HHsearch alignment for GI: 254780872 and conserved domain: TIGR03534

>TIGR03534 RF_mod_HemK protein-(glutamine-N5) methyltransferase, release factor-specific. Members of this protein family are HemK, a protein once thought to be involved in heme biosynthesis but now recognized to be a protein-glutamine methyltransferase that modifies the peptide chain release factors. All members of the seed alignment are encoded next to the release factor 1 gene (prfA) and confirmed by phylogenetic analysis. However, the family is diverse enough that even many members of the seed alignment do not score above the seed alignment, which was set high enough to exclude all instances of PrmB.
Probab=99.58  E-value=2.5e-14  Score=109.56  Aligned_cols=169  Identities=22%  Similarity=0.359  Sum_probs=112.9

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCCCHHHHHH-------------CHH----H--HHHHHHHHHHHCCCCCCCCCCHHHCC
Q ss_conf             7898899999999988746888871267751-------------756----5--99999998865187644458800162
Q gi|254780872|r    9 TTKNQDAINQFSNIASEWWEPTGKFKPLHQI-------------NPV----R--IKYIQDKIMQHFQCKSDDTHPFKGLR   69 (254)
Q Consensus         9 ~t~~~~ei~~F~~~a~~WwD~~g~~~~Lh~~-------------N~~----R--~~~I~~~i~~~~~~~~~~~~~l~g~~   69 (254)
T Consensus        23 ~~l~~~~~~~~~~~~~rr~--~g--~PlqYI~g~~~F~~~~f~V~~~VLIPRpETE~Lve~~l~~~~--------~~~~~   90 (251)
T TIGR03534        23 KELTPEELARFEALVARRA--KG--EPVAYILGEREFYGLDFKVSPGVLIPRPDTEELVEAALERLK--------KGPLK   90 (251)
T ss_pred             CCCCHHHHHHHHHHHHHHH--CC--CCHHHHHCEEEEEEEEEEEECCEEEECCCHHHHHHHHHHHHC--------CCCCE
T ss_conf             8899999999999999998--69--968995087689868999718878648833999999999731--------48986


Q ss_pred             EEEECCCHHHHHHHHHHC--CCCEEEECCHHHHHHHHHHHHHCCCC-CCCCCCCCCCCCCCCCCCHHHHEEC--------
Q ss_conf             888569856999999731--98169952135677888865310112-1111221001232111530130012--------
Q gi|254780872|r   70 ILDLGCGGGLLSEPMAQM--GATVTGIDPSTKNIAIAKNHANMKNI-NIDYRVSCAEEIAETDEKFDIILNM--------  138 (254)
Q Consensus        70 VLDiGCG~G~~s~~la~~--g~~V~giD~S~~~i~~Ak~~a~~~~~-~i~~~~~~~~~l~~~~~~FD~V~~~--------  138 (254)
T Consensus        91 ilDlgtGSG~I~i~la~~~~~~~v~~~Dis~~Al~~A~~N~~~~~~~~v~~~~~d~~~~-~~~~~fDlIvsNPPYI~~~e  169 (251)
T TIGR03534        91 VLDLGTGSGAIALALAKERPDARVTAVDISPEALAVARKNAKRLGLENVRFLKSDWFEP-LPGGKFDLIVSNPPYIPEAD  169 (251)
T ss_pred             EEEECCCHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEEECCHHHC-CCCCCCCEEEECCCCCCHHH
T ss_conf             99955671699999999679978999989879999999999980998268651314321-56898668997899887456


Q ss_pred             ------CCHHCCC------------CHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCHHHC
Q ss_conf             ------4310268------------8889988887521333215774367660245641565543104678998571225
Q gi|254780872|r  139 ------EVIEHVD------------NIPYFIKTCCSLLLSNGLMFISTINRNLKAMLLAIIGAEYLLQWLPKGTHQYDKF  200 (254)
Q Consensus       139 ------~vleHv~------------d~~~~l~~~~~~LkpgG~liist~Nr~~~s~~~~i~~ae~il~~~P~gtH~~~~F  200 (254)
T Consensus       170 ~~~l~~eV~~~EP~~AL~gg~dGl~~~~~ii~~a~~~L~~~G~l~~Ei-g--------------------------~~--  220 (251)
T TIGR03534       170 IHLLDPEVRFHEPKLALFAGEDGLDFYRRIIAQAPRYLKPGGWLLLEI-G--------------------------YD--  220 (251)
T ss_pred             HHHCCCHHCCCCHHHHHCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEE-C--------------------------HH--
T ss_conf             663286010267299971798469999999999998536798899996-8--------------------------37--


Q ss_pred             CCHHHHHHHHHHCCCEEEEE
Q ss_conf             38899999999869838885
Q gi|254780872|r  201 IKPTEMECFLAANKVKIIDR  220 (254)
Q Consensus       201 i~p~el~~~l~~~g~~~~~~  220 (254)
T Consensus       221 -q~~~v~~l~~~~gf~~i~~  239 (251)
T TIGR03534       221 -QGEAVRALFEAAGFADVET  239 (251)
T ss_pred             -HHHHHHHHHHHCCCCEEEE
T ss_conf             -8999999999689970688