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Conserved domains on  [gi|1831510721|ref|NP_001367605|]
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tRNA MethylTransferase [Caenorhabditis elegans]

Protein Classification

RNA methyltransferase( domain architecture ID 1000317)

SpoU family RNA methyltransferase catalyzes the methylation of rRNA or tRNA at specific sites in a S-adenosyl-L-methionine (SAM)-dependent manner

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SPOUT_MTase super family cl38912
SPOUT superfamily of SAM-dependent RNA methyltransferases; The SPOUT (SpoU-TrmD) ...
 186-367 7.78e-22

SPOUT superfamily of SAM-dependent RNA methyltransferases; The SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, also known as class IV methyltransferase family, is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot. Members of the SPOUT superfamily that have been characterized functionally are involved in post-transcriptional RNA modification by catalyzing methylation of the 2-OH group of ribose, the N-1 atom of guanosine 37 in tRNA, or the N-3 atom of uridine 1498 in 16S rRNA.


The actual alignment was detected with superfamily member cd18102:

Pssm-ID: 476814  Cd Length: 179  Bit Score: 91.83  E-value: 7.78e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 186 PRIALDIQYVEEMNKRDSGELGNQMQYTISENFSAKSPFVLDFVNSPSKEFLEQWLSKSvgyytgnyINQTILPDF---- 261
Cdd:cd18102     1 QPLVIDMSYEDLMSPREIKNTARQLLEAYSANRRSTEPFHLHFCNLDPDGESIKRLLRL--------IPKLSLDKFpitv 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 262 STKGIKEFYGKSaNTIYISSNARDVLDgplTAD-----VIGICV-TMGRKREALSAARRANIRAYRLPIHRYVKWKSGPQ 335
Cdd:cd18102    73 TEKSYLDLFPKE-KLVYLSPDAPEVLK---EFDpdkvyIIGGLVdKSTKKPLSLAKAKKEGIRMARLPLDRYLKWGGGSK 148

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1831510721 336 YLPFPNIMNVLREVYmNGGDWSRALHNNISKR 367
Cdd:cd18102   149 SLTLNQVVSILLDLK-DTGDWKEALKHVPPRK 179
 
Name Accession Description Interval E-value
Trm10_MRRP1 cd18102
Mitochondrial ribonuclease P protein 1; Mitochondrial ribonuclease P protein 1 (or tRNA ...
 186-367 7.78e-22

Mitochondrial ribonuclease P protein 1; Mitochondrial ribonuclease P protein 1 (or tRNA methyltransferase 10 homolog C) functions in mitochondrial tRNA maturation and is part of mitochondrial ribonuclease P, an enzyme composed of MRPP1/RG9MTD1, MRPP2/HSD17B10 and MRPP3/KIAA0391, which cleaves tRNA molecules in their 5'-ends. MRRP1 is related to Trm10, a tRNA m1G9 methyltransferase and is a member of the SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349975  Cd Length: 179  Bit Score: 91.83  E-value: 7.78e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 186 PRIALDIQYVEEMNKRDSGELGNQMQYTISENFSAKSPFVLDFVNSPSKEFLEQWLSKSvgyytgnyINQTILPDF---- 261
Cdd:cd18102     1 QPLVIDMSYEDLMSPREIKNTARQLLEAYSANRRSTEPFHLHFCNLDPDGESIKRLLRL--------IPKLSLDKFpitv 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 262 STKGIKEFYGKSaNTIYISSNARDVLDgplTAD-----VIGICV-TMGRKREALSAARRANIRAYRLPIHRYVKWKSGPQ 335
Cdd:cd18102    73 TEKSYLDLFPKE-KLVYLSPDAPEVLK---EFDpdkvyIIGGLVdKSTKKPLSLAKAKKEGIRMARLPLDRYLKWGGGSK 148

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1831510721 336 YLPFPNIMNVLREVYmNGGDWSRALHNNISKR 367
Cdd:cd18102   149 SLTLNQVVSILLDLK-DTGDWKEALKHVPPRK 179
 
Name Accession Description Interval E-value
Trm10_MRRP1 cd18102
Mitochondrial ribonuclease P protein 1; Mitochondrial ribonuclease P protein 1 (or tRNA ...
 186-367 7.78e-22

Mitochondrial ribonuclease P protein 1; Mitochondrial ribonuclease P protein 1 (or tRNA methyltransferase 10 homolog C) functions in mitochondrial tRNA maturation and is part of mitochondrial ribonuclease P, an enzyme composed of MRPP1/RG9MTD1, MRPP2/HSD17B10 and MRPP3/KIAA0391, which cleaves tRNA molecules in their 5'-ends. MRRP1 is related to Trm10, a tRNA m1G9 methyltransferase and is a member of the SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349975  Cd Length: 179  Bit Score: 91.83  E-value: 7.78e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 186 PRIALDIQYVEEMNKRDSGELGNQMQYTISENFSAKSPFVLDFVNSPSKEFLEQWLSKSvgyytgnyINQTILPDF---- 261
Cdd:cd18102     1 QPLVIDMSYEDLMSPREIKNTARQLLEAYSANRRSTEPFHLHFCNLDPDGESIKRLLRL--------IPKLSLDKFpitv 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 262 STKGIKEFYGKSaNTIYISSNARDVLDgplTAD-----VIGICV-TMGRKREALSAARRANIRAYRLPIHRYVKWKSGPQ 335
Cdd:cd18102    73 TEKSYLDLFPKE-KLVYLSPDAPEVLK---EFDpdkvyIIGGLVdKSTKKPLSLAKAKKEGIRMARLPLDRYLKWGGGSK 148

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1831510721 336 YLPFPNIMNVLREVYmNGGDWSRALHNNISKR 367
Cdd:cd18102   149 SLTLNQVVSILLDLK-DTGDWKEALKHVPPRK 179
SPOUT_Trm10-like cd18089
tRNA methyltransferase Trm10-like; Family of tRNA methyltransferase Trm10-like proteins ...
 186-360 7.30e-13

tRNA methyltransferase Trm10-like; Family of tRNA methyltransferase Trm10-like proteins catalyzes the N(1) methylation of guanine at position 9 (m(1)G9) of tRNA (eukaryotes) or N(1) methylation of guanine or adenine at position 9 (m1G9/m1A9) of tRNA (archaea), which might play a role in the stabilization of tRNA and in translation termination efficiency. Trm10 is a member of the SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349962  Cd Length: 171  Bit Score: 66.40  E-value: 7.30e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 186 PRIALDIQYVEEMNKRDSGELGNQMQYTISENFSAKSPFVLDFVNSpSKEFLEQWLSKSvgyytgNYINQTILPDFSTKG 265
Cdd:cd18089     1 PRIVIDLSFDDLMTEKEIRSLAKQLSRCYGANRRSEKPLRLHLTSF-SGDLKQRLLKKS------GAENWKIITHEESLL 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 266 IKEFYGKSaNTIYISSNARDVLDG--PLTADVIGICVTMGR-KREALSAARRANIRAYRLPIHRYVKWKSGPqylpfpnI 342
Cdd:cd18089    74 EEEAFPKE-KLVYLTADAEEVLEEldPDKVYIIGGIVDRNRhKGLTLNKAEELGIRTARLPIREYIKLKGRK-------V 145

                         170       180
                  ....*....|....*....|....*
gi 1831510721 343 MNV-------LRevYMNGGDWSRAL 360
Cdd:cd18089   146 LTVnhvfeilLR--YLEGGDWKEAL 168
Trm10euk_B cd18100
eukaryotic tRNA m1G9 methyltransferase Trm10 homolog B; Eukaryotic tRNA m1G9 methyltransferase ...
 186-367 2.47e-08

eukaryotic tRNA m1G9 methyltransferase Trm10 homolog B; Eukaryotic tRNA m1G9 methyltransferase Trm10 homolog B (TM10B) catalyzes the N(1) methylation of guanine at Position 9 (m(1)G9) of tRNA, which might play a role in the stabilization of tRNA and in translation termination efficiency. Trm10 is a member of the SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349973  Cd Length: 182  Bit Score: 53.42  E-value: 2.47e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 186 PRIALDIQYVEEMNKRDSGELGNQMQYTISENFSAKSPFVLDFVN-SPSKEFLEQWLSKSVGYytgnyinQTILPDFSTK 264
Cdd:cd18100     1 LRVCIDLSLEHKMSEKEISKLAQQLRRLYGSNRKAEKPLHIYLTSfDKEGLLYKECVRKNDGF-------ENYLIDMTEE 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 265 GIKEFYGKSaNTIYISSNARDVLDG--PLTADVIGICVTMG-RKREALSAARRANIRAYRLPIHRYVKWKSGP----QYL 337
Cdd:cd18100    74 SHSELFPKE-EIVYLSPDSENVLESidPNKVYVIGGLVDESiQKKLTLQKAKEHGIQTARLPIDEYMVKADGKgnysTVL 152

                         170       180       190
                  ....*....|....*....|....*....|
gi 1831510721 338 PFPNIMNVLREvYMNGGDWSRALHNNISKR 367
Cdd:cd18100   153 AINQVFDILLK-YYETGDWREALSAGVPQR 181
Trm10euk_A cd18101
eukaryotic tRNA m1G9 methyltransferase Trm10 homolog A; Eukaryotic tRNA m1G9 methyltransferase ...
 187-367 1.45e-05

eukaryotic tRNA m1G9 methyltransferase Trm10 homolog A; Eukaryotic tRNA m1G9 methyltransferase Trm10 homolog A (TM10A) catalyzes the N(1) methylation of guanine at Position 9 (m(1)G9) of tRNA, which might play a role in the stabilization of tRNA and in translation termination efficiency. Trm10 is a member of the SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349974  Cd Length: 174  Bit Score: 45.29  E-value: 1.45e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 187 RIALDIQYVEEMNKRDSGELGNQMQYTISENFSAKSPFVLDFVN--SPSKEFLEqwlsksvgyYTGNYINQTIlpDFSTK 264
Cdd:cd18101     2 RVAIDCSFDDLMTEKDIKKLVKQIQRCYAENRRADNPVQLYLTSlgGKTKENME---------KDKGYENWDV--NFKEE 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 265 GIKEFYGKSaNTIYISSNARDVLDgPLTAD---VIGICVTMGR-KREALSAARRANIRAYRLPIHRYVKWKSgPQYLPFP 340
Cdd:cd18101    71 HYLEVFKKE-DIVYLTSDSPNVLE-DLDEDkvyIIGGLVDHNHhKGLCYKRAVELGIQHARLPIDEYVKMKT-RKVLTIN 147

                         170       180
                  ....*....|....*....|....*..
gi 1831510721 341 NIMNVLREvYMNGGDWSRALHNNISKR 367
Cdd:cd18101   148 HVFEILLR-YTEGKDWKEAFFKVIPQR 173
SPOUT_MTase cd07060
SPOUT superfamily of SAM-dependent RNA methyltransferases; The SPOUT (SpoU-TrmD) ...
 260-350 2.73e-04

SPOUT superfamily of SAM-dependent RNA methyltransferases; The SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, also known as class IV methyltransferase family, is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot. Members of the SPOUT superfamily that have been characterized functionally are involved in post-transcriptional RNA modification by catalyzing methylation of the 2-OH group of ribose, the N-1 atom of guanosine 37 in tRNA, or the N-3 atom of uridine 1498 in 16S rRNA.


Pssm-ID: 349952  Cd Length: 99  Bit Score: 39.73  E-value: 2.73e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831510721 260 DFSTKGIKEFYGKS---ANTIYISSNARDVLD-------GPLTADVIGICVTMGRKRealsaARRANIRAYRLPihryvk 329
Cdd:cd07060    14 DKIIRAALAEYAKRlsiYGIVTLSSEGFAVKIseleisgGSNIAFVIGGEYGGLEES-----ARALADEPISIS------ 82

                          90       100
                  ....*....|....*....|.
gi 1831510721 330 wksgPQYLPFPNIMNVLREVY 350
Cdd:cd07060    83 ----SMTLSAELAATILLEQL 99
 
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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