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