HHsearch alignment for GI: 254780332 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=96.00 E-value=0.032 Score=36.40 Aligned_cols=149 Identities=19% Similarity=0.265 Sum_probs=85.8
Q ss_pred HHHHHHHHHHHHHHHHH-CCCCCCCCCCCHHHHH----HH-HHHCCCCEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf 34336778999998741-1236644321013776----55-641677267762131002769999999999851011123
Q gi|254780332|r 179 SDAMTVAIDMAGQAFNR-DGRLAGVSTGIQTLDK----QM-GGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQ 252 (504)
Q Consensus 179 ~~~~~~~~~~~~~~~~~-~~~~~Gi~TG~~~LD~----~~-gGl~~G~l~Viaarpg~GKTalalniA~~~A~~~~~~~~ 252 (504)
T Consensus 384 ~~~~~~a~ER~~~~~~~~~GGmlaas~~~~rLs~EQ~~Av~hvt~s~~iavVvG~AGtGKSt~-L~aAR~A--------- 453 (888)
T TIGR02768 384 PPIVDAAIERVDRILRRDSGGMLAASDQHERLSEEQKEAVRHVTGSGDIAVVVGRAGTGKSTM-LKAAREA--------- 453 (888)
T ss_pred HHHHHHHHHHHHHHHCCCCCCCEECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCHHHH-HHHHHHH---------
T ss_conf 778888887666652278864011167877745899999875328996489974899876678-9999999---------
Q ss_pred CCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHH-HHHHHHHHHHHCCEEEECCCCCC-HHH
Q ss_conf 3333212479758999585217999878999987410110001213768899-89999999862780782589988-999
Q gi|254780332|r 253 TDGSYKTINGGIVGFYSLEMSSEQLATRIISEQTEVPSSKIRRGELTRPDYE-KIVACSQVMQKLPLYIDQTGGIS-MSQ 330 (504)
Q Consensus 253 ~~~~~~~~~g~~Vl~fSlEMs~~el~~R~is~~s~I~~~~i~~g~l~~~e~~-~i~~a~~~l~~~~l~I~d~~~~t-i~~ 330 (504)
T Consensus 454 -----We~~Gy~V~GAAL--s--GKAAegLe~~sGI~SRTLAS-------le~aW~~G~d~L~~~dvLviDEAGMV~S~Q 517 (888)
T TIGR02768 454 -----WEAAGYRVIGAAL--S--GKAAEGLEAESGIESRTLAS-------LEYAWANGRDLLEDKDVLVIDEAGMVGSRQ 517 (888)
T ss_pred -----HHHCCCEEEEHHH--H--HHHHHHHHCCCCCCHHHHHH-------HHHHHHCCCCCCCCCCEEEEECCCCHHHHH
T ss_conf -----9873977871545--5--58988730026875047887-------999987387522477668985154414677
Q ss_pred HHHHHHHHCCCCCCCEEEE-CCHHH
Q ss_conf 9998864022444746776-71353
Q gi|254780332|r 331 LATRARRLKRQRGLDLLIV-DYIQL 354 (504)
Q Consensus 331 I~~~~r~~~~~~gi~~vvI-DYLql 354 (504)
T Consensus 518 m-~r~l~~A~~AGaKvVLvGD~~QL 541 (888)
T TIGR02768 518 M-ARVLKEAEEAGAKVVLVGDPEQL 541 (888)
T ss_pred H-HHHHHHHHHCCCCEEEECCHHHH
T ss_conf 8-89999998727605984885782