HHsearch alignment for GI: 254781215 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=99.95  E-value=4.1e-24  Score=170.68  Aligned_cols=363  Identities=16%  Similarity=0.129  Sum_probs=229.4

Q ss_pred             EEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHHHHHHCHHCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             65025765978999999999998089966999808589999999999999998550001344432222223334443211
Q gi|254781215|r   81 AISAGRGIGKTTLNAWLVLWLMSTRPGISVICLANSETQLKTTLWAEVSKWLSLLPNKHWFEMQSLSLHPAPWYSDVLHC  160 (511)
Q Consensus        81 aV~sgrG~GKS~l~a~l~lw~l~~~p~~kv~vtApt~~Q~~~ilw~Ei~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (511)
T Consensus         6 v~~GGrgsgKS~~~a~~~i~~~~~~~-~~~l~~r~~~~slr~sv~~~~~~~i~~~~~~~~~~~~~s~~~i~~--------   76 (387)
T pfam04466         6 VAKGGRGSGKSYHIALKLVLKLLMHP-RTNLVIREVKNTIEDSVFTQLQEALSMLGLDHEFKISKSPIEITV--------   76 (387)
T ss_pred             EEEECCCCHHHHHHHHHHHHHHHHCC-CEEEEEECCHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCEEEEE--------
T ss_conf             99908886799999999999998789-869999755688999999999999997699734897376148998--------


Q ss_pred             CCCCCCCEEEEEECCCCCCCCCHHHHCCCCCCEEEEECCHHCCCHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCHHHHH
Q ss_conf             12357861698530357556100212026761499971110299788988888850799813899823899876556765
Q gi|254781215|r  161 SLGIDSKHYSTMCRTYSEERPDTFVGHHNTYGMAIINDEASGTPDVINLGILGFLTERNANRFWIMTSNPRRLSGKFYEI  240 (511)
Q Consensus       161 ~~~~~~~~~~~~~~~~s~~~~ea~~G~h~~~~~lvI~DEAsgI~d~i~e~i~~~Lt~~g~~~~~i~~~nP~~~~g~fy~~  240 (511)
T Consensus        77 --~-~~gs~i~f~---G~d~~~~iks~~~--i~~~~~eEa~~~~~~~~~~l~~~~r~~~~~~~i~~~~NP~~~~~w~~~~  148 (387)
T pfam04466        77 --K-INGSKFLFY---GMDDPAKIKSIKD--VSDAWIEEAAEFKTEDFDQLIPTIRRPKPGSEIFMSFNPVNKLNWTYKR  148 (387)
T ss_pred             --C-CCCCEEEEE---ECCCHHHHHCCCC--CEEEEEECHHHCCHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCHHHHH
T ss_conf             --7-899699998---5789688416366--1499994124479989999998853178871999982899987748899


Q ss_pred             HHCC-----CCCCEEEEECCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCCCEEECHHHHHHHHHCCCCCCCC
Q ss_conf             3035-----24741798404336778977899999751898013544431756666787375599998864076531899
Q gi|254781215|r  241 FNKP-----LDDWKRFQIDTRTVEGIDPSFHEGIIARYGLDSDVTRVEVCGQFPQQDIDSFIPLNIIEEALNREPCPDPY  315 (511)
Q Consensus       241 ~~~~-----~~~w~~~~i~~~~~p~~~~~~ie~~~~~~geds~~~r~evlgeFp~~~~~~~i~~~~ie~a~~r~~~~~~~  315 (511)
T Consensus       149 ~~~~~~~~~~~~~~~~~~ty~DNp~L~~~~i~~~e~~k~~dp~~y~~~~lGe~~~~~g~V~~~~~~~--~~~~~~~~~~~  226 (387)
T pfam04466       149 FFKNDKSELDDDTYIHHSTYRDNPFLPEVDIREIEELKRRNPDYYRIEYLGEFGGLGTLVLPNFEIK--PLWVEAAEDAH  226 (387)
T ss_pred             HHCCCCCCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHCCHHHHHHHHCCCEEECCCEEEECCEEE--ECCCCCHHHHH
T ss_conf             7417754677885999999616998999999999998703999989977571563487797354455--52326402200


Q ss_pred             CEEEEEEECCCCCCCCEEEEE----ECCCEEEEEEECCCCCHHHHHHHHHHHHHHC--CCCEEEEEECCCCHHHHHHHHH
Q ss_conf             708999623334784179998----2275589987327789889999999999861--8882998006876368898986
Q gi|254781215|r  316 APLIMGCDIAEEGGDNTVVVL----RRGPVIEHLFDWSKTDLRTTNNKISGLVEKY--RPDAIIIDANNTGARTCDYLEM  389 (511)
Q Consensus       316 ~~~viGvDVAr~G~D~svi~~----r~G~~v~~~~~~~~~d~~~~a~~i~~~~~~~--~~~~i~iD~~GvG~gV~d~L~~  389 (511)
T Consensus       227 ~~~~~G~D~G~-~~dpta~v~~~~~~~~~~lyi~~e~y~~~~~~~~~~~~~~~~~~~~~~~~i~~d--sa~p~~i~~~~~  303 (387)
T pfam04466       227 IKLGFKRDFGF-DESATASVRGALDVKKKVIYLYDEYYDPANQAIDDRTAEVLRDKNYTKEAIKAD--SAEAKSIAALKS  303 (387)
T ss_pred             CCCCCCEECCC-CCCCCEEEEEEEECCCCEEEEEEEEECCCCCCCCHHHHHHHHHCCCCCCEEECC--CCCCCHHHHHHH
T ss_conf             03342135464-378877999999779989999999984678766089999988637666502236--768525679987


Q ss_pred             CC-CEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC-----CCHHHHHHHHHCCCEEEECCCCEEEEEECHHHCC
Q ss_conf             49-82798427777664025522799999999999970899-----9818999998579679987998499984125489
Q gi|254781215|r  390 LG-YHVYRVLGQKRAVDLEFCRNRRTELHVKMADWLEFASL-----INHSGLIQNLKSLKSFIVPNTGELAIESKRVKGA  463 (511)
Q Consensus       390 ~g-~~v~~v~~~~~~~~~~~y~N~rae~~~~~re~l~~g~l-----~~d~~l~~el~~~~~~~~~~~gki~ie~Kkkrg~  463 (511)
T Consensus       304 ~~~~~~~~~~k~~~sv------~~gi~~l~~~~~i~~~~~~~~~~~~~C~~~i~E~~~Y~-w~~d~~g~~~--~~--p~d  372 (387)
T pfam04466       304 PGIFKIVGAKKGPGSV------LQKTRFLDTFRAVLIGEYLDPDDIPRCENTIEELNKYQ-YKKDKNGALI--PD--EMK  372 (387)
T ss_pred             HCCHHHHCCCCCCCCH------HHHHHHHHHHHHHHHCCCCEECCCCCCHHHHHHHHCCE-ECCCCCCCCC--CC--CCC
T ss_conf             1543441230489727------88888999999996057620026878989999997781-3668999988--88--889


Q ss_pred             CCCCHHHHHHHHH
Q ss_conf             9989899999997
Q gi|254781215|r  464 KSTDYSDGLMYTF  476 (511)
Q Consensus       464 ~SPD~ADAl~l~f  476 (511)
T Consensus       373 ~~dH~~DAlRYav  385 (387)
T pfam04466       373 KDPHTIDAIRYAV  385 (387)
T ss_pred             CCCCHHHHHHHHH
T ss_conf             9872577677602