>TIGR00563 rsmB ribosomal RNA small subunit methyltransferase B; InterPro: IPR004573 This family consists of bacterial sequences related to Escherichia coli rsmB, an rRNA SAM-dependent methyltransferase. All, are likely to be functionally equivalent and based on comparison of core motifs would appear to belong to a larger superfamily of S-adenosyl-methionine (AdoMet)-dependent RNA m5C methyltransferases . In E. coli, originally, the reading frame, encoding this protein, was interpreted as two reading frames, fmu and fmv. It has since been renamed, rsmB (Alternate Gene Symbols: rrmB, sun, fmu, fmv, yhdB). The recombinant protein, commonly referred to as Fmu, has been demonstrated to methylate only C967 of the 16S ribosomal RNA and to produce only m5C at that position. . The structure of the E. coli protein (Fmu) has been determined . Fmu contains three subdomains which share structural homology to DNA m5C methyltransferases and two RNA binding protein families. The N-terminal sequence of Fmu shares homology to another (noncatalytic) RNA binding protein, e.g. the ribosomal RNA antiterminator protein NusB (IPR011605 from INTERPRO). The catalytic lobe of Fmu, N1 domain, comprises the conserved core identified in all of the putative RNA m5C MTase sequences. Although the N1 domain is structurally homologous to known RNA binding proteins, there is no clear sequence motif that defines its role in RNA binding and recognition. At the functional centre of the catalytic lobe is the MTase domain of Fmu (residues 232-429), which adopts a fold typical of known AdoMet-dependent methyltransferases. In spite of the lack of a conserved RNA binding motif in the N1 domain, the close association of the N1 and MTase domains suggest that any RNA bound in the active site of the MTase domain is likely to interact with the N1 domain. ; GO: 0008649 rRNA methyltransferase activity, 0006364 rRNA processing.

Probab=99.81  E-value=1.2e-19  Score=138.03  Aligned_cols=128  Identities=20%  Similarity=0.262  Sum_probs=107.0

Q ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
Q ss_conf             99999999999956999899999999853100132211201443439999999999999899999999974103576332
Q gi|254780345|r   20 RLAAVQALYQIDIIGCSTTEIISEYETYRFCADTELDVESVYLHVDLEWFRVIIHGVMDRKQHIDLLISSCLTEKWSFSR   99 (170)
Q Consensus        20 R~~aiq~Ly~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~d~~~~~~lv~~v~~~~~~id~~I~~~l~~~w~~~r   99 (170)
T Consensus         1 R~~A~~~l~~V~~~~~sys~~~~~~----------~~~~~~ls~~dr~Ll~ELvyGv~r~~~~Ld~li~~L~~kP--~~~   68 (487)
T TIGR00563         1 RDIAAEALIQVLEQGQSYSNLLPDL----------VLKQNELSDQDRRLLTELVYGVLRRLRALDYLIKKLIDKP--LKG   68 (487)
T ss_pred             CHHHHHHHHHHHHCCCCHHHHHHHH----------HHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCC--CCC
T ss_conf             9578999999973155145678998----------8630578830032311122232135045789999974178--888


Q ss_pred             CCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             353489999999999864355781033988999999833877231499999999952333
Q gi|254780345|r  100 LDMILCSILRAGVLELIECHSVPVEVIISEYVCIAHDFFYGDEPKFINAVLDKVSRKEEI  159 (170)
Q Consensus       100 l~~~~~~iLr~a~~El~~~~~~p~~vvInE~V~lak~f~~~~~~~fVNaVL~ki~k~~~~  159 (170)
T Consensus        69 k~~~~~r~l~L~ly~~~yl~~vP~~AAv~e~V~~Ak~~g~~~l~~lVNGvLR~~qR~~~~  128 (487)
T TIGR00563        69 KPRVVHRLLRLVLYQQLYLERVPAHAAVNEAVELAKALGLKGLKGLVNGVLRRFQREQVQ  128 (487)
T ss_pred             CCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCC
T ss_conf             748999999999999999750782467889989999716752236788888888603576