HHsearch alignment for GI: 254780334 and conserved domain: cd01121
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=100.00 E-value=0 Score=1018.96 Aligned_cols=372 Identities=55% Similarity=0.921 Sum_probs=357.1
Q ss_pred EEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCCHHHHHHHCCCC
Q ss_conf 89876756363007717888986707988524776555444445556656403133345566632378124888865985
Q gi|254780334|r 8 YFCQSCGEIHSRWIGKCDSCNAWNTIIEDSSRKESDQRFSKTIKQGHSISLFMLSEESIEEESRIQTHIDELDRVTGGGF 87 (479)
Q Consensus 8 y~C~~Cg~~~~kW~G~Cp~C~~Wnt~~e~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~Ri~TGi~eLDrvLGGGl 87 (479)
T Consensus 1 y~C~~CG~~~~kW~GkCp~Cg~WnTl~E~~~~~~~~~~~~-~~~~~~~~~~~~l~~v~~~~~~R~~Tgi~ElDRVLGGGi 79 (372)
T cd01121 1 YVCSECGYVSPKWLGKCPECGEWNTLVEEIEPSSSSGSGG-RSSGGSASKVIPLSDIEAEEEERIPTGIEELDRVLGGGL 79 (372)
T ss_pred CCCCCCCCCCCCCCEECCCCCCCCCEEEEECCCCCCCCCC-CCCCCCCCCCEEHHHCCCCCCCCCCCCCHHHHHHHCCCC
T ss_conf 9998899978872426979998643899963678777666-556777677557344365655544478366654005773
Q ss_pred CCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHCCCCCCCHHEECCCCHHHHHHHHHHCCC
Q ss_conf 78708999549875188999999999850398199998646304788887520157751000034788999999973169
Q gi|254780334|r 88 VRGSVILVGGDPGIGKSTLLMQTAASLAYKKHRITYVSGEEAIGQIRLRAQRLNTINSSVYIAIETNVEDIIATLITNEK 167 (479)
Q Consensus 88 ~~Gs~~Li~G~PGvGKSTL~Lqia~~~a~~g~~vlYvS~EEs~~Qi~~Ra~Rl~~~~~~i~~~~e~~l~~il~~~i~~~~ 167 (479)
T Consensus 80 VpGSvvLlgGePGIGKSTLLLQia~~la~~~~~vLYvSGEES~~QIk~RA~RLg~~~~~l~l~set~le~Il~~-i~~~k 158 (372)
T cd01121 80 VPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLEDILAS-IEELK 158 (372)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHCCCCCCCEEEECCCHHHHHHH-HHHHC
T ss_conf 06717998259988688999999999986399389982456789999899985878877278843569999999-99719
Q ss_pred CCEEEECHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCCHHHHHHHHHEEEEEECCCCCC
Q ss_conf 82899721687665420445563679999999999975307978999863036654331145787753027851555666
Q gi|254780334|r 168 PDLVIIDSIQTLWSQTAESSPGTVIQVRTSVQAMIQYAKKNGVAMVLVGHVTKEGQIAGPRVIEHMVDAVLYFEGGTRNT 247 (479)
Q Consensus 168 ~~~vVIDSIQtl~~~~~~s~~GsvsQvre~~~~L~~~AK~~~i~vilighvTK~G~iAGp~~LeH~VD~vl~~ege~~~~ 247 (479)
T Consensus 159 P~~lIIDSIQT~~~~~~~s~pGsvsQVReca~~L~~~AK~~~i~~~lVGHVTK~G~iAGPkvLEHmVDtVl~fEg---d~ 235 (372)
T cd01121 159 PDLVIIDSIQTVYSSELTSAPGSVSQVRECTAELMRFAKERNIPIFIVGHVTKEGSIAGPKVLEHMVDTVLYFEG---DR 235 (372)
T ss_pred CCEEEEECHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCCCHHHEEEEEEEEEECC---CC
T ss_conf 988999562202037767799878999999999999998619739999876268863774031002136887515---77
Q ss_pred CCCCEEEEEEEECCCCCCCEEEEEECCCCCEEECCHHHHHHCCCCCCCCCEEEEEEECCCCCCEEEEEEEECCCCCCCCE
Q ss_conf 54421567632025676512799851566311014045551147667673489973048974115533101157787724
Q gi|254780334|r 248 QYDYRILRSVKNRFGPTDEIGVFEMSDKGLQEVSDPSKIFLSDRDSTSPGTAVFAGIEGTRALLVEIQSLVVPTSLGMPR 327 (479)
Q Consensus 248 ~~~~R~Lr~~KNRfG~t~e~gvf~m~~~Gl~~v~~ps~~fl~~~~~~~~Gs~v~~~~eG~r~~lvEvQALv~~~~~~~p~ 327 (479)
T Consensus 236 ~~~~R~LR~~KNRFG~t~EiGvFeM~~~GL~~V~nPS~~Fl~~~~~~~~Gs~v~~~~EGsRpllvEiQALv~~s~~~~Pr 315 (372)
T cd01121 236 HSEYRILRSVKNRFGSTNELGVFEMRENGLREVSNPSELFLSEREEDVPGSAVTVVMEGSRPLLVEVQALVSPTSYANPR 315 (372)
T ss_pred CCCEEEEEEECCCCCCCCEEEEEEECCCCCEECCCHHHHHHHCCCCCCCCCEEEEEEECCCCEEEEEEECCCCCCCCCCC
T ss_conf 65503567411567775405888731687056368569886269888886379988740465056622020578889996
Q ss_pred EEEECCCHHHHHHHHHHHHHHCCCCCCCCHHHEECCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf 776046866655558988751111024622210014561115432587999999997
Q gi|254780334|r 328 RTVVGWDSSRLAMILAVLEARCNIKFGNHDVHLNIAGGYRISEPAADVAVAAALISS 384 (479)
Q Consensus 328 R~~~G~d~~rl~~llAvl~k~~~~~~~~~Di~~nv~gG~~i~~pa~DLaia~ailSs 384 (479)
T Consensus 316 R~~~G~d~~Rl~ml~AVlek~~~~~l~~~Dv~vnv~GG~ki~epa~DLAv~~Ai~SS 372 (372)
T cd01121 316 RVAVGFDPNRLSMLLAVLEKRLGLPLADQDVFVNVAGGLKITEPAADLAVALAIVSS 372 (372)
T ss_pred EEECCCCHHHHHHHHHHHHHHCCCCCCCCCEEEECCCCEECCCCHHHHHHHHHHHCC
T ss_conf 567367888899999999997399866776899867886636836889999998729