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Conserved domains on  [gi|223972636|ref|NP_001138866|]
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tRNA-splicing endonuclease subunit Sen2 isoform 3 [Homo sapiens]

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 ...
 280-371 6.67e-28

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: 105.26  E-value: 6.67e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223972636 280 FRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGPPFYHASYSVIIELVDDhfegslrrPLSWKSLAALSRVSVNVSKEL 359
Cdd:cd22363    2 FLLKYLVYKDLRSRGYVVKSGFKFGADFLVYPRGPGLYHAKYLVHVVPEDE--------ELSWLELVRAGRLAHSVKKTL 73

                         90
                 ....*....|..
gi 223972636 360 MLCYLIKPSTMT 371
Cdd:cd22363   74 VLAVVDEEGEVT 85
tRNA_int_endo_N pfam02778
tRNA intron endonuclease, N-terminal domain; Members of this family cleave pre tRNA at the 5' ...
 224-270 6.36e-08

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: 49.13  E-value: 6.36e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 223972636  224 RLICRRNPY---RIFEYLQLSLEEAFFLVYAlGCLSIYYEKEPLTIVKLW 270
Cdd:pfam02778  19 RRLYERGYYgkpLDDERLQLSLVEALYLLER-GKIEVVKGGKLLSFEELL 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 ...
 280-371 6.67e-28

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: 105.26  E-value: 6.67e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223972636 280 FRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGPPFYHASYSVIIELVDDhfegslrrPLSWKSLAALSRVSVNVSKEL 359
Cdd:cd22363    2 FLLKYLVYKDLRSRGYVVKSGFKFGADFLVYPRGPGLYHAKYLVHVVPEDE--------ELSWLELVRAGRLAHSVKKTL 73

                         90
                 ....*....|..
gi 223972636 360 MLCYLIKPSTMT 371
Cdd:cd22363   74 VLAVVDEEGEVT 85
tRNA_int_endo pfam01974
tRNA intron endonuclease, catalytic C-terminal domain; Members of this family cleave pre tRNA ...
 280-363 3.15e-16

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: 73.06  E-value: 3.15e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223972636  280 FRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGPPFYHASYSVIIelVDDhfegslRRPLSWKSLAALSRVSVNVSKEL 359
Cdd:pfam01974   1 FWLKYLVYRDLRERGYVVKPGIKFGADFRVYGGGPGKGHSEYLVRV--LSE------DDPISLLDLLRAVRLAHSVRKEL 72


                  ....
gi 223972636  360 MLCY 363
Cdd:pfam01974  73 VLAI 76
SEN2 COG1676
tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; ...
 238-362 4.39e-15

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: 72.55  E-value: 4.39e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223972636 238 LQLSLEEAFFLVYAlGCLSIYYEKEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGP-PF 316
Cdd:COG1676   39 LQLSLIEALYLLEK-GKLEVYDDGKELSFEELLEIARKVDPEFDRKYLVYRDLRDRGYVVKTGFKFGSDFRVYERGPgIE 117

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 223972636 317 YHASYSVIIeLVDDHfegslrrPLSWKSLAALSRVSVNVSKELMLC 362
Cdd:COG1676  118 DHSPYLVHV-VPEGT-------EFSPRELSRAVRLAHSVRKRMVFA 155
endA TIGR00324
tRNA-intron lyase; The enzyme catalyses the endonucleolytic cleavage of pre tRNA at the 5' and ...
 236-364 2.92e-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: 70.19  E-value: 2.92e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223972636  236 EYLQLSLEEAFFLVyALGCLS-IYYEKEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGP 314
Cdd:TIGR00324  34 DSLNLSLIESLYLI-DLGKLRlIRSDSEPLSREELSDLARKVERGFMRKYLVYKDLRDRGYVVKTGFKFGADFRLYERGP 112

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 223972636  315 --PFYHASYSVIIelvDDHfegslRRPLSWKSLAALSRVSVNVSKELMLCYL 364
Cdd:TIGR00324 113 lrDHSHSEYLVAI---DDH-----DESIDLIDLSSGVRVAHGVKKKLVIAYV 156
tRNA_int_endo_N pfam02778
tRNA intron endonuclease, N-terminal domain; Members of this family cleave pre tRNA at the 5' ...
 224-270 6.36e-08

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: 49.13  E-value: 6.36e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 223972636  224 RLICRRNPY---RIFEYLQLSLEEAFFLVYAlGCLSIYYEKEPLTIVKLW 270
Cdd:pfam02778  19 RRLYERGYYgkpLDDERLQLSLVEALYLLER-GKIEVVKGGKLLSFEELL 67
PRK09300 PRK09300
tRNA splicing endonuclease; Reviewed
 236-312 2.47e-06

tRNA splicing endonuclease; Reviewed


Pssm-ID: 236460 [Multi-domain]  Cd Length: 330  Bit Score: 48.81  E-value: 2.47e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 223972636 236 EYLQLSLEEAFFLVyALGCLSIyyekEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRK 312
Cdd:PRK09300 197 RRLQLSLVEAAYLL-ERGVLSV----EILDADEFVERAREVEGEFDRKLAVYRDLRERGFVPKTGFKFGSDFRVYEG 268
 
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 ...
 280-371 6.67e-28

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: 105.26  E-value: 6.67e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223972636 280 FRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGPPFYHASYSVIIELVDDhfegslrrPLSWKSLAALSRVSVNVSKEL 359
Cdd:cd22363    2 FLLKYLVYKDLRSRGYVVKSGFKFGADFLVYPRGPGLYHAKYLVHVVPEDE--------ELSWLELVRAGRLAHSVKKTL 73

                         90
                 ....*....|..
gi 223972636 360 MLCYLIKPSTMT 371
Cdd:cd22363   74 VLAVVDEEGEVT 85
tRNA_int_endo pfam01974
tRNA intron endonuclease, catalytic C-terminal domain; Members of this family cleave pre tRNA ...
 280-363 3.15e-16

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: 73.06  E-value: 3.15e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223972636  280 FRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGPPFYHASYSVIIelVDDhfegslRRPLSWKSLAALSRVSVNVSKEL 359
Cdd:pfam01974   1 FWLKYLVYRDLRERGYVVKPGIKFGADFRVYGGGPGKGHSEYLVRV--LSE------DDPISLLDLLRAVRLAHSVRKEL 72


                  ....
gi 223972636  360 MLCY 363
Cdd:pfam01974  73 VLAI 76
SEN2 COG1676
tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; ...
 238-362 4.39e-15

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: 72.55  E-value: 4.39e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223972636 238 LQLSLEEAFFLVYAlGCLSIYYEKEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGP-PF 316
Cdd:COG1676   39 LQLSLIEALYLLEK-GKLEVYDDGKELSFEELLEIARKVDPEFDRKYLVYRDLRDRGYVVKTGFKFGSDFRVYERGPgIE 117

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 223972636 317 YHASYSVIIeLVDDHfegslrrPLSWKSLAALSRVSVNVSKELMLC 362
Cdd:COG1676  118 DHSPYLVHV-VPEGT-------EFSPRELSRAVRLAHSVRKRMVFA 155
endA TIGR00324
tRNA-intron lyase; The enzyme catalyses the endonucleolytic cleavage of pre tRNA at the 5' and ...
 236-364 2.92e-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: 70.19  E-value: 2.92e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 223972636  236 EYLQLSLEEAFFLVyALGCLS-IYYEKEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGP 314
Cdd:TIGR00324  34 DSLNLSLIESLYLI-DLGKLRlIRSDSEPLSREELSDLARKVERGFMRKYLVYKDLRDRGYVVKTGFKFGADFRLYERGP 112

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 223972636  315 --PFYHASYSVIIelvDDHfegslRRPLSWKSLAALSRVSVNVSKELMLCYL 364
Cdd:TIGR00324 113 lrDHSHSEYLVAI---DDH-----DESIDLIDLSSGVRVAHGVKKKLVIAYV 156
tRNA_int_endo_N pfam02778
tRNA intron endonuclease, N-terminal domain; Members of this family cleave pre tRNA at the 5' ...
 224-270 6.36e-08

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: 49.13  E-value: 6.36e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 223972636  224 RLICRRNPY---RIFEYLQLSLEEAFFLVYAlGCLSIYYEKEPLTIVKLW 270
Cdd:pfam02778  19 RRLYERGYYgkpLDDERLQLSLVEALYLLER-GKIEVVKGGKLLSFEELL 67
PRK09300 PRK09300
tRNA splicing endonuclease; Reviewed
 236-312 2.47e-06

tRNA splicing endonuclease; Reviewed


Pssm-ID: 236460 [Multi-domain]  Cd Length: 330  Bit Score: 48.81  E-value: 2.47e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 223972636 236 EYLQLSLEEAFFLVyALGCLSIyyekEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRK 312
Cdd:PRK09300 197 RRLQLSLVEAAYLL-ERGVLSV----EILDADEFVERAREVEGEFDRKLAVYRDLRERGFVPKTGFKFGSDFRVYEG 268
 
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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