HHsearch alignment for GI: 254780299 and conserved domain: cd01157

>cd01157 MCAD Medium chain acyl-CoA dehydrogenase (MCAD). MCADs are mitochondrial beta-oxidation enzymes, which catalyze the alpha,beta dehydrogenation of the corresponding medium chain acyl-CoA by FAD, which becomes reduced. The reduced form of MCAD 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. MCAD is a homotetramer.
Probab=100.00  E-value=0  Score=472.97  Aligned_cols=344  Identities=18%  Similarity=0.206  Sum_probs=296.1

Q ss_pred             HCCCEECCCCCCCCCCCEEECCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHH
Q ss_conf             36984620179985213656688999999999967962033776666444763799999999983014453122135677
Q gi|254780299|r   79 YNTPQLHAYGPGGERWDKVEFHPAWHALLRRSIHDGLHCSIWDRSFEPVVRKQAHKIRAARLYLMAQLEAGHLMSPSVTS  158 (562)
Q Consensus        79 ~~~P~l~~~d~~G~r~d~v~~~p~~~~l~~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~g~~cp~~mt~  158 (562)
T Consensus        19 ~i~p~a~~~d~~~------~~p~---~~~~~l~e~Gl~~~~vPee~GG~G~~--~~~~~~v~eela~~~~~~~~~~~~~~   87 (378)
T cd01157          19 EIIPVAAEYDKSG------EYPW---PLIKRAWELGLMNTHIPEDCGGLGLG--TFDTCLITEELAYGCTGVQTAIEANS   87 (378)
T ss_pred             HCHHHHHHHHHCC------CCCH---HHHHHHHHCCCCCCCCCHHHCCCCCC--HHHHHHHHHHHHHHCCCCCCCCHHHH
T ss_conf             5826599998639------9999---99999997789878998534999999--99999999999751865331012779


Q ss_pred             H-HHHHH-HCCHHHHHHHHHHHCCCCCCHHHCCCCCCCCCEEEEECCCCCCCCCHHHCCEEEEECCCCEEEECCEEEEEE
Q ss_conf             8-99998-508788987301200100054426600155212355445888887866543027864896689845146863
Q gi|254780299|r  159 A-SMVAL-MTTPRVHKDWAPKIFSREYDPTNKAPMQKTSVAIGLGLTEKRGGTDIAAITSQGQKISDGIYCLSGHKWFLS  236 (562)
Q Consensus       159 ~-a~~~L-~~~~e~~~~~lp~l~s~~~~~~~~~~~~k~g~~~~~~lTEp~~GSDv~~~~T~A~~~gdg~y~LnG~Kwf~s  236 (562)
T Consensus        88 l~~~~l~~~g~~~qk~~~L~~l~~G~-------------~~~~~a~tEp~~Gsd~~~~~t~a~~~gd~-~~lnG~K~~vt  153 (378)
T cd01157          88 LGQMPVIISGNDEQKKKYLGRMTEEP-------------LMCAYCVTEPGAGSDVAGIKTKAEKKGDE-YIINGQKMWIT  153 (378)
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHCCC-------------CEEEEEECCCCCCCCCCCCCCEEEEECCE-EEEEEEEECCC
T ss_conf             99999998499999999879984898-------------51798743788777644572279996898-99902774345


Q ss_pred             -CCCCCEEEEEEECC--------CCCEEEEEECCCCCCCCCCEEEEEECCCCCCCCCCEEEEEECCEEE---EEECCCCC
Q ss_conf             -42115799970469--------9617999877589884034788630475545657727999869075---30077765
Q gi|254780299|r  237 -SPMSDAFIMLAQVE--------GRVGCFLVPRLLEDGSPNGLCYQRLKNKIGNRSNATVELEFSNTFG---FLLGDLNV  304 (562)
Q Consensus       237 -a~~ad~~lVlArt~--------~Gls~FlVp~~~pgg~~n~v~i~r~~~klG~r~~~t~ei~f~~~~~---~llG~~g~  304 (562)
T Consensus       154 ~a~~Ad~~~v~ar~~~~~~~~~~~~~~~flV~~~~pG-----v~~~~~~~~~G~r~~~~~~v~f~dv~vp~~~~lg~~g~  228 (378)
T cd01157         154 NGGKANWYFLLARSDPDPKCPASKAFTGFIVEADTPG-----IQPGRKELNMGQRCSDTRGITFEDVRVPKENVLIGEGA  228 (378)
T ss_pred             CCCCCCEEEEEEEECCCCCCCCCCEEEEEEECCCCCC-----CCCCCCCCCCCCCCCCCCEEEEEEECCCCHHCCCCCCC
T ss_conf             5666762479988468876677760699996367888-----75455002336544674227898641570303678764


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             79999997301333579999999999999999998404622242353888899999999999999999999998872011
Q gi|254780299|r  305 STGPVEDMKILIYLDSAIMSVSGMRVSLAEAIHYARRRHVSGGILIDQPVMKRAIADIALDIAAATALSFRLANSFDEAK  384 (562)
Q Consensus       305 G~~~i~~~l~~~Rl~~a~~~~G~ar~al~~A~~yA~~R~~fG~~L~~~p~v~~~LAdm~~~~eaa~~l~~~~A~~~D~~~  384 (562)
T Consensus       229 g~~~~~~~l~~~r~~~aa~~~G~a~~~l~~a~~ya~~R~~fG~pi~~~q~vq~~lad~~~~le~ar~l~~~aa~~~d~g~  308 (378)
T cd01157         229 GFKIAMGAFDKTRPPVAAGAVGLAQRALDEATKYALERKTFGKLIAEHQAVSFMLADMAMKVELARLAYQRAAWEVDSGR  308 (378)
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             58998761068899887877889999999988877767643977442999999999999999999999999999997899


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHCCHHHHHCCCCHHHHHHHHHHHHC
Q ss_conf             103677765567999999999999999956998852130004551889850012232204622278999999831
Q gi|254780299|r  385 SRSEEAAYARIMAPITKYWCCKMAPAVIAEAMECIGGSGYIEERSIARHYRESPANSILLGSGNAMVLDVLNLLE  459 (562)
Q Consensus       385 ~~~~~~a~arl~t~iaK~~~~e~a~~v~~~Aiqi~GG~Gy~ee~~leRl~RDA~v~~I~EGt~~I~aldv~r~l~  459 (562)
T Consensus       309 ~~~-------~~~a~aK~~a~e~a~~v~~~a~q~~Gg~G~~~e~~l~r~~Rdar~~~i~~Gt~ei~r~~iar~ll  376 (378)
T cd01157         309 RNT-------YYASIAKAFAADIANQLATDAVQIFGGNGFNSEYPVEKLMRDAKIYQIYEGTSQIQRLIISREHL  376 (378)
T ss_pred             CCH-------HHHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             972-------89999999999999999999999817501066668999998625560606789999999999985