
NAPF-MONOMER
ECOLIWIKI:
b2208
INTERPRO:
IPR017900
INTERPRO:
IPR017896
INTERPRO:
IPR004496
MODBASE:
P0AAL0
PANTHER:
PTHR24960:SF46
PFAM:
PF13187
PFAM:
PF12800
PFAM:
PF00037
PRIDE:
P0AAL0
PROSITE:
PS00198
PROSITE:
PS51379
REFSEQ:
NP_416712
UNIPROT:
P0AAL0


Operon      
Name: napFDAGHBC-ccmABCDEFGH         
Operon arrangement:
Transcription unit        Promoter
napFDAGHBC-ccmABCDEFGH
napFDAGHBC-ccmABCDEFGH
napFDAGHBC
ccmABCDEFGH


Transcriptional Regulation      
Display Regulation             
Activated by: FNR, ModE, FlhDC, NarP
Repressed by: IscR, NarL, NarP


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


Reference(s)    

 [1] Brondijk TH., Fiegen D., Richardson DJ., Cole JA., 2002, Roles of NapF, NapG and NapH, subunits of the Escherichia coli periplasmic nitrate reductase, in ubiquinol oxidation., Mol Microbiol 44(1):245-55

 [2] Giel JL., Rodionov D., Liu M., Blattner FR., Kiley PJ., 2006, IscR-dependent gene expression links iron-sulphur cluster assembly to the control of O-regulated genes in Escherichia coli., Mol Microbiol 60(4):1058-75

 [3] Kurata T., Katayama A., Hiramatsu M., Kiguchi Y., Takeuchi M., Watanabe T., Ogasawara H., Ishihama A., Yamamoto K., 2013, Identification of the set of genes, including nonannotated morA, under the direct control of ModE in Escherichia coli., J Bacteriol 195(19):4496-505

 [4] Lin AV., Stewart V., 2010, Functional roles for the GerE-family carboxyl-terminal domains of nitrate response regulators NarL and NarP of Escherichia coli K-12., Microbiology 156(Pt 10):2933-43

 [5] McNicholas PM., Gunsalus RP., 2002, The molybdate-responsive Escherichia coli ModE transcriptional regulator coordinates periplasmic nitrate reductase (napFDAGHBC) operon expression with nitrate and molybdate availability., J Bacteriol 184(12):3253-9

 [6] Nesbit AD., Giel JL., Rose JC., Kiley PJ., 2009, Sequence-specific binding to a subset of IscR-regulated promoters does not require IscR Fe-S cluster ligation., J Mol Biol 387(1):28-41

 [7] Stewart V., Bledsoe PJ., 2003, Synthetic lac operator substitutions for studying the nitrate- and nitrite-responsive NarX-NarL and NarQ-NarP two-component regulatory systems of Escherichia coli K-12., J Bacteriol 185(7):2104-11

 [8] Stewart V., Bledsoe PJ., Chen LL., Cai A., 2009, Catabolite repression control of napF (periplasmic nitrate reductase) operon expression in Escherichia coli K-12., J Bacteriol 191(3):996-1005

 [9] Stewart V., Bledsoe PJ., Williams SB., 2003, Dual overlapping promoters control napF (periplasmic nitrate reductase) operon expression in Escherichia coli K-12., J Bacteriol 185(19):5862-70

 [10] Stewart V., Lu Y., Darwin AJ., 2002, Periplasmic nitrate reductase (NapABC enzyme) supports anaerobic respiration by Escherichia coli K-12., J Bacteriol 184(5):1314-23

 [11] Wang H., Tseng CP., Gunsalus RP., 1999, The napF and narG nitrate reductase operons in Escherichia coli are differentially expressed in response to submicromolar concentrations of nitrate but not nitrite., J Bacteriol 181(17):5303-8


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