HHsearch alignment for GI: 254780617 and conserved domain: cd01124

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=98.00  E-value=0.00013  Score=52.54  Aligned_cols=162  Identities=17%  Similarity=0.111  Sum_probs=84.1

Q ss_pred             EEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHC-------CCCCCCEEEEEEEC-C
Q ss_conf             655247788611589999999886302466787606999951677678999998511-------46742115899728-8
Q gi|254780617|r  165 ELIIGDRKTGKTSIILDTFLNQKSSHDKGSEKDKVYCIYVAIGQKRSSVARFVKALE-------DRGALSYSIVVVAS-A  236 (509)
Q Consensus       165 ~~I~g~~g~GKt~l~~~~I~nq~~~~~~~~~~~~v~~V~~~IGer~~ev~~~~~~l~-------~~~~~~~tvvv~a~-a  236 (509)
T Consensus         2 tLi~G~pGsGKT~~a~qfl~~~a~~g--------e~~lyis~eE~~~~l~~~~~~~g~d~~~~~~~g~---l~i~~~~~~   70 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARG--------EPGLYVTLEESPEELIENAESLGWDLERLEDEGL---LAIVDADPD   70 (187)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCC--------CCEEEEEECCCHHHHHHHHHHCCCCHHHHHHCCC---EEEEECCCC
T ss_conf             15876899999999999999998769--------9789999507999999999983998589864585---689962620


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCC
Q ss_conf             78889999988766666675420468847996164789999987545303787543337520012467888875045445
Q gi|254780617|r  237 SDPAPMQLLAPFAGCAMGEYFRDNGYHALIAYDDLQKHAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKMSDAL  316 (509)
Q Consensus       237 ~~~~~~r~~ap~~a~aiAEyfr~~G~~VLi~~Ddltr~A~a~reisl~~~~pp~~~gyp~~vf~~~s~l~ERa~~~~~~~  316 (509)
T Consensus        71 ~~~~~~~~~~~~l~~~i~~~i~~~~~~~-vVIDSi~~l~~~~~~------------~~~~~~~----~l~~~l~---~~-  129 (187)
T cd01124          71 EIGPAESSLRLELIQRLKDAIEEFKAKR-VVIDSVSGLLLMEQS------------TARLEIR----RLLFALK---RF-  129 (187)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHCCCE-EEECCHHHHHHCCHH------------HHHHHHH----HHHHHHH---HC-
T ss_conf             0220333236789999999999849989-999486887525666------------6899999----9999999---76-


Q ss_pred             CCCCEEEEEEEECCCCCCCCCHHHHHHHHHCCEEEEECCHHHHCC
Q ss_conf             887356753100367664431146688540616996150122102
Q gi|254780617|r  317 GAGSLTALPVIETQVNDVSAYIPTNVISITDGQIFLETELFYQGI  361 (509)
Q Consensus       317 g~GSiT~~~~v~~~~~D~~~~i~~~~~si~DG~i~l~~~l~~~g~  361 (509)
T Consensus       130 ---~~t~ll~~e~~~~~~~~~~~~~~~~l~DgiI~L~~~~~~~~~  171 (187)
T cd01124         130 ---GVTTLLTSEQSGLEGTGFGGGDVEYLVDGVIRLRLDEEGGRL  171 (187)
T ss_pred             ---CCCEEEEEEECCCCCCCCCCCCEEEEEEEEEEEEEEECCCEE
T ss_conf             ---996899997425667667888477997899999788049979