RegulonDB RegulonDB 10.8: Gene Form
   

cyoB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

cyoB cyoA cyoC cyoD CusR HprR TSS_553 TSS_553 TSS_552 TSS_552 TSS_551 TSS_551 TSS_550 (cluster) TSS_550 (cluster) TSS_549 TSS_549 TSS_548 (cluster) TSS_548 (cluster) TSS_547 TSS_547 cyoEp3 cyoEp3

Gene      
Name: cyoB    Texpresso search in the literature
Synonym(s): ECK0425, EG10179, b0431
Genome position(nucleotides): 448650 <-- 450641 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
52.96
External database links:  
ASAP:
ABE-0001493
CGSC:
30997
ECHOBASE:
EB0176
MIM:
535000
MIM:
550500
MIM:
220110
MIM:
114500
MIM:
500008
OU-MICROARRAY:
b0431
PortEco:
cyoB
STRING:
511145.b0431
COLOMBOS: cyoB


Product      
Name: cytochrome bo3 ubiquinol oxidase subunit 1
Synonym(s): CyoB, cytochrome bo3 terminal oxidase subunit I, cytochrome bo3 ubiquinol oxidase subunit I, cytochrome o ubiquinol oxidase subunit I
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 74.368
Isoelectric point: 7.22
Motif(s):
 
Type Positions Sequence
54 -> 54 H
173 -> 173 Y
256 -> 256 D
284 -> 284 H
286 -> 286 E

 

Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.3 - energy metabolism, carbon --> 1.3.6 - aerobic respiration
  1 - metabolism --> 1.4 - energy production/transport --> 1.4.2 - electron acceptors
  4 - transport --> 4.3 - Primary Active Transporters --> 4.3.D - Oxidoreduction-driven Active Transporters
  6 - cell structure --> 6.1 - membrane
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0005887 - integral component of plasma membrane
GO:0016021 - integral component of membrane
GO:0070469 - respirasome
GO:0009319 - cytochrome o ubiquinol oxidase complex
molecular_function GO:0005507 - copper ion binding
GO:0005515 - protein binding
GO:0009055 - electron transfer activity
GO:0015453 - oxidoreduction-driven active transmembrane transporter activity
GO:0046872 - metal ion binding
GO:0015078 - proton transmembrane transporter activity
GO:0004129 - cytochrome-c oxidase activity
GO:0009486 - cytochrome bo3 ubiquinol oxidase activity
GO:0016682 - oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor
GO:0020037 - heme binding
GO:0048039 - ubiquinone binding
biological_process GO:0006811 - ion transport
GO:0009060 - aerobic respiration
GO:0015990 - electron transport coupled proton transport
GO:0019646 - aerobic electron transport chain
GO:0022904 - respiratory electron transport chain
GO:0055114 - oxidation-reduction process
Note(s): Note(s): ...[more].
Reference(s): [1] Barker PD., et al., 1996
[2] Barker PD., et al., 1996
[3] Kobayashi K., et al., 2009
[4] Lin MT., et al., 2008
[5] Melin F., et al., 2018
[6] Thomas JW., et al., 1993
External database links:  
DIP:
DIP-47943N
DISPROT:
DP00088
ECOCYC:
CYOB-MONOMER
ECOLIWIKI:
b0431
INTERPRO:
IPR014207
INTERPRO:
IPR036927
INTERPRO:
IPR023616
INTERPRO:
IPR023615
INTERPRO:
IPR000883
MODBASE:
P0ABI8
PANTHER:
PTHR10422
PDB:
1FFT
PFAM:
PF00115
PRIDE:
P0ABI8
PRINTS:
PR01165
PRODB:
PRO_000022369
PROSITE:
PS50855
PROSITE:
PS00077
REFSEQ:
NP_414965
SMR:
P0ABI8
UNIPROT:
P0ABI8


Operon      
Name: cyoABCDE         
Operon arrangement:
Transcription unit        Promoter
cyoABCDE


Transcriptional Regulation      
Display Regulation             
Activated by: CRP, CusR, GadE, Fis
Repressed by: FNR, Fur, HprR, Cra, ArcA, PdhR


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 cyoEp3 447770 reverse Similarity to the consensus
Read more >
[ICWHO] [7]
  promoter TSS_547 448138 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_548 (cluster) 448146 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [8]
  promoter TSS_549 448244 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_550 (cluster) 448247 reverse For this promoter, there
Read more >
[RS-EPT-CBR] [8]
  promoter TSS_551 448549 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_552 448681 reverse nd [RS-EPT-CBR] [8]
  promoter TSS_553 449899 reverse nd [RS-EPT-CBR] [8]


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] Barker PD., Freund SM., 1996, Bis-methionine ligation to heme iron in mutants of cytochrome b562. 2. Characterization by NMR of heme-ligand interactions., Biochemistry 35(42):13627-35

 [2] Barker PD., Nerou EP., Cheesman MR., Thomson AJ., de Oliveira P., Hill HA., 1996, Bis-methionine ligation to heme iron in mutants of cytochrome b562. 1. Spectroscopic and electrochemical characterization of the electronic properties., Biochemistry 35(42):13618-26

 [3] Kobayashi K., Tagawa S., Mogi T., 2009, Electron transfer processes in subunit I mutants of cytochrome bo quinol oxidase in Escherichia coli., Biosci Biotechnol Biochem 73(7):1599-603

 [4] Lin MT., Samoilova RI., Gennis RB., Dikanov SA., 2008, Identification of the nitrogen donor hydrogen bonded with the semiquinone at the Q(H) site of the cytochrome bo3 from Escherichia coli., J Am Chem Soc 130(47):15768-9

 [5] Melin F., Sabuncu S., Choi SK., Leprince A., Gennis RB., Hellwig P., 2018, Role of the tightly bound quinone for the oxygen reaction of cytochrome bo3 oxidase from Escherichia coli., FEBS Lett 592(20):3380-3387

 [6] Thomas JW., Lemieux LJ., Alben JO., Gennis RB., 1993, Site-directed mutagenesis of highly conserved residues in helix VIII of subunit I of the cytochrome bo ubiquinol oxidase from Escherichia coli: an amphipathic transmembrane helix that may be important in conveying protons to the binuclear center., Biochemistry 32(41):11173-80

 [7] 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

 [8] 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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