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Conserved domains on  [gi|240255495|ref|NP_190043|]
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retrotransposon ORF-1 protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Transposase_32 super family cl20242
Putative plant transposon protein; This entry represents a likely transposon related protein ...
 7-117 8.75e-07

Putative plant transposon protein; This entry represents a likely transposon related protein from plants. This entry appears related to ORF1 from the ATHILA group of Arabidopsis thaliana retrotransposons pfam03078.


The actual alignment was detected with superfamily member pfam03078:

Pssm-ID: 473308  Cd Length: 456  Bit Score: 47.70  E-value: 8.75e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255495    7 MDEDVYPKLVKEFIATCRLTYANPENPKASK----GKLTFFLNKQHYSKTLFEICDMYGF--TKGEAVEFPK-------- 72
Cdd:pfam03078  95 YPYPAYKEETIEFLSTLELEFYQGSEDDEKEeeglGYITFKVKGVEYSLSIKHLETIFGFpsGKGTSPKFDReelkdlwa 174

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 240255495   73 -------------------SPVVRYVAKLLGSVLYFKPVITVVQEIELPLLFYGVKHLLDAYSD 117
Cdd:pfam03078 175 tigspkplnlarsksnqirSPVIRYFQRSIANVLFSRESTGTVTNSEMEMIDQALKGILRRTKD 238
 
Name Accession Description Interval E-value
ATHILA pfam03078
ATHILA ORF-1 family; ATHILA is a group of Arabidopsis thaliana retrotransposons belonging to ...
 7-117 8.75e-07

ATHILA ORF-1 family; ATHILA is a group of Arabidopsis thaliana retrotransposons belonging to the Ty3/gypsy family of the long terminal repeat (LTR) class of eukaryotic retrotransposons. The central region of ATHILA retrotransposons contains two or three open reading frames (ORFs). This family represents the ORF1 product. The function of ORF1 is unknown.


Pssm-ID: 251715  Cd Length: 456  Bit Score: 47.70  E-value: 8.75e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255495    7 MDEDVYPKLVKEFIATCRLTYANPENPKASK----GKLTFFLNKQHYSKTLFEICDMYGF--TKGEAVEFPK-------- 72
Cdd:pfam03078  95 YPYPAYKEETIEFLSTLELEFYQGSEDDEKEeeglGYITFKVKGVEYSLSIKHLETIFGFpsGKGTSPKFDReelkdlwa 174

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 240255495   73 -------------------SPVVRYVAKLLGSVLYFKPVITVVQEIELPLLFYGVKHLLDAYSD 117
Cdd:pfam03078 175 tigspkplnlarsksnqirSPVIRYFQRSIANVLFSRESTGTVTNSEMEMIDQALKGILRRTKD 238
 
Name Accession Description Interval E-value
ATHILA pfam03078
ATHILA ORF-1 family; ATHILA is a group of Arabidopsis thaliana retrotransposons belonging to ...
 7-117 8.75e-07

ATHILA ORF-1 family; ATHILA is a group of Arabidopsis thaliana retrotransposons belonging to the Ty3/gypsy family of the long terminal repeat (LTR) class of eukaryotic retrotransposons. The central region of ATHILA retrotransposons contains two or three open reading frames (ORFs). This family represents the ORF1 product. The function of ORF1 is unknown.


Pssm-ID: 251715  Cd Length: 456  Bit Score: 47.70  E-value: 8.75e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 240255495    7 MDEDVYPKLVKEFIATCRLTYANPENPKASK----GKLTFFLNKQHYSKTLFEICDMYGF--TKGEAVEFPK-------- 72
Cdd:pfam03078  95 YPYPAYKEETIEFLSTLELEFYQGSEDDEKEeeglGYITFKVKGVEYSLSIKHLETIFGFpsGKGTSPKFDReelkdlwa 174

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 240255495   73 -------------------SPVVRYVAKLLGSVLYFKPVITVVQEIELPLLFYGVKHLLDAYSD 117
Cdd:pfam03078 175 tigspkplnlarsksnqirSPVIRYFQRSIANVLFSRESTGTVTNSEMEMIDQALKGILRRTKD 238
 
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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