HHsearch alignment for GI: 254780627 and conserved domain: pfam00158
>pfam00158 Sigma54_activat Sigma-54 interaction domain.
Probab=97.50 E-value=0.00019 Score=51.65 Aligned_cols=138 Identities=19% Similarity=0.238 Sum_probs=81.1
Q ss_pred CCCCCHHHH--HHHHHHHHHCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEHHHHHHHHHHHH
Q ss_conf 288614789--999999982410013655555489862788885799999999998630688168646988899999998
Q gi|254780627|r 168 IEGSSNRVA--LTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQAIANASIKRQPNLRVVYLTAEYFMWRFASAI 245 (502)
Q Consensus 168 VVG~sN~lA--~aAAkaVAe~pg~~~~~~~~NPLfi~G~~GlGKTHLl~ai~~~~~~~~~~~~v~y~~~e~F~~~~~~a~ 245 (502)
T Consensus 1 lIG~S~~m~~l~~~i~~~a~~~---------~pVLI~GE~GtGK~~lAr~IH~~S--~r~~~pfi~vnc~~~~~~~le~~ 69 (168)
T pfam00158 1 LIGESPAMQEVLELAKRVAPTD---------ATVLITGESGTGKELFARAIHQLS--PRADGPFVAVNCAAIPEELLESE 69 (168)
T ss_pred CEECCHHHHHHHHHHHHHHCCC---------CCEEEECCCCCCHHHHHHHHHHHC--CCCCCCCCCCCCCCCCHHHHHHH
T ss_conf 9738999999999999995889---------988998999888899999999852--43568831256789987799998
Q ss_pred ----HCCC----HHHHHHHHH--HCCHHHHHHHHHHCCCCHHHHHHHHHHHH----------HHCCCEEEEECCCCHHHH
Q ss_conf ----6198----899999974--03102054444531750699999999998----------856987999648756761
Q gi|254780627|r 246 ----RDNC----ALNLKDSLR--NIDLLLIDDMQFLQGKLIQHEFCHLLNSL----------LDSAKQVVAAADRPPSEL 305 (502)
Q Consensus 246 ----~~~~----~~~fr~~~r--~~DvLliDDiqfl~gk~tqee~f~~~n~l----------~~~gkqiv~tsd~~P~~l 305 (502)
T Consensus 70 LFG~~~g~f~ga~~~~~G~le~A~gGTL~LdeI~~L~-~~~Q~~Ll~~L~~~~~~~~g~~~~~~~~vRiIast~~~L~~~ 148 (168)
T pfam00158 70 LFGHEKGAFTGAVSDRKGLFELADGGTLFLDEIGELP-LELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAATNRDLEEA 148 (168)
T ss_pred HCCCCCCCCCCCCCCCCCCEEECCCCEEECCCHHHCC-HHHHHHHHHHHHCCEEEECCCCCEEEEEEEEEEECCCCHHHH
T ss_conf 7587667668987578996422699878802441399-999999999985796997799845888549999659889999
Q ss_pred C---CCCHHHHHHHH
Q ss_conf 3---63034576530
Q gi|254780627|r 306 E---SLDPRIRSRLQ 317 (502)
Q Consensus 306 ~---~l~~rL~SR~~ 317 (502)
T Consensus 149 v~~G~Fr~DLyyrLn 163 (168)
T pfam00158 149 VAEGRFREDLYYRLN 163 (168)
T ss_pred HHCCCCHHHHHHHHC
T ss_conf 883996399888865