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