HHsearch alignment for GI: 254780787 and conserved domain: cd01878

>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=99.65  E-value=2.4e-15  Score=122.88  Aligned_cols=151  Identities=28%  Similarity=0.336  Sum_probs=101.0

Q ss_pred             CCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEECCCEEEEEC-CCCEEEEEECCCH---------HHHHHHHH
Q ss_conf             1255303898623685044677788642221001231000121499951-7843888851661---------57899986
Q gi|254780787|r  379 LDIRPPVVTIMGHVDHGKTSLLDAIRKADVAKGEIGGITQHIGAYQVAY-QGKNITFLDTPGH---------AAFYEMRA  448 (884)
Q Consensus       379 ~~~R~pvv~v~ghvd~GKt~lld~~r~~~~~~~e~ggitq~iga~~~~~-~~~~~~~iDtPGh---------~~f~~~r~  448 (884)
T Consensus        37 ~~~g~p~VaivG~PNvGKSTLlN~L~g~~~~v~~~~~tT~d~~~~~i~~~~~~~i~l~DT~G~i~~~p~~lie~~~~tl-  115 (204)
T cd01878          37 KRSGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDGREVLLTDTVGFIRDLPHQLVEAFRSTL-  115 (204)
T ss_pred             HHCCCCEEEEECCCCCCHHHHHHHHHCCCCEEECCCCCCCCCEEEEEEECCCCEEEEEECCCCCCCCCHHHHHHHHHHH-
T ss_conf             7459987999889999899999999489963415677645763668995699779998368644678378999999999-


Q ss_pred             HHHHCCCCEEEEEECCCCCCH-HHH---HHHHHHHHCCCCEEEECCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEE
Q ss_conf             664206805999983667402-357---7789899709941561233124433200022100001320001234740363
Q gi|254780787|r  449 RGARVTDIAVLVLAADEEIMP-QAI---ESINHAKAADVSIIVAINKIDKLGADPQKVRMSLLKHDVFVESMGGDILDVE  524 (884)
Q Consensus       449 rg~~~~d~~ilvv~~~~g~~~-qt~---e~~~~~~~~~~p~iva~nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  524 (884)
T Consensus       116 e~i~~AD~il~vvD~s~~~~~~~~~~~~~~l~~l~~~~k~~i~V~NKiDl~~~~~~~---~~~--------~~~~~~~i~  184 (204)
T cd01878         116 EEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEELE---ERL--------EAGRPDAVF  184 (204)
T ss_pred             HHHHHCCEEEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCHHHH---HHH--------HHCCCCEEE
T ss_conf             999739899999979985366779999999998065557607888670479957589---999--------708998799


Q ss_pred             EEECCCCCCCCCCCCHH
Q ss_conf             11002477411221000
Q gi|254780787|r  525 ISAKNNLNLDKLLDAIL  541 (884)
Q Consensus       525 ~~~~~~~~~~~~~~~~~  541 (884)
T Consensus       185 ISA~~g~Gid~L~~~I~  201 (204)
T cd01878         185 ISAKTGEGLDELLEAIE  201 (204)
T ss_pred             EECCCCCCHHHHHHHHH
T ss_conf             98868949999999999