HHsearch alignment for GI: 254780134 and conserved domain: cd01193
>cd01193 INT_IntI IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and a secondary target called the attC (or 59-base element) present on various mobile gene cassettes. Integron-integrases are present in many natural occurring mobile elements, including transposons and conjugative plasmids. Vibrio, Shewanella, Xanthomonas and Pseudomonas species harbor chromosomal super-integrons. All integron-integrases carry large inserts unlike the TnpF ermF-like proteins also seen in this group.
Probab=100.00 E-value=1.4e-38 Score=269.38 Aligned_cols=216 Identities=17% Similarity=0.251 Sum_probs=180.5
Q ss_pred HHCCCCHHHCCHHHHHHHHHHH----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHH
Q ss_conf 9569995896999999988751----599789999999999999644552001056651034643244442116523445
Q gi|254780134|r 105 KSGDFDYRKITTKHIRSGVESR----KHTPSSAIQFLTSMRVLFKWAVRQEYVAINPCLSVERPKRKTEGIRPWTKEDMQ 180 (348)
Q Consensus 105 ~~g~~~l~~it~~~i~~~~~~~----~~~~~t~n~~~~~l~~~~~~a~~~~~i~~NP~~~v~~~~~~~~~~~~~t~~ei~ 180 (348)
T Consensus 1 ~~~~k~~~~it~~dI~~y~~~L~~~~~~s~~Tin~~l~~l~~~~~~~~~~~~---~~~~~~~~~k~~~~~~~~lt~eEi~ 77 (242)
T cd01193 1 FHFGRSPDELGEEDVRAFLTLLAVEGNVSASTQNQALSALLFFYRHTLKRDL---PWLQRIRRPRKPRKLPVVLSPEEVR 77 (242)
T ss_pred CCCCCCHHHCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCC---CHHHHCCCCCCCCCCCCCCCHHHHH
T ss_conf 9899895889999999999999984898999999999999999999987689---6566565578999899889999999
Q ss_pred HHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCEEE--EECCCCCCCCCHHHHHHCCHHHHHHHHHHH----C----C
Q ss_conf 66664037808999989898618873100256640144--302332113310243311216899999642----0----1
Q gi|254780134|r 181 QFKSFWSEGSQPRLAFEFLLYSGLRCSDSCRAGVQHLQ--NNIFSIKTQKTGTIITVELPDGFMKLLAMT----P----I 250 (348)
Q Consensus 181 ~~~~~~~~~~~~~~~~~l~~~TG~R~~Ei~~L~~~did--~~~i~~~~~Kt~~~~~vpl~~~l~~~l~~~----~----~ 250 (348)
T Consensus 78 ~ll~~~~-~~r~~~~~~ll~~tGlR~~El~~L~~~did~~~~~i~i~~~K~~k~R~vpl~~~~~~~l~~~l~~~~~~~~~ 156 (242)
T cd01193 78 RLLGALT-GLKHRLILSLLYGCGLRLSECLRLRVKDIDFDRGQIRVRQGKGGKDRYVMLPEALLELLRAYWKRARALGRE 156 (242)
T ss_pred HHHHCCC-CCHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCEEEEEEECCCCCCEEEECCHHHHHHHHHHHHHHHHHHCC
T ss_conf 9997387-767999999999828988889878663167675179986188996058875999999999999984653003
Q ss_pred -CCCCCCCCCC--------CCCCCHHHHHHHHHHHHHHCCCC--CCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHH
Q ss_conf -3322112224--------57758778999999999983889--981402699999999848998899999649998999
Q gi|254780134|r 251 -GKETFFINND--------KQKMNATQFSIWFKAKATKAGVN--KSAHGVRKFSATISADAGATAHELMATYGWKTVDQA 319 (348)
Q Consensus 251 -~~~~~~~~~~--------g~~~~~~~~~~~~~~~~~~agi~--~~~H~lRht~at~l~~~G~~~~~i~~~lGHss~~~t 319 (348)
T Consensus 157 ~~~~~lF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~H~lRHT~at~ll~~G~~l~~v~~~lGH~si~tT 236 (242)
T cd01193 157 RPWQWLFPSTRRSRDPVERRHHLSERTLQRALKKAVEQAGIDKRVTPHTLRHSFATHLLEAGYDIRTIQELLGHSDLKTT 236 (242)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHCCCCCHHHH
T ss_conf 65210135667775755367767599999999999998499999886748999999999879999999988399888899
Q ss_pred HHHHH
Q ss_conf 99999
Q gi|254780134|r 320 ETYTK 324 (348)
Q Consensus 320 ~~Y~~ 324 (348)
T Consensus 237 ~~Y~H 241 (242)
T cd01193 237 MIYTH 241 (242)
T ss_pred HHHHC
T ss_conf 87058