HHsearch alignment for GI: 254780268 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=0 Score=450.68 Aligned_cols=370 Identities=23% Similarity=0.340 Sum_probs=312.1
Q ss_pred EEEEEECCCHH-----------HHHHHHHHHHCCCEEEEECCCHHHCCCCHHHCCEEEECCCCCCCCHHCCHHHHHHHHH
Q ss_conf 06866447099-----------9999998888096599985855771877675857999189985300069899999998
Q gi|254780268|r 3 SKILIANRGEI-----------ALRILRACKELGIPTVAVHSTADSGAMHVRLADESVCIGPPSSKDSYLNIQQIVAACE 71 (443)
Q Consensus 3 ~~iLianrGei-----------a~riira~~elGi~tv~v~s~~D~~a~~~~~ADe~~~i~~~~~~~sYldi~~ii~~a~ 71 (443)
T Consensus 574 k~~lvlGSGp~RIGqgvEFDYc~Vh~~~aLr~~Gye~ImiN~NPETVSTDyD~sDrLYFEp--------lt~E~Vm~I~e 645 (1089)
T TIGR01369 574 KKVLVLGSGPNRIGQGVEFDYCCVHAVLALREAGYETIMINYNPETVSTDYDTSDRLYFEP--------LTFEDVMNIIE 645 (1089)
T ss_pred CEEEEECCCCEECCCCEEEHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCHHHHHHCCCCC--------CCCCCCEEHEE
T ss_conf 5689987845140663120567899999998729959999778997436666510115876--------35031001100
Q ss_pred HCCCCEE---ECCCCHHHCCHHHHHHHHHCC-CEEECCCHHHHHHHHCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf 7099899---458531310976668898459-216268989998721899887766422443324333455799987320
Q gi|254780268|r 72 VTGADAI---HPGYGFLSENAKFAEILEDHH-IKFIGPSSEHIKIMGDKITAKKTAQQLGIPVVPGSGEVYPHTAMPIAK 147 (443)
Q Consensus 72 ~~~~dai---hPGyGfLsEn~~fa~~~e~~G-i~fIGPs~~ai~~~gDK~~~k~~a~~~GVP~~p~~~~~~~~ea~~~a~ 147 (443)
T Consensus 646 ~E~~~GVIVq~GGQtp~----nlA~~L~~~GG~~iLGTS~~~ID~AEDR~kFs~~l~~Lgi~QP~~~~a~s~eea~~~A~ 721 (1089)
T TIGR01369 646 LEKPEGVIVQFGGQTPL----NLAKELEEAGGVPILGTSPESIDRAEDREKFSELLDELGIPQPEWKIATSVEEAKEFAS 721 (1089)
T ss_pred ECCCCEEEEECCCHHHH----HHHHHHHHCCCCEEECCCHHHHHHHCCHHHHHHHHHHCCCCCCCCCEECCHHHHHHHHH
T ss_conf 05866799974873267----89999997089317368857875131867999999715879898852728799999985
Q ss_pred CCCCHHHHHCCCCCCCCEEEEEEECHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEEEEECCEEEEEECCCCC--------
Q ss_conf 033012200023457821688875066899999875432125899816884434201103315777347870--------
Q gi|254780268|r 148 EIGFPVLVKASAGGGGRGMRIAYSENDLSEAIDQARSEALAAFGNDAVYIEKYLENPRHIEVQIFGDGMGNA-------- 219 (443)
Q Consensus 148 ~iGyPviiKp~~gGGG~Gi~vv~~~~el~~a~~~a~~ea~~~fgd~~vlvEk~i~~~rhiEvqVl~D~~g~~-------- 219 (443)
T Consensus 722 ~iGYPvlvRPSYVLgG~aM~iv~~~eeL~~yl~~a~~~S~----~~PVlidky~e~A~E~dVD~v~Dg~-~v~i~gI~EH 796 (1089)
T TIGR01369 722 EIGYPVLVRPSYVLGGRAMEIVYNEEELARYLEEAVEVSP----EHPVLIDKYLEDAVEIDVDAVSDGE-EVLIPGIMEH 796 (1089)
T ss_pred HCCCCEEECCCCCCCCCCHHEECCHHHHHHHHHHHHHHCC----CCCEEEEEECCCCEEEEEEEEEECC-EEEEEEHHHH
T ss_conf 4699289816830033621002678899999999997208----9976988852888899998997288-4899623123
Q ss_pred -----CCCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECC-CCEEEEECCCCCCCC
Q ss_conf -----23656654211356225540344558899999999999998865154341024589728-834998227654332
Q gi|254780268|r 220 -----IHFGERDCSVQRRNQKIWEEAHSPVISAQDRTEIGETCVKAMKKIDYRGAGTIEFLYEN-GQFYFIEMNTRLQVE 293 (443)
Q Consensus 220 -----v~l~erdCSiQrr~qkiiEeaPap~l~~~~~~~i~~~A~~~~~~~g~~g~~tvEFl~~~-~~~yflEvN~Rlqve 293 (443)
T Consensus 797 iE~AGVHSGDs~~~~-----------Pp~~L~~~~~~~i~~~~~~iA~~L~v~Gl~NiQf~~~~E~~~yVIE~NpRASRt 865 (1089)
T TIGR01369 797 IEEAGVHSGDSTCVL-----------PPQTLSEDIVKRIKDIVRKIAKELNVKGLFNIQFVVKDEGEVYVIEVNPRASRT 865 (1089)
T ss_pred HHHCCCCCCCHHHCC-----------CCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCEEEEEECCCCCCC
T ss_conf 421367613053117-----------697778899999999999999870660722245556169967999971742066
Q ss_pred CHHHHHHHCCCCHHHHHHHHHCCCCCCCCC------CCCCCHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCEEEECC
Q ss_conf 016788632562011232221022222113------33320124533024566221111244215886689984467776
Q gi|254780268|r 294 HPVTEAITGIDLVHEQIYVASENRLSVQQK------DITFSGHAIECRINAEDPENFIPNPGEITYFHAPGGLGIRMDSA 367 (443)
Q Consensus 294 h~vte~~tgvdlv~~~~~~a~g~~l~~~~~------~i~~~g~aie~Ri~aEdp~~f~Ps~G~i~~~~~p~~~gvRvDt~ 367 (443)
T Consensus 866 VPFvSKa~Gipl~~~A~~~~~G~~l~~~~~~~gv~~~~~~~~vav-----------------K~~vFSF~kL~g~Dp~LG 928 (1089)
T TIGR01369 866 VPFVSKATGIPLAKLAVRVMLGKKLEELGKDLGVGKEKESKYVAV-----------------KVPVFSFSKLAGVDPVLG 928 (1089)
T ss_pred CCCEEEECCCCHHHHHHHHHHCCCCHHCCCCCCCCCCCCCCEEEE-----------------EEEECCCHHHCCCCEEEC
T ss_conf 541321037887999999970882010275401123268872799-----------------642377122148871117
Q ss_pred CCCCCEECCCCCCCEEEEEEECCCHHHHHHHHHHHHHHCE--------ECCCCCCHHHHHHHHCCHHHHC
Q ss_conf 0238770777684338999955998999999998765408--------8263778889998968988955
Q gi|254780268|r 368 SYQGYTVPSYYDSLIAKLIVHGKNRKECMMRLNRALNEII--------IDGIKTTIPLFQKLIKNEDIIE 429 (443)
Q Consensus 368 ~~~G~~i~~~yDsmlaKiI~~g~~R~~Ai~~l~~aL~~~~--------I~Gv~TN~~~l~~il~~~~f~~ 429 (443)
T Consensus 929 pE----MkS-----TGEvmg~g~d~~~A~~Ka~~~~~-~~~p~kg~~~~~~~d~dk~~~~~~a~--~L~~ 986 (1089)
T TIGR01369 929 PE----MKS-----TGEVMGIGRDLEEAFLKAMLSSG-NRIPKKGSVLLSVRDKDKEELLDLAK--KLAE 986 (1089)
T ss_pred CC----CCC-----CCEEEEECCCHHHHHHHHHHHCC-CCCCCCCEEEEEECCCCHHHHHHHHH--HHHH
T ss_conf 75----551-----32256412788999999999818-70578877999803443457999999--9986