HHsearch alignment for GI: 254780332 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=99.83 E-value=3.9e-18 Score=157.57 Aligned_cols=204 Identities=21% Similarity=0.324 Sum_probs=133.5
Q ss_pred CCCCCHHHHHHH-HHHCCCCEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCCHHHHHHH
Q ss_conf 432101377655-6416772677621310027699999999998510111233333212479758999585217999878
Q gi|254780332|r 202 VSTGIQTLDKQM-GGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEMSSEQLATR 280 (504)
Q Consensus 202 i~TG~~~LD~~~-gGl~~G~l~Viaarpg~GKTalalniA~~~A~~~~~~~~~~~~~~~~~g~~Vl~fSlEMs~~el~~R 280 (504)
T Consensus 1 IsTG~~~lD~vLgGGi~~G~it~i~G~pG~GKStl~lq~a~~~~~---------------~g~~v~YidtE~~~---~er 62 (218)
T cd01394 1 LPTGCKGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAG---------------QGKKVAYIDTEGLS---SER 62 (218)
T ss_pred CCCCCHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHH---------------CCCEEEEEECCCCC---CHH
T ss_conf 998807899985699878879999899998499999999999863---------------69869999665567---699
Q ss_pred HHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHC--CCCCCCEEEECCHHHCCCC
Q ss_conf 99998741011000121376889989999999862780782589988999999886402--2444746776713532566
Q gi|254780332|r 281 IISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLPLYIDQTGGISMSQLATRARRLK--RQRGLDLLIVDYIQLMTTS 358 (504)
Q Consensus 281 ~is~~s~I~~~~i~~g~l~~~e~~~i~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~~~--~~~gi~~vvIDYLqli~~~ 358 (504)
T Consensus 63 ~~qi~-~~----------------~----~~~~-~~~i~v~~~~--~~~~~~~~i~~~~~~~~~~~~lvViDSi~tl~~~ 118 (218)
T cd01394 63 FRQIA-GD----------------R----PERA-ASSIIVFEPM--DFNEQGRAIQETETFADEKVDLVVVDSATALYRL 118 (218)
T ss_pred HHHHH-HH----------------H----HHHH-HCCCEEECCC--CHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHH
T ss_conf 99998-75----------------3----6665-3051462678--7688999999999764147729999140455455
Q ss_pred ---CC-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHCCEEEEEECHHHCCC
Q ss_conf ---44-32113788999999999999882791999771382201689999840101432422331387889725566164
Q gi|254780332|r 359 ---KK-IEENRVLEITGITMALKALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIR 434 (504)
Q Consensus 359 ---~~-~~~~r~~~i~~is~~lK~lA~e~~ipvi~lsQLnR~~e~r~~krP~lsDLr~Sg~IEqdAD~v~~l~R~~~y~~ 434 (504)
T Consensus 119 e~~~~~~~~~~~r~l~~~~~~L~~~Ak~~~~~vil~nqVt~~~~~-~~~~p~-----GG~~LeH~vd~vl~~e~~~---- 188 (218)
T cd01394 119 ELGDDDTTIKNYRELAKQLTFLLWLARKHDVAVVITNQVYSDVGS-GSVRPL-----GGHTLEHWSKVILRLEKLR---- 188 (218)
T ss_pred HCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEEEEEEECCC-CCCCCC-----CCHHHHHHCCEEEEEECCC----
T ss_conf 406896479999999999999999987669889999215884577-756556-----7204141102899998488----
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCEEEEEEEE
Q ss_conf 42333322211100000011233883899997408997259999974
Q gi|254780332|r 435 NKEPTNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQ 481 (504)
Q Consensus 435 ~~~~~~~~~~~~~~~~~~~~~~~~~~~elivaKnR~G~~g~~~~~f~ 481 (504)
T Consensus 189 -----------------------~~~R~~~~~Knr~gp~~e~~~-F~ 211 (218)
T cd01394 189 -----------------------VGTRRAVLEKHRFRPEGSSVY-FR 211 (218)
T ss_pred -----------------------CCEEEEEEEECCCCCCCCEEE-EE
T ss_conf -----------------------967999997589999886899-99