NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|487770667|ref|WP_001847091|]
View 

cytochrome c oxidase, cbb3-type, CcoQ subunit [Helicobacter pylori]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
cbb3_Oxidase_CcoQ super family cl00282
Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory ...
 8-62 6.36e-23

Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322, or cd01323 for more information on cbb3 oxidase.


The actual alignment was detected with superfamily member TIGR02736:

Pssm-ID: 444808  Cd Length: 56  Bit Score: 82.12  E-value: 6.36e-23
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 487770667   8 GFAYAFFTILFTLFLYAYIFSMYRKQKKGVVDYERYGYLALNDALEDELIEPRHK 62
Cdd:TIGR02736  1 GYAYFAFTLLLVIFLYAYIYHLYRSQKKGERDYEKYANLALNDDLDDSLIEPRRK 55
 
Name Accession Description Interval E-value
cbb3_Q_epsi TIGR02736
cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Members of this ...
 8-62 6.36e-23

cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Members of this protein family are restricted to the epsilon branch of the Proteobacteria. All members are found in operons containing the other three structural subunits of the cbb3 type of cytochrome c oxidase. These small proteins show remote sequence similarity to the CcoQ subunit in other cytochrome c oxidase systems, so this family is assumed to represent the epsilonproteobacterial variant of CcoQ. [Energy metabolism, Electron transport]


Pssm-ID: 131783  Cd Length: 56  Bit Score: 82.12  E-value: 6.36e-23
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 487770667   8 GFAYAFFTILFTLFLYAYIFSMYRKQKKGVVDYERYGYLALNDALEDELIEPRHK 62
Cdd:TIGR02736  1 GYAYFAFTLLLVIFLYAYIYHLYRSQKKGERDYEKYANLALNDDLDDSLIEPRRK 55
FixQ pfam05545
Cbb3-type cytochrome oxidase component FixQ; This family consists of several Cbb3-type ...
 1-50 1.26e-10

Cbb3-type cytochrome oxidase component FixQ; This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon.


Pssm-ID: 428515  Cd Length: 49  Bit Score: 50.62  E-value: 1.26e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 487770667   1 MDLESLRGFAYAFFTILFTLFLYAYIFSMYRKQKKGvvDYERYGYLALND 50
Cdd:pfam05545  1 MTYEALRGFADSWGLLFLVLLFAGVVLYAFRPGNRK--RFEDAANIPLDD 48
CcoQ COG4736
Cbb3-type cytochrome oxidase, subunit 3 [Energy production and conversion];
1-50 6.70e-09

Cbb3-type cytochrome oxidase, subunit 3 [Energy production and conversion];


Pssm-ID: 443770  Cd Length: 50  Bit Score: 46.37  E-value: 6.70e-09
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 487770667  1 MDLESLRGFAYAFFTILFTLFLYAYIFSMYRKQKKGvvDYERYGYLALND 50
Cdd:COG4736   1 MDINTLRHFADSWGTVFLFVFFIGIVLWAYSPGNKK--RFDEAANLPFDD 48
 
Name Accession Description Interval E-value
cbb3_Q_epsi TIGR02736
cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Members of this ...
 8-62 6.36e-23

cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Members of this protein family are restricted to the epsilon branch of the Proteobacteria. All members are found in operons containing the other three structural subunits of the cbb3 type of cytochrome c oxidase. These small proteins show remote sequence similarity to the CcoQ subunit in other cytochrome c oxidase systems, so this family is assumed to represent the epsilonproteobacterial variant of CcoQ. [Energy metabolism, Electron transport]


Pssm-ID: 131783  Cd Length: 56  Bit Score: 82.12  E-value: 6.36e-23
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 487770667   8 GFAYAFFTILFTLFLYAYIFSMYRKQKKGVVDYERYGYLALNDALEDELIEPRHK 62
Cdd:TIGR02736  1 GYAYFAFTLLLVIFLYAYIYHLYRSQKKGERDYEKYANLALNDDLDDSLIEPRRK 55
FixQ pfam05545
Cbb3-type cytochrome oxidase component FixQ; This family consists of several Cbb3-type ...
 1-50 1.26e-10

Cbb3-type cytochrome oxidase component FixQ; This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon.


Pssm-ID: 428515  Cd Length: 49  Bit Score: 50.62  E-value: 1.26e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 487770667   1 MDLESLRGFAYAFFTILFTLFLYAYIFSMYRKQKKGvvDYERYGYLALND 50
Cdd:pfam05545  1 MTYEALRGFADSWGLLFLVLLFAGVVLYAFRPGNRK--RFEDAANIPLDD 48
CcoQ COG4736
Cbb3-type cytochrome oxidase, subunit 3 [Energy production and conversion];
1-50 6.70e-09

Cbb3-type cytochrome oxidase, subunit 3 [Energy production and conversion];


Pssm-ID: 443770  Cd Length: 50  Bit Score: 46.37  E-value: 6.70e-09
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 487770667  1 MDLESLRGFAYAFFTILFTLFLYAYIFSMYRKQKKGvvDYERYGYLALND 50
Cdd:COG4736   1 MDINTLRHFADSWGTVFLFVFFIGIVLWAYSPGNKK--RFDEAANLPFDD 48
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH