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Conserved domains on  [gi|564375247|ref|XP_006247799|]
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tRNA-splicing endonuclease subunit Sen54 isoform X2 [Rattus norvegicus]

Protein Classification

tRNA-splicing endonuclease subunit SEN54 family protein( domain architecture ID 10584195)

tRNA-splicing endonuclease subunit SEN54 family protein is a non-catalytic subunit of the tRNA-splicing endonuclease complex, which is responsible for identification and cleavage of the splice sites in pre-tRNA

Gene Ontology:  GO:0000379|GO:0000214
PubMed:  25071838|16710424

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
tRNA_int_end_N2 pfam12928
tRNA-splicing endonuclease subunit sen54 N-term; This is an N-terminal family of archaeal and ...
 63-130 2.17e-23

tRNA-splicing endonuclease subunit sen54 N-term; This is an N-terminal family of archaeal and metazoan sen54 proteins that forms one of the tRNA-splicing endonuclease subunits.


:

Pssm-ID: 463754  Cd Length: 69  Bit Score: 93.77  E-value: 2.17e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 564375247   63 WQLLAEERVERLGSLVAAEWRPEEGFVELTSPAGKFWQTMGY-SEEGRQRLHPEEALYLLECGSIQLFY 130
Cdd:pfam12928   1 FDALSYERGHRLKSLVKAVWFPELRVALVPHPKGKFFKTMGRdDKKGRLWLLPEEALYLVERGSLDLYW 69
tRNA_int_end_N2 super family cl46333
tRNA-splicing endonuclease subunit sen54 N-term; This is an N-terminal family of archaeal and ...
 116-169 5.98e-05

tRNA-splicing endonuclease subunit sen54 N-term; This is an N-terminal family of archaeal and metazoan sen54 proteins that forms one of the tRNA-splicing endonuclease subunits.


The actual alignment was detected with superfamily member COG1676:

Pssm-ID: 480673  Cd Length: 173  Bit Score: 44.04  E-value: 5.98e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 564375247 116 EALYLLECGSIQLFYQDLPLSIQEAYQLLLTEDTLSFLQYQVFSHLKRLGYVVR 169
Cdd:COG1676   45 EALYLLEKGKLEVYDDGKELSFEELLEIARKVDPEFDRKYLVYRDLRDRGYVVK 98
 
Name Accession Description Interval E-value
tRNA_int_end_N2 pfam12928
tRNA-splicing endonuclease subunit sen54 N-term; This is an N-terminal family of archaeal and ...
 63-130 2.17e-23

tRNA-splicing endonuclease subunit sen54 N-term; This is an N-terminal family of archaeal and metazoan sen54 proteins that forms one of the tRNA-splicing endonuclease subunits.


Pssm-ID: 463754  Cd Length: 69  Bit Score: 93.77  E-value: 2.17e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 564375247   63 WQLLAEERVERLGSLVAAEWRPEEGFVELTSPAGKFWQTMGY-SEEGRQRLHPEEALYLLECGSIQLFY 130
Cdd:pfam12928   1 FDALSYERGHRLKSLVKAVWFPELRVALVPHPKGKFFKTMGRdDKKGRLWLLPEEALYLVERGSLDLYW 69
SEN2 COG1676
tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; ...
 116-169 5.98e-05

tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; tRNA splicing endonuclease subunit SEN34 is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 441282  Cd Length: 173  Bit Score: 44.04  E-value: 5.98e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 564375247 116 EALYLLECGSIQLFYQDLPLSIQEAYQLLLTEDTLSFLQYQVFSHLKRLGYVVR 169
Cdd:COG1676   45 EALYLLEKGKLEVYDDGKELSFEELLEIARKVDPEFDRKYLVYRDLRDRGYVVK 98
 
Name Accession Description Interval E-value
tRNA_int_end_N2 pfam12928
tRNA-splicing endonuclease subunit sen54 N-term; This is an N-terminal family of archaeal and ...
 63-130 2.17e-23

tRNA-splicing endonuclease subunit sen54 N-term; This is an N-terminal family of archaeal and metazoan sen54 proteins that forms one of the tRNA-splicing endonuclease subunits.


Pssm-ID: 463754  Cd Length: 69  Bit Score: 93.77  E-value: 2.17e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 564375247   63 WQLLAEERVERLGSLVAAEWRPEEGFVELTSPAGKFWQTMGY-SEEGRQRLHPEEALYLLECGSIQLFY 130
Cdd:pfam12928   1 FDALSYERGHRLKSLVKAVWFPELRVALVPHPKGKFFKTMGRdDKKGRLWLLPEEALYLVERGSLDLYW 69
SEN2 COG1676
tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; ...
 116-169 5.98e-05

tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; tRNA splicing endonuclease subunit SEN34 is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 441282  Cd Length: 173  Bit Score: 44.04  E-value: 5.98e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 564375247 116 EALYLLECGSIQLFYQDLPLSIQEAYQLLLTEDTLSFLQYQVFSHLKRLGYVVR 169
Cdd:COG1676   45 EALYLLEKGKLEVYDDGKELSFEELLEIARKVDPEFDRKYLVYRDLRDRGYVVK 98
 
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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