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Conserved domains on  [gi|124806855|ref|XP_001350850|]
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methyltransferase, putative [Plasmodium falciparum 3D7]

Protein Classification

class I SAM-dependent rRNA methyltransferase( domain architecture ID 11437764)

class I SAM-dependent rRNA methyltransferase catalyzes the methylation of one or more specific ribosomal RNA residues using S-adenosyl-L-methionine (SAM or AdoMet) as the methyl donor

CATH:  2.20.25.110
EC:  2.1.1.-
Gene Ontology:  GO:0008168|GO:0006364|GO:1904047
PubMed:  12826405|12504684
SCOP:  3000118

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
RlmK COG1092
23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI [Translation, ribosomal structure ...
107-552 9.37e-85

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: 268.97  E-value: 9.37e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 107 DKRLKRNIPFIYSNEIQNLEElKKNPFVLVNVKNMKNESFGVATFNPYSLISARIISNNTLFSININFFIEKIKNSLQWR 186
Cdd:COG1092    9 ERRLRRGHPWVFSNEIDRVEG-ELEPGDLVEVEDADGRFLGRGYYNPHSQIAVRLLSRDPDEPIDAAFFANRLRKALALR 87
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 187 YKLMtnhenqendihssshnvnnenikefinfdeQQNKINnstenhihtytyhtlnpklCYRLINAEGDNIPGLIIDRYD 266
Cdd:COG1092   88 RKLA------------------------------KREGTN-------------------AYRLVHGEADGLPGLIVDRYG 118
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 267 DFFSIQHITLGCEMLAYNINHAILELLNPKAIIFRNDIKERLNEKLEIYKKVLFGKVPEQVRLIENKCFFLIDLINSPNT 346
Cdd:COG1092  119 DVLVVQEYSAGMERRRDEILEALVEVLGPEGIYLRSDVRVRQLEGLPQYEGVLYGEAPEEVEVEENGLKFLVDLTDGQKT 198
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 347 GWFFNRKELRKLVCNYANQKQVLDLFSYVGCFGIQCSKiGNAKYVICVEKNSYFVELAIKSANLNNLKYNVKmnssqndt 426
Cdd:COG1092  199 GLFLDQRENRARVAELAKGKRVLNLFSYTGGFSVHAAA-GGAKSVTSVDLSATALEWAKENAALNGLDDRHE-------- 269
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 427 nnqnisnreynssidntncnisFLCQDALEFLKNC---KQLFDIIILDPPNLIPKSKFLESGTKRYIDLIRLAQNCVAPN 503
Cdd:COG1092  270 ----------------------FVQADAFDWLRELareGERFDLIILDPPAFAKSKKDLFDAQRDYKDLNRLALKLLAPG 327
                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|...
gi 124806855 504 GlILITFTtklCSY----QDYINIINTSFVETNKNVKIVGQGRASPDHPINLS 552
Cdd:COG1092  328 G-ILVTSS---CSRhfslDLFLEILARAARDAGRRVRIIERLTQPPDHPVLPA 376
 
Name Accession Description Interval E-value
RlmK COG1092
23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI [Translation, ribosomal structure ...
107-552 9.37e-85

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: 268.97  E-value: 9.37e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 107 DKRLKRNIPFIYSNEIQNLEElKKNPFVLVNVKNMKNESFGVATFNPYSLISARIISNNTLFSININFFIEKIKNSLQWR 186
Cdd:COG1092    9 ERRLRRGHPWVFSNEIDRVEG-ELEPGDLVEVEDADGRFLGRGYYNPHSQIAVRLLSRDPDEPIDAAFFANRLRKALALR 87
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 187 YKLMtnhenqendihssshnvnnenikefinfdeQQNKINnstenhihtytyhtlnpklCYRLINAEGDNIPGLIIDRYD 266
Cdd:COG1092   88 RKLA------------------------------KREGTN-------------------AYRLVHGEADGLPGLIVDRYG 118
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 267 DFFSIQHITLGCEMLAYNINHAILELLNPKAIIFRNDIKERLNEKLEIYKKVLFGKVPEQVRLIENKCFFLIDLINSPNT 346
Cdd:COG1092  119 DVLVVQEYSAGMERRRDEILEALVEVLGPEGIYLRSDVRVRQLEGLPQYEGVLYGEAPEEVEVEENGLKFLVDLTDGQKT 198
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 347 GWFFNRKELRKLVCNYANQKQVLDLFSYVGCFGIQCSKiGNAKYVICVEKNSYFVELAIKSANLNNLKYNVKmnssqndt 426
Cdd:COG1092  199 GLFLDQRENRARVAELAKGKRVLNLFSYTGGFSVHAAA-GGAKSVTSVDLSATALEWAKENAALNGLDDRHE-------- 269
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 427 nnqnisnreynssidntncnisFLCQDALEFLKNC---KQLFDIIILDPPNLIPKSKFLESGTKRYIDLIRLAQNCVAPN 503
Cdd:COG1092  270 ----------------------FVQADAFDWLRELareGERFDLIILDPPAFAKSKKDLFDAQRDYKDLNRLALKLLAPG 327
                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|...
gi 124806855 504 GlILITFTtklCSY----QDYINIINTSFVETNKNVKIVGQGRASPDHPINLS 552
Cdd:COG1092  328 G-ILVTSS---CSRhfslDLFLEILARAARDAGRRVRIIERLTQPPDHPVLPA 376
PRK15128 PRK15128
23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI;
107-549 7.39e-32

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


Pssm-ID: 185082 [Multi-domain]  Cd Length: 396  Bit Score: 127.26  E-value: 7.39e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 107 DKRLKRNIPFIYSNEIQNLEElKKNPFVLVNVKNMKNESFGVATFNPYSLISARIISNNTLFSININFFIEKIKNSLQWR 186
Cdd:PRK15128  12 EKSLLRRHPWVFSGAVARMEG-KASLGETIDIVDHQGKWLARGAYSPASQIRARVWTFDPDESIDIAFFTRRLQQAQKWR 90
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 187 YKLMtnhenQENDIHSsshnvnnenikefinfdeqqnkinnstenhihtytyhtlnpklcYRLINAEGDNIPGLIIDRYD 266
Cdd:PRK15128  91 DWLA-----QKDGLDS--------------------------------------------YRLIAGESDGLPGITIDRFG 121
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 267 DFFSIQHITLGCEMLAYNINHAILELLNPKAIIFRNDIKERLNEKLEIYKKVLFGKVP-EQVRLIENKCFFLIDLINSPN 345
Cdd:PRK15128 122 NFLVLQLLSAGAEYQRAALISALQTLYPECAIYDRSDVAVRKKEGMELTQGPVTGELPpALLPIEEHGMKLLVDIQGGHK 201
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 346 TGWFFNRKELRKLVCNYANQKQVLDLFSYVGCFGIQcSKIGNAKYVICVEKNSYFVELAIKSANLNNLkynvkmnssqnd 425
Cdd:PRK15128 202 TGYYLDQRDSRLATRRYVENKRVLNCFSYTGGFAVS-ALMGGCSQVVSVDTSQEALDIARQNVELNKL------------ 268
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 426 tnnqNISNREynssidntncnisFLCQDALEFLKNCK---QLFDIIILDPPNLIPKSKFLESGTKRYIDLIRLAQNCVAP 502
Cdd:PRK15128 269 ----DLSKAE-------------FVRDDVFKLLRTYRdrgEKFDVIVMDPPKFVENKSQLMGACRGYKDINMLAIQLLNP 331
                        410       420       430       440
                 ....*....|....*....|....*....|....*....|....*...
gi 124806855 503 NGlILITFT-TKLCSYQDYINIINTSFVETNKNVKIVGQGRASPDHPI 549
Cdd:PRK15128 332 GG-ILLTFScSGLMTSDLFQKIIADAAIDAGRDVQFIEQFRQAADHPV 378
RlmI_M_like cd11572
Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; This middle or ...
246-321 1.29e-24

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: 97.92  E-value: 1.29e-24
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 124806855 246 CYRLINAEGDNIPGLIIDRYDDFFSIQHITLGCEMLAYNINHAILELLNPKAIIFRNDIKERLNEKLEIYKKVLFG 321
Cdd:cd11572   24 AYRLVHGEGDGLPGLIVDRYGDVLVVQILSAGMERLKELIVEALKELLGPKGIYERSDAAVRELEGLPEEVGVLYG 99
PUA_3 pfam17785
PUA-like domain; This PUA-like domain is found at the N-terminus of SAM-dependent ...
106-163 1.53e-08

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: 51.32  E-value: 1.53e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 124806855  106 HDKRLKRNIPFIYSNEIQNLEELKKNPfVLVNVKNMKNESFGVATFNPYSLISARIIS 163
Cdd:pfam17785   7 AEKRLKRGHPWIYSNEIERVEGDLEEG-DLVRVVDSDGRFLGTGYYNPQSKIAVRVLS 63
 
Name Accession Description Interval E-value
RlmK COG1092
23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI [Translation, ribosomal structure ...
107-552 9.37e-85

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: 268.97  E-value: 9.37e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 107 DKRLKRNIPFIYSNEIQNLEElKKNPFVLVNVKNMKNESFGVATFNPYSLISARIISNNTLFSININFFIEKIKNSLQWR 186
Cdd:COG1092    9 ERRLRRGHPWVFSNEIDRVEG-ELEPGDLVEVEDADGRFLGRGYYNPHSQIAVRLLSRDPDEPIDAAFFANRLRKALALR 87
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 187 YKLMtnhenqendihssshnvnnenikefinfdeQQNKINnstenhihtytyhtlnpklCYRLINAEGDNIPGLIIDRYD 266
Cdd:COG1092   88 RKLA------------------------------KREGTN-------------------AYRLVHGEADGLPGLIVDRYG 118
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 267 DFFSIQHITLGCEMLAYNINHAILELLNPKAIIFRNDIKERLNEKLEIYKKVLFGKVPEQVRLIENKCFFLIDLINSPNT 346
Cdd:COG1092  119 DVLVVQEYSAGMERRRDEILEALVEVLGPEGIYLRSDVRVRQLEGLPQYEGVLYGEAPEEVEVEENGLKFLVDLTDGQKT 198
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 347 GWFFNRKELRKLVCNYANQKQVLDLFSYVGCFGIQCSKiGNAKYVICVEKNSYFVELAIKSANLNNLKYNVKmnssqndt 426
Cdd:COG1092  199 GLFLDQRENRARVAELAKGKRVLNLFSYTGGFSVHAAA-GGAKSVTSVDLSATALEWAKENAALNGLDDRHE-------- 269
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 427 nnqnisnreynssidntncnisFLCQDALEFLKNC---KQLFDIIILDPPNLIPKSKFLESGTKRYIDLIRLAQNCVAPN 503
Cdd:COG1092  270 ----------------------FVQADAFDWLRELareGERFDLIILDPPAFAKSKKDLFDAQRDYKDLNRLALKLLAPG 327
                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|...
gi 124806855 504 GlILITFTtklCSY----QDYINIINTSFVETNKNVKIVGQGRASPDHPINLS 552
Cdd:COG1092  328 G-ILVTSS---CSRhfslDLFLEILARAARDAGRRVRIIERLTQPPDHPVLPA 376
PRK15128 PRK15128
23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI;
107-549 7.39e-32

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


Pssm-ID: 185082 [Multi-domain]  Cd Length: 396  Bit Score: 127.26  E-value: 7.39e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 107 DKRLKRNIPFIYSNEIQNLEElKKNPFVLVNVKNMKNESFGVATFNPYSLISARIISNNTLFSININFFIEKIKNSLQWR 186
Cdd:PRK15128  12 EKSLLRRHPWVFSGAVARMEG-KASLGETIDIVDHQGKWLARGAYSPASQIRARVWTFDPDESIDIAFFTRRLQQAQKWR 90
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 187 YKLMtnhenQENDIHSsshnvnnenikefinfdeqqnkinnstenhihtytyhtlnpklcYRLINAEGDNIPGLIIDRYD 266
Cdd:PRK15128  91 DWLA-----QKDGLDS--------------------------------------------YRLIAGESDGLPGITIDRFG 121
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 267 DFFSIQHITLGCEMLAYNINHAILELLNPKAIIFRNDIKERLNEKLEIYKKVLFGKVP-EQVRLIENKCFFLIDLINSPN 345
Cdd:PRK15128 122 NFLVLQLLSAGAEYQRAALISALQTLYPECAIYDRSDVAVRKKEGMELTQGPVTGELPpALLPIEEHGMKLLVDIQGGHK 201
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 346 TGWFFNRKELRKLVCNYANQKQVLDLFSYVGCFGIQcSKIGNAKYVICVEKNSYFVELAIKSANLNNLkynvkmnssqnd 425
Cdd:PRK15128 202 TGYYLDQRDSRLATRRYVENKRVLNCFSYTGGFAVS-ALMGGCSQVVSVDTSQEALDIARQNVELNKL------------ 268
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 426 tnnqNISNREynssidntncnisFLCQDALEFLKNCK---QLFDIIILDPPNLIPKSKFLESGTKRYIDLIRLAQNCVAP 502
Cdd:PRK15128 269 ----DLSKAE-------------FVRDDVFKLLRTYRdrgEKFDVIVMDPPKFVENKSQLMGACRGYKDINMLAIQLLNP 331
                        410       420       430       440
                 ....*....|....*....|....*....|....*....|....*...
gi 124806855 503 NGlILITFT-TKLCSYQDYINIINTSFVETNKNVKIVGQGRASPDHPI 549
Cdd:PRK15128 332 GG-ILLTFScSGLMTSDLFQKIIADAAIDAGRDVQFIEQFRQAADHPV 378
RlmI_M_like cd11572
Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; This middle or ...
246-321 1.29e-24

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: 97.92  E-value: 1.29e-24
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 124806855 246 CYRLINAEGDNIPGLIIDRYDDFFSIQHITLGCEMLAYNINHAILELLNPKAIIFRNDIKERLNEKLEIYKKVLFG 321
Cdd:cd11572   24 AYRLVHGEGDGLPGLIVDRYGDVLVVQILSAGMERLKELIVEALKELLGPKGIYERSDAAVRELEGLPEEVGVLYG 99
PUA_3 pfam17785
PUA-like domain; This PUA-like domain is found at the N-terminus of SAM-dependent ...
106-163 1.53e-08

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: 51.32  E-value: 1.53e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 124806855  106 HDKRLKRNIPFIYSNEIQNLEELKKNPfVLVNVKNMKNESFGVATFNPYSLISARIIS 163
Cdd:pfam17785   7 AEKRLKRGHPWIYSNEIERVEGDLEEG-DLVRVVDSDGRFLGTGYYNPQSKIAVRVLS 63
Trm5 COG2520
tRNA G37 N-methylase Trm5 [Translation, ribosomal structure and biogenesis]; tRNA G37 ...
278-417 1.15e-06

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: 50.63  E-value: 1.15e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 278 CEMLAYNINHAILEL-LNPKAIIFRN-DIK--ERLNEkLEiykkVLFGKVPEQVRLIENKCFFLIDLinspnTGWFFN-- 351
Cdd:COG2520   97 LEEYKEEIAEAILEShPNVKTVLAKAsGVEgeFRVPE-LE----LLAGEGRTETIHRENGCRFKLDV-----AKVYFSpr 166
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 352 ----RKELRKLVCNYanqKQVLDLFSYVGCFGIQCSKIGNAKyVICVEKNSYFVELAIKSANLNNLKYNV 417
Cdd:COG2520  167 lateRLRIAELVKPG---ERVLDMFAGVGPFSIPIAKRSGAK-VVAIDINPDAVEYLKENIRLNKVEDRV 232
Met_10 pfam02475
Met-10+ like-protein; The methionine-10 mutant allele of N. crassa codes for a protein of ...
282-418 2.89e-06

Met-10+ like-protein; The methionine-10 mutant allele of N. crassa codes for a protein of unknown function, Swiss:O27901. However, homologous proteins have been found in yeast suggesting this protein may be involved in methionine biosynthesis, transport and/or utilization.


Pssm-ID: 396850 [Multi-domain]  Cd Length: 198  Bit Score: 48.12  E-value: 2.89e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855  282 AYNINHAILELLNPKAIIFRNDIKERLNEKLEIykKVLFGKVPEQVRlIENKCFFLIDLinspnTGWFFNRK---ELRKL 358
Cdd:pfam02475  22 RKVIGEAILEKTKVKTVLRKVSEVYGEFRTPRY--EVLAGSDTETIH-KENGCRFKVDV-----AKVYWSPRliaERERI 93
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855  359 VCNYANQKQVLDLFSYVGCFGIQCSKIGNAKYVICVEKNSYFVELAIKSANLNNLKYNVK 418
Cdd:pfam02475  94 AKLVEPGEVVVDMFAGIGPFSIPIAKHSKARRVYAIELNPESYKYLKENIKLNKVEDVVK 153
PUA_RlmI cd21153
PUA RNA-binding domain of the SAM-dependent methyltransferase RlmI and related proteins; The ...
106-163 9.47e-06

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: 43.73  E-value: 9.47e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 124806855 106 HDKRLKRNIPFIYSNEIQNLEELKKNPfVLVNVKNMKNESFGVATFNPYSLISARIIS 163
Cdd:cd21153    9 KEKSLRRGHPWIFSGAIDRIEGKPEPG-DLVDVYDHKGKFLGTGLYNPHSQIRVRVLS 65
Methyltrans_SAM pfam10672
S-adenosylmethionine-dependent methyltransferase; Members of this family are ...
317-507 1.32e-05

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: 47.18  E-value: 1.32e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855  317 KVLFGKVPEQVRLIENKCFFLIDLINSPNTGWFFNRKELRKLVCNYANQKQVLDLFSYVGCFGIqCSKIGNAKYVICVEk 396
Cdd:pfam10672  76 EVLSGELLETPVVVENGLKYQLDIGRNQNFGLFLDMRLGRRWVQENAKGKNVLNLFAYTCGFSV-AAIAGGASQVVNVD- 153
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855  397 nsyfvelaIKSANLNNLKYNVKMNssQNDTNnqnisnreynssidntncNISFLCQDALEFLKNCKQL--FDIIILDPPN 474
Cdd:pfam10672 154 --------MARGSLNKGRDNHRLN--GHDLG------------------RVSFLGHDIFKSWGKIKKLgpYDLVIIDPPS 205
                         170       180       190
                  ....*....|....*....|....*....|...
gi 124806855  475 LIPKSKFLesgTKRYIDLIRLAQNCVAPNGLIL 507
Cdd:pfam10672 206 FQKGSFAL---TKDYKKILRRLPELLVEGGTVL 235
Cons_hypoth95 pfam03602
Conserved hypothetical protein 95;
361-508 1.69e-04

Conserved hypothetical protein 95;


Pssm-ID: 427391 [Multi-domain]  Cd Length: 179  Bit Score: 42.61  E-value: 1.69e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855  361 NYANQKQVLDLFSYVGCFGIQC-SKigNAKYVICVEKNSYFVELaiksanlnnLKYNVKMnssqndtnnqnisnreynss 439
Cdd:pfam03602  38 PYIEGARVLDLFAGSGALGLEAlSR--GAKRVTLVEKDKRAVQI---------LKENLQL-------------------- 86
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 124806855  440 idnTNCNISFLCQDALE-FLKNCKQ--LFDIIILDPPnlipkskFLESGTKRYIDLIRlAQNCVAPNGLILI 508
Cdd:pfam03602  87 ---LGLPGAVLVMDALLaLLRLAGKgpVFDIVFLDPP-------YAKGLIEEVLDLLA-EKGWLKPNALIYV 147
RsmD COG0742
16S rRNA G966 N2-methylase RsmD [Translation, ribosomal structure and biogenesis]; 16S rRNA ...
368-508 2.09e-04

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: 42.38  E-value: 2.09e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124806855 368 VLDLFSYVGCFGIQC-SKiGnAKYVICVEKNSYFVELaIKsANLNNLKYNvkmnssqndtnnqnisnreynssidntnCN 446
Cdd:COG0742   45 VLDLFAGSGALGLEAlSR-G-AASVVFVEKDRKAAAV-IR-KNLEKLGLE----------------------------DR 92
                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 124806855 447 ISFLCQDALEFLKN-CKQLFDIIILDPP---NLIPKSkflesgtkryIDLIrLAQNCVAPNGLILI 508
Cdd:COG0742   93 ARVIRGDALRFLKRlAGEPFDLVFLDPPyakGLLEKA----------LELL-AENGLLAPGGLIVV 147
 
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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