HHsearch alignment for GI: 254780129 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=93.04 E-value=0.61 Score=24.54 Aligned_cols=137 Identities=17% Similarity=0.125 Sum_probs=74.2
Q ss_pred CCCCHHHHHHHHHHHHCCCCE-EEECCCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHCCCCCCEEEE
Q ss_conf 713489999999999679819-9968999889999999999974089948997233101378899998515534606998
Q gi|254780129|r 3 LVLKPHQIVMVNWLLSHDRCA-LWASMGSGKTVSVLFALSTIKILDPRPVLIIAPLRVAQYVWKDEVERWSAFSDMTVSS 81 (220)
Q Consensus 3 ~~Lrp~Q~~a~~~~~~~~~~~-l~~~~G~GKT~~ai~~~~~~~~~~~~~~LIi~P~s~~~~~W~~e~~~~~~~~~~~~~~ 81 (220)
T Consensus 413 ~rLs~EQ~~Av~hvt~s~~iavVvG~AGtGKSt-~L~aAR~AWe~~Gy~V~---GAA-LsGKAAegLe~~sG-------- 479 (888)
T TIGR02768 413 ERLSEEQKEAVRHVTGSGDIAVVVGRAGTGKST-MLKAAREAWEAAGYRVI---GAA-LSGKAAEGLEAESG-------- 479 (888)
T ss_pred CCCHHHHHHHHHHHCCCCCEEEEECCCCCCHHH-HHHHHHHHHHHCCCEEE---EHH-HHHHHHHHHHCCCC--------
T ss_conf 774589999987532899648997489987667-89999999987397787---154-55589887300268--------
Q ss_pred EECCCCCCCCCCCCCCCEEEECHHHHHCC---CCCCCCCCCCCCCCCCHHHCCCCCCCCCHHHHHHHHHHHHHCCCCEEE
Q ss_conf 61121011223456766278656673100---000000247200002512201365433203699999998513798799
Q gi|254780129|r 82 LIGSERQRIKALNTPAHLYIINFENIPWL---VKMKLDHWDFATIVVDESTKLKSFRTHQGTKQTRALGKVAFSKVKRFI 158 (220)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~i~~~~~l~~~---~~~~~~~~~~~~iIiDEaH~~kn~~~~~~~k~~k~l~~~~~~~~~~~l 158 (220)
T Consensus 480 -----------------I~SRTLASle~aW~~G~d~L~--~~dvLviDEAGMV~------S~Qm~r~l~~A~~AGa--Kv 532 (888)
T TIGR02768 480 -----------------IESRTLASLEYAWANGRDLLE--DKDVLVIDEAGMVG------SRQMARVLKEAEEAGA--KV 532 (888)
T ss_pred -----------------CCHHHHHHHHHHHHCCCCCCC--CCCEEEEECCCCHH------HHHHHHHHHHHHHCCC--CE
T ss_conf -----------------750478879999873875224--77668985154414------6778899999987276--05
Q ss_pred EECCCCCCCCHHHHHHHHHHH
Q ss_conf 831653248889999999982
Q gi|254780129|r 159 ELTGTPSPNGLIDLWGQIWFL 179 (220)
Q Consensus 159 ~LTgTPi~n~~~el~~ll~~l 179 (220)
T Consensus 533 VLvGD~~QLqaI~AGaaFRai 553 (888)
T TIGR02768 533 VLVGDPEQLQAIEAGAAFRAI 553 (888)
T ss_pred EEECCHHHHCHHHCCCCCHHH
T ss_conf 984885782442447500123