HHsearch alignment for GI: 254780485 and conserved domain: TIGR00089

>TIGR00089 TIGR00089 RNA modification enzyme, MiaB family; InterPro: IPR005839 This entry represents a family defined on the basis of sequence similarity. Most of these proteins are not yet characterised, but those that are include CDK5 regulatory subunit-associated protein 1, which specifically inhibits CDK5 activation by CDK5R1 . MiaB, a tRNA modification enzyme . The size of proteins in this entry ranges from 47 to 61 kDa and they contain six conserved cysteines, three of which are clustered. .
Probab=99.48  E-value=1.5e-11  Score=97.12  Aligned_cols=189  Identities=16%  Similarity=0.306  Sum_probs=136.5

Q ss_pred             EEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCEEEEEECC----C-CCCCC--CC-HHHH
Q ss_conf             998645307868342321243354777564100068579999999999649838997303----6-88874--42-8999
Q gi|254780485|r   54 LSKLLNIKTGGCPENCGYCNQSVHNKSKLKASKLINVDQVLKEAKNAKENGATRYCMGAA----W-REPKE--RD-LSII  125 (328)
Q Consensus        54 ~~~~in~~TN~C~~~C~fCaf~~~~~~~~~~~~~~~~Eei~~~a~~~~~~G~~~~~l~~~----~-~~~~~--~~-~~~~  125 (328)
T Consensus       153 ~~a~~~I-~~GC~~~CtyCivP~-~RG--~-~rSr~~e~Il~E~~~Lv~~G~kEi~L~Gqnv~~YgG~D~~~~~~~La~L  227 (455)
T TIGR00089       153 TRAFVKI-QEGCDKFCTYCIVPY-TRG--R-ERSRPPEDILEEVKELVSKGVKEITLLGQNVNAYGGKDLEGKTNSLADL  227 (455)
T ss_pred             EEEEEEE-CCCCCCCCCEEEECC-CCC--E-ECCCCHHHHHHHHHHHHHCCCEEEEEEEEEECCCCCCCCCCCCCCHHHH
T ss_conf             3899984-026586977688134-266--0-0135889999999999846980999998852562477888897647999


Q ss_pred             HHHHHH-HCCC-CCC-EEEECCCCCHHHHHHHHCC--C--CCEEEEECCC-CHHHHHCCCCCCCHHHHHHHHHHHHHC--
Q ss_conf             998876-2136-883-2410256999999987415--7--6069751343-777732058888989999999999987--
Q gi|254780485|r  126 VDMIKG-VKSL-GLE-TCMTLGMLSFEQAQILSKA--G--LDYYNHNIDT-SERFYPHVTTTHTFEDRLQTLENVRKS--  195 (328)
Q Consensus       126 ~e~i~~-i~~~-~~~-i~~~~g~~~~~~~~~Lk~a--G--~~~~~~~let-~~~~~~~~~~~~~~~~~l~~~~~a~~~--  195 (328)
T Consensus       228 L~~l~~ki~G~~RIR~~~~hP~~~~d~li~~~~~~~~~~v~~~lHlPvQSGSd~iLK~M~R~Y~~e~~~~~~~k~r~~~P  307 (455)
T TIGR00089       228 LRELSKKIDGIERIRFTSSHPDDVTDDLIELIAENKDPKVCKHLHLPVQSGSDRILKRMNRKYTREEYLEIVEKLRAKVP  307 (455)
T ss_pred             HHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHHHCCCCCCCCEECCCEECCCHHHHHCCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             99984005970268860467032687899999850788535202212661886999703789888999999999998478


Q ss_pred             CCCCCCEEEECC-CCCHHHHHHHHHHHHHCCCCCCEEECCCEEECCCCCCCCCCC
Q ss_conf             985577078668-989999999999997408888602054112048741244568
Q gi|254780485|r  196 GIKVCCGGILGL-GEMIDDRIDMLLTLANLSTPPESIPINLLIPIPGSKFEENKK  249 (328)
Q Consensus       196 G~~~~sg~l~G~-gEt~eeri~~l~~lr~l~~~~~~v~~~~~~p~~gt~l~~~~~  249 (328)
T Consensus       308 ~~~i~TDiIVGFPGETeEdF~~Tl~l~~ev~F--~~~~~F~YSpR~gTpAa~~~d  360 (455)
T TIGR00089       308 DAAITTDIIVGFPGETEEDFEETLDLVEEVKF--DKLHSFIYSPRPGTPAADMKD  360 (455)
T ss_pred             CCEEECCEEECCCCCCHHHHHHHHHHHHHCCC--CEEEEECCCCCCCCCCCCCCC
T ss_conf             81775026882899988999999999852384--434312057888874635678