HHsearch alignment for GI: 254780836 and conserved domain: pfam12161

>pfam12161 HsdM_N HsdM N-terminal domain. This domain is found at the N-terminus of the methylase subunit of Type I DNA methyltransferases. This domain family is found in bacteria and archaea, and is typically between 123 and 138 amino acids in length. The family is found in association with pfam02384. Mutations in this region of EcoKI methyltransferase abolish the normally strong preference of this system for methylating hemimethylated substrate. The structure of this domain has been shown to be all alpha-helical.
Probab=99.42  E-value=7.6e-14  Score=109.82  Aligned_cols=85  Identities=34%  Similarity=0.589  Sum_probs=68.8

Q ss_pred             HHHHHHHHHHHHCCCCCHHHCCCEEEHHHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCCCCCCCHHH
Q ss_conf             99999999987406888343087230548999896741233999999997202468896787653389610368036886
Q gi|254780836|r   11 LANFIWKNAEDLWGDFKHTDFGKVILPFTLLRRLECALEPTRSAVREKYLAFGGSNIDLESFVKVAGYSFYNTSEYSLST   90 (674)
Q Consensus        11 L~s~iW~~Ad~LRg~~~~~eY~~~ILp~~~Lrrld~~le~~k~~v~~~~~~~~~~~~~~~~~~~~~g~~F~n~s~~~~~~   90 (674)
T Consensus         1 l~~~lw~~ad~LRg~~~~~~y~~~il~LlFlK~-----------------------------------------~~~w~~   39 (92)
T pfam12161         1 LESKLWNIADILRGDVDASEYKEYILPLLFLKR-----------------------------------------EYRWSN   39 (92)
T ss_pred             CHHHHHHHHHHHHCCCCHHHCCCCEEEEEEEEC-----------------------------------------CCCHHH
T ss_conf             917999999998087997880161210121024-----------------------------------------880899


Q ss_pred             HH----HHHHHHHHHHHHHHHCHH---HHHHHHHCCHHHHHHHHHHCCHHHHHHHH
Q ss_conf             13----455899999999752999---89998717723577544423628999987
Q gi|254780836|r   91 LG----STNTRNNLESYIASFSDN---AKAIFEDFDFSSTIARLEKAGLLYKICKN  139 (674)
Q Consensus        91 l~----~~~~~~nl~~yi~gfS~n---v~dI~~~f~f~~~i~~L~~~~~L~~vI~~  139 (674)
T Consensus        40 l~~~~~~~~l~~~~~~~~~~i~~~~~~~~g~~~~~~~~---~~~~~~~~L~~vi~~   92 (92)
T pfam12161        40 LKANDDGDELGENLNDALPGLEELNPDLKGIFFDADFN---TKLEKPDLLKKVIEK   92 (92)
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHCHHHHCCCCCCCCC---CCCCCHHHHHHHHCC
T ss_conf             98501589689999999999998787674412556587---755782689988509