HHsearch alignment for GI: 254781215 and conserved domain: TIGR02768

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA; InterPro: IPR014136 This entry represents the Ti-type conjugative transfer relaxase TraA. TraA contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, IPR005053 from INTERPRO) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, IPR014129 from INTERPRO). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer ..
Probab=94.78  E-value=0.088  Score=29.84  Aligned_cols=119  Identities=20%  Similarity=0.103  Sum_probs=64.1

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCC-CCCHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHH
Q ss_conf             58999999999998740565554210124650257-65978999999999998089966999808589999999999999
Q gi|254781215|r   52 RSWQLEFMEVVDAHCLNSVNNPNPEVFKGAISAGR-GIGKTTLNAWLVLWLMSTRPGISVICLANSETQLKTTLWAEVSK  130 (511)
Q Consensus        52 ~~WQ~e~l~~i~~~~~~~~~~~~~~~~r~aV~sgr-G~GKS~l~a~l~lw~l~~~p~~kv~vtApt~~Q~~~ilw~Ei~k  130 (511)
T Consensus       416 s~EQ~~Av~hvt~s------------~~iavVvG~AGtGKSt~L~aAR~AWe~~--Gy~V~GAA-LsGKAAegL------  474 (888)
T TIGR02768       416 SEEQKEAVRHVTGS------------GDIAVVVGRAGTGKSTMLKAAREAWEAA--GYRVIGAA-LSGKAAEGL------  474 (888)
T ss_pred             HHHHHHHHHHHCCC------------CCEEEEECCCCCCHHHHHHHHHHHHHHC--CCEEEEHH-HHHHHHHHH------
T ss_conf             58999998753289------------9648997489987667899999999873--97787154-555898873------


Q ss_pred             HHHHCHHCCCCCCCCCCC--CCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCHHHHCCCCCCEEEEECCHHCCCHHHH
Q ss_conf             998550001344432222--223334443211123578616985303575561002120267614999711102997889
Q gi|254781215|r  131 WLSLLPNKHWFEMQSLSL--HPAPWYSDVLHCSLGIDSKHYSTMCRTYSEERPDTFVGHHNTYGMAIINDEASGTPDVIN  208 (511)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~ea~~G~h~~~~~lvI~DEAsgI~d~i~  208 (511)
T Consensus       475 --e~~-----sGI~SRTLASle~aW~~---------------------------G~d~L~~~d--vLviDEAGMV~S~Qm  518 (888)
T TIGR02768       475 --EAE-----SGIESRTLASLEYAWAN---------------------------GRDLLEDKD--VLVIDEAGMVGSRQM  518 (888)
T ss_pred             --HCC-----CCCCHHHHHHHHHHHHC---------------------------CCCCCCCCC--EEEEECCCCHHHHHH
T ss_conf             --002-----68750478879999873---------------------------875224776--689851544146778


Q ss_pred             -HHHHHHHCCCCCCEEEEEECCC
Q ss_conf             -8888885079981389982389
Q gi|254781215|r  209 -LGILGFLTERNANRFWIMTSNP  230 (511)
Q Consensus       209 -e~i~~~Lt~~g~~~~~i~~~nP  230 (511)
T Consensus       519 ~r~l~~A~-~AGaKv--VLvGD~  538 (888)
T TIGR02768       519 ARVLKEAE-EAGAKV--VLVGDP  538 (888)
T ss_pred             HHHHHHHH-HCCCCE--EEECCH
T ss_conf             89999998-727605--984885