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Conserved domains on  [gi|1063714334|ref|NP_001326388|]
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methyltransferase [Arabidopsis thaliana]

Protein Classification

RsmD family RNA methyltransferase( domain architecture ID 10508003)

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

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Cons_hypoth95 pfam03602
Conserved hypothetical protein 95;
69-258 6.30e-71

Conserved hypothetical protein 95;


:

Pssm-ID: 427391 [Multi-domain]  Cd Length: 179  Bit Score: 215.95  E-value: 6.30e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334  69 LQVLAGTAKRKKLLSLKGMDVRPMMEVVKGAAFGILQAAggcptsLRPGRWLDLYSGTGSVGIEAISRGCSEAHFVEMDP 148
Cdd:pfam03602   1 MRIIGGKARGRKLKVPPGPGTRPTTDRVREALFNWLAPY------IEGARVLDLFAGSGALGLEALSRGAKRVTLVEKDK 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334 149 WVVSnVLQPNLEHTGFVDASVIHTArvenfLERADKLVGKDGVFDYISVTPPYMEVDYEVLMDQIAKSPAIGENTFILVE 228
Cdd:pfam03602  75 RAVQ-ILKENLQLLGLPGAVLVMDA-----LLALLRLAGKGPVFDIVFLDPPYAKGLIEEVLDLLAEKGWLKPNALIYVE 148
                         170       180       190
                  ....*....|....*....|....*....|
gi 1063714334 229 YPSRTTMLDSCGCLEKMTDRRFGRTHLAIY 258
Cdd:pfam03602 149 TEKRGELPEQPGNLELVREKKYGQTTLAFY 178
 
Name Accession Description Interval E-value
Cons_hypoth95 pfam03602
Conserved hypothetical protein 95;
69-258 6.30e-71

Conserved hypothetical protein 95;


Pssm-ID: 427391 [Multi-domain]  Cd Length: 179  Bit Score: 215.95  E-value: 6.30e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334  69 LQVLAGTAKRKKLLSLKGMDVRPMMEVVKGAAFGILQAAggcptsLRPGRWLDLYSGTGSVGIEAISRGCSEAHFVEMDP 148
Cdd:pfam03602   1 MRIIGGKARGRKLKVPPGPGTRPTTDRVREALFNWLAPY------IEGARVLDLFAGSGALGLEALSRGAKRVTLVEKDK 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334 149 WVVSnVLQPNLEHTGFVDASVIHTArvenfLERADKLVGKDGVFDYISVTPPYMEVDYEVLMDQIAKSPAIGENTFILVE 228
Cdd:pfam03602  75 RAVQ-ILKENLQLLGLPGAVLVMDA-----LLALLRLAGKGPVFDIVFLDPPYAKGLIEEVLDLLAEKGWLKPNALIYVE 148
                         170       180       190
                  ....*....|....*....|....*....|
gi 1063714334 229 YPSRTTMLDSCGCLEKMTDRRFGRTHLAIY 258
Cdd:pfam03602 149 TEKRGELPEQPGNLELVREKKYGQTTLAFY 178
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
69-258 3.79e-43

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: 144.84  E-value: 3.79e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334  69 LQVLAGTAKRKKLLSLKGMDVRPMMEVVKGAAFGILQAaggcptSLRPGRWLDLYSGTGSVGIEAISRGCSEAHFVEMDP 148
Cdd:COG0742     1 MRIIGGKARGRKLKVPKGPGTRPTTDRVREALFNILGP------DIEGARVLDLFAGSGALGLEALSRGAASVVFVEKDR 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334 149 WVVsNVLQPNLEHTGFVDASVIHTARVENFLERAdklvgKDGVFDYISVTPPYMEVDYEVLMDQIAKSPAIGENTFILVE 228
Cdd:COG0742    75 KAA-AVIRKNLEKLGLEDRARVIRGDALRFLKRL-----AGEPFDLVFLDPPYAKGLLEKALELLAENGLLAPGGLIVVE 148
                         170       180       190
                  ....*....|....*....|....*....|
gi 1063714334 229 YPSRTTMLDSCGCLEKMTDRRFGRTHLAIY 258
Cdd:COG0742   149 HSKREELPELPAGLELLKERKYGDTRLSFY 178
TIGR00095 TIGR00095
16S rRNA (guanine(966)-N(2))-methyltransferase RsmD; This model represents a family of ...
69-258 1.99e-28

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: 107.11  E-value: 1.99e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334  69 LQVLAGTAKRKKLLSLKGMDVRPMMEVVKGAAFGILQAaggcptSLRPGRWLDLYSGTGSVGIEAISRGCSEAHFVEMDP 148
Cdd:TIGR00095  10 IRIIGGQYRGRKLKVPPGPSTRPTTDRVRESLFNILRP------DIVGAHFLDLFAGSGALGLEALSRGAASAVFVEQDR 83
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334 149 wVVSNVLQPNLEhtgFVDASViHTARVENFLERA-DKLVGKDGVFDYISVTPPYMEVDYEVLMDQIAKSPAIGENTFILV 227
Cdd:TIGR00095  84 -KVAQTLKENLS---TLKKSG-EQATVLNDAVRAlLFLAKKQTPFDIIYLDPPFNRGLLEALLELLGENKWLNPKGLIVV 158
                         170       180       190
                  ....*....|....*....|....*....|.
gi 1063714334 228 EYPSRTTMLDSCGCLEKMTDRRFGRTHLAIY 258
Cdd:TIGR00095 159 EYDRENELPTVPETWSLLRQKVYGQSALRLY 189
 
Name Accession Description Interval E-value
Cons_hypoth95 pfam03602
Conserved hypothetical protein 95;
69-258 6.30e-71

Conserved hypothetical protein 95;


Pssm-ID: 427391 [Multi-domain]  Cd Length: 179  Bit Score: 215.95  E-value: 6.30e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334  69 LQVLAGTAKRKKLLSLKGMDVRPMMEVVKGAAFGILQAAggcptsLRPGRWLDLYSGTGSVGIEAISRGCSEAHFVEMDP 148
Cdd:pfam03602   1 MRIIGGKARGRKLKVPPGPGTRPTTDRVREALFNWLAPY------IEGARVLDLFAGSGALGLEALSRGAKRVTLVEKDK 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334 149 WVVSnVLQPNLEHTGFVDASVIHTArvenfLERADKLVGKDGVFDYISVTPPYMEVDYEVLMDQIAKSPAIGENTFILVE 228
Cdd:pfam03602  75 RAVQ-ILKENLQLLGLPGAVLVMDA-----LLALLRLAGKGPVFDIVFLDPPYAKGLIEEVLDLLAEKGWLKPNALIYVE 148
                         170       180       190
                  ....*....|....*....|....*....|
gi 1063714334 229 YPSRTTMLDSCGCLEKMTDRRFGRTHLAIY 258
Cdd:pfam03602 149 TEKRGELPEQPGNLELVREKKYGQTTLAFY 178
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
69-258 3.79e-43

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: 144.84  E-value: 3.79e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334  69 LQVLAGTAKRKKLLSLKGMDVRPMMEVVKGAAFGILQAaggcptSLRPGRWLDLYSGTGSVGIEAISRGCSEAHFVEMDP 148
Cdd:COG0742     1 MRIIGGKARGRKLKVPKGPGTRPTTDRVREALFNILGP------DIEGARVLDLFAGSGALGLEALSRGAASVVFVEKDR 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334 149 WVVsNVLQPNLEHTGFVDASVIHTARVENFLERAdklvgKDGVFDYISVTPPYMEVDYEVLMDQIAKSPAIGENTFILVE 228
Cdd:COG0742    75 KAA-AVIRKNLEKLGLEDRARVIRGDALRFLKRL-----AGEPFDLVFLDPPYAKGLLEKALELLAENGLLAPGGLIVVE 148
                         170       180       190
                  ....*....|....*....|....*....|
gi 1063714334 229 YPSRTTMLDSCGCLEKMTDRRFGRTHLAIY 258
Cdd:COG0742   149 HSKREELPELPAGLELLKERKYGDTRLSFY 178
TIGR00095 TIGR00095
16S rRNA (guanine(966)-N(2))-methyltransferase RsmD; This model represents a family of ...
69-258 1.99e-28

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: 107.11  E-value: 1.99e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334  69 LQVLAGTAKRKKLLSLKGMDVRPMMEVVKGAAFGILQAaggcptSLRPGRWLDLYSGTGSVGIEAISRGCSEAHFVEMDP 148
Cdd:TIGR00095  10 IRIIGGQYRGRKLKVPPGPSTRPTTDRVRESLFNILRP------DIVGAHFLDLFAGSGALGLEALSRGAASAVFVEQDR 83
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063714334 149 wVVSNVLQPNLEhtgFVDASViHTARVENFLERA-DKLVGKDGVFDYISVTPPYMEVDYEVLMDQIAKSPAIGENTFILV 227
Cdd:TIGR00095  84 -KVAQTLKENLS---TLKKSG-EQATVLNDAVRAlLFLAKKQTPFDIIYLDPPFNRGLLEALLELLGENKWLNPKGLIVV 158
                         170       180       190
                  ....*....|....*....|....*....|.
gi 1063714334 228 EYPSRTTMLDSCGCLEKMTDRRFGRTHLAIY 258
Cdd:TIGR00095 159 EYDRENELPTVPETWSLLRQKVYGQSALRLY 189
 
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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