HHsearch alignment for GI: 254780615 and conserved domain: TIGR02236

>TIGR02236 recomb_radA DNA repair and recombination protein RadA; InterPro: IPR011938 This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA, eukaryotic RAD51 (IPR011941 from INTERPRO), and archaeal RadB (IPR011939 from INTERPRO). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein .; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0008094 DNA-dependent ATPase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=96.51  E-value=0.0097  Score=36.86  Aligned_cols=217  Identities=19%  Similarity=0.175  Sum_probs=122.9

Q ss_pred             CCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCC--EECCCCCCCCHHHHHHHHHHHHHHCC-----------CC----C
Q ss_conf             4544410000134200023110023557021541--00367566662489999999885057-----------88----5
Q gi|254780615|r  118 QPSPSYTEQSTDASILTTGIKVIDLISPYQKGGK--IGLFGGAGVGKTVLIMELINNVAKAH-----------GG----Y  180 (478)
Q Consensus       118 ~~~p~~~~R~~i~e~L~TGIkaID~l~pig~Gqr--~gIfgg~GvGKT~l~~~~i~n~~~~~-----------~~----v  180 (478)
T Consensus        63 ~~a~~vl~rR~~v~kitTgs~~LDeLLGGGiETqaiTE~~GEFGSGKTQ~~HqLAVnVQlP~flfydeeave~GGL~gp~  142 (333)
T TIGR02236        63 ETADDVLERRKSVGKITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEFLFYDEEAVEKGGLEGPK  142 (333)
T ss_pred             HHHHHHHHHHHCCCEEECCCHHHHHHCCCCCCCEEEEEEEEEECCCHHHHHHHHHHHHCCCCHHHCCCHHHCCCCCCCCE
T ss_conf             14899999872075044486367656079600005888771007865787667655322871121011000147767876


Q ss_pred             EEEEEE-----CCCHHHHHH-HHHHHHHCCCCCCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             268762-----164345999-99985424420012223444332316999717668967877777778776899986699
Q gi|254780615|r  181 SVFAGV-----GERTREGND-LYHEMIDSKVNIDPRKNNGSAVGSKCSLLYGQMNEPPGARSRVALTGLTVAEHFRDQGQ  254 (478)
Q Consensus       181 ~V~~~i-----GER~rEv~e-~~~e~~~~~~~~~~~~~~~~~~~~~tv~v~~~~~~~~~~r~~~~~~a~tiAEyfrd~g~  254 (478)
T Consensus       143 av~IDTEnTFRPERI~qmA~GL~~g-----~l~~~melD~~evL~nI~vARAyNS---~HQmllve~~~~li~e~~~~~~  214 (333)
T TIGR02236       143 AVYIDTENTFRPERIEQMAKGLARG-----TLQAAMELDPDEVLKNIYVARAYNS---NHQMLLVEKAKELIKELKNEDK  214 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH-----HHHHHHCCCHHHHHCCEEEEEEECC---HHHHHHHHHHHHHHHHCCCCCC
T ss_conf             8998559798625799999863111-----3666532787777203047785263---1479999999999973015799


Q ss_pred             CE-EEEEECHHHHHHHHHHHHHHHCCCCHHHHC---CHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECC------CCCCC
Q ss_conf             67-999715599987601245531144101101---223566657888763177765325666543047------66441
Q gi|254780615|r  255 DV-LFFVDNIFRFTQANSEISALLGRIPSAVGY---QSTLALEMGELQERITTTLKGSITSVQAIYVPA------DDLTD  324 (478)
Q Consensus       255 dV-ll~~Dsltr~a~A~rEisl~~g~~P~~~gY---p~~~f~~~~~l~ERag~~~~GSIT~~~tV~~~~------dD~~d  324 (478)
T Consensus       215 pv~L~~VDSLtsHFRa---------EY~GRg~LA~RQQKLnk-Hlh~L~~ladlyn--~aV~VTNQV~A~PDaFFG~Pt~  282 (333)
T TIGR02236       215 PVRLLIVDSLTSHFRA---------EYVGRGNLAERQQKLNK-HLHDLLRLADLYN--AAVVVTNQVMARPDAFFGDPTK  282 (333)
T ss_pred             CEEEEEECCCCCCCCC---------CCCCHHHHHHHHHHHHH-HHHHHHHHHCCCC--EEEEEECCCCCCCCCCCCCCCC
T ss_conf             4689998121002236---------76450247889869878-8998865414021--7899855612278734486987


Q ss_pred             HHHHHHHHHCCCE-EEEEHHHHHCCCCCCCC
Q ss_conf             0589999750342-56411566318867532
Q gi|254780615|r  325 PAPATSFTHLDAT-TVLSRQISEKGIYPAID  354 (478)
Q Consensus       325 pi~~~~~si~Dg~-ivLsr~la~~g~~PAId  354 (478)
T Consensus       283 piGGhilgH~AT~R~yLrKsk~~kRiarl~D  313 (333)
T TIGR02236       283 PIGGHILGHAATFRLYLRKSKGDKRIARLVD  313 (333)
T ss_pred             CCCCEEECCCCCEEEEEEECCCCEEEEEEEC
T ss_conf             7677154127856899996479814899873