HHsearch alignment for GI: 254780601 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=99.85 E-value=2.8e-20 Score=155.60 Aligned_cols=290 Identities=19% Similarity=0.287 Sum_probs=181.0
Q ss_pred CEEEECCCCCCHHHHHHHHHHH---HHHCCCCCCCCCCCCEEEEECCCHHHHHHHHHHHHH----HHHHCCCEEEEEECC
Q ss_conf 6999928987468999999999---861042122556882799984998999999999999----854469879999889
Q gi|254780601|r 39 DVLVSAQTGSGKTVAFGLALAS---TLLAENDRFSPASAPLALAIAPTRELAVQVGRELEW----LYAKTGVVVAVCIGG 111 (573)
Q Consensus 39 d~i~~a~TGsGKT~af~lp~l~---~l~~~~~~~~~~~~~~~lil~PTrELa~Qv~~~~~~----l~~~~~~~v~~~~gg 111 (573)
T Consensus 1 ~~v~~APTG~GKTe~aL~~A~~sah~~k~~~~-------~~~I~alP~r~~~na~~~r~~~sash~Fg~P~~--~~~~~s 71 (424)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALKSAHLIKKQKA-------DKVIFALPTRVTINAMYRRLKESASHLFGSPEL--VLLLHS 71 (424)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHHHHHHHH-------CCEEEECCHHHHHHHHHHHHHHHHHHHCCCCCC--CCCCCC
T ss_conf 96886178998789999999863666422444-------010122026888999999999867754178543--233455
Q ss_pred CCH--HHHH---HHHC----------------CC------CEEEEECCCCHHHHHHC---CCCC-----CC--CCEEEEE
Q ss_conf 987--9999---9612----------------89------75998223101332100---0122-----46--4318999
Q gi|254780601|r 112 VSV--HRER---RDLQ----------------NG------AHIVVGTPGRLCDHIRG---KGLN-----IS--HLKAVVL 154 (573)
Q Consensus 112 ~~~--~~q~---~~l~----------------~~------~~iiv~TPgrl~d~~~~---~~l~-----l~--~v~~lVl 154 (573)
T Consensus 72 srfnh~~~~ik~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~pi~~~T~d~~~~~~~~~ssGs~~~~~~~~~~~~~S~~i~ 151 (424)
T TIGR01587 72 SRFNHLASSIKLRKIKEKGDSEELEKLVKLYIHSNKKLFLKPITVCTIDQVLKSVFGESSGSFGHYEITLASIANSLIIF 151 (424)
T ss_pred CHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHEEECCCCCCCHHHHHEEEECCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 22678999999877630478279999998522421210131788534122000000553445205688887777676562
Q ss_pred ECCCCCCCCHHHHH-HHHHHHHCC--CCCCEEEEECCCCCCCHHHHHHHCCCCCCCC----CCCCC------------CC
Q ss_conf 61311001001235-788875214--3342256311112220011112101233332----33323------------25
Q gi|254780601|r 155 DEADEMLDLGFRDD-IEFILDSSP--KKRRMLMFSATISPAITTLAKNYQKDAVRVN----IASEN------------RQ 215 (573)
Q Consensus 155 DEaD~ml~~gf~~~-i~~i~~~~p--~~~q~~l~SAT~~~~i~~l~~~~~~~p~~i~----~~~~~------------~~ 215 (573)
T Consensus 152 DE~h~y~~~-~~~~~~l~~L~~~~~~~~~~~~lMsATlP~~~~~~l~~~~~~~~~~~~~~~~~~~~~~GvnGaqrfdlla 230 (424)
T TIGR01587 152 DEVHAYEEY-TLALTILAALEVLKIDNDVKILLMSATLPRELKKFLKEYLEKIEYVEENELLDLKEVEGVNGAQRFDLLA 230 (424)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHC
T ss_conf 536777642-5555699999999987389889984056757899999873104763333557866435464202333321
Q ss_pred CC-----CC-CHHCCCCCCC--HHHHHHHHC-CC-CCCCCEEEEECCCHHHHHHHHHHHHHCCCC---CCCCCCCCCHHH
Q ss_conf 66-----52-0000000000--024554200-10-235641677513023345655555422666---301048999999
Q gi|254780601|r 216 HS-----DI-DYRAVLVALS--DRDNAIVNI-LR-YHGAKNAIVFCSTRASVSRFTKVLAEHLFQ---VVALSGELSQQE 282 (573)
Q Consensus 216 ~~-----~i-~~~~~~v~~~--~k~~~l~~l-l~-~~~~~~~ivF~~t~~~~~~l~~~L~~~g~~---~~~lhg~~~q~~ 282 (573)
T Consensus 231 hPe~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~NtV~~A~~~Y~~~kE~~p~~~~~~L~HsRF~~~D 310 (424)
T TIGR01587 231 HPEFKEKRFENHRISLIEKDKVGEISSLERLLLEELKKGGKVLIIVNTVDRAQEFYQKLKEKAPELEEVILLHSRFTEKD 310 (424)
T ss_pred CCHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHHHCCCCCCEEEEEECHHHHHHHHHHHHHCCCCCCCEEEEECCCCHHH
T ss_conf 72021002215764213432033134666677874157786699985438999999998512652002124404477003
Q ss_pred HH------HHHHHHHC-----CCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHCCCCCCCCC
Q ss_conf 99------99866544-----8814998538650014578873389705887478999860301037888
Q gi|254780601|r 283 RS------NALQMMRD-----GRARVCIATDVAARGIDLPDLELVIHAELSSNPENLLHRSGRTGRAGRK 341 (573)
Q Consensus 283 R~------~~~~~fr~-----g~~~vLV~TDvaaRGiDi~~v~~Vin~d~P~~~~~yvHR~GRtgRag~~ 341 (573)
T Consensus 311 R~~KEde~~~l~e~~~S~~~~~~~~v~V~TQv~E~SlD~s-~D~~iTe~aP--~d~LiQR~GR~~R~~~~ 377 (424)
T TIGR01587 311 RAKKEDEAELLKELKKSAWKDNEKFVIVATQVIEVSLDIS-VDVMITELAP--IDSLIQRLGRLNRYGRK 377 (424)
T ss_pred HHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEEEEEEEECC-CCHHHHHCCC--HHHHHHHHHHHCCCCCC
T ss_conf 6677679999998510135445770699878788864204-4413431150--12335542111011356