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Conserved domains on  [gi|34500930|ref|NP_904115|]
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photosystem II protein VI (chloroplast) [Amborella trichopoda]

Protein Classification

cytochrome b559 subunit beta( domain architecture ID 10000037)

cytochrome b559 subunit beta is tightly associated with the reaction center of photosystem II (PSII), which is a light-driven water:plastoquinone oxidoreductase that uses light energy to abstract electrons from H(2)O, generating O(2) and a proton gradient subsequently used for ATP formation

Gene Ontology:  GO:0020037|GO:0009055|GO:0015979|GO:0009767|GO:0009539|GO:0005506

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
psbF CHL00039
photosystem II protein VI
 1-39 7.97e-19

photosystem II protein VI


:

Pssm-ID: 176980  Cd Length: 39  Bit Score: 69.77  E-value: 7.97e-19
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 34500930   1 MTIDRTYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
Cdd:CHL00039  1 MTIDRTYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
 
Name Accession Description Interval E-value
psbF CHL00039
photosystem II protein VI
 1-39 7.97e-19

photosystem II protein VI


Pssm-ID: 176980  Cd Length: 39  Bit Score: 69.77  E-value: 7.97e-19
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 34500930   1 MTIDRTYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
Cdd:CHL00039  1 MTIDRTYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
PsbF COG5721
Photosystem II cytochrome b559 beta chain, PsbF [Energy production and conversion]; ...
 5-39 7.38e-17

Photosystem II cytochrome b559 beta chain, PsbF [Energy production and conversion]; Photosystem II cytochrome b559 beta chain, PsbF is part of the Pathway/BioSystem: Photosystem II


Pssm-ID: 444431  Cd Length: 45  Bit Score: 65.18  E-value: 7.38e-17
                       10        20        30
               ....*....|....*....|....*....|....*
gi 34500930  5 RTYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
Cdd:COG5721 11 RTYPIFTVRWLAVHALGVPTVFFLGAIAAMQFIQR 45
cyt_b559_beta TIGR01333
cytochrome b559, beta subunit; This model describes the beta subunit of cytochrome b559, about ...
 6-39 4.84e-14

cytochrome b559, beta subunit; This model describes the beta subunit of cytochrome b559, about 40 residues in length. It is homologous to the N-terminal half of the alpha subunit, a protein of about 83 residues. Cytochrome b559 is associated with photosystem II. [Energy metabolism, Photosynthesis]


Pssm-ID: 130400  Cd Length: 43  Bit Score: 58.09  E-value: 4.84e-14
                         10        20        30
                 ....*....|....*....|....*....|....
gi 34500930    6 TYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
Cdd:TIGR01333 10 SYPIFTFRWLAIHALAIPTVFFFGAITAMQFIQR 43
Cytochrom_B559 pfam00283
Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits;
1-29 4.56e-09

Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits;


Pssm-ID: 425580  Cd Length: 29  Bit Score: 45.09  E-value: 4.56e-09
                         10        20
                 ....*....|....*....|....*....
gi 34500930    1 MTIDRTYPIFTVRWLAVHGLAVPTVFFLG 29
Cdd:pfam00283  1 GERPFTYPIFTVRWLAIHALTVPTVFFLG 29
 
Name Accession Description Interval E-value
psbF CHL00039
photosystem II protein VI
 1-39 7.97e-19

photosystem II protein VI


Pssm-ID: 176980  Cd Length: 39  Bit Score: 69.77  E-value: 7.97e-19
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 34500930   1 MTIDRTYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
Cdd:CHL00039  1 MTIDRTYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
psbF PRK02561
cytochrome b559 subunit beta; Provisional
 5-39 1.33e-18

cytochrome b559 subunit beta; Provisional


Pssm-ID: 235051  Cd Length: 44  Bit Score: 69.29  E-value: 1.33e-18
                        10        20        30
                ....*....|....*....|....*....|....*
gi 34500930   5 RTYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
Cdd:PRK02561 10 RSYPIFTVRWLAVHALGVPTVFFLGAIAAMQFIQR 44
PsbF COG5721
Photosystem II cytochrome b559 beta chain, PsbF [Energy production and conversion]; ...
 5-39 7.38e-17

Photosystem II cytochrome b559 beta chain, PsbF [Energy production and conversion]; Photosystem II cytochrome b559 beta chain, PsbF is part of the Pathway/BioSystem: Photosystem II


Pssm-ID: 444431  Cd Length: 45  Bit Score: 65.18  E-value: 7.38e-17
                       10        20        30
               ....*....|....*....|....*....|....*
gi 34500930  5 RTYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
Cdd:COG5721 11 RTYPIFTVRWLAVHALGVPTVFFLGAIAAMQFIQR 45
cyt_b559_beta TIGR01333
cytochrome b559, beta subunit; This model describes the beta subunit of cytochrome b559, about ...
 6-39 4.84e-14

cytochrome b559, beta subunit; This model describes the beta subunit of cytochrome b559, about 40 residues in length. It is homologous to the N-terminal half of the alpha subunit, a protein of about 83 residues. Cytochrome b559 is associated with photosystem II. [Energy metabolism, Photosynthesis]


Pssm-ID: 130400  Cd Length: 43  Bit Score: 58.09  E-value: 4.84e-14
                         10        20        30
                 ....*....|....*....|....*....|....
gi 34500930    6 TYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
Cdd:TIGR01333 10 SYPIFTFRWLAIHALAIPTVFFFGAITAMQFIQR 43
Cytochrom_B559 pfam00283
Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits;
1-29 4.56e-09

Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits;


Pssm-ID: 425580  Cd Length: 29  Bit Score: 45.09  E-value: 4.56e-09
                         10        20
                 ....*....|....*....|....*....
gi 34500930    1 MTIDRTYPIFTVRWLAVHGLAVPTVFFLG 29
Cdd:pfam00283  1 GERPFTYPIFTVRWLAIHALTVPTVFFLG 29
 
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.
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