HHsearch alignment for GI: 254780896 and conserved domain: COG0559

>COG0559 LivH Branched-chain amino acid ABC-type transport system, permease components [Amino acid transport and metabolism].
Probab=100.00  E-value=1.4e-45  Score=296.16  Aligned_cols=279  Identities=24%  Similarity=0.299  Sum_probs=222.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHCCCC----CCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999999999999998432248999999999999999720456----5303653357889889876544445
Q gi|254780896|r   39 IDSMGIQILIYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVILGSRYG----LSIWLLIPVSAMISGACGMIMGLPS  114 (351)
Q Consensus        39 ~~~~~~~~~i~~l~alGl~li~G~~G~inl~~g~~~~~Gay~~~~l~~~~g----~~~~~ai~~a~~~~a~~g~l~g~~~  114 (351)
T Consensus        10 l~nGL~~GsiyaL~AlGltlvygv~rviNfAHG~~~m~Gay~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~g~~~er~v   89 (297)
T COG0559          10 LVNGLSLGSIYALLALGLTLVYGVLRVINFAHGEFFMLGAYAAYLAVALLGPLGALGLLLALPLAFAITALIGLLIERLV   89 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999999981641133999999999999999973233223799999999999999999999999


Q ss_pred             HHH-H--H-HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             432-1--3-45777799988989999985554058767885776521121234764343433331001489999999999
Q gi|254780896|r  115 LKF-R--G-DYLAIATLIMSEIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGM  190 (351)
Q Consensus       115 ~rl-~--g-~~~~i~Tl~~~~i~~~~~~~~~~~~~g~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (351)
T Consensus        90 ~rpl~~~~~l~~liat~G~~l~l~~~~~~~----~g~~~~~~p~--~~~~~-----~~----~~g~~~~~~~~l~~~~~s  154 (297)
T COG0559          90 LRPLRGRPALALLIATLGVSLILQGLARLI----FGPRPVGLPP--ALSGS-----VR----FLGGVTLPTYRLFIIAVS  154 (297)
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHHHHE----ECCCCCCCCH--HHCCC-----CC----CCCCCCCHHHHHHHHHHH
T ss_conf             999732884699999999999999999993----5876666771--42144-----21----032001069999999999


Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCCHHHHHHHH
Q ss_conf             99999999996130599999996421222334202322367999998799999999999866440113543158999988
Q gi|254780896|r  191 CFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAKLSAFAVSSAFIGMAGAFFAASRDRISPDMFKFSENIIVI  270 (351)
Q Consensus       191 ~~~~~~l~~~l~rT~~G~~lrAv~~n~~aA~~~Ginv~~~~~~af~is~~lAgiaG~l~a~~~~~v~p~~~~~~~~~~~~  270 (351)
T Consensus       155 ~~~~~~l~~~l~rT~~G~a~RA~~~n~~~A~l~GInv~~v~~~tf~lg~~lAglaGvl~~~~~-~v~p~~-G~~~~l~~F  232 (297)
T COG0559         155 LALLLGLWLLLRRTRLGRALRAVAENRKMAALLGINVERVIALTFALGGALAGLAGVLLAPIY-TVSPYM-GFLYGLKAF  232 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCCH-HHHHHHHHH
T ss_conf             999999999999837718898760489899880986899999999999999999999999873-679522-179999999


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCH
Q ss_conf             9887347422389999999999999999873122100001234442025899999999999998589965667402
Q gi|254780896|r  271 SIVILGGMTSLSKIAKATAILIGVVELCCGMNFYYFNSLLKFDCSFNMRHTTLMVIALFLVILMRSHSLLRLRTPS  346 (351)
Q Consensus       271 ~~vvlGG~gs~~Ga~lGa~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~lilvll~rP~Gl~g~r~~~  346 (351)
T Consensus       233 ~~~VlGGlgSi~GA~~gglliG~~e~~~~~------------~~~~~~~~~~v~f~lli~vLl~rP~GL~g~~~~~  296 (297)
T COG0559         233 AAVVLGGLGSIPGAVLGGLLLGLAESLVSA------------KYFGSEYKDVVAFLLLILVLLVRPQGLFGRKERE  296 (297)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHHHHHCC------------CCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf             986426756378999999999999998602------------3326679999999999999997477555755223