HHsearch alignment for GI: 254780297 and conserved domain: cd00487

>cd00487 Pep_deformylase Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II) as the catalytic metal ion, which can be replaced with a nickel or cobalt ion with no loss of activity. There are two types of peptide deformylases, types I and II, which differ in structure only in the outer surface of the domain. Because these enzymes are essential only in prokaryotes (although eukaryotic gene sequences have been found), they are a target for a new class of antibacterial agents.
Probab=100.00  E-value=0  Score=355.91  Aligned_cols=141  Identities=48%  Similarity=0.909  Sum_probs=137.1

Q ss_pred             HHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEHHHCCCCCEEEEECCCCCCCCCCCEECCCCCCCHHH
Q ss_conf             64576931052121378788899999999998650047642130220144000377316432334821001644201000
Q gi|254780297|r    6 LVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDLQDHAHRKNPMVFINPKIITFSD   85 (170)
Q Consensus         6 Iv~~~dp~L~~~~~~v~~~~~~~~~li~dm~~tm~~~~GvGLAA~QIG~~~ri~vv~~~~~~~~~~~~~~iNP~I~~~s~   85 (170)
T Consensus         1 Iv~~pdp~Lr~~a~~V~~~~~~~~~li~dM~~tm~~~~GiGLAApQVG~~~ri~vv~~~~~~~~~~~~v~INP~I~~~s~   80 (141)
T cd00487           1 IVQYPDPVLRKKAKPVEEFDDELKQLIDDMFETMYAAPGVGLAAPQIGVSKRIFVIDVPDEENKEPPLVLINPEIIESSG   80 (141)
T ss_pred             CEECCCHHHHCCCEECCCCCHHHHHHHHHHHHHHHHCCCEEEEHHHCCCCEEEEEEECCCCCCCCCCEEEECCEEEECCC
T ss_conf             97759879968171589789899999999999998689959874566975539999857544777736998561573388


Q ss_pred             HHHHHHHHCCCCCCCCHHHHHCCHHEEEEECCCCCEEEEEEECCEEEEEEEEHHHHCCEEE
Q ss_conf             0011100000122321012110000024632358557999729764643270013197685
Q gi|254780297|r   86 DFSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILF  146 (170)
Q Consensus        86 e~~~~~EGCLS~Pg~~~~V~R~~~I~v~~~d~~G~~~~~~~~g~~Ar~~QHEiDHL~G~lf  146 (170)
T Consensus        81 ~~~~~~EGCLS~Pg~~~~V~R~~~I~v~~~d~~G~~~~~~~~G~~Ar~~QHE~DHL~Gilf  141 (141)
T cd00487          81 ETEYGEEGCLSVPGYRGEVERPKKVTVRYLDEDGNPIELEAEGFLARCIQHEIDHLNGILF  141 (141)
T ss_pred             CEEEEECCCCCCCCCCEEEECCCEEEEEEECCCCCEEEEEEECEEEEEEEEHHHHHCCEEC
T ss_conf             5887104605268986774068889999986899999999976156353707472088939