HHsearch alignment for GI: 254781179 and conserved domain: TIGR01369
>TIGR01369 CPSaseII_lrg carbamoyl-phosphate synthase, large subunit; InterPro: IPR006275 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates , . CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate . The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain . CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites . The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein . The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP . There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia . CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains . This entry represents glutamine-dependent CPSase (6.3.5.5 from EC) from prokaryotes and eukaryotes (CPSase II). ; GO: 0004086 carbamoyl-phosphate synthase activity, 0006807 nitrogen compound metabolic process.
Probab=99.97 E-value=1.1e-30 Score=216.85 Aligned_cols=269 Identities=17% Similarity=0.263 Sum_probs=209.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCEEEEECC---------CCCHHHHH------------HHCCCCEEEECCCCCCCCC
Q ss_conf 78712788999999999999987988999615---------86568888------------7539989999254884343
Q gi|254781179|r 7 GISSEREVSLSSGKACASALEDAGFKVSQIDV---------DRSVGLVL------------AHLKPDLAFNVLHGNFGED 65 (300)
Q Consensus 7 G~s~E~~iSl~S~~~i~~aL~~~g~~v~~id~---------~~~~~~~l------------~~~~~D~vf~~lhG~~gEd 65 (300)
T Consensus 587 GqgvEFD---Yc~Vh~~~aLr~~Gye~ImiN~NPETVSTDyD~sDrLYFEplt~E~Vm~I~e~E~~~GVIVq~GGQtp~n 663 (1089)
T TIGR01369 587 GQGVEFD---YCCVHAVLALREAGYETIMINYNPETVSTDYDTSDRLYFEPLTFEDVMNIIELEKPEGVIVQFGGQTPLN 663 (1089)
T ss_pred CCCEEEH---HHHHHHHHHHHHCCCEEEEEECCCCCCCCCHHHHHHCCCCCCCCCCCEEHEEECCCCEEEEECCCHHHHH
T ss_conf 6631205---6789999999872995999977899743666651011587635031001100058667999748732678
Q ss_pred CHHHHHHHHHH-HHCCCCCHHHHHHCCCCHHCCCCCCCCEEECCCEEEECCCCC--HHHHHCCCCEEEEECCCCCCCCEE
Q ss_conf 10235666432-100231002332036500100002121000012132022200--012210586256432477642114
Q gi|254781179|r 66 GLVQAILELLE-IPYTHSGILASALSMDKMRSKQVVSSCGVPVCPSILVNRFTM--DSQHLISPPYVIKPLKGGSSLGII 142 (300)
Q Consensus 66 g~iq~~le~~~-ipy~Gs~~~~~~l~~dK~~~k~~l~~~gIptp~~~~~~~~~~--~~~~~~~~P~ivKP~~ggsS~Gv~ 142 (300)
T Consensus 664 --lA~~L~~~GG~~iLGTS~~~ID~AEDR~kFs~~l~~Lgi~QP~~~~a~s~eea~~~A~~iGYPvlvRPSYVLgG~aM~ 741 (1089)
T TIGR01369 664 --LAKELEEAGGVPILGTSPESIDRAEDREKFSELLDELGIPQPEWKIATSVEEAKEFASEIGYPVLVRPSYVLGGRAME 741 (1089)
T ss_pred --HHHHHHHCCCCEEECCCHHHHHHHCCHHHHHHHHHHCCCCCCCCCEECCHHHHHHHHHHCCCCEEECCCCCCCCCCHH
T ss_conf --999999708931736885787513186799999971587989885272879999998546992898168300336210
Q ss_pred EECCHHHHHHHHHHHCCCCCCCCCCCCCCCC-CCEEEE-EECCCCCCCEEEE--CCCCCCCCCCCCCCCCCCCCCCCCC-
Q ss_conf 3259899999886300366885422333578-845788-7314444200220--2554333311000011222245865-
Q gi|254781179|r 143 VIKKDQSIPLDLLQSSSWNHGDQLLIEQYVD-GIELTC-GVMGDASLDVTEI--AVPKSDFYSYELKYSSLNSTHVLPA- 217 (300)
Q Consensus 143 ~v~~~~el~~~~~~~~~~~~~~~vlVEefI~-G~E~~v-~Vl~~~~~~~~ei--~~~~~~~~dy~~Ky~~~~~~~~~Pa- 217 (300)
T Consensus 742 iv~~~eeL~~yl~~a~~~S~~~PVlidky~e~A~E~dVD~v~Dg~~v~i~gI~EHiE~AGV-------HSGDs~~~~Pp~ 814 (1089)
T TIGR01369 742 IVYNEEELARYLEEAVEVSPEHPVLIDKYLEDAVEIDVDAVSDGEEVLIPGIMEHIEEAGV-------HSGDSTCVLPPQ 814 (1089)
T ss_pred EECCHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEEEEEEECCEEEEEEHHHHHHHCCC-------CCCCHHHCCCCC
T ss_conf 0267889999999999720899769888528888999989972884899623123421367-------613053117697
Q ss_pred CCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCC-CEEEEEEECCCCCCCHHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf 2116665544444445775348764579999997689-839999747265888223899999983999899999999
Q gi|254781179|r 218 KIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLS-RKVFWLEINVQPGMTPVSIFPEMAAYAGYSFRELLLWMV 293 (300)
Q Consensus 218 ~l~~~~~~~i~~~a~~~~~alg~~g~~rvDf~~d~~~-g~~~~lEvN~~PGlt~~s~~p~~~~~~G~s~~~li~~ii 293 (300)
T Consensus 815 ~L~~~~~~~i~~~~~~iA~~L~v~Gl~NiQf~~~--~E~~~yVIE~NpRA----SRtVPFvSKa~Gipl~~~A~~~~ 885 (1089)
T TIGR01369 815 TLSEDIVKRIKDIVRKIAKELNVKGLFNIQFVVK--DEGEVYVIEVNPRA----SRTVPFVSKATGIPLAKLAVRVM 885 (1089)
T ss_pred CCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEE--CCCCEEEEEECCCC----CCCCCCEEEECCCCHHHHHHHHH
T ss_conf 7788999999999999998706607222455561--69967999971742----06654132103788799999997