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Conserved domains on  [gi|308165362|gb|EFO67595|]
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conserved hypothetical protein 95 [Lactobacillus iners LactinV 09V1-c]

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 ...
 2-98 4.29e-20

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: 79.36  E-value: 4.29e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308165362   2 LTKEKERFEIFKNSDLRAISILASRnyHFDLVFLDPPYAKEKIIKVMKIMLDANILNEKALIVAETDENVELPDV-EGYS 80
Cdd:COG0742   86 KLGLEDRARVIRGDALRFLKRLAGE--PFDLVFLDPPYAKGLLEKALELLAENGLLAPGGLIVVEHSKREELPELpAGLE 163

                         90
                 ....*....|....*...
gi 308165362  81 LINRHHLGRTKFKIYERK 98
Cdd:COG0742  164 LLKERKYGDTRLSFYRRE 181
 
Name Accession Description Interval E-value
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 2-98 4.29e-20

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: 79.36  E-value: 4.29e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308165362   2 LTKEKERFEIFKNSDLRAISILASRnyHFDLVFLDPPYAKEKIIKVMKIMLDANILNEKALIVAETDENVELPDV-EGYS 80
Cdd:COG0742   86 KLGLEDRARVIRGDALRFLKRLAGE--PFDLVFLDPPYAKGLLEKALELLAENGLLAPGGLIVVEHSKREELPELpAGLE 163

                         90
                 ....*....|....*...
gi 308165362  81 LINRHHLGRTKFKIYERK 98
Cdd:COG0742  164 LLKERKYGDTRLSFYRRE 181
TIGR00095 TIGR00095
16S rRNA (guanine(966)-N(2))-methyltransferase RsmD; This model represents a family of ...
 2-96 8.42e-18

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: 73.60  E-value: 8.42e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308165362    2 LTKEKERfEIFKNSDLRAISILASRNYHFDLVFLDPPYAKEKIIKVMKIMLDANILNEKALIVAETDENVELPDV-EGYS 80
Cdd:TIGR00095  96 LKKSGEQ-ATVLNDAVRALLFLAKKQTPFDIIYLDPPFNRGLLEALLELLGENKWLNPKGLIVVEYDRENELPTVpETWS 174

                          90
                  ....*....|....*.
gi 308165362   81 LINRHHLGRTKFKIYE 96
Cdd:TIGR00095 175 LLRQKVYGQSALRLYQ 190
Cons_hypoth95 pfam03602
Conserved hypothetical protein 95;
6-95 7.01e-16

Conserved hypothetical protein 95;


Pssm-ID: 427391 [Multi-domain]  Cd Length: 179  Bit Score: 68.42  E-value: 7.01e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308165362    6 KERFEIFKNSDLRAISILASRNYHFDLVFLDPPYAKEKIIKVMKIMLDANILNEKALIVAETDENVELPDV-EGYSLINR 84
Cdd:pfam03602  88 GLPGAVLVMDALLALLRLAGKGPVFDIVFLDPPYAKGLIEEVLDLLAEKGWLKPNALIYVETEKRGELPEQpGNLELVRE 167

                          90
                  ....*....|.
gi 308165362   85 HHLGRTKFKIY 95
Cdd:pfam03602 168 KKYGQTTLAFY 178
rsmD PRK10909
16S rRNA m(2)G966-methyltransferase; Provisional
 19-97 4.96e-05

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


Pssm-ID: 236793  Cd Length: 199  Bit Score: 39.70  E-value: 4.96e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308165362  19 AISILASRNYHFDLVFLDPPYAKEKIIKVMKIMLDANILNEKALIVAETDENVELPDVEGYSLINRHHL-GRTKFKIYER 97
Cdd:PRK10909 111 ALSFLAQPGTPHNVVFVDPPFRKGLLEETINLLEDNGWLADEALIYVESEVENGLPTVPANWQLHREKVaGQVAYRLYIR 190
 
Name Accession Description Interval E-value
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 2-98 4.29e-20

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: 79.36  E-value: 4.29e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308165362   2 LTKEKERFEIFKNSDLRAISILASRnyHFDLVFLDPPYAKEKIIKVMKIMLDANILNEKALIVAETDENVELPDV-EGYS 80
Cdd:COG0742   86 KLGLEDRARVIRGDALRFLKRLAGE--PFDLVFLDPPYAKGLLEKALELLAENGLLAPGGLIVVEHSKREELPELpAGLE 163

                         90
                 ....*....|....*...
gi 308165362  81 LINRHHLGRTKFKIYERK 98
Cdd:COG0742  164 LLKERKYGDTRLSFYRRE 181
TIGR00095 TIGR00095
16S rRNA (guanine(966)-N(2))-methyltransferase RsmD; This model represents a family of ...
 2-96 8.42e-18

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: 73.60  E-value: 8.42e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308165362    2 LTKEKERfEIFKNSDLRAISILASRNYHFDLVFLDPPYAKEKIIKVMKIMLDANILNEKALIVAETDENVELPDV-EGYS 80
Cdd:TIGR00095  96 LKKSGEQ-ATVLNDAVRALLFLAKKQTPFDIIYLDPPFNRGLLEALLELLGENKWLNPKGLIVVEYDRENELPTVpETWS 174

                          90
                  ....*....|....*.
gi 308165362   81 LINRHHLGRTKFKIYE 96
Cdd:TIGR00095 175 LLRQKVYGQSALRLYQ 190
Cons_hypoth95 pfam03602
Conserved hypothetical protein 95;
6-95 7.01e-16

Conserved hypothetical protein 95;


Pssm-ID: 427391 [Multi-domain]  Cd Length: 179  Bit Score: 68.42  E-value: 7.01e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308165362    6 KERFEIFKNSDLRAISILASRNYHFDLVFLDPPYAKEKIIKVMKIMLDANILNEKALIVAETDENVELPDV-EGYSLINR 84
Cdd:pfam03602  88 GLPGAVLVMDALLALLRLAGKGPVFDIVFLDPPYAKGLIEEVLDLLAEKGWLKPNALIYVETEKRGELPEQpGNLELVRE 167

                          90
                  ....*....|.
gi 308165362   85 HHLGRTKFKIY 95
Cdd:pfam03602 168 KKYGQTTLAFY 178
rsmD PRK10909
16S rRNA m(2)G966-methyltransferase; Provisional
 19-97 4.96e-05

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


Pssm-ID: 236793  Cd Length: 199  Bit Score: 39.70  E-value: 4.96e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308165362  19 AISILASRNYHFDLVFLDPPYAKEKIIKVMKIMLDANILNEKALIVAETDENVELPDVEGYSLINRHHL-GRTKFKIYER 97
Cdd:PRK10909 111 ALSFLAQPGTPHNVVFVDPPFRKGLLEETINLLEDNGWLADEALIYVESEVENGLPTVPANWQLHREKVaGQVAYRLYIR 190
 
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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