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Conserved domains on  [gi|961991446|ref|XP_014873847|]
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PREDICTED: tRNA-splicing endonuclease subunit Sen2 [Poecilia latipinna]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
tRNA-intron_lyase_C cd22363
catalytic C-terminal domain of the tRNA-intron lyase; This C-terminal catalytic domain of tRNA ...
 261-356 8.27e-26

catalytic C-terminal domain of the tRNA-intron lyase; This C-terminal catalytic domain of tRNA intron endonucleases cleaves pre tRNA at the 5' and 3' splice sites to release the intron (EC:3.1.27.9). It belongs to a superfamily of nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.


:

Pssm-ID: 411767  Cd Length: 91  Bit Score: 99.48  E-value: 8.27e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961991446 261 DFVSSYAAYHHFRSRGWVPKGGGgaKYGVDLMLYRKGPPFYHASYSVVVERTGEslggaalrPFSWRSLAALSRITASVS 340
Cdd:cd22363    1 DFLLKYLVYKDLRSRGYVVKSGF--KFGADFLVYPRGPGLYHAKYLVHVVPEDE--------ELSWLELVRAGRLAHSVK 70

                         90
                 ....*....|....*.
gi 961991446 341 KELMLCYIIYPTDLSE 356
Cdd:cd22363   71 KTLVLAVVDEEGEVTY 86
tRNA_int_endo_N super family cl46877
tRNA intron endonuclease, N-terminal domain; Members of this family cleave pre tRNA at the 5' ...
 218-252 1.03e-05

tRNA intron endonuclease, N-terminal domain; Members of this family cleave pre tRNA at the 5' and 3' splice sites to release the intron EC:3.1.27.9.


The actual alignment was detected with superfamily member pfam02778:

Pssm-ID: 397071  Cd Length: 67  Bit Score: 42.97  E-value: 1.03e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 961991446  218 EYLQLSLEEAFFLVYsLGVLSVYQQQEPLSVVELW 252
Cdd:pfam02778  34 ERLQLSLVEALYLLE-RGKIEVVKGGKLLSFEELL 67
 
Name Accession Description Interval E-value
tRNA-intron_lyase_C cd22363
catalytic C-terminal domain of the tRNA-intron lyase; This C-terminal catalytic domain of tRNA ...
 261-356 8.27e-26

catalytic C-terminal domain of the tRNA-intron lyase; This C-terminal catalytic domain of tRNA intron endonucleases cleaves pre tRNA at the 5' and 3' splice sites to release the intron (EC:3.1.27.9). It belongs to a superfamily of nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.


Pssm-ID: 411767  Cd Length: 91  Bit Score: 99.48  E-value: 8.27e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961991446 261 DFVSSYAAYHHFRSRGWVPKGGGgaKYGVDLMLYRKGPPFYHASYSVVVERTGEslggaalrPFSWRSLAALSRITASVS 340
Cdd:cd22363    1 DFLLKYLVYKDLRSRGYVVKSGF--KFGADFLVYPRGPGLYHAKYLVHVVPEDE--------ELSWLELVRAGRLAHSVK 70

                         90
                 ....*....|....*.
gi 961991446 341 KELMLCYIIYPTDLSE 356
Cdd:cd22363   71 KTLVLAVVDEEGEVTY 86
tRNA_int_endo pfam01974
tRNA intron endonuclease, catalytic C-terminal domain; Members of this family cleave pre tRNA ...
 262-348 2.83e-15

tRNA intron endonuclease, catalytic C-terminal domain; Members of this family cleave pre tRNA at the 5' and 3' splice sites to release the intron EC:3.1.27.9.


Pssm-ID: 396521  Cd Length: 85  Bit Score: 70.36  E-value: 2.83e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961991446  262 FVSSYAAYHHFRSRGWVPKGGGgaKYGVDLMLYRKGPPFYHASYSVVVERTGEslggaalrPFSWRSLAALSRITASVSK 341
Cdd:pfam01974   1 FWLKYLVYRDLRERGYVVKPGI--KFGADFRVYGGGPGKGHSEYLVRVLSEDD--------PISLLDLLRAVRLAHSVRK 70


                  ....*..
gi 961991446  342 ELMLCYI 348
Cdd:pfam01974  71 ELVLAIV 77
endA TIGR00324
tRNA-intron lyase; The enzyme catalyses the endonucleolytic cleavage of pre tRNA at the 5' and ...
 218-348 9.28e-14

tRNA-intron lyase; The enzyme catalyses the endonucleolytic cleavage of pre tRNA at the 5' and 3' splice sites to release the intron and produces two half tRNA molecules bearing 5' hydroxyl and 2', 3'-cyclic phosphate termini. The genes are homologous in Eucarya and Archea. The two yeast genes have been functionally studied and are two subunits of a heterotetramer enzyme in yeast the other two subunits of which have no known homologs. [Transcription, RNA processing]


Pssm-ID: 129424  Cd Length: 170  Bit Score: 68.65  E-value: 9.28e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961991446  218 EYLQLSLEEAFFLVySLGVLSV-YQQQEPLSVVELWRTFRLLRPDFVSSYAAYHHFRSRGWVPKGGGgaKYGVDLMLYRK 296
Cdd:TIGR00324  34 DSLNLSLIESLYLI-DLGKLRLiRSDSEPLSREELSDLARKVERGFMRKYLVYKDLRDRGYVVKTGF--KFGADFRLYER 110

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 961991446  297 GP--PFYHASYSVVVERTGEslggaalrPFSWRSLAALSRITASVSKELMLCYI 348
Cdd:TIGR00324 111 GPlrDHSHSEYLVAIDDHDE--------SIDLIDLSSGVRVAHGVKKKLVIAYV 156
SEN2 COG1676
tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; ...
 220-348 9.91e-14

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: 68.70  E-value: 9.91e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961991446 220 LQLSLEEAFFLVYSlGVLSVYQQQEPLSVVELWRTFRLLRPDFVSSYAAYHHFRSRGWVPKggGGAKYGVDLMLYRKGP- 298
Cdd:COG1676   39 LQLSLIEALYLLEK-GKLEVYDDGKELSFEELLEIARKVDPEFDRKYLVYRDLRDRGYVVK--TGFKFGSDFRVYERGPg 115

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 961991446 299 PFYHASYSVVVERTGEslggaalrPFSWRSLAALSRITASVSKELMLCYI 348
Cdd:COG1676  116 IEDHSPYLVHVVPEGT--------EFSPRELSRAVRLAHSVRKRMVFAVV 157
tRNA_int_endo_N pfam02778
tRNA intron endonuclease, N-terminal domain; Members of this family cleave pre tRNA at the 5' ...
 218-252 1.03e-05

tRNA intron endonuclease, N-terminal domain; Members of this family cleave pre tRNA at the 5' and 3' splice sites to release the intron EC:3.1.27.9.


Pssm-ID: 397071  Cd Length: 67  Bit Score: 42.97  E-value: 1.03e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 961991446  218 EYLQLSLEEAFFLVYsLGVLSVYQQQEPLSVVELW 252
Cdd:pfam02778  34 ERLQLSLVEALYLLE-RGKIEVVKGGKLLSFEELL 67
PRK09300 PRK09300
tRNA splicing endonuclease; Reviewed
 218-370 5.62e-05

tRNA splicing endonuclease; Reviewed


Pssm-ID: 236460 [Multi-domain]  Cd Length: 330  Bit Score: 44.58  E-value: 5.62e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961991446 218 EYLQLSLEEAFFLVySLGVLSVyqqqEPLSVVELWRTFRLLRPDFVSSYAAYHHFRSRGWVPKggGGAKYGVDLMLYR-- 295
Cdd:PRK09300 197 RRLQLSLVEAAYLL-ERGVLSV----EILDADEFVERAREVEGEFDRKLAVYRDLRERGFVPK--TGFKFGSDFRVYEgv 269

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 961991446 296 ----KGPpfyHASYSVVVERTGESlggaalrpFSWRSLAALSRITASVSKElMLCYIIYPTDLSEddldspVCLSRLKV 370
Cdd:PRK09300 270 esveKLP---HSEYLVRVIPDDHE--------FSPRDLSRAVRLAHSVRKK-MVFALIDDGGIRY------LSIERLKP 330
 
Name Accession Description Interval E-value
tRNA-intron_lyase_C cd22363
catalytic C-terminal domain of the tRNA-intron lyase; This C-terminal catalytic domain of tRNA ...
 261-356 8.27e-26

catalytic C-terminal domain of the tRNA-intron lyase; This C-terminal catalytic domain of tRNA intron endonucleases cleaves pre tRNA at the 5' and 3' splice sites to release the intron (EC:3.1.27.9). It belongs to a superfamily of nucleases including very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.


Pssm-ID: 411767  Cd Length: 91  Bit Score: 99.48  E-value: 8.27e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961991446 261 DFVSSYAAYHHFRSRGWVPKGGGgaKYGVDLMLYRKGPPFYHASYSVVVERTGEslggaalrPFSWRSLAALSRITASVS 340
Cdd:cd22363    1 DFLLKYLVYKDLRSRGYVVKSGF--KFGADFLVYPRGPGLYHAKYLVHVVPEDE--------ELSWLELVRAGRLAHSVK 70

                         90
                 ....*....|....*.
gi 961991446 341 KELMLCYIIYPTDLSE 356
Cdd:cd22363   71 KTLVLAVVDEEGEVTY 86
tRNA_int_endo pfam01974
tRNA intron endonuclease, catalytic C-terminal domain; Members of this family cleave pre tRNA ...
 262-348 2.83e-15

tRNA intron endonuclease, catalytic C-terminal domain; Members of this family cleave pre tRNA at the 5' and 3' splice sites to release the intron EC:3.1.27.9.


Pssm-ID: 396521  Cd Length: 85  Bit Score: 70.36  E-value: 2.83e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961991446  262 FVSSYAAYHHFRSRGWVPKGGGgaKYGVDLMLYRKGPPFYHASYSVVVERTGEslggaalrPFSWRSLAALSRITASVSK 341
Cdd:pfam01974   1 FWLKYLVYRDLRERGYVVKPGI--KFGADFRVYGGGPGKGHSEYLVRVLSEDD--------PISLLDLLRAVRLAHSVRK 70


                  ....*..
gi 961991446  342 ELMLCYI 348
Cdd:pfam01974  71 ELVLAIV 77
endA TIGR00324
tRNA-intron lyase; The enzyme catalyses the endonucleolytic cleavage of pre tRNA at the 5' and ...
 218-348 9.28e-14

tRNA-intron lyase; The enzyme catalyses the endonucleolytic cleavage of pre tRNA at the 5' and 3' splice sites to release the intron and produces two half tRNA molecules bearing 5' hydroxyl and 2', 3'-cyclic phosphate termini. The genes are homologous in Eucarya and Archea. The two yeast genes have been functionally studied and are two subunits of a heterotetramer enzyme in yeast the other two subunits of which have no known homologs. [Transcription, RNA processing]


Pssm-ID: 129424  Cd Length: 170  Bit Score: 68.65  E-value: 9.28e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961991446  218 EYLQLSLEEAFFLVySLGVLSV-YQQQEPLSVVELWRTFRLLRPDFVSSYAAYHHFRSRGWVPKGGGgaKYGVDLMLYRK 296
Cdd:TIGR00324  34 DSLNLSLIESLYLI-DLGKLRLiRSDSEPLSREELSDLARKVERGFMRKYLVYKDLRDRGYVVKTGF--KFGADFRLYER 110

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 961991446  297 GP--PFYHASYSVVVERTGEslggaalrPFSWRSLAALSRITASVSKELMLCYI 348
Cdd:TIGR00324 111 GPlrDHSHSEYLVAIDDHDE--------SIDLIDLSSGVRVAHGVKKKLVIAYV 156
SEN2 COG1676
tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; ...
 220-348 9.91e-14

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: 68.70  E-value: 9.91e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961991446 220 LQLSLEEAFFLVYSlGVLSVYQQQEPLSVVELWRTFRLLRPDFVSSYAAYHHFRSRGWVPKggGGAKYGVDLMLYRKGP- 298
Cdd:COG1676   39 LQLSLIEALYLLEK-GKLEVYDDGKELSFEELLEIARKVDPEFDRKYLVYRDLRDRGYVVK--TGFKFGSDFRVYERGPg 115

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 961991446 299 PFYHASYSVVVERTGEslggaalrPFSWRSLAALSRITASVSKELMLCYI 348
Cdd:COG1676  116 IEDHSPYLVHVVPEGT--------EFSPRELSRAVRLAHSVRKRMVFAVV 157
tRNA_int_endo_N pfam02778
tRNA intron endonuclease, N-terminal domain; Members of this family cleave pre tRNA at the 5' ...
 218-252 1.03e-05

tRNA intron endonuclease, N-terminal domain; Members of this family cleave pre tRNA at the 5' and 3' splice sites to release the intron EC:3.1.27.9.


Pssm-ID: 397071  Cd Length: 67  Bit Score: 42.97  E-value: 1.03e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 961991446  218 EYLQLSLEEAFFLVYsLGVLSVYQQQEPLSVVELW 252
Cdd:pfam02778  34 ERLQLSLVEALYLLE-RGKIEVVKGGKLLSFEELL 67
PRK09300 PRK09300
tRNA splicing endonuclease; Reviewed
 218-370 5.62e-05

tRNA splicing endonuclease; Reviewed


Pssm-ID: 236460 [Multi-domain]  Cd Length: 330  Bit Score: 44.58  E-value: 5.62e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 961991446 218 EYLQLSLEEAFFLVySLGVLSVyqqqEPLSVVELWRTFRLLRPDFVSSYAAYHHFRSRGWVPKggGGAKYGVDLMLYR-- 295
Cdd:PRK09300 197 RRLQLSLVEAAYLL-ERGVLSV----EILDADEFVERAREVEGEFDRKLAVYRDLRERGFVPK--TGFKFGSDFRVYEgv 269

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 961991446 296 ----KGPpfyHASYSVVVERTGESlggaalrpFSWRSLAALSRITASVSKElMLCYIIYPTDLSEddldspVCLSRLKV 370
Cdd:PRK09300 270 esveKLP---HSEYLVRVIPDDHE--------FSPRDLSRAVRLAHSVRKK-MVFALIDDGGIRY------LSIERLKP 330
 
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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