HHsearch alignment for GI: 254780810 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=97.66  E-value=0.0012  Score=43.16  Aligned_cols=173  Identities=17%  Similarity=0.165  Sum_probs=87.5

Q ss_pred             CHHHHHHHHHHH--HHCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCC--CHHHHHHHHHHH-----CCE
Q ss_conf             136888998865--51023122204877878999999999986118864699995087--878999999840-----342
Q gi|254780810|r  159 DISSRVIDLIAP--IGKGQRSLIVAPPRTGKTILLQNIAHSIKKNHPECYLIVLLIDE--RPEEVTDMQRSV-----QGE  229 (423)
Q Consensus       159 ~~~~~~id~~~p--ig~gqr~~i~~~~~~gkt~ll~~ia~~~~~~~~~v~~i~~ligE--r~~ev~e~~~~~-----~~~  229 (423)
T Consensus         2 sTG~~~lD~vLgGGi~~G~it~i~G~pG~GKStl~lq~a~~~~~~g~--~v~Yi-dtE~~~~er~~qi~~~~~~~~~~~i   78 (218)
T cd01394           2 PTGCKGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGK--KVAYI-DTEGLSSERFRQIAGDRPERAASSI   78 (218)
T ss_pred             CCCCHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCC--EEEEE-ECCCCCCHHHHHHHHHHHHHHHCCC
T ss_conf             98807899985699878879999899998499999999999863698--69999-6655676999999875366653051


Q ss_pred             EEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHHHHCCCCCCCCCCCCCCCHHHH-HHCHHHHHCCC
Q ss_conf             78236678888999999999999999997799289998163898776200136677767775202466-50468752257
Q gi|254780810|r  230 VISSTFDESAARHVQVAEMVIAKAKCLVEYGLDVVILLDSITRLCRAYNVLMPSSGKILTGGVDANAL-QRPKRFFGAAR  308 (423)
Q Consensus       230 vv~st~d~~~~~~~~~a~~a~~~a~~~~e~G~dVll~~DslTR~ArA~~~~~~~~g~~~~gg~~~~~l-~~~~~~~~~ar  308 (423)
T Consensus        79 ~v~~~~~~~~------~~~~i~~~~~~~~~~-~~lvViDSi~tl~~~e~~~~~~~~~------~~r~l~~~~~~L~~~Ak  145 (218)
T cd01394          79 IVFEPMDFNE------QGRAIQETETFADEK-VDLVVVDSATALYRLELGDDDTTIK------NYRELAKQLTFLLWLAR  145 (218)
T ss_pred             EEECCCCHHH------HHHHHHHHHHHHHCC-CCEEEEECCHHHHHHHCCCCCCHHH------HHHHHHHHHHHHHHHHH
T ss_conf             4626787688------999999999764147-7299991404554554068964799------99999999999999987


Q ss_pred             CCCCCCCCEEEEEEEE--CCCCCCCCHHH-HHHHHCCCCEEEEEHH
Q ss_conf             7777785001211201--26765541388-9885226607898087
Q gi|254780810|r  309 NIKEGGSLTIIGTALV--DTGSRMDEVIF-EEFKGTGNSEIVLERK  351 (423)
Q Consensus       309 ~~~~~Gs~T~~~t~lv--etg~~~d~~i~-~~~~~~~d~~i~L~r~  351 (423)
T Consensus       146 ~----~~~~vil~nqVt~~~~~~~~~p~GG~~LeH~vd~vl~~e~~  187 (218)
T cd01394         146 K----HDVAVVITNQVYSDVGSGSVRPLGGHTLEHWSKVILRLEKL  187 (218)
T ss_pred             H----CCCEEEEEEEEEEECCCCCCCCCCCHHHHHHCCEEEEEECC
T ss_conf             6----69889999215884577756556720414110289999848