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Conserved domains on  [gi|1765932182|gb|QFQ13795|]
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rRNA cytosine-C5-methyltransferase [Pseudoprevotella muciniphila]

Protein Classification

AdoMet_MTases and Methyltranf_PUA domain-containing protein( domain architecture ID 11414906)

AdoMet_MTases and Methyltranf_PUA domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 17-310 2.61e-59

16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family is part of the Pathway/BioSystem: 16S rRNA modification


:

Pssm-ID: 439914 [Multi-domain]  Cd Length: 441  Bit Score: 200.62  E-value: 2.61e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  17 DKLELRPSIPDEFIAQQTRLIGSENALRLAESLERASPVSVRMNSAKRS---------SLFSEAELVPWCTTGRFLDKRP 87
Cdd:COG0144   139 ERLAVRYSHPEWLVERLRAAYGPEEAEALLAALNEPPPLDLRVNTLKASreellarlaEEGIEAEPTPLSPDGLRLEGPG 218

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  88 EFTLNPLLHAGAFYVQEAASMFLeqAYNAFDETPQRVLDLCAAPGGKSTLWRSLLPEGALLVANEPLRQRAMILAENLAK 167
Cdd:COG0144   219 PVTALPGFREGLFSVQDEASQLV--ALLLDPKPGERVLDLCAAPGGKTLHLAELMGNKGRVVAVDISEHRLKRLRENLAR 296

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 168 WGHADVVVTQAYPEEFAA-LRGFFDVIATDVPCSGEGMFRKDDDARRMWSMANVAMCAERQRKILSDVWPALRNGGWIVY 246
Cdd:COG0144   297 LGLSNVEVVVADARELLEwLPGKFDRVLLDAPCSGTGTLRRHPDIKWRRTPEDIAELAALQRELLDAAARLLKPGGRLVY 376

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1765932182 247 STCTFNDEENEKNVQFICEEL-GAEVVPLSIDPAWGIVDTPFGYHFYPHLTRSEGFFIALLRKTS 310
Cdd:COG0144   377 STCSLLPEENEEVVEAFLARHpDFELVPLAELLPGLALTDGGYLRLLPHRHGTDGFFIARLRKKA 441
Methyltranf_PUA pfam13636
RNA-binding PUA-like domain of methyltransferase RsmF; Methyltranf_PUA is the second of two ...
 410-459 4.95e-14

RNA-binding PUA-like domain of methyltransferase RsmF; Methyltranf_PUA is the second of two C-terminal domains found on bacterial methyltransferase RsmF that modifies the 16S ribosomal RNA. It has some structural similarity to the RNA-binding PUA domains suggesting that it is involved in RNA recognition. It lies downstream of the catalytic centre of this methyltransferase, family pfam01189.


:

Pssm-ID: 433368 [Multi-domain]  Cd Length: 50  Bit Score: 66.01  E-value: 4.95e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1765932182 410 ALSYLRRETLCLPADVPRGYVNVVYEDHSLGFVNNLGNRANNMYPQEWRI 459
Cdd:pfam13636   1 ALRYLRGETIELDGDLKAGWVLVTYDGFPLGWGKLLGGRLKNLYPKGLRI 50
 
Name Accession Description Interval E-value
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 17-310 2.61e-59

16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family is part of the Pathway/BioSystem: 16S rRNA modification


Pssm-ID: 439914 [Multi-domain]  Cd Length: 441  Bit Score: 200.62  E-value: 2.61e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  17 DKLELRPSIPDEFIAQQTRLIGSENALRLAESLERASPVSVRMNSAKRS---------SLFSEAELVPWCTTGRFLDKRP 87
Cdd:COG0144   139 ERLAVRYSHPEWLVERLRAAYGPEEAEALLAALNEPPPLDLRVNTLKASreellarlaEEGIEAEPTPLSPDGLRLEGPG 218

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  88 EFTLNPLLHAGAFYVQEAASMFLeqAYNAFDETPQRVLDLCAAPGGKSTLWRSLLPEGALLVANEPLRQRAMILAENLAK 167
Cdd:COG0144   219 PVTALPGFREGLFSVQDEASQLV--ALLLDPKPGERVLDLCAAPGGKTLHLAELMGNKGRVVAVDISEHRLKRLRENLAR 296

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 168 WGHADVVVTQAYPEEFAA-LRGFFDVIATDVPCSGEGMFRKDDDARRMWSMANVAMCAERQRKILSDVWPALRNGGWIVY 246
Cdd:COG0144   297 LGLSNVEVVVADARELLEwLPGKFDRVLLDAPCSGTGTLRRHPDIKWRRTPEDIAELAALQRELLDAAARLLKPGGRLVY 376

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1765932182 247 STCTFNDEENEKNVQFICEEL-GAEVVPLSIDPAWGIVDTPFGYHFYPHLTRSEGFFIALLRKTS 310
Cdd:COG0144   377 STCSLLPEENEEVVEAFLARHpDFELVPLAELLPGLALTDGGYLRLLPHRHGTDGFFIARLRKKA 441
yebU PRK11933
rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
 25-456 1.15e-56

rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed


Pssm-ID: 183387 [Multi-domain]  Cd Length: 470  Bit Score: 194.74  E-value: 1.15e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  25 IPDEFIAQQTRLIGSENALR--LAES---LERaspvSVRMNSAKRSS-----LFSEA----ELVPWCTTGRFLDKRPEFT 90
Cdd:PRK11933    4 LPDAFLTQMREAMPSHLSMDdfIAACqrpLRR----SIRVNTLKISVadflqLMAPYgwtlTPIPWCEEGFWIERDDEDA 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  91 L---NPLLH-AGAFYVQEAASMFLEQAYNAFDETPQRVLDLCAAPGGKSTLWRSLLPEGALLVANEPLRQRAMILAENLA 166
Cdd:PRK11933   80 LplgNTAEHlSGLFYIQEASSMLPVAALFADDNAPQRVLDMAAAPGSKTTQIAALMNNQGAIVANEYSASRVKVLHANIS 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 167 KWGHADVVVTQAYPEEF-AALRGFFDVIATDVPCSGEGMFRKDDDARRMWSMANVAMCAERQRKILSDVWPALRNGGWIV 245
Cdd:PRK11933  160 RCGVSNVALTHFDGRVFgAALPETFDAILLDAPCSGEGTVRKDPDALKNWSPESNLEIAATQRELIESAFHALKPGGTLV 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 246 YSTCTFNDEENEKNVQFICEELGAEVVPLSID---PAWGIVDTPFGY-HFYPHLTRSEGFFIALLRKTS---PSGTQKMK 318
Cdd:PRK11933  240 YSTCTLNREENQAVCLWLKETYPDAVEFEPLGdlfPGAEKALTEEGFlHVFPQIYDSEGFFVARLRKTAsvpRLPAPKYK 319

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 319 IKHRPLVDFPKwlKNNDEF------VGLRSCETLITAVRksiaDDVL---------AVGQiVRCLSAGIAMAEEI-KGKK 382
Cdd:PRK11933  320 VGKFPFTPAKD--KEAQEIrqaaasVGLSWPENLRLWQR----DKEVwlfpagiepLIGK-VRFSRIGIKLAETHkKGYR 392

                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1765932182 383 tvPQHPLALAL-DFDEAVfpRVSLSLDEALSYLRRETLCLPADVPRGYVNVVYEDHSLGFVNNLGNRANNMYPQE 456
Cdd:PRK11933  393 --WQHEAVIALaSPDNAN--AFELTPQEAEEWYMGRDIYPQTAPPAGEVIVTYQGQPIGLAKRVGNRLKNSLPRE 463
nop2p TIGR00446
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 73-308 4.09e-51

NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 173.81  E-value: 4.09e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  73 LVPWCTTGRFLDKRPEFTLN--PLLHAGAFYVQEAASMFLEQAYNAfdETPQRVLDLCAAPGGKSTLWRSLLPEGALLVA 150
Cdd:TIGR00446  24 LEPTCEEYFFEVKESPFSIGstPEYLFGYYYPQEASSMIPPIALEP--REDERVLDMAAAPGGKTTQISQLMKNKGCIVA 101

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 151 NEPLRQRAMILAENLAKWGHADVVVTQAYPEEFAALRGFFDVIATDVPCSGEGMFRKDDDARRMWSMANVAMCAERQRKI 230
Cdd:TIGR00446 102 NEISKSRTKALISNINRMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRKDPSRKRNWSEEDIKYCSLLQKEL 181

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 231 LSDVWPALRNGGWIVYSTCTFNDEENEKNVQFICEELGAEVvplsIDPAWGivDTPFG-----------YHFYPHLTRSE 299
Cdd:TIGR00446 182 IDAAIDALKPGGVLVYSTCSLEVEENEEVIDYILRKRPDVV----EEIIKG--DEFFGinigkgevkgaLRVFPQNYDCE 255


                  ....*....
gi 1765932182 300 GFFIALLRK 308
Cdd:TIGR00446 256 GFFVAKLRK 264
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 122-307 1.11e-39

16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ribosomal methyltransferase RsmB/F enzyme. There is a catalytic cysteine residue at 180 in UniProtKB:Q5SII2, with another highly conserved cysteine at residue 230. It methylates the C(5) position of cytosine 2870 (m5C2870) in 25S rRNA.


Pssm-ID: 426109 [Multi-domain]  Cd Length: 199  Bit Score: 141.79  E-value: 1.11e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 122 QRVLDLCAAPGGKSTLWRSLLPEGALLVANEPLRQRAMILAENLAKWGHADVVVTQAYPEEFAALRG--FFDVIATDVPC 199
Cdd:pfam01189  10 ETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQPDQWLGgvLFDRILLDAPC 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 200 SGEGMFRKDDDARRMWSMANVAMCAERQRKILSDVWPALRNGGWIVYSTCTFNDEENEKNVQ-FICEELGAEVVPLSIDP 278
Cdd:pfam01189  90 SGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLLKPGGVLVYSTCSVLPEENEAVIEyFLQKHPDVELVPTPLFE 169

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1765932182 279 AWGIvDTPFGYH--FYPHLTRSEGFFIALLR 307
Cdd:pfam01189 170 PVGL-AIGEQPTlrLLPHTHNGDGFFIAKLR 199
Methyltranf_PUA pfam13636
RNA-binding PUA-like domain of methyltransferase RsmF; Methyltranf_PUA is the second of two ...
 410-459 4.95e-14

RNA-binding PUA-like domain of methyltransferase RsmF; Methyltranf_PUA is the second of two C-terminal domains found on bacterial methyltransferase RsmF that modifies the 16S ribosomal RNA. It has some structural similarity to the RNA-binding PUA domains suggesting that it is involved in RNA recognition. It lies downstream of the catalytic centre of this methyltransferase, family pfam01189.


Pssm-ID: 433368 [Multi-domain]  Cd Length: 50  Bit Score: 66.01  E-value: 4.95e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1765932182 410 ALSYLRRETLCLPADVPRGYVNVVYEDHSLGFVNNLGNRANNMYPQEWRI 459
Cdd:pfam13636   1 ALRYLRGETIELDGDLKAGWVLVTYDGFPLGWGKLLGGRLKNLYPKGLRI 50
 
Name Accession Description Interval E-value
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 17-310 2.61e-59

16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family is part of the Pathway/BioSystem: 16S rRNA modification


Pssm-ID: 439914 [Multi-domain]  Cd Length: 441  Bit Score: 200.62  E-value: 2.61e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  17 DKLELRPSIPDEFIAQQTRLIGSENALRLAESLERASPVSVRMNSAKRS---------SLFSEAELVPWCTTGRFLDKRP 87
Cdd:COG0144   139 ERLAVRYSHPEWLVERLRAAYGPEEAEALLAALNEPPPLDLRVNTLKASreellarlaEEGIEAEPTPLSPDGLRLEGPG 218

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  88 EFTLNPLLHAGAFYVQEAASMFLeqAYNAFDETPQRVLDLCAAPGGKSTLWRSLLPEGALLVANEPLRQRAMILAENLAK 167
Cdd:COG0144   219 PVTALPGFREGLFSVQDEASQLV--ALLLDPKPGERVLDLCAAPGGKTLHLAELMGNKGRVVAVDISEHRLKRLRENLAR 296

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 168 WGHADVVVTQAYPEEFAA-LRGFFDVIATDVPCSGEGMFRKDDDARRMWSMANVAMCAERQRKILSDVWPALRNGGWIVY 246
Cdd:COG0144   297 LGLSNVEVVVADARELLEwLPGKFDRVLLDAPCSGTGTLRRHPDIKWRRTPEDIAELAALQRELLDAAARLLKPGGRLVY 376

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1765932182 247 STCTFNDEENEKNVQFICEEL-GAEVVPLSIDPAWGIVDTPFGYHFYPHLTRSEGFFIALLRKTS 310
Cdd:COG0144   377 STCSLLPEENEEVVEAFLARHpDFELVPLAELLPGLALTDGGYLRLLPHRHGTDGFFIARLRKKA 441
yebU PRK11933
rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
 25-456 1.15e-56

rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed


Pssm-ID: 183387 [Multi-domain]  Cd Length: 470  Bit Score: 194.74  E-value: 1.15e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  25 IPDEFIAQQTRLIGSENALR--LAES---LERaspvSVRMNSAKRSS-----LFSEA----ELVPWCTTGRFLDKRPEFT 90
Cdd:PRK11933    4 LPDAFLTQMREAMPSHLSMDdfIAACqrpLRR----SIRVNTLKISVadflqLMAPYgwtlTPIPWCEEGFWIERDDEDA 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  91 L---NPLLH-AGAFYVQEAASMFLEQAYNAFDETPQRVLDLCAAPGGKSTLWRSLLPEGALLVANEPLRQRAMILAENLA 166
Cdd:PRK11933   80 LplgNTAEHlSGLFYIQEASSMLPVAALFADDNAPQRVLDMAAAPGSKTTQIAALMNNQGAIVANEYSASRVKVLHANIS 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 167 KWGHADVVVTQAYPEEF-AALRGFFDVIATDVPCSGEGMFRKDDDARRMWSMANVAMCAERQRKILSDVWPALRNGGWIV 245
Cdd:PRK11933  160 RCGVSNVALTHFDGRVFgAALPETFDAILLDAPCSGEGTVRKDPDALKNWSPESNLEIAATQRELIESAFHALKPGGTLV 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 246 YSTCTFNDEENEKNVQFICEELGAEVVPLSID---PAWGIVDTPFGY-HFYPHLTRSEGFFIALLRKTS---PSGTQKMK 318
Cdd:PRK11933  240 YSTCTLNREENQAVCLWLKETYPDAVEFEPLGdlfPGAEKALTEEGFlHVFPQIYDSEGFFVARLRKTAsvpRLPAPKYK 319

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 319 IKHRPLVDFPKwlKNNDEF------VGLRSCETLITAVRksiaDDVL---------AVGQiVRCLSAGIAMAEEI-KGKK 382
Cdd:PRK11933  320 VGKFPFTPAKD--KEAQEIrqaaasVGLSWPENLRLWQR----DKEVwlfpagiepLIGK-VRFSRIGIKLAETHkKGYR 392

                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1765932182 383 tvPQHPLALAL-DFDEAVfpRVSLSLDEALSYLRRETLCLPADVPRGYVNVVYEDHSLGFVNNLGNRANNMYPQE 456
Cdd:PRK11933  393 --WQHEAVIALaSPDNAN--AFELTPQEAEEWYMGRDIYPQTAPPAGEVIVTYQGQPIGLAKRVGNRLKNSLPRE 463
nop2p TIGR00446
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 73-308 4.09e-51

NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 173.81  E-value: 4.09e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  73 LVPWCTTGRFLDKRPEFTLN--PLLHAGAFYVQEAASMFLEQAYNAfdETPQRVLDLCAAPGGKSTLWRSLLPEGALLVA 150
Cdd:TIGR00446  24 LEPTCEEYFFEVKESPFSIGstPEYLFGYYYPQEASSMIPPIALEP--REDERVLDMAAAPGGKTTQISQLMKNKGCIVA 101

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 151 NEPLRQRAMILAENLAKWGHADVVVTQAYPEEFAALRGFFDVIATDVPCSGEGMFRKDDDARRMWSMANVAMCAERQRKI 230
Cdd:TIGR00446 102 NEISKSRTKALISNINRMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRKDPSRKRNWSEEDIKYCSLLQKEL 181

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 231 LSDVWPALRNGGWIVYSTCTFNDEENEKNVQFICEELGAEVvplsIDPAWGivDTPFG-----------YHFYPHLTRSE 299
Cdd:TIGR00446 182 IDAAIDALKPGGVLVYSTCSLEVEENEEVIDYILRKRPDVV----EEIIKG--DEFFGinigkgevkgaLRVFPQNYDCE 255


                  ....*....
gi 1765932182 300 GFFIALLRK 308
Cdd:TIGR00446 256 GFFVAKLRK 264
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
17-308 2.15e-41

16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 153.02  E-value: 2.15e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  17 DKLELRPSIP----DEFIAQqtrlIGSENALRLAESLERASPVSVRMNSAKRS---------SLFSEAELVPWCTTGRFL 83
Cdd:PRK14902  141 KRLSIKYSHPvwlvKRWIDQ----YGEEKAEKILESLNEPPKASIRVNTLKISveeliekleEEGYEVEESLLSPEALVI 216

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  84 DKRPeFTLNPLLHAGAFYVQEAASMFLeqAYnAFDETP-QRVLDLCAAPGGKSTLWRSLLPEGALLVANEPLRQRAMILA 162
Cdd:PRK14902  217 EKGN-IAGTDLFKDGLITIQDESSMLV--AP-ALDPKGgDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIE 292

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 163 ENLAKWGHADVVVTQA----YPEEFAalrGFFDVIATDVPCSGEGMFRKDDDARRMWSMANVAMCAERQRKILSDVWPAL 238
Cdd:PRK14902  293 ENAKRLGLTNIETKALdarkVHEKFA---EKFDKILVDAPCSGLGVIRRKPDIKYNKTKEDIESLQEIQLEILESVAQYL 369

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1765932182 239 RNGGWIVYSTCTFNDEENEKNV-QFICEELGAEVVPLSIDPAWGIVDTPF-GY-HFYPHLTRSEGFFIALLRK 308
Cdd:PRK14902  370 KKGGILVYSTCTIEKEENEEVIeAFLEEHPEFELVPLQHEKPDELVYEVKdGYlQILPNDYGTDGFFIAKLRK 442
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 122-307 1.11e-39

16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ribosomal methyltransferase RsmB/F enzyme. There is a catalytic cysteine residue at 180 in UniProtKB:Q5SII2, with another highly conserved cysteine at residue 230. It methylates the C(5) position of cytosine 2870 (m5C2870) in 25S rRNA.


Pssm-ID: 426109 [Multi-domain]  Cd Length: 199  Bit Score: 141.79  E-value: 1.11e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 122 QRVLDLCAAPGGKSTLWRSLLPEGALLVANEPLRQRAMILAENLAKWGHADVVVTQAYPEEFAALRG--FFDVIATDVPC 199
Cdd:pfam01189  10 ETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQPDQWLGgvLFDRILLDAPC 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 200 SGEGMFRKDDDARRMWSMANVAMCAERQRKILSDVWPALRNGGWIVYSTCTFNDEENEKNVQ-FICEELGAEVVPLSIDP 278
Cdd:pfam01189  90 SGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLLKPGGVLVYSTCSVLPEENEAVIEyFLQKHPDVELVPTPLFE 169

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1765932182 279 AWGIvDTPFGYH--FYPHLTRSEGFFIALLR 307
Cdd:pfam01189 170 PVGL-AIGEQPTlrLLPHTHNGDGFFIAKLR 199
Ncl1 COG3270
Ribosome biogenesis protein, NOL1/NOP2/FMU family [Translation, ribosomal structure and ...
 28-459 1.44e-39

Ribosome biogenesis protein, NOL1/NOP2/FMU family [Translation, ribosomal structure and biogenesis];


Pssm-ID: 442501 [Multi-domain]  Cd Length: 452  Bit Score: 148.31  E-value: 1.44e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  28 EFIAQQTRLIGSENALRLAESLERASPVSVRMNSAKRSSLFSEAELVPWCTTGRFLDKRPEFTLNPLLHAGAFYVQEAAS 107
Cdd:COG3270    13 LLLLEEEAAFAAALRLLRRSSLRVLLLKAAEDLALRLLAPPPLLPPPPWPEGGGYEEDEELGGPLGLAAAALYYLQEAAA 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 108 MfleQAYNAFDETPQRVLDLCAAPGGKSTLWRSLLPEGALLVANEPLRQRAMILAENLAKWGHADVVVTQAYPEEFAALR 187
Cdd:COG3270    93 A---SSALPVAALPGLLLLLAAAAGGAAATAAAAAQGGLLLNLLNIILALELLASSVEVLHANIVVVVNTNTPLAELAGF 169

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 188 GFFDVIATDVPCSGEGMFRKDDDARRMWSMANVAMCAERQRKILSDV---WPALRNGGWIVYSTCTFNDEENEKNVQFIC 264
Cdd:COG3270   170 VFFDALDADADASLLGGGFPREGAAAKEADPLRKASAEIQLEIEAAAaaaLLLGGGALLLTTTTEPSEEEEEEEELLLLL 249

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 265 EELGAEVVPLSIDPAWGIVDTP--------FGYHFYPHLTRSEGFFIALLRKTSPSGTQKmkiKHRPLVDFPKWLKNN-D 335
Cdd:COG3270   250 EELDLALEPAVEEGAGEGGDPEaaaaltelLGLHRFPPHGEGGGGFFAALKKKAGDEPSP---KKKKKKKKPKQAKEVlR 326

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 336 EF--VGLRSCETLITAVRKS----IADDVLAVGQiVRCLSAGIAMAEeIKGKKTVPQHPLALALDfDEAVFPRVSLSLDE 409
Cdd:COG3270   327 AFaeEGLPLPEVGRLWERGGklylLPEELPDLSG-LKVLRIGLKLGE-IKKKRFEPSHALALALG-PEATKNVVELDAEE 403

                         410       420       430       440       450
                  ....*....|....*....|....*....|....*....|....*....|
gi 1765932182 410 ALSYLRRETLcLPADVPRGYVNVVYEDHSLGFVNNLGNRANNMYPQEWRI 459
Cdd:COG3270   404 ALRYLKGEDI-ELEDGDKGWVLVTYDGYPLGWGKYVGGRLKNHYPKGLRR 452
rsmB TIGR00563
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. ...
 83-308 1.32e-32

16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. The reading frame was originally interpreted as two reading frames, fmu and fmv. The recombinant protein from E. coli was shown to methylate only C967 of small subunit (16S) ribosomal RNA and to produce only m5C at that position. The seed alignment is built from bacterial sequences only. Eukaryotic homologs include Nop2, a protein required for processing pre-rRNA, that is likely also a rRNA methyltransferase, although the fine specificity may differ. Cutoff scores are set to avoid treating archaeal and eukaroytic homologs automatically as functionally equivalent, although they may have very similar roles. [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 273141 [Multi-domain]  Cd Length: 426  Bit Score: 128.45  E-value: 1.32e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  83 LDKRPEFTLNPLLHAGAFYVQEAASMFLEQAYNAFDEtpQRVLDLCAAPGGKSTLWRSLLPEGALlVANEPLRQRAMILA 162
Cdd:TIGR00563 203 LETPAAVHALPGFEEGWVTVQDASAQWVATWLAPQNE--ETILDACAAPGGKTTHILELAPQAQV-VALDIHEHRLKRVY 279

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 163 ENLAKWG---HADVV-VTQAYPEEFAALrGFFDVIATDVPCSGEGMFRKDDDARRMWSMANVAMCAERQRKILSDVWPAL 238
Cdd:TIGR00563 280 ENLKRLGltiKAETKdGDGRGPSQWAEN-EQFDRILLDAPCSATGVIRRHPDIKWLRKPRDIAELAELQSEILDAIWPLL 358

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1765932182 239 RNGGWIVYSTCTFNDEENEKNVQ-FICEELGAEVVPLSIDPAwgivDTPFGYHFYPHLTRSEGFFIALLRK 308
Cdd:TIGR00563 359 KTGGTLVYATCSVLPEENSEQIKaFLQEHPDFPFEKTGTPEQ----VRDGGLQILPHAEEGDGFFYAKLIK 425
PRK14901 PRK14901
16S rRNA methyltransferase B; Provisional
 16-310 1.69e-28

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237856 [Multi-domain]  Cd Length: 434  Bit Score: 116.95  E-value: 1.69e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  16 SDKLELRPSIPDEFIAQQTRLIGSENALRLAESLERASPVSVRMNSAKRS-----SLFSEA----ELVPWCTTG-RFLDK 85
Cdd:PRK14901  140 IERLAILHSFPDWLVKLWLEWLGLEEAEQLCKWFNQPPSLDLRINPLRTSleevqAALAEAgitaTPIPGLPQGlRLTGN 219

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  86 RPEFTLNPLLHAGAFYVQEAASMFLEQAYNafdetPQ---RVLDLCAAPGGKSTLWRSLLPEGALLVANEPLRQRAMILA 162
Cdd:PRK14901  220 PGSIRQLPGYEEGWWTVQDRSAQLVAPLLD-----PQpgeVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQ 294

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 163 ENLAKWGHADVVVTQA----YPEEFAALRGFFDVIATDVPCSGEGMFRKDDDARrmWSM--ANVAMCAERQRKILSDVWP 236
Cdd:PRK14901  295 ENAQRLGLKSIKILAAdsrnLLELKPQWRGYFDRILLDAPCSGLGTLHRHPDAR--WRQtpEKIQELAPLQAELLESLAP 372

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1765932182 237 ALRNGGWIVYSTCTFNDEENEKNV-QFiceelgaevvpLSIDPAWGIVdtPFGYHFYPHLTRSEGFFIALLRKTS 310
Cdd:PRK14901  373 LLKPGGTLVYATCTLHPAENEAQIeQF-----------LARHPDWKLE--PPKQKIWPHRQDGDGFFMAVLRKKS 434
PRK10901 PRK10901
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
92-308 4.46e-23

16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;


Pssm-ID: 236790 [Multi-domain]  Cd Length: 427  Bit Score: 101.03  E-value: 4.46e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  92 NPLLHAGAFYVQEA----ASMFLEQAYNafdetpQRVLDLCAAPGGKST-LWRslLPEGALLVANEPLRQRAMILAENLA 166
Cdd:PRK10901  218 LPGFAEGWVSVQDAaaqlAATLLAPQNG------ERVLDACAAPGGKTAhILE--LAPQAQVVALDIDAQRLERVRENLQ 289

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 167 KWG-HADVVVTQA-YPEEFAALRGFfDVIATDVPCSGEGM---------FRKDDDarrmwsmanVAMCAERQRKILSDVW 235
Cdd:PRK10901  290 RLGlKATVIVGDArDPAQWWDGQPF-DRILLDAPCSATGVirrhpdikwLRRPED---------IAALAALQSEILDALW 359

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1765932182 236 PALRNGGWIVYSTCTFNDEENEKNVQ-FICEELGAEVVPlsidpaWGIVDTPfGYHFYPHLTRSEGFFIALLRK 308
Cdd:PRK10901  360 PLLKPGGTLLYATCSILPEENEQQIKaFLARHPDAELLD------TGTPQQP-GRQLLPGEEDGDGFFYALLIK 426
PRK14903 PRK14903
16S rRNA methyltransferase B; Provisional
 119-309 2.76e-20

16S rRNA methyltransferase B; Provisional


Pssm-ID: 184896 [Multi-domain]  Cd Length: 431  Bit Score: 92.63  E-value: 2.76e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 119 ETPQRVLDLCAAPGGKSTLWRSLLPEGALLVANEPLRQRAMILAENLAKWGHADVVVTQAYPEEFAA-LRGFFDVIATDV 197
Cdd:PRK14903  236 EPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKRLKLSSIEIKIADAERLTEyVQDTFDRILVDA 315

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 198 PCSGEGMFRKDDDARRMWSMANVAMCAERQRKILSDVWPALRNGGWIVYSTCTFNDEENEKNVQ-FICEELGAEVVPL-- 274
Cdd:PRK14903  316 PCTSLGTARNHPEVLRRVNKEDFKKLSEIQLRIVSQAWKLLEKGGILLYSTCTVTKEENTEVVKrFVYEQKDAEVIDIrd 395

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1765932182 275 -----SIDPAWgivdTPFGYHFYPHLTRSEgFFIALLRKT 309
Cdd:PRK14903  396 kleefEVEGIW----DGYGFLMLPDETLTP-FYVSVLRKM 430
Methyltr_RsmF_N pfam17125
N-terminal domain of 16S rRNA methyltransferase RsmF; This is the N-terminal domain of the ...
 25-107 5.57e-19

N-terminal domain of 16S rRNA methyltransferase RsmF; This is the N-terminal domain of the RsmF methyl transferase. RsmF is a multi-site-specific methyltransferase that is responsible for the synthesis of three modifications on cytidines in 16S ribosomal RNA. The N-terminus is critical for stabilising the catalytic core of the enzyme.


Pssm-ID: 465356 [Multi-domain]  Cd Length: 88  Bit Score: 81.37  E-value: 5.57e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  25 IPDEFIAQQTRLIGSEnALRLAESLERASPVSVRMNSAKRSS------LFSEAELVPWCTTGRFLDKRPEFTLNPLLHAG 98
Cdd:pfam17125   1 LPEAFIERMRALLGDE-YEAFLAAYDEPRPVGLRVNTLKISVeeflklSPFELEPVPWCEEGFYLEERPRPGKHPYHHAG 79


                  ....*....
gi 1765932182  99 AFYVQEAAS 107
Cdd:pfam17125  80 LYYIQEPSA 88
PRK14904 PRK14904
16S rRNA methyltransferase B; Provisional
 16-311 3.21e-17

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237858 [Multi-domain]  Cd Length: 445  Bit Score: 83.57  E-value: 3.21e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  16 SDKLELRPSIPDEFIAQQTRLIGSENALRLAESLERASPVSVRMNSAKRSS--LFSEAEL--VPW--CTTGRFLDKRPEF 89
Cdd:PRK14904  142 AERLSLLYSHPEWLLERWIARYGEERTEAMLSYNNQAPLFGFRINRLKTTPekFLAAPADasVTFekSGLPNFFLSKDFS 221

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182  90 TLNPLLHAGAFYVQEAASMfleQAYNAFDETP-QRVLDLCAAPGGKSTLWRSLLPEGALLVA-------NEPLRQRAMIL 161
Cdd:PRK14904  222 LFEPFLKLGLVSVQNPTQA---LACLLLNPQPgSTVLDLCAAPGGKSTFMAELMQNRGQITAvdrypqkLEKIRSHASAL 298

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1765932182 162 AENLAKWGHADvvvTQAYPEEFAalrgfFDVIATDVPCSGEGMFRKDDDARRMWSMANVAMCAERQRKILSDVWPALRNG 241
Cdd:PRK14904  299 GITIIETIEGD---ARSFSPEEQ-----PDAILLDAPCTGTGVLGRRAELRWKLTPEKLAELVGLQAELLDHAASLLKPG 370

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1765932182 242 GWIVYSTCTFNDEENEKNVQFICE---ELGAEVVPLSIDPAWGIVDTPFGYhfypHLT---RSEGF---FIALLRKTSP 311
Cdd:PRK14904  371 GVLVYATCSIEPEENELQIEAFLQrhpEFSAEPSPGSLPEPFHEVAHPKGA----ILTlpgEHEGFdggFAQRLRKNAG 445
Methyltranf_PUA pfam13636
RNA-binding PUA-like domain of methyltransferase RsmF; Methyltranf_PUA is the second of two ...
 410-459 4.95e-14

RNA-binding PUA-like domain of methyltransferase RsmF; Methyltranf_PUA is the second of two C-terminal domains found on bacterial methyltransferase RsmF that modifies the 16S ribosomal RNA. It has some structural similarity to the RNA-binding PUA domains suggesting that it is involved in RNA recognition. It lies downstream of the catalytic centre of this methyltransferase, family pfam01189.


Pssm-ID: 433368 [Multi-domain]  Cd Length: 50  Bit Score: 66.01  E-value: 4.95e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1765932182 410 ALSYLRRETLCLPADVPRGYVNVVYEDHSLGFVNNLGNRANNMYPQEWRI 459
Cdd:pfam13636   1 ALRYLRGETIELDGDLKAGWVLVTYDGFPLGWGKLLGGRLKNLYPKGLRI 50
 
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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