HHsearch alignment for GI: 254780450 and conserved domain: cd00130

>cd00130 PAS PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.
Probab=98.40  E-value=2.2e-06  Score=62.91  Aligned_cols=103  Identities=21%  Similarity=0.175  Sum_probs=57.9

Q ss_pred             CCCEEEEECCCCCEEEEEHHHHHHCCCCHHHHCCCCHHHHCCCCCHHHHHHHHHHHHHCCCCCCEEEEEEECCEEECCCC
Q ss_conf             49809999599938981066886709995673156110002787616789999999832432320389860100004898
Q gi|254780450|r   36 EPEGILITNERGHIIYANNAYNALTNAVWNKRTKSLESLLSRNQEASEALYRLINSLRLKSEGSEEFRLMQSLNNYSQNS  115 (803)
Q Consensus        36 ~~d~i~v~D~~G~i~~~N~a~~~l~G~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~~~~~~~~g  115 (803)
T Consensus         1 ~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~g   74 (103)
T cd00130           1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRL------RRKDG   74 (103)
T ss_pred             CCEEEEEECCCCCEEEECHHHHHHHCCCHHHHCCCCHHHEECCHHHHHHHHHHHHHHHCCCCCEEEEEE------ECCCC
T ss_conf             962899997989899998899998798878916996542455211699999999999749985248999------99999


Q ss_pred             CEEEEEEEEEEEEECCCCCEEEEEEEEEEC
Q ss_conf             679999999999823788069999999783
Q gi|254780450|r  116 EPHWYRLKARVLPISLHKEKLLYAWRITDI  145 (803)
Q Consensus       116 ~~~w~~i~~~~~~~~~~~~~~~~~~~i~DI  145 (803)
T Consensus        75 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~di  103 (103)
T cd00130          75 SVIWVLVSLTPIRDEG-GEVIGLLGVVRDI  103 (103)
T ss_pred             CEEEEEEEEEEEECCC-CCEEEEEEEEECC
T ss_conf             9999999999999999-8999999999829