HHsearch alignment for GI: 255764509 and conserved domain: TIGR00533

>TIGR00533 HMG_CoA_R_NADP 3-hydroxy-3-methylglutaryl Coenzyme A reductase; InterPro: IPR004554 Synonym(s): 3-hydroxy-3-methylglutaryl-coenzyme A reductase, HMG-CoA reductase. There are two distinct classes of hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase enzymes: class I consists of eukaryotic and most archaeal enzymes (1.1.1.34 from EC), while class II consists of prokaryotic enzymes (1.1.1.88 from EC) , . Class I HMG-CoA reductases catalyse the NADP-dependent synthesis of mevalonate from 3-hydroxy-3-methylglutaryl-CoA (HMG-CoA). In vertebrates, membrane-bound HMG-CoA reductase is the rate-limiting enzyme in the biosynthesis of cholesterol and other isoprenoids. In plants, mevalonate is the precursor of all isoprenoid compounds . The reduction of HMG-CoA to mevalonate is regulated by feedback inhibition by sterols and non-sterol metabolites derived from mevalonate, including cholesterol. In archaea, HMG-CoA reductase is a cytoplasmic enzyme involved in the biosynthesis of the isoprenoids side chains of lipids . Class I HMG-CoA reductases consist of an N-terminal membrane domain (lacking in archaeal enzymes), and a C-terminal catalytic region. The catalytic region can be subdivided into three domains: an N-domain (N-terminal), a large L-domain, and a small S-domain (inserted within the L-domain). The L-domain binds the substrate, while the S-domain binds NADP. Class II HMG-CoA reductases catalyse the reverse reaction of class I enzymes, namely the NAD-dependent synthesis of HMG-CoA from mevalonate and CoA . Some bacteria, such as Pseudomonas mevalonii, can use mevalonate as the sole carbon source. Class II enzymes lack a membrane domain. Their catalytic region is structurally related to that of class I enzymes, but it consists of only two domains: a large L-domain and a small S-domain (inserted within the L-domain). As with class I enzymes, the L-domain binds substrate, but the S-domain binds NAD (instead of NADP in class I). This entry represents the catalytic region found in class I HMG-CoA reductase enzymes (the eukaryotic enzymes contain an extra N-terminal domain not represented by this entry). ; GO: 0004420 hydroxymethylglutaryl-CoA reductase (NADPH) activity, 0050661 NADP binding, 0008299 isoprenoid biosynthetic process, 0016021 integral to membrane.
Probab=100.00  E-value=0  Score=672.67  Aligned_cols=342  Identities=38%  Similarity=0.583  Sum_probs=329.0

Q ss_pred             CCCCEEEEEEEEEEECCEEECCCCCCCCEEEEEEEHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCEEEEEEEEECCHHH
Q ss_conf             76410378611276037567651367747886530345389999899999995599889999679224125998589778
Q gi|255764509|r    2 HMKKVSSISMPMRWIGPMKITGNVIQDKVKVPLATYEYPLWHSVKRGAHISMLCPDGIRATLIDERMTRSIFFETENAEM   81 (351)
Q Consensus         2 ~en~IG~~~lPlGia~~l~InG~~a~~~y~VPMATeE~SvVAAas~gak~~~~~sGG~~t~~~~~~m~r~~~f~~~~~~~   81 (351)
T Consensus        68 ~EN~IG~~~iPlGv~GPL~i~Ge~a~~~yyiPlATtEGaLVAS~~RGC~~-I~~~GGAT~~~~~D~MTRaPv~r~~~~~~  146 (419)
T TIGR00533        68 IENVIGVVQIPLGVAGPLKIDGEYADGEYYIPLATTEGALVASVNRGCSV-ITKGGGATVRVTKDGMTRAPVVRTKSVVE  146 (419)
T ss_pred             CCCCCCEEECCCCEECCCEEECEECCCCEEECCCCCCHHHHHHHHHHHHH-HHCCCCCEEEEECCCCCCCCEECCHHHHH
T ss_conf             34534326257302345157120116515621211230677765432577-63689816998648743354231078998


Q ss_pred             HHHHHHHHH--HHHHHHHHHHHHCCCCEEEEEEE-EEEECCEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCC--C
Q ss_conf             999997617--50999999973015780478888-787388699999997320067215889999999999986798--1
Q gi|255764509|r   82 ALTALQEIT--LKKAEIARVIEQTSQFTRFLQLH-SQIAGNLLFLRLEFATGDASGHNMVTKAADAVMDWILSQWSY--L  156 (351)
Q Consensus        82 a~~~~~~i~--~~~~~i~~~a~~~sr~ggl~~i~-~~~~g~~v~l~~~~dt~DAMGaNmvnt~~E~v~~~i~~~~~~--~  156 (351)
T Consensus       147 a~~~~~W~~seE~~~~ik~~~~ST~R~~~L~~I~P~~~aG~~ly~RF~~~TGDaMGMNMv~~a~E~al~~~~~E~~~E~~  226 (419)
T TIGR00533       147 ALKVREWIDSEENQNAIKEAAESTTRHGKLVKIEPILLAGDLLYPRFVTTTGDAMGMNMVTIATEKALKLLVEELGKEGI  226 (419)
T ss_pred             HHHHHHHHHCCCCHHHHHHHHCCCCCCEEEEEECCEEEECCCCCCCEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             99877764011356899987403121004466340788556300010121575322257789999999999985133770


Q ss_pred             EE--EEECCCCCHHHHHHHHHHCCCCCCEEEEEEEECHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHHHCCCCCHHHH
Q ss_conf             48--9734774312333554310377207999987569999757389999999887866565542200220216216677
Q gi|255764509|r  157 HY--GSVSGNICSDKKATAINGIMGRGKNFVAEITINRAICQKYLRTSPEKIILLNTQKNLIGTFLAGGIRSANAHFANM  234 (351)
Q Consensus       157 ~~--~~ilsN~~tdkk~s~~n~~~~rG~~V~Ae~~i~~~~~~~~l~~~~e~~~~~~~~~~~~a~~~~~~a~t~NkgimNg  234 (351)
T Consensus       227 ~V~~vavSGN~C~DKKPaa~NlIeGRGKSivAE~~~pg~~V~~~LK~~~~A~vE~N~~KNliGSA~agS~GGFNAH~AN~  306 (419)
T TIGR00533       227 EVKTVAVSGNLCTDKKPAAINLIEGRGKSIVAEVTIPGDVVEKVLKTTVSALVEVNIAKNLIGSAIAGSMGGFNAHYANI  306 (419)
T ss_pred             EEEEEEEECCCCCCCCCCCCCEECCCCCEEEEEEEECHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             79999863365647772212134178844899887365788766337678877657651035665530333056779999


Q ss_pred             HHHHHHHCCCCHHHHHHHCCCEEEEEE-ECCEEEEEEEECCEEEEEECCCCCCHHHHHHHHHHCCCCCC--CCCCCHHHH
Q ss_conf             888887627637888864032025687-28908999980564677306644688899999860868778--877698899
Q gi|255764509|r  235 LLAYYLATGQDAANIVEGSQGLTYAKL-HDDSLYFSCTIPNLILGCVGNGKNIPAIKNNLTALGCIEER--KTGDNARRL  311 (351)
Q Consensus       235 I~Av~lATGnD~a~v~a~~~a~t~~~~-~~~~L~g~i~lPsl~vGtVGG~t~lp~~~~~l~ilg~~~~~--~~~~~A~~L  311 (351)
T Consensus       307 i~A~FLA~GQD~A~~VE~S~giT~~~~E~~GDL~~sV~lP~v~~gTvGGGT~lE~~~~~Ld~lGv~Gph~t~pg~~a~~~  386 (419)
T TIGR00533       307 IGAIFLATGQDEAHIVEGSLGITLAEVEVDGDLYFSVSLPDVPVGTVGGGTVLETQGECLDLLGVRGPHATEPGNKARKL  386 (419)
T ss_pred             HHHHHHHCCCCCHHEECCCCCEEEEEEECCCCEEEEEECCCCEEEEECCCCCCCCHHHHHHHHCCCCCCCCCCCHHHHHH
T ss_conf             99998741897012020122246554512784689987586102420698740525688886056789888865789999


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCC
Q ss_conf             9999999988899999988078868999987260
Q gi|255764509|r  312 AAICAATVLCGELSLLAAQTNPGELMEAHLRLER  345 (351)
Q Consensus       312 a~iiAavgLAqnlaal~Al~t~G~iq~gHmkl~R  345 (351)
T Consensus       387 A~Iv~~AVLAGELSL~~ALAA-GHL~~aH~~~~R  419 (419)
T TIGR00533       387 AEIVGAAVLAGELSLLGALAA-GHLVKAHSELGR  419 (419)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHCC
T ss_conf             999999988878999999875-478886663169