HHsearch alignment for GI: 254780531 and conserved domain: pfam00700

>pfam00700 Flagellin_C Bacterial flagellin C-terminal helical region. Flagellins polymerize to form bacterial flagella. There is some similarity between this family and pfam00669, particularly the motif NRFXSXIXXL. It has been suggested that these two regions associate and this is shown to be correct as structurally this family forms an extended helix that interacts with pfam00700.
Probab=99.83  E-value=2.5e-20  Score=141.93  Aligned_cols=82  Identities=26%  Similarity=0.377  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999878999999999999999999997306222025899999999999999999999999972068
Q gi|254780531|r  365 VSFIDTQIKCATAAAGKIGSISSRIHLQEDFIKLMRDAVEKGVGRLVDADMASESTRLSALQTQQQLAVQALSIVNNSTA  444 (452)
Q Consensus       365 l~~id~a~~~v~~~ra~iGa~~nrle~~~~~~~~~~~~~~~~~s~i~D~D~A~e~t~l~~~q~~~Qaa~~~laqan~~~~  444 (452)
T Consensus         1 i~~id~Ai~~v~~~ra~lGa~qnRl~~~~~~l~~~~~n~~~a~s~i~D~D~Aee~t~l~~~qil~qas~a~~aqanq---   77 (84)
T pfam00700         1 IDILDEAITQLTSQRSDLGAVQNRLESANTNLKNQSDNLKAAISRIEDVDPAEASTRVTKLQILLQASYALTAQANQ---   77 (84)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---
T ss_conf             91889999999999998859999999999889999999999998866650999999999999999999999999867---


Q ss_pred             HHHHHHC
Q ss_conf             8987525
Q gi|254780531|r  445 RILSLFR  451 (452)
Q Consensus       445 ~vL~L~~  451 (452)
T Consensus        78 --lslln   82 (84)
T pfam00700        78 --LSLLN   82 (84)
T ss_pred             --HHHHH
T ss_conf             --88886