HHsearch results for GI: 254780288 and protein with PDBid: 1vyb_A

>1vyb_A ORF2 contains A reverse transcriptase domain; endonuclease, APE-1 type, retrotransposition, retrotransposon, transferase; 1.8A {Homo sapiens} SCOP: d.151.1.1 PDB: 2v0s_A 2v0r_A
Probab=100.00  E-value=1.5e-44  Score=268.41  Aligned_cols=231  Identities=25%  Similarity=0.350  Sum_probs=164.9

Q ss_pred             CCCEEEEEEECCHHH--HHHHHHHHHHHHCCCEEEEEEEECCHHHCCHHHHHHCCCEEEEEECCCCCCEEEEEEECCEEE
Q ss_conf             700799871031888--899899999872898899985657944589778732897899930477651489874031378
Q gi|254780288|r    2 SVVTVATWNVNSIRA--RIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCGQKSYNGVAILSKYQPIEI   79 (281)
Q Consensus         2 ~~lrI~TwNinglr~--r~~~l~~~l~~~~pDIi~LQEvk~~~~~~~~~~~~~~gy~~~~~~~k~~~GvaIlsk~~~~~v   79 (281)
                      +.|||+||||||++.  +..++.++|++++|||||||||+.....+........+|++......+++|+|+++|+++...
T Consensus         6 ~~lki~t~Ni~g~~~~~~~~~i~~~i~~~~pDIi~LQEt~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~   85 (238)
T 1vyb_A            6 SHITILTLNINGLNSAIKRHRLASWIKSQDPSVCCIQETHLTCRDTHRLKIKGWRKIYQANGKQKKAGVAILVSDKTDFK   85 (238)
T ss_dssp             CCEEEEEEECSCCCSHHHHHHHHHHHHHHCCSEEEEECCCCCTTSGGGCCCTTCCEEEEECCSSSSCCEEEEECTTCCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCHHHCCCCEEEEEECCCCCCCEEEEEEECCCEE
T ss_conf             88899999888841234467999999866992999983646624453111103430664410367455589975023100


Q ss_pred             EECCCCCCCCCCCCEECCCCCCCCCEEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCCC
Q ss_conf             63255564432330101100023207999631046678544310123677776553322232014760000110146867
Q gi|254780288|r   80 VTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITSTKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQ  159 (281)
Q Consensus        80 ~~~~~~~~~d~~~R~i~~~i~~~~~~i~v~n~y~P~g~~~~~~~~~~k~~~~~~l~~~l~~~~~~~~~vIi~GDFN~a~~  159 (281)
                      ......   +..++...+.+......+.++|+|+|++..   .      ++...+...+.+  ....++|++||||..+.
T Consensus        86 ~~~~~~---~~~~~~~~~~~~~~~~~~~i~~vy~~~~~~---~------~~~~~~~~~~~~--~~~~~~il~GDfN~~~~  151 (238)
T 1vyb_A           86 PTKIKR---DKEGHYIMVKGSIQQEELTILNIYAPNTGA---P------RFIKQVLSDLQR--DLDSHTLIMGDFNTPLS  151 (238)
T ss_dssp             EEEEEE---CTTSSEEEEEEEETTEEEEEEEEECCSSSH---H------HHHHHHHHHTTT--TCCTTEEEEEECSSCSS
T ss_pred             CCCCCC---CCCCCEEEEEEEECCCEEEEEEECCCCCHH---H------HHHHHHHHHHHH--HCCCCCEECCCCCCCCC
T ss_conf             156445---755540236885057449999623763024---7------788888999986--30365011010046874


Q ss_pred             CCCCHHHHHCCCCCCCCHHHHHHHHHCCCCCHHHHCCCCCCCCCCEECCCCCCCCCCCCCCCEEEEEEECHHHHHHHHCE
Q ss_conf             42000012104873446345565321033100000013378887200357876752557771356999477898333202
Q gi|254780288|r  160 PHDCYNPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSA  239 (281)
Q Consensus       160 ~~D~~~~~~~~~~~~~~~~er~~~~~l~~~gl~D~~r~~~~~~~~yT~~~~~~~~~~~n~G~RID~il~s~~l~~~v~~~  239 (281)
                      +.|.....      +...+.+.....+.+.||.|+||.+++....+|||+++.+.     +.||||||+|+.+..++.++
T Consensus       152 ~~~~~~~~------~~~~~~~~~~~~l~~~~l~d~~r~~~~~~~~~t~~~~~~~~-----~~rID~i~~s~~~~~~~~~~  220 (238)
T 1vyb_A          152 TLDRSTRQ------KVNKDTQELNSALHQADLIDIYRTLHPKSTEYTFFSAPHHT-----YSKIDHIVGSKALLSKCKRT  220 (238)
T ss_dssp             GGGBTTCC------CCCHHHHHHHHHHHHTTEEEHHHHHCTTCCCCSEEETTTTE-----EECCEEEEEEGGGGGGEEEE
T ss_pred             HHHCCCCC------CCCHHHHHHHHHHHHCCCCCCCCEECCCCCCCCCCCCCCCC-----CCEEEEEEECCHHHHHCCEE
T ss_conf             55423500------02135688899886303553121201368755510478897-----86267999784797026299


Q ss_pred             EEECHHHCCCCCCCCCCEEEEEE
Q ss_conf             87122206867676221999995
Q gi|254780288|r  240 RIDTKPRGWTKPSDHTPVIVSLD  262 (281)
Q Consensus       240 ~I~~~~~~~~~~SDH~Pv~~~l~  262 (281)
                      +|+.+     .+|||+||+++|.
T Consensus       221 ~v~~~-----~~SDH~pv~~~Lk  238 (238)
T 1vyb_A          221 EIITN-----YLSDHSAIKLELR  238 (238)
T ss_dssp             EEECC-----SSSSSCEEEEEEC
T ss_pred             EECCC-----CCCCCCCEEEEEC
T ss_conf             96899-----7998201899969