HHsearch alignment for GI: 254780334 and conserved domain: cd01128
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=97.21 E-value=0.023 Score=36.83 Aligned_cols=161 Identities=15% Similarity=0.167 Sum_probs=81.8
Q ss_pred CCHHHHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCC--CEEEE-ECCCCHHHHHHHHHHCCCCCCCHHEEC
Q ss_conf 812488886598578708999549875188999999999850398--19999-864630478888752015775100003
Q gi|254780334|r 75 HIDELDRVTGGGFVRGSVILVGGDPGIGKSTLLMQTAASLAYKKH--RITYV-SGEEAIGQIRLRAQRLNTINSSVYIAI 151 (479)
Q Consensus 75 Gi~eLDrvLGGGl~~Gs~~Li~G~PGvGKSTL~Lqia~~~a~~g~--~vlYv-S~EEs~~Qi~~Ra~Rl~~~~~~i~~~~ 151 (479)
T Consensus 3 ~~r~ID~l~--pigkGQR~gI~g~~gvGKT~Ll~~i~~~~~~~~~~~~~v~~lIGER-~rEv~e~~~~~~--~--~vv~s 75 (249)
T cd01128 3 STRVVDLFA--PIGKGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDER-PEEVTDMQRSVK--G--EVIAS 75 (249)
T ss_pred CCEEEEEEC--CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEEEEECC-HHHHHHHHHHHC--E--EEEEE
T ss_conf 410154324--6167867788789998899999999999998589849999997165-799999999716--1--69995
Q ss_pred CCC---H---------HHHHHHHHHCCCCCEEEECHHHHHHHH--HHCC-----CCCC-HHHHHHHHHHHHHHHHH----
Q ss_conf 478---8---------999999973169828997216876654--2044-----5563-67999999999997530----
Q gi|254780334|r 152 ETN---V---------EDIIATLITNEKPDLVIIDSIQTLWSQ--TAES-----SPGT-VIQVRTSVQAMIQYAKK---- 207 (479)
Q Consensus 152 e~~---l---------~~il~~~i~~~~~~~vVIDSIQtl~~~--~~~s-----~~Gs-vsQvre~~~~L~~~AK~---- 207 (479)
T Consensus 76 t~d~~p~~r~~~a~~a~~iAEyfr~~G~dVLl~~DslTR~A~A~rEis~~~ge~~~~g~~~~~~~~~~~~~~~a~~~e~~ 155 (249)
T cd01128 76 TFDEPPERHVQVAEMVLEKAKRLVEHGKDVVILLDSITRLARAYNTVVPPSGKILSGGVDANALHKPKRFFGAARNIEEG 155 (249)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCC
T ss_conf 69999899999999999999999987997799951488999998663024698788997913545548999852678899
Q ss_pred CCCEEEEEEEECCCCCCCCH--HHHHHHHHEEEEEEC
Q ss_conf 79789998630366543311--457877530278515
Q gi|254780334|r 208 NGVAMVLVGHVTKEGQIAGP--RVIEHMVDAVLYFEG 242 (479)
Q Consensus 208 ~~i~vilighvTK~G~iAGp--~~LeH~VD~vl~~eg 242 (479)
T Consensus 156 GSiT~~~tvlve~~d~~d~~I~~~~~~i~Dg~IvLsr 192 (249)
T cd01128 156 GSLTIIATALVDTGSRMDDVIFEEFKGTGNMELVLDR 192 (249)
T ss_pred CEEEEEEEEEECCCCCCCCHHHHHHHHCCCEEEEECH
T ss_conf 5379988887637766672689998651774999639