HHsearch alignment for GI: 254780771 and conserved domain: cd03352

>cd03352 LbH_LpxD UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2,3-diacyl-GlcNAc. This constitutes the third step in the lipid A biosynthetic pathway in Gram-negative bacteria. LpxD is a homotrimer, with each subunit consisting of a novel combination of an N-terminal uridine-binding domain, a core lipid-binding left-handed parallel beta helix (LbH) domain, and a C-terminal alpha-helical extension. The LbH domain contains 9 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X).
Probab=100.00  E-value=0  Score=393.22  Aligned_cols=204  Identities=55%  Similarity=0.897  Sum_probs=199.2

Q ss_pred             CCCCCCCCCEEHHHCCCCCCEEEECCCCCCCCHHCCCCCCCCCCCCCEEEEEE-EEEEEECCCCCEEEECCCCCCCCCCC
Q ss_conf             32334420000110011232033112210000000233210023322023310-02442010000023213445433556
Q gi|254780771|r  128 DVKIEDGVVIAPMAVVYPGVEIGRKTYVGPGSVIGAGVRIGRNCSIGAGSSIY-SSLIGNSVILHSGVRIGNDGFGYARG  206 (347)
Q Consensus       128 ~a~I~~~v~I~~~~~I~~~v~IG~~~~I~~~~~I~~~~~IG~~~~I~~~~~I~-~~iIG~~~~I~~~~vIG~~GFgf~~~  206 (347)
T Consensus         1 ~a~ig~~v~I~~~avI~~~v~Ig~n~~I~~~~~I~~~v~IG~~~~I~~~~~I~~~~~IG~~~~I~~~~vIg~~~f~~~~~   80 (205)
T cd03352           1 SAKIGENVSIGPNAVIGEGVVIGDGVVIGPGVVIGDGVVIGDDCVIHPNVTIYEGCIIGDRVIIHSGAVIGSDGFGFAPD   80 (205)
T ss_pred             CCEECCCCEECCCCEECCCCEECCCCEECCCCEECCCCEECCCCEEECCCEECCCCEECCEEEECCCEEECCCCCCCCCC
T ss_conf             96919999999987999999999999998988999996889883660034472786875447771534862135323147


Q ss_pred             CCCCCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEECCCEECCCCEEE
Q ss_conf             66531104443200002444454444332222221111122211123444465035771886555650363656972973
Q gi|254780771|r  207 VSDIHKIVHIGRVIIQDKVEIGANSAIDRGTIDDTIIGENTKIDNQVQIGHNVHIGCGCIIVSQVGIAGSTYIGDNVLIG  286 (347)
Q Consensus       207 ~~~~~~~~~~G~v~Ig~~v~IG~n~tIdrg~~~~t~Ig~~~~id~~v~i~hn~~iG~~~~~~~~~~~~g~~~ig~~~~ig  286 (347)
T Consensus        81 ~~~~~~~~~~g~v~Ig~~v~Ig~~~~I~~g~~~~T~IG~~~~i~~~v~igh~~~iG~~~~i~~~~~~~g~~~Igd~~~iG  160 (205)
T cd03352          81 GGGWVKIPQLGGVIIGDDVEIGANTTIDRGALGDTVIGDGTKIDNLVQIAHNVRIGENCLIAAQVGIAGSTTIGDNVIIG  160 (205)
T ss_pred             CCCCEECCCCCCEEECCCEEECCCCEECCCCCCCCCCCCCCEECCCCCCCCCCCCCCCEEECCCCCCCCCEEECCCCEEC
T ss_conf             98404514213189848849888627636642677478776864545255640415870750320002652497435398


Q ss_pred             ECCEEECCEEECCCCEECCCCEEEEEECCCCEEEEECCHHHHHHH
Q ss_conf             068783785988888986253260000798789982417588897
Q gi|254780771|r  287 GQCGIAGYLKIGDNVQIASKSGVLKDIPAGQQYGGMPARPIGEYL  331 (347)
Q Consensus       287 ~~~~i~~~v~ig~~~~i~a~s~v~~~v~~~~~~~G~pa~~~~~~~  331 (347)
T Consensus       161 ~~s~i~~gv~IG~~a~VgagSvVtkdVp~~~iv~G~PAr~ir~~~  205 (205)
T cd03352         161 GQVGIAGHLTIGDGVVIGAGSGVTSIVPPGEYVSGTPAQPHREWL  205 (205)
T ss_pred             CCCEECCCCEECCCCEECCCCEECCCCCCCCEEEEEECCHHHHHC
T ss_conf             964882993999998998688796486999699976284356419