HHsearch alignment for GI: 254780567 and conserved domain: pfam00158
>pfam00158 Sigma54_activat Sigma-54 interaction domain.
Probab=97.71 E-value=0.00014 Score=48.12 Aligned_cols=120 Identities=18% Similarity=0.245 Sum_probs=70.9
Q ss_pred EECCCHH--HHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHC---CCC--HHHHHHHHH--HH--H--------
Q ss_conf 6536189--999999851016788499987877786889999998627---620--135676444--54--6--------
Q gi|254780567|r 44 LVHSAIE--QAVRLIDSWPSWPSRVVILVGPSGSGKSCLANIWSDKSR---STR--FSNIAKSLD--SI--L-------- 104 (246)
Q Consensus 44 iv~~~N~--~A~~~i~~~~~~~~~~l~i~G~~GsGKTHLl~a~~~~~~---~~~--~~~~~~~~~--~~--~-------- 104 (246)
T Consensus 1 lIG~S~~m~~l~~~i~~~a~~-~~pVLI~GE~GtGK~~lAr~IH~~S~r~~~pfi~vnc~~~~~~~le~~LFG~~~g~f~ 79 (168)
T pfam00158 1 LIGESPAMQEVLELAKRVAPT-DATVLITGESGTGKELFARAIHQLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFT 79 (168)
T ss_pred CEECCHHHHHHHHHHHHHHCC-CCCEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCC
T ss_conf 973899999999999999588-9988998999888899999999852435688312567899877999987587667668
Q ss_pred -----------HHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH----------CCCCCEEEEECCCCCCH---HHHHHHHH
Q ss_conf -----------666665334332100376-103354555431----------12342156403543200---22345667
Q gi|254780567|r 105 -----------IDTRKPVLLEDIDLLDFN-DTQLFHIINSIH----------QYDSSLLMTARTFPVSW---GVCLPDLC 159 (246)
Q Consensus 105 -----------~~~~~~i~iddi~~~~~~-ee~lf~l~n~~~----------~~~~~iilts~~~p~~~---~~~l~DL~ 159 (246)
T Consensus 80 ga~~~~~G~le~A~gGTL~LdeI~~L~~~~Q~~Ll~~L~~~~~~~~g~~~~~~~~vRiIast~~~L~~~v~~G~Fr~DLy 159 (168)
T pfam00158 80 GAVSDRKGLFELADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAATNRDLEEAVAEGRFREDLY 159 (168)
T ss_pred CCCCCCCCCEEECCCCEEECCCHHHCCHHHHHHHHHHHHCCEEEECCCCCEEEEEEEEEEECCCCHHHHHHCCCCHHHHH
T ss_conf 98757899642269987880244139999999999998579699779984588854999965988999988399639988
Q ss_pred HHHHH
Q ss_conf 88521
Q gi|254780567|r 160 SRLKA 164 (246)
Q Consensus 160 SRl~~ 164 (246)
T Consensus 160 yrLnv 164 (168)
T pfam00158 160 YRLNV 164 (168)
T ss_pred HHHCE
T ss_conf 88652