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Conserved domains on  [gi|966689737|gb|KTG22569|]
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16S rRNA methyltransferase [Pseudoalteromonas sp. XI10]

Protein Classification

16S rRNA (cytosine(967)-C(5))-methyltransferase( domain architecture ID 11485070)

16S rRNA (cytosine(967)-C(5))-methyltransferase specifically methylates cytosine(967) at C(5) in 16S rRNA

CATH:  3.30.70.1170|1.10.940.10
EC:  2.1.1.176
Gene Symbol:  rsmB
Gene Ontology:  GO:0008649|GO:0008168|GO:0003723|GO:0006364|GO:0006355
PubMed:  10026269|14656444
SCOP:  4001157

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
PRK10901 PRK10901
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
1-426 0e+00

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


:

Pssm-ID: 236790 [Multi-domain]  Cd Length: 427  Bit Score: 666.89  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   1 MSNVRALAAETLYNVVDKGASLNQELPFASQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQFLLYV 80
Cdd:PRK10901   1 SMNLRALAAAAILQVVDQGQSLSAALPALQQKVSDKDRALLQELCYGVLRRLPRLEWLIAQLLAKPLKGKQRIVHALLLV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  81 GIYQLQHMRVPPHAAISETVNALQQMRALGLKGLINAILRSFQREQVELEEKAKQIPVCKFNHPGWFIKQVTAAYPDNWQ 160
Cdd:PRK10901  81 GLYQLLYTRIPAHAAVDETVEAAKALKRPWAKGLVNAVLRRFQREQEELLAELQADPVARYNHPSWLIKRLKKAYPEQWQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 161 EILEANQLQAPMWLRVNQAQYSTQEYSEMLKANDIEHTLNADFPDGIKLAKPCDVYALPEFDTGACSVQDAAAQLAARFL 240
Cdd:PRK10901 161 AILAANNQRPPMWLRVNRRHHSRDAYLALLAEAGIEAFPHAVGPDAIRLETPVPVHQLPGFAEGWVSVQDAAAQLAATLL 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 241 DPQNDDVILDACAAPGGKTCHILELAD-ADVLALDSDSERLERVKQNLVRIGLAADLQCADASQPHIWWDEQQFDRILLD 319
Cdd:PRK10901 241 APQNGERVLDACAAPGGKTAHILELAPqAQVVALDIDAQRLERVRENLQRLGLKATVIVGDARDPAQWWDGQPFDRILLD 320

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 320 VPCSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKFLANNPSAEHIPlh 399
Cdd:PRK10901 321 APCSATGVIRRHPDIKWLRRPEDIAALAALQSEILDALWPLLKPGGTLLYATCSILPEENEQQIKAFLARHPDAELLD-- 398

                        410       420
                 ....*....|....*....|....*....
gi 966689737 400 eNDTPTLPGLQLLPGES--DGFYYAKLVK 426
Cdd:PRK10901 399 -TGTPQQPGRQLLPGEEdgDGFFYALLIK 426
 
Name Accession Description Interval E-value
PRK10901 PRK10901
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
1-426 0e+00

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


Pssm-ID: 236790 [Multi-domain]  Cd Length: 427  Bit Score: 666.89  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   1 MSNVRALAAETLYNVVDKGASLNQELPFASQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQFLLYV 80
Cdd:PRK10901   1 SMNLRALAAAAILQVVDQGQSLSAALPALQQKVSDKDRALLQELCYGVLRRLPRLEWLIAQLLAKPLKGKQRIVHALLLV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  81 GIYQLQHMRVPPHAAISETVNALQQMRALGLKGLINAILRSFQREQVELEEKAKQIPVCKFNHPGWFIKQVTAAYPDNWQ 160
Cdd:PRK10901  81 GLYQLLYTRIPAHAAVDETVEAAKALKRPWAKGLVNAVLRRFQREQEELLAELQADPVARYNHPSWLIKRLKKAYPEQWQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 161 EILEANQLQAPMWLRVNQAQYSTQEYSEMLKANDIEHTLNADFPDGIKLAKPCDVYALPEFDTGACSVQDAAAQLAARFL 240
Cdd:PRK10901 161 AILAANNQRPPMWLRVNRRHHSRDAYLALLAEAGIEAFPHAVGPDAIRLETPVPVHQLPGFAEGWVSVQDAAAQLAATLL 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 241 DPQNDDVILDACAAPGGKTCHILELAD-ADVLALDSDSERLERVKQNLVRIGLAADLQCADASQPHIWWDEQQFDRILLD 319
Cdd:PRK10901 241 APQNGERVLDACAAPGGKTAHILELAPqAQVVALDIDAQRLERVRENLQRLGLKATVIVGDARDPAQWWDGQPFDRILLD 320

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 320 VPCSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKFLANNPSAEHIPlh 399
Cdd:PRK10901 321 APCSATGVIRRHPDIKWLRRPEDIAALAALQSEILDALWPLLKPGGTLLYATCSILPEENEQQIKAFLARHPDAELLD-- 398

                        410       420
                 ....*....|....*....|....*....
gi 966689737 400 eNDTPTLPGLQLLPGES--DGFYYAKLVK 426
Cdd:PRK10901 399 -TGTPQQPGRQLLPGEEdgDGFFYALLIK 426
rsmB TIGR00563
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. ...
 5-427 6.80e-160

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: 457.41  E-value: 6.80e-160
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737    5 RALAAETLYNVvDKGASLNQELPFASQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQFLLYVGIYQ 84
Cdd:TIGR00563   1 RSIAAQALEQL-EQGQSLSNLLPPLQQKVSDQDRALLQELCFGVLRTLSQLDWLIKKLMDRPMKGKPRTVHYLILVGLYQ 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   85 LQHMRVPPHAAISETVNALQQMRALGLKGLINAILRSFQREQVELEEKAKQIPVcKFNHPGWFIKQVTAAYPDNWQEILE 164
Cdd:TIGR00563  80 LLYTRIPAHAAVAETVEGAKAIKRKGLKGLVNGVLRRFQREQEELLAEFNALDA-RYLHPEWLVKRLQKAYPGQWQSICE 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  165 ANQLQAPMWLRVNQAQYSTQEYSEMLKANDIEHTLNADFPDGIKLAKPCDVYALPEFDTGACSVQDAAAQLAARFLDPQN 244
Cdd:TIGR00563 159 ANNQRPPMWLRINRTKHSRDEWLALLAEAGMKGFPHDLAPDAVRLETPAAVHALPGFEEGWVTVQDASAQWVATWLAPQN 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  245 DDVILDACAAPGGKTCHILELA-DADVLALDSDSERLERVKQNLVRIGLA--ADLQCADASQPHIWWDEQQFDRILLDVP 321
Cdd:TIGR00563 239 EETILDACAAPGGKTTHILELApQAQVVALDIHEHRLKRVYENLKRLGLTikAETKDGDGRGPSQWAENEQFDRILLDAP 318

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  322 CSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKFLANNPSAEHIPLHEN 401
Cdd:TIGR00563 319 CSATGVIRRHPDIKWLRKPRDIAELAELQSEILDAIWPLLKTGGTLVYATCSVLPEENSEQIKAFLQEHPDFPFEKTGTP 398

                         410       420
                  ....*....|....*....|....*...
gi 966689737  402 DTPTLPGLQLLPG--ESDGFYYAKLVKK 427
Cdd:TIGR00563 399 EQVRDGGLQILPHaeEGDGFFYAKLIKK 426
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 1-427 8.64e-155

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: 445.22  E-value: 8.64e-155
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   1 MSNVRALAAETLYNVVDKGASLNQELPFASQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQFLLYV 80
Cdd:COG0144   14 AAAALALALLLLALLLLDRALAALLLLAALRLLRRRDRALLAALLAGLLRLLRLLLLLLRLLLLLLLLLLLPLLAALLLV 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  81 GIYQLQHMRVpphaAISETVNAlqqmralGLKGLINAILRSFQREQVELEEKAKQI--PVCKFNHPGWFIKQVTAAY-PD 157
Cdd:COG0144   94 AAAQLLAARV----AVDEAVGP-------GAAGLVNAVLRRVLREREALLAAADPVerLAVRYSHPEWLVERLRAAYgPE 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 158 NWQEILEANQLQAPMWLRVNQAQYSTQEYSEMLKANDIEHTLNADFPDGIKLAKPCDVYALPEFDTGACSVQDAAAQLAA 237
Cdd:COG0144  163 EAEALLAALNEPPPLDLRVNTLKASREELLARLAEEGIEAEPTPLSPDGLRLEGPGPVTALPGFREGLFSVQDEASQLVA 242

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 238 RFLDPQNDDVILDACAAPGGKTCHILELA--DADVLALDSDSERLERVKQNLVRIGLAA-DLQCADASQPHIWWDEQqFD 314
Cdd:COG0144  243 LLLDPKPGERVLDLCAAPGGKTLHLAELMgnKGRVVAVDISEHRLKRLRENLARLGLSNvEVVVADARELLEWLPGK-FD 321

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 315 RILLDVPCSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKFLANNPSAE 394
Cdd:COG0144  322 RVLLDAPCSGTGTLRRHPDIKWRRTPEDIAELAALQRELLDAAARLLKPGGRLVYSTCSLLPEENEEVVEAFLARHPDFE 401

                        410       420       430
                 ....*....|....*....|....*....|....*....
gi 966689737 395 HIPLHEN----DTPTLPGLQLLPGE--SDGFYYAKLVKK 427
Cdd:COG0144  402 LVPLAELlpglALTDGGYLRLLPHRhgTDGFFIARLRKK 440
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 240-424 1.27e-75

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: 234.24  E-value: 1.27e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  240 LDPQNDDVILDACAAPGGKTCHILELA--DADVLALDSDSERLERVKQNLVRIGL-AADLQCADASQPHIWWDEQQFDRI 316
Cdd:pfam01189   4 LAPQEGETILDMCAAPGGKTTHIAELMknQGTVVAVDINKHRLKRVAENIHRLGVtNTIILNGDGRQPDQWLGGVLFDRI 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  317 LLDVPCSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKFLANNPSAEHI 396
Cdd:pfam01189  84 LLDAPCSGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLLKPGGVLVYSTCSVLPEENEAVIEYFLQKHPDVELV 163

                         170       180       190
                  ....*....|....*....|....*....|....*
gi 966689737  397 PLHENDTPTL-----PGLQLLPG--ESDGFYYAKL 424
Cdd:pfam01189 164 PTPLFEPVGLaigeqPTLRLLPHthNGDGFFIAKL 198
Methyltransferase_Sun cd00620
N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine ...
 3-126 7.41e-35

N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological role of this domain in Sun is unknown, although it is likely to be involved in sequence-specific RNA binding. The C-terminal methyltransferase domain of Sun has been shown to catalyze formation of m5C at position 967 of 16S rRNA in Escherichia coli.


Pssm-ID: 238343 [Multi-domain]  Cd Length: 126  Bit Score: 125.53  E-value: 7.41e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   3 NVRALAAETLYNVVDKGASLNQELP-FASQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQFLLYVG 81
Cdd:cd00620    2 NARSTAAEVLRDVLQRGASLNAVLSaLQKKDKSDRDRGLATELVYGTLRWLALLDWIINPLLKKPDVGKDPDVRNLLRLG 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 966689737  82 IYQLQHMRVPPHAAISETVNALQQMRALGLKGLINAILRSFQREQ 126
Cdd:cd00620   82 LYQLLYLDVPPHAAVDETVEIAKIRKDLGRAGLVNAVLRRFERED 126
 
Name Accession Description Interval E-value
PRK10901 PRK10901
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
1-426 0e+00

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


Pssm-ID: 236790 [Multi-domain]  Cd Length: 427  Bit Score: 666.89  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   1 MSNVRALAAETLYNVVDKGASLNQELPFASQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQFLLYV 80
Cdd:PRK10901   1 SMNLRALAAAAILQVVDQGQSLSAALPALQQKVSDKDRALLQELCYGVLRRLPRLEWLIAQLLAKPLKGKQRIVHALLLV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  81 GIYQLQHMRVPPHAAISETVNALQQMRALGLKGLINAILRSFQREQVELEEKAKQIPVCKFNHPGWFIKQVTAAYPDNWQ 160
Cdd:PRK10901  81 GLYQLLYTRIPAHAAVDETVEAAKALKRPWAKGLVNAVLRRFQREQEELLAELQADPVARYNHPSWLIKRLKKAYPEQWQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 161 EILEANQLQAPMWLRVNQAQYSTQEYSEMLKANDIEHTLNADFPDGIKLAKPCDVYALPEFDTGACSVQDAAAQLAARFL 240
Cdd:PRK10901 161 AILAANNQRPPMWLRVNRRHHSRDAYLALLAEAGIEAFPHAVGPDAIRLETPVPVHQLPGFAEGWVSVQDAAAQLAATLL 240

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 241 DPQNDDVILDACAAPGGKTCHILELAD-ADVLALDSDSERLERVKQNLVRIGLAADLQCADASQPHIWWDEQQFDRILLD 319
Cdd:PRK10901 241 APQNGERVLDACAAPGGKTAHILELAPqAQVVALDIDAQRLERVRENLQRLGLKATVIVGDARDPAQWWDGQPFDRILLD 320

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 320 VPCSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKFLANNPSAEHIPlh 399
Cdd:PRK10901 321 APCSATGVIRRHPDIKWLRRPEDIAALAALQSEILDALWPLLKPGGTLLYATCSILPEENEQQIKAFLARHPDAELLD-- 398

                        410       420
                 ....*....|....*....|....*....
gi 966689737 400 eNDTPTLPGLQLLPGES--DGFYYAKLVK 426
Cdd:PRK10901 399 -TGTPQQPGRQLLPGEEdgDGFFYALLIK 426
rsmB TIGR00563
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. ...
 5-427 6.80e-160

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: 457.41  E-value: 6.80e-160
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737    5 RALAAETLYNVvDKGASLNQELPFASQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQFLLYVGIYQ 84
Cdd:TIGR00563   1 RSIAAQALEQL-EQGQSLSNLLPPLQQKVSDQDRALLQELCFGVLRTLSQLDWLIKKLMDRPMKGKPRTVHYLILVGLYQ 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   85 LQHMRVPPHAAISETVNALQQMRALGLKGLINAILRSFQREQVELEEKAKQIPVcKFNHPGWFIKQVTAAYPDNWQEILE 164
Cdd:TIGR00563  80 LLYTRIPAHAAVAETVEGAKAIKRKGLKGLVNGVLRRFQREQEELLAEFNALDA-RYLHPEWLVKRLQKAYPGQWQSICE 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  165 ANQLQAPMWLRVNQAQYSTQEYSEMLKANDIEHTLNADFPDGIKLAKPCDVYALPEFDTGACSVQDAAAQLAARFLDPQN 244
Cdd:TIGR00563 159 ANNQRPPMWLRINRTKHSRDEWLALLAEAGMKGFPHDLAPDAVRLETPAAVHALPGFEEGWVTVQDASAQWVATWLAPQN 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  245 DDVILDACAAPGGKTCHILELA-DADVLALDSDSERLERVKQNLVRIGLA--ADLQCADASQPHIWWDEQQFDRILLDVP 321
Cdd:TIGR00563 239 EETILDACAAPGGKTTHILELApQAQVVALDIHEHRLKRVYENLKRLGLTikAETKDGDGRGPSQWAENEQFDRILLDAP 318

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  322 CSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKFLANNPSAEHIPLHEN 401
Cdd:TIGR00563 319 CSATGVIRRHPDIKWLRKPRDIAELAELQSEILDAIWPLLKTGGTLVYATCSVLPEENSEQIKAFLQEHPDFPFEKTGTP 398

                         410       420
                  ....*....|....*....|....*...
gi 966689737  402 DTPTLPGLQLLPG--ESDGFYYAKLVKK 427
Cdd:TIGR00563 399 EQVRDGGLQILPHaeEGDGFFYAKLIKK 426
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 1-427 8.64e-155

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: 445.22  E-value: 8.64e-155
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   1 MSNVRALAAETLYNVVDKGASLNQELPFASQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQFLLYV 80
Cdd:COG0144   14 AAAALALALLLLALLLLDRALAALLLLAALRLLRRRDRALLAALLAGLLRLLRLLLLLLRLLLLLLLLLLLPLLAALLLV 93

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  81 GIYQLQHMRVpphaAISETVNAlqqmralGLKGLINAILRSFQREQVELEEKAKQI--PVCKFNHPGWFIKQVTAAY-PD 157
Cdd:COG0144   94 AAAQLLAARV----AVDEAVGP-------GAAGLVNAVLRRVLREREALLAAADPVerLAVRYSHPEWLVERLRAAYgPE 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 158 NWQEILEANQLQAPMWLRVNQAQYSTQEYSEMLKANDIEHTLNADFPDGIKLAKPCDVYALPEFDTGACSVQDAAAQLAA 237
Cdd:COG0144  163 EAEALLAALNEPPPLDLRVNTLKASREELLARLAEEGIEAEPTPLSPDGLRLEGPGPVTALPGFREGLFSVQDEASQLVA 242

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 238 RFLDPQNDDVILDACAAPGGKTCHILELA--DADVLALDSDSERLERVKQNLVRIGLAA-DLQCADASQPHIWWDEQqFD 314
Cdd:COG0144  243 LLLDPKPGERVLDLCAAPGGKTLHLAELMgnKGRVVAVDISEHRLKRLRENLARLGLSNvEVVVADARELLEWLPGK-FD 321

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 315 RILLDVPCSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKFLANNPSAE 394
Cdd:COG0144  322 RVLLDAPCSGTGTLRRHPDIKWRRTPEDIAELAALQRELLDAAARLLKPGGRLVYSTCSLLPEENEEVVEAFLARHPDFE 401

                        410       420       430
                 ....*....|....*....|....*....|....*....
gi 966689737 395 HIPLHEN----DTPTLPGLQLLPGE--SDGFYYAKLVKK 427
Cdd:COG0144  402 LVPLAELlpglALTDGGYLRLLPHRhgTDGFFIARLRKK 440
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
1-427 2.30e-120

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


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 357.56  E-value: 2.30e-120
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   1 MSNVRALAAETLYNVVDKGA----SLNQELPfaSQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQf 76
Cdd:PRK14902   2 KMNARELALEVLIKVENNGAysniALNKVLK--KSELSDKDKALLTELVYGTIQRKLTLDYYLAPFIKKRKKLDPWVRN- 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  77 LLYVGIYQLQHM-RVPPHAAISETVNALQQMRALGLKGLINAILRSFQREQV----ELEEKAKQIPVcKFNHPGWFIKQV 151
Cdd:PRK14902  79 LLRMSLYQLLYLdKVPDHAAVNEAVEIAKKRGHKGIAKFVNGVLRNILREGLpdidEIKDPVKRLSI-KYSHPVWLVKRW 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 152 TAAY-PDNWQEILEANQLQAPMWLRVNQAQYSTQEYSEMLKANDIEHTLNADFPDGIKLAKPcDVYALPEFDTGACSVQD 230
Cdd:PRK14902 158 IDQYgEEKAEKILESLNEPPKASIRVNTLKISVEELIEKLEEEGYEVEESLLSPEALVIEKG-NIAGTDLFKDGLITIQD 236

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 231 AAAQLAARFLDPQNDDVILDACAAPGGKTCHILELADAD--VLALDSDSERLERVKQNLVRIGLAaDLQCA--DASQPHI 306
Cdd:PRK14902 237 ESSMLVAPALDPKGGDTVLDACAAPGGKTTHIAELLKNTgkVVALDIHEHKLKLIEENAKRLGLT-NIETKalDARKVHE 315

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 307 WWDEQqFDRILLDVPCSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKF 386
Cdd:PRK14902 316 KFAEK-FDKILVDAPCSGLGVIRRKPDIKYNKTKEDIESLQEIQLEILESVAQYLKKGGILVYSTCTIEKEENEEVIEAF 394

                        410       420       430       440
                 ....*....|....*....|....*....|....*....|....*....
gi 966689737 387 LANNPSAEHIPLHENDTPTLPG------LQLLPGE--SDGFYYAKLVKK 427
Cdd:PRK14902 395 LEEHPEFELVPLQHEKPDELVYevkdgyLQILPNDygTDGFFIAKLRKK 443
PRK14901 PRK14901
16S rRNA methyltransferase B; Provisional
 3-427 9.11e-89

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237856 [Multi-domain]  Cd Length: 434  Bit Score: 276.04  E-value: 9.11e-89
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   3 NVRALAAETLyNVVDKGA----SLNQELPFASqgLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQFLL 78
Cdd:PRK14901   2 NARQLAWEIL-QAVARGAyadvALERVLRKYP--LSGADRALVTELVYGCIRRRRTLDAWIDQLGKKPAHKQPPDLRWLL 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  79 YVGIYQLQHM-RVPPHAAISETVNALQQMRALGLKGLINAILRSFQR-----EQVELEEKAKQIPVCKFNHPGWFIKQVT 152
Cdd:PRK14901  79 HLGLYQLRYMdRIPASAAVNTTVELAKQNGLGGLAGVVNGILRQYLRareagDPLPLPEDPIERLAILHSFPDWLVKLWL 158

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 153 aaypdNWQEILEANQL-----QAPMW-LRVNQAQYSTQEYSEMLKANDIEHTLNADFPDGIKL-AKPCDVYALPEFDTGA 225
Cdd:PRK14901 159 -----EWLGLEEAEQLckwfnQPPSLdLRINPLRTSLEEVQAALAEAGITATPIPGLPQGLRLtGNPGSIRQLPGYEEGW 233

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 226 CSVQDAAAQLAARFLDPQNDDVILDACAAPGGKTCHILELA--DADVLALDSDSERLERVKQNLVRIGL------AADLQ 297
Cdd:PRK14901 234 WTVQDRSAQLVAPLLDPQPGEVILDACAAPGGKTTHIAELMgdQGEIWAVDRSASRLKKLQENAQRLGLksikilAADSR 313

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 298 CADASQPHiWWdeQQFDRILLDVPCSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQ 377
Cdd:PRK14901 314 NLLELKPQ-WR--GYFDRILLDAPCSGLGTLHRHPDARWRQTPEKIQELAPLQAELLESLAPLLKPGGTLVYATCTLHPA 390

                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|
gi 966689737 378 ENQQQVAKFLANNPsaeHIPLHENDTPTLPGLQllpgESDGFYYAKLVKK 427
Cdd:PRK14901 391 ENEAQIEQFLARHP---DWKLEPPKQKIWPHRQ----DGDGFFMAVLRKK 433
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 240-424 1.27e-75

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: 234.24  E-value: 1.27e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  240 LDPQNDDVILDACAAPGGKTCHILELA--DADVLALDSDSERLERVKQNLVRIGL-AADLQCADASQPHIWWDEQQFDRI 316
Cdd:pfam01189   4 LAPQEGETILDMCAAPGGKTTHIAELMknQGTVVAVDINKHRLKRVAENIHRLGVtNTIILNGDGRQPDQWLGGVLFDRI 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  317 LLDVPCSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKFLANNPSAEHI 396
Cdd:pfam01189  84 LLDAPCSGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLLKPGGVLVYSTCSVLPEENEAVIEYFLQKHPDVELV 163

                         170       180       190
                  ....*....|....*....|....*....|....*
gi 966689737  397 PLHENDTPTL-----PGLQLLPG--ESDGFYYAKL 424
Cdd:pfam01189 164 PTPLFEPVGLaigeqPTLRLLPHthNGDGFFIAKL 198
PRK14904 PRK14904
16S rRNA methyltransferase B; Provisional
 1-427 3.85e-70

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237858 [Multi-domain]  Cd Length: 445  Bit Score: 228.41  E-value: 3.85e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   1 MSNVRALAAETLYNVvDKG-----ASLNQELPFASqgLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQ 75
Cdd:PRK14904   1 MMTARELALQVLQEL-ETGerksdTLLHRMLERSS--LERNDRALATELVNGVLRYRLQLDFIISRFYHHDLEKAAPVLK 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  76 FLLYVGIYQLQHM-RVPPHAAISETVNALQQMRALGLKGLINAILRSFQREQVELEE------KAKQIPVcKFNHPGWFI 148
Cdd:PRK14904  78 NILRLGVYQLLFLdRVPRWAAVNECVKLARKYKGEHMAKLVNGVLRNISPETISLDEwlkgmpEAERLSL-LYSHPEWLL 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 149 KQVTAAY-PDNWQEILEANQlQAPMW-LRVNQAQYSTQEYSEMLKANDIEHTlnADFPDGIKLAKPCDVYAlPEFDTGAC 226
Cdd:PRK14904 157 ERWIARYgEERTEAMLSYNN-QAPLFgFRINRLKTTPEKFLAAPADASVTFE--KSGLPNFFLSKDFSLFE-PFLKLGLV 232

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 227 SVQDAAAQLAARFLDPQNDDVILDACAAPGGKTCHILELAD--ADVLALDSDSERLERVKQNLVRIGLAA-DLQCADAS- 302
Cdd:PRK14904 233 SVQNPTQALACLLLNPQPGSTVLDLCAAPGGKSTFMAELMQnrGQITAVDRYPQKLEKIRSHASALGITIiETIEGDARs 312

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 303 -QPhiwwdEQQFDRILLDVPCSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQ 381
Cdd:PRK14904 313 fSP-----EEQPDAILLDAPCTGTGVLGRRAELRWKLTPEKLAELVGLQAELLDHAASLLKPGGVLVYATCSIEPEENEL 387

                        410       420       430       440       450
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 966689737 382 QVAKFLANNP------SAEHIPLHENDTPTLPGLQL-LPGESDGF---YYAKLVKK 427
Cdd:PRK14904 388 QIEAFLQRHPefsaepSPGSLPEPFHEVAHPKGAILtLPGEHEGFdggFAQRLRKN 443
PRK14903 PRK14903
16S rRNA methyltransferase B; Provisional
 1-400 1.16e-57

16S rRNA methyltransferase B; Provisional


Pssm-ID: 184896 [Multi-domain]  Cd Length: 431  Bit Score: 195.09  E-value: 1.16e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   1 MSNVRALAAETLYNVVDKGASLNQELPFASQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDqplkgKRRI---FQFL 77
Cdd:PRK14903   2 KTNVRLLAYRLLRKYEKEKFIFREDVDSVLSFLDDKDRRFFKELVWGVVRKEELLDWYINQLLK-----KKDIppaVRVA 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  78 LYVGIYQLQHM-RVPPHAAISETVNALQQMralGLKGLINAILRSFQR--EQVELEekakqipvCKFNHPGWFIKQVTAA 154
Cdd:PRK14903  77 LRMGAYQLLFMnSVPDYAAVSETVKLVKNE---NFKKLVNAVLRRLRTvpEPKELH--------LKYSHPKWLVNYWRSF 145

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 155 YPDNW-QEILEANQLQAPMWLRVNQAQYSTQEYSEMLKANDIEHTLNADFPDGIKLAK-PCDVYALPEFDTGACSVQDAA 232
Cdd:PRK14903 146 LPEEAvLRIMEWNQEPLPTMLRVNSLAITREEVIKILAEEGTEAVPGKHSPFSLIVRKlGVNMNDSRVIKDGLATVQGES 225

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 233 AQLAARFLDPQNDDVILDACAAPGGKTCHILELADADV--LALDSDSERLERVKQNLVRIGLAA-DLQCADASQPHIWWD 309
Cdd:PRK14903 226 SQIVPLLMELEPGLRVLDTCAAPGGKTTAIAELMKDQGkiLAVDISREKIQLVEKHAKRLKLSSiEIKIADAERLTEYVQ 305

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 310 EQqFDRILLDVPCSATGVIRRHPDIkwLRRAS--DIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKFL 387
Cdd:PRK14903 306 DT-FDRILVDAPCTSLGTARNHPEV--LRRVNkeDFKKLSEIQLRIVSQAWKLLEKGGILLYSTCTVTKEENTEVVKRFV 382

                        410
                 ....*....|...
gi 966689737 388 ANNPSAEHIPLHE 400
Cdd:PRK14903 383 YEQKDAEVIDIRD 395
nop2p TIGR00446
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 174-426 1.83e-37

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


Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 137.21  E-value: 1.83e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  174 LRVNQAQYSTQEYSEMLKandiehtlnadfPDGIKLAKPCDVY------------ALPEFDTGACSVQDAAAQLAARFLD 241
Cdd:TIGR00446   1 IRVNTLKINVEDLLERLE------------NRGVVLEPTCEEYffevkespfsigSTPEYLFGYYYPQEASSMIPPIALE 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  242 PQNDDVILDACAAPGGKTCHILELADAD--VLALDSDSERLERVKQNLVRIG-LAADLQCADASQPHIWWDEqqFDRILL 318
Cdd:TIGR00446  69 PREDERVLDMAAAPGGKTTQISQLMKNKgcIVANEISKSRTKALISNINRMGvLNTIVINADGRKFGAYLLK--FDAILL 146

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  319 DVPCSATGVIRRHPDIKWLRRASDIEDLANLQGDILNSIWPLLKPGGTLVYATCSVLPQENQQQVAKFLANNPSAEHIPL 398
Cdd:TIGR00446 147 DAPCSGEGVIRKDPSRKRNWSEEDIKYCSLLQKELIDAAIDALKPGGVLVYSTCSLEVEENEEVIDYILRKRPDVVEEII 226

                         250       260       270
                  ....*....|....*....|....*....|....*...
gi 966689737  399 HENDTPTLPG--------LQLLPGESD--GFYYAKLVK 426
Cdd:TIGR00446 227 KGDEFFGINIgkgevkgaLRVFPQNYDceGFFVAKLRK 264
Methyltransferase_Sun cd00620
N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine ...
 3-126 7.41e-35

N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological role of this domain in Sun is unknown, although it is likely to be involved in sequence-specific RNA binding. The C-terminal methyltransferase domain of Sun has been shown to catalyze formation of m5C at position 967 of 16S rRNA in Escherichia coli.


Pssm-ID: 238343 [Multi-domain]  Cd Length: 126  Bit Score: 125.53  E-value: 7.41e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   3 NVRALAAETLYNVVDKGASLNQELP-FASQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQFLLYVG 81
Cdd:cd00620    2 NARSTAAEVLRDVLQRGASLNAVLSaLQKKDKSDRDRGLATELVYGTLRWLALLDWIINPLLKKPDVGKDPDVRNLLRLG 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 966689737  82 IYQLQHMRVPPHAAISETVNALQQMRALGLKGLINAILRSFQREQ 126
Cdd:cd00620   82 LYQLLYLDVPPHAAVDETVEIAKIRKDLGRAGLVNAVLRRFERED 126
yebU PRK11933
rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
 224-428 2.80e-22

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


Pssm-ID: 183387 [Multi-domain]  Cd Length: 470  Bit Score: 98.44  E-value: 2.80e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 224 GACSVQDAAAQL--AARFLDPQNDDVILDACAAPGGKTCHILELADAD--VLALDSDSERLERVKQNLVRIGLAadlQCA 299
Cdd:PRK11933  91 GLFYIQEASSMLpvAALFADDNAPQRVLDMAAAPGSKTTQIAALMNNQgaIVANEYSASRVKVLHANISRCGVS---NVA 167

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 300 ----DASQPHIWWDEQqFDRILLDVPCSATGVIRRHPDIkwLRRAS--DIEDLANLQGDILNSIWPLLKPGGTLVYATCS 373
Cdd:PRK11933 168 lthfDGRVFGAALPET-FDAILLDAPCSGEGTVRKDPDA--LKNWSpeSNLEIAATQRELIESAFHALKPGGTLVYSTCT 244

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 966689737 374 VLPQENQQQVAKFLANNPSA-EHIPLHE-----NDTPTLPG-LQLLPG--ESDGFYYAKLVKKH 428
Cdd:PRK11933 245 LNREENQAVCLWLKETYPDAvEFEPLGDlfpgaEKALTEEGfLHVFPQiyDSEGFFVARLRKTA 308
NusB pfam01029
NusB family; The NusB protein is involved in the regulation of rRNA biosynthesis by ...
 2-124 4.54e-21

NusB family; The NusB protein is involved in the regulation of rRNA biosynthesis by transcriptional antitermination.


Pssm-ID: 460031 [Multi-domain]  Cd Length: 133  Bit Score: 88.48  E-value: 4.54e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737    2 SNVRALAAETLYNVV-------DKGASLNQELPFASQG-LSPKDKALLQQICYGVLRYLPSLENYCQQLL-DQPLKGKRR 72
Cdd:pfam01029   1 RNARELALQALYQVEingsdeeEKGAYLNEALDKALEGdLSEEDRAFATELVYGVLRNLEELDALIEKLLeNWPLERLSP 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 966689737   73 IFQFLLYVGIYQLQHM-RVPPHAAISETVNALQQMRALGLKGLINAILRSFQR 124
Cdd:pfam01029  81 VDRAILRLGLYELLFLdDVPPHVAINEAVELAKKFGGEKSAKFVNGVLRNVAR 133
NusB_Sun cd00447
RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or ...
 3-126 1.07e-14

RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-specific 5-methylcytidine transferase (m5C-methyltransferase) Sun. The NusB protein plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus factors (NusA, NusE/S10 and NusG) forms the core complex with the boxA element of the nut site of the rRNA operons. These interactions help RNA polymerase to counteract polarity during transcription of rRNA operons and allow stable antitermination. The transcription antitermination system can be appropriated by some bacteriophages such as lambda, which use the system to switch between the lysogenic and lytic modes of phage propagation. The m5C-methyltransferase Sun shares the N-terminal non-catalytic RNA-binding domain with NusB.


Pssm-ID: 238253 [Multi-domain]  Cd Length: 129  Bit Score: 70.46  E-value: 1.07e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   3 NVRALAAETLY-NVVDKGASLNQELPF-ASQGLSPKDKALLQQICYGVLRYLPSLENYCQQLLDQPLKGKRRIFQF-LLY 79
Cdd:cd00447    1 SAREIAFQALYqVEIRNGISLEAVLSAlEKLQLAKKDRPFALELVYGVLRNLPELDDIISPLLKKWLLDRLDKVDRaILR 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 966689737  80 VGIYQLQHM--RVPPHAAISETVNALQQMRALGLKGLINAILRSFQREQ 126
Cdd:cd00447   81 LLLYELYQLlyDVPPPVAINEAVELAKRFGDDDSAKFVNGVLRRIAKES 129
NusB COG0781
Transcription antitermination protein NusB [Transcription];
7-125 8.09e-12

Transcription antitermination protein NusB [Transcription];


Pssm-ID: 440544 [Multi-domain]  Cd Length: 128  Bit Score: 62.09  E-value: 8.09e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737   7 LAAETLYNVVDKGASLNQELP--FASQGLSPKDKALLQQICYGVLRYLPSLEnycqQLLDQPLKGKR--------RIfqf 76
Cdd:COG0781    2 LALQALYQVELSGAYANEILEefLEDEELSEADRAFATELVYGVLRNQEELD----ALIAPYLKDWPlerldpvdRA--- 74

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 966689737  77 LLYVGIYQLQHM-RVPPHAAISETVNALQQMRALGLKGLINAILRSFQRE 125
Cdd:COG0781   75 ILRLAAYELLYLdDVPYKVAINEAVELAKKFGTEDSPKFVNGVLDKIAKE 124
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 248-369 4.83e-09

S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).


Pssm-ID: 100107 [Multi-domain]  Cd Length: 107  Bit Score: 53.59  E-value: 4.83e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 248 ILDACAAPGGKTCHILELADADVLALDSDSERLERVKQNLVRIGLA-ADLQCADASQPHiWWDEQQFDRILLDVPCSAtg 326
Cdd:cd02440    2 VLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAALLADnVEVLKGDAEELP-PEADESFDVIISDPPLHH-- 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 966689737 327 virrhpdikwlrrasdiedLANLQGDILNSIWPLLKPGGTLVY 369
Cdd:cd02440   79 -------------------LVEDLARFLEEARRLLKPGGVLVL 102
Methyltransf_25 pfam13649
Methyltransferase domain; This family appears to be a methyltransferase domain.
 248-365 5.14e-09

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


Pssm-ID: 463945 [Multi-domain]  Cd Length: 96  Bit Score: 53.34  E-value: 5.14e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737  248 ILDACAAPGGKTCHILELADADVLALDSDSERLERVKQNLVRIGLAADLQCADASqpHIWWDEQQFDRILldvpCSATGV 327
Cdd:pfam13649   1 VLDLGCGTGRLTLALARRGGARVTGVDLSPEMLERARERAAEAGLNVEFVQGDAE--DLPFPDGSFDLVV----SSGVLH 74

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 966689737  328 IRRHPDIKwlrrasdiedlanlqgDILNSIWPLLKPGG 365
Cdd:pfam13649  75 HLPDPDLE----------------AALREIARVLKPGG 96
UbiE COG2226
Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG [Coenzyme transport and metabolism]; ...
 230-368 2.78e-08

Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG [Coenzyme transport and metabolism]; Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG is part of the Pathway/BioSystem: Biotin biosynthesis


Pssm-ID: 441828 [Multi-domain]  Cd Length: 143  Bit Score: 52.30  E-value: 2.78e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 230 DAAAQLAARfLDPQNDDVILDACAAPGGKTCHILElADADVLALDSDSERLERVKQNLVRIGLAADLQCADASqpHIWWD 309
Cdd:COG2226    9 DGREALLAA-LGLRPGARVLDLGCGTGRLALALAE-RGARVTGVDISPEMLELARERAAEAGLNVEFVVGDAE--DLPFP 84

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 966689737 310 EQQFDRILldvpcsATGVIRRHPDikwLRRAsdiedlanlqgdiLNSIWPLLKPGGTLV 368
Cdd:COG2226   85 DGSFDLVI------SSFVLHHLPD---PERA-------------LAEIARVLKPGGRLV 121
UbiG COG2227
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme transport and ...
 248-371 2.43e-05

2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme transport and metabolism]; 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase is part of the Pathway/BioSystem: Ubiquinone biosynthesis


Pssm-ID: 441829 [Multi-domain]  Cd Length: 126  Bit Score: 43.47  E-value: 2.43e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 248 ILDACAAPGGktcHILELAD--ADVLALDSDSERLERVKQNLVRIGLaaDLQCADASQphIWWDEQQFDRILldvpcsAT 325
Cdd:COG2227   28 VLDVGCGTGR---LALALARrgADVTGVDISPEALEIARERAAELNV--DFVQGDLED--LPLEDGSFDLVI------CS 94

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 966689737 326 GVIrrhpdikwlrrasdiEDLANLQgDILNSIWPLLKPGGTLVYAT 371
Cdd:COG2227   95 EVL---------------EHLPDPA-ALLRELARLLKPGGLLLLST 124
RlmK COG1092
23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI [Translation, ribosomal structure ...
 268-373 3.19e-05

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: 45.94  E-value: 3.19e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 268 ADVLALDSDSERLERVKQNLVRIGLAA--DLQCADASQphiWWDE-----QQFDRILLDVPcsatgvirrhpdiKWLRRA 340
Cdd:COG1092  240 KSVTSVDLSATALEWAKENAALNGLDDrhEFVQADAFD---WLRElaregERFDLIILDPP-------------AFAKSK 303

                         90       100       110
                 ....*....|....*....|....*....|...
gi 966689737 341 SDIEDLANLQGDILNSIWPLLKPGGTLVYATCS 373
Cdd:COG1092  304 KDLFDAQRDYKDLNRLALKLLAPGGILVTSSCS 336
Tam COG4106
Trans-aconitate methyltransferase [Energy production and conversion];
248-368 1.05e-04

Trans-aconitate methyltransferase [Energy production and conversion];


Pssm-ID: 443282 [Multi-domain]  Cd Length: 100  Bit Score: 40.96  E-value: 1.05e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 966689737 248 ILDACAAPGGKTCHILE-LADADVLALDSDSERLERVKQNLVRIglaaDLQCADASQphiWWDEQQFDRILldvpCSATg 326
Cdd:COG4106    5 VLDLGCGTGRLTALLAErFPGARVTGVDLSPEMLARARARLPNV----RFVVADLRD---LDPPEPFDLVV----SNAA- 72

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 966689737 327 virrhpdIKWLrrasdiEDLANLqgdiLNSIWPLLKPGGTLV 368
Cdd:COG4106   73 -------LHWL------PDHAAL----LARLAAALAPGGVLA 97
 
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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