HHsearch alignment for GI: 254780615 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=98.32 E-value=4.1e-05 Score=52.45 Aligned_cols=179 Identities=18% Similarity=0.224 Sum_probs=93.6
Q ss_pred CCCCCCCCCCCCC--CCCCCCEECCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEECC--CHHHHHHHHHHHHHCCCCCC
Q ss_conf 0023110023557--0215410036756666248999999988505788526876216--43459999998542442001
Q gi|254780615|r 133 LTTGIKVIDLISP--YQKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGE--RTREGNDLYHEMIDSKVNID 208 (478)
Q Consensus 133 L~TGIkaID~l~p--ig~Gqr~gIfgg~GvGKT~l~~~~i~n~~~~~~~v~V~~~iGE--R~rEv~e~~~e~~~~~~~~~ 208 (478)
T Consensus 1 IsTG~~~lD~vLgGGi~~G~it~i~G~pG~GKStl~lq~a~~~~~~-g~~v~Yid-tE~~~~er~~qi~~~~~------- 71 (218)
T cd01394 1 LPTGCKGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQ-GKKVAYID-TEGLSSERFRQIAGDRP------- 71 (218)
T ss_pred CCCCCHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHC-CCEEEEEE-CCCCCCHHHHHHHHHHH-------
T ss_conf 9988078999856998788799998999984999999999998636-98699996-65567699999987536-------
Q ss_pred CCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHHHHHHHHHHCCCCHHHHCCH
Q ss_conf 22234443323169997176689678777777787768999866996799971559998760124553114410110122
Q gi|254780615|r 209 PRKNNGSAVGSKCSLLYGQMNEPPGARSRVALTGLTVAEHFRDQGQDVLFFVDNIFRFTQANSEISALLGRIPSAVGYQS 288 (478)
Q Consensus 209 ~~~~~~~~~~~~tv~v~~~~~~~~~~r~~~~~~a~tiAEyfrd~g~dVll~~Dsltr~a~A~rEisl~~g~~P~~~gYp~ 288 (478)
T Consensus 72 -------~~~~~~i~v~~~~~~~~------~~~~i~~~~~~~~~~-~~lvViDSi~tl~~~e~------~~~~~~~~~~r 131 (218)
T cd01394 72 -------ERAASSIIVFEPMDFNE------QGRAIQETETFADEK-VDLVVVDSATALYRLEL------GDDDTTIKNYR 131 (218)
T ss_pred -------HHHHCCCEEECCCCHHH------HHHHHHHHHHHHHCC-CCEEEEECCHHHHHHHC------CCCCCHHHHHH
T ss_conf -------66530514626787688------999999999764147-72999914045545540------68964799999
Q ss_pred HHHHHHHHHHHHHCCCCCCCEEEEEE--EEEC-CCCCCCHHHHHHHHHC-CCEEEEEHH
Q ss_conf 35666578887631777653256665--4304-7664410589999750-342564115
Q gi|254780615|r 289 TLALEMGELQERITTTLKGSITSVQA--IYVP-ADDLTDPAPATSFTHL-DATTVLSRQ 343 (478)
Q Consensus 289 ~~f~~~~~l~ERag~~~~GSIT~~~t--V~~~-~dD~~dpi~~~~~si~-Dg~ivLsr~ 343 (478)
T Consensus 132 ~l~~~~~~L~~~Ak---~~~~~vil~nqVt~~~~~~~~~p~GG~~LeH~vd~vl~~e~~ 187 (218)
T cd01394 132 ELAKQLTFLLWLAR---KHDVAVVITNQVYSDVGSGSVRPLGGHTLEHWSKVILRLEKL 187 (218)
T ss_pred HHHHHHHHHHHHHH---HCCCEEEEEEEEEEECCCCCCCCCCCHHHHHHCCEEEEEECC
T ss_conf 99999999999987---669889999215884577756556720414110289999848