HHsearch alignment for GI: 255764515 and conserved domain: TIGR00604

>TIGR00604 rad3 DNA repair helicase (rad3); InterPro: IPR013020 All proteins in this family for which functions are known are DNA-DNA helicases that function in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. .
Probab=96.54  E-value=0.013  Score=33.98  Aligned_cols=134  Identities=10%  Similarity=0.204  Sum_probs=75.6

Q ss_pred             CHHHHHHCCC--CCEEEEHHHHHHHHHHH-----------------------HHCCCCCCCH-HHHHHHHHHHC----CC
Q ss_conf             2566541248--84034222367888664-----------------------1000265334-45899876424----58
Q gi|255764515|r  311 ALEVIIEKAN--AAPIIVAYHFNSDLARL-----------------------QKAFPQGRTL-DKDPCTIQEWN----EG  360 (458)
Q Consensus       311 ~l~~il~~~~--~~kviif~~~~~~~~~i-----------------------~~~~~~g~~~-~~r~~~i~~f~----~~  360 (458)
T Consensus       598 ~l~~~~~~~Pkk~Giv~FfpSY~yl~~~v~~W~~~gi~~~snesfWek~~~~K~if~E~~D~~~e~~~~~~~Y~~a~~~G  677 (813)
T TIGR00604       598 LLVELSKIIPKKDGIVVFFPSYSYLEQIVSTWKEMGILENSNESFWEKIEKKKLIFVETKDAPQETSDALERYKQAVSEG  677 (813)
T ss_pred             HHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHHHCC
T ss_conf             99999971588788789976389999999998753720100046899987487558608888788699999989998618


Q ss_pred             CCCEEEEEH-HHCCCCCCCCC-CCCEEEEECCCC-CH---------------------------------------HHHH
Q ss_conf             855899844-22111622001-785999908998-98---------------------------------------6864
Q gi|255764515|r  361 KIPLLFAHP-ASCGHGLNLQY-GGNILVFFSLWW-DL---------------------------------------EEHQ  398 (458)
Q Consensus       361 ~~~vli~s~-~~~~~GlnL~~-a~~~iI~~~~~w-n~---------------------------------------~~~~  398 (458)
T Consensus       678 rGA~LlsV~gGK~SEGIdF~d~~gRAVi~~GiPYPni~d~~~~~~~~~~a~~~~~~~~~~~~~~~qt~~fy~~~aMR~vn  757 (813)
T TIGR00604       678 RGAVLLSVAGGKVSEGIDFSDDLGRAVIMVGIPYPNIFDEEYTESRVLKARLEFLRDQYQIRENSQTKDFYEFDAMRAVN  757 (813)
T ss_pred             CCEEEEEECCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCEEEECHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             87076332044220574454764676899821688875750550187898897753256214567777765558999998


Q ss_pred             HHHHHHHCCCCHHCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             45666620220203787752899998589968999999999999999998554137455
Q gi|255764515|r  399 QMIERIGVTRQRQAGFKRAVFVYYLIAQNTIDELVLQRLRTKSTIQDLLLNALKKETIH  457 (458)
Q Consensus       399 Q~~gRi~~~r~hR~Gq~~~v~v~~li~~~tide~i~~~~~~K~~~~~~~~~~~~~~~~~  457 (458)
T Consensus       758 Q~~GRviRh~------~Dyg~~~L~------D~R-Y~r~~~r~kLP~Wi~~~i~~~~~~  803 (813)
T TIGR00604       758 QAIGRVIRHK------DDYGSIVLL------DKR-YARSDKRKKLPKWIQDTIQSSDLN  803 (813)
T ss_pred             HHHHHHHCCC------CCCEEEEEE------ECC-CCCHHHHHHHHHHHHHHCCCCCCC
T ss_conf             8651342278------741268996------122-163323250138888405366776