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Conserved domains on  [gi|269784676|ref|NP_001161442|]
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tRNA (uracil-5-)-methyltransferase homolog B isoform a [Homo sapiens]

Protein Classification

class I SAM-dependent RNA methyltransferase( domain architecture ID 11455144)

class I SAM-dependent RNA methyltransferase catalyzes the methylation of a specific RNA substrate using S-adenosyl-L-methionine (SAM or AdoMet) as the methyl donor

EC:  2.1.1.-
Gene Ontology:  GO:0031167|GO:0046872
PubMed:  12826405|12504684

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TrmA COG2265
tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure ...
 94-503 2.23e-61

tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family is part of the Pathway/BioSystem: tRNA modification


:

Pssm-ID: 441866 [Multi-domain]  Cd Length: 377  Bit Score: 205.41  E-value: 2.23e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  94 LSYEEQLKVKfaaqKKILQRLesyiqmLNGVSVTTAVPkserlsclLHPIIPSPVINGYRNKSTFSVnrGPDGNPKTVGF 173
Cdd:COG2265   81 LSYEAQLELK----QRVVREA------LERIGGLPEVE--------VEPIIGSPEPWGYRNRARLSV--RRTDGRLRLGF 140

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 174 YlgtwrdgnvvcvqsnhlknipEKHSqvaqyYEVFlrqsPLEPCLVFHEggywreltvrtnsqgHTMAIItfhpqklsqe 253
Cdd:COG2265  141 Y---------------------ARGS-----HELV----DIDECPLLDP---------------ALNALL---------- 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 254 elhvqkEIVKEFFIRGPGAACGLTSLyfqestMTRCshqqspyqllfGEPYIFEELLSLKIRISPDAFFQINTAGAEMLY 333
Cdd:COG2265  166 ------PALRELLAELGARRGELRHL------VVRA-----------GRDYLTERLGGLTFRISPGSFFQVNPEQAEALY 222

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 334 RTVGELTGVNSDTILLDICCGTGVIGLSLAQHTSRVLGIELLEQAVEDARWTAAFNGITNSEFHTGQAEKILPGLLKSKE 413
Cdd:COG2265  223 AAALEWLDLTGGERVLDLYCGVGTFALPLARRAKKVIGVEIVPEAVEDARENARLNGLKNVEFVAGDLEEVLPELLWGGR 302

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 414 -DgqsiVAVVNPARAGLHYKVIQAIRNFRAiHTLVFVSCklhgestrnvielccppDPA------KKLLGEPFVLQQAVP 486
Cdd:COG2265  303 pD----VVVLDPPRAGAGPEVLEALAALGP-RRIVYVSC-----------------NPAtlardlALLVEGGYRLEKVQP 360

                        410
                 ....*....|....*..
gi 269784676 487 VDLFPHTPHCELVLLFT 503
Cdd:COG2265  361 VDMFPHTHHVESVALLE 377
 
Name Accession Description Interval E-value
TrmA COG2265
tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure ...
 94-503 2.23e-61

tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 441866 [Multi-domain]  Cd Length: 377  Bit Score: 205.41  E-value: 2.23e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  94 LSYEEQLKVKfaaqKKILQRLesyiqmLNGVSVTTAVPkserlsclLHPIIPSPVINGYRNKSTFSVnrGPDGNPKTVGF 173
Cdd:COG2265   81 LSYEAQLELK----QRVVREA------LERIGGLPEVE--------VEPIIGSPEPWGYRNRARLSV--RRTDGRLRLGF 140

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 174 YlgtwrdgnvvcvqsnhlknipEKHSqvaqyYEVFlrqsPLEPCLVFHEggywreltvrtnsqgHTMAIItfhpqklsqe 253
Cdd:COG2265  141 Y---------------------ARGS-----HELV----DIDECPLLDP---------------ALNALL---------- 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 254 elhvqkEIVKEFFIRGPGAACGLTSLyfqestMTRCshqqspyqllfGEPYIFEELLSLKIRISPDAFFQINTAGAEMLY 333
Cdd:COG2265  166 ------PALRELLAELGARRGELRHL------VVRA-----------GRDYLTERLGGLTFRISPGSFFQVNPEQAEALY 222

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 334 RTVGELTGVNSDTILLDICCGTGVIGLSLAQHTSRVLGIELLEQAVEDARWTAAFNGITNSEFHTGQAEKILPGLLKSKE 413
Cdd:COG2265  223 AAALEWLDLTGGERVLDLYCGVGTFALPLARRAKKVIGVEIVPEAVEDARENARLNGLKNVEFVAGDLEEVLPELLWGGR 302

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 414 -DgqsiVAVVNPARAGLHYKVIQAIRNFRAiHTLVFVSCklhgestrnvielccppDPA------KKLLGEPFVLQQAVP 486
Cdd:COG2265  303 pD----VVVLDPPRAGAGPEVLEALAALGP-RRIVYVSC-----------------NPAtlardlALLVEGGYRLEKVQP 360

                        410
                 ....*....|....*..
gi 269784676 487 VDLFPHTPHCELVLLFT 503
Cdd:COG2265  361 VDMFPHTHHVESVALLE 377
rumA TIGR00479
23S rRNA (uracil-5-)-methyltransferase RumA; This protein family was first proposed to be RNA ...
 94-497 6.96e-31

23S rRNA (uracil-5-)-methyltransferase RumA; This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from E. coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA. [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 129571 [Multi-domain]  Cd Length: 431  Bit Score: 124.16  E-value: 6.96e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676   94 LSYEEQLKVKFAAQKKILQRLESYiqmlngvsvttavpKSERLSclLHPIIPSPVINgYRNKSTFSVNRGPDGNPKtVGF 173
Cdd:TIGR00479  72 LSYELQLRSKQQQVIALLERIGKF--------------VSEPIE--DVPTIGDDPWG-YRNKARLSLGRSPSGQLQ-AGF 133

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  174 Y-LGTWR--DGNVVCVQSNHL-------KNIPEKHSQVAQYYEVflrqsplepclvfhEGGYWRELTVRTNSQGHTMAI- 242
Cdd:TIGR00479 134 YqKGSHDivDVKQCPVQAPALnallpkvRAILENFGASRYLEHK--------------ELGQARHGVLRIGRHTGELSSv 199

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  243 -ITFHpqklsqEELHVQKEIVKEFFIRGP--GAAC-----GLTSLYFQESTMTrcshqqspyqlLFGEPYIFEELLSLKI 314
Cdd:TIGR00479 200 dRTAL------ERFPHKEELDLYLQPDSPdvKSICqninpEKTNVIFGEETEV-----------IAGEMPIYDKSGDLSF 262

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  315 RISPDAFFQINTAGAEMLYRTVGELTGVNSDTILLDICCGTGVIGLSLAQHTSRVLGIELLEQAVEDARWTAAFNGITNS 394
Cdd:TIGR00479 263 TFSARDFIQVNSGQNEKLVDRALEWLELQGEERVLDAYCGMGTFTLPLAKQAKSVVGVEGVPESVEKAQQNAELNGIANV 342

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  395 EFHTGQAEKILPgllKSKEDGQSI-VAVVNPARAGLHYKVIQAIRNFRAIHtLVFVSCKlhgestrnvielccPPDPAKK 473
Cdd:TIGR00479 343 TFYHGTLETVLP---KQPWAGNGFdKVLLDPPRKGCAAGVLRTIIKLKPER-IVYVSCN--------------PATLARD 404

                         410       420
                  ....*....|....*....|....*..
gi 269784676  474 ---LLGEPFVLQQAVPVDLFPHTPHCE 497
Cdd:TIGR00479 405 leaLCKAGYTIARVQPVDMFPHTGHVE 431
rumB PRK03522
23S rRNA (uracil(747)-C(5))-methyltransferase RlmC;
298-501 2.63e-18

23S rRNA (uracil(747)-C(5))-methyltransferase RlmC;


Pssm-ID: 235128 [Multi-domain]  Cd Length: 315  Bit Score: 85.69  E-value: 2.63e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 298 LLFGEPYIFEELLSLKIRISPDAFFQINTAGAEMLYRT----VGELtGVNSdtiLLDICCGTGVIGLSLAQHTSRVLGIE 373
Cdd:PRK03522 127 FLTEQQALPERFNGVPLFIRPQSFFQTNPAVAAQLYATardwVREL-PPRS---MWDLFCGVGGFGLHCATPGMQLTGIE 202

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 374 LLEQAVEDARWTAAFNGITNSEFH--------TGQAEKilPGLlkskedgqsivAVVNPARAGLHyKVIQAIRNFRAIHT 445
Cdd:PRK03522 203 ISAEAIACAKQSAAELGLTNVQFQaldstqfaTAQGEV--PDL-----------VLVNPPRRGIG-KELCDYLSQMAPRF 268

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 269784676 446 LVFVSCklhgestrNVIELccppdpAKKLLGEP-FVLQQAVPVDLFPHTPHCE-LVLL 501
Cdd:PRK03522 269 ILYSSC--------NAQTM------AKDLAHLPgYRIERVQLFDMFPHTAHYEvLTLL 312
tRNA_U5-meth_tr pfam05958
tRNA (Uracil-5-)-methyltransferase; This family consists of (Uracil-5-)-methyltransferases EC: ...
 297-504 5.39e-10

tRNA (Uracil-5-)-methyltransferase; This family consists of (Uracil-5-)-methyltransferases EC:2.1.1.35 from bacteria, archaea and eukaryotes. A 5-methyluridine (m(5)U) residue at position 54 is a conserved feature of bacterial and eukaryotic tRNAs. The methylation of U54 is catalyzed by the tRNA(m5U54)methyltransferase, which in Saccharomyces cerevisiae is encoded by the nonessential TRM2 gene. It is thought that tRNA modification enzymes might have a role in tRNA maturation not necessarily linked to their known catalytic activity.


Pssm-ID: 428692  Cd Length: 357  Bit Score: 60.92  E-value: 5.39e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  297 QLLFGEPYIFEEL----LSLKIRISPDAFFQINTAGAEMLYRTVGELTGvNSDTILLDICCGTGVIGLSLAQHTSRVLGI 372
Cdd:pfam05958 151 KIVLDQDYVDETLpvagREFIYRQVENSFTQPNAAVNIKMLEWACDVTQ-GSKGDLLELYCGNGNFSLALARNFRKVLAT 229

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  373 ELLEQAVEDARWTAAFNGITNSEFHTGQAEKILPGLLKSKE----------DGQSIVAVVNPARAGLHYKVIQAIRNFRA 442
Cdd:pfam05958 230 EIAKPSVAAAQYNIAANNIDNVQIIRMSAEEFTQAMNGVREfnrlkgidlkSYNCSTIFVDPPRAGLDPETLKLVQAYPR 309

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 269784676  443 IhtlVFVSCklhgestrNVIELCcppdpaKKL--LGEPFVLQQAVPVDLFPHTPHCELVLLFTR 504
Cdd:pfam05958 310 I---LYISC--------NPETLC------ANLeqLSKTHRVERFALFDQFPYTHHMECGVLLEK 356
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 348-441 1.15e-04

S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).


Pssm-ID: 100107 [Multi-domain]  Cd Length: 107  Bit Score: 41.26  E-value: 1.15e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 348 LLDICCGTGVIGLSLAQHTS-RVLGIELLEQAVEDARWTAAFNGITNSEFHTGQAEKILPgllksKEDGQSIVAVVNPAR 426
Cdd:cd02440    2 VLDLGCGTGALALALASGPGaRVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPP-----EADESFDVIISDPPL 76

                         90
                 ....*....|....*
gi 269784676 427 AGLHYKVIQAIRNFR 441
Cdd:cd02440   77 HHLVEDLARFLEEAR 91
 
Name Accession Description Interval E-value
TrmA COG2265
tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure ...
 94-503 2.23e-61

tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure and biogenesis]; tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 441866 [Multi-domain]  Cd Length: 377  Bit Score: 205.41  E-value: 2.23e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  94 LSYEEQLKVKfaaqKKILQRLesyiqmLNGVSVTTAVPkserlsclLHPIIPSPVINGYRNKSTFSVnrGPDGNPKTVGF 173
Cdd:COG2265   81 LSYEAQLELK----QRVVREA------LERIGGLPEVE--------VEPIIGSPEPWGYRNRARLSV--RRTDGRLRLGF 140

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 174 YlgtwrdgnvvcvqsnhlknipEKHSqvaqyYEVFlrqsPLEPCLVFHEggywreltvrtnsqgHTMAIItfhpqklsqe 253
Cdd:COG2265  141 Y---------------------ARGS-----HELV----DIDECPLLDP---------------ALNALL---------- 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 254 elhvqkEIVKEFFIRGPGAACGLTSLyfqestMTRCshqqspyqllfGEPYIFEELLSLKIRISPDAFFQINTAGAEMLY 333
Cdd:COG2265  166 ------PALRELLAELGARRGELRHL------VVRA-----------GRDYLTERLGGLTFRISPGSFFQVNPEQAEALY 222

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 334 RTVGELTGVNSDTILLDICCGTGVIGLSLAQHTSRVLGIELLEQAVEDARWTAAFNGITNSEFHTGQAEKILPGLLKSKE 413
Cdd:COG2265  223 AAALEWLDLTGGERVLDLYCGVGTFALPLARRAKKVIGVEIVPEAVEDARENARLNGLKNVEFVAGDLEEVLPELLWGGR 302

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 414 -DgqsiVAVVNPARAGLHYKVIQAIRNFRAiHTLVFVSCklhgestrnvielccppDPA------KKLLGEPFVLQQAVP 486
Cdd:COG2265  303 pD----VVVLDPPRAGAGPEVLEALAALGP-RRIVYVSC-----------------NPAtlardlALLVEGGYRLEKVQP 360

                        410
                 ....*....|....*..
gi 269784676 487 VDLFPHTPHCELVLLFT 503
Cdd:COG2265  361 VDMFPHTHHVESVALLE 377
rumA TIGR00479
23S rRNA (uracil-5-)-methyltransferase RumA; This protein family was first proposed to be RNA ...
 94-497 6.96e-31

23S rRNA (uracil-5-)-methyltransferase RumA; This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from E. coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA. [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 129571 [Multi-domain]  Cd Length: 431  Bit Score: 124.16  E-value: 6.96e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676   94 LSYEEQLKVKFAAQKKILQRLESYiqmlngvsvttavpKSERLSclLHPIIPSPVINgYRNKSTFSVNRGPDGNPKtVGF 173
Cdd:TIGR00479  72 LSYELQLRSKQQQVIALLERIGKF--------------VSEPIE--DVPTIGDDPWG-YRNKARLSLGRSPSGQLQ-AGF 133

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  174 Y-LGTWR--DGNVVCVQSNHL-------KNIPEKHSQVAQYYEVflrqsplepclvfhEGGYWRELTVRTNSQGHTMAI- 242
Cdd:TIGR00479 134 YqKGSHDivDVKQCPVQAPALnallpkvRAILENFGASRYLEHK--------------ELGQARHGVLRIGRHTGELSSv 199

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  243 -ITFHpqklsqEELHVQKEIVKEFFIRGP--GAAC-----GLTSLYFQESTMTrcshqqspyqlLFGEPYIFEELLSLKI 314
Cdd:TIGR00479 200 dRTAL------ERFPHKEELDLYLQPDSPdvKSICqninpEKTNVIFGEETEV-----------IAGEMPIYDKSGDLSF 262

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  315 RISPDAFFQINTAGAEMLYRTVGELTGVNSDTILLDICCGTGVIGLSLAQHTSRVLGIELLEQAVEDARWTAAFNGITNS 394
Cdd:TIGR00479 263 TFSARDFIQVNSGQNEKLVDRALEWLELQGEERVLDAYCGMGTFTLPLAKQAKSVVGVEGVPESVEKAQQNAELNGIANV 342

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  395 EFHTGQAEKILPgllKSKEDGQSI-VAVVNPARAGLHYKVIQAIRNFRAIHtLVFVSCKlhgestrnvielccPPDPAKK 473
Cdd:TIGR00479 343 TFYHGTLETVLP---KQPWAGNGFdKVLLDPPRKGCAAGVLRTIIKLKPER-IVYVSCN--------------PATLARD 404

                         410       420
                  ....*....|....*....|....*..
gi 269784676  474 ---LLGEPFVLQQAVPVDLFPHTPHCE 497
Cdd:TIGR00479 405 leaLCKAGYTIARVQPVDMFPHTGHVE 431
rumB PRK03522
23S rRNA (uracil(747)-C(5))-methyltransferase RlmC;
298-501 2.63e-18

23S rRNA (uracil(747)-C(5))-methyltransferase RlmC;


Pssm-ID: 235128 [Multi-domain]  Cd Length: 315  Bit Score: 85.69  E-value: 2.63e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 298 LLFGEPYIFEELLSLKIRISPDAFFQINTAGAEMLYRT----VGELtGVNSdtiLLDICCGTGVIGLSLAQHTSRVLGIE 373
Cdd:PRK03522 127 FLTEQQALPERFNGVPLFIRPQSFFQTNPAVAAQLYATardwVREL-PPRS---MWDLFCGVGGFGLHCATPGMQLTGIE 202

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 374 LLEQAVEDARWTAAFNGITNSEFH--------TGQAEKilPGLlkskedgqsivAVVNPARAGLHyKVIQAIRNFRAIHT 445
Cdd:PRK03522 203 ISAEAIACAKQSAAELGLTNVQFQaldstqfaTAQGEV--PDL-----------VLVNPPRRGIG-KELCDYLSQMAPRF 268

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 269784676 446 LVFVSCklhgestrNVIELccppdpAKKLLGEP-FVLQQAVPVDLFPHTPHCE-LVLL 501
Cdd:PRK03522 269 ILYSSC--------NAQTM------AKDLAHLPgYRIERVQLFDMFPHTAHYEvLTLL 312
rumA PRK13168
23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD;
292-504 1.58e-11

23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD;


Pssm-ID: 237291 [Multi-domain]  Cd Length: 443  Bit Score: 66.33  E-value: 1.58e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 292 QQSPYQLLFGepyifeellsLKIRISPDAFFQINTAGAEMLYRTVGELTGVNSDTILLDICCGTGVIGLSLAQHTSRVLG 371
Cdd:PRK13168 255 QLSYYLPEFG----------LRLAFSPRDFIQVNAQVNQKMVARALEWLDPQPGDRVLDLFCGLGNFTLPLARQAAEVVG 324

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 372 IELLEQAVEDARWTAAFNGITNSEFHTGQAEKILPGLLKSKedgQSIVAV-VNPARAGLhYKVIQAIRNFRAIhTLVFVS 450
Cdd:PRK13168 325 VEGVEAMVERARENARRNGLDNVTFYHANLEEDFTDQPWAL---GGFDKVlLDPPRAGA-AEVMQALAKLGPK-RIVYVS 399

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 451 CklhgestrnvielccppDPA------KKLLGEPFVLQQAVPVDLFPHTPHCELVLLFTR 504
Cdd:PRK13168 400 C-----------------NPAtlardaGVLVEAGYRLKRAGMLDMFPHTGHVESMALFER 442
tRNA_U5-meth_tr pfam05958
tRNA (Uracil-5-)-methyltransferase; This family consists of (Uracil-5-)-methyltransferases EC: ...
 297-504 5.39e-10

tRNA (Uracil-5-)-methyltransferase; This family consists of (Uracil-5-)-methyltransferases EC:2.1.1.35 from bacteria, archaea and eukaryotes. A 5-methyluridine (m(5)U) residue at position 54 is a conserved feature of bacterial and eukaryotic tRNAs. The methylation of U54 is catalyzed by the tRNA(m5U54)methyltransferase, which in Saccharomyces cerevisiae is encoded by the nonessential TRM2 gene. It is thought that tRNA modification enzymes might have a role in tRNA maturation not necessarily linked to their known catalytic activity.


Pssm-ID: 428692  Cd Length: 357  Bit Score: 60.92  E-value: 5.39e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  297 QLLFGEPYIFEEL----LSLKIRISPDAFFQINTAGAEMLYRTVGELTGvNSDTILLDICCGTGVIGLSLAQHTSRVLGI 372
Cdd:pfam05958 151 KIVLDQDYVDETLpvagREFIYRQVENSFTQPNAAVNIKMLEWACDVTQ-GSKGDLLELYCGNGNFSLALARNFRKVLAT 229

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  373 ELLEQAVEDARWTAAFNGITNSEFHTGQAEKILPGLLKSKE----------DGQSIVAVVNPARAGLHYKVIQAIRNFRA 442
Cdd:pfam05958 230 EIAKPSVAAAQYNIAANNIDNVQIIRMSAEEFTQAMNGVREfnrlkgidlkSYNCSTIFVDPPRAGLDPETLKLVQAYPR 309

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 269784676  443 IhtlVFVSCklhgestrNVIELCcppdpaKKL--LGEPFVLQQAVPVDLFPHTPHCELVLLFTR 504
Cdd:pfam05958 310 I---LYISC--------NPETLC------ANLeqLSKTHRVERFALFDQFPYTHHMECGVLLEK 356
TrmN6 COG4123
tRNA1(Val) A37 N6-methylase TrmN6 [Translation, ribosomal structure and biogenesis]; tRNA1(Val) ...
 342-393 6.24e-08

tRNA1(Val) A37 N6-methylase TrmN6 [Translation, ribosomal structure and biogenesis]; tRNA1(Val) A37 N6-methylase TrmN6 is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 443299 [Multi-domain]  Cd Length: 238  Bit Score: 53.61  E-value: 6.24e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 269784676 342 VNSDTILL-------------DICCGTGVIGLSLAQHTS--RVLGIELLEQAVEDARWTAAFNGITN 393
Cdd:COG4123   22 FGTDAVLLaafapvkkggrvlDLGTGTGVIALMLAQRSPgaRITGVEIQPEAAELARRNVALNGLED 88
RsmC COG2813
16S rRNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 348-399 8.40e-08

16S rRNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; 16S rRNA G1207 methylase RsmC is part of the Pathway/BioSystem: 16S rRNA modification


Pssm-ID: 442062 [Multi-domain]  Cd Length: 191  Bit Score: 52.50  E-value: 8.40e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 269784676 348 LLDICCGTGVIGLSLAQHT--SRVLGIELLEQAVEDARWTAAFNGITNSEFHTG 399
Cdd:COG2813   53 VLDLGCGYGVIGLALAKRNpeARVTLVDVNARAVELARANAAANGLENVEVLWS 106
PRK05031 PRK05031
tRNA (uracil-5-)-methyltransferase; Validated
 298-501 5.24e-07

tRNA (uracil-5-)-methyltransferase; Validated


Pssm-ID: 235332  Cd Length: 362  Bit Score: 51.75  E-value: 5.24e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 298 LLFGEPYIFEEL----LSLKIRISPDAFFQINTAGAE-MLYRTVGELTGVNSDtiLLDICCGTGVIGLSLAQHTSRVLGI 372
Cdd:PRK05031 157 IVLDQDYVDERLpvagREFIYRQVENSFTQPNAAVNEkMLEWALDATKGSKGD--LLELYCGNGNFTLALARNFRRVLAT 234

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 373 ELLEQAVEDARWTAAFNGITNSEFHTGQAEKILPGLLKSKE------------DGQSIvaVVNPARAGLHYKVIQAIRNF 440
Cdd:PRK05031 235 EISKPSVAAAQYNIAANGIDNVQIIRMSAEEFTQAMNGVREfnrlkgidlksyNFSTI--FVDPPRAGLDDETLKLVQAY 312

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 269784676 441 RAIhtlVFVSCK---LHgestRNVIELCCPPDPAKkllgepFVLqqavpVDLFPHTPHCEL-VLL 501
Cdd:PRK05031 313 ERI---LYISCNpetLC----ENLETLSQTHKVER------FAL-----FDQFPYTHHMECgVLL 359
Methyltransf_25 pfam13649
Methyltransferase domain; This family appears to be a methyltransferase domain.
 349-404 1.60e-06

Methyltransferase domain; This family appears to be a methyltransferase domain.


Pssm-ID: 463945 [Multi-domain]  Cd Length: 96  Bit Score: 46.40  E-value: 1.60e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 269784676  349 LDICCGTGVIGLSLAQHT-SRVLGIELLEQAVEDARWTAAFNGItNSEFHTGQAEKI 404
Cdd:pfam13649   2 LDLGCGTGRLTLALARRGgARVTGVDLSPEMLERARERAAEAGL-NVEFVQGDAEDL 57
UbiE COG2226
Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG [Coenzyme transport and metabolism]; ...
 332-404 3.01e-06

Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG [Coenzyme transport and metabolism]; Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG is part of the Pathway/BioSystem: Biotin biosynthesis


Pssm-ID: 441828 [Multi-domain]  Cd Length: 143  Bit Score: 46.91  E-value: 3.01e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 269784676 332 LYRTVGELTGVNSDTILLDICCGTGVIGLSLAQHTSRVLGIELLEQAVEDARWTAAFNGItNSEFHTGQAEKI 404
Cdd:COG2226   10 GREALLAALGLRPGARVLDLGCGTGRLALALAERGARVTGVDISPEMLELARERAAEAGL-NVEFVVGDAEDL 81
HemK COG2890
Methylase of polypeptide chain release factors [Translation, ribosomal structure and ...
 301-399 6.60e-06

Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis];


Pssm-ID: 442135 [Multi-domain]  Cd Length: 282  Bit Score: 47.84  E-value: 6.60e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 301 GEP--YI--FEELLSLKIRISPDAFfqI---NTagaEMLYRTVGELTGVNSDTILLDICCGTGVIGLSLAQH--TSRVLG 371
Cdd:COG2890   67 GEPlaYIlgEAEFYGLEFKVDPGVL--IprpET---EELVELALALLPAGAPPRVLDLGTGSGAIALALAKErpDARVTA 141

                         90       100
                 ....*....|....*....|....*....
gi 269784676 372 IELLEQAVEDARWTAAFNGITNS-EFHTG 399
Cdd:COG2890  142 VDISPDALAVARRNAERLGLEDRvRFLQG 170
Methyltransf_31 pfam13847
Methyltransferase domain; This family appears to have methyltransferase activity.
 343-404 1.01e-05

Methyltransferase domain; This family appears to have methyltransferase activity.


Pssm-ID: 463998 [Multi-domain]  Cd Length: 150  Bit Score: 45.49  E-value: 1.01e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 269784676  343 NSDTILLDICCGTGVIGLSLAQHT---SRVLGIELLEQAVEDARWTAAFNGITNSEFHTGQAEKI 404
Cdd:pfam13847   2 DKGMRVLDLGCGTGHLSFELAEELgpnAEVVGIDISEEAIEKARENAQKLGFDNVEFEQGDIEEL 66
PRK09328 PRK09328
N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
 349-399 2.08e-05

N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional


Pssm-ID: 236467 [Multi-domain]  Cd Length: 275  Bit Score: 46.31  E-value: 2.08e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 269784676 349 LDICCGTGVIGLSLAQH--TSRVLGIELLEQAVEDARWTAAFNGITNSEFHTG 399
Cdd:PRK09328 113 LDLGTGSGAIALALAKErpDAEVTAVDISPEALAVARRNAKHGLGARVEFLQG 165
UbiG COG2227
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme transport and ...
 348-404 3.66e-05

2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme transport and metabolism]; 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase is part of the Pathway/BioSystem: Ubiquinone biosynthesis


Pssm-ID: 441829 [Multi-domain]  Cd Length: 126  Bit Score: 43.47  E-value: 3.66e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 269784676 348 LLDICCGTGVIGLSLAQHTSRVLGIELLEQAVEDARWTAAFNGItnsEFHTGQAEKI 404
Cdd:COG2227   28 VLDVGCGTGRLALALARRGADVTGVDISPEALEIARERAAELNV---DFVQGDLEDL 81
SmtA COG0500
SAM-dependent methyltransferase [Secondary metabolites biosynthesis, transport and catabolism, ...
 349-406 5.71e-05

SAM-dependent methyltransferase [Secondary metabolites biosynthesis, transport and catabolism, General function prediction only];


Pssm-ID: 440266 [Multi-domain]  Cd Length: 199  Bit Score: 44.14  E-value: 5.71e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 269784676 349 LDICCGTGVIGLSLAQHT-SRVLGIELLEQAVEDARWTAAFNGITNSEFHTGQAEKILP 406
Cdd:COG0500   31 LDLGCGTGRNLLALAARFgGRVIGIDLSPEAIALARARAAKAGLGNVEFLVADLAELDP 89
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 348-441 1.15e-04

S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).


Pssm-ID: 100107 [Multi-domain]  Cd Length: 107  Bit Score: 41.26  E-value: 1.15e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676 348 LLDICCGTGVIGLSLAQHTS-RVLGIELLEQAVEDARWTAAFNGITNSEFHTGQAEKILPgllksKEDGQSIVAVVNPAR 426
Cdd:cd02440    2 VLDLGCGTGALALALASGPGaRVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPP-----EADESFDVIISDPPL 76

                         90
                 ....*....|....*
gi 269784676 427 AGLHYKVIQAIRNFR 441
Cdd:cd02440   77 HHLVEDLARFLEEAR 91
MTS pfam05175
Methyltransferase small domain; This domain is found in ribosomal RNA small subunit ...
 349-437 1.19e-04

Methyltransferase small domain; This domain is found in ribosomal RNA small subunit methyltransferase C as well as other methyltransferases.


Pssm-ID: 428349 [Multi-domain]  Cd Length: 170  Bit Score: 42.58  E-value: 1.19e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  349 LDICCGTGVIGLSLAQHTSRVlGIELLE---QAVEDARWTAAFNGITNSEFHTGQaekilpgLLKSKEDGQSIVAVVNPA 425
Cdd:pfam05175  36 LDLGCGAGVLGAALAKESPDA-ELTMVDinaRALESARENLAANGLENGEVVASD-------VYSGVEDGKFDLIISNPP 107

                          90
                  ....*....|....*
gi 269784676  426 -RAGLH--YKVIQAI 437
Cdd:pfam05175 108 fHAGLAttYNVAQRF 122
PrmA pfam06325
Ribosomal protein L11 methyltransferase (PrmA); This family consists of several Ribosomal ...
 342-420 1.69e-04

Ribosomal protein L11 methyltransferase (PrmA); This family consists of several Ribosomal protein L11 methyltransferase (EC:2.1.1.-) sequences.


Pssm-ID: 428888 [Multi-domain]  Cd Length: 294  Bit Score: 43.41  E-value: 1.69e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269784676  342 VNSDTILLDICCGTGVigLSLAQH---TSRVLGIELLEQAVEDARWTAAFNGITNsefhtgQAEKILPG-LLKSKEDGqs 417
Cdd:pfam06325 159 VKPGESVLDVGCGSGI--LAIAALklgAKKVVGVDIDPVAVRAAKENAELNGVEA------RLEVYLPGdLPKEKADV-- 228


                  ...
gi 269784676  418 IVA 420
Cdd:pfam06325 229 VVA 231
COG4976 COG4976
Predicted methyltransferase, contains TPR repeat [General function prediction only];
349-383 2.01e-04

Predicted methyltransferase, contains TPR repeat [General function prediction only];


Pssm-ID: 444001 [Multi-domain]  Cd Length: 181  Bit Score: 42.29  E-value: 2.01e-04
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 269784676 349 LDICCGTGVIGLSLAQHTSRVLGIELLEQAVEDAR 383
Cdd:COG4976   51 LDLGCGTGLLGEALRPRGYRLTGVDLSEEMLAKAR 85
Trm11 COG1041
tRNA G10 N-methylase Trm11 [Translation, ribosomal structure and biogenesis]; tRNA G10 ...
 334-404 1.44e-03

tRNA G10 N-methylase Trm11 [Translation, ribosomal structure and biogenesis]; tRNA G10 N-methylase Trm11 is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 440663 [Multi-domain]  Cd Length: 172  Bit Score: 39.55  E-value: 1.44e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 269784676 334 RTVGELTGVNSDTILLDICCGTGVI---GLSLAqhtSRVLGIELLEQAVEDARWTAAFNGITNSEFHTGQAEKI 404
Cdd:COG1041   16 RALVNLAGAKEGDTVLDPFCGTGTIlieAGLLG---RRVIGSDIDPKMVEGARENLEHYGYEDADVIRGDARDL 86
PRK14968 PRK14968
putative methyltransferase; Provisional
 349-393 2.59e-03

putative methyltransferase; Provisional


Pssm-ID: 237872 [Multi-domain]  Cd Length: 188  Bit Score: 39.11  E-value: 2.59e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 269784676 349 LDICCGTGVIGLSLAQHTSRVLGIELLEQAVEDARWTAAFNGITN 393
Cdd:PRK14968  28 LEVGTGSGIVAIVAAKNGKKVVGVDINPYAVECAKCNAKLNNIRN 72
Tam COG4106
Trans-aconitate methyltransferase [Energy production and conversion];
349-407 3.55e-03

Trans-aconitate methyltransferase [Energy production and conversion];


Pssm-ID: 443282 [Multi-domain]  Cd Length: 100  Bit Score: 37.11  E-value: 3.55e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 269784676 349 LDICCGTGVIGLSLAQHT--SRVLGIELLEQAVEDARwtAAFNGITnseFHTGQAEKILPG 407
Cdd:COG4106    6 LDLGCGTGRLTALLAERFpgARVTGVDLSPEMLARAR--ARLPNVR---FVVADLRDLDPP 61
 
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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