HHsearch alignment for GI: 254780552 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=97.51  E-value=0.0077  Score=36.86  Aligned_cols=254  Identities=20%  Similarity=0.278  Sum_probs=140.4

Q ss_pred             CHHHHC-CHHHHHHHHHHHHHHHHHCCC-CCCCEEEECCCCCCHHHHHHHHHHHCC-----CCCCCCCCCCCCCHHHHHH
Q ss_conf             877823-979999999999998661467-767079973788557789999998618-----9853125764433467666
Q gi|254780552|r   26 TLEEFT-GQVEACSNLKVFIEAAKARAE-ALDHVLFVGPPGLGKTTLAQVVARELG-----VNFRSTSGPVIAKAGDLAA   98 (334)
Q Consensus        26 ~l~dvi-GQ~~~~~~l~~~i~a~~~~~~-~~~h~Lf~GPpG~GKTtlA~iiA~~l~-----~~~~~~s~~~~~~~~dl~~   98 (334)
T Consensus       152 ~~~~~~~g~~~~~~~~-~~~~~~~~p~~p~~~p~~~~gg~glg~~~~~~~~g~~~~~~~~~~~~~~~~~~~~--~~~~~~  228 (493)
T TIGR00362       152 TFDNFVVGPSNRLAYA-ASLKVAESPGKPAYNPLFLYGGTGLGKTHLLHAIGNGVLELHPNAKVLYVTSENF--LNDFVK  228 (493)
T ss_pred             CCCCEEECCCCHHHHH-HHHHHHCCCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEHHHH--HHHHHH
T ss_conf             0000011465215677-7777640578766562477447542156787776434443067732788501467--899998


Q ss_pred             H---------HHHHHCCCHHHHHHHHHCCHH---HHHHHHHH---HHCCCCCCCCCCCCCCCEEECCCCCCEEEECCCCC
Q ss_conf             6---------664101637888757616989---99999998---63475100256787652000466740055204554
Q gi|254780552|r   99 L---------LTNLEDRDVLFIDEIHRLSII---VEEILYPA---MEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRV  163 (334)
Q Consensus        99 ~---------~~~~~~~~vlfiDEihrl~~~---~q~~Ll~~---mE~~~i~i~~~~~~~a~~~~~~~~~f~lI~ATt~~  163 (334)
T Consensus       229 ~~~~~~~~~~~~~~~~~d~~l~dd~~~~~~~~~~~~~~~~~~~~l~~~~~---------------------~~~~~~d~~  287 (493)
T TIGR00362       229 ALRDNKLDDFKKKYRSLDFLLIDDIQFLAGKEKTQEEFFHTFNALHEDGK---------------------QIVLTSDRS  287 (493)
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCC---------------------EEEEECCCC
T ss_conf             75200168888876311123111047641352036888888887740685---------------------278851666


Q ss_pred             CC----CCHHHHHCCC--CEEECCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf             33----5545442012--06732645479999987776541210111111123320221015678877754333455415
Q gi|254780552|r  164 GL----LTNPLQDRFG--IPIRLNFYEIEDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTPRIAGRLLRRVRDFAEVAH  237 (334)
Q Consensus       164 ~~----l~~~l~sR~~--~~~~~~~~~~~el~~il~~~~~~~~i~~~~~al~~ia~~s~Gd~R~AlnlLe~v~d~a~~~~  237 (334)
T Consensus       288 p~~~~~~~~~l~~~~~~g~~~~~~~p~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~  366 (493)
T TIGR00362       288 PKEIPGLEDRLKSRFGWGLTADIEPPDLETRLAILKKKAEEDGINLPEEVLEYIAQHLTSNVRELEGALIRVKAYADL-D  366 (493)
T ss_pred             CCHHCHHHHHHHHHHHCCCEEECCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-C
T ss_conf             201000467776543014100024652357899988654430356527899999886422467776778877654200-1


Q ss_pred             CCCCCHHHHHHHHHHHHC-CCCH------HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHH
Q ss_conf             886427787876542100-0000------4677688999999751866206999999828745674678999999834
Q gi|254780552|r  238 AKTITREIADAALLRLAI-DKMG------FDQLDLRYLTMIARNFGGGPVGIETISAGLSEPRDAIEDLIEPYMIQQG  308 (334)
Q Consensus       238 ~~~i~~~~~~~~l~~~~i-d~~G------l~~~d~~~L~~l~~~~~~g~~~~~~isA~~ks~RgS~~daa~~yL~r~g  308 (334)
T Consensus       367 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~  440 (493)
T TIGR00362       367 NADIDLDLVAEVLKDLLPALKEKTNEPNNLVTIE-NILKVVAEYLKLK---VEDLKSKSRKRSVALPRQLALYLAREL  440 (493)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHH-HHHHHHHHHHHHH---HHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf             2100177789999876544310256653210288-8999988875324---566642101002346889999999851