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Conserved domains on  [gi|15242522|ref|NP_198808|]
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pre-mRNA cleavage complex II protein [Arabidopsis thaliana]

Protein Classification

Clp1 superfamily protein( domain architecture ID 1909602)

Clp1 superfamily protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Clp1 super family cl42059
Pre-mRNA cleavage complex II protein Clp1; This family consists of several pre-mRNA cleavage ...
 64-105 2.46e-09

Pre-mRNA cleavage complex II protein Clp1; This family consists of several pre-mRNA cleavage complex II Clp1 (or HeaB) proteins. Six different protein factors are required in vitro for 3' end formation of mammalian pre-mRNAs by endonucleolytic cleavage and polyadenylation. Clp1 is a subunit of cleavage complex IIA, which is required for cleavage, but not for polyadenylation of pre-mRNA.


The actual alignment was detected with superfamily member pfam06807:

Pssm-ID: 477931  Cd Length: 112  Bit Score: 50.19  E-value: 2.46e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 15242522    64 SIVAGIVCIKNVDIGEERFTYVSPSAAELPSKIFILGALTWH 105
Cdd:pfam06807  70 SNVLGFVYVTEVDEEKKKLTILSPSPGRLPSKALILGSIRWL 111
 
Name Accession Description Interval E-value
Clp1 pfam06807
Pre-mRNA cleavage complex II protein Clp1; This family consists of several pre-mRNA cleavage ...
 64-105 2.46e-09

Pre-mRNA cleavage complex II protein Clp1; This family consists of several pre-mRNA cleavage complex II Clp1 (or HeaB) proteins. Six different protein factors are required in vitro for 3' end formation of mammalian pre-mRNAs by endonucleolytic cleavage and polyadenylation. Clp1 is a subunit of cleavage complex IIA, which is required for cleavage, but not for polyadenylation of pre-mRNA.


Pssm-ID: 462012  Cd Length: 112  Bit Score: 50.19  E-value: 2.46e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 15242522    64 SIVAGIVCIKNVDIGEERFTYVSPSAAELPSKIFILGALTWH 105
Cdd:pfam06807  70 SNVLGFVYVTEVDEEKKKLTILSPSPGRLPSKALILGSIRWL 111
 
Name Accession Description Interval E-value
Clp1 pfam06807
Pre-mRNA cleavage complex II protein Clp1; This family consists of several pre-mRNA cleavage ...
 64-105 2.46e-09

Pre-mRNA cleavage complex II protein Clp1; This family consists of several pre-mRNA cleavage complex II Clp1 (or HeaB) proteins. Six different protein factors are required in vitro for 3' end formation of mammalian pre-mRNAs by endonucleolytic cleavage and polyadenylation. Clp1 is a subunit of cleavage complex IIA, which is required for cleavage, but not for polyadenylation of pre-mRNA.


Pssm-ID: 462012  Cd Length: 112  Bit Score: 50.19  E-value: 2.46e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 15242522    64 SIVAGIVCIKNVDIGEERFTYVSPSAAELPSKIFILGALTWH 105
Cdd:pfam06807  70 SNVLGFVYVTEVDEEKKKLTILSPSPGRLPSKALILGSIRWL 111
 
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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