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Conserved domains on  [gi|1002259518|ref|XP_015634085|]
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protein THYLAKOID ASSEMBLY 8, chloroplastic [Oryza sativa Japonica Group]

Protein Classification

pentatricopeptide repeat-containing protein( domain architecture ID 1002420)

pentatricopeptide repeat (PPR)-containing protein may form anti-parallel alpha helices and bind single-stranded RNA in a sequence-specific and modular manner; similar to Arabidopsis pentatricopeptide repeat proteins that play constitutive, often essential roles in mitochondria and chloroplasts, probably via binding to organellar transcripts

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PPR_2 super family cl38385
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 153-200 7.90e-06

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


The actual alignment was detected with superfamily member pfam13041:

Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 41.97  E-value: 7.90e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1002259518 153 PDTEGFNVLLKALLDAEFTQLTMDCFRLMKLWDSDPDRITYRTLIKGL 200
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
 
Name Accession Description Interval E-value
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 153-200 7.90e-06

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 41.97  E-value: 7.90e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1002259518 153 PDTEGFNVLLKALLDAEFTQLTMDCFRLMKLWDSDPDRITYRTLIKGL 200
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 48
 
Name Accession Description Interval E-value
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 153-200 7.90e-06

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 41.97  E-value: 7.90e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1002259518 153 PDTEGFNVLLKALLDAEFTQLTMDCFRLMKLWDSDPDRITYRTLIKGL 200
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGL 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.
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