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