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Conserved domains on  [gi|2449300410|ref|NP_001403928|]
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tRNA (cytosine(38)-C(5))-methyltransferase isoform 4 [Mus musculus]

Protein Classification

class I SAM-dependent methyltransferase( domain architecture ID 106779)

class I SAM-dependent methyltransferase catalyzes the methylation of one or more specific substrates using S-adenosyl-L-methionine (SAM or AdoMet) as the methyl donor

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AdoMet_MTases super family cl17173
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 1-119 1.66e-41

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.).


The actual alignment was detected with superfamily member cd00315:

Pssm-ID: 473071 [Multi-domain]  Cd Length: 275  Bit Score: 142.76  E-value: 1.66e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2449300410   1 MILMSPPCQPFTRIGLQGDMTDPRTTSFLYILDILPRLQklPKYILLENVKGFEV---SSTRGLLIQTIEACGFQYQEFL 77
Cdd:cd00315    65 LLTGGFPCQPFSIAGKRKGFEDTRGTLFFEIIRILKEKK--PKYFLLENVKGLLThdnGNTLKVILNTLEELGYNVYWKL 142

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2449300410  78 LSPSSLGIPNSRLRYFLIAKLQSEPFPFQAPGQILMEFPKIV 119
Cdd:cd00315   143 LNASDYGVPQNRERVFIIGIRKDLILNFFSPFPKPSEKKKTL 184
 
Name Accession Description Interval E-value
Cyt_C5_DNA_methylase cd00315
Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many ...
 1-119 1.66e-41

Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the mammalian genome. These effects include transcriptional repression via inhibition of transcription factor binding or the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability.


Pssm-ID: 238192 [Multi-domain]  Cd Length: 275  Bit Score: 142.76  E-value: 1.66e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2449300410   1 MILMSPPCQPFTRIGLQGDMTDPRTTSFLYILDILPRLQklPKYILLENVKGFEV---SSTRGLLIQTIEACGFQYQEFL 77
Cdd:cd00315    65 LLTGGFPCQPFSIAGKRKGFEDTRGTLFFEIIRILKEKK--PKYFLLENVKGLLThdnGNTLKVILNTLEELGYNVYWKL 142

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2449300410  78 LSPSSLGIPNSRLRYFLIAKLQSEPFPFQAPGQILMEFPKIV 119
Cdd:cd00315   143 LNASDYGVPQNRERVFIIGIRKDLILNFFSPFPKPSEKKKTL 184
Dcm COG0270
DNA-cytosine methylase [Replication, recombination and repair];
5-122 2.15e-19

DNA-cytosine methylase [Replication, recombination and repair];


Pssm-ID: 440040 [Multi-domain]  Cd Length: 277  Bit Score: 84.48  E-value: 2.15e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2449300410   5 SPPCQPFTRIGLQGDMTDPRTTSFLYILDILPRLQklPKYILLENVKGFEVS---STRGLLIQTIEACGFQYQEFLLSPS 81
Cdd:COG0270    73 GPPCQPFSVAGKRKGLEDPRGTLFFEFIRIVEELR--PKAFVLENVPGLLSSdkgKTFEEILKELEELGYRVDYKVLNAA 150

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2449300410  82 SLGIPNSRLRYFLIA-KLQSEPFPFQAPGqilmEFPKIVTVE 122
Cdd:COG0270   151 DYGVPQNRERVFIVGfRKDLDLFEFPEPT----HLKPYVTVG 188
DNA_methylase pfam00145
C-5 cytosine-specific DNA methylase;
1-108 7.01e-16

C-5 cytosine-specific DNA methylase;


Pssm-ID: 395093 [Multi-domain]  Cd Length: 324  Bit Score: 75.43  E-value: 7.01e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2449300410   1 MILMSPPCQPFTRIGLQGDMTDPRTTSFLYILDILPRLQklPKYILLENVKGFeVSSTRGLLIQTI----EACGFQYQEF 76
Cdd:pfam00145  63 ILTGGFPCQDFSIAGKQKGFEDTRGTLFFEIIRIIKEKK--PKAFLLENVKGL-LSHDNGNTLNVIletlEELGYHVSWK 139

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2449300410  77 LLSPSSLGIPNSRLRYFLIAKLQSEPFPFQAP 108
Cdd:pfam00145 140 VLNASDYGVPQNRERVFIVGIRKDLNLNVLVP 171
dcm TIGR00675
DNA-methyltransferase (dcm); All proteins in this family for which functions are known are ...
 1-131 8.49e-14

DNA-methyltransferase (dcm); All proteins in this family for which functions are known are DNA-cytosine methyltransferases. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273211 [Multi-domain]  Cd Length: 315  Bit Score: 69.28  E-value: 8.49e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2449300410   1 MILMSPPCQPFTRIGLQGDMTDPRTTSFLYILDILPrlQKLPKYILLENVKGFeVSSTRG----LLIQTIEACGFQYQEF 76
Cdd:TIGR00675  62 ILLGGFPCQPFSIAGKRKGFEDTRGTLFFEIVRILK--EKKPKFFLLENVKGL-VSHDKGrtfkVIIETLEELGYKVYYK 138

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2449300410  77 LLSPSSLGIPNSRLRYFLIA---KLQSEPFPFQAPGQ-----ILMEFPKIVTVEPQKYAVVEE 131
Cdd:TIGR00675 139 VLNAKDFGVPQNRERIYIVGfrdFDDKLNFEFPKPIYvakkkRIGDLLDLSVDLEEKYYLSEE 201
 
Name Accession Description Interval E-value
Cyt_C5_DNA_methylase cd00315
Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many ...
 1-119 1.66e-41

Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the mammalian genome. These effects include transcriptional repression via inhibition of transcription factor binding or the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability.


Pssm-ID: 238192 [Multi-domain]  Cd Length: 275  Bit Score: 142.76  E-value: 1.66e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2449300410   1 MILMSPPCQPFTRIGLQGDMTDPRTTSFLYILDILPRLQklPKYILLENVKGFEV---SSTRGLLIQTIEACGFQYQEFL 77
Cdd:cd00315    65 LLTGGFPCQPFSIAGKRKGFEDTRGTLFFEIIRILKEKK--PKYFLLENVKGLLThdnGNTLKVILNTLEELGYNVYWKL 142

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2449300410  78 LSPSSLGIPNSRLRYFLIAKLQSEPFPFQAPGQILMEFPKIV 119
Cdd:cd00315   143 LNASDYGVPQNRERVFIIGIRKDLILNFFSPFPKPSEKKKTL 184
Dcm COG0270
DNA-cytosine methylase [Replication, recombination and repair];
5-122 2.15e-19

DNA-cytosine methylase [Replication, recombination and repair];


Pssm-ID: 440040 [Multi-domain]  Cd Length: 277  Bit Score: 84.48  E-value: 2.15e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2449300410   5 SPPCQPFTRIGLQGDMTDPRTTSFLYILDILPRLQklPKYILLENVKGFEVS---STRGLLIQTIEACGFQYQEFLLSPS 81
Cdd:COG0270    73 GPPCQPFSVAGKRKGLEDPRGTLFFEFIRIVEELR--PKAFVLENVPGLLSSdkgKTFEEILKELEELGYRVDYKVLNAA 150

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2449300410  82 SLGIPNSRLRYFLIA-KLQSEPFPFQAPGqilmEFPKIVTVE 122
Cdd:COG0270   151 DYGVPQNRERVFIVGfRKDLDLFEFPEPT----HLKPYVTVG 188
DNA_methylase pfam00145
C-5 cytosine-specific DNA methylase;
1-108 7.01e-16

C-5 cytosine-specific DNA methylase;


Pssm-ID: 395093 [Multi-domain]  Cd Length: 324  Bit Score: 75.43  E-value: 7.01e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2449300410   1 MILMSPPCQPFTRIGLQGDMTDPRTTSFLYILDILPRLQklPKYILLENVKGFeVSSTRGLLIQTI----EACGFQYQEF 76
Cdd:pfam00145  63 ILTGGFPCQDFSIAGKQKGFEDTRGTLFFEIIRIIKEKK--PKAFLLENVKGL-LSHDNGNTLNVIletlEELGYHVSWK 139

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2449300410  77 LLSPSSLGIPNSRLRYFLIAKLQSEPFPFQAP 108
Cdd:pfam00145 140 VLNASDYGVPQNRERVFIVGIRKDLNLNVLVP 171
dcm TIGR00675
DNA-methyltransferase (dcm); All proteins in this family for which functions are known are ...
 1-131 8.49e-14

DNA-methyltransferase (dcm); All proteins in this family for which functions are known are DNA-cytosine methyltransferases. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273211 [Multi-domain]  Cd Length: 315  Bit Score: 69.28  E-value: 8.49e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2449300410   1 MILMSPPCQPFTRIGLQGDMTDPRTTSFLYILDILPrlQKLPKYILLENVKGFeVSSTRG----LLIQTIEACGFQYQEF 76
Cdd:TIGR00675  62 ILLGGFPCQPFSIAGKRKGFEDTRGTLFFEIVRILK--EKKPKFFLLENVKGL-VSHDKGrtfkVIIETLEELGYKVYYK 138

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2449300410  77 LLSPSSLGIPNSRLRYFLIA---KLQSEPFPFQAPGQ-----ILMEFPKIVTVEPQKYAVVEE 131
Cdd:TIGR00675 139 VLNAKDFGVPQNRERIYIVGfrdFDDKLNFEFPKPIYvakkkRIGDLLDLSVDLEEKYYLSEE 201
 
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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