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Conserved domains on  [gi|2415962259|ref|WP_269207976|]
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16S rRNA (guanine(966)-N(2))-methyltransferase RsmD [Thermoanaerobacter indiensis]

Protein Classification

RsmD family RNA methyltransferase( domain architecture ID 10002368)

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 COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 3-183 2.82e-88

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: 256.55  E-value: 2.82e-88
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259   3 LRVIAGKLKGRKVKSLDGSEVRPTADRVKESLFNILMNKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCI 82
Cdd:COG0742     1 MRIIGGKARGRKLKVPKGPGTRPTTDRVREALFNILGPDIEGARVLDLFAGSGALGLEALSRGAASVVFVEKDRKAAAVI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  83 RENVAELNLIPFAKILHRDVLKVIEILdkNNTKFDIIFLDPPYYQNLAEKTLIKLGEAKVLKEDGIIIAEHHKNDKIRER 162
Cdd:COG0742    81 RKNLEKLGLEDRARVIRGDALRFLKRL--AGEPFDLVFLDPPYAKGLLEKALELLAENGLLAPGGLIVVEHSKREELPEL 158

                         170       180
                  ....*....|....*....|.
gi 2415962259 163 YGNLVKIRENKYGETILSFYK 183
Cdd:COG0742   159 PAGLELLKERKYGDTRLSFYR 179
 
Name Accession Description Interval E-value
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 3-183 2.82e-88

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: 256.55  E-value: 2.82e-88
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259   3 LRVIAGKLKGRKVKSLDGSEVRPTADRVKESLFNILMNKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCI 82
Cdd:COG0742     1 MRIIGGKARGRKLKVPKGPGTRPTTDRVREALFNILGPDIEGARVLDLFAGSGALGLEALSRGAASVVFVEKDRKAAAVI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  83 RENVAELNLIPFAKILHRDVLKVIEILdkNNTKFDIIFLDPPYYQNLAEKTLIKLGEAKVLKEDGIIIAEHHKNDKIRER 162
Cdd:COG0742    81 RKNLEKLGLEDRARVIRGDALRFLKRL--AGEPFDLVFLDPPYAKGLLEKALELLAENGLLAPGGLIVVEHSKREELPEL 158

                         170       180
                  ....*....|....*....|.
gi 2415962259 163 YGNLVKIRENKYGETILSFYK 183
Cdd:COG0742   159 PAGLELLKERKYGDTRLSFYR 179
Cons_hypoth95 pfam03602
Conserved hypothetical protein 95;
3-183 2.99e-67

Conserved hypothetical protein 95;


Pssm-ID: 427391 [Multi-domain]  Cd Length: 179  Bit Score: 203.24  E-value: 2.99e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259   3 LRVIAGKLKGRKVKSLDGSEVRPTADRVKESLFNILMNKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCI 82
Cdd:pfam03602   1 MRIIGGKARGRKLKVPPGPGTRPTTDRVREALFNWLAPYIEGARVLDLFAGSGALGLEALSRGAKRVTLVEKDKRAVQIL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  83 RENVAELNLipFAKILHRDVLKVIEILDKNNTKFDIIFLDPPYYQNLAEKTLIKLGEAKVLKEDGIIIAEHHKNDKIRER 162
Cdd:pfam03602  81 KENLQLLGL--PGAVLVMDALLALLRLAGKGPVFDIVFLDPPYAKGLIEEVLDLLAEKGWLKPNALIYVETEKRGELPEQ 158

                         170       180
                  ....*....|....*....|.
gi 2415962259 163 YGNLVKIRENKYGETILSFYK 183
Cdd:pfam03602 159 PGNLELVREKKYGQTTLAFYQ 179
TIGR00095 TIGR00095
16S rRNA (guanine(966)-N(2))-methyltransferase RsmD; This model represents a family of ...
 3-183 1.75e-53

16S rRNA (guanine(966)-N(2))-methyltransferase RsmD; This model represents a family of uncharacterized bacterial proteins. Members are present in nearly every complete bacterial genome, always in a single copy. PSI-BLAST analysis shows homology to several families of SAM-dependent methyltransferases, including ribosomal RNA adenine dimethylases. [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 188022 [Multi-domain]  Cd Length: 190  Bit Score: 168.74  E-value: 1.75e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259   3 LRVIAGKLKGRKVKSLDGSEVRPTADRVKESLFNILMNKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCI 82
Cdd:TIGR00095  10 IRIIGGQYRGRKLKVPPGPSTRPTTDRVRESLFNILRPDIVGAHFLDLFAGSGALGLEALSRGAASAVFVEQDRKVAQTL 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  83 RENVAELNLIPFAKILHRDVLKVIEILDKNNTKFDIIFLDPPYYQNLAEKTLIKLGEAKVLKEDGIIIAEHHKNDKIRER 162
Cdd:TIGR00095  90 KENLSTLKKSGEQATVLNDAVRALLFLAKKQTPFDIIYLDPPFNRGLLEALLELLGENKWLNPKGLIVVEYDRENELPTV 169

                         170       180
                  ....*....|....*....|.
gi 2415962259 163 YGNLVKIRENKYGETILSFYK 183
Cdd:TIGR00095 170 PETWSLLRQKVYGQSALRLYQ 190
rsmD PRK10909
16S rRNA m(2)G966-methyltransferase; Provisional
 3-152 7.02e-27

16S rRNA m(2)G966-methyltransferase; Provisional


Pssm-ID: 236793  Cd Length: 199  Bit Score: 100.95  E-value: 7.02e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259   3 LRVIAGKLKGRKVKSLDGSEVRPTADRVKESLFNILMNKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCI 82
Cdd:PRK10909   13 IRIIGGQWRGRKLPVPDSPGLRPTTDRVRETLFNWLAPVIVDARCLDCFAGSGALGLEALSRYAAGATLLEMDRAVAQQL 92

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  83 RENVAELNlIPFAKILHRDVLkviEILDKNNTKFDIIFLDPPYYQNLAEKTLIKLGEAKVLKEDGIIIAE 152
Cdd:PRK10909   93 IKNLATLK-AGNARVVNTNAL---SFLAQPGTPHNVVFVDPPFRKGLLEETINLLEDNGWLADEALIYVE 158
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 47-152 6.15e-09

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: 51.28  E-value: 6.15e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  47 FLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCIRENVAELnLIPFAKILHRDVLkviEILDKNNTKFDIIFLDPPY- 125
Cdd:cd02440     2 VLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAAL-LADNVEVLKGDAE---ELPPEADESFDVIISDPPLh 77

                          90       100
                  ....*....|....*....|....*...
gi 2415962259 126 -YQNLAEKTLIKLgeAKVLKEDGIIIAE 152
Cdd:cd02440    78 hLVEDLARFLEEA--RRLLKPGGVLVLT 103
 
Name Accession Description Interval E-value
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 3-183 2.82e-88

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: 256.55  E-value: 2.82e-88
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259   3 LRVIAGKLKGRKVKSLDGSEVRPTADRVKESLFNILMNKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCI 82
Cdd:COG0742     1 MRIIGGKARGRKLKVPKGPGTRPTTDRVREALFNILGPDIEGARVLDLFAGSGALGLEALSRGAASVVFVEKDRKAAAVI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  83 RENVAELNLIPFAKILHRDVLKVIEILdkNNTKFDIIFLDPPYYQNLAEKTLIKLGEAKVLKEDGIIIAEHHKNDKIRER 162
Cdd:COG0742    81 RKNLEKLGLEDRARVIRGDALRFLKRL--AGEPFDLVFLDPPYAKGLLEKALELLAENGLLAPGGLIVVEHSKREELPEL 158

                         170       180
                  ....*....|....*....|.
gi 2415962259 163 YGNLVKIRENKYGETILSFYK 183
Cdd:COG0742   159 PAGLELLKERKYGDTRLSFYR 179
Cons_hypoth95 pfam03602
Conserved hypothetical protein 95;
3-183 2.99e-67

Conserved hypothetical protein 95;


Pssm-ID: 427391 [Multi-domain]  Cd Length: 179  Bit Score: 203.24  E-value: 2.99e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259   3 LRVIAGKLKGRKVKSLDGSEVRPTADRVKESLFNILMNKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCI 82
Cdd:pfam03602   1 MRIIGGKARGRKLKVPPGPGTRPTTDRVREALFNWLAPYIEGARVLDLFAGSGALGLEALSRGAKRVTLVEKDKRAVQIL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  83 RENVAELNLipFAKILHRDVLKVIEILDKNNTKFDIIFLDPPYYQNLAEKTLIKLGEAKVLKEDGIIIAEHHKNDKIRER 162
Cdd:pfam03602  81 KENLQLLGL--PGAVLVMDALLALLRLAGKGPVFDIVFLDPPYAKGLIEEVLDLLAEKGWLKPNALIYVETEKRGELPEQ 158

                         170       180
                  ....*....|....*....|.
gi 2415962259 163 YGNLVKIRENKYGETILSFYK 183
Cdd:pfam03602 159 PGNLELVREKKYGQTTLAFYQ 179
TIGR00095 TIGR00095
16S rRNA (guanine(966)-N(2))-methyltransferase RsmD; This model represents a family of ...
 3-183 1.75e-53

16S rRNA (guanine(966)-N(2))-methyltransferase RsmD; This model represents a family of uncharacterized bacterial proteins. Members are present in nearly every complete bacterial genome, always in a single copy. PSI-BLAST analysis shows homology to several families of SAM-dependent methyltransferases, including ribosomal RNA adenine dimethylases. [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 188022 [Multi-domain]  Cd Length: 190  Bit Score: 168.74  E-value: 1.75e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259   3 LRVIAGKLKGRKVKSLDGSEVRPTADRVKESLFNILMNKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCI 82
Cdd:TIGR00095  10 IRIIGGQYRGRKLKVPPGPSTRPTTDRVRESLFNILRPDIVGAHFLDLFAGSGALGLEALSRGAASAVFVEQDRKVAQTL 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  83 RENVAELNLIPFAKILHRDVLKVIEILDKNNTKFDIIFLDPPYYQNLAEKTLIKLGEAKVLKEDGIIIAEHHKNDKIRER 162
Cdd:TIGR00095  90 KENLSTLKKSGEQATVLNDAVRALLFLAKKQTPFDIIYLDPPFNRGLLEALLELLGENKWLNPKGLIVVEYDRENELPTV 169

                         170       180
                  ....*....|....*....|.
gi 2415962259 163 YGNLVKIRENKYGETILSFYK 183
Cdd:TIGR00095 170 PETWSLLRQKVYGQSALRLYQ 190
rsmD PRK10909
16S rRNA m(2)G966-methyltransferase; Provisional
 3-152 7.02e-27

16S rRNA m(2)G966-methyltransferase; Provisional


Pssm-ID: 236793  Cd Length: 199  Bit Score: 100.95  E-value: 7.02e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259   3 LRVIAGKLKGRKVKSLDGSEVRPTADRVKESLFNILMNKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCI 82
Cdd:PRK10909   13 IRIIGGQWRGRKLPVPDSPGLRPTTDRVRETLFNWLAPVIVDARCLDCFAGSGALGLEALSRYAAGATLLEMDRAVAQQL 92

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  83 RENVAELNlIPFAKILHRDVLkviEILDKNNTKFDIIFLDPPYYQNLAEKTLIKLGEAKVLKEDGIIIAE 152
Cdd:PRK10909   93 IKNLATLK-AGNARVVNTNAL---SFLAQPGTPHNVVFVDPPFRKGLLEETINLLEDNGWLADEALIYVE 158
RlmK COG1092
23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI [Translation, ribosomal structure ...
 47-151 7.11e-14

23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI [Translation, ribosomal structure and biogenesis]; 23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI is part of the Pathway/BioSystem: 23S rRNA modification


Pssm-ID: 440709 [Multi-domain]  Cd Length: 392  Bit Score: 68.67  E-value: 7.11e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  47 FLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCIRENvAELN-LIPFAKILHRDVLKVIEILDKNNTKFDIIFLDPP- 124
Cdd:COG1092   220 VLNLFSYTGGFSVHAAAGGAKSVTSVDLSATALEWAKEN-AALNgLDDRHEFVQADAFDWLRELAREGERFDLIILDPPa 298

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2415962259 125 --------------YyqnlaeKTLIKLGeAKVLKEDGIIIA 151
Cdd:COG1092   299 fakskkdlfdaqrdY------KDLNRLA-LKLLAPGGILVT 332
Trm11 COG1041
tRNA G10 N-methylase Trm11 [Translation, ribosomal structure and biogenesis]; tRNA G10 ...
 43-182 8.37e-10

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: 54.95  E-value: 8.37e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  43 EGSIFLDLFSGTGNIGIEALSRGAQfCYFVDKSLKSIKCIRENVAELNlIPFAKILHRDVLKvieiLDKNNTKFDIIFLD 122
Cdd:COG1041    26 EGDTVLDPFCGTGTILIEAGLLGRR-VIGSDIDPKMVEGARENLEHYG-YEDADVIRGDARD----LPLADESVDAIVTD 99

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2415962259 123 PPY----------YQNLAEKTLIKLgeAKVLKEDG-IIIAEHHKNDKIRERYGNLVKIRENKYGETILSFY 182
Cdd:COG1041   100 PPYgrsskisgeeLLELYEKALEEA--ARVLKPGGrVVIVTPRDIDELLEEAGFKVLERHEQRVHKSLTRY 168
TrmA COG2265
tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure ...
 48-124 1.28e-09

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: 56.34  E-value: 1.28e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2415962259  48 LDLFSGTGNIGIeALSRGAQFCYFVDKSLKSIKCIRENvAELNLIPFAKILHRDVLKVIEILDKNNtKFDIIFLDPP 124
Cdd:COG2265   238 LDLYCGVGTFAL-PLARRAKKVIGVEIVPEAVEDAREN-ARLNGLKNVEFVAGDLEEVLPELLWGG-RPDVVVLDPP 311
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 47-152 6.15e-09

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: 51.28  E-value: 6.15e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  47 FLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCIRENVAELnLIPFAKILHRDVLkviEILDKNNTKFDIIFLDPPY- 125
Cdd:cd02440     2 VLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAAL-LADNVEVLKGDAE---ELPPEADESFDVIISDPPLh 77

                          90       100
                  ....*....|....*....|....*...
gi 2415962259 126 -YQNLAEKTLIKLgeAKVLKEDGIIIAE 152
Cdd:cd02440    78 hLVEDLARFLEEA--RRLLKPGGVLVLT 103
RsmC COG2813
16S rRNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 47-173 1.75e-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: 51.73  E-value: 1.75e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  47 FLDLFSGTGNIGIEALSRGAQ-FCYFVDKSLKSIKCIRENVaELNLIPFAKILHRDVLKVIEildknNTKFDIIFLDPPY 125
Cdd:COG2813    53 VLDLGCGYGVIGLALAKRNPEaRVTLVDVNARAVELARANA-AANGLENVEVLWSDGLSGVP-----DGSFDLILSNPPF 126

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2415962259 126 YQNLA-EKTLIK--LGEAK-VLKEDG--IIIAEHHKN--DKIRERYGNLVKIRENK 173
Cdd:COG2813   127 HAGRAvDKEVAHalIADAArHLRPGGelWLVANRHLPyeRKLEELFGNVEVLARNK 182
MTS pfam05175
Methyltransferase small domain; This domain is found in ribosomal RNA small subunit ...
 48-174 8.72e-08

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: 49.51  E-value: 8.72e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  48 LDLFSGTGNIGIEALSRGAQFC-YFVDKSLKSIKCIRENvAELNLIPFAKILHRDVLKviEILDKnntKFDIIFLDPPYY 126
Cdd:pfam05175  36 LDLGCGAGVLGAALAKESPDAElTMVDINARALESAREN-LAANGLENGEVVASDVYS--GVEDG---KFDLIISNPPFH 109

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2415962259 127 QNLAEKTLIK---LGEAK-VLKEDG--IIIAEHHKN--DKIRERYGNL-VKIRENKY 174
Cdd:pfam05175 110 AGLATTYNVAqrfIADAKrHLRPGGelWIVANRFLGypPLLEELFGNVeVVAKTNGF 166
PRK15128 PRK15128
23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI;
40-126 2.37e-06

23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI;


Pssm-ID: 185082 [Multi-domain]  Cd Length: 396  Bit Score: 46.75  E-value: 2.37e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  40 NKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCIRENVaELNLIPFAK--ILHRDVLKVIEILDKNNTKFD 117
Cdd:PRK15128  217 RYVENKRVLNCFSYTGGFAVSALMGGCSQVVSVDTSQEALDIARQNV-ELNKLDLSKaeFVRDDVFKLLRTYRDRGEKFD 295


                  ....*....
gi 2415962259 118 IIFLDPPYY 126
Cdd:PRK15128  296 VIVMDPPKF 304
RF_mod_PrmC TIGR03534
protein-(glutamine-N5) methyltransferase, release factor-specific; Members of this protein ...
 47-146 5.57e-06

protein-(glutamine-N5) methyltransferase, release factor-specific; Members of this protein family are HemK (PrmC), a protein once thought to be involved in heme biosynthesis but now recognized to be a protein-glutamine methyltransferase that modifies the peptide chain release factors. All members of the seed alignment are encoded next to the release factor 1 gene (prfA) and confirmed by phylogenetic analysis. SIMBAL analysis (manuscript in prep.) shows the motif [LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers specificity for the release factors rather than for ribosomal protein L3. [Protein fate, Protein modification and repair]


Pssm-ID: 274634 [Multi-domain]  Cd Length: 250  Bit Score: 45.15  E-value: 5.57e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  47 FLDLFSGTGNIGIEALSR--GAQFcYFVDKSLKSIKCIRENVAELNLiPFAKILHRDVLKVIeildkNNTKFDIIFLDPP 124
Cdd:TIGR03534  90 VLDLGTGSGAIALALAKErpDARV-TAVDISPEALAVARKNARRLGL-ENVEFLQGDWFEPL-----PSGKFDLIVSNPP 162

                          90       100
                  ....*....|....*....|..
gi 2415962259 125 YyqnlaektlIKLGEAKVLKED 146
Cdd:TIGR03534 163 Y---------IPEADIHLLDPE 175
TRM1 COG1867
tRNA G26 N,N-dimethylase Trm1 [Translation, ribosomal structure and biogenesis]; tRNA G26 N, ...
 46-123 1.97e-05

tRNA G26 N,N-dimethylase Trm1 [Translation, ribosomal structure and biogenesis]; tRNA G26 N,N-dimethylase Trm1 is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 441472  Cd Length: 383  Bit Score: 44.09  E-value: 1.97e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  46 IFLDLFSGTG--------NIGIEAlsrgaqfcYFVDKSLKSIKCIRENVaELNLIPFAKILHRDVlkvIEILDKNNTKFD 117
Cdd:COG1867    60 SYLDALAASGirglryalEVGIKV--------TLNDIDPEAVELIRENL-ELNGLEDVEVYNRDA---NALLHELGRRFD 127


                  ....*.
gi 2415962259 118 IIFLDP 123
Cdd:COG1867   128 VVDLDP 133
hemK_fam TIGR00536
HemK family putative methylases; The gene hemK from E. coli was found to contribute to heme ...
 48-153 2.79e-05

HemK family putative methylases; The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase. Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. Both E. coli and H. influenzae have two members rather than one. The members from the Mycoplasmas have an additional C-terminal domain. [Protein fate, Protein modification and repair]


Pssm-ID: 273125 [Multi-domain]  Cd Length: 284  Bit Score: 43.11  E-value: 2.79e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  48 LDLFSGTGNIGIeALSRGAQFCYF--VDKSLKSIKCIRENVAELNLIPFAKILHRDVLKVIEILdknntKFDIIFLDPPY 125
Cdd:TIGR00536 119 LDLGTGSGCIAL-ALAYEFPNAEViaVDISPDALAVAEENAEKNQLEHRVEFIQSNLFEPLAGQ-----KIDIIVSNPPY 192

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2415962259 126 Y--QNLAEKTLIKLGE---AKVLKEDGIIIAEH 153
Cdd:TIGR00536 193 IdeEDLADLPNVVRFEpllALVGGDDGLNILRQ 225
HemK COG2890
Methylase of polypeptide chain release factors [Translation, ribosomal structure and ...
 38-125 6.58e-05

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


Pssm-ID: 442135 [Multi-domain]  Cd Length: 282  Bit Score: 42.06  E-value: 6.58e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  38 LMNKIEGSIFLDLFSGTGNIGIeALSR---GAQfCYFVDKSLKSIKCIRENVAELNLIPFAKILHRDVLKVIeildKNNT 114
Cdd:COG2890   107 LLPAGAPPRVLDLGTGSGAIAL-ALAKerpDAR-VTAVDISPDALAVARRNAERLGLEDRVRFLQGDLFEPL----PGDG 180

                          90
                  ....*....|.
gi 2415962259 115 KFDIIFLDPPY 125
Cdd:COG2890   181 RFDLIVSNPPY 191
PRK09328 PRK09328
N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
 40-125 2.44e-04

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


Pssm-ID: 236467 [Multi-domain]  Cd Length: 275  Bit Score: 40.53  E-value: 2.44e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  40 NKIEGSIFLDLFSGTGNIGIeALSR---GAQFcYFVDKSLKSIKCIRENvAELNLIPFAKILHRDVLKVIEildknNTKF 116
Cdd:PRK09328  105 LLKEPLRVLDLGTGSGAIAL-ALAKerpDAEV-TAVDISPEALAVARRN-AKHGLGARVEFLQGDWFEPLP-----GGRF 176


                  ....*....
gi 2415962259 117 DIIFLDPPY 125
Cdd:PRK09328  177 DLIVSNPPY 185
PRK04338 PRK04338
N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
 33-123 2.62e-04

N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional


Pssm-ID: 235286  Cd Length: 382  Bit Score: 40.67  E-value: 2.62e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  33 SLFNILMNKIEGSIFLDLFSGTGNIGIE-ALSRGAQFCYFVDKSLKSIKCIRENVaELNLIPFAKILHRDVlkviEILDK 111
Cdd:PRK04338   47 LVLRAFGPKLPRESVLDALSASGIRGIRyALETGVEKVTLNDINPDAVELIKKNL-ELNGLENEKVFNKDA----NALLH 121

                          90
                  ....*....|..
gi 2415962259 112 NNTKFDIIFLDP 123
Cdd:PRK04338  122 EERKFDVVDIDP 133
COG2263 COG2263
Predicted RNA methylase [General function prediction only];
38-124 3.47e-04

Predicted RNA methylase [General function prediction only];


Pssm-ID: 441864 [Multi-domain]  Cd Length: 199  Bit Score: 39.50  E-value: 3.47e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  38 LMNKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCIRENVAELNLipFAKILHRDVLKVieildKNNTKFD 117
Cdd:COG2263    40 LRGDIEGKTVLDLGCGTGMLAIGAALLGAKKVVGVDIDPEALEIARENAERLGV--RVDFIRADVTRI-----PLGGSVD 112


                  ....*..
gi 2415962259 118 IIFLDPP 124
Cdd:COG2263   113 TVVMNPP 119
Methyltransf_25 pfam13649
Methyltransferase domain; This family appears to be a methyltransferase domain.
 48-147 8.19e-04

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


Pssm-ID: 463945 [Multi-domain]  Cd Length: 96  Bit Score: 37.16  E-value: 8.19e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  48 LDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCIRENVAELNliPFAKILHRDVLKvieiLDKNNTKFDIIF------- 120
Cdd:pfam13649   2 LDLGCGTGRLTLALARRGGARVTGVDLSPEMLERARERAAEAG--LNVEFVQGDAED----LPFPDGSFDLVVssgvlhh 75

                          90       100
                  ....*....|....*....|....*...
gi 2415962259 121 LDPPYYQNLaektlikLGE-AKVLKEDG 147
Cdd:pfam13649  76 LPDPDLEAA-------LREiARVLKPGG 96
UbiG COG2227
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme transport and ...
 48-152 1.10e-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: 37.30  E-value: 1.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  48 LDLFSGTGNIGIEALSRGAQfCYFVDKSLKSIKCIRENVAELNLipfaKILHRDvlkvIEILDKNNTKFDIIFL------ 121
Cdd:COG2227    29 LDVGCGTGRLALALARRGAD-VTGVDISPEALEIARERAAELNV----DFVQGD----LEDLPLEDGSFDLVICsevleh 99

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2415962259 122 --DPpyyqnlaEKTLIKLgeAKVLKEDGIIIAE 152
Cdd:COG2227   100 lpDP-------AALLREL--ARLLKPGGLLLLS 123
Methyltransf_31 pfam13847
Methyltransferase domain; This family appears to have methyltransferase activity.
 43-158 1.73e-03

Methyltransferase domain; This family appears to have methyltransferase activity.


Pssm-ID: 463998 [Multi-domain]  Cd Length: 150  Bit Score: 37.01  E-value: 1.73e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  43 EGSIFLDLFSGTGNIGIEALSRGAQFCYFV--DKSLKSIKCIRENVAELNLIpFAKILHRDVLKVIEILDKNntKFDIIF 120
Cdd:pfam13847   3 KGMRVLDLGCGTGHLSFELAEELGPNAEVVgiDISEEAIEKARENAQKLGFD-NVEFEQGDIEELPELLEDD--KFDVVI 79

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2415962259 121 LDPP-YYQNLAEKTLIKLgeAKVLKEDGIIIAEHHKNDK 158
Cdd:pfam13847  80 SNCVlNHIPDPDKVLQEI--LRVLKPGGRLIISDPDSLA 116
COG2521 COG2521
Predicted archaeal methyltransferase [General function prediction only];
38-124 2.53e-03

Predicted archaeal methyltransferase [General function prediction only];


Pssm-ID: 442011 [Multi-domain]  Cd Length: 285  Bit Score: 37.58  E-value: 2.53e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  38 LMNKIEGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSlksikcirENV---AELNliPFA--------KILHRDVLKVI 106
Cdd:COG2521   127 LVGVRRGDRVLDTCTGLGYTAIEALKRGAREVITVEKD--------PNVlelAELN--PWSrelaneriKIILGDASEVI 196

                          90
                  ....*....|....*...
gi 2415962259 107 EILDknNTKFDIIFLDPP 124
Cdd:COG2521   197 KTFP--DESFDAIIHDPP 212
cbiT PRK00377
cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
 42-121 2.70e-03

cobalt-precorrin-6Y C(15)-methyltransferase; Provisional


Pssm-ID: 234740  Cd Length: 198  Bit Score: 37.08  E-value: 2.70e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  42 IEGSIFLDLFSGTGNIGIEA---LSRGAQfCYFVDKSLKSIKCIRENVAELnlipfaKILHRDVL---KVIEILDKNNTK 115
Cdd:PRK00377   39 RKGDMILDIGCGTGSVTVEAsllVGETGK-VYAVDKDEKAINLTRRNAEKF------GVLNNIVLikgEAPEILFTINEK 111


                  ....*.
gi 2415962259 116 FDIIFL 121
Cdd:PRK00377  112 FDRIFI 117
PRK14967 PRK14967
putative methyltransferase; Provisional
 44-125 2.89e-03

putative methyltransferase; Provisional


Pssm-ID: 184931 [Multi-domain]  Cd Length: 223  Bit Score: 36.95  E-value: 2.89e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  44 GSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCIRENvAELNLIPfAKILHRDVLKVIEILdknntKFDIIFLDP 123
Cdd:PRK14967   37 GRRVLDLCTGSGALAVAAAAAGAGSVTAVDISRRAVRSARLN-ALLAGVD-VDVRRGDWARAVEFR-----PFDVVVSNP 109


                  ..
gi 2415962259 124 PY 125
Cdd:PRK14967  110 PY 111
PrmA pfam06325
Ribosomal protein L11 methyltransferase (PrmA); This family consists of several Ribosomal ...
 43-163 3.15e-03

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: 37.25  E-value: 3.15e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  43 EGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCIRENvAELNLIP--FAKILHRDVLKvieildknnTKFDIIF 120
Cdd:pfam06325 161 PGESVLDVGCGSGILAIAALKLGAKKVVGVDIDPVAVRAAKEN-AELNGVEarLEVYLPGDLPK---------EKADVVV 230

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2415962259 121 ldppyyQN-LAEkTLIKLGE--AKVLKEDGIIIAE---HHKNDKIRERY 163
Cdd:pfam06325 231 ------ANiLAD-PLIELAPdiYALVKPGGYLILSgilKEQAQMVAEAY 272
COG4076 COG4076
Predicted RNA methylase [General function prediction only];
43-153 4.56e-03

Predicted RNA methylase [General function prediction only];


Pssm-ID: 443253 [Multi-domain]  Cd Length: 230  Bit Score: 36.55  E-value: 4.56e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  43 EGSIFLDLFSGTGNIGIEALSRGAQFCYFVDKSLKSIKCIRENVAELNLIPFAKILHRDVLKViEIldknNTKFDII--- 119
Cdd:COG4076    35 PGDVVLDIGTGSGLLSMLAARAGAKKVYAVEVNPDIAAVARRIIAANGLSDRITVINADATDL-DL----PEKADVIise 109

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2415962259 120 -----FLDPPYYQNL--AEKTLiklgeakvLKEDGIIIAEH 153
Cdd:COG4076   110 mldtaLLDEGQVPILnhARKRL--------LKPGGRIIPER 142
TrmN6 COG4123
tRNA1(Val) A37 N6-methylase TrmN6 [Translation, ribosomal structure and biogenesis]; tRNA1(Val) ...
 48-128 4.57e-03

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: 36.66  E-value: 4.57e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  48 LDLFSGTGNIGIEALSR-GAQFCYFVDKSLKSIKCIRENVAELNLIPFAKILHRDVLKVIEILDKNntKFDIIFLDPPYY 126
Cdd:COG4123    42 LDLGTGTGVIALMLAQRsPGARITGVEIQPEAAELARRNVALNGLEDRITVIHGDLKEFAAELPPG--SFDLVVSNPPYF 119


                  ..
gi 2415962259 127 QN 128
Cdd:COG4123   120 KA 121
CobL COG2242
Precorrin-6B methylase 2 [Coenzyme transport and metabolism]; Precorrin-6B methylase 2 is part ...
 43-91 7.02e-03

Precorrin-6B methylase 2 [Coenzyme transport and metabolism]; Precorrin-6B methylase 2 is part of the Pathway/BioSystem: Cobalamine/B12 biosynthesis


Pssm-ID: 441843 [Multi-domain]  Cd Length: 403  Bit Score: 36.30  E-value: 7.02e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2415962259  43 EGSIFLDLFSGTGNIGIEA--LSRGAQfCYFVDKSLKSIKCIRENVAELNL 91
Cdd:COG2242   247 PGDVLWDIGAGSGSVSIEAarLAPGGR-VYAIERDPERAALIRANARRFGV 296
TrmR COG4122
tRNA 5-hydroxyU34 O-methylase TrmR/YrrM [Translation, ribosomal structure and biogenesis]; ...
 53-171 9.13e-03

tRNA 5-hydroxyU34 O-methylase TrmR/YrrM [Translation, ribosomal structure and biogenesis]; tRNA 5-hydroxyU34 O-methylase TrmR/YrrM is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 443298  Cd Length: 173  Bit Score: 35.16  E-value: 9.13e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2415962259  53 GTGnIGI------EALSRGAQfCYFVDKSLKSIKCIRENVAELNLIPFAKILHRDVLKVIEILDKNntKFDIIFLD---- 122
Cdd:COG4122    24 GTG-TGYstlwlaRALPDDGR-LTTIEIDPERAAIARENFARAGLADRIRLILGDALEVLPRLADG--PFDLVFIDadks 99

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2415962259 123 --PPYYQNLAEKtliklgeakvLKEDGIIIAE----HHKNDKIRERYGNLVKIRE 171
Cdd:COG4122   100 nyPDYLELALPL----------LRPGGLIVADnvlwHGRVADPARRDPSTRAIRE 144
 
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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