HHsearch alignment for GI: 254780971 and conserved domain: cd01744
>cd01744 GATase1_CPSase Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II. This group of sequences represents the small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II. CPSase II catalyzes the production of carbomyl phosphate (CP) from bicarbonate, glutamine and two molecules of MgATP. The reaction is believed to proceed by a series of four biochemical reactions involving a minimum of three discrete highly reactive intermediates. The synthesis of CP is critical for the initiation of two separate biosynthetic pathways. In one CP is coupled to aspartate, its carbon and nitrogen nuclei ultimately incorporated into the aromatic moieties of pyrimidine nucleotides. In the second pathway CP is condensed with ornithine at the start of the urea cycle and is utilized for the detoxification of ammonia and biosynthesis of arginine. CPSases may be encoded by one or by several genes, depending on the species. The E.coli enzyme is
Probab=99.22 E-value=1.6e-10 Score=88.15 Aligned_cols=174 Identities=19% Similarity=0.222 Sum_probs=96.9
Q ss_pred EEEEECCCCCCHHHHHHHHHHHCCCCEEEEECCC----CCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHC
Q ss_conf 8998449706479999999985499639982154----644564789972873454311406775200212122332205
Q gi|254780971|r 3 TAIVQIPGLNRDNDMIKAITKIIGQSPILVWQSD----TDIPDVDLIVIPGGFSYGDYLRCGAIAARTPVMQAIKKKAQQ 78 (219)
Q Consensus 3 vaVl~~pGsNcd~e~~~A~~~~~~~~~~~v~~~~----~~l~~~d~lvipGGFSygD~l~aG~i~~~~~~~~~i~~~~~~ 78 (219)
T Consensus 1 i~ilDfGs---qy~i~r~lrel-g~~~~v~~~~~~~~~i~~~~p~giIlS~GP--g~p~------~~~~~~~~~~~~~~~ 68 (178)
T cd01744 1 VVVIDFGV---KHNILRELLKR-GCEVTVVPYNTDAEEILKLDPDGIFLSNGP--GDPA------LLDEAIKTVRKLLGK 68 (178)
T ss_pred CEEEECCC---HHHHHHHHHHC-CCEEEEEECCCCHHHHHHCCCCEEEECCCC--CCHH------HHCCHHHHHHHHHHC
T ss_conf 99998874---99999999987-997999939899999984199979989999--9957------734449999999746
Q ss_pred CCEEEEECCCHHHHEECCCHHHHHCCCCCCCEEEEEEEEEECCCHHHHHHHCCCCCEEEEEEECCCEEEEECHHHHHHHH
Q ss_conf 97178606403101000001011012443324542257675252357764137996899862013302330867741154
Q gi|254780971|r 79 GIKVMGICNGFQILVELNLLPGILMRNCSLKFVCKQVLLEVVNSNTAFTKSYKMNQIIKCPVAHHDGNYFIDAKGLAEIE 158 (219)
Q Consensus 79 g~~vLGICNGfQiL~elGLlPg~l~~N~s~rf~~r~~~~~v~~~~s~~~~~~~~~~~l~~piaHgEGrf~~~~~~l~~l~ 158 (219)
T Consensus 69 ~iPILGIClG~Q~ia~~--~Gg~v~k~~~g~~G~----------n~pv~~~-~~~~~~~~~~~H~~---~v~~~---~lp 129 (178)
T cd01744 69 KIPIFGICLGHQLLALA--LGAKTYKMKFGHRGS----------NHPVKDL-ITGRVYITSQNHGY---AVDPD---SLP 129 (178)
T ss_pred CCCEEEECHHHHHHHHH--CCCCCCCCCCCCCCC----------CCCCEEC-CCCCEEEEECCCCE---EEEEC---CCC
T ss_conf 99889981217889988--198300156672478----------7121676-88838886447554---87624---589
Q ss_pred HCCEEEEECCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHC
Q ss_conf 225036531688888988112668886999899984884343221006776289998642
Q gi|254780971|r 159 KNNQIVFRYASGTNPNGSLHDIAGVINRRGNVLGMMPHPENIIEKFHGGIDGRGLFASLL 218 (219)
Q Consensus 159 ~~~~i~~~Y~d~~NPNGS~~~IAgi~s~~G~vlgmMPHPER~~~~~~~~~dG~~~f~~~~ 218 (219)
T Consensus 130 ~~~~v~a-~----s~~--d~~i~ai~h~~~~i~GVQFHPEs~----~~~~~~~~if~nFl 178 (178)
T cd01744 130 GGLEVTH-V----NLN--DGTVEGIRHKDLPVFSVQFHPEAS----PGPHDTEYLFDEFL 178 (178)
T ss_pred CCCEEEE-E----CCC--CCCEEEEEECCCCEEEEEECCCCC----CCCCCCHHHHHHHC
T ss_conf 9857999-6----489--985799998999999998599799----99977489897239