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