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Conserved domains on  [gi|2044608409|gb|QVU39972|]
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Methyl Transferase [Magnaporthe oryzae polymycovirus 2]

Protein Classification

RsmD family RNA methyltransferase( domain architecture ID 1903729)

RsmD family RNA methyltransferase similar to 16S rRNA (guanine(966)-N(2))-methyltransferase RsmD, which specifically methylates the guanine in position 966 of 16S rRNA in the assembled 30S particle

CATH:  3.40.50.150
EC:  2.1.1.-
Gene Ontology:  GO:0003676|GO:0031167|GO:0008168

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RsmD super family cl42796
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 29-107 1.28e-07

16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA G966 N2-methylase RsmD is part of the Pathway/BioSystem: 16S rRNA modification


The actual alignment was detected with superfamily member COG0742:

Pssm-ID: 440505 [Multi-domain]  Cd Length: 183  Bit Score: 51.62  E-value: 1.28e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2044608409  29 RLAGTRVLVL--GSGSskaltrL----LSRGVSSAVFVDTSEDALADLDRSVQAVGLHARVEVeyVCEDAWTFLEGCDDN 102
Cdd:COG0742    39 DIEGARVLDLfaGSGA------LgleaLSRGAASVVFVEKDRKAAAVIRKNLEKLGLEDRARV--IRGDALRFLKRLAGE 110


                  ....*
gi 2044608409 103 SFDVV 107
Cdd:COG0742   111 PFDLV 115
 
Name Accession Description Interval E-value
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 29-107 1.28e-07

16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA G966 N2-methylase RsmD is part of the Pathway/BioSystem: 16S rRNA modification


Pssm-ID: 440505 [Multi-domain]  Cd Length: 183  Bit Score: 51.62  E-value: 1.28e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2044608409  29 RLAGTRVLVL--GSGSskaltrL----LSRGVSSAVFVDTSEDALADLDRSVQAVGLHARVEVeyVCEDAWTFLEGCDDN 102
Cdd:COG0742    39 DIEGARVLDLfaGSGA------LgleaLSRGAASVVFVEKDRKAAAVIRKNLEKLGLEDRARV--IRGDALRFLKRLAGE 110


                  ....*
gi 2044608409 103 SFDVV 107
Cdd:COG0742   111 PFDLV 115
Methyltransf_25 pfam13649
Methyltransferase domain; This family appears to be a methyltransferase domain.
 35-110 1.72e-04

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


Pssm-ID: 463945 [Multi-domain]  Cd Length: 96  Bit Score: 40.62  E-value: 1.72e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2044608409  35 VLVLGSGSSKALTRLLSRGVSSAVFVDTSEDALADLDRSVQAVGLHarveVEYVCEDAWTFLEgcDDNSFDVVIAT 110
Cdd:pfam13649   1 VLDLGCGTGRLTLALARRGGARVTGVDLSPEMLERARERAAEAGLN----VEFVQGDAEDLPF--PDGSFDLVVSS 70
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 34-144 9.47e-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: 38.95  E-value: 9.47e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2044608409  34 RVLVLGSGSSKALTRLLSRGVSSAVFVDTSEDALAdLDRSVQAVGLHARVEVeyVCEDAWTFLEgCDDNSFDVVIATkcv 113
Cdd:cd02440     1 RVLDLGCGTGALALALASGPGARVTGVDISPVALE-LARKAAAALLADNVEV--LKGDAEELPP-EADESFDVIISD--- 73

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2044608409 114 gLVLSgPGQRDEARLLDLVTDVLDVDGSFFT 144
Cdd:cd02440    74 -PPLH-HLVEDLARFLEEARRLLKPGGVLVL 102
 
Name Accession Description Interval E-value
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 29-107 1.28e-07

16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA G966 N2-methylase RsmD is part of the Pathway/BioSystem: 16S rRNA modification


Pssm-ID: 440505 [Multi-domain]  Cd Length: 183  Bit Score: 51.62  E-value: 1.28e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2044608409  29 RLAGTRVLVL--GSGSskaltrL----LSRGVSSAVFVDTSEDALADLDRSVQAVGLHARVEVeyVCEDAWTFLEGCDDN 102
Cdd:COG0742    39 DIEGARVLDLfaGSGA------LgleaLSRGAASVVFVEKDRKAAAVIRKNLEKLGLEDRARV--IRGDALRFLKRLAGE 110


                  ....*
gi 2044608409 103 SFDVV 107
Cdd:COG0742   111 PFDLV 115
Methyltransf_25 pfam13649
Methyltransferase domain; This family appears to be a methyltransferase domain.
 35-110 1.72e-04

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


Pssm-ID: 463945 [Multi-domain]  Cd Length: 96  Bit Score: 40.62  E-value: 1.72e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2044608409  35 VLVLGSGSSKALTRLLSRGVSSAVFVDTSEDALADLDRSVQAVGLHarveVEYVCEDAWTFLEgcDDNSFDVVIAT 110
Cdd:pfam13649   1 VLDLGCGTGRLTLALARRGGARVTGVDLSPEMLERARERAAEAGLN----VEFVQGDAEDLPF--PDGSFDLVVSS 70
UbiE COG2226
Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG [Coenzyme transport and metabolism]; ...
 14-110 6.15e-04

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: 40.36  E-value: 6.15e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2044608409  14 AEYVSTFYQFLSRSVRLAGTRVLVLGSGSSkALTRLLSRGVSSAVFVDTSEDALADLDRSVQAVGLHarveVEYVCEDAW 93
Cdd:COG2226     5 AARYDGREALLAALGLRPGARVLDLGCGTG-RLALALAERGARVTGVDISPEMLELARERAAEAGLN----VEFVVGDAE 79

                          90
                  ....*....|....*..
gi 2044608409  94 TFleGCDDNSFDVVIAT 110
Cdd:COG2226    80 DL--PFPDGSFDLVISS 94
SmtA COG0500
SAM-dependent methyltransferase [Secondary metabolites biosynthesis, transport and catabolism, ...
 31-166 7.44e-04

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


Pssm-ID: 440266 [Multi-domain]  Cd Length: 199  Bit Score: 41.06  E-value: 7.44e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2044608409  31 AGTRVLVLGSGSSKALTRLLSRGVSSAVFVDTSEDALADLDRSVQAVGLHarvEVEYVCEDAwTFLEGCDDNSFDVVIAT 110
Cdd:COG0500    26 KGGRVLDLGCGTGRNLLALAARFGGRVIGIDLSPEAIALARARAAKAGLG---NVEFLVADL-AELDPLPAESFDLVVAF 101

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2044608409 111 KCVGLVlsGPGQRDeaRLLDLVTDVLDVDGSFFTdhQVAFSDPALSLQRVADVAGE 166
Cdd:COG0500   102 GVLHHL--PPEERE--ALLRELARALKPGGVLLL--SASDAAAALSLARLLLLATA 151
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 34-144 9.47e-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: 38.95  E-value: 9.47e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2044608409  34 RVLVLGSGSSKALTRLLSRGVSSAVFVDTSEDALAdLDRSVQAVGLHARVEVeyVCEDAWTFLEgCDDNSFDVVIATkcv 113
Cdd:cd02440     1 RVLDLGCGTGALALALASGPGARVTGVDISPVALE-LARKAAAALLADNVEV--LKGDAEELPP-EADESFDVIISD--- 73

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2044608409 114 gLVLSgPGQRDEARLLDLVTDVLDVDGSFFT 144
Cdd:cd02440    74 -PPLH-HLVEDLARFLEEARRLLKPGGVLVL 102
UbiG COG2227
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme transport and ...
 26-153 2.66e-03

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: 38.07  E-value: 2.66e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2044608409  26 RSVRLAGTRVLVLGSGSSKALTRLLSRGVsSAVFVDTSEDALAdldrsvQAVGLHARVEVEYVCEDAWTFLEgcDDNSFD 105
Cdd:COG2227    19 ARLLPAGGRVLDVGCGTGRLALALARRGA-DVTGVDISPEALE------IARERAAELNVDFVQGDLEDLPL--EDGSFD 89

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2044608409 106 VVIATKCVGLVlsgpgqRDEARLLDLVTDVLDVDGSFFtdhqvaFSDP 153
Cdd:COG2227    90 LVICSEVLEHL------PDPAALLRELARLLKPGGLLL------LSTP 125
Cfa COG2230
Cyclopropane fatty-acyl-phospholipid synthase and related methyltransferases [Lipid transport ...
 20-143 3.89e-03

Cyclopropane fatty-acyl-phospholipid synthase and related methyltransferases [Lipid transport and metabolism];


Pssm-ID: 441831 [Multi-domain]  Cd Length: 158  Bit Score: 37.99  E-value: 3.89e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2044608409  20 FYQFLSRSVRL-AGTRVLVLGSGSSKALTRLLSRGVSSAVFVDTSEDALADLDRSVQAVGLHARVEVEyvCEDAWTFLEg 98
Cdd:COG2230    39 KLDLILRKLGLkPGMRVLDIGCGWGGLALYLARRYGVRVTGVTLSPEQLEYARERAAEAGLADRVEVR--LADYRDLPA- 115

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2044608409  99 cdDNSFDVVIatkCVGlVLSGPGQRDEARLLDLVTDVLDVDGSFF 143
Cdd:COG2230   116 --DGQFDAIV---SIG-MFEHVGPENYPAYFAKVARLLKPGGRLL 154
 
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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