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Conserved domains on  [gi|221475543|ref|NP_723994|]
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tRNA splicing endonuclease subunit 2 [Drosophila melanogaster]

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 ...
 118-203 1.03e-20

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: 82.92  E-value: 1.03e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543 118 KFVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQSPRLYHASFLVIVQKPGDTdhYQSKNLKGVQRVAETSDKDVLLLTV 197
Cdd:cd22363    1 DFLLKYLVYKDLRSRGYVVKSGFKFGADFLVYPRGPGLYHAKYLVHVVPEDEE--LSWLELVRAGRLAHSVKKTLVLAVV 78


                 ....*.
gi 221475543 198 QPPKKI 203
Cdd:cd22363   79 DEEGEV 84
tRNA_int_end_N2 super family cl46333
tRNA-splicing endonuclease subunit sen54 N-term; This is an N-terminal family of archaeal and ...
 32-170 1.17e-19

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: 82.56  E-value: 1.17e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543  32 KGRFTGLSVEIVDPEQAKSLHDNGCFGKgsksrggPASGdenETLFLGMEESCFLAHYlNVLDITNSaGYLMDFCMFVEV 111
Cdd:COG1676    5 RGTLLGDRVVVWDIDAARELYEEGFYGK-------PLDK---SPLQLSLIEALYLLEK-GKLEVYDD-GKELSFEELLEI 72

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543 112 AKEHNEKFVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQSPRLY-HASFLVIVQKPGDT 170
Cdd:COG1676   73 ARKVDPEFDRKYLVYRDLRDRGYVVKTGFKFGSDFRVYERGPGIEdHSPYLVHVVPEGTE 132
 
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 ...
 118-203 1.03e-20

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: 82.92  E-value: 1.03e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543 118 KFVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQSPRLYHASFLVIVQKPGDTdhYQSKNLKGVQRVAETSDKDVLLLTV 197
Cdd:cd22363    1 DFLLKYLVYKDLRSRGYVVKSGFKFGADFLVYPRGPGLYHAKYLVHVVPEDEE--LSWLELVRAGRLAHSVKKTLVLAVV 78


                 ....*.
gi 221475543 198 QPPKKI 203
Cdd:cd22363   79 DEEGEV 84
SEN2 COG1676
tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; ...
 32-170 1.17e-19

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: 82.56  E-value: 1.17e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543  32 KGRFTGLSVEIVDPEQAKSLHDNGCFGKgsksrggPASGdenETLFLGMEESCFLAHYlNVLDITNSaGYLMDFCMFVEV 111
Cdd:COG1676    5 RGTLLGDRVVVWDIDAARELYEEGFYGK-------PLDK---SPLQLSLIEALYLLEK-GKLEVYDD-GKELSFEELLEI 72

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543 112 AKEHNEKFVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQSPRLY-HASFLVIVQKPGDT 170
Cdd:COG1676   73 ARKVDPEFDRKYLVYRDLRDRGYVVKTGFKFGSDFRVYERGPGIEdHSPYLVHVVPEGTE 132
tRNA_int_endo pfam01974
tRNA intron endonuclease, catalytic C-terminal domain; Members of this family cleave pre tRNA ...
 119-203 8.33e-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: 67.28  E-value: 8.33e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543  119 FVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQSPRLYHASFLVIVQKPGdtDHYQSKNLKGVQRVAETSDKDVLLLTVQ 198
Cdd:pfam01974   1 FWLKYLVYRDLRERGYVVKPGIKFGADFRVYGGGPGKGHSEYLVRVLSED--DPISLLDLLRAVRLAHSVRKELVLAIVD 78


                  ....*
gi 221475543  199 PPKKI 203
Cdd:pfam01974  79 DEGDV 83
endA TIGR00324
tRNA-intron lyase; The enzyme catalyses the endonucleolytic cleavage of pre tRNA at the 5' and ...
 108-203 5.83e-08

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: 50.93  E-value: 5.83e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543  108 FVEVAKEHNEKFVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQSPR--LYHASFLVIVQKPGDTDHYQSknLKGVQRVA 185
Cdd:TIGR00324  67 LSDLARKVERGFMRKYLVYKDLRDRGYVVKTGFKFGADFRLYERGPLrdHSHSEYLVAIDDHDESIDLID--LSSGVRVA 144

                          90
                  ....*....|....*...
gi 221475543  186 ETSDKDVLLLTVQPPKKI 203
Cdd:TIGR00324 145 HGVKKKLVIAYVDEEKEI 162
PRK09300 PRK09300
tRNA splicing endonuclease; Reviewed
 33-162 8.72e-08

tRNA splicing endonuclease; Reviewed


Pssm-ID: 236460 [Multi-domain]  Cd Length: 330  Bit Score: 51.90  E-value: 8.72e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543  33 GRFTGLSVEIVDPeqAKSLHDNGCFGKgsksrggPASGdenETLFLGMEESCFLAHyLNVLDITNsagylMDFCMFVEVA 112
Cdd:PRK09300 168 GTLLGDRVVVWDP--PGELYERGFYGK-------PLDG---RRLQLSLVEAAYLLE-RGVLSVEI-----LDADEFVERA 229

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 221475543 113 KEHNEKFVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQS---PRLYHASFLV 162
Cdd:PRK09300 230 REVEGEFDRKLAVYRDLRERGFVPKTGFKFGSDFRVYEGVesvEKLPHSEYLV 282
tRNA_int_endo_N pfam02778
tRNA intron endonuclease, N-terminal domain; Members of this family cleave pre tRNA at the 5' ...
 31-105 2.73e-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: 41.04  E-value: 2.73e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 221475543   31 YKGRFTGLSVEIVDPEQAKSLHDNGCFGKgsksrggpasGDENETLFLGMEESCFLaHYLNVLDITNSaGYLMDF 105
Cdd:pfam02778   1 MEGELSGDRVIVWDEEAARRLYERGYYGK----------PLDDERLQLSLVEALYL-LERGKIEVVKG-GKLLSF 63
 
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 ...
 118-203 1.03e-20

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: 82.92  E-value: 1.03e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543 118 KFVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQSPRLYHASFLVIVQKPGDTdhYQSKNLKGVQRVAETSDKDVLLLTV 197
Cdd:cd22363    1 DFLLKYLVYKDLRSRGYVVKSGFKFGADFLVYPRGPGLYHAKYLVHVVPEDEE--LSWLELVRAGRLAHSVKKTLVLAVV 78


                 ....*.
gi 221475543 198 QPPKKI 203
Cdd:cd22363   79 DEEGEV 84
SEN2 COG1676
tRNA splicing endonuclease subunit SEN34 [Translation, ribosomal structure and biogenesis]; ...
 32-170 1.17e-19

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: 82.56  E-value: 1.17e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543  32 KGRFTGLSVEIVDPEQAKSLHDNGCFGKgsksrggPASGdenETLFLGMEESCFLAHYlNVLDITNSaGYLMDFCMFVEV 111
Cdd:COG1676    5 RGTLLGDRVVVWDIDAARELYEEGFYGK-------PLDK---SPLQLSLIEALYLLEK-GKLEVYDD-GKELSFEELLEI 72

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543 112 AKEHNEKFVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQSPRLY-HASFLVIVQKPGDT 170
Cdd:COG1676   73 ARKVDPEFDRKYLVYRDLRDRGYVVKTGFKFGSDFRVYERGPGIEdHSPYLVHVVPEGTE 132
tRNA_int_endo pfam01974
tRNA intron endonuclease, catalytic C-terminal domain; Members of this family cleave pre tRNA ...
 119-203 8.33e-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: 67.28  E-value: 8.33e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543  119 FVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQSPRLYHASFLVIVQKPGdtDHYQSKNLKGVQRVAETSDKDVLLLTVQ 198
Cdd:pfam01974   1 FWLKYLVYRDLRERGYVVKPGIKFGADFRVYGGGPGKGHSEYLVRVLSED--DPISLLDLLRAVRLAHSVRKELVLAIVD 78


                  ....*
gi 221475543  199 PPKKI 203
Cdd:pfam01974  79 DEGDV 83
endA TIGR00324
tRNA-intron lyase; The enzyme catalyses the endonucleolytic cleavage of pre tRNA at the 5' and ...
 108-203 5.83e-08

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: 50.93  E-value: 5.83e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543  108 FVEVAKEHNEKFVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQSPR--LYHASFLVIVQKPGDTDHYQSknLKGVQRVA 185
Cdd:TIGR00324  67 LSDLARKVERGFMRKYLVYKDLRDRGYVVKTGFKFGADFRLYERGPLrdHSHSEYLVAIDDHDESIDLID--LSSGVRVA 144

                          90
                  ....*....|....*...
gi 221475543  186 ETSDKDVLLLTVQPPKKI 203
Cdd:TIGR00324 145 HGVKKKLVIAYVDEEKEI 162
PRK09300 PRK09300
tRNA splicing endonuclease; Reviewed
 33-162 8.72e-08

tRNA splicing endonuclease; Reviewed


Pssm-ID: 236460 [Multi-domain]  Cd Length: 330  Bit Score: 51.90  E-value: 8.72e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221475543  33 GRFTGLSVEIVDPeqAKSLHDNGCFGKgsksrggPASGdenETLFLGMEESCFLAHyLNVLDITNsagylMDFCMFVEVA 112
Cdd:PRK09300 168 GTLLGDRVVVWDP--PGELYERGFYGK-------PLDG---RRLQLSLVEAAYLLE-RGVLSVEI-----LDADEFVERA 229

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 221475543 113 KEHNEKFVENLASYVYLKSKNWVIKSGIKFGGDFLIYKQS---PRLYHASFLV 162
Cdd:PRK09300 230 REVEGEFDRKLAVYRDLRERGFVPKTGFKFGSDFRVYEGVesvEKLPHSEYLV 282
tRNA_int_endo_N pfam02778
tRNA intron endonuclease, N-terminal domain; Members of this family cleave pre tRNA at the 5' ...
 31-105 2.73e-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: 41.04  E-value: 2.73e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 221475543   31 YKGRFTGLSVEIVDPEQAKSLHDNGCFGKgsksrggpasGDENETLFLGMEESCFLaHYLNVLDITNSaGYLMDF 105
Cdd:pfam02778   1 MEGELSGDRVIVWDEEAARRLYERGYYGK----------PLDDERLQLSLVEALYL-LERGKIEVVKG-GKLLSF 63
 
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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