HHsearch alignment for GI: 254780382 and conserved domain: pfam04466

>pfam04466 Terminase_3 Phage terminase large subunit. Initiation of packaging of double-stranded viral DNA involves the specific interaction of the prohead with viral DNA in a process mediated by a phage-encoded terminase protein. The terminase enzymes are usually hetero-oligomers composed of a small and a large subunit. This region is found on the large subunit and possess an endonuclease and ATPase activity that require Mg2+ and a neutral or slightly basic reaction. This region is also found in bacterial sequences.
Probab=95.64  E-value=0.064  Score=31.29  Aligned_cols=139  Identities=13%  Similarity=0.146  Sum_probs=63.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCHH-HHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             9998279851789999999999860652147827999828589-999999998741023332210000122222222222
Q gi|254780382|r   41 VCGIAQTGTGKTASFVLPMLTILEKGRARVRMPRTLILEPTRE-LAAQVADNFEKYGKNYNLTVALLIGGIPFEAQNKKL  119 (465)
Q Consensus        41 vi~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~lil~Ptre-La~Qi~~~~~~~~~~~~l~~~~~~gg~~~~~~~~~l  119 (465)
T Consensus         5 ~v~~GGrgsgKS~~~a~~~i~~~~~~~-----~~~l~~r~~~~slr~sv~~~~~~~i~~~~~~~~~~~~~s~~--~i~~~   77 (387)
T pfam04466         5 KVAKGGRGSGKSYHIALKLVLKLLMHP-----RTNLVIREVKNTIEDSVFTQLQEALSMLGLDHEFKISKSPI--EITVK   77 (387)
T ss_pred             EEEEECCCCHHHHHHHHHHHHHHHHCC-----CEEEEEECCHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCE--EEEEC
T ss_conf             999908886799999999999998789-----86999975568899999999999999769973489737614--89987


Q ss_pred             CCHHHHHHCCCCHHHHHHHCCCCCCCCCEEECCCCCCCCCCCCCHHHHHHHHHHHC--CCCCCCCCCCCCCCCCCCCCC
Q ss_conf             10112210221023333200000012100102551000000010035788754310--222223334321122221111
Q gi|254780382|r  120 ERGADVLICTPGRILDHFNRGKLLMNNIEILVIDEADRMLDMGFIPYIQNITSLVP--FTRQTLLFSATMTDELQKVSE  196 (465)
Q Consensus       120 ~~~~~IiV~TP~rl~~~l~~~~~~l~~~~~lViDEah~l~~~gf~~~i~~i~~~~~--~~~q~i~~SAT~~~~v~~l~~  196 (465)
T Consensus        78 ~~gs~i~f~G---~-d~~-~~iks~~~i~~~~~eEa~~~~~~~~----~~l~~~~r~~~~~~~i~~~~N-P~~~~~w~~  146 (387)
T pfam04466        78 INGSKFLFYG---M-DDP-AKIKSIKDVSDAWIEEAAEFKTEDF----DQLIPTIRRPKPGSEIFMSFN-PVNKLNWTY  146 (387)
T ss_pred             CCCCEEEEEE---C-CCH-HHHHCCCCCEEEEEECHHHCCHHHH----HHHHHHHCCCCCCEEEEEECC-CCCCCCHHH
T ss_conf             8996999985---7-896-8841636614999941244799899----999988531788719999828-999877488