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Conserved domains on  [gi|528503571|ref|XP_005157997|]
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28S rRNA (cytosine(4447)-C(5))-methyltransferase isoform X1 [Danio rerio]

Protein Classification

NOL1/NOP2/SUN domain family protein( domain architecture ID 1003105)

NOL1/NOP2/SUN domain (NSUN) family protein such as mammalian nucleolar protein NOP2 which is required for nucleolar maturation and ribosome biogenesis

Gene Ontology:  GO:0003723|GO:0000027|GO:0008173|GO:0001510

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
nop2p super family cl33194
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 310-584 1.17e-113

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


The actual alignment was detected with superfamily member TIGR00446:

Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 344.07  E-value: 1.17e-113
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  310 IRTNTLKTRRRDLAQALINRGVNLDPLGKWSKVGlvIYDSSVPIGATPEYLAGHYMLQGASSFLPVMALSPQEGESVLDM 389
Cdd:TIGR00446   1 IRVNTLKINVEDLLERLENRGVVLEPTCEEYFFE--VKESPFSIGSTPEYLFGYYYPQEASSMIPPIALEPREDERVLDM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  390 SAAPGGKTTYMAQLMRNTGMIVANDANVDRLKSVVGNIHRLGVTNAVICNYDGRQFPKVMGGFDRVLLDAPCSGTGVISK 469
Cdd:TIGR00446  79 AAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRK 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  470 DPAVKTGKDEADILRSAHLQKELILSAIDSVnadsQTGGYLVYCTCSIMVEENEWVVDYALKKR-NVKLVPTgldFGKEG 548
Cdd:TIGR00446 159 DPSRKRNWSEEDIKYCSLLQKELIDAAIDAL----KPGGVLVYSTCSLEVEENEEVIDYILRKRpDVVEEII---KGDEF 231

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 528503571  549 FTRFKEKrfhPSLKLSRRFYPHSHNMDGFFVAKLKK 584
Cdd:TIGR00446 232 FGINIGK---GEVKGALRVFPQNYDCEGFFVAKLRK 264
 
Name Accession Description Interval E-value
nop2p TIGR00446
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 310-584 1.17e-113

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


Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 344.07  E-value: 1.17e-113
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  310 IRTNTLKTRRRDLAQALINRGVNLDPLGKWSKVGlvIYDSSVPIGATPEYLAGHYMLQGASSFLPVMALSPQEGESVLDM 389
Cdd:TIGR00446   1 IRVNTLKINVEDLLERLENRGVVLEPTCEEYFFE--VKESPFSIGSTPEYLFGYYYPQEASSMIPPIALEPREDERVLDM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  390 SAAPGGKTTYMAQLMRNTGMIVANDANVDRLKSVVGNIHRLGVTNAVICNYDGRQFPKVMGGFDRVLLDAPCSGTGVISK 469
Cdd:TIGR00446  79 AAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRK 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  470 DPAVKTGKDEADILRSAHLQKELILSAIDSVnadsQTGGYLVYCTCSIMVEENEWVVDYALKKR-NVKLVPTgldFGKEG 548
Cdd:TIGR00446 159 DPSRKRNWSEEDIKYCSLLQKELIDAAIDAL----KPGGVLVYSTCSLEVEENEEVIDYILRKRpDVVEEII---KGDEF 231

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 528503571  549 FTRFKEKrfhPSLKLSRRFYPHSHNMDGFFVAKLKK 584
Cdd:TIGR00446 232 FGINIGK---GEVKGALRVFPQNYDCEGFFVAKLRK 264
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 247-584 2.85e-98

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: 310.79  E-value: 2.85e-98
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 247 VLSNFNEKREEGKERSEylslLRADLCTYYSYNQFLISKLMDLFSLSELIDFLEANEVHRPVTIRTNTLKTRRRDLAQAL 326
Cdd:COG0144  120 VLRRVLREREALLAAAD----PVERLAVRYSHPEWLVERLRAAYGPEEAEALLAALNEPPPLDLRVNTLKASREELLARL 195

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 327 INRGVNLDPlGKWSKVGLVIyDSSVPIGATPEYLAGHYMLQGASSFLPVMALSPQEGESVLDMSAAPGGKTTYMAQLMRN 406
Cdd:COG0144  196 AEEGIEAEP-TPLSPDGLRL-EGPGPVTALPGFREGLFSVQDEASQLVALLLDPKPGERVLDLCAAPGGKTLHLAELMGN 273

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 407 TGMIVANDANVDRLKSVVGNIHRLGVTNAVICNYDGRQFPKVMGG-FDRVLLDAPCSGTGVISKDPAVKTGKDEADILRS 485
Cdd:COG0144  274 KGRVVAVDISEHRLKRLRENLARLGLSNVEVVVADARELLEWLPGkFDRVLLDAPCSGTGTLRRHPDIKWRRTPEDIAEL 353

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 486 AHLQKELILSAIDSVNAdsqtGGYLVYCTCSIMVEENEWVVDYALKKR-NVKLVPTGLDFGKEGFTRFKekrfhpslklS 564
Cdd:COG0144  354 AALQRELLDAAARLLKP----GGRLVYSTCSLLPEENEEVVEAFLARHpDFELVPLAELLPGLALTDGG----------Y 419

                        330       340
                 ....*....|....*....|
gi 528503571 565 RRFYPHSHNMDGFFVAKLKK 584
Cdd:COG0144  420 LRLLPHRHGTDGFFIARLRK 439
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 375-583 9.40e-94

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: 290.09  E-value: 9.40e-94
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  375 VMALSPQEGESVLDMSAAPGGKTTYMAQLMRNTGMIVANDANVDRLKSVVGNIHRLGVTNAVICNYDGRQFPKVMGG--F 452
Cdd:pfam01189   1 AILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQPDQWLGGvlF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  453 DRVLLDAPCSGTGVISKDPAVKTGKDEADILRSAHLQKELILSAIDSVnadsQTGGYLVYCTCSIMVEENEWVVDYALKK 532
Cdd:pfam01189  81 DRILLDAPCSGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLL----KPGGVLVYSTCSVLPEENEAVIEYFLQK 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 528503571  533 R-NVKLVPT------GLDFGKEGftrfkekrfhpslklSRRFYPHSHNMDGFFVAKLK 583
Cdd:pfam01189 157 HpDVELVPTplfepvGLAIGEQP---------------TLRLLPHTHNGDGFFIAKLR 199
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
247-584 1.32e-71

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


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 240.46  E-value: 1.32e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 247 VLSNF----NEKREEGKERSEYLSLLradlctyYSYNQFLISKLMDLFSLSELIDFLEANEVHRPVTIRTNTLKTRRRDL 322
Cdd:PRK14902 121 VLRNIlregLPDIDEIKDPVKRLSIK-------YSHPVWLVKRWIDQYGEEKAEKILESLNEPPKASIRVNTLKISVEEL 193

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 323 AQALINRGVNLDPlGKWSKVGLVIydSSVPIGATPEYLAGHYMLQGASSFLPVMALSPQEGESVLDMSAAPGGKTTYMAQ 402
Cdd:PRK14902 194 IEKLEEEGYEVEE-SLLSPEALVI--EKGNIAGTDLFKDGLITIQDESSMLVAPALDPKGGDTVLDACAAPGGKTTHIAE 270

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 403 LMRNTGMIVANDANVDRLKSVVGNIHRLGVTNAVICNYDGRQFPKVMGG-FDRVLLDAPCSGTGVISKDPAVKTGKDEAD 481
Cdd:PRK14902 271 LLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEkFDKILVDAPCSGLGVIRRKPDIKYNKTKED 350

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 482 ILRSAHLQKElILSAIdsvnadSQT---GGYLVYCTCSIMVEENEWVVDYALKKR-NVKLVPTgldfgkegFTRFKEKRF 557
Cdd:PRK14902 351 IESLQEIQLE-ILESV------AQYlkkGGILVYSTCTIEKEENEEVIEAFLEEHpEFELVPL--------QHEKPDELV 415

                        330       340
                 ....*....|....*....|....*..
gi 528503571 558 HPSLKLSRRFYPHSHNMDGFFVAKLKK 584
Cdd:PRK14902 416 YEVKDGYLQILPNDYGTDGFFIAKLRK 442
 
Name Accession Description Interval E-value
nop2p TIGR00446
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 310-584 1.17e-113

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


Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 344.07  E-value: 1.17e-113
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  310 IRTNTLKTRRRDLAQALINRGVNLDPLGKWSKVGlvIYDSSVPIGATPEYLAGHYMLQGASSFLPVMALSPQEGESVLDM 389
Cdd:TIGR00446   1 IRVNTLKINVEDLLERLENRGVVLEPTCEEYFFE--VKESPFSIGSTPEYLFGYYYPQEASSMIPPIALEPREDERVLDM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  390 SAAPGGKTTYMAQLMRNTGMIVANDANVDRLKSVVGNIHRLGVTNAVICNYDGRQFPKVMGGFDRVLLDAPCSGTGVISK 469
Cdd:TIGR00446  79 AAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRK 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  470 DPAVKTGKDEADILRSAHLQKELILSAIDSVnadsQTGGYLVYCTCSIMVEENEWVVDYALKKR-NVKLVPTgldFGKEG 548
Cdd:TIGR00446 159 DPSRKRNWSEEDIKYCSLLQKELIDAAIDAL----KPGGVLVYSTCSLEVEENEEVIDYILRKRpDVVEEII---KGDEF 231

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 528503571  549 FTRFKEKrfhPSLKLSRRFYPHSHNMDGFFVAKLKK 584
Cdd:TIGR00446 232 FGINIGK---GEVKGALRVFPQNYDCEGFFVAKLRK 264
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 247-584 2.85e-98

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: 310.79  E-value: 2.85e-98
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 247 VLSNFNEKREEGKERSEylslLRADLCTYYSYNQFLISKLMDLFSLSELIDFLEANEVHRPVTIRTNTLKTRRRDLAQAL 326
Cdd:COG0144  120 VLRRVLREREALLAAAD----PVERLAVRYSHPEWLVERLRAAYGPEEAEALLAALNEPPPLDLRVNTLKASREELLARL 195

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 327 INRGVNLDPlGKWSKVGLVIyDSSVPIGATPEYLAGHYMLQGASSFLPVMALSPQEGESVLDMSAAPGGKTTYMAQLMRN 406
Cdd:COG0144  196 AEEGIEAEP-TPLSPDGLRL-EGPGPVTALPGFREGLFSVQDEASQLVALLLDPKPGERVLDLCAAPGGKTLHLAELMGN 273

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 407 TGMIVANDANVDRLKSVVGNIHRLGVTNAVICNYDGRQFPKVMGG-FDRVLLDAPCSGTGVISKDPAVKTGKDEADILRS 485
Cdd:COG0144  274 KGRVVAVDISEHRLKRLRENLARLGLSNVEVVVADARELLEWLPGkFDRVLLDAPCSGTGTLRRHPDIKWRRTPEDIAEL 353

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 486 AHLQKELILSAIDSVNAdsqtGGYLVYCTCSIMVEENEWVVDYALKKR-NVKLVPTGLDFGKEGFTRFKekrfhpslklS 564
Cdd:COG0144  354 AALQRELLDAAARLLKP----GGRLVYSTCSLLPEENEEVVEAFLARHpDFELVPLAELLPGLALTDGG----------Y 419

                        330       340
                 ....*....|....*....|
gi 528503571 565 RRFYPHSHNMDGFFVAKLKK 584
Cdd:COG0144  420 LRLLPHRHGTDGFFIARLRK 439
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 375-583 9.40e-94

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: 290.09  E-value: 9.40e-94
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  375 VMALSPQEGESVLDMSAAPGGKTTYMAQLMRNTGMIVANDANVDRLKSVVGNIHRLGVTNAVICNYDGRQFPKVMGG--F 452
Cdd:pfam01189   1 AILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQPDQWLGGvlF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  453 DRVLLDAPCSGTGVISKDPAVKTGKDEADILRSAHLQKELILSAIDSVnadsQTGGYLVYCTCSIMVEENEWVVDYALKK 532
Cdd:pfam01189  81 DRILLDAPCSGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLL----KPGGVLVYSTCSVLPEENEAVIEYFLQK 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 528503571  533 R-NVKLVPT------GLDFGKEGftrfkekrfhpslklSRRFYPHSHNMDGFFVAKLK 583
Cdd:pfam01189 157 HpDVELVPTplfepvGLAIGEQP---------------TLRLLPHTHNGDGFFIAKLR 199
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
247-584 1.32e-71

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


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 240.46  E-value: 1.32e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 247 VLSNF----NEKREEGKERSEYLSLLradlctyYSYNQFLISKLMDLFSLSELIDFLEANEVHRPVTIRTNTLKTRRRDL 322
Cdd:PRK14902 121 VLRNIlregLPDIDEIKDPVKRLSIK-------YSHPVWLVKRWIDQYGEEKAEKILESLNEPPKASIRVNTLKISVEEL 193

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 323 AQALINRGVNLDPlGKWSKVGLVIydSSVPIGATPEYLAGHYMLQGASSFLPVMALSPQEGESVLDMSAAPGGKTTYMAQ 402
Cdd:PRK14902 194 IEKLEEEGYEVEE-SLLSPEALVI--EKGNIAGTDLFKDGLITIQDESSMLVAPALDPKGGDTVLDACAAPGGKTTHIAE 270

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 403 LMRNTGMIVANDANVDRLKSVVGNIHRLGVTNAVICNYDGRQFPKVMGG-FDRVLLDAPCSGTGVISKDPAVKTGKDEAD 481
Cdd:PRK14902 271 LLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEkFDKILVDAPCSGLGVIRRKPDIKYNKTKED 350

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 482 ILRSAHLQKElILSAIdsvnadSQT---GGYLVYCTCSIMVEENEWVVDYALKKR-NVKLVPTgldfgkegFTRFKEKRF 557
Cdd:PRK14902 351 IESLQEIQLE-ILESV------AQYlkkGGILVYSTCTIEKEENEEVIEAFLEEHpEFELVPL--------QHEKPDELV 415

                        330       340
                 ....*....|....*....|....*..
gi 528503571 558 HPSLKLSRRFYPHSHNMDGFFVAKLKK 584
Cdd:PRK14902 416 YEVKDGYLQILPNDYGTDGFFIAKLRK 442
yebU PRK11933
rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
 297-670 6.23e-59

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


Pssm-ID: 183387 [Multi-domain]  Cd Length: 470  Bit Score: 206.68  E-value: 6.23e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 297 DFLEANEvhRPV--TIRTNTLKTRRRDLAQALINRGVNLDPLgKWSKVGLVI---YDSSVPIGATPEYLAGHYMLQGASS 371
Cdd:PRK11933  24 DFIAACQ--RPLrrSIRVNTLKISVADFLQLMAPYGWTLTPI-PWCEEGFWIerdDEDALPLGNTAEHLSGLFYIQEASS 100

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 372 FLPVMAL--SPQEGESVLDMSAAPGGKTTYMAQLMRNTGMIVANDANVDRLKSVVGNIHRLGVTNAVICNYDGRQFPKVM 449
Cdd:PRK11933 101 MLPVAALfaDDNAPQRVLDMAAAPGSKTTQIAALMNNQGAIVANEYSASRVKVLHANISRCGVSNVALTHFDGRVFGAAL 180

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 450 -GGFDRVLLDAPCSGTGVISKDPAVKTGKDEADILRSAHLQKELILSAIDSVnadsQTGGYLVYCTCSIMVEENEWVVDY 528
Cdd:PRK11933 181 pETFDAILLDAPCSGEGTVRKDPDALKNWSPESNLEIAATQRELIESAFHAL----KPGGTLVYSTCTLNREENQAVCLW 256

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 529 aLKKR---NVKLVPTGLDFG-------KEGFtrfkekrFHpslklsrrFYPHSHNMDGFFVAKLKKLSnTIPTAPKET-- 596
Cdd:PRK11933 257 -LKETypdAVEFEPLGDLFPgaekaltEEGF-------LH--------VFPQIYDSEGFFVARLRKTA-SVPRLPAPKyk 319

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 597 ---------ENQEESLVMETAASSEMkeqkpaSTPEKSSFEKKQK---LNPQTSKPLIVK--------KKAENKKTG--- 653
Cdd:PRK11933 320 vgkfpftpaKDKEAQEIRQAAASVGL------SWPENLRLWQRDKevwLFPAGIEPLIGKvrfsrigiKLAETHKKGyrw 393

                        410       420
                 ....*....|....*....|....*..
gi 528503571 654 ----------PKKAKIAKLDSEAAKKF 670
Cdd:PRK11933 394 qheavialasPDNANAFELTPQEAEEW 420
PRK14901 PRK14901
16S rRNA methyltransferase B; Provisional
 247-586 3.80e-47

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237856 [Multi-domain]  Cd Length: 434  Bit Score: 173.19  E-value: 3.80e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 247 VLSNFNEKREEGKE------RSEYLSLLradlctyYSYNQFLISKLMDLFSLSELIDFLEA-NEVhRPVTIRTNTLKTRR 319
Cdd:PRK14901 119 ILRQYLRAREAGDPlplpedPIERLAIL-------HSFPDWLVKLWLEWLGLEEAEQLCKWfNQP-PSLDLRINPLRTSL 190

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 320 RDLAQALINRGVNLDPLGKWSKvGLVIYDSSVPIGATPEYLAGHYMLQGASSFLPVMALSPQEGESVLDMSAAPGGKTTY 399
Cdd:PRK14901 191 EEVQAALAEAGITATPIPGLPQ-GLRLTGNPGSIRQLPGYEEGWWTVQDRSAQLVAPLLDPQPGEVILDACAAPGGKTTH 269

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 400 MAQLMRNTGMIVANDANVDRLKSVVGNIHRLGVTNAVICNYDGRQF----PKVMGGFDRVLLDAPCSGTGVISKDPAVKT 475
Cdd:PRK14901 270 IAELMGDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRNLlelkPQWRGYFDRILLDAPCSGLGTLHRHPDARW 349

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 476 GKDEADILRSAHLQKELILSAIDSVnadsQTGGYLVYCTCSIMVEENEWVVDYALKKrnvklvptgldfgkegftrfkek 555
Cdd:PRK14901 350 RQTPEKIQELAPLQAELLESLAPLL----KPGGTLVYATCTLHPAENEAQIEQFLAR----------------------- 402

                        330       340       350
                 ....*....|....*....|....*....|....
gi 528503571 556 rfHPSLKL---SRRFYPHSHNMDGFFVAKLKKLS 586
Cdd:PRK14901 403 --HPDWKLeppKQKIWPHRQDGDGFFMAVLRKKS 434
rsmB TIGR00563
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. ...
 300-584 3.54e-45

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: 167.35  E-value: 3.54e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  300 EANEVHRPVTIRTNTLKTRRRDLAQALINRGVNLDPLGKWSKVglVIYDSSVPIGATPEYLAGHYMLQGASSFLPVMALS 379
Cdd:TIGR00563 158 EANNQRPPMWLRINRTKHSRDEWLALLAEAGMKGFPHDLAPDA--VRLETPAAVHALPGFEEGWVTVQDASAQWVATWLA 235

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  380 PQEGESVLDMSAAPGGKTTYMAQLMRNtGMIVANDANVDRLKSVVGNIHRLGVTnAVICNYDGRQ-FPKVMGG---FDRV 455
Cdd:TIGR00563 236 PQNEETILDACAAPGGKTTHILELAPQ-AQVVALDIHEHRLKRVYENLKRLGLT-IKAETKDGDGrGPSQWAEneqFDRI 313

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571  456 LLDAPCSGTGVISKDPAVKTGKDEADILRSAHLQKElILSAIDSVnadSQTGGYLVYCTCSIMVEENEWVVDyalkkrnv 535
Cdd:TIGR00563 314 LLDAPCSATGVIRRHPDIKWLRKPRDIAELAELQSE-ILDAIWPL---LKTGGTLVYATCSVLPEENSEQIK-------- 381

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|.
gi 528503571  536 klvptglDFGKEGFTRFKEKRFHPSLKLSRRF--YPHSHNMDGFFVAKLKK 584
Cdd:TIGR00563 382 -------AFLQEHPDFPFEKTGTPEQVRDGGLqiLPHAEEGDGFFYAKLIK 425
PRK10901 PRK10901
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
299-584 1.02e-43

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


Pssm-ID: 236790 [Multi-domain]  Cd Length: 427  Bit Score: 163.44  E-value: 1.02e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 299 LEANEVHRPVTIRTNTLKTRRRDLAQALINRGVNLDPlGKWSKVGLVIyDSSVPIGATPEYLAGHYMLQGASSFLPVMAL 378
Cdd:PRK10901 163 LAANNQRPPMWLRVNRRHHSRDAYLALLAEAGIEAFP-HAVGPDAIRL-ETPVPVHQLPGFAEGWVSVQDAAAQLAATLL 240

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 379 SPQEGESVLDMSAAPGGKTTYMAQLMRNTGMiVANDANVDRLKSVVGNIHRLGVTNAVICN--------YDGRQFpkvmg 450
Cdd:PRK10901 241 APQNGERVLDACAAPGGKTAHILELAPQAQV-VALDIDAQRLERVRENLQRLGLKATVIVGdardpaqwWDGQPF----- 314

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 451 gfDRVLLDAPCSGTGVISKDPAVKTGKDEADILRSAHLQKElILSAIDSVNADsqtGGYLVYCTCSIMVEENEWVVDYAL 530
Cdd:PRK10901 315 --DRILLDAPCSATGVIRRHPDIKWLRRPEDIAALAALQSE-ILDALWPLLKP---GGTLLYATCSILPEENEQQIKAFL 388

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 528503571 531 KKR-NVKLVPTGLDfgkegftrfkekrfhpsLKLSRRFYPHSHNMDGFFVAKLKK 584
Cdd:PRK10901 389 ARHpDAELLDTGTP-----------------QQPGRQLLPGEEDGDGFFYALLIK 426
PRK14904 PRK14904
16S rRNA methyltransferase B; Provisional
 257-584 5.14e-32

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237858 [Multi-domain]  Cd Length: 445  Bit Score: 129.79  E-value: 5.14e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 257 EGKERSEYLSLLradlctyYSYNQFLISKLMDLFSLSELIDFLEANEVHRPVTIRTNTLKTRRRDLAQALINRGVnldpl 336
Cdd:PRK14904 137 KGMPEAERLSLL-------YSHPEWLLERWIARYGEERTEAMLSYNNQAPLFGFRINRLKTTPEKFLAAPADASV----- 204

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 337 gKWSKVGLVIYDSSVPIGATPEYLA-GHYMLQGASSFLPVMALSPQEGESVLDMSAAPGGKTTYMAQLMRNTGMIVANDA 415
Cdd:PRK14904 205 -TFEKSGLPNFFLSKDFSLFEPFLKlGLVSVQNPTQALACLLLNPQPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDR 283

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 416 NVDRLKSVVGNIHRLGVTNAVICNYDGRQFPKvMGGFDRVLLDAPCSGTGVISKDPAVKTGKDEADILRSAHLQKELILS 495
Cdd:PRK14904 284 YPQKLEKIRSHASALGITIIETIEGDARSFSP-EEQPDAILLDAPCTGTGVLGRRAELRWKLTPEKLAELVGLQAELLDH 362

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 496 AIDSVNAdsqtGGYLVYCTCSIMVEENEWVVDYALKKRnvklvPtglDFGKEGFTR-----FKEKRFHPSLKLSrrfYPH 570
Cdd:PRK14904 363 AASLLKP----GGVLVYATCSIEPEENELQIEAFLQRH-----P---EFSAEPSPGslpepFHEVAHPKGAILT---LPG 427

                        330
                 ....*....|....*
gi 528503571 571 SH-NMDGFFVAKLKK 584
Cdd:PRK14904 428 EHeGFDGGFAQRLRK 442
PRK14903 PRK14903
16S rRNA methyltransferase B; Provisional
 271-540 4.13e-30

16S rRNA methyltransferase B; Provisional


Pssm-ID: 184896 [Multi-domain]  Cd Length: 431  Bit Score: 123.83  E-value: 4.13e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 271 DLCTYYSYNQFLISKLMDLFSLSELIDFLEANEVHRPVTIRTNTLKTRRRDLAQALINRGVNLDPlGKWSKVGLVIYDSS 350
Cdd:PRK14903 127 ELHLKYSHPKWLVNYWRSFLPEEAVLRIMEWNQEPLPTMLRVNSLAITREEVIKILAEEGTEAVP-GKHSPFSLIVRKLG 205

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 351 VPIGATPEYLAGHYMLQGASSFLPVMALSPQEGESVLDMSAAPGGKTTYMAQLMRNTGMIVANDANVDRLKSVVGNIHRL 430
Cdd:PRK14903 206 VNMNDSRVIKDGLATVQGESSQIVPLLMELEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKRL 285

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 431 GVTNAVICNYDGRQFPK-VMGGFDRVLLDAPCSGTGVISKDPAVKTGKDEADILRSAHLQKELILSAIDSVNadsqTGGY 509
Cdd:PRK14903 286 KLSSIEIKIADAERLTEyVQDTFDRILVDAPCTSLGTARNHPEVLRRVNKEDFKKLSEIQLRIVSQAWKLLE----KGGI 361

                        250       260       270
                 ....*....|....*....|....*....|..
gi 528503571 510 LVYCTCSIMVEENEWVV-DYALKKRNVKLVPT 540
Cdd:PRK14903 362 LLYSTCTVTKEENTEVVkRFVYEQKDAEVIDI 393
Methyltr_RsmF_N pfam17125
N-terminal domain of 16S rRNA methyltransferase RsmF; This is the N-terminal domain of the ...
 297-371 1.15e-08

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: 52.86  E-value: 1.15e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 528503571  297 DFLEANEVHRPVTIRTNTLKTRRRDLAQALinrGVNLDPLgKWSKVGLvIYDSSVPIGATPEYLAGHYMLQGASS 371
Cdd:pfam17125  19 AFLAAYDEPRPVGLRVNTLKISVEEFLKLS---PFELEPV-PWCEEGF-YLEERPRPGKHPYHHAGLYYIQEPSA 88
Trm5 COG2520
tRNA G37 N-methylase Trm5 [Translation, ribosomal structure and biogenesis]; tRNA G37 ...
 382-460 6.48e-03

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: 39.46  E-value: 6.48e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528503571 382 EGESVLDMSAAPGGKTTYMAqlMRNTGMIVANDANVDRLKSVVGNIHRLGVTNAVIC-NYDGRQFPKVMGG-FDRVLLDA 459
Cdd:COG2520  180 PGERVLDMFAGVGPFSIPIA--KRSGAKVVAIDINPDAVEYLKENIRLNKVEDRVTPiLGDAREVAPELEGkADRIIMNL 257


                 .
gi 528503571 460 P 460
Cdd:COG2520  258 P 258
 
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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