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Conserved domains on  [gi|2537528281|ref|WP_294092364|]
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class I SAM-dependent methyltransferase [Pseudoalteromonas sp.]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK15128 super family cl33092
23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI;
1-395 0e+00

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


The actual alignment was detected with superfamily member PRK15128:

Pssm-ID: 185082 [Multi-domain]  Cd Length: 396  Bit Score: 572.55  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281   1 MSSAIYLQAGREKSLKRKHPWVFSKAIKKVKGKPGLGDTVTIYDNDGKFLAIAAYSPQSQIRARVWSFDQNEIIDQAFFE 80
Cdd:PRK15128    1 MTVRLVLAKGREKSLLRRHPWVFSGAVARMEGKASLGETIDIVDHQGKWLARGAYSPASQIRARVWTFDPDESIDIAFFT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281  81 KRFRRAYDAREQVISEGGLTGFRLSAAESDYLPGITIDKFDNVLVCQLLSAGAERHKGEIVAALMTIFPGCDIYERSDVD 160
Cdd:PRK15128   81 RRLQQAQKWRDWLAQKDGLDSYRLIAGESDGLPGITIDRFGNFLVLQLLSAGAEYQRAALISALQTLYPECAIYDRSDVA 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 161 VRTKEGLEPIKGVLWGKEPTEPVVIEENGLKLEVDILEGHKTGFYLDQRDSRAALERFVKDKTVLNCFSYTGTFSLYALR 240
Cdd:PRK15128  161 VRKKEGMELTQGPVTGELPPALLPIEEHGMKLLVDIQGGHKTGYYLDQRDSRLATRRYVENKRVLNCFSYTGGFAVSALM 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 241 GGCKHVTNVDVSQPALDTAKRNVEHNNLDLSKVDFVKQDVFKLLRQYRDEGVQFDTIVMDPPKFADNKAQLTGACRGYKD 320
Cdd:PRK15128  241 GGCSQVVSVDTSQEALDIARQNVELNKLDLSKAEFVRDDVFKLLRTYRDRGEKFDVIVMDPPKFVENKSQLMGACRGYKD 320

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2537528281 321 INMIAMQILKPGGTLLTFSCSGLMEQNLFQKVVADAALDAGKDLLIMERLNQAADHPIAGSYPEGFYLKGLICKV 395
Cdd:PRK15128  321 INMLAIQLLNPGGILLTFSCSGLMTSDLFQKIIADAAIDAGRDVQFIEQFRQAADHPVIATYPEGLYLKGFACRV 395
 
Name Accession Description Interval E-value
PRK15128 PRK15128
23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI;
1-395 0e+00

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


Pssm-ID: 185082 [Multi-domain]  Cd Length: 396  Bit Score: 572.55  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281   1 MSSAIYLQAGREKSLKRKHPWVFSKAIKKVKGKPGLGDTVTIYDNDGKFLAIAAYSPQSQIRARVWSFDQNEIIDQAFFE 80
Cdd:PRK15128    1 MTVRLVLAKGREKSLLRRHPWVFSGAVARMEGKASLGETIDIVDHQGKWLARGAYSPASQIRARVWTFDPDESIDIAFFT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281  81 KRFRRAYDAREQVISEGGLTGFRLSAAESDYLPGITIDKFDNVLVCQLLSAGAERHKGEIVAALMTIFPGCDIYERSDVD 160
Cdd:PRK15128   81 RRLQQAQKWRDWLAQKDGLDSYRLIAGESDGLPGITIDRFGNFLVLQLLSAGAEYQRAALISALQTLYPECAIYDRSDVA 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 161 VRTKEGLEPIKGVLWGKEPTEPVVIEENGLKLEVDILEGHKTGFYLDQRDSRAALERFVKDKTVLNCFSYTGTFSLYALR 240
Cdd:PRK15128  161 VRKKEGMELTQGPVTGELPPALLPIEEHGMKLLVDIQGGHKTGYYLDQRDSRLATRRYVENKRVLNCFSYTGGFAVSALM 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 241 GGCKHVTNVDVSQPALDTAKRNVEHNNLDLSKVDFVKQDVFKLLRQYRDEGVQFDTIVMDPPKFADNKAQLTGACRGYKD 320
Cdd:PRK15128  241 GGCSQVVSVDTSQEALDIARQNVELNKLDLSKAEFVRDDVFKLLRTYRDRGEKFDVIVMDPPKFVENKSQLMGACRGYKD 320

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2537528281 321 INMIAMQILKPGGTLLTFSCSGLMEQNLFQKVVADAALDAGKDLLIMERLNQAADHPIAGSYPEGFYLKGLICKV 395
Cdd:PRK15128  321 INMLAIQLLNPGGILLTFSCSGLMTSDLFQKIIADAAIDAGRDVQFIEQFRQAADHPVIATYPEGLYLKGFACRV 395
RlmK COG1092
23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI [Translation, ribosomal structure ...
 4-395 0e+00

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: 557.10  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281   4 AIYLQAGREKSLKRKHPWVFSKAIKKVKGKPGLGDTVTIYDNDGKFLAIAAYSPQSQIRARVWSFDQNEIIDQAFFEKRF 83
Cdd:COG1092     1 KVRLKPGKERRLRRGHPWVFSNEIDRVEGELEPGDLVEVEDADGRFLGRGYYNPHSQIAVRLLSRDPDEPIDAAFFANRL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281  84 RRAYDAREQVISEGGLTGFRLSAAESDYLPGITIDKFDNVLVCQLLSAGAERHKGEIVAALMTIFPGCDIYERSDVDVRT 163
Cdd:COG1092    81 RKALALRRKLAKREGTNAYRLVHGEADGLPGLIVDRYGDVLVVQEYSAGMERRRDEILEALVEVLGPEGIYLRSDVRVRQ 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 164 KEGLEPIKGVLWGKEPtEPVVIEENGLKLEVDILEGHKTGFYLDQRDSRAALERFVKDKTVLNCFSYTGTFSLYALRGGC 243
Cdd:COG1092   161 LEGLPQYEGVLYGEAP-EEVEVEENGLKFLVDLTDGQKTGLFLDQRENRARVAELAKGKRVLNLFSYTGGFSVHAAAGGA 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 244 KHVTNVDVSQPALDTAKRNVEHNNLDlSKVDFVKQDVFKLLRQYRDEGVQFDTIVMDPPKFADNKAQLTGACRGYKDINM 323
Cdd:COG1092   240 KSVTSVDLSATALEWAKENAALNGLD-DRHEFVQADAFDWLRELAREGERFDLIILDPPAFAKSKKDLFDAQRDYKDLNR 318

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2537528281 324 IAMQILKPGGTLLTFSCSGLMEQNLFQKVVADAALDAGKDLLIMERLNQAADHPIAGSYPEGFYLKGLICKV 395
Cdd:COG1092   319 LALKLLAPGGILVTSSCSRHFSLDLFLEILARAARDAGRRVRIIERLTQPPDHPVLPAFPEGEYLKGLLLRV 390
RlmI_M_like cd11572
Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; This middle or ...
 77-176 1.80e-38

Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; This middle or central domain is typically found between an N-terminal PUA domain and a C-terminal SAM-dependent methyltransferase domain, such as in the Escherichia coli ribosomal RNA large subunit methyltransferase RlmI (YccW). It may be involved in binding to the RNA substrate.


Pssm-ID: 211413 [Multi-domain]  Cd Length: 99  Bit Score: 133.36  E-value: 1.80e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281  77 AFFEKRFRRAYDAREQVISEGgLTGFRLSAAESDYLPGITIDKFDNVLVCQLLSAGAERHKGEIVAALMTIFPGCDIYER 156
Cdd:cd11572     1 AFFKRRIEKALALRKRLLLDD-TNAYRLVHGEGDGLPGLIVDRYGDVLVVQILSAGMERLKELIVEALKELLGPKGIYER 79

                          90       100
                  ....*....|....*....|
gi 2537528281 157 SDVDVRTKEGLEPIKGVLWG 176
Cdd:cd11572    80 SDAAVRELEGLPEEVGVLYG 99
Methyltrans_SAM pfam10672
S-adenosylmethionine-dependent methyltransferase; Members of this family are ...
 173-336 2.91e-29

S-adenosylmethionine-dependent methyltransferase; Members of this family are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyze the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalyzed by the S-adenosylmethionine-dependent methyltransferases.


Pssm-ID: 287624 [Multi-domain]  Cd Length: 286  Bit Score: 114.98  E-value: 2.91e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 173 VLWGkEPTEPVVIEENGLKLEVDILEGHKTGFYLDQRDSRAALERFVKDKTVLNCFSYTGTFSLYALRGGCKHVTNVDVS 252
Cdd:pfam10672  77 VLSG-ELLETPVVVENGLKYQLDIGRNQNFGLFLDMRLGRRWVQENAKGKNVLNLFAYTCGFSVAAIAGGASQVVNVDMA 155

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 253 QPALDTAKRNVEHNNLDLSKVDFVKQDVFKLLRQYRDEGvQFDTIVMDPPKFADNKAQLTgacRGYKDINMIAMQILKPG 332
Cdd:pfam10672 156 RGSLNKGRDNHRLNGHDLGRVSFLGHDIFKSWGKIKKLG-PYDLVIIDPPSFQKGSFALT---KDYKKILRRLPELLVEG 231


                  ....
gi 2537528281 333 GTLL 336
Cdd:pfam10672 232 GTVL 235
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
5-67 7.76e-08

Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 49.18  E-value: 7.76e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2537528281    5 IYLQAGREKSLKRKHpWVFSKAIKKVKGKPGLGDTVTIYDNDGKFLAIAAYSPQSQIRARVWS 67
Cdd:smart00359   3 VVVDDGAEKAILNGA-SLLAPGVVRVDGDIKEGDVVVIVDEKGEPLGIGLANMSSEEIARIKG 64
hemK_fam TIGR00536
HemK family putative methylases; The gene hemK from E. coli was found to contribute to heme ...
 246-336 5.95e-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: 44.27  E-value: 5.95e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 246 VTNVDVSQPALDTAKRNVEHNNLDlSKVDFVKQDVFKLLrqyrdEGVQFDTIVMDPP--------------KFADNKAqL 311
Cdd:TIGR00536 141 VIAVDISPDALAVAEENAEKNQLE-HRVEFIQSNLFEPL-----AGQKIDIIVSNPPyideedladlpnvvRFEPLLA-L 213

                          90       100
                  ....*....|....*....|....*...
gi 2537528281 312 TGACRGYKDINMIAMQI---LKPGGTLL 336
Cdd:TIGR00536 214 VGGDDGLNILRQIIELApdyLKPNGFLV 241
 
Name Accession Description Interval E-value
PRK15128 PRK15128
23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI;
1-395 0e+00

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


Pssm-ID: 185082 [Multi-domain]  Cd Length: 396  Bit Score: 572.55  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281   1 MSSAIYLQAGREKSLKRKHPWVFSKAIKKVKGKPGLGDTVTIYDNDGKFLAIAAYSPQSQIRARVWSFDQNEIIDQAFFE 80
Cdd:PRK15128    1 MTVRLVLAKGREKSLLRRHPWVFSGAVARMEGKASLGETIDIVDHQGKWLARGAYSPASQIRARVWTFDPDESIDIAFFT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281  81 KRFRRAYDAREQVISEGGLTGFRLSAAESDYLPGITIDKFDNVLVCQLLSAGAERHKGEIVAALMTIFPGCDIYERSDVD 160
Cdd:PRK15128   81 RRLQQAQKWRDWLAQKDGLDSYRLIAGESDGLPGITIDRFGNFLVLQLLSAGAEYQRAALISALQTLYPECAIYDRSDVA 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 161 VRTKEGLEPIKGVLWGKEPTEPVVIEENGLKLEVDILEGHKTGFYLDQRDSRAALERFVKDKTVLNCFSYTGTFSLYALR 240
Cdd:PRK15128  161 VRKKEGMELTQGPVTGELPPALLPIEEHGMKLLVDIQGGHKTGYYLDQRDSRLATRRYVENKRVLNCFSYTGGFAVSALM 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 241 GGCKHVTNVDVSQPALDTAKRNVEHNNLDLSKVDFVKQDVFKLLRQYRDEGVQFDTIVMDPPKFADNKAQLTGACRGYKD 320
Cdd:PRK15128  241 GGCSQVVSVDTSQEALDIARQNVELNKLDLSKAEFVRDDVFKLLRTYRDRGEKFDVIVMDPPKFVENKSQLMGACRGYKD 320

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2537528281 321 INMIAMQILKPGGTLLTFSCSGLMEQNLFQKVVADAALDAGKDLLIMERLNQAADHPIAGSYPEGFYLKGLICKV 395
Cdd:PRK15128  321 INMLAIQLLNPGGILLTFSCSGLMTSDLFQKIIADAAIDAGRDVQFIEQFRQAADHPVIATYPEGLYLKGFACRV 395
RlmK COG1092
23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI [Translation, ribosomal structure ...
 4-395 0e+00

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: 557.10  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281   4 AIYLQAGREKSLKRKHPWVFSKAIKKVKGKPGLGDTVTIYDNDGKFLAIAAYSPQSQIRARVWSFDQNEIIDQAFFEKRF 83
Cdd:COG1092     1 KVRLKPGKERRLRRGHPWVFSNEIDRVEGELEPGDLVEVEDADGRFLGRGYYNPHSQIAVRLLSRDPDEPIDAAFFANRL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281  84 RRAYDAREQVISEGGLTGFRLSAAESDYLPGITIDKFDNVLVCQLLSAGAERHKGEIVAALMTIFPGCDIYERSDVDVRT 163
Cdd:COG1092    81 RKALALRRKLAKREGTNAYRLVHGEADGLPGLIVDRYGDVLVVQEYSAGMERRRDEILEALVEVLGPEGIYLRSDVRVRQ 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 164 KEGLEPIKGVLWGKEPtEPVVIEENGLKLEVDILEGHKTGFYLDQRDSRAALERFVKDKTVLNCFSYTGTFSLYALRGGC 243
Cdd:COG1092   161 LEGLPQYEGVLYGEAP-EEVEVEENGLKFLVDLTDGQKTGLFLDQRENRARVAELAKGKRVLNLFSYTGGFSVHAAAGGA 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 244 KHVTNVDVSQPALDTAKRNVEHNNLDlSKVDFVKQDVFKLLRQYRDEGVQFDTIVMDPPKFADNKAQLTGACRGYKDINM 323
Cdd:COG1092   240 KSVTSVDLSATALEWAKENAALNGLD-DRHEFVQADAFDWLRELAREGERFDLIILDPPAFAKSKKDLFDAQRDYKDLNR 318

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2537528281 324 IAMQILKPGGTLLTFSCSGLMEQNLFQKVVADAALDAGKDLLIMERLNQAADHPIAGSYPEGFYLKGLICKV 395
Cdd:COG1092   319 LALKLLAPGGILVTSSCSRHFSLDLFLEILARAARDAGRRVRIIERLTQPPDHPVLPAFPEGEYLKGLLLRV 390
RlmI_M_like cd11572
Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; This middle or ...
 77-176 1.80e-38

Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; This middle or central domain is typically found between an N-terminal PUA domain and a C-terminal SAM-dependent methyltransferase domain, such as in the Escherichia coli ribosomal RNA large subunit methyltransferase RlmI (YccW). It may be involved in binding to the RNA substrate.


Pssm-ID: 211413 [Multi-domain]  Cd Length: 99  Bit Score: 133.36  E-value: 1.80e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281  77 AFFEKRFRRAYDAREQVISEGgLTGFRLSAAESDYLPGITIDKFDNVLVCQLLSAGAERHKGEIVAALMTIFPGCDIYER 156
Cdd:cd11572     1 AFFKRRIEKALALRKRLLLDD-TNAYRLVHGEGDGLPGLIVDRYGDVLVVQILSAGMERLKELIVEALKELLGPKGIYER 79

                          90       100
                  ....*....|....*....|
gi 2537528281 157 SDVDVRTKEGLEPIKGVLWG 176
Cdd:cd11572    80 SDAAVRELEGLPEEVGVLYG 99
PUA_RlmI cd21153
PUA RNA-binding domain of the SAM-dependent methyltransferase RlmI and related proteins; The ...
 3-72 2.14e-31

PUA RNA-binding domain of the SAM-dependent methyltransferase RlmI and related proteins; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Members of this subfamily contain PUA domains that co-occur N-terminal to SAM-dependent methyltransferase domains and include Escherichia coli RlmI (rRNA large subunit methyltransferase gene I, also called YccW) and Thermus thermophilus methyltransferase RlmO, which are 5-methylcytosine methyltransferases (m5C MTases) that play a role in modifying 23S rRNA. This subfamily also includes Pyrococcus horikoshii PH1915 that may play a role as a 5-methyluridine MTase, and/or perform similar roles.


Pssm-ID: 409295 [Multi-domain]  Cd Length: 70  Bit Score: 113.83  E-value: 2.14e-31
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281   3 SAIYLQAGREKSLKRKHPWVFSKAIKKVKGKPGLGDTVTIYDNDGKFLAIAAYSPQSQIRARVWSFDQNE 72
Cdd:cd21153     1 PRIVLKKGKEKSLRRGHPWIFSGAIDRIEGKPEPGDLVDVYDHKGKFLGTGLYNPHSQIRVRVLSFDKEE 70
Methyltrans_SAM pfam10672
S-adenosylmethionine-dependent methyltransferase; Members of this family are ...
 173-336 2.91e-29

S-adenosylmethionine-dependent methyltransferase; Members of this family are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyze the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalyzed by the S-adenosylmethionine-dependent methyltransferases.


Pssm-ID: 287624 [Multi-domain]  Cd Length: 286  Bit Score: 114.98  E-value: 2.91e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 173 VLWGkEPTEPVVIEENGLKLEVDILEGHKTGFYLDQRDSRAALERFVKDKTVLNCFSYTGTFSLYALRGGCKHVTNVDVS 252
Cdd:pfam10672  77 VLSG-ELLETPVVVENGLKYQLDIGRNQNFGLFLDMRLGRRWVQENAKGKNVLNLFAYTCGFSVAAIAGGASQVVNVDMA 155

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 253 QPALDTAKRNVEHNNLDLSKVDFVKQDVFKLLRQYRDEGvQFDTIVMDPPKFADNKAQLTgacRGYKDINMIAMQILKPG 332
Cdd:pfam10672 156 RGSLNKGRDNHRLNGHDLGRVSFLGHDIFKSWGKIKKLG-PYDLVIIDPPSFQKGSFALT---KDYKKILRRLPELLVEG 231


                  ....
gi 2537528281 333 GTLL 336
Cdd:pfam10672 232 GTVL 235
rlmL PRK11783
bifunctional 23S rRNA (guanine(2069)-N(7))-methyltransferase RlmK/23S rRNA (guanine(2445)-N(2)) ...
 184-340 1.16e-28

bifunctional 23S rRNA (guanine(2069)-N(7))-methyltransferase RlmK/23S rRNA (guanine(2445)-N(2))-methyltransferase RlmL;


Pssm-ID: 236981 [Multi-domain]  Cd Length: 702  Bit Score: 117.98  E-value: 1.16e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 184 VIEENGLKLEV---DILEghkTGFYLDQRDSRAALERFVKDKTVLNCFSYTGTFSLYALRGGCKHVTNVDVSQPALDTAK 260
Cdd:PRK11783  502 EVTEYGAKLLVnltDYLD---TGLFLDHRPTRRMIGQMAKGKDFLNLFAYTGTASVHAALGGAKSTTTVDMSNTYLEWAE 578

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 261 RNVEHNNLDLSKVDFVKQDVFKLLRQYRDegvQFDTIVMDPPKFADNK-------AQltgacrgyKD-INMI--AMQILK 330
Cdd:PRK11783  579 RNFALNGLSGRQHRLIQADCLAWLKEARE---QFDLIFIDPPTFSNSKrmedsfdVQ--------RDhVALIkdAKRLLR 647

                         170
                  ....*....|
gi 2537528281 331 PGGTLLtFSC 340
Cdd:PRK11783  648 PGGTLY-FSN 656
PUA_3 pfam17785
PUA-like domain; This PUA-like domain is found at the N-terminus of SAM-dependent ...
 5-68 3.77e-22

PUA-like domain; This PUA-like domain is found at the N-terminus of SAM-dependent methyltransferases.


Pssm-ID: 436043 [Multi-domain]  Cd Length: 64  Bit Score: 88.69  E-value: 3.77e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2537528281   5 IYLQAGREKSLKRKHPWVFSKAIKKVKGKPGLGDTVTIYDNDGKFLAIAAYSPQSQIRARVWSF 68
Cdd:pfam17785   1 VTLKKKAEKRLKRGHPWIYSNEIERVEGDLEEGDLVRVVDSDGRFLGTGYYNPQSKIAVRVLSR 64
TrmA COG2265
tRNA/tmRNA/rRNA uracil-C5-methylase, TrmA/RlmC/RlmD family [Translation, ribosomal structure ...
 220-302 9.70e-12

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: 65.97  E-value: 9.70e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 220 KDKTVLNCFSYTGTFSLYALRGGcKHVTNVDVSQPALDTAKRNVEHNNLDlsKVDFVKQDVFKLLRQyRDEGVQFDTIVM 299
Cdd:COG2265   233 GGERVLDLYCGVGTFALPLARRA-KKVIGVEIVPEAVEDARENARLNGLK--NVEFVAGDLEEVLPE-LLWGGRPDVVVL 308


                  ...
gi 2537528281 300 DPP 302
Cdd:COG2265   309 DPP 311
Trm5 COG2520
tRNA G37 N-methylase Trm5 [Translation, ribosomal structure and biogenesis]; tRNA G37 ...
 134-335 3.58e-11

tRNA G37 N-methylase Trm5 [Translation, ribosomal structure and biogenesis]; tRNA G37 N-methylase Trm5 is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 442010 [Multi-domain]  Cd Length: 333  Bit Score: 63.73  E-value: 3.58e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 134 ERHKGEIVAALMTIFPGCD-IYERSdvdvrtkeglEPIKG--------VLWGKEPTEpVVIEENGLKLEVDIleghkTGF 204
Cdd:COG2520    98 EEYKEEIAEAILESHPNVKtVLAKA----------SGVEGefrvpeleLLAGEGRTE-TIHRENGCRFKLDV-----AKV 161

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 205 YLDQRDS--RAALERFVKD-KTVLNCFSYTGTFSLYALRGGCKHVTNVDVSQPALDTAKRNVEHNNLDlSKVDFVKQDVF 281
Cdd:COG2520   162 YFSPRLAteRLRIAELVKPgERVLDMFAGVGPFSIPIAKRSGAKVVAIDINPDAVEYLKENIRLNKVE-DRVTPILGDAR 240

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2537528281 282 KLLRQYRDegvQFDTIVMDPPKFADNkaqltgacrgYKDinmIAMQILKPGGTL 335
Cdd:COG2520   241 EVAPELEG---KADRIIMNLPHSADE----------FLD---AALRALKPGGVI 278
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 223-337 7.30e-11

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: 58.60  E-value: 7.30e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 223 TVLNCFSYTGTFSLYALRGGCKHVTNVDVSQPALDTAKRNVEHNNLDlsKVDFVKQDVFKLLrQYRDEgvQFDTIVMDPP 302
Cdd:cd02440     1 RVLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAALLAD--NVEVLKGDAEELP-PEADE--SFDVIISDPP 75

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2537528281 303 --KFADNKAQLTGACRgykdinmiamQILKPGGTLLT 337
Cdd:cd02440    76 lhHLVEDLARFLEEAR----------RLLKPGGVLVL 102
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 215-335 2.14e-10

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: 59.32  E-value: 2.14e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 215 LERFVKDKTVLNCFSYTGTFSLYAL-RGgCKHVTNVDVSQPALDTAKRNVEHnnLDLS-KVDFVKQDVFKLLRQYRDEgv 292
Cdd:COG0742    36 LGPDIEGARVLDLFAGSGALGLEALsRG-AASVVFVEKDRKAAAVIRKNLEK--LGLEdRARVIRGDALRFLKRLAGE-- 110

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2537528281 293 QFDTIVMDPPkFADNKAQltgacrgyKDINMIA-MQILKPGGTL 335
Cdd:COG0742   111 PFDLVFLDPP-YAKGLLE--------KALELLAeNGLLAPGGLI 145
RsmC COG2813
16S rRNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
 238-336 3.99e-10

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: 58.66  E-value: 3.99e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 238 ALRGGCKHVTNVDVSQPALDTAKRNVEHNNLDlsKVDFVKQDVFKLLrqyrdEGVQFDTIVMDPPkFADNKAQLTGACRG 317
Cdd:COG2813    68 AKRNPEARVTLVDVNARAVELARANAAANGLE--NVEVLWSDGLSGV-----PDGSFDLILSNPP-FHAGRAVDKEVAHA 139

                          90       100
                  ....*....|....*....|.
gi 2537528281 318 ykdinMI--AMQILKPGGTLL 336
Cdd:COG2813   140 -----LIadAARHLRPGGELW 155
COG2263 COG2263
Predicted RNA methylase [General function prediction only];
213-302 6.83e-09

Predicted RNA methylase [General function prediction only];


Pssm-ID: 441864 [Multi-domain]  Cd Length: 199  Bit Score: 55.30  E-value: 6.83e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 213 AALERFVKDKTVLNCFSYTGTFSLYALRGGCKHVTNVDVSQPALDTAKRNVEHNNLDlskVDFVKQDVFKLlrqyrDEGV 292
Cdd:COG2263    38 AYLRGDIEGKTVLDLGCGTGMLAIGAALLGAKKVVGVDIDPEALEIARENAERLGVR---VDFIRADVTRI-----PLGG 109

                          90
                  ....*....|
gi 2537528281 293 QFDTIVMDPP 302
Cdd:COG2263   110 SVDTVVMNPP 119
Cons_hypoth95 pfam03602
Conserved hypothetical protein 95;
215-333 2.03e-08

Conserved hypothetical protein 95;


Pssm-ID: 427391 [Multi-domain]  Cd Length: 179  Bit Score: 53.40  E-value: 2.03e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 215 LERFVKDKTVLNCFSYTGTFSLYALRGGCKHVTNVDVSQPALDTAKRNVEHNNLDLSKVdfvKQDVFKLLRQYRDEGVQF 294
Cdd:pfam03602  36 LAPYIEGARVLDLFAGSGALGLEALSRGAKRVTLVEKDKRAVQILKENLQLLGLPGAVL---VMDALLALLRLAGKGPVF 112

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 2537528281 295 DTIVMDPPkFADNKAQltgacrgyKDINMIA-MQILKPGG 333
Cdd:pfam03602 113 DIVFLDPP-YAKGLIE--------EVLDLLAeKGWLKPNA 143
PRK14968 PRK14968
putative methyltransferase; Provisional
 212-302 2.39e-08

putative methyltransferase; Provisional


Pssm-ID: 237872 [Multi-domain]  Cd Length: 188  Bit Score: 53.36  E-value: 2.39e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 212 RAALERfvKDKTVLNCFSYTGTFSLYALRGGCKhVTNVDVSQPALDTAKRNVEHNNLDLSKVDFVKQDVFKLLRqyrdeG 291
Cdd:PRK14968   17 ENAVDK--KGDRVLEVGTGSGIVAIVAAKNGKK-VVGVDINPYAVECAKCNAKLNNIRNNGVEVIRSDLFEPFR-----G 88

                          90
                  ....*....|.
gi 2537528281 292 VQFDTIVMDPP 302
Cdd:PRK14968   89 DKFDVILFNPP 99
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
5-67 7.76e-08

Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 49.18  E-value: 7.76e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2537528281    5 IYLQAGREKSLKRKHpWVFSKAIKKVKGKPGLGDTVTIYDNDGKFLAIAAYSPQSQIRARVWS 67
Cdd:smart00359   3 VVVDDGAEKAILNGA-SLLAPGVVRVDGDIKEGDVVVIVDEKGEPLGIGLANMSSEEIARIKG 64
Methyltransf_25 pfam13649
Methyltransferase domain; This family appears to be a methyltransferase domain.
 231-333 2.20e-07

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


Pssm-ID: 463945 [Multi-domain]  Cd Length: 96  Bit Score: 48.33  E-value: 2.20e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 231 TGTFSLYALRGGCKHVTNVDVSQPALDTAKRNVEHNNLdlsKVDFVKQDVFKLlrQYRDEgvQFDTIVM----------D 300
Cdd:pfam13649   8 TGRLTLALARRGGARVTGVDLSPEMLERARERAAEAGL---NVEFVQGDAEDL--PFPDG--SFDLVVSsgvlhhlpdpD 80

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2537528281 301 PPKFADNkaqltgacrgykdinmiAMQILKPGG 333
Cdd:pfam13649  81 LEAALRE-----------------IARVLKPGG 96
HemK COG2890
Methylase of polypeptide chain release factors [Translation, ribosomal structure and ...
 245-336 3.65e-07

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


Pssm-ID: 442135 [Multi-domain]  Cd Length: 282  Bit Score: 51.30  E-value: 3.65e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 245 HVTNVDVSQPALDTAKRNVEHNNLDlSKVDFVKQDVFKLLrqyrDEGVQFDTIV-------------MDP------PKFA 305
Cdd:COG2890   138 RVTAVDISPDALAVARRNAERLGLE-DRVRFLQGDLFEPL----PGDGRFDLIVsnppyipedeialLPPevrdhePRLA 212

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2537528281 306 dnkaqLTGACRGYKDINMIAMQI---LKPGGTLL 336
Cdd:COG2890   213 -----LDGGEDGLDFYRRIIAQAprlLKPGGWLL 241
COG2521 COG2521
Predicted archaeal methyltransferase [General function prediction only];
209-335 6.53e-07

Predicted archaeal methyltransferase [General function prediction only];


Pssm-ID: 442011 [Multi-domain]  Cd Length: 285  Bit Score: 50.29  E-value: 6.53e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 209 RDSR--AALERFVKDKTVLNCFSYTGTFSLYALRGGCKHVTNVDVSQPALDTAKRNVEHNNLDLSKVDFVKQDVFKLLRQ 286
Cdd:COG2521   119 EDARrkVKLVGVRRGDRVLDTCTGLGYTAIEALKRGAREVITVEKDPNVLELAELNPWSRELANERIKIILGDASEVIKT 198

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2537528281 287 YRDEgvQFDTIVMDPPKFadNKAQLTGACRGYKDInmiaMQILKPGGTL 335
Cdd:COG2521   199 FPDE--SFDAIIHDPPRF--SLAGELYSLEFYREL----YRVLKPGGRL 239
UbiG COG2227
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme transport and ...
 207-336 8.96e-07

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: 47.70  E-value: 8.96e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 207 DQRDSRAALERFVKDKTVLNCFSYTGTFSLYALRGGCkHVTNVDVSQPALDTAKRNVEHNNldlskVDFVKQDVFKLlrQ 286
Cdd:COG2227    11 DRRLAALLARLLPAGGRVLDVGCGTGRLALALARRGA-DVTGVDISPEALEIARERAAELN-----VDFVQGDLEDL--P 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2537528281 287 YRDEgvQFDTIVM--------DPPKFADNkaqltgacrgykdinmiAMQILKPGGTLL 336
Cdd:COG2227    83 LEDG--SFDLVICsevlehlpDPAALLRE-----------------LARLLKPGGLLL 121
PRK09328 PRK09328
N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
 245-336 1.06e-06

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


Pssm-ID: 236467 [Multi-domain]  Cd Length: 275  Bit Score: 49.78  E-value: 1.06e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 245 HVTNVDVSQPALDTAKRNVEHNNLDlsKVDFVKQDVFKLLrqyrdEGVQFDTIVMDPP--KFADNKAQ------------ 310
Cdd:PRK09328  134 EVTAVDISPEALAVARRNAKHGLGA--RVEFLQGDWFEPL-----PGGRFDLIVSNPPyiPEADIHLLqpevrdhephla 206

                          90       100
                  ....*....|....*....|....*....
gi 2537528281 311 LTGACRGYKDINMI---AMQILKPGGTLL 336
Cdd:PRK09328  207 LFGGEDGLDFYRRIieqAPRYLKPGGWLL 235
Methyltransf_31 pfam13847
Methyltransferase domain; This family appears to have methyltransferase activity.
 220-346 1.43e-06

Methyltransferase domain; This family appears to have methyltransferase activity.


Pssm-ID: 463998 [Multi-domain]  Cd Length: 150  Bit Score: 47.41  E-value: 1.43e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 220 KDKTVLNCFSYTGTFS--LYALRGGCKHVTNVDVSQPALDTAKRNVEHNNLDlsKVDFVKQDVFKLLRQYRDEgvQFDTI 297
Cdd:pfam13847   3 KGMRVLDLGCGTGHLSfeLAEELGPNAEVVGIDISEEAIEKARENAQKLGFD--NVEFEQGDIEELPELLEDD--KFDVV 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2537528281 298 vmdppkFADNKAQLTGACRgykDINMIAMQILKPGGTLLTFSCSGLMEQ 346
Cdd:pfam13847  79 ------ISNCVLNHIPDPD---KVLQEILRVLKPGGRLIISDPDSLAEL 118
TrmN6 COG4123
tRNA1(Val) A37 N6-methylase TrmN6 [Translation, ribosomal structure and biogenesis]; tRNA1(Val) ...
 231-335 1.49e-06

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: 48.99  E-value: 1.49e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 231 TGTFSLY-ALRGGCKHVTNVDVSQPALDTAKRNVEHNNLDlSKVDFVKQDVFKLLRQYRDEgvQFDTIVMDPPKFADNKA 309
Cdd:COG4123    48 TGVIALMlAQRSPGARITGVEIQPEAAELARRNVALNGLE-DRITVIHGDLKEFAAELPPG--SFDLVVSNPPYFKAGSG 124

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2537528281 310 QL-----------TGACrGYKDINMIAMQILKPGGTL 335
Cdd:COG4123   125 RKspdearaiarhEDAL-TLEDLIRAAARLLKPGGRF 160
COG4076 COG4076
Predicted RNA methylase [General function prediction only];
212-283 1.89e-06

Predicted RNA methylase [General function prediction only];


Pssm-ID: 443253 [Multi-domain]  Cd Length: 230  Bit Score: 48.49  E-value: 1.89e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2537528281 212 RAALERFVK-DKTVLNCFSYTGTFSLYALRGGCKHVTNVDVSQPALDTAKRNVEHNNLDlSKVDFVKQDVFKL 283
Cdd:COG4076    26 KAAIERVVKpGDVVLDIGTGSGLLSMLAARAGAKKVYAVEVNPDIAAVARRIIAANGLS-DRITVINADATDL 97
PRK14967 PRK14967
putative methyltransferase; Provisional
 203-354 2.01e-06

putative methyltransferase; Provisional


Pssm-ID: 184931 [Multi-domain]  Cd Length: 223  Bit Score: 48.51  E-value: 2.01e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 203 GFYLDQRDSR-----AALERFVKDKTVLNCFSYTGTFSLYALRGGCKHVTNVDVSQPALDTAKRNVEHNNLDlskVDFVK 277
Cdd:PRK14967   14 GVYRPQEDTQlladaLAAEGLGPGRRVLDLCTGSGALAVAAAAAGAGSVTAVDISRRAVRSARLNALLAGVD---VDVRR 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 278 QDvfkLLRQYRDEgvQFDTIVMDPPKF--ADNKAQLTGACRGY---KDINMI-------AMQILKPGGTLLTF--SCSG- 342
Cdd:PRK14967   91 GD---WARAVEFR--PFDVVVSNPPYVpaPPDAPPSRGPARAWdagPDGRAVldrlcdaAPALLAPGGSLLLVqsELSGv 165

                         170
                  ....*....|....*...
gi 2537528281 343 ------LMEQNLFQKVVA 354
Cdd:PRK14967  166 ertltrLSEAGLDAEVVA 183
MTS pfam05175
Methyltransferase small domain; This domain is found in ribosomal RNA small subunit ...
 238-336 1.29e-05

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: 45.27  E-value: 1.29e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 238 ALRGGCKHVTNVDVSQPALDTAKRNVEHNNLDLskVDFVKQDVFkllrqyrdEGV---QFDTIVMDPPkFADNKAQLTGA 314
Cdd:pfam05175  50 AKESPDAELTMVDINARALESARENLAANGLEN--GEVVASDVY--------SGVedgKFDLIISNPP-FHAGLATTYNV 118

                          90       100
                  ....*....|....*....|....
gi 2537528281 315 CRgykdiNMI--AMQILKPGGTLL 336
Cdd:pfam05175 119 AQ-----RFIadAKRHLRPGGELW 137
TRM1 COG1867
tRNA G26 N,N-dimethylase Trm1 [Translation, ribosomal structure and biogenesis]; tRNA G26 N, ...
 183-326 1.56e-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: 46.79  E-value: 1.56e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 183 VVIEENGLKLEV-DILEGHKTG------FY-----LDqRDS-----RAALERFVKDKTVLNCFSYTGTFSL-YALRGGCK 244
Cdd:COG1867     4 MEITEGKVKILVpDPEKYSRFEpawapvFYnprmeLN-RDIsvaalRAYRERLKREISYLDALAASGIRGLrYALEVGIK 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 245 hVTNVDVSQPALDTAKRNVEHNNLDlsKVDFVKQDVFKLLrqyRDEGVQFDTIVMDP---P-KFADnkaqltGACRGYKD 320
Cdd:COG1867    83 -VTLNDIDPEAVELIRENLELNGLE--DVEVYNRDANALL---HELGRRFDVVDLDPfgsPaPFID------SALRAARK 150


                  ....*.
gi 2537528281 321 INMIAM 326
Cdd:COG1867   151 GGLLCV 156
UbiE COG2226
Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG [Coenzyme transport and metabolism]; ...
 207-336 3.42e-05

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: 43.44  E-value: 3.42e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 207 DQRDSRAALERFVKDKTVLNCFSYTGTFSLYALRGGCkHVTNVDVSQPALDTAKRNVEHNNLDlskVDFVKQDVFKLlrQ 286
Cdd:COG2226     9 DGREALLAALGLRPGARVLDLGCGTGRLALALAERGA-RVTGVDISPEMLELARERAAEAGLN---VEFVVGDAEDL--P 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2537528281 287 YRDEgvQFDTIVM--------DPPKFadnkaqLTGACRgykdinmiamqILKPGGTLL 336
Cdd:COG2226    83 FPDG--SFDLVISsfvlhhlpDPERA------LAEIAR-----------VLKPGGRLV 121
hemK_fam TIGR00536
HemK family putative methylases; The gene hemK from E. coli was found to contribute to heme ...
 246-336 5.95e-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: 44.27  E-value: 5.95e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 246 VTNVDVSQPALDTAKRNVEHNNLDlSKVDFVKQDVFKLLrqyrdEGVQFDTIVMDPP--------------KFADNKAqL 311
Cdd:TIGR00536 141 VIAVDISPDALAVAEENAEKNQLE-HRVEFIQSNLFEPL-----AGQKIDIIVSNPPyideedladlpnvvRFEPLLA-L 213

                          90       100
                  ....*....|....*....|....*...
gi 2537528281 312 TGACRGYKDINMIAMQI---LKPGGTLL 336
Cdd:TIGR00536 214 VGGDDGLNILRQIIELApdyLKPNGFLV 241
Cfa COG2230
Cyclopropane fatty-acyl-phospholipid synthase and related methyltransferases [Lipid transport ...
 231-336 9.96e-05

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


Pssm-ID: 441831 [Multi-domain]  Cd Length: 158  Bit Score: 42.22  E-value: 9.96e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 231 TGTFSLY-ALRGGCkHVTNVDVSQPALDTAKRNVEHNNLDlSKVDFVKQDvfklLRQYRDEGvQFDTIV-------MDPp 302
Cdd:COG2230    62 WGGLALYlARRYGV-RVTGVTLSPEQLEYARERAAEAGLA-DRVEVRLAD----YRDLPADG-QFDAIVsigmfehVGP- 133

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2537528281 303 kfaDNKAQLTGACRgykdinmiamQILKPGGTLL 336
Cdd:COG2230   134 ---ENYPAYFAKVA----------RLLKPGGRLL 154
SmtA COG0500
SAM-dependent methyltransferase [Secondary metabolites biosynthesis, transport and catabolism, ...
 231-336 1.02e-04

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


Pssm-ID: 440266 [Multi-domain]  Cd Length: 199  Bit Score: 42.98  E-value: 1.02e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 231 TGTFSLYALRGGCKHVTNVDVSQPALDTAKRNVEHNNldLSKVDFVKQDVFKLLrQYRDEgvQFDTIVMD------PPkf 304
Cdd:COG0500    37 TGRNLLALAARFGGRVIGIDLSPEAIALARARAAKAG--LGNVEFLVADLAELD-PLPAE--SFDLVVAFgvlhhlPP-- 109

                          90       100       110
                  ....*....|....*....|....*....|..
gi 2537528281 305 adnkAQLTGACRgykdinmIAMQILKPGGTLL 336
Cdd:COG0500   110 ----EEREALLR-------ELARALKPGGVLL 130
Methyltransf_11 pfam08241
Methyltransferase domain; Members of this family are SAM dependent methyltransferases.
 231-336 1.64e-04

Methyltransferase domain; Members of this family are SAM dependent methyltransferases.


Pssm-ID: 462406 [Multi-domain]  Cd Length: 94  Bit Score: 40.34  E-value: 1.64e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537528281 231 TGTFSLYALRGGCkHVTNVDVSQPALDTAKRNVEHNnldlsKVDFVKQDVFKLlrQYRDEgvQFDTIVM--------DPP 302
Cdd:pfam08241   7 TGLLTELLARLGA-RVTGVDISPEMLELAREKAPRE-----GLTFVVGDAEDL--PFPDN--SFDLVLSsevlhhveDPE 76

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2537528281 303 KFADNkaqltgacrgykdinmiAMQILKPGGTLL 336
Cdd:pfam08241  77 RALRE-----------------IARVLKPGGILI 93
PUA cd07953
PUA RNA binding domain; The PUA (PseudoUridine synthase and Archaeosine transglycosylase) ...
 5-68 8.40e-04

PUA RNA binding domain; The PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in archaeal and eukaryotic pseudouridine synthases, archaeal archaeosine synthases, a family of predicted ATPases that may be involved in RNA modification, and a family of predicted archaeal and bacterial rRNA methylases. Additionally, the PUA domain was detected in a family of eukaryotic proteins that also contain a domain homologous to the translation initiation factor eIF1/SUI1; these proteins may comprise a novel type of translation factors. Unexpectedly, the PUA domain was also found in bacterial and yeast glutamate kinases; this is compatible with the demonstrated role of these enzymes in regulating the expression of other genes. It has been shown that the PUA domain acts as an RNA binding domain in at least some of the proteins involved in RNA metabolism.


Pssm-ID: 409289 [Multi-domain]  Cd Length: 73  Bit Score: 37.66  E-value: 8.40e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2537528281   5 IYLQAGREKSLkRKHPWVFSKAIKKVKGKPGLGDTVTIYDNDGKFLAIAAYSPQSQ--------IRARVWSF 68
Cdd:cd07953     3 VVVDKGAEKAV-LNGADLMAPGVVSADGDFKRGDLVRIVSEGGRPLAIGVAEMSSDemkeelkgIAVRVLHF 73
 
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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