HHsearch alignment for GI: 254780489 and conserved domain: TIGR01835

>TIGR01835 HMG-CoA-S_prok hydroxymethylglutaryl-CoA synthase; InterPro: IPR011554 Synonym(s): 3-hydroxy-3-methylglutaryl-coenzyme A synthase, HMG-CoA synthase. Hydroxymethylglutaryl-CoA synthase (2.3.3.10 from EC) catalyses the condensation of acetyl-CoA with acetoacetyl-CoA to produce HMG-CoA and CoA, the second reaction in the mevalonate-dependent isoprenoid biosynthesis pathway. HMG-CoA synthase contains an important catalytic cysteine residue that acts as a nucleophile in the first step of the reaction: the acetylation of the enzyme by acetyl-CoA (its first substrate) to produce an acetyl-enzyme thioester, releasing the reduced coenzyme A. The subsequent nucleophilic attack on acetoacetyl-CoA (its second substrate) leads to the formation of HMG-CoA . HMG-CoA synthase occurs in eukaryotes, archaea and certain bacteria . In vertebrates, there are two isozymes located in different subcellular compartments: a cytosolic form that is the starting point of the mevalonate pathway (leads to cholesterol and other sterolic and isoprenoid compounds), and a mitochondrial form responsible for ketone body biosynthesis. HMG-CoA is also found in other eukaryotes such as insects, plants and fungi . In bacteria, isoprenoid precursors are generally synthesised via an alternative, non-mevalonate pathway, however a number of Gram-positive pathogens utilise a mevalonate pathway involving HMG-CoA synthase that is parallel to that found in eukaryotes , . This entry represents HMG-CoA synthase enzymes found in a limited spectrum of mostly Gram-positive bacteria, which make isopentenyl pyrophosphate (IPP) via the mevalonate pathway..
Probab=99.96  E-value=5.2e-30  Score=216.00  Aligned_cols=297  Identities=18%  Similarity=0.193  Sum_probs=229.6

Q ss_pred             EEEEEEEECCCCCCCHHHHHH-----HHCCCHHHEEECCC---CCEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCCCCE
Q ss_conf             999999735886138889998-----80999768311147---5088994898879999999999986430132223442
Q gi|254780489|r    7 CILGFGHAVPNQCIHNSIIER-----HLNLKLGVIEQKTG---IKYRYWAEKHETLTDIAIQAGDIALRNANIKKDSISL   78 (325)
Q Consensus         7 ~I~g~g~~lP~~~i~n~~l~~-----~~~~~~~~i~~~tG---I~~R~~~~~~e~~~~la~~Aa~~aL~~a~~~~~dId~   78 (325)
T Consensus         2 GI~~I~F~~p~~yl~~~~LAEnPLYF~~gv~p~K~~~GIgatLQ~~~~~~~~~eDiVTmAA~Aa~~Il~~~nLd~~~Id~   81 (412)
T TIGR01835         2 GIDKISFFTPQYYLDLTALAENPLYFARGVDPEKFSKGIGATLQKKMAVPPIDEDIVTMAASAAKPILDRNNLDKQKIDM   81 (412)
T ss_pred             CCCHHHHHCCCCCCCHHHHHHCCHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCE
T ss_conf             70112344030003535663041145417664357577436777650689788645788999999743242068442347


Q ss_pred             EEEEEEEECCCCCCCCCCCCCCCCCC-CCC-----CCCCCCCCCCCHHHHHHHHHHHHCC-C-CEEEEEEECCCCCCCCC
Q ss_conf             58843100236887432211210023-863-----3342101231012567657887438-8-50588620122444462
Q gi|254780489|r   79 TLLATSTPDHLLPPSSPLITHRLGLM-QSG-----AIDLTGACAGFLYALVMADSYINSH-Q-KPVLIIAANLLSRRINL  150 (325)
Q Consensus        79 ii~~s~t~d~~~P~~a~~v~~~Lg~~-~~~-----~~di~~~C~g~l~aL~~A~~~i~~g-~-~~vLVv~~e~~S~~~d~  150 (325)
T Consensus        82 Vi~gTESgID~SKAaavyvh~LLgl~p~cRGnnFL~~ElK~ACYGATAaLq~A~~hv~~~P~s~kVLViaSDiAkY~~~t  161 (412)
T TIGR01835        82 VIFGTESGIDQSKAAAVYVHGLLGLQPFCRGNNFLSFELKQACYGATAALQMAKGHVARSPNSRKVLVIASDIAKYGLET  161 (412)
T ss_pred             EEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEEECCCCC
T ss_conf             89751052668999999999982778431045422432777779999999999999851888660168886311227798


Q ss_pred             CCCCCCCCCCCCEEEEEECCCCCCCCCCCEEEEEEECCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCH
Q ss_conf             22443432544200112205765444531135532136776527830698667654455655232245145434320100
Q gi|254780489|r  151 EDKDTAIIFGDAAGAVVLAPSPLKDKSGILGIELTSDGSKYDLIKIPTGGSTSPAGTNTHDFYMRITNGADIFYNAVKIM  230 (325)
Q Consensus       151 ~d~~~~~lfGDgA~A~il~~~~~~~~~~il~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~v~~~~~~~~  230 (325)
T Consensus       162 ~GE~---TQGAGAVA~Li~~dP~-----~l~i~~~~~G----~~T~DimDFWRP~y~~~-----a~VdG~~S~~~Yl~a~  224 (412)
T TIGR01835       162 PGEA---TQGAGAVAMLISADPK-----LLAINEDSVG----LYTDDIMDFWRPNYSTT-----ALVDGQYSTEQYLNAL  224 (412)
T ss_pred             CCCC---CHHHHHHHHHHHCCCH-----HHHCCCCCCC----EECCCCCCCCCCCCCCC-----CEECCCHHHHHHHHHH
T ss_conf             9886---1668999998741801-----2001587653----12133121217898855-----3164604688999999


Q ss_pred             HHHHHHHHHHHCCCCCCCCE---EEECCCCCHHHH-HHHHHC---CCCHH--HH-------HHHHH------HCCCCCCC
Q ss_conf             36789889974012001224---630565413899-999971---97865--70-------02185------40933000
Q gi|254780489|r  231 AQSAKQSLRKSDLQPQDINR---FIPHQANSRIIQ-KVCEKI---GLSKR--IM-------VNSLK------DFGNSSSA  288 (325)
Q Consensus       231 ~~~i~~~l~~~gl~~~did~---~i~Hq~~~~~~~-~~~~~l---gi~~~--~~-------~~~l~------~~GN~~sA  288 (325)
T Consensus       225 ~~aW~dy~~~~~~~l~DfaanYR~~fH~PftKMg~Ka~~~~l~~~~~~~~k~~~~~~y~~Si~Y~~Gveaam~vGN~YTG  304 (412)
T TIGR01835       225 EEAWNDYKERTGLSLEDFAANYRFCFHVPFTKMGLKALRHILKKNKEDEDKDSVQKAYEESILYNRGVEAAMEVGNLYTG  304 (412)
T ss_pred             HHHHHHHHHHCCCCHHHHHCCCCEEEECCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
T ss_conf             99999999723897567531571787078742037999998740478126899999875336785234433330541378


Q ss_pred             HHHHHHHHHHHHC---CCCCCCEEEEEEECCCCCC
Q ss_conf             5999999999806---7899989999986155102
Q gi|254780489|r  289 SIPLSLSLENQRK---PFQKGEKILTISCRRGNDR  320 (325)
Q Consensus       289 si~~~L~~~~~~g---~i~~Gd~vll~~~G~G~s~  320 (325)
T Consensus       305 SlyLgL~sLLena~sk~d~tG~~Igl~SYGSGava  339 (412)
T TIGR01835       305 SLYLGLASLLENAQSKEDLTGDKIGLFSYGSGAVA  339 (412)
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCEEEEEECCCCCEE
T ss_conf             89999999863036644313111110012522011