HHsearch alignment for GI: 254780624 and conserved domain: TIGR00740

>TIGR00740 TIGR00740 methyltransferase, putative; InterPro: IPR005271 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order . Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI ), shared by other AdoMet-Mtases , is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments , although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases , , , . The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences . The proteins of this family are restricted to the Proteobacteria, sharing consistent length, full-length homology, and on average better than 35 0dentity. It is reasonable to predict equivalent function within this subfamily. .
Probab=99.48  E-value=2.2e-14  Score=112.84  Aligned_cols=202  Identities=17%  Similarity=0.212  Sum_probs=130.2

Q ss_pred             HHHHHHHH----HHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCEEEECCHHHHHHHHHHHHHCCC-CCEEEEECCC
Q ss_conf             99999876----342115766761480179999998520644679977986023355777776641388-6327872133
Q gi|254780624|r   30 VNHVFSRV----SHRYDVMNDLMSLGLHRFWKEAMVTNLNPRKSKDYRVLDVAGGTGDVAFRIAEASDN-RSQIVVADIN  104 (265)
Q Consensus        30 v~~~F~~i----A~~YD~~N~~~S~G~~r~Wr~~~i~~l~~~~~~~~~iLDiGcGTG~~~~~l~~~~~~-~~~v~giD~s  104 (265)
T Consensus        21 VA~VF~DM~~RSvP~Y~~---~~~~GayfI-~~nL~E~~~~kslp~~~vYDLGCS~G~~~l~~~R~I~~~~~~~igIDNS   96 (247)
T TIGR00740        21 VAEVFPDMIQRSVPGYSN---IINLGAYFI-GMNLAERFVPKSLPKPLVYDLGCSTGAATLSLRRNIQQDNIKIIGIDNS   96 (247)
T ss_pred             HHHHCHHHHHCCCCHHHH---HHHHHHHHH-HHHHHHHHHHHCCCCCCEEECCCCHHHHHHHHHHCCCCCCEEEEEECCC
T ss_conf             322132566226832789---999889999-8777765433116887412233432357766530468785379884188


Q ss_pred             CCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCH--HHHHHHCCCCHHCCCCCEEEEEE-CCCC
Q ss_conf             22221111000001122222222222333457554467403664201321--34432012100048521177630-5544
Q gi|254780624|r  105 NEMLSVGRDRAFKENLQDCITFIEANAETLPFEANSFDACTLAFGIRNMP--HITLVLQEIYRILKCGGRLLVLE-FSEV  181 (265)
Q Consensus       105 ~~Ml~~a~~r~~~~~~~~~i~~~~~da~~lp~~d~sfD~V~~sf~l~~~~--d~~~~l~e~~RvLKpGG~~~i~d-f~~p  181 (265)
T Consensus        97 ~pM~~~~~~~~~~y~~~~Pv~~~~~D~~~v~~~~AS~--~~L~F~LQFl~P~~R~~LL~KIY~~L~~nGvL~lsEK~~~E  174 (247)
T TIGR00740        97 MPMLERCREHIKAYKNAIPVEVLCMDIREVEIKNASM--VVLNFTLQFLRPEEREALLKKIYNGLNPNGVLVLSEKFMFE  174 (247)
T ss_pred             HHHHHHHHHHHHHHCCCCCEEEEHHHHHHHHHHHHHH--HHHHHHHHCCCCHHHHHHHHHHHHHCCCCCEEEEECCHHHH
T ss_conf             8899999999987424788232010245666655468--87887760478234799999987410778668863201366


Q ss_pred             CCCHHHHHHHHHHHC--HHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCEEE
Q ss_conf             551011234565311--133210254288768657899999689989999999975995379
Q gi|254780624|r  182 QGPVFKKIYDMWSFK--VIPQLGRFIAGDEEPYQYLIESIRRFPNQQDFAAVISAAGFSNVS  241 (265)
Q Consensus       182 ~~~~~~~~~~~y~~~--iiP~~g~~~~~~~~~Y~yL~~Si~~f~~~~el~~~l~~aGF~~v~  241 (265)
T Consensus       175 D~~~~~~li~l~~~fK~~~GYS~~Ei~~KR~~----LENV~~~~S~~~~~a~L~~vGF~~vE  232 (247)
T TIGR00740       175 DRKLDKLLIELHHLFKRANGYSELEISQKREA----LENVLVTDSLETHKARLENVGFKHVE  232 (247)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH----HHHCCCCCHHHHHHHHHHHCCHHHHH
T ss_conf             78999999999999874158723468887888----76202300146645667535646888