HHsearch alignment for GI: 254780567 and conserved domain: COG1221

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms].
Probab=97.82  E-value=0.00065  Score=43.97  Aligned_cols=186  Identities=16%  Similarity=0.165  Sum_probs=106.1

Q ss_pred             CCCCCCCEEECCCHHH--HHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCC------CCHHHHHHHHHHHHHH-
Q ss_conf             6688454165361899--999998510167884999878777868899999986276------2013567644454666-
Q gi|254780567|r   36 LGISRDDLLVHSAIEQ--AVRLIDSWPSWPSRVVILVGPSGSGKSCLANIWSDKSRS------TRFSNIAKSLDSILID-  106 (246)
Q Consensus        36 ~~~~~dnFiv~~~N~~--A~~~i~~~~~~~~~~l~i~G~~GsGKTHLl~a~~~~~~~------~~~~~~~~~~~~~~~~-  106 (246)
T Consensus        73 ~~~~~~~LI-G~~~~~~~~~eqik~~ap-~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~~~~eL  150 (403)
T COG1221          73 KSEALDDLI-GESPSLQELREQIKAYAP-SGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQEAEL  150 (403)
T ss_pred             CCHHHHHHH-CCCHHHHHHHHHHHHHCC-CCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEEEHHHHCCCHHHHHH
T ss_conf             221566663-568889999999986189-998479866887538899999998612135898799777773767777777


Q ss_pred             ----------------------HHHHHHHHHHHCCCC-CCHHHHHHHHHH----------HCCCCCEEEEECCCCCCHHH
Q ss_conf             ----------------------666533433210037-610335455543----------11234215640354320022
Q gi|254780567|r  107 ----------------------TRKPVLLEDIDLLDF-NDTQLFHIINSI----------HQYDSSLLMTARTFPVSWGV  153 (246)
Q Consensus       107 ----------------------~~~~i~iddi~~~~~-~ee~lf~l~n~~----------~~~~~~iilts~~~p~~~~~  153 (246)
T Consensus       151 FG~~kGaftGa~~~k~Glfe~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVRli~AT~~~l~~~~~  230 (403)
T COG1221         151 FGHEKGAFTGAQGGKAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICATTEDLEEAVL  230 (403)
T ss_pred             HCCCCCEEECCCCCCCCHHEECCCCEEEHHHHHHCCHHHHHHHHHHHHCCCEEECCCCCCCCCCCEEEECCCCCHHHHHH
T ss_conf             32000000256678676420527977765636537985899999998718657668888867774045135668799987


Q ss_pred             HHHHHHHHHHHCCEEEECCCCH--HHHHH----HHHHHHHHCCCCCC----HHHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf             3456678852122245078897--89999----99998666289798----89999999406679899999999999999
Q gi|254780567|r  154 CLPDLCSRLKAATVVKISLPDD--DFLEK----VIVKMFADRQIFID----KKLAAYIVQRMERSLVFAEKLVDKMDNLA  223 (246)
Q Consensus       154 ~l~DL~SRl~~g~~~~I~~pdd--e~~~~----il~k~~~~r~i~l~----~~v~~yl~~r~~Rs~~~l~~~l~~Ld~~s  223 (246)
T Consensus       231 ~g~dl~~rl~-~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~L~~y~~pGNirELkN~Ve~~~~~~  309 (403)
T COG1221         231 AGADLTRRLN-ILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRALLAYDWPGNIRELKNLVERAVAQA  309 (403)
T ss_pred             HHCCHHHHHC-CCEECCCCHHHCHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH
T ss_conf             4052556416-754318972435555999999999999997399988888999999984889983999999999999973


Q ss_pred             H
Q ss_conf             9
Q gi|254780567|r  224 L  224 (246)
Q Consensus       224 l  224 (246)
T Consensus       310 ~  310 (403)
T COG1221         310 S  310 (403)
T ss_pred             C
T ss_conf             5