HHsearch alignment for GI: 254780382 and conserved domain: pfam05876

>pfam05876 Terminase_GpA Phage terminase large subunit (GpA). This family consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities.
Probab=94.55  E-value=0.26  Score=27.34  Aligned_cols=124  Identities=17%  Similarity=0.232  Sum_probs=61.0

Q ss_pred             CCCHHHHHHHHHHHCC--CCEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCHHHHHHHH-HHHHHHCCCC
Q ss_conf             7898999999999769--979998279851789999999999860652147827999828589999999-9987410233
Q gi|254780382|r   23 KPTPIQIKTIPLVLQR--HDVCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRELAAQVA-DNFEKYGKNY   99 (465)
Q Consensus        23 ~pt~iQ~~~i~~~l~g--~dvi~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~lil~PtreLa~Qi~-~~~~~~~~~~   99 (465)
T Consensus        16 ~~~Py~~eimd~l~~~~v~~V~~~k~aQ~GkT~~~-~n~igy~i~~---~P~-p~l~v~Pt~~~a~~~s~~rl~Pmi~~s   90 (552)
T pfam05876        16 DRTPYLREIMDALSPPSVERVVFMKSAQVGKTELL-LNWIGYFIDH---DPA-PMLVVQPTDDDAKRFSKDRLDPMIRAS   90 (552)
T ss_pred             CCCCHHHHHHHHCCCCCCEEEEEEECCCCCHHHHH-HHHHHHHHHH---CCC-CEEEEECCHHHHHHHHHHHHHHHHHCC
T ss_conf             88807699998548878449999957870388999-9999886630---898-879994189999999999899998619


Q ss_pred             -CCCCCCCCCCCCCCCC----CCCCCCHHHHHHCCCCHHHHHHHCCCCCCCCCEEECCCCCCCCC
Q ss_conf             -3221000012222222----22221011221022102333320000001210010255100000
Q gi|254780382|r  100 -NLTVALLIGGIPFEAQ----NKKLERGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRML  159 (465)
Q Consensus       100 -~l~~~~~~gg~~~~~~----~~~l~~~~~IiV~TP~rl~~~l~~~~~~l~~~~~lViDEah~l~  159 (465)
T Consensus        91 P~L~~-~~~~~~~r~~~nt~~~K~f~gg-~l~~~ga~------S~~~L~s~~~r~l~~DEvD~~~  147 (552)
T pfam05876        91 PALRE-RLAPARSRDSDNTLLSKRFPGG-SLLLIGAN------SPANLRSRPVRYVILDEVDAYP  147 (552)
T ss_pred             HHHHH-HHCCCCCCCCCCCEEEEEECCC-EEEEEECC------CCHHHHCCCCCEEEECCHHHCC
T ss_conf             89997-5075556566774124760783-79995579------9614304863558851344365