HHsearch results for GI: 254781003 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=99.95 E-value=1.5e-25 Score=156.49 Aligned_cols=222 Identities=17% Similarity=0.189 Sum_probs=109.6
Q ss_pred CCCCEEEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHCCCCCEEEEECCCCC
Q ss_conf 78826999983014788667666776531018899999999986089889999507857999860333430786214556
Q gi|254781003|r 20 VAQKVRLVSWNINTLSEQEGVSLWKNSVKRTTSDYTLLRQYAKNLDADIVFLQEMGSYNAVAKVFPKNTWCIFYSTERLI 99 (304)
Q Consensus 20 ~~~~lrV~twNi~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~DIi~lQEv~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (304)
.+..||||||||+++. ...+...|.++|.+.+||||||||+.....-........+...+.....
T Consensus 4 ~~~~lki~t~Ni~g~~--------------~~~~~~~i~~~i~~~~pDIi~LQEt~~~~~~~~~~~~~~~~~~~~~~~~- 68 (238)
T 1vyb_A 4 SNSHITILTLNINGLN--------------SAIKRHRLASWIKSQDPSVCCIQETHLTCRDTHRLKIKGWRKIYQANGK- 68 (238)
T ss_dssp CCCCEEEEEEECSCCC--------------SHHHHHHHHHHHHHHCCSEEEEECCCCCTTSGGGCCCTTCCEEEEECCS-
T ss_pred CCCCCEEEEEECCCCC--------------CHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCHHHCCCCEEEEEECC-
T ss_conf 9888899999888841--------------2344679999998669929999836466244531111034306644103-
Q ss_pred CCCCCCCCCCCEEEEEEECCCEEEEEEECCCCCCCCCCCCCCCCEEEEEEEEECCEEEEEEEECCCCCCCCCCCHHHHHH
Q ss_conf 75432234463158998258526765301224676555555653369999982994999999406788877520000257
Q gi|254781003|r 100 NHSKRDSNNDIHTAIAVRKKNVRVLQQSYPLLGAKDSFSRAGNRRAVELLVEINGKKIWVLDIHLKSFCFLDSLENTYSP 179 (304)
Q Consensus 100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~v~n~Hl~~~~~~~~~~~~~~~ 179 (304)
....+.++.++.+........... .......+.+...+..+.++|+|++.... .
T Consensus 69 -------~~~~g~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~i~~vy~~~~~~--------~- 122 (238)
T 1vyb_A 69 -------QKKAGVAILVSDKTDFKPTKIKRD----------KEGHYIMVKGSIQQEELTILNIYAPNTGA--------P- 122 (238)
T ss_dssp -------SSSCCEEEEECTTCCCEEEEEEEC----------TTSSEEEEEEEETTEEEEEEEEECCSSSH--------H-
T ss_pred -------CCCCCEEEEEEECCCEECCCCCCC----------CCCCEEEEEEEECCCEEEEEEECCCCCHH--------H-
T ss_conf -------674555899750231001564457----------55540236885057449999623763024--------7-
Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCH---------HHHHHHHHCCCCCCCCC----CCCCCCCCC
Q ss_conf 78999999999999986303689809998026888776620---------46898752255753111----445678765
Q gi|254781003|r 180 SCSLLSQQAQWLKDWITQKKESLVPFVIAGDFNRKINYLGN---------NDDFWKTIDPNDSLIRF----PKEKDSRCN 246 (304)
Q Consensus 180 ~~~~~~~q~~~l~~~~~~~~~~~~~vIi~GDfN~~~~~~~~---------~~~~~~~~~~~~~~~~~----~~~~~~~~~ 246 (304)
... .+.+.. .. ...+.++|++||||..+..... .......+.. ..+... .......++
T Consensus 123 --~~~---~~~~~~-~~--~~~~~~~il~GDfN~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~l~d~~r~~~~~~~~~t~ 193 (238)
T 1vyb_A 123 --RFI---KQVLSD-LQ--RDLDSHTLIMGDFNTPLSTLDRSTRQKVNKDTQELNSALHQ-ADLIDIYRTLHPKSTEYTF 193 (238)
T ss_dssp --HHH---HHHHHH-TT--TTCCTTEEEEEECSSCSSGGGBTTCCCCCHHHHHHHHHHHH-TTEEEHHHHHCTTCCCCSE
T ss_pred --HHH---HHHHHH-HH--HHCCCCCEECCCCCCCCCHHHCCCCCCCCHHHHHHHHHHHH-CCCCCCCCEECCCCCCCCC
T ss_conf --788---888999-98--63036501101004687455423500021356888998863-0355312120136875551
Q ss_pred CCCCCCCCCCEEEEEECCCHHHCCCCCCEEEEEECCCCCCCCCCCCCCCCCEEEEEE
Q ss_conf 646688820147999862043100247217864113455444555576343899984
Q gi|254781003|r 247 ANKNLRNKIPIDYFVMDQNAYKFLIQESFSEILYNEDDIKSRGKRLSDHCPISIDYD 303 (304)
Q Consensus 247 ~~~~~~~~~~iD~I~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SDH~PV~~~l~ 303 (304)
.........||||||+++......... .+. + ..+|||+||+++|-
T Consensus 194 ~~~~~~~~~rID~i~~s~~~~~~~~~~--~v~-------~---~~~SDH~pv~~~Lk 238 (238)
T 1vyb_A 194 FSAPHHTYSKIDHIVGSKALLSKCKRT--EII-------T---NYLSDHSAIKLELR 238 (238)
T ss_dssp EETTTTEEECCEEEEEEGGGGGGEEEE--EEE-------C---CSSSSSCEEEEEEC
T ss_pred CCCCCCCCCEEEEEEECCHHHHHCCEE--EEC-------C---CCCCCCCCEEEEEC
T ss_conf 047889786267999784797026299--968-------9---97998201899969