HHsearch alignment for GI: 254780134 and conserved domain: cd00799
>cd00799 INT_Cre Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre recombinase maintains the circular phage replicon in a monomeric state by catalyzing a site-specific recombination between two loxP sites. The catalytic core domain of Cre recombinase is linked to a more divergent helical N-terminal domain, which interacts primarily with the DNA major groove proximal to the crossover region.
Probab=100.00 E-value=4.7e-32 Score=226.93 Aligned_cols=242 Identities=19% Similarity=0.180 Sum_probs=181.1
Q ss_pred HHHHHHHHHHHHHHHHHHCC--CCHHHCCHHHHHHHHHHH--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---
Q ss_conf 78899999999999999569--995896999999988751--59978999999999999964455200105665103---
Q gi|254780134|r 89 VNSRISFESYFDQIIRKSGD--FDYRKITTKHIRSGVESR--KHTPSSAIQFLTSMRVLFKWAVRQEYVAINPCLSV--- 161 (348)
Q Consensus 89 ~~T~~~~~~~~~~~~~~~g~--~~l~~it~~~i~~~~~~~--~~~~~t~n~~~~~l~~~~~~a~~~~~i~~NP~~~v--- 161 (348)
T Consensus 1 enT~~aY~~~l~~f~~wc~~~~~~~~~~t~~~v~~yl~~L~~~~~~~Ti~~~lsalr~~~~~~~~~~~~~~~~~~~~~~~ 80 (287)
T cd00799 1 DNTRKAYLSDWRRFAAWCQAHGRTPLPASPETVTLYLTDLADSLAPSTISRRLSALSQLHRRSGLPSPADSPLVRLVLRG 80 (287)
T ss_pred CCHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHH
T ss_conf 90599999999999999997499978899999999999998477876999999999999999705886547148887532
Q ss_pred -CCCC-CCCCCCCCCCHHHHHHHHHHHCC-----CCHHHHHHHHHHHCCCCCCCCCCCCCCEEEE---E--CCCCCCCCC
Q ss_conf -4643-24444211652344566664037-----8089999898986188731002566401443---0--233211331
Q gi|254780134|r 162 -ERPK-RKTEGIRPWTKEDMQQFKSFWSE-----GSQPRLAFEFLLYSGLRCSDSCRAGVQHLQN---N--IFSIKTQKT 229 (348)
Q Consensus 162 -~~~~-~~~~~~~~~t~~ei~~~~~~~~~-----~~~~~~~~~l~~~TG~R~~Ei~~L~~~did~---~--~i~~~~~Kt 229 (348)
T Consensus 81 ~~r~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~Rd~ail~ll~~tGlR~~El~~L~~~di~~~~~~~~~i~~~~~K~ 160 (287)
T cd00799 81 IRREEARPKRQALAILPEDLDKLRSLLDESDTLRDLRDLALLLLGFAGLLRRSELVRLRWEDLTFTDGGGLLVTLRRSKT 160 (287)
T ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCCCCCCCEEEEEECCCCE
T ss_conf 11236887657898999999999862555787587999999999998623899997183987185789717999558740
Q ss_pred HHHH------HHCCHHHHHHH----HHHHCCCCCCCCCC------CCCCCCCHHHHHHHHHHHHHHCCCC---CCCCHHH
Q ss_conf 0243------31121689999----96420133221122------2457758778999999999983889---9814026
Q gi|254780134|r 230 GTII------TVELPDGFMKL----LAMTPIGKETFFIN------NDKQKMNATQFSIWFKAKATKAGVN---KSAHGVR 290 (348)
Q Consensus 230 ~~~~------~vpl~~~l~~~----l~~~~~~~~~~~~~------~~g~~~~~~~~~~~~~~~~~~agi~---~~~H~lR 290 (348)
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~lF~~~~~~~~~~~~~ls~~~v~~~~~~~~~~ag~~~~~~s~H~lR 240 (287)
T cd00799 161 DQSGLGVLKLIPPLTTCPVRALERWLEAARIPKGPLFRRIDRWGVLGPGALSDNSLNRILKRLAEAAGLRSGSWSGHSLR 240 (287)
T ss_pred EECCCCCEEEECCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCH
T ss_conf 35487836750621589999999999872567664302444467757887878999999999999859999998975138
Q ss_pred HHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHH
Q ss_conf 9999999984899889999964999899999999998999
Q gi|254780134|r 291 KFSATISADAGATAHELMATYGWKTVDQAETYTKGADRIR 330 (348)
Q Consensus 291 ht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~~~~~r 330 (348)
T Consensus 241 Ht~At~ll~~G~~l~~Iq~~lGH~s~~tt~~Y~~~~d~~~ 280 (287)
T cd00799 241 RGFATEAARAGYSLLEIMRQGRWRSPKMVSRYIRDADRFQ 280 (287)
T ss_pred HHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCCHHC
T ss_conf 9999999987999999999858999889999853713101