HHsearch alignment for GI: 254780567 and conserved domain: TIGR00362
>TIGR00362 DnaA chromosomal replication initiator protein DnaA; InterPro: IPR001957 The bacterial dnaA protein , , plays an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) .; GO: 0003677 DNA binding, 0003688 DNA replication origin binding, 0005524 ATP binding, 0006270 DNA replication initiation, 0006275 regulation of DNA replication.
Probab=99.96 E-value=1.5e-27 Score=189.50 Aligned_cols=214 Identities=19% Similarity=0.175 Sum_probs=182.1
Q ss_pred CCCCCCCCCCCCCEEECCCHHHHHHHHHHH---HCC-CCCEEEEECCCCCCHHHHHHHHHHHHCC-----CCHHHHHHHH
Q ss_conf 588877668845416536189999999851---016-7884999878777868899999986276-----2013567644
Q gi|254780567|r 30 FSFPRCLGISRDDLLVHSAIEQAVRLIDSW---PSW-PSRVVILVGPSGSGKSCLANIWSDKSRS-----TRFSNIAKSL 100 (246)
Q Consensus 30 l~~~~~~~~~~dnFiv~~~N~~A~~~i~~~---~~~-~~~~l~i~G~~GsGKTHLl~a~~~~~~~-----~~~~~~~~~~ 100 (246)
T Consensus 143 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~p~~p~~~p~~~~gg~glg~~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 222 (493)
T TIGR00362 143 PKTSLNGKYTFDNFVVGPSNRLAYAASLKVAESPGKPAYNPLFLYGGTGLGKTHLLHAIGNGVLELHPNAKVLYVTSENF 222 (493)
T ss_pred HHHHCCCCCCCCCEEECCCCHHHHHHHHHHHCCCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEHHHH
T ss_conf 11111321000000114652156777777640578766562477447542156787776434443067732788501467
Q ss_pred HHH---------------HHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHH
Q ss_conf 454---------------6666665334332100376---1033545554311234215640354320022345667885
Q gi|254780567|r 101 DSI---------------LIDTRKPVLLEDIDLLDFN---DTQLFHIINSIHQYDSSLLMTARTFPVSWGVCLPDLCSRL 162 (246)
Q Consensus 101 ~~~---------------~~~~~~~i~iddi~~~~~~---ee~lf~l~n~~~~~~~~iilts~~~p~~~~~~l~DL~SRl 162 (246)
T Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~d~~l~dd~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~d~~p~~~~~~~~~l~~~~ 302 (493)
T TIGR00362 223 LNDFVKALRDNKLDDFKKKYRSLDFLLIDDIQFLAGKEKTQEEFFHTFNALHEDGKQIVLTSDRSPKEIPGLEDRLKSRF 302 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCEEEEECCCCCCHHCHHHHHHHHHH
T ss_conf 89999875200168888876311123111047641352036888888887740685278851666201000467776543
Q ss_pred HHCCEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 21222450788978999999998666289798899999994066798999999999999999847787889999999867
Q gi|254780567|r 163 KAATVVKISLPDDDFLEKVIVKMFADRQIFIDKKLAAYIVQRMERSLVFAEKLVDKMDNLALSRGMGITRSLAAEVLKET 242 (246)
Q Consensus 163 ~~g~~~~I~~pdde~~~~il~k~~~~r~i~l~~~v~~yl~~r~~Rs~~~l~~~l~~Ld~~sl~~kr~ITi~lvk~vL~~~ 242 (246)
T Consensus 303 ~~g~~~~~~~p~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 382 (493)
T TIGR00362 303 GWGLTADIEPPDLETRLAILKKKAEEDGINLPEEVLEYIAQHLTSNVRELEGALIRVKAYADLDNADIDLDLVAEVLKDL 382 (493)
T ss_pred HCCCEEECCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
T ss_conf 01410002465235789998865443035652789999988642246777677887765420012100177789999876
Q ss_pred H
Q ss_conf 4
Q gi|254780567|r 243 Q 243 (246)
Q Consensus 243 ~ 243 (246)
T Consensus 383 ~ 383 (493)
T TIGR00362 383 L 383 (493)
T ss_pred H
T ss_conf 5