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