HHsearch alignment for GI: 254780711 and conserved domain: cd01394

>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=97.84  E-value=0.00074  Score=49.64  Aligned_cols=107  Identities=21%  Similarity=0.208  Sum_probs=63.2

Q ss_pred             HHHHHHHCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHH-HHHHCC--C
Q ss_conf             9999871877421000258841899623443334688999999998614895078205422100477999-985103--4
Q gi|254780711|r   80 DELVEVLGKESIELDLNAPSPLVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLR-YLGEQI--Q  156 (461)
Q Consensus        80 ~eL~~lLg~~~~~l~~~~~~p~vIllvGl~GsGKTTT~aKLA~~~~~~~~~kV~lv~~Dt~R~aA~eQL~-~~a~~~--~  156 (461)
T Consensus         6 ~~lD~vLgGGi~-------~G~it~i~G~pG~GKStl~lq~a~~~~~-~g~~v~YidtE~~~~er~~qi~~~~~~~~~~~   77 (218)
T cd01394           6 KGLDELLGGGVE-------RGTVTQVYGPPGTGKTNIAIQLAVETAG-QGKKVAYIDTEGLSSERFRQIAGDRPERAASS   77 (218)
T ss_pred             HHHHHHHCCCCC-------CCEEEEEECCCCCCHHHHHHHHHHHHHH-CCCEEEEEECCCCCCHHHHHHHHHHHHHHHCC
T ss_conf             789998569987-------8879999899998499999999999863-69869999665567699999987536665305


Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCC
Q ss_conf             742223321036899999999997415886998334422
Q gi|254780711|r  157 VDTLEVIPEQSPEKIAIRATQSARDGGYDAVILDTAGRN  195 (461)
Q Consensus       157 v~~~~~~~~~dp~~i~~~a~~~a~~~~~D~iiiDTaGR~  195 (461)
T Consensus        78 i~v~~~~~~~~~~~~i-~~~~~~~~~~~~lvViDSi~tl  115 (218)
T cd01394          78 IIVFEPMDFNEQGRAI-QETETFADEKVDLVVVDSATAL  115 (218)
T ss_pred             CEEECCCCHHHHHHHH-HHHHHHHHCCCCEEEEECCHHH
T ss_conf             1462678768899999-9999764147729999140455