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Conserved domains on  [gi|1783499245|ref|YP_009722765|]
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photosystem II protein M (chloroplast) [Citrus polytrifolia]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN00085 super family cl29302
photosystem II reaction center protein M (PsbM); Provisional
 2-34 1.74e-08

photosystem II reaction center protein M (PsbM); Provisional


The actual alignment was detected with superfamily member PLN00085:

Pssm-ID: 177708  Cd Length: 149  Bit Score: 45.88  E-value: 1.74e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1783499245   2 EVNILAFIATTLFVLVPTAFLLIIYVKTVSQSD 34
Cdd:PLN00085   79 DVNILGVIATALFIIIPTSFLIILYVKSASEGN 111
 
Name Accession Description Interval E-value
PLN00085 PLN00085
photosystem II reaction center protein M (PsbM); Provisional
 2-34 1.74e-08

photosystem II reaction center protein M (PsbM); Provisional


Pssm-ID: 177708  Cd Length: 149  Bit Score: 45.88  E-value: 1.74e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1783499245   2 EVNILAFIATTLFVLVPTAFLLIIYVKTVSQSD 34
Cdd:PLN00085   79 DVNILGVIATALFIIIPTSFLIILYVKSASEGN 111
PS_II_psbM TIGR03038
photosystem II reaction center protein PsbM; Members of this protein family are the ...
 1-33 1.90e-08

photosystem II reaction center protein PsbM; Members of this protein family are the photosystem II reaction center M protein, product of the psbM gene, in Cyanobacteria and their derived organelles in plants. This model resembles pfam05151 but has cutoffs set to avoid false-positive matches to similar (not necessarily homologous) sequences in species that are not photosynthetic. [Energy metabolism, Photosynthesis]


Pssm-ID: 274403  Cd Length: 33  Bit Score: 43.41  E-value: 1.90e-08
                         10        20        30
                 ....*....|....*....|....*....|...
gi 1783499245  1 MEVNILAFIATTLFVLVPTAFLLIIYVKTVSQS 33
Cdd:TIGR03038  1 MEVNILGFIATALFILVPTVFLLILYIQTASRE 33
PsbM COG5727
Photosystem II reaction center protein M, PsbM [Energy production and conversion]; Photosystem ...
 1-32 1.90e-07

Photosystem II reaction center protein M, PsbM [Energy production and conversion]; Photosystem II reaction center protein M, PsbM is part of the Pathway/BioSystem: Photosystem II


Pssm-ID: 444437  Cd Length: 36  Bit Score: 40.82  E-value: 1.90e-07
                         10        20        30
                 ....*....|....*....|....*....|..
gi 1783499245  1 MEVNILAFIATTLFVLVPTAFLLIIYVKTVSQ 32
Cdd:COG5727    1 MEVNDLGFIATILFVLVPTVFLLILYIQTASR 32
PsbM pfam05151
Photosystem II reaction centre M protein (PsbM); This family consists of several Photosystem ...
 1-31 8.08e-05

Photosystem II reaction centre M protein (PsbM); This family consists of several Photosystem II reaction centre M proteins (PsbM) from plants and cyanobacteria. During the photosynthetic light reactions in the thylakoid membranes of cyanobacteria, algae, and plants, photosystem II (PSII), a multi-subunit membrane protein complex, catalyzes oxidation of water to molecular oxygen and reduction of plastoquinon.


Pssm-ID: 398700  Cd Length: 31  Bit Score: 34.28  E-value: 8.08e-05
                         10        20        30
                 ....*....|....*....|....*....|.
gi 1783499245  1 MEVNILAFIATTLFVLVPTAFLLIIYVKTVS 31
Cdd:pfam05151  1 MEVNILGFIATALFVLVPTAFLIILYVQTAS 31
 
Name Accession Description Interval E-value
PLN00085 PLN00085
photosystem II reaction center protein M (PsbM); Provisional
 2-34 1.74e-08

photosystem II reaction center protein M (PsbM); Provisional


Pssm-ID: 177708  Cd Length: 149  Bit Score: 45.88  E-value: 1.74e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1783499245   2 EVNILAFIATTLFVLVPTAFLLIIYVKTVSQSD 34
Cdd:PLN00085   79 DVNILGVIATALFIIIPTSFLIILYVKSASEGN 111
PS_II_psbM TIGR03038
photosystem II reaction center protein PsbM; Members of this protein family are the ...
 1-33 1.90e-08

photosystem II reaction center protein PsbM; Members of this protein family are the photosystem II reaction center M protein, product of the psbM gene, in Cyanobacteria and their derived organelles in plants. This model resembles pfam05151 but has cutoffs set to avoid false-positive matches to similar (not necessarily homologous) sequences in species that are not photosynthetic. [Energy metabolism, Photosynthesis]


Pssm-ID: 274403  Cd Length: 33  Bit Score: 43.41  E-value: 1.90e-08
                         10        20        30
                 ....*....|....*....|....*....|...
gi 1783499245  1 MEVNILAFIATTLFVLVPTAFLLIIYVKTVSQS 33
Cdd:TIGR03038  1 MEVNILGFIATALFILVPTVFLLILYIQTASRE 33
PsbM COG5727
Photosystem II reaction center protein M, PsbM [Energy production and conversion]; Photosystem ...
 1-32 1.90e-07

Photosystem II reaction center protein M, PsbM [Energy production and conversion]; Photosystem II reaction center protein M, PsbM is part of the Pathway/BioSystem: Photosystem II


Pssm-ID: 444437  Cd Length: 36  Bit Score: 40.82  E-value: 1.90e-07
                         10        20        30
                 ....*....|....*....|....*....|..
gi 1783499245  1 MEVNILAFIATTLFVLVPTAFLLIIYVKTVSQ 32
Cdd:COG5727    1 MEVNDLGFIATILFVLVPTVFLLILYIQTASR 32
psbM CHL00080
photosystem II protein M
 1-34 3.11e-07

photosystem II protein M


Pssm-ID: 177019  Cd Length: 34  Bit Score: 40.15  E-value: 3.11e-07
                         10        20        30
                 ....*....|....*....|....*....|....
gi 1783499245  1 MEVNILAFIATTLFVLVPTAFLLIIYVKTVSQSD 34
Cdd:CHL00080   1 MEVNILAFIATALFILVPTAFLLIIYVKTVSQND 34
psbM PRK04989
photosystem II reaction center protein M; Provisional
 1-33 4.63e-06

photosystem II reaction center protein M; Provisional


Pssm-ID: 235328  Cd Length: 35  Bit Score: 37.36  E-value: 4.63e-06
                         10        20        30
                 ....*....|....*....|....*....|...
gi 1783499245  1 MEVNILAFIATTLFVLVPTAFLLIIYVKTVSQS 33
Cdd:PRK04989   1 MEVNDLGFVASLLFVLVPTVFLIILYIQTNSRE 33
PsbM pfam05151
Photosystem II reaction centre M protein (PsbM); This family consists of several Photosystem ...
 1-31 8.08e-05

Photosystem II reaction centre M protein (PsbM); This family consists of several Photosystem II reaction centre M proteins (PsbM) from plants and cyanobacteria. During the photosynthetic light reactions in the thylakoid membranes of cyanobacteria, algae, and plants, photosystem II (PSII), a multi-subunit membrane protein complex, catalyzes oxidation of water to molecular oxygen and reduction of plastoquinon.


Pssm-ID: 398700  Cd Length: 31  Bit Score: 34.28  E-value: 8.08e-05
                         10        20        30
                 ....*....|....*....|....*....|.
gi 1783499245  1 MEVNILAFIATTLFVLVPTAFLLIIYVKTVS 31
Cdd:pfam05151  1 MEVNILGFIATALFVLVPTAFLIILYVQTAS 31
 
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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