HHsearch alignment for GI: 254780158 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=100.00 E-value=2.9e-34 Score=250.52 Aligned_cols=293 Identities=15% Similarity=0.230 Sum_probs=245.1
Q ss_pred CCEEEEECCC-----HH------HHHHHHHHHHCCCEEEEEECCCCCCHHHC--CCEEEECCCCCHHHHHHHH--HHCCE
Q ss_conf 8789998098-----98------99999999887978999967677713422--6827987899999999997--41999
Q gi|254780158|r 3 KKTIGIIGGG-----QL------ARMLSMSAARLGFCTVILDPDSNCPANQV--SNQQIAARHDDIKALNTFA--DICDY 67 (354)
Q Consensus 3 ~k~IgIlG~G-----qL------~rml~~aA~~lG~~v~v~d~~~~~pa~~~--ad~~~~~~~~D~~~l~~~~--~~~Dv 67 (354)
T Consensus 573 Kk~~lvlGSGp~RIGqgvEFDYc~Vh~~~aLr~~Gye~ImiN~NPETVSTDyD~sDrLYFEplt-~E~Vm~I~e~E~~~G 651 (1089)
T TIGR01369 573 KKKVLVLGSGPNRIGQGVEFDYCCVHAVLALREAGYETIMINYNPETVSTDYDTSDRLYFEPLT-FEDVMNIIELEKPEG 651 (1089)
T ss_pred CCEEEEECCCCEECCCCEEEHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCHHHHHHCCCCCCC-CCCCEEHEEECCCCE
T ss_conf 8568998784514066312056789999999872995999977899743666651011587635-031001100058667
Q ss_pred EEECC-CCCCHHHHHHHH-HC-CCCC-CCHHHHHHHHCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCEEEEEC
Q ss_conf 99877-222113334443-02-0034-87677876315278888876505886743210006888864100131255402
Q gi|254780158|r 68 ATYES-ENIPEKSISYLS-TL-LPTY-PSSRAIEISQDRLYEKKFFQESGLTTVDFYEINSQESLTNILGGFKGKGILKT 143 (354)
Q Consensus 68 it~E~-E~i~~~~l~~l~-~~-~~v~-P~~~al~~~~dK~~~K~~l~~~gipt~~~~~v~s~~el~~~~~~~g~P~vlKp 143 (354)
T Consensus 652 VIVq~GGQtp~nlA~~L~~~GG~~iLGTS~~~ID~AEDR~kFs~~l~~Lgi~QP~~~~a~s~eea~~~A~~iGYPvlvRP 731 (1089)
T TIGR01369 652 VIVQFGGQTPLNLAKELEEAGGVPILGTSPESIDRAEDREKFSELLDELGIPQPEWKIATSVEEAKEFASEIGYPVLVRP 731 (1089)
T ss_pred EEEECCCHHHHHHHHHHHHCCCCEEECCCHHHHHHHCCHHHHHHHHHHCCCCCCCCCEECCHHHHHHHHHHCCCCEEECC
T ss_conf 99974873267899999970893173688578751318679999997158798988527287999999854699289816
Q ss_pred CC-CCCCCCCCCCCCCHHHHHHHHHHC----CCCCEEHHHCCCCCCCCCCEECCCCCCCEEEEECCCCCCC----CCCEE
Q ss_conf 34-675556645446746778987513----5550101111456443320101466541399705334543----55505
Q gi|254780158|r 144 RR-LGYDGKGQKVYHENDCTQNLYASL----GNVPLILERFTDFNCEISIIAARSLNGSICFYDPIQNTHV----NGILH 214 (354)
Q Consensus 144 ~~-~GydGkG~~~i~~~~~l~~~~~~~----~~~~~iiEe~I~~~~Eisviv~r~~~G~~~~~p~~en~~~----~gil~ 214 (354)
T Consensus 732 SYVL--gG~aM~iv~~~eeL~~yl~~a~~~S~~~PVlidky~e~A~E~dVD~v~D-g~~v~i~gI~EHiE~AGVHSGDs~ 808 (1089)
T TIGR01369 732 SYVL--GGRAMEIVYNEEELARYLEEAVEVSPEHPVLIDKYLEDAVEIDVDAVSD-GEEVLIPGIMEHIEEAGVHSGDST 808 (1089)
T ss_pred CCCC--CCCCHHEECCHHHHHHHHHHHHHHCCCCCEEEEEECCCCEEEEEEEEEE-CCEEEEEEHHHHHHHCCCCCCCHH
T ss_conf 8300--3362100267889999999999720899769888528888999989972-884899623123421367613053
Q ss_pred EEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEEECCC-CEEEEEEECCCCCCCEEEEHHHCCCCHHHHHHHHHHC
Q ss_conf 898527878789999999988677540246775310455388-4089994125704560462100135889999999818
Q gi|254780158|r 215 KSIVPASISQKTSLLAHSAMRKVLETLDYVGILCIEFFVTND-GNVIANEMAPRVHNSGHWTEASCVISQFEQHIRSITN 293 (354)
Q Consensus 215 ~s~~Pa~i~~~~~~~a~~~a~~i~~~L~~~Gv~~VEffv~~d-g~i~vnEiaPR~Hnsgh~t~~~~~~sqfe~h~rai~g 293 (354)
T Consensus 809 ~~~Pp~~L~~~~~~~i~~~~~~iA~~L~v~Gl~NiQf~~~-~E~~~yVIE~NpRASRtVPFvSKa~Gipl~~~A~~~~~G 887 (1089)
T TIGR01369 809 CVLPPQTLSEDIVKRIKDIVRKIAKELNVKGLFNIQFVVK-DEGEVYVIEVNPRASRTVPFVSKATGIPLAKLAVRVMLG 887 (1089)
T ss_pred HCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEE-CCCCEEEEEECCCCCCCCCCEEEECCCCHHHHHHHHHHC
T ss_conf 1176977788999999999999998706607222455561-699679999717420665413210378879999999708
Q ss_pred CCCCCCH
Q ss_conf 8999700
Q gi|254780158|r 294 LPLGNPN 300 (354)
Q Consensus 294 lpl~~~~ 300 (354)
T Consensus 888 ~~l~~~~ 894 (1089)
T TIGR01369 888 KKLEELG 894 (1089)
T ss_pred CCCHHCC
T ss_conf 8201027