HHsearch alignment for GI: 254780945 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=94.63  E-value=0.44  Score=28.04  Aligned_cols=131  Identities=13%  Similarity=0.211  Sum_probs=78.1

Q ss_pred             EEEEEECCCCCHHH-HHHHHHHHHHHHHCCEEEEEHHHH-HHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHC
Q ss_conf             07886214422369-999997334443054588612799-9999998621101457865899624642256676877621
Q gi|254780945|r  295 LRILQGDVGSGKTL-VALIAMAAAVEAGGQAVIMAPIGI-LAQQHYEFIKKYTQNTQIIVEIITGNMPQAHRRKALERIA  372 (700)
Q Consensus       295 ~RLLQGDVGSGKTi-VA~~A~l~~~~~G~Q~alMaPTEI-LA~QH~~~~~~~~~~~~i~v~lLtg~~~~~er~~i~~~i~  372 (700)
T Consensus         4 ~~v~~GGrgsgKS~~~a~~~i~~~~~~~~~~l~~r~~~~slr~sv~~~~~~~i~~~~~~~~~~~~~s~~~----i-~~~~   78 (387)
T pfam04466         4 YKVAKGGRGSGKSYHIALKLVLKLLMHPRTNLVIREVKNTIEDSVFTQLQEALSMLGLDHEFKISKSPIE----I-TVKI   78 (387)
T ss_pred             EEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCEE----E-EECC
T ss_conf             8999908886799999999999998789869999755688999999999999997699734897376148----9-9878


Q ss_pred             CCCCEEEEECHHHCCCCC-CCCCCCEEEECCCCCCCHHHHHHH----HHCCCCCCCEEECHHHHHH
Q ss_conf             347548641112013345-544441788521013356889987----4025677610101013227
Q gi|254780945|r  373 HGQAHIIIGTHALFQDSI-QYYKLILVIVDEQHRFGVQQRLKL----TQKATAPHVLLMTATPIPR  433 (700)
Q Consensus       373 ~G~~~iiIGTHAL~q~~v-~F~~LgLvViDEQHRFGV~QR~~L----~~Kg~~ph~L~MtATPIPR  433 (700)
T Consensus        79 ~gs~i~f~G~d~~--~~iks~~~i~~~~~eEa~~~~~~~~~~l~~~~r~~~-~~~~i~~~~NP~~~  141 (387)
T pfam04466        79 NGSKFLFYGMDDP--AKIKSIKDVSDAWIEEAAEFKTEDFDQLIPTIRRPK-PGSEIFMSFNPVNK  141 (387)
T ss_pred             CCCEEEEEECCCH--HHHHCCCCCEEEEEECHHHCCHHHHHHHHHHHCCCC-CCEEEEEECCCCCC
T ss_conf             9969999857896--884163661499994124479989999998853178-87199998289998