HHsearch alignment for GI: 254780129 and conserved domain: TIGR01587
>TIGR01587 cas3_core CRISPR-associated helicase Cas3; InterPro: IPR006474 This entry represents a highly conserved core region of the Cas3 sequences. The proteins are found in association with CRISPR repeat elements in a broad range of bacteria and Archaea . Cas3 appears to be a helicase, containing a DEAD/DEAH box region and conserved C-terminal domain. Some but not all members have an N-terminal HD domain region (IPR006674 from INTERPRO), these sequences are not included within this group..
Probab=98.49 E-value=4.4e-07 Score=59.81 Aligned_cols=140 Identities=16% Similarity=0.176 Sum_probs=73.6
Q ss_pred CEEEECCCCCHHHHHHHHHHH----HHHCCCCCEEEEECCCCCHHHHHHHHHH----HCCCCCCEEEEEEC------CCC
Q ss_conf 199968999889999999999----9740899489972331013788999985----15534606998611------210
Q gi|254780129|r 22 CALWASMGSGKTVSVLFALST----IKILDPRPVLIIAPLRVAQYVWKDEVER----WSAFSDMTVSSLIG------SER 87 (220)
Q Consensus 22 ~~l~~~~G~GKT~~ai~~~~~----~~~~~~~~~LIi~P~s~~~~~W~~e~~~----~~~~~~~~~~~~~~------~~~ 87 (220)
T Consensus 2 ~v~~APTG~GKTe~aL~~A~~sah~~k~~~~~~~I~alP~r~~~na~~~r~~~sash~Fg~P~~-~~~~~ssrfnh~~~~ 80 (424)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALKSAHLIKKQKADKVIFALPTRVTINAMYRRLKESASHLFGSPEL-VLLLHSSRFNHLASS 80 (424)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCEEEECCHHHHHHHHHHHHHHHHHHHCCCCCC-CCCCCCCHHHHHHHH
T ss_conf 6886178998789999999863666422444010122026888999999999867754178543-233455226789999
Q ss_pred CCCCCC-----------------CC-----CCCEEEECHHHHHCCCCCC----CC-------CCCCCCCCCCHHHCCCCC
Q ss_conf 112234-----------------56-----7662786566731000000----00-------247200002512201365
Q gi|254780129|r 88 QRIKAL-----------------NT-----PAHLYIINFENIPWLVKMK----LD-------HWDFATIVVDESTKLKSF 134 (220)
Q Consensus 88 ~~~~~~-----------------~~-----~~~~~i~~~~~l~~~~~~~----~~-------~~~~~~iIiDEaH~~kn~ 134 (220)
T Consensus 81 ik~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~pi~~~T~d~~~~~~~~~ssGs~~~~~~~~~~~~~S~~i~DE~h~y~~~ 160 (424)
T TIGR01587 81 IKLRKIKEKGDSEELEKLVKLYIHSNKKLFLKPITVCTIDQVLKSVFGESSGSFGHYEITLASIANSLIIFDEVHAYEEY 160 (424)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHCCCCHHEEECCCCCCCHHHHHEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99877630478279999998522421210131788534122000000553445205688887777676562536777642
Q ss_pred CCCCHHH-HHHHHHHHHHCCCCEEEEECCCCCC
Q ss_conf 4332036-9999999851379879983165324
Q gi|254780129|r 135 RTHQGTK-QTRALGKVAFSKVKRFIELTGTPSP 166 (220)
Q Consensus 135 ~~~~~~k-~~k~l~~~~~~~~~~~l~LTgTPi~ 166 (220)
T Consensus 161 ~---~~~~~l~~L~~~~~~~~~~~~lMsAT-lP 189 (424)
T TIGR01587 161 T---LALTILAALEVLKIDNDVKILLMSAT-LP 189 (424)
T ss_pred H---HHHHHHHHHHHHHHHCCCCEEEEECC-CC
T ss_conf 5---55569999999998738988998405-67