HHsearch alignment for GI: 254780545 and conserved domain: pfam00158
>pfam00158 Sigma54_activat Sigma-54 interaction domain.
Probab=98.15 E-value=3.5e-06 Score=63.73 Aligned_cols=120 Identities=34% Similarity=0.480 Sum_probs=71.0
Q ss_pred CCCCCCEEECCCCCHHHHHHHHHHHCC---CCCCEECCCHHHHH-----HHHHHC------CHHH-HHHHHHHHHHHCCH
Q ss_conf 123331100378742588899997424---69970205857886-----444203------3245-99999999873780
Q gi|254780545|r 178 GRIPHGVLLVGPPGTGKTLLARAVAGE---ANVPFFTISGSDFV-----ELFVGV------GASR-VRDMFEQAKNNSPC 242 (647)
Q Consensus 178 ~~~p~g~ll~GppGtGKTlla~a~a~e---~~~~f~~~~~s~~~-----~~~~g~------g~~~-vr~lf~~a~~~~p~ 242 (647)
T Consensus 19 a~~~~pVLI~GE~GtGK~~lAr~IH~~S~r~~~pfi~vnc~~~~~~~le~~LFG~~~g~f~ga~~~~~G~le~A---~gG 95 (168)
T pfam00158 19 APTDATVLITGESGTGKELFARAIHQLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTGAVSDRKGLFELA---DGG 95 (168)
T ss_pred HCCCCCEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCEEEC---CCC
T ss_conf 58899889989998888999999998524356883125678998779999875876676689875789964226---998
Q ss_pred HEEHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCC---C----CCCEEEEEECCCCCCCCHHHCCCCCCCCEEEE
Q ss_conf 1206323564144557898862688988998998530323---5----77829999629810088333165642314100
Q gi|254780545|r 243 IVFVDEIDAVGRHRGIGLGGGNDEREQTLNQLLVEMDGFE---S----SEGVILIAATNRPDVLDAALLRPGRFDRQITV 315 (647)
Q Consensus 243 iifiDeida~~~~r~~~~~~~~~e~~~~ln~ll~~mdg~~---~----~~~v~vi~aTn~~~~lD~al~RpgRfd~~i~~ 315 (647)
T Consensus 96 TL~LdeI~~L~~-----------~~Q~~Ll~~L~~~-~~~~~g~~~~~~~~vRiIast~~~--L-~~~v~~G~Fr~DLyy 160 (168)
T pfam00158 96 TLFLDEIGELPL-----------ELQAKLLRVLQEG-EFERVGGTKPIKVDVRIIAATNRD--L-EEAVAEGRFREDLYY 160 (168)
T ss_pred EEECCCHHHCCH-----------HHHHHHHHHHHCC-EEEECCCCCEEEEEEEEEEECCCC--H-HHHHHCCCCHHHHHH
T ss_conf 788024413999-----------9999999998579-699779984588854999965988--9-999883996399888