NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2775767799|gb|XDB77188|]
View 

16S rRNA (guanine(966)-N(2))-methyltransferase RsmD [Nitratireductor sp. GISD-1A_MAKvit]

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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 1-182 1.24e-71

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: 214.18  E-value: 1.24e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799   1 MRIVGGEFRGRTLAAPKSDAIRPTTDRTRQALFNIFEHRhagrLENARVLDLFAGTGALGLEALSRGAAFALFIEEAASA 80
Cdd:COG0742     1 MRIIGGKARGRKLKVPKGPGTRPTTDRVREALFNILGPD----IEGARVLDLFAGSGALGLEALSRGAASVVFVEKDRKA 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  81 RALIRSNVENLGLQGRSKIFRRDATRIGEAGTIQPFDVVLADPPYGRNLGEKALAAALAGGWLAPGALIMVEEAAGSPF- 159
Cdd:COG0742    77 AAVIRKNLEKLGLEDRARVIRGDALRFLKRLAGEPFDLVFLDPPYAKGLLEKALELLAENGLLAPGGLIVVEHSKREELp 156

                         170       180
                  ....*....|....*....|...
gi 2775767799 160 QPPEGVRLIERREYGTSCATFAE 182
Cdd:COG0742   157 ELPAGLELLKERKYGDTRLSFYR 179
 
Name Accession Description Interval E-value
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 1-182 1.24e-71

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: 214.18  E-value: 1.24e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799   1 MRIVGGEFRGRTLAAPKSDAIRPTTDRTRQALFNIFEHRhagrLENARVLDLFAGTGALGLEALSRGAAFALFIEEAASA 80
Cdd:COG0742     1 MRIIGGKARGRKLKVPKGPGTRPTTDRVREALFNILGPD----IEGARVLDLFAGSGALGLEALSRGAASVVFVEKDRKA 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  81 RALIRSNVENLGLQGRSKIFRRDATRIGEAGTIQPFDVVLADPPYGRNLGEKALAAALAGGWLAPGALIMVEEAAGSPF- 159
Cdd:COG0742    77 AAVIRKNLEKLGLEDRARVIRGDALRFLKRLAGEPFDLVFLDPPYAKGLLEKALELLAENGLLAPGGLIVVEHSKREELp 156

                         170       180
                  ....*....|....*....|...
gi 2775767799 160 QPPEGVRLIERREYGTSCATFAE 182
Cdd:COG0742   157 ELPAGLELLKERKYGDTRLSFYR 179
Cons_hypoth95 pfam03602
Conserved hypothetical protein 95;
1-180 7.63e-50

Conserved hypothetical protein 95;


Pssm-ID: 427391 [Multi-domain]  Cd Length: 179  Bit Score: 158.94  E-value: 7.63e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799   1 MRIVGGEFRGRTLAAPKSDAIRPTTDRTRQALFNIFehrhAGRLENARVLDLFAGTGALGLEALSRGAAFALFIEEAASA 80
Cdd:pfam03602   1 MRIIGGKARGRKLKVPPGPGTRPTTDRVREALFNWL----APYIEGARVLDLFAGSGALGLEALSRGAKRVTLVEKDKRA 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  81 RALIRSNVENLGLQGRskIFRRDATRIGE--AGTIQPFDVVLADPPYGRNLGEKALAAALAGGWLAPGALIMVE-EAAGS 157
Cdd:pfam03602  77 VQILKENLQLLGLPGA--VLVMDALLALLrlAGKGPVFDIVFLDPPYAKGLIEEVLDLLAEKGWLKPNALIYVEtEKRGE 154

                         170       180
                  ....*....|....*....|...
gi 2775767799 158 PFQPPEGVRLIERREYGTSCATF 180
Cdd:pfam03602 155 LPEQPGNLELVREKKYGQTTLAF 177
TIGR00095 TIGR00095
16S rRNA (guanine(966)-N(2))-methyltransferase RsmD; This model represents a family of ...
 2-182 1.42e-41

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: 138.31  E-value: 1.42e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799   2 RIVGGEFRGRTLAAPKSDAIRPTTDRTRQALFNIFehrhAGRLENARVLDLFAGTGALGLEALSRGAAFALFIEEAASAR 81
Cdd:TIGR00095  11 RIIGGQYRGRKLKVPPGPSTRPTTDRVRESLFNIL----RPDIVGAHFLDLFAGSGALGLEALSRGAASAVFVEQDRKVA 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  82 ALIRSNVENLGLQGRSKIFRRDATR--IGEAGTIQPFDVVLADPPYGRNLGEKALAAALAGGWLAPGALIMVEEAAG-SP 158
Cdd:TIGR00095  87 QTLKENLSTLKKSGEQATVLNDAVRalLFLAKKQTPFDIIYLDPPFNRGLLEALLELLGENKWLNPKGLIVVEYDREnEL 166

                         170       180
                  ....*....|....*....|....
gi 2775767799 159 FQPPEGVRLIERREYGTSCATFAE 182
Cdd:TIGR00095 167 PTVPETWSLLRQKVYGQSALRLYQ 190
rsmD PRK10909
16S rRNA m(2)G966-methyltransferase; Provisional
 1-125 8.73e-28

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


Pssm-ID: 236793  Cd Length: 199  Bit Score: 103.26  E-value: 8.73e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799   1 MRIVGGEFRGRTLAAPKSDAIRPTTDRTRQALFNIFehrhAGRLENARVLDLFAGTGALGLEALSRGAAFALFIE-EAAS 79
Cdd:PRK10909   13 IRIIGGQWRGRKLPVPDSPGLRPTTDRVRETLFNWL----APVIVDARCLDCFAGSGALGLEALSRYAAGATLLEmDRAV 88

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2775767799  80 ARALIRsnveNLGL--QGRSKIFRRDATRIgEAGTIQPFDVVLADPPY 125
Cdd:PRK10909   89 AQQLIK----NLATlkAGNARVVNTNALSF-LAQPGTPHNVVFVDPPF 131
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 48-152 3.11e-06

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: 43.96  E-value: 3.11e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  48 RVLDLFAGTGALGLEALSRGAAFALFIEEAASARALIRSNVENlGLQGRSKIFRRDATRIGEAGtIQPFDVVLADPPYGR 127
Cdd:cd02440     1 RVLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAA-LLADNVEVLKGDAEELPPEA-DESFDVIISDPPLHH 78

                          90       100
                  ....*....|....*....|....*
gi 2775767799 128 NLGEKALAAALAGGWLAPGALIMVE 152
Cdd:cd02440    79 LVEDLARFLEEARRLLKPGGVLVLT 103
 
Name Accession Description Interval E-value
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 1-182 1.24e-71

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: 214.18  E-value: 1.24e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799   1 MRIVGGEFRGRTLAAPKSDAIRPTTDRTRQALFNIFEHRhagrLENARVLDLFAGTGALGLEALSRGAAFALFIEEAASA 80
Cdd:COG0742     1 MRIIGGKARGRKLKVPKGPGTRPTTDRVREALFNILGPD----IEGARVLDLFAGSGALGLEALSRGAASVVFVEKDRKA 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  81 RALIRSNVENLGLQGRSKIFRRDATRIGEAGTIQPFDVVLADPPYGRNLGEKALAAALAGGWLAPGALIMVEEAAGSPF- 159
Cdd:COG0742    77 AAVIRKNLEKLGLEDRARVIRGDALRFLKRLAGEPFDLVFLDPPYAKGLLEKALELLAENGLLAPGGLIVVEHSKREELp 156

                         170       180
                  ....*....|....*....|...
gi 2775767799 160 QPPEGVRLIERREYGTSCATFAE 182
Cdd:COG0742   157 ELPAGLELLKERKYGDTRLSFYR 179
Cons_hypoth95 pfam03602
Conserved hypothetical protein 95;
1-180 7.63e-50

Conserved hypothetical protein 95;


Pssm-ID: 427391 [Multi-domain]  Cd Length: 179  Bit Score: 158.94  E-value: 7.63e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799   1 MRIVGGEFRGRTLAAPKSDAIRPTTDRTRQALFNIFehrhAGRLENARVLDLFAGTGALGLEALSRGAAFALFIEEAASA 80
Cdd:pfam03602   1 MRIIGGKARGRKLKVPPGPGTRPTTDRVREALFNWL----APYIEGARVLDLFAGSGALGLEALSRGAKRVTLVEKDKRA 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  81 RALIRSNVENLGLQGRskIFRRDATRIGE--AGTIQPFDVVLADPPYGRNLGEKALAAALAGGWLAPGALIMVE-EAAGS 157
Cdd:pfam03602  77 VQILKENLQLLGLPGA--VLVMDALLALLrlAGKGPVFDIVFLDPPYAKGLIEEVLDLLAEKGWLKPNALIYVEtEKRGE 154

                         170       180
                  ....*....|....*....|...
gi 2775767799 158 PFQPPEGVRLIERREYGTSCATF 180
Cdd:pfam03602 155 LPEQPGNLELVREKKYGQTTLAF 177
TIGR00095 TIGR00095
16S rRNA (guanine(966)-N(2))-methyltransferase RsmD; This model represents a family of ...
 2-182 1.42e-41

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: 138.31  E-value: 1.42e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799   2 RIVGGEFRGRTLAAPKSDAIRPTTDRTRQALFNIFehrhAGRLENARVLDLFAGTGALGLEALSRGAAFALFIEEAASAR 81
Cdd:TIGR00095  11 RIIGGQYRGRKLKVPPGPSTRPTTDRVRESLFNIL----RPDIVGAHFLDLFAGSGALGLEALSRGAASAVFVEQDRKVA 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  82 ALIRSNVENLGLQGRSKIFRRDATR--IGEAGTIQPFDVVLADPPYGRNLGEKALAAALAGGWLAPGALIMVEEAAG-SP 158
Cdd:TIGR00095  87 QTLKENLSTLKKSGEQATVLNDAVRalLFLAKKQTPFDIIYLDPPFNRGLLEALLELLGENKWLNPKGLIVVEYDREnEL 166

                         170       180
                  ....*....|....*....|....
gi 2775767799 159 FQPPEGVRLIERREYGTSCATFAE 182
Cdd:TIGR00095 167 PTVPETWSLLRQKVYGQSALRLYQ 190
rsmD PRK10909
16S rRNA m(2)G966-methyltransferase; Provisional
 1-125 8.73e-28

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


Pssm-ID: 236793  Cd Length: 199  Bit Score: 103.26  E-value: 8.73e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799   1 MRIVGGEFRGRTLAAPKSDAIRPTTDRTRQALFNIFehrhAGRLENARVLDLFAGTGALGLEALSRGAAFALFIE-EAAS 79
Cdd:PRK10909   13 IRIIGGQWRGRKLPVPDSPGLRPTTDRVRETLFNWL----APVIVDARCLDCFAGSGALGLEALSRYAAGATLLEmDRAV 88

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2775767799  80 ARALIRsnveNLGL--QGRSKIFRRDATRIgEAGTIQPFDVVLADPPY 125
Cdd:PRK10909   89 AQQLIK----NLATlkAGNARVVNTNALSF-LAQPGTPHNVVFVDPPF 131
Trm11 COG1041
tRNA G10 N-methylase Trm11 [Translation, ribosomal structure and biogenesis]; tRNA G10 ...
 30-127 1.76e-11

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: 59.58  E-value: 1.76e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  30 QALFNIfehrhAGRLENARVLDLFAGTGALGLEALSRGA-AFALFIEEAASARAliRSNVENLGLQgRSKIFRRDATRIG 108
Cdd:COG1041    16 RALVNL-----AGAKEGDTVLDPFCGTGTILIEAGLLGRrVIGSDIDPKMVEGA--RENLEHYGYE-DADVIRGDARDLP 87

                          90
                  ....*....|....*....
gi 2775767799 109 EAGtiQPFDVVLADPPYGR 127
Cdd:COG1041    88 LAD--ESVDAIVTDPPYGR 104
COG2263 COG2263
Predicted RNA methylase [General function prediction only];
42-127 2.85e-10

Predicted RNA methylase [General function prediction only];


Pssm-ID: 441864 [Multi-domain]  Cd Length: 199  Bit Score: 56.84  E-value: 2.85e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  42 GRLENARVLDLFAGTGALGLEALSRGAAFALFIEEAASARALIRSNVENLGlqGRSKIFRRDATRIGEAGTiqpFDVVLA 121
Cdd:COG2263    42 GDIEGKTVLDLGCGTGMLAIGAALLGAKKVVGVDIDPEALEIARENAERLG--VRVDFIRADVTRIPLGGS---VDTVVM 116


                  ....*.
gi 2775767799 122 DPPYGR 127
Cdd:COG2263   117 NPPFGA 122
TrmA COG2265
tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure ...
 39-124 1.64e-08

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: 52.87  E-value: 1.64e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  39 RHAGRLENARVLDLFAGTGALGLeALSRGAAFALFIE--EAASARAliRSNVENLGLQgRSKIFRRDATR-IGEAGTIQP 115
Cdd:COG2265   227 EWLDLTGGERVLDLYCGVGTFAL-PLARRAKKVIGVEivPEAVEDA--RENARLNGLK-NVEFVAGDLEEvLPELLWGGR 302


                  ....*....
gi 2775767799 116 FDVVLADPP 124
Cdd:COG2265   303 PDVVVLDPP 311
TrmN6 COG4123
tRNA1(Val) A37 N6-methylase TrmN6 [Translation, ribosomal structure and biogenesis]; tRNA1(Val) ...
 46-125 7.03e-08

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: 50.53  E-value: 7.03e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  46 NARVLDLFAGTGALGLEALSRGAA---FALFIEEAASARAliRSNVENLGLQGRSKIFRRDATRIGEAGTIQPFDVVLAD 122
Cdd:COG4123    38 GGRVLDLGTGTGVIALMLAQRSPGariTGVEIQPEAAELA--RRNVALNGLEDRITVIHGDLKEFAAELPPGSFDLVVSN 115


                  ...
gi 2775767799 123 PPY 125
Cdd:COG4123   116 PPY 118
RlmK COG1092
23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI [Translation, ribosomal structure ...
 38-124 1.93e-07

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: 49.79  E-value: 1.93e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  38 HRHAGRL-ENARVLDLFAGTGALGLEALSRGAAFALFIEEAASARALIRSNVENLGLQGRSKIFRRDA----TRIGEAGt 112
Cdd:COG1092   208 RARVAELaKGKRVLNLFSYTGGFSVHAAAGGAKSVTSVDLSATALEWAKENAALNGLDDRHEFVQADAfdwlRELAREG- 286

                          90
                  ....*....|..
gi 2775767799 113 iQPFDVVLADPP 124
Cdd:COG1092   287 -ERFDLIILDPP 297
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 48-152 3.11e-06

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: 43.96  E-value: 3.11e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  48 RVLDLFAGTGALGLEALSRGAAFALFIEEAASARALIRSNVENlGLQGRSKIFRRDATRIGEAGtIQPFDVVLADPPYGR 127
Cdd:cd02440     1 RVLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAA-LLADNVEVLKGDAEELPPEA-DESFDVIISDPPLHH 78

                          90       100
                  ....*....|....*....|....*
gi 2775767799 128 NLGEKALAAALAGGWLAPGALIMVE 152
Cdd:cd02440    79 LVEDLARFLEEARRLLKPGGVLVLT 103
hemK_fam TIGR00536
HemK family putative methylases; The gene hemK from E. coli was found to contribute to heme ...
 7-125 2.32e-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: 43.50  E-value: 2.32e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799   7 EFRGRTLAAPKSDAI-RPTTDRtrqalfnIFEHRHAGRLENA---RVLDLFAGTGALGLeALSRGAAFALFIEEAASARA 82
Cdd:TIGR00536  79 EFYGLEFFVNEHVLIpRPETEE-------LVEKALASLISQPpilHILDLGTGSGCIAL-ALAYEFPNAEVIAVDISPDA 150

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2775767799  83 L--IRSNVENLGLQGRSKIFRrdaTRIGEAGTIQPFDVVLADPPY 125
Cdd:TIGR00536 151 LavAEENAEKNQLEHRVEFIQ---SNLFEPLAGQKIDIIVSNPPY 192
PRK14967 PRK14967
putative methyltransferase; Provisional
 39-125 2.96e-05

putative methyltransferase; Provisional


Pssm-ID: 184931 [Multi-domain]  Cd Length: 223  Bit Score: 42.73  E-value: 2.96e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  39 RHAGRLENARVLDLFAGTGALGLEALSRGAAFALFIEeaASARALIRSNVENLGLQGRSKIFRRDATRIGEAGtiqPFDV 118
Cdd:PRK14967   30 AAEGLGPGRRVLDLCTGSGALAVAAAAAGAGSVTAVD--ISRRAVRSARLNALLAGVDVDVRRGDWARAVEFR---PFDV 104


                  ....*..
gi 2775767799 119 VLADPPY 125
Cdd:PRK14967  105 VVSNPPY 111
HemK COG2890
Methylase of polypeptide chain release factors [Translation, ribosomal structure and ...
 40-125 5.09e-05

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


Pssm-ID: 442135 [Multi-domain]  Cd Length: 282  Bit Score: 42.44  E-value: 5.09e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  40 HAGRLENARVLDLFAGTGALGLealsrgaAFALFIEEA------ASARALI--RSNVENLGLQGRSKIFRRDATrigEA- 110
Cdd:COG2890   107 LLPAGAPPRVLDLGTGSGAIAL-------ALAKERPDArvtavdISPDALAvaRRNAERLGLEDRVRFLQGDLF---EPl 176

                          90
                  ....*....|....*
gi 2775767799 111 GTIQPFDVVLADPPY 125
Cdd:COG2890   177 PGDGRFDLIVSNPPY 191
HsdM COG0286
Type I restriction-modification system, DNA methylase subunit [Defense mechanisms];
45-126 1.02e-04

Type I restriction-modification system, DNA methylase subunit [Defense mechanisms];


Pssm-ID: 440055 [Multi-domain]  Cd Length: 243  Bit Score: 41.33  E-value: 1.02e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  45 ENARVLDLFAGTGALGLEAL--------SRGAAFALF---IEEAASARALIrsnveNLGLQG--RSKIFRRDaTRIGEAG 111
Cdd:COG0286    43 PGETVYDPACGSGGFLVEAAeylkehggDERKKLSLYgqeINPTTYRLAKM-----NLLLHGigDPNIELGD-TLSNDGD 116

                          90
                  ....*....|....*
gi 2775767799 112 TIQPFDVVLADPPYG 126
Cdd:COG0286   117 ELEKFDVVLANPPFG 131
TIGR01177 TIGR01177
putative methyltransferase, TIGR01177 family; This family of probable methyltransferases is ...
 41-128 2.40e-04

putative methyltransferase, TIGR01177 family; This family of probable methyltransferases is found exclusively in the Archaea. [Hypothetical proteins, Conserved]


Pssm-ID: 273486 [Multi-domain]  Cd Length: 329  Bit Score: 40.50  E-value: 2.40e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  41 AGRLENARVLDLFAGTGALGLEALSRGA-AFALFIEEAASARALIrsNVENLGLQGrSKIFRRDATRIGEAGtiQPFDVV 119
Cdd:TIGR01177 178 ARVTEGDRVLDPFCGTGGFLIEAGLMGAkVIGCDIDWKMVAGARI--NLEHYGIED-FFVKRGDATKLPLSS--ESVDAI 252


                  ....*....
gi 2775767799 120 LADPPYGRN 128
Cdd:TIGR01177 253 ATDPPYGRS 261
Cfa COG2230
Cyclopropane fatty-acyl-phospholipid synthase and related methyltransferases [Lipid transport ...
 39-121 6.95e-04

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


Pssm-ID: 441831 [Multi-domain]  Cd Length: 158  Bit Score: 38.37  E-value: 6.95e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  39 RHAGRLENARVLDLFAGTGALGLEALSRGAAFALFIEEAASARALIRSNVENLGLQGRSKIFRRDATRIGEAGtiqPFDV 118
Cdd:COG2230    45 RKLGLKPGMRVLDIGCGWGGLALYLARRYGVRVTGVTLSPEQLEYARERAAEAGLADRVEVRLADYRDLPADG---QFDA 121


                  ...
gi 2775767799 119 VLA 121
Cdd:COG2230   122 IVS 124
PRK15128 PRK15128
23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI;
39-124 1.67e-03

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


Pssm-ID: 185082 [Multi-domain]  Cd Length: 396  Bit Score: 38.28  E-value: 1.67e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  39 RHAGR--LENARVLDLFAGTGALGLEALSRGAAFALFIEEAASARALIRSNVENLGLQGRSKIFRRDAT-----RIGEAG 111
Cdd:PRK15128  212 RLATRryVENKRVLNCFSYTGGFAVSALMGGCSQVVSVDTSQEALDIARQNVELNKLDLSKAEFVRDDVfkllrTYRDRG 291

                          90
                  ....*....|...
gi 2775767799 112 tiQPFDVVLADPP 124
Cdd:PRK15128  292 --EKFDVIVMDPP 302
RsmC COG2813
16S rRNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 39-125 1.81e-03

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: 37.48  E-value: 1.81e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  39 RHAGRLENARVLDLFAGTGALGLEALSRGA-AFALFIEEAASARALIRSNVENLGLQGrSKIFRRDATRIGEAGTiqpFD 117
Cdd:COG2813    43 EHLPEPLGGRVLDLGCGYGVIGLALAKRNPeARVTLVDVNARAVELARANAAANGLEN-VEVLWSDGLSGVPDGS---FD 118


                  ....*...
gi 2775767799 118 VVLADPPY 125
Cdd:COG2813   119 LILSNPPF 126
Methyltransf_31 pfam13847
Methyltransferase domain; This family appears to have methyltransferase activity.
 45-122 3.28e-03

Methyltransferase domain; This family appears to have methyltransferase activity.


Pssm-ID: 463998 [Multi-domain]  Cd Length: 150  Bit Score: 36.24  E-value: 3.28e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  45 ENARVLDLFAGTGALGLEALSRGAAFALF----IEEAASARAliRSNVENLGLQgRSKIFRRDATRIGEAGTIQPFDVVL 120
Cdd:pfam13847   3 KGMRVLDLGCGTGHLSFELAEELGPNAEVvgidISEEAIEKA--RENAQKLGFD-NVEFEQGDIEELPELLEDDKFDVVI 79


                  ..
gi 2775767799 121 AD 122
Cdd:pfam13847  80 SN 81
PRK04338 PRK04338
N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
 43-126 4.89e-03

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


Pssm-ID: 235286  Cd Length: 382  Bit Score: 36.82  E-value: 4.89e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799  43 RLENARVLDLFAGTGALGLEALSRGAAFALFIEEA-ASARALIRSNVENLGLQGRsKIFRRDATRIgeAGTIQPFDVVLA 121
Cdd:PRK04338   55 KLPRESVLDALSASGIRGIRYALETGVEKVTLNDInPDAVELIKKNLELNGLENE-KVFNKDANAL--LHEERKFDVVDI 131


                  ....*
gi 2775767799 122 DpPYG 126
Cdd:PRK04338  132 D-PFG 135
MTS pfam05175
Methyltransferase small domain; This domain is found in ribosomal RNA small subunit ...
 48-124 6.87e-03

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: 35.64  E-value: 6.87e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2775767799  48 RVLDLFAGTGALGLEALSRGAAFAL-FIEEAASARALIRSNVENLGLQGrSKIFRRDATrigEAGTIQPFDVVLADPP 124
Cdd:pfam05175  34 KVLDLGCGAGVLGAALAKESPDAELtMVDINARALESARENLAANGLEN-GEVVASDVY---SGVEDGKFDLIISNPP 107
COG4076 COG4076
Predicted RNA methylase [General function prediction only];
45-121 7.66e-03

Predicted RNA methylase [General function prediction only];


Pssm-ID: 443253 [Multi-domain]  Cd Length: 230  Bit Score: 35.78  E-value: 7.66e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2775767799  45 ENARVLDLFAGTGALGLEALSRGAAFALFIEEAASARALIRSNVENLGLQGRSKIFRRDAT--RIGEagtiqPFDVVLA 121
Cdd:COG4076    35 PGDVVLDIGTGSGLLSMLAARAGAKKVYAVEVNPDIAAVARRIIAANGLSDRITVINADATdlDLPE-----KADVIIS 108
PRK14966 PRK14966
unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; ...
 7-128 8.76e-03

unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional


Pssm-ID: 184930 [Multi-domain]  Cd Length: 423  Bit Score: 36.21  E-value: 8.76e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2775767799   7 EFRGRTLAA-PKSDAIRPTTDRTRQALFnifehrhaGRL-ENARVLDLFAGTGALGLE-ALSRGAAFALFIEEAASARAL 83
Cdd:PRK14966  219 EFYGRRFAVnPNVLIPRPETEHLVEAVL--------ARLpENGRVWDLGTGSGAVAVTvALERPDAFVRASDISPPALET 290

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2775767799  84 IRSNVENLGLQ---GRSKIFRRDATRIGEagtiqpFDVVLADPPYGRN 128
Cdd:PRK14966  291 ARKNAADLGARvefAHGSWFDTDMPSEGK------WDIIVSNPPYIEN 332
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH