HHsearch alignment for GI: 254781108 and conserved domain: cd01458
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.
Probab=95.63 E-value=0.14 Score=27.81 Aligned_cols=85 Identities=9% Similarity=0.142 Sum_probs=56.2
Q ss_pred CCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCC
Q ss_conf 88744588999999961134666665667666651699815887787777766314899999999789889999954797
Q gi|254781108|r 272 YENTNTYPAMHHAYRELYNEKESSHNTIGSTRLKKFVIFITDGENSGASAYQNTLNTLQICEYMRNAGMKIYSVAVSAPP 351 (398)
Q Consensus 272 ~G~T~~~~gl~~a~~~l~~~~~~~~~~~~~~~~~k~iillTDG~~~~~~~~~~~~~~~~~c~~~K~~gi~IytIg~~~~~ 351 (398)
T Consensus 103 ~~~~~l~~aL~~~~~~f~~~~~--------~~~~krI~lfTdnD~P~~~~~~~~~~a~~~a~DL~d~gI~iel~~l~~~~ 174 (218)
T cd01458 103 SGQVSLSDALWVCLDLFSKGKK--------KKSHKRIFLFTNNDDPHGGDSIKDSQAAVKAEDLKDKGIELELFPLSSPG 174 (218)
T ss_pred CCCCCHHHHHHHHHHHHHHCCC--------CCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCC
T ss_conf 8886799999999999985553--------45777799986899899988799999999998898779689998448998
Q ss_pred C---HHHHHHHHHCCC
Q ss_conf 5---589999985199
Q gi|254781108|r 352 E---GQDLLRKCTDSS 364 (398)
Q Consensus 352 ~---~~~~l~~cAs~~ 364 (398)
T Consensus 175 ~~Fd~s~FY~dii~~~ 190 (218)
T cd01458 175 KKFDVSKFYKDIIALV 190 (218)
T ss_pred CCCCCHHHHHHHHCCC
T ss_conf 8688067788752683