HHsearch alignment for GI: 254780386 and conserved domain: TIGR00998

>TIGR00998 8a0101 efflux pump membrane protein; InterPro: IPR005694 emrA and emrB confer resistance to carbonylcyanide m-chlorophenylhydrazone, nalidixic acid, and a number of other toxic compounds. EmrB encodes a highly hydrophobic 56.2-kDa peptide, with 14 potential alpha-helices to span the inner membrane. EmrA encodes a putative 42.7-kDa peptide containing a single hydrophobic domain and a large C-terminal hydrophilic domain.; GO: 0015238 drug transporter activity, 0006855 multidrug transport, 0009276 1-2nm peptidoglycan-based cell wall.
Probab=95.11  E-value=0.028  Score=33.54  Aligned_cols=119  Identities=13%  Similarity=0.078  Sum_probs=64.1

Q ss_pred             CCHHHHHHHHHHHHHHHHHHH-H---------HHE--EEEEEEE-EEEEEEEECCCEEEEECCCCCEEEEEECCCCCEE-
Q ss_conf             861689999999999999998-7---------640--6712589-9979999538738984688868999985789893-
Q gi|254780386|r   13 HPASLKRMTLLSIIGIIGLIT-W---------SIL--LPIEISV-SSSGEILNEDNVVEIKSPFSGIIKKFQVENGSQI-   78 (440)
Q Consensus        13 ~p~~~~~~~~~~~~~~~~~~~-w---------~~~--~~~~~~v-~~~G~i~~~~~~~~I~s~~~G~V~~i~VkeGd~V-   78 (440)
T Consensus         4 ~~~l~vv~Li~~a~a~~~y~~~~~~~~~~T~dAYV~a~~~~v~sF~VsG~v~------~v~~~d-----~d~Vk~GD~Lv   72 (379)
T TIGR00998         4 FLLLLVVLLIVVALAYAIYWFLVLRDYESTDDAYVKANQLQVSSFQVSGSVI------EVNVDD-----TDYVKQGDVLV   72 (379)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHCCCCCEEEEEEEEEEEEE------EEEECC-----CCCCEECCEEE
T ss_conf             6799999999999999999998874011211462127730232465732489------997437-----88420311566


Q ss_pred             ECCCEEEEECHHHHHHHHHHHHHHHHHHHHHHHCCCC----CCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             3697899996489988899987434332332100123----333222114555422356888877655
Q gi|254780386|r   79 LQGTPLLTFEDIETTDLIDLKKVSIKNLRCHIDTEKS----ALDFLNNKYDVLEKAFESREEQLLDFL  142 (440)
Q Consensus        79 kkGq~L~~ld~~~~~~~l~~~~~~l~~l~~~l~~~~~----~l~~~~~~~~~~~~~~~~~~~~~~~~~  142 (440)
T Consensus        73 ~LD~t~a~~~~~~Ae~~LAa~~rq~~~l~~~~~~l~~GLHisLsakkL~v~s~~~~~~qar~~l~qae  140 (379)
T TIGR00998        73 RLDPTDAELALAKAEANLAALVRQTKQLEITVQQLQAGLHISLSAKKLKVESLKIKLEQAREKLKQAE  140 (379)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             76771689999999999999999888873116776356400024567889999999999999987678