HHsearch alignment for GI: 254780877 and conserved domain: pfam00158
>pfam00158 Sigma54_activat Sigma-54 interaction domain.
Probab=97.54 E-value=0.00012 Score=56.81 Aligned_cols=118 Identities=25% Similarity=0.452 Sum_probs=68.6
Q ss_pred CCCHHHHHHHHHHHHCC--CCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCEEEEEEHHHH--------HCCC
Q ss_conf 33357899999996336--7778668952887407779999999873489984445743788731354--------2174
Q gi|254780877|r 180 VIGRDDEMRRAIQVLSR--RTKNNPVLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGAL--------IAGA 249 (853)
Q Consensus 180 VIGRe~EI~~~~~iL~r--~~k~n~~lvGe~GvGKtaive~la~~i~~~~vp~~l~~~~i~~ld~~~l--------~ag~ 249 (853)
T Consensus 1 lIG~S~~m~~l~~~i~~~a~~~~pVLI~GE~GtGK~~lAr~IH~~S~r~-------~~pfi~vnc~~~~~~~le~~LFG~ 73 (168)
T pfam00158 1 LIGESPAMQEVLELAKRVAPTDATVLITGESGTGKELFARAIHQLSPRA-------DGPFVAVNCAAIPEELLESELFGH 73 (168)
T ss_pred CEECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHCCCC-------CCCCCCCCCCCCCHHHHHHHHCCC
T ss_conf 9738999999999999995889988998999888899999999852435-------688312567899877999987587
Q ss_pred CCCCHHH---HHHHHHHHHHHHCCCCEEEEECCHHHHCCCCCCCCCCCHHHHHHHHHCCC-------------CEEEEEE
Q ss_conf 5420245---45899999986079976999636277302666554335888876531246-------------6048997
Q gi|254780877|r 250 KFRGEFE---ERLKSLLCEIRSEDGEIILFIDELHVLVGAGKTDGAMDASNLLKPSLARG-------------ELHCIGA 313 (853)
Q Consensus 250 ~~rg~~e---~r~~~i~~~~~~~~~~~ilfide~h~~~gaG~~~g~~Daan~LKP~LarG-------------~l~~Iga 313 (853)
T Consensus 74 ~-~g~f~ga~~~~~G~le---~A~gG-TL~LdeI~~L--------~~~~Q~~Ll~~L~~~~~~~~g~~~~~~~~vRiIas 140 (168)
T pfam00158 74 E-KGAFTGAVSDRKGLFE---LADGG-TLFLDEIGEL--------PLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAA 140 (168)
T ss_pred C-CCCCCCCCCCCCCCEE---ECCCC-EEECCCHHHC--------CHHHHHHHHHHHHCCEEEECCCCCEEEEEEEEEEE
T ss_conf 6-6766898757899642---26998-7880244139--------99999999999857969977998458885499996
Q ss_pred ECHH
Q ss_conf 4489
Q gi|254780877|r 314 TTLD 317 (853)
Q Consensus 314 TT~~ 317 (853)
T Consensus 141 t~~~ 144 (168)
T pfam00158 141 TNRD 144 (168)
T ss_pred CCCC
T ss_conf 5988