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