NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1007892862|ref|NP_001308206|]
View 

tRNA-splicing endonuclease subunit Sen2 isoform 1 [Homo sapiens]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 339-430 2.66e-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: 107.19  E-value: 2.66e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1007892862 339 FRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGPPFYHASYSVIIELVDDhfegslrrPLSWKSLAALSRVSVNVSKEL 418
Cdd:cd22363     2 FLLKYLVYKDLRSRGYVVKSGFKFGADFLVYPRGPGLYHAKYLVHVVPEDE--------ELSWLELVRAGRLAHSVKKTL 73

                          90
                  ....*....|..
gi 1007892862 419 MLCYLIKPSTMT 430
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' ...
 283-329 4.50e-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: 49.90  E-value: 4.50e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1007892862 283 RLICRRNPY---RIFEYLQLSLEEAFFLVYAlGCLSIYYEKEPLTIVKLW 329
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 ...
 339-430 2.66e-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: 107.19  E-value: 2.66e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1007892862 339 FRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGPPFYHASYSVIIELVDDhfegslrrPLSWKSLAALSRVSVNVSKEL 418
Cdd:cd22363     2 FLLKYLVYKDLRSRGYVVKSGFKFGADFLVYPRGPGLYHAKYLVHVVPEDE--------ELSWLELVRAGRLAHSVKKTL 73

                          90
                  ....*....|..
gi 1007892862 419 MLCYLIKPSTMT 430
Cdd:cd22363    74 VLAVVDEEGEVT 85
tRNA_int_endo pfam01974
tRNA intron endonuclease, catalytic C-terminal domain; Members of this family cleave pre tRNA ...
 339-422 1.11e-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: 74.60  E-value: 1.11e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1007892862 339 FRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGPPFYHASYSVIIelVDDhfegslRRPLSWKSLAALSRVSVNVSKEL 418
Cdd:pfam01974   1 FWLKYLVYRDLRERGYVVKPGIKFGADFRVYGGGPGKGHSEYLVRV--LSE------DDPISLLDLLRAVRLAHSVRKEL 72


                  ....
gi 1007892862 419 MLCY 422
Cdd:pfam01974  73 VLAI 76
SEN2 COG1676
tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; ...
 297-421 2.10e-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: 73.70  E-value: 2.10e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1007892862 297 LQLSLEEAFFLVYAlGCLSIYYEKEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGP-PF 375
Cdd:COG1676    39 LQLSLIEALYLLEK-GKLEVYDDGKELSFEELLEIARKVDPEFDRKYLVYRDLRDRGYVVKTGFKFGSDFRVYERGPgIE 117

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1007892862 376 YHASYSVIIeLVDDHfegslrrPLSWKSLAALSRVSVNVSKELMLC 421
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 ...
 295-423 1.09e-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: 71.73  E-value: 1.09e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1007892862 295 EYLQLSLEEAFFLVyALGCLS-IYYEKEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGP 373
Cdd:TIGR00324  34 DSLNLSLIESLYLI-DLGKLRlIRSDSEPLSREELSDLARKVERGFMRKYLVYKDLRDRGYVVKTGFKFGADFRLYERGP 112

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1007892862 374 --PFYHASYSVIIelvDDHfegslRRPLSWKSLAALSRVSVNVSKELMLCYL 423
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' ...
 283-329 4.50e-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: 49.90  E-value: 4.50e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1007892862 283 RLICRRNPY---RIFEYLQLSLEEAFFLVYAlGCLSIYYEKEPLTIVKLW 329
Cdd:pfam02778  19 RRLYERGYYgkpLDDERLQLSLVEALYLLER-GKIEVVKGGKLLSFEELL 67
PRK09300 PRK09300
tRNA splicing endonuclease; Reviewed
 295-371 1.87e-06

tRNA splicing endonuclease; Reviewed


Pssm-ID: 236460 [Multi-domain]  Cd Length: 330  Bit Score: 49.59  E-value: 1.87e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1007892862 295 EYLQLSLEEAFFLVyALGCLSIyyekEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRK 371
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 ...
 339-430 2.66e-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: 107.19  E-value: 2.66e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1007892862 339 FRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGPPFYHASYSVIIELVDDhfegslrrPLSWKSLAALSRVSVNVSKEL 418
Cdd:cd22363     2 FLLKYLVYKDLRSRGYVVKSGFKFGADFLVYPRGPGLYHAKYLVHVVPEDE--------ELSWLELVRAGRLAHSVKKTL 73

                          90
                  ....*....|..
gi 1007892862 419 MLCYLIKPSTMT 430
Cdd:cd22363    74 VLAVVDEEGEVT 85
tRNA_int_endo pfam01974
tRNA intron endonuclease, catalytic C-terminal domain; Members of this family cleave pre tRNA ...
 339-422 1.11e-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: 74.60  E-value: 1.11e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1007892862 339 FRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGPPFYHASYSVIIelVDDhfegslRRPLSWKSLAALSRVSVNVSKEL 418
Cdd:pfam01974   1 FWLKYLVYRDLRERGYVVKPGIKFGADFRVYGGGPGKGHSEYLVRV--LSE------DDPISLLDLLRAVRLAHSVRKEL 72


                  ....
gi 1007892862 419 MLCY 422
Cdd:pfam01974  73 VLAI 76
SEN2 COG1676
tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; ...
 297-421 2.10e-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: 73.70  E-value: 2.10e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1007892862 297 LQLSLEEAFFLVYAlGCLSIYYEKEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGP-PF 375
Cdd:COG1676    39 LQLSLIEALYLLEK-GKLEVYDDGKELSFEELLEIARKVDPEFDRKYLVYRDLRDRGYVVKTGFKFGSDFRVYERGPgIE 117

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1007892862 376 YHASYSVIIeLVDDHfegslrrPLSWKSLAALSRVSVNVSKELMLC 421
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 ...
 295-423 1.09e-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: 71.73  E-value: 1.09e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1007892862 295 EYLQLSLEEAFFLVyALGCLS-IYYEKEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRKGP 373
Cdd:TIGR00324  34 DSLNLSLIESLYLI-DLGKLRlIRSDSEPLSREELSDLARKVERGFMRKYLVYKDLRDRGYVVKTGFKFGADFRLYERGP 112

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1007892862 374 --PFYHASYSVIIelvDDHfegslRRPLSWKSLAALSRVSVNVSKELMLCYL 423
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' ...
 283-329 4.50e-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: 49.90  E-value: 4.50e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1007892862 283 RLICRRNPY---RIFEYLQLSLEEAFFLVYAlGCLSIYYEKEPLTIVKLW 329
Cdd:pfam02778  19 RRLYERGYYgkpLDDERLQLSLVEALYLLER-GKIEVVKGGKLLSFEELL 67
PRK09300 PRK09300
tRNA splicing endonuclease; Reviewed
 295-371 1.87e-06

tRNA splicing endonuclease; Reviewed


Pssm-ID: 236460 [Multi-domain]  Cd Length: 330  Bit Score: 49.59  E-value: 1.87e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1007892862 295 EYLQLSLEEAFFLVyALGCLSIyyekEPLTIVKLWKAFTVVQPTFRTTYMAYHYFRSKGWVPKVGLKYGTDLLLYRK 371
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH