HHsearch alignment for GI: 254780722 and conserved domain: pfam00482
>pfam00482 GSPII_F Bacterial type II secretion system protein F domain. The original family covered both the regions found by the current model. The splitting of the family has allowed the related FlaJ_arch (archaeal FlaJ family) to be merged with it. Proteins with this domain in form a platform for the type II secretion machinery, as well as the type IV pili and the archaeal flagellae. This domain seems to show some similarity to pfam00664, but this may just be due to similarities in the TM helices (personal obs: C Yeats).
Probab=99.47 E-value=2.7e-12 Score=94.84 Aligned_cols=122 Identities=25% Similarity=0.414 Sum_probs=109.0
Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHC-CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCC
Q ss_conf 99999999956999899999999924-84289999999998630388889999977534873479999999998742574
Q gi|254780722|r 19 ALDIIVRSVRAGLPVSDAVAVIVGQS-SDPVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVISVQSQLGGN 97 (187)
Q Consensus 19 ~l~~l~~~l~aG~sl~~Al~~~a~~~-~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~gg~ 97 (187)
T Consensus 1 fl~~l~~~~~sG~~l~~al~~~~~~~~~~~l~~~~~~i~~~l~~G~~~~~al~----~~~~~~~~~~~~~~~~~~~~gg~ 76 (125)
T pfam00482 1 FLRQLATLLRAGLPLLEALEILAEEAENGPLREELKRIRERLREGGSLSEALA----RTPLSEFPPLLVALIAAGESGGN 76 (125)
T ss_pred CHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHHHHH----HCCCCCCCHHHHHHHHHHHHCCC
T ss_conf 98989999986998999999998664898999999999999980860999997----66711299999999999987585
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 68999999999999999999999986434567799999999999999
Q gi|254780722|r 98 LSEALANLSRILRDRKNMKAKVQALSMEAKASAWIIGSLPFCVSTLV 144 (187)
Q Consensus 98 ~~~~L~~la~~~~~~~~~~~~~~~~~a~~~~~~~i~~~~~~~~~~~l 144 (187)
T Consensus 77 l~~~l~~~a~~~~~~~~~~~~~~~~~~~~~~~i~~~~~i~~~~~~~~ 123 (125)
T pfam00482 77 LAEVLERLADYLEERRELRRKILAALLYPLILLVVALLVLLILLAIL 123 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEE
T ss_conf 99999999999999999999999999989999999999999998300