HHsearch alignment for GI: 254780918 and conserved domain: cd02526
>cd02526 GT2_RfbF_like RfbF is a putative dTDP-rhamnosyl transferase. Shigella flexneri RfbF protein is a putative dTDP-rhamnosyl transferase. dTDP rhamnosyl transferases of Shigella flexneri add rhamnose sugars to N-acetyl-glucosamine in the O-antigen tetrasaccharide repeat. Lipopolysaccharide O antigens are important virulence determinants for many bacteria. The variations of sugar composition, the sequence of the sugars and the linkages in the O antigen provide structural diversity of the O antigen.
Probab=100.00 E-value=2.4e-41 Score=271.53 Aligned_cols=220 Identities=22% Similarity=0.308 Sum_probs=158.0
Q ss_pred EEECCC-CHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHCC
Q ss_conf 995377-4556999998764207975157997148998168999999986308882799757888733889898786148
Q gi|254780918|r 329 IIPTYN-HHHLLKICLESIYHKTTYSSFEVIIIDNLSDDSKTFLYLQKIQKKYPNLRVITDNTHPFNYSRINNNATLHAK 407 (623)
Q Consensus 329 IIp~~n-~~~~l~~cl~Sl~~~t~y~~~EiivVdn~S~d~~t~~~l~~~~~~~~~~~~i~~~~~~~n~s~~~N~g~~~a~ 407 (623)
T Consensus 2 VIVtYn~~~~~l~~~L~sl~~q~~----eIiVVDN~S~d~-~~~~---~~~~~~~v~~i~~-~~N~G~a~g~N~Gi~~a~ 72 (237)
T cd02526 2 VVVTYNPDLSKLKELLAALAEQVD----KVVVVDNSSGND-IELR---LRLNSEKIELIHL-GENLGIAKALNIGIKAAL 72 (237)
T ss_pred EEEEECCCHHHHHHHHHHHHCCCC----EEEEEECCCCHH-HHHH---HHHCCCCEEEEEC-CCCCCHHHHCCCCCHHHH
T ss_conf 998738989999999997663799----899996988902-8999---9861998699989-997785887274303341
Q ss_pred C---CEEEEECCCCEEECHHHHHHHHHHH----CCCCEEEEEEEEECCCCCCCCCCCEEEECCEEECCCCCCCCCCCCCC
Q ss_conf 9---7474405882782816889988774----28981699537664676756778704413254067865664322565
Q gi|254780918|r 408 G---QYFCFLNNDTEVINGQWLSEMMGIA----SQPQVGAVGARLWYRRKKLWKRSKRLQHGGVIMGINNIAGHKNKHHK 480 (623)
Q Consensus 408 g---eyilfLn~D~~v~~~~wL~~Ll~~~----~~~~vG~Vg~~ll~~~~~~~~~d~~iqhaG~v~g~~~~~~~~~~~~~ 480 (623)
T Consensus 73 ~~~~d~i~~ln~D~~~-~~~~l~~l~~~~~~~~~~~~vg~~~p~~~d~~~~~~~~-------~~~----------~~~~~ 134 (237)
T cd02526 73 ENGADYVLLFDQDSVP-PPDMVEKLLAYKILSDKNSNIGAVGPRIIDRRTGENSP-------GVR----------KSGYK 134 (237)
T ss_pred CCCCCEEEEECCCCCC-CHHHHHHHHHHHHHCCCCCCEEEEEEEEECCCCCCCCC-------CCC----------CCCCC
T ss_conf 1797789993575655-90599999999985222798899971798689980045-------421----------12533
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCHHEEEEEHHHHHHHCCCCHHHHHHHCCHHHHHHHHHHCCCEEEECCCEEEEEECCCC
Q ss_conf 55576442222334444411101102043888898717999768763231688999999749819984754999517733
Q gi|254780918|r 481 ARCSVPNYQAFAMHFTHSISAVTGACMVMSKKCFMHVGGFDEKNTPVVFSDIDLCLRILEAGYRNVWTPHADLYHDESRT 560 (623)
Q Consensus 481 ~~~~~~~~~~~~~~~~~~~savtgacllirr~~f~~iGGfDE~~~~~~~eDvDlclR~~~~G~r~v~~P~a~v~H~es~s 560 (623)
T Consensus 135 ~~~~~-----~~~~~~~~~~~~~~sg~lir~~~~~~vG~fde~fF-~y~ED~Dl~~R~~~~G~~i~~~p~a~v~H~~G~~ 208 (237)
T cd02526 135 LRIQK-----EGEEGLKEVDFLITSGSLISLEALEKVGGFDEDLF-IDYVDTEWCLRARSKGYKIYVVPDAVLKHELGDK 208 (237)
T ss_pred CCCCC-----CCCCCCEECCEEEECCEEEEHHHHHHHCCCCHHHC-CCCCHHHHHHHHHHCCCCEEEECCEEEEECCCCC
T ss_conf 22354-----42478446043030143778999998579968977-9371999999999859979998988999789984
Q ss_pred CCCC-------CCCHHHHHHHHHHHHHH
Q ss_conf 6776-------68999999999999999
Q gi|254780918|r 561 RKYD-------HEDPAKMIVFQEACQYL 581 (623)
Q Consensus 561 rg~~-------~~~~~k~~~~~~~~~~~ 581 (623)
T Consensus 209 ~~~~~~~~~~~~~s~~~~Yy~~RN~~~l 236 (237)
T cd02526 209 RVKRLGGVSVPLHSPLRRYYLFRNAIYL 236 (237)
T ss_pred CCCCCCCEECCCCCHHHHHHHHHHHHHH
T ss_conf 5124574342356778899998548775