HHsearch alignment for GI: 254780299 and conserved domain: cd00567

>cd00567 ACAD Acyl-CoA dehydrogenase (ACAD). Both mitochondrial acyl-CoA dehydrogenases (ACAD) and peroxisomal acyl-CoA oxidases (AXO) catalyze the alpha,beta dehydrogenation of the corresponding trans-enoyl-CoA by FAD, which becomes reduced. The reduced form of ACAD is reoxidized in the oxidative half-reaction by electron-transferring flavoprotein (ETF), from which the electrons are transferred to the mitochondrial respiratory chain coupled with ATP synthesis. In contrast, AXO catalyzes a different oxidative half-reaction, in which the reduced FAD is reoxidized by molecular oxygen. The ACAD family includes the eukaryotic beta-oxidation enzymes, short (SCAD), medium (MCAD), long (LCAD) and very-long (VLCAD) chain acyl-CoA dehydrogenases. These enzymes all share high sequence similarity, but differ in their substrate specificities. The ACAD family also includes amino acid catabolism enzymes such as Isovaleryl-CoA dehydrogenase (IVD), short/branched chain acyl-CoA dehydrogenases(SBCAD
Probab=100.00  E-value=0  Score=401.52  Aligned_cols=324  Identities=27%  Similarity=0.317  Sum_probs=283.1

Q ss_pred             HHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHH--CCHHHHHHHHHHHCCCC
Q ss_conf             9999999679620337766664447637999999999830144531221356778999985--08788987301200100
Q gi|254780299|r  105 ALLRRSIHDGLHCSIWDRSFEPVVRKQAHKIRAARLYLMAQLEAGHLMSPSVTSASMVALM--TTPRVHKDWAPKIFSRE  182 (562)
Q Consensus       105 ~l~~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~g~~cp~~mt~~a~~~L~--~~~e~~~~~lp~l~s~~  182 (562)
T Consensus        34 ~~~~~l~~~Gl~~~~~p~~~GG~~~~~--~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~~~l~~~~~g~  110 (369)
T cd00567          34 ELLAELGLLGLLGPTVPGGYGGGGLDL--L-ELAIEEELARADAAAALLLLGTLLGAALLLAYGTEEQKERYLPPLASGE  110 (369)
T ss_pred             HHHHHHHHCCCCCCCCCCCCCCCCCCH--H-HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCCC
T ss_conf             999999984899679861249998469--9-9999999977674069999999999999998399999999989984899


Q ss_pred             CCHHHCCCCCCCCCEEEEECCCCCCCCCHHHCCEEEEECCCCEEEECCEEEEEEC-CCCCEEEEEEECCC------CCEE
Q ss_conf             0544266001552123554458888878665430278648966898451468634-21157999704699------6179
Q gi|254780299|r  183 YDPTNKAPMQKTSVAIGLGLTEKRGGTDIAAITSQGQKISDGIYCLSGHKWFLSS-PMSDAFIMLAQVEG------RVGC  255 (562)
Q Consensus       183 ~~~~~~~~~~k~g~~~~~~lTEp~~GSDv~~~~T~A~~~gdg~y~LnG~Kwf~sa-~~ad~~lVlArt~~------Gls~  255 (562)
T Consensus       111 -------------~~~~~a~sE~~~g~~~~~~~t~a~~~~gg-~~l~G~k~~~s~~~~ad~~~v~a~~~~~~~~~~~~~~  176 (369)
T cd00567         111 -------------AIAAFALTEPGAGSDLAGIRTTARKDGDG-YVLNGRKIFISNGGDADLFIVLARTDEEGPGHRGISA  176 (369)
T ss_pred             -------------EEEEEEECCCCCCCCCCCEEEEEEEECCE-EEEEEEEEEECCCCCCCCCEEEEEECCCCCCCCCEEE
T ss_conf             -------------38999725898788855414699997998-9999999986220026751688751687678885689


Q ss_pred             EEEECCCCCCCCCCEEEEEECCCCCCCCCCEEEEEECCEEE---EEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99877589884034788630475545657727999869075---300777657999999730133357999999999999
Q gi|254780299|r  256 FLVPRLLEDGSPNGLCYQRLKNKIGNRSNATVELEFSNTFG---FLLGDLNVSTGPVEDMKILIYLDSAIMSVSGMRVSL  332 (562)
Q Consensus       256 FlVp~~~pgg~~n~v~i~r~~~klG~r~~~t~ei~f~~~~~---~llG~~g~G~~~i~~~l~~~Rl~~a~~~~G~ar~al  332 (562)
T Consensus       177 ~lv~~~~~g-----v~~~~~~~~~G~r~t~s~~v~~~~v~Vp~~~~l~~~~~~~~~~~~~~~~~~~~~aa~~lG~a~~al  251 (369)
T cd00567         177 FLVPADTPG-----VTVGRIWDKMGMRGSGTGELVFDDVRVPEDNLLGEEGGGFELAMKGLNVGRLLLAAVALGAARAAL  251 (369)
T ss_pred             EEEECCCCC-----EEEEECCCCCCCCCCCCCCCEECCEEECHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999516896-----688631355677654444211056787636503641037999998557779999999987778769


Q ss_pred             HHHHHHHHHCCCCCCCHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999984046222423538888999999999999999999999988720111036777655679999999999999999
Q gi|254780299|r  333 AEAIHYARRRHVSGGILIDQPVMKRAIADIALDIAAATALSFRLANSFDEAKSRSEEAAYARIMAPITKYWCCKMAPAVI  412 (562)
Q Consensus       333 ~~A~~yA~~R~~fG~~L~~~p~v~~~LAdm~~~~eaa~~l~~~~A~~~D~~~~~~~~~a~arl~t~iaK~~~~e~a~~v~  412 (562)
T Consensus       252 ~~~~~~~~~R~~~g~~l~~~~~v~~~la~~~~~~~~a~~~~~~aa~~~d~~~~~------~~~~~~~aK~~a~~~a~~~~  325 (369)
T cd00567         252 DEAVEYAKQRKQFGKPLAEFQAVQFKLADMAAELEAARLLLYRAAWLLDQGPDE------ARLEAAMAKLFATEAAREVA  325 (369)
T ss_pred             HHHHHHHHHCCCCCCCHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHHHHHHHH
T ss_conf             999999873523797044099999999999999999999999999999779986------47999999999999999999


Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHHCCHHHHHCCCCHHHHHHHHHH
Q ss_conf             56998852130004551889850012232204622278999999
Q gi|254780299|r  413 AEAMECIGGSGYIEERSIARHYRESPANSILLGSGNAMVLDVLN  456 (562)
Q Consensus       413 ~~Aiqi~GG~Gy~ee~~leRl~RDA~v~~I~EGt~~I~aldv~r  456 (562)
T Consensus       326 ~~~~~~~Gg~g~~~~~~l~r~~Rdar~~~~~~G~~~~~~~~~~~  369 (369)
T cd00567         326 DLAMQIHGGRGYSREYPVERYLRDARAARIAEGTAEIQRLIIAR  369 (369)
T ss_pred             HHHHHHHCHHHHCCCCHHHHHHHHHHCCEECCCHHHHHHHHHCC
T ss_conf             99999728787666868999999863151516889999998677