HHsearch alignment for GI: 254780332 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=99.85 E-value=3.4e-19 Score=165.62 Aligned_cols=207 Identities=28% Similarity=0.418 Sum_probs=156.2
Q ss_pred CCCCCCCHHHHHHH-HHHCCCCEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCCHHHHH
Q ss_conf 64432101377655-64167726776213100276999999999985101112333332124797589995852179998
Q gi|254780332|r 200 AGVSTGIQTLDKQM-GGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEMSSEQLA 278 (504)
Q Consensus 200 ~Gi~TG~~~LD~~~-gGl~~G~l~Viaarpg~GKTalalniA~~~A~~~~~~~~~~~~~~~~~g~~Vl~fSlEMs~~el~ 278 (504)
T Consensus 62 ~R~~Tgi~ElDRVLGGGiVpGSvvLlgGePGIGKSTLLLQia~~la~---------------~~~~vLYvSGEES~~QIk 126 (372)
T cd01121 62 ERIPTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAK---------------RGGKVLYVSGEESPEQIK 126 (372)
T ss_pred CCCCCCCHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHH---------------CCCCEEEEECHHHHHHHH
T ss_conf 54447836665400577306717998259988688999999999986---------------399389982456789999
Q ss_pred HHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCEEEECCCCCCHHHHHHHHHHHCCCCCCCEEEECCHHHCCCC
Q ss_conf 78999987410110001213768899899999998627807825899889999998864022444746776713532566
Q gi|254780332|r 279 TRIISEQTEVPSSKIRRGELTRPDYEKIVACSQVMQKLPLYIDQTGGISMSQLATRARRLKRQRGLDLLIVDYIQLMTTS 358 (504)
Q Consensus 279 ~R~is~~s~I~~~~i~~g~l~~~e~~~i~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~~~~~~gi~~vvIDYLqli~~~ 358 (504)
T Consensus 127 ~RA~----------------------RLg-----~~~~~l~l~se--t~le~Il~~i~~----~kP~~lIIDSIQT~~~~ 173 (372)
T cd01121 127 LRAD----------------------RLG-----ISTENLYLLAE--TNLEDILASIEE----LKPDLVIIDSIQTVYSS 173 (372)
T ss_pred HHHH----------------------HHC-----CCCCCCEEEEC--CCHHHHHHHHHH----HCCCEEEEECHHHCCCC
T ss_conf 8999----------------------858-----78877278843--569999999997----19988999562202037
Q ss_pred CC-CCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHCCEEEEEECHHHCCCCCC
Q ss_conf 44-32113788999999999999882791999771382201689999840101432422331387889725566164423
Q gi|254780332|r 359 KK-IEENRVLEITGITMALKALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVIRDEYYIRNKE 437 (504)
Q Consensus 359 ~~-~~~~r~~~i~~is~~lK~lA~e~~ipvi~lsQLnR~~e~r~~krP~lsDLr~Sg~IEqdAD~v~~l~R~~~y~~~~~ 437 (504)
T Consensus 174 ~~~s~pGsvsQVReca~~L~~~AK~~~i~~~lVGHVTK~G-----------~iAGPkvLEHmVDtVl~fEgd~------- 235 (372)
T cd01121 174 ELTSAPGSVSQVRECTAELMRFAKERNIPIFIVGHVTKEG-----------SIAGPKVLEHMVDTVLYFEGDR------- 235 (372)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEECCCC-----------CCCCCHHHEEEEEEEEEECCCC-------
T ss_conf 7677998789999999999999986197399998762688-----------6377403100213688751577-------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCEEEEEEEECCCCCEEECCC
Q ss_conf 3332221110000001123388389999740899725999997468540200774
Q gi|254780332|r 438 PTNKDDILAYTKWQEDLKRVKGIADIIIAKQRHGPTGTVTLAFQAEFTRFSALSD 492 (504)
Q Consensus 438 ~~~~~~~~~~~~~~~~~~~~~~~~elivaKnR~G~~g~~~~~f~~~~~~f~~~~~ 492 (504)
T Consensus 236 -------------------~~~~R~LR~~KNRFG~t~EiGv-FeM~~~GL~~V~n 270 (372)
T cd01121 236 -------------------HSEYRILRSVKNRFGSTNELGV-FEMRENGLREVSN 270 (372)
T ss_pred -------------------CCCEEEEEEECCCCCCCCEEEE-EEECCCCCEECCC
T ss_conf -------------------6550356741156777540588-8731687056368