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Conserved domains on  [gi|224179429|ref|YP_002600816|]
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photosystem II protein VI (chloroplast) [Pycnococcus provasolii]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
psbF super family cl46732
cytochrome b559 subunit beta; Provisional
 8-41 6.81e-19

cytochrome b559 subunit beta; Provisional


The actual alignment was detected with superfamily member PRK02561:

Pssm-ID: 235051  Cd Length: 44  Bit Score: 70.06  E-value: 6.81e-19
                        10        20        30
                ....*....|....*....|....*....|....
gi 224179429  8 TYPIFTVRWLAVHALAVPTVFFLGAISAMQFIQR 41
Cdd:PRK02561 11 SYPIFTVRWLAVHALGVPTVFFLGAIAAMQFIQR 44
 
Name Accession Description Interval E-value
psbF PRK02561
cytochrome b559 subunit beta; Provisional
 8-41 6.81e-19

cytochrome b559 subunit beta; Provisional


Pssm-ID: 235051  Cd Length: 44  Bit Score: 70.06  E-value: 6.81e-19
                        10        20        30
                ....*....|....*....|....*....|....
gi 224179429  8 TYPIFTVRWLAVHALAVPTVFFLGAISAMQFIQR 41
Cdd:PRK02561 11 SYPIFTVRWLAVHALGVPTVFFLGAIAAMQFIQR 44
PsbF COG5721
Photosystem II cytochrome b559 beta chain, PsbF [Energy production and conversion]; ...
 8-41 3.61e-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: 65.95  E-value: 3.61e-17
                        10        20        30
                ....*....|....*....|....*....|....
gi 224179429  8 TYPIFTVRWLAVHALAVPTVFFLGAISAMQFIQR 41
Cdd:COG5721  12 TYPIFTVRWLAVHALGVPTVFFLGAIAAMQFIQR 45
cyt_b559_beta TIGR01333
cytochrome b559, beta subunit; This model describes the beta subunit of cytochrome b559, about ...
 5-41 3.30e-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: 58.48  E-value: 3.30e-14
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 224179429   5 KSFTYPIFTVRWLAVHALAVPTVFFLGAISAMQFIQR 41
Cdd:TIGR01333  7 KPISYPIFTFRWLAIHALAIPTVFFFGAITAMQFIQR 43
Cytochrom_B559 pfam00283
Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits;
5-31 9.61e-09

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


Pssm-ID: 425580  Cd Length: 29  Bit Score: 44.32  E-value: 9.61e-09
                         10        20
                 ....*....|....*....|....*..
gi 224179429   5 KSFTYPIFTVRWLAVHALAVPTVFFLG 31
Cdd:pfam00283  3 RPFTYPIFTVRWLAIHALTVPTVFFLG 29
 
Name Accession Description Interval E-value
psbF PRK02561
cytochrome b559 subunit beta; Provisional
 8-41 6.81e-19

cytochrome b559 subunit beta; Provisional


Pssm-ID: 235051  Cd Length: 44  Bit Score: 70.06  E-value: 6.81e-19
                        10        20        30
                ....*....|....*....|....*....|....
gi 224179429  8 TYPIFTVRWLAVHALAVPTVFFLGAISAMQFIQR 41
Cdd:PRK02561 11 SYPIFTVRWLAVHALGVPTVFFLGAIAAMQFIQR 44
PsbF COG5721
Photosystem II cytochrome b559 beta chain, PsbF [Energy production and conversion]; ...
 8-41 3.61e-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: 65.95  E-value: 3.61e-17
                        10        20        30
                ....*....|....*....|....*....|....
gi 224179429  8 TYPIFTVRWLAVHALAVPTVFFLGAISAMQFIQR 41
Cdd:COG5721  12 TYPIFTVRWLAVHALGVPTVFFLGAIAAMQFIQR 45
psbF CHL00039
photosystem II protein VI
 6-41 2.82e-16

photosystem II protein VI


Pssm-ID: 176980  Cd Length: 39  Bit Score: 63.61  E-value: 2.82e-16
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 224179429  6 SFTYPIFTVRWLAVHALAVPTVFFLGAISAMQFIQR 41
Cdd:CHL00039  4 DRTYPIFTVRWLAVHGLAVPTVFFLGSISAMQFIQR 39
cyt_b559_beta TIGR01333
cytochrome b559, beta subunit; This model describes the beta subunit of cytochrome b559, about ...
 5-41 3.30e-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: 58.48  E-value: 3.30e-14
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 224179429   5 KSFTYPIFTVRWLAVHALAVPTVFFLGAISAMQFIQR 41
Cdd:TIGR01333  7 KPISYPIFTFRWLAIHALAIPTVFFFGAITAMQFIQR 43
Cytochrom_B559 pfam00283
Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits;
5-31 9.61e-09

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


Pssm-ID: 425580  Cd Length: 29  Bit Score: 44.32  E-value: 9.61e-09
                         10        20
                 ....*....|....*....|....*..
gi 224179429   5 KSFTYPIFTVRWLAVHALAVPTVFFLG 31
Cdd:pfam00283  3 RPFTYPIFTVRWLAIHALTVPTVFFLG 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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