Query psy14859
Match_columns 1097
No_of_seqs 441 out of 2402
Neff 6.6
Searched_HMMs 29240
Date Fri Aug 16 22:35:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14859.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/14859hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1rw3_A POL polyprotein; RNA an 100.0 4.9E-70 1.7E-74 647.0 14.5 419 424-870 5-452 (455)
2 2zd1_B P51 RT; P51/P66, hetero 100.0 4.1E-64 1.4E-68 590.8 15.7 363 447-843 13-403 (428)
3 2zd1_A Reverse transcriptase/r 100.0 3.7E-62 1.3E-66 592.8 26.1 353 442-827 8-387 (557)
4 1mu2_A HIV-2 RT; HIV-2 reverse 100.0 3.1E-61 1.1E-65 584.5 19.4 315 443-789 7-343 (555)
5 3fsi_A RT, reverse transcripta 100.0 8.2E-46 2.8E-50 406.9 13.6 238 425-673 2-255 (255)
6 3hst_B Protein RV2228C/MT2287; 98.7 1.1E-08 3.8E-13 101.1 6.1 119 770-890 2-129 (141)
7 2ehg_A Ribonuclease HI; RNAse 98.7 1.5E-08 5E-13 101.6 5.5 116 772-890 2-130 (149)
8 3u3g_D Ribonuclease H, RNAse H 98.6 1.8E-08 6.1E-13 99.1 5.3 119 770-890 2-133 (140)
9 3oym_A PFV integrase, P42IN; p 98.4 5.1E-07 1.7E-11 104.2 8.5 115 939-1068 57-171 (395)
10 2e4l_A Ribonuclease HI, RNAse 98.3 2.7E-07 9.1E-12 93.6 3.9 116 770-890 5-141 (158)
11 3h08_A RNH (ribonuclease H); R 98.3 2E-07 7E-12 93.0 2.6 116 770-890 3-140 (146)
12 1jl1_A Ribonuclease HI; RNAse 98.3 3.8E-07 1.3E-11 92.1 4.0 116 770-890 3-139 (155)
13 3p1g_A Xenotropic murine leuke 98.3 8.8E-07 3E-11 90.5 6.4 116 770-890 22-152 (165)
14 1ril_A Ribonuclease H; hydrola 98.2 3.2E-07 1.1E-11 93.9 2.7 116 770-890 7-144 (166)
15 3qio_A GAG-POL polyprotein; RN 98.2 7.4E-07 2.5E-11 89.6 4.9 113 770-891 11-144 (150)
16 2qkb_A Ribonuclease H1, HS-RNA 98.2 1E-06 3.5E-11 88.7 5.6 115 770-890 6-147 (154)
17 2lsn_A Reverse transcriptase; 98.2 1.5E-06 5.2E-11 88.7 5.7 121 769-890 5-159 (165)
18 2kq2_A Ribonuclease H-related 98.1 4.5E-07 1.5E-11 90.8 -0.1 116 769-890 4-133 (147)
19 1zbf_A Ribonuclease H-related 97.7 4.1E-05 1.4E-09 76.1 5.9 115 770-886 10-139 (142)
20 3f9k_A Integrase; protein-prot 97.5 1.3E-05 4.4E-10 84.3 0.1 90 955-1068 11-100 (210)
21 4htu_A Ribonuclease H, RNAse H 97.4 0.00017 5.7E-09 70.8 5.7 100 772-873 6-118 (134)
22 3hph_A Integrase, IN; protein- 96.9 0.00016 5.3E-09 76.4 0.7 90 956-1069 11-102 (219)
23 1k6y_A Integrase; HIV-1, domai 96.5 0.00048 1.6E-08 72.1 0.6 89 957-1069 12-100 (212)
24 3kyl_A Telomerase reverse tran 96.4 0.0042 1.4E-07 72.3 7.1 135 541-680 240-406 (596)
25 3nnq_A Integrase P46, N-termin 52.6 9.5 0.00033 35.9 3.5 61 928-996 41-105 (114)
26 3s8i_A Protein DDI1 homolog 1; 41.5 10 0.00036 37.3 2.0 38 362-399 105-142 (148)
27 1xr5_A Genome polyprotein; RNA 34.6 19 0.00066 42.1 3.1 86 581-671 282-380 (466)
28 3bso_A RNA dependent RNA polym 28.6 36 0.0012 40.3 4.1 98 580-682 294-411 (510)
29 1ra6_A P3D, genome polyprotein 26.0 47 0.0016 38.8 4.4 84 581-669 283-379 (461)
30 3uqs_A RNA-dependent RNA polym 24.7 73 0.0025 37.7 5.8 67 612-682 337-411 (515)
31 2zd1_A Reverse transcriptase/r 23.3 24 0.00082 42.2 1.3 109 770-890 438-556 (557)
32 3n6m_A RNA-dependent RNA polym 23.1 70 0.0024 37.4 5.1 119 581-710 284-422 (462)
33 1mu2_A HIV-2 RT; HIV-2 reverse 21.3 28 0.00094 41.6 1.2 109 770-890 435-553 (555)
34 2ckw_A RNA-directed RNA polyme 20.8 65 0.0022 38.1 4.3 69 612-682 341-413 (515)
35 1khv_A RNA-directed RNA polyme 20.2 1.3E+02 0.0045 35.4 6.8 69 612-682 348-422 (516)
No 1
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse transcriptase, transferase, replication; 3.00A {Moloney murine leukemia virus} SCOP: e.8.1.2
Probab=100.00 E-value=4.9e-70 Score=647.02 Aligned_cols=419 Identities=17% Similarity=0.223 Sum_probs=362.6
Q ss_pred hHHHHHHHhhhc---CCCC-CCeeEee--eCCCCCccCCCCCCCccccccCCcccHHHHHHHHHHHHHcCCccccCCCCC
Q psy14859 424 GRLRRFVDAWIR---LGAP-APLVRIV--SGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTG 497 (1097)
Q Consensus 424 ~~l~~f~~~~~~---~~~~-~~v~~~I--~g~~~pv~~~p~r~p~~~lr~~s~~~~~~i~~eI~~ll~~GiI~~~~s~S~ 497 (1097)
..+++|.+.|.. .+.. ....|.| .+...|+..++|++++ ..+++++++|++|+++|+|+++ .||
T Consensus 5 ~ll~~~~dvf~~~~~~g~~~~~~~~~i~l~~~~~p~~~~~~~~~~--------~~~~~~~~~i~~ll~~G~I~~~--~sp 74 (455)
T 1rw3_A 5 TWLSDFPQAWAETGGMGLAVRQAPLIIPLKATSTPVSIKQYPMSQ--------EARLGIKPHIQRLLDQGILVPC--QSP 74 (455)
T ss_dssp CHHHHCTTTBHHHHCSCCCSSSCCBCCCBCTTCCCCBCCCCCCCT--------THHHHSHHHHHHHHHTTSEEEE--CCS
T ss_pred HHHHHhHHhhcCCCCCCCCCCCCceEEEecCCCcccccCCcCCCH--------HHHHHHHHHHHHHHhCCCEEec--CCc
Confidence 457778888853 3333 2355666 5777889988888877 4558999999999999999995 789
Q ss_pred cceeEEEEecC-CCCcccccccCCcccccCCcccccccccccccccc-CCceeEEeccccccccccccccccccccccc-
Q psy14859 498 FLSRLFLVPKG-NGGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQ-KGDYMISIDLSQAYFHVPIKTTHQRFLALSY- 574 (1097)
Q Consensus 498 ~~SPv~~V~Kk-dgk~R~vvD~R~LN~~t~~~~~plP~i~~ll~~L~-~~~~fs~lDLksAY~qI~L~~edr~~taF~t- 574 (1097)
|++|+++|+|| +|++|+|+|||.||+.|.++++++|+++++++.++ ++++|+++|+++|||||+|+++|+++|+|.|
T Consensus 75 ~~spv~~V~Kk~~g~~R~~~D~r~LN~~~~~~~~~lp~~~~ll~~l~~~~~~~s~lDl~~~y~qi~l~~~d~~~taF~~~ 154 (455)
T 1rw3_A 75 WNTPLLPVKKPGTNDYRPVQDLREVNKRVEDIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWR 154 (455)
T ss_dssp CBBCEECCCCSSSSCCCCEECTHHHHHTBCCCCCCCCCHHHHHTTCCTTCCEEEEEEBTTGGGGSBBCSTTSGGGCEEEC
T ss_pred ccCceEEEeccCCCcEEEchhHHHHHhhccCCCCCCCCHHHHhhhhccCCceEEecchhhhheeEeccccccceeEEeec
Confidence 99999999999 79999999999999999999999999999999997 8999999999999999999999999999998
Q ss_pred -----ccceEEeeccCccCCCChHHHHHhhHHHHhhhhc--cCceEEEEecCceeeecCchhHHHhhhHHHHHHhhccce
Q psy14859 575 -----NGDVLAMTCLPFGLATAPQAFASLSNWVASLLRS--RGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWI 647 (1097)
Q Consensus 575 -----~~g~y~~~rLPFGL~nSP~~Fqr~m~~il~~lr~--~g~~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~ 647 (1097)
++|+|+|+|||||++|||++||++|+.+++.++. .+..+.+|+|||+|++++.++|..+++.|+++|+++|+.
T Consensus 155 ~p~~~~~g~y~~~~mpfGl~naP~~fq~~m~~~l~~~~~~~~~~~v~~YvDDili~s~~~~e~~~~l~~v~~~l~~~gl~ 234 (455)
T 1rw3_A 155 DPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYR 234 (455)
T ss_dssp TTSSSCCEEEEESBCCSSCTTHHHHHHHHHHHHHHHHHHTCTTCEEEEETTEEEEEESSHHHHHHHHHHHHHHHHHHTCC
T ss_pred CCCCCCCceEEEEecCCCCCCcHHHHHHHHHHHHHHhhhhCCCceEEEEcCCEEEecCCHHHHHHHHHHHHHHHHHcCCc
Confidence 4899999999999999999999999999998753 356899999999999999999999999999999999999
Q ss_pred eccccCCCCCCCeEEEeeEEeCCCCCcccCcchhhhhhhHHHHHhhhccccChhhhhhhhhccccccccccCCccchhhh
Q psy14859 648 VNLQKSSLSPAPVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRI 727 (1097)
Q Consensus 648 ln~~Kc~f~p~~~v~fLG~iIs~~gi~v~l~~~Ki~ai~~~~~il~~~~P~t~keLrsfLGllny~r~fI~~~~~~arpL 727 (1097)
+|++||+|+ ..+++||||+|+.+|+++ +++|++++ ..++.|+|++++|+|+|++||||+||++++.+++||
T Consensus 235 l~~~K~~f~-~~~~~fLG~~i~~~gi~~--~~~kv~~i------~~~~~p~t~k~l~~flG~~~y~r~fi~~~~~~~~pL 305 (455)
T 1rw3_A 235 ASAKKAQIC-QKQVKYLGYLLKEGQRWL--TEARKETV------MGQPTPKTPRQLREFLGTAGFCRLWIPGFAEMAAPL 305 (455)
T ss_dssp BCGGGCCCS-BSSCEETTEEESSSEECC--CTTCCCCC------CCCCTTTHHHHHHHTTTTTCCCSSCCCCCGGGCCTT
T ss_pred cCccchhhh-ccceeEeeeeccCCeeEE--ChhHhhhh------ccCCCCCCHHHhhhhcccchHHHHHHhhhhhhcccH
Confidence 999999998 899999999999999965 88888765 456789999999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCCCCCCcccchhhHHhhhhCCCCCCCC---CCCcceeeeeccCCCCCcceeec---------cccccc
Q psy14859 728 QRQASLLRLGAPHLTPINPAVLPKLEWWLNALPLSSPIF---PRQVQHFISTDASDLGWGSQVDS---------SFLSGL 795 (1097)
Q Consensus 728 ~~ll~~lkk~~~~W~~~~q~Af~~LK~~l~~l~~~~Pil---~~~~p~~L~TDAS~~GiGAVL~q---------a~~Sr~ 795 (1097)
+.+++ +...+.|++++++||++||..+. ..|++ ++..+|+|+||||+.|+||||.| +|+|++
T Consensus 306 ~~llk--k~~~~~W~~~~~~af~~lK~~l~----~~pvL~~p~~~~~~~l~~DAS~~~~gavL~q~~~~~~~~i~y~Sk~ 379 (455)
T 1rw3_A 306 YPLTK--TGTLFNWGPDQQKAYQEIKQALL----TAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGPWRRPVAYLSKK 379 (455)
T ss_dssp CC----------CCCCCCSSSCCHHHHHTC----SSCCSCCSSSCCTTSCEEEEEECSSSBEECCBCTTTTCCCCCCCBC
T ss_pred HHHhc--CCCCcCchHHHHHHHHHHHHHhh----cCcccccCCCCCcEEEEEeccCCcceeEEEEecCCcEEEEEEEccc
Confidence 98765 44679999999999999998653 34443 46789999999999999999998 589999
Q ss_pred cchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHHhcCCCCchhhHHHHHHHHHHhh-ccCce
Q psy14859 796 WSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQ-DWRIH 870 (1097)
Q Consensus 796 ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~~~~~~~~~~l~~~~~r~~~~L~-~f~~~ 870 (1097)
++++|.+|+++++|++||++|+++|++|+.|.+|+|+|||+ +..++++..... ..+.++.||...|+ .|++.
T Consensus 380 l~~~e~~ys~~ekEllAi~~a~~~~~~yl~g~~~~v~tDh~-~~~~l~~~~~~~--~~~~Rl~rW~~~L~e~~~i~ 452 (455)
T 1rw3_A 380 LDPVAAGWPPCLRMVAAIAVLTKDAGKLTMGQPLVIKAPHA-VEALVKQPPDRW--LSNARMTHYQALLLDTDRVQ 452 (455)
T ss_dssp SCSSCSSSCCSSHHHHHHHHHHHHHHGGGCSSCEEEECSSC-TTTTSSSTTTTT--CCCCCCSCCCCCCCCCCSSS
T ss_pred CCccccccchHHHHHHHHHHHHHHHHHHcCCCcEEEEecCh-HHHHhCCCcccc--ccchHHHHHHHHhCcCCCeE
Confidence 99999999999999999999999999999999999999998 557776543210 01233566777777 46653
No 2
>2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B* 3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B* 3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B* 1n5y_B* 1bqm_B* 1n6q_B* ...
Probab=100.00 E-value=4.1e-64 Score=590.77 Aligned_cols=363 Identities=15% Similarity=0.188 Sum_probs=310.2
Q ss_pred eCCCCCccCCCCCCCccccccCCcccHHHHHHHHHHHHHcCCccccCCCCCcceeEEEEecCCC-CcccccccCCccccc
Q psy14859 447 SGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNG-GTRPVLNLKGLNQFL 525 (1097)
Q Consensus 447 ~g~~~pv~~~p~r~p~~~lr~~s~~~~~~i~~eI~~ll~~GiI~~~~s~S~~~SPv~~V~Kkdg-k~R~vvD~R~LN~~t 525 (1097)
.....|+..++|++++ +.+++++++|++|+++|+|+++++.|+|++|+++|+||+| ++|+|+|||.||+.|
T Consensus 13 ~~~~~p~~~~~~~~~~--------~~~~~~~~~i~~ll~~G~I~~v~s~s~~~sPv~~V~Kk~g~k~R~~vD~r~LN~~t 84 (428)
T 2zd1_B 13 KPGMDGPKVKQWPLTE--------EKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRT 84 (428)
T ss_dssp CTTCCCCBCCCCCCCH--------HHHHHHHHHHHHHHHTTSEEECCTTCCCBBCEEEECCTTCSSCEEEECTHHHHHHB
T ss_pred cCCCCCCcCCCcCCCH--------HHHHHHHHHHHHHHHCCCceECCCCCCccCceeeccCCCCCceEEEEechHhcCcc
Confidence 5556778888887777 4568999999999999999998778999999999999997 799999999999999
Q ss_pred CC---ccccccccccccccccCCceeEEeccccccccccccccccccccccc-------ccceEEeeccCccCCCChHHH
Q psy14859 526 SP---KKFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSY-------NGDVLAMTCLPFGLATAPQAF 595 (1097)
Q Consensus 526 ~~---~~~plP~i~~ll~~L~~~~~fs~lDLksAY~qI~L~~edr~~taF~t-------~~g~y~~~rLPFGL~nSP~~F 595 (1097)
.+ +.|++|.+++ |+++++|+++|+++|||||+|+++|+++|||.| ++|+|+|+||||||+|||++|
T Consensus 85 ~~~~~~~~plP~i~~----l~~~~~~s~lDl~~gy~qI~l~~~d~~~taF~~p~~~~~t~~g~y~~~vmPfGl~nsPa~f 160 (428)
T 2zd1_B 85 QDFWEVQLGIPHPAG----LKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIF 160 (428)
T ss_dssp CCCCCTTSCCCCCTT----GGGSSEEEEEECGGGGGGSBCCTTTGGGGCEEECCGGGCSCCEEEEESBCCTTCTHHHHHH
T ss_pred cccccccCCCCCchh----ccccceEEEeeccCceeeEEcCccccceeEEEeecCCCCCCCceEEEEeeCCCCcchHHHH
Confidence 99 9999999976 689999999999999999999999999999995 579999999999999999999
Q ss_pred HHhhHHHHhhhhcc--CceEEEEecCceeeecC-chhHHHhhhHHHHHHhhccceeccccCCCCCCCeEEEeeEEeCCCC
Q psy14859 596 ASLSNWVASLLRSR--GMRVVVYLDDFLLVNQD-PRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGIMWDPHL 672 (1097)
Q Consensus 596 qr~m~~il~~lr~~--g~~v~vYvDDILI~s~s-~eeh~~~l~~Vl~~L~~~Gl~ln~~Kc~f~p~~~v~fLG~iIs~~g 672 (1097)
|++|+.+++.+... +..+.+|+|||+|++++ .++|..+++.|+++|+++||.+|++||++ ..+++||||+|+.+|
T Consensus 161 q~~m~~il~~~~~~~~~~~v~vY~DDIlI~s~~~~~eh~~~l~~v~~~l~~~gL~l~~~Kc~~--~~~~~fLG~~i~~~~ 238 (428)
T 2zd1_B 161 QSSMTKILEPFKKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQK--EPPFLWMGYELHPDK 238 (428)
T ss_dssp HHHHHHHHHHHHHHCTTCEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHHHC--------------CTTCCEEECGGG
T ss_pred HHHHHHHHHHHhhcCCCceEEEEecceEEecCCcHHHHHHHHHHHHHHHHHhCCccChhHccc--cceEEEeccEecCCc
Confidence 99999999987643 34699999999999995 69999999999999999999999999997 467999999999999
Q ss_pred CcccCcchhhhhhhHHHHHhhhccccChhhhhhhhhccccccccccCCccchhhhHHHHHHhhc--CCCCCCCCCcccch
Q psy14859 673 DRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRL--GAPHLTPINPAVLP 750 (1097)
Q Consensus 673 i~v~l~~~Ki~ai~~~~~il~~~~P~t~keLrsfLGllny~r~fI~~~~~~arpL~~ll~~lkk--~~~~W~~~~q~Af~ 750 (1097)
+++ ++.|+.+ ..++|++++|+|+|++||||+||++++ ++||+++++...+ ..+.|++++++||+
T Consensus 239 i~~--~~~ki~~----------~~~~t~k~lr~flG~~~yyrrFi~~~s--~~pL~~llkk~~~~~~~~~Wt~~~~~af~ 304 (428)
T 2zd1_B 239 WTV--QPIVLPE----------KDSWTVNDIQKLVGKLNWASQIYPGIK--VRQLSKLLRGTKALTEVIPLTEEAELELA 304 (428)
T ss_dssp CCC--CCCCCCC----------CSSEEHHHHHHHHHHHHHHTTTCTTCC--CHHHHHTTCSCCCTTCEECCCHHHHHHHH
T ss_pred eEe--ccccccc----------ccccCHHHHHHHhhhHHHHHHhcCCcc--HHHHHHHHccCCCCCCeecCCHHHHHHHH
Confidence 976 5666522 347799999999999999999999998 8899876542111 35899999999999
Q ss_pred hhHHhhhhCCCCCCC---CCCCcceeeeeccCCC-CCcceeec----cccccccchhhhcccchHHhhhh-HHHHHHHhh
Q psy14859 751 KLEWWLNALPLSSPI---FPRQVQHFISTDASDL-GWGSQVDS----SFLSGLWSREQQNWHINKKEMFA-VHQALSLNL 821 (1097)
Q Consensus 751 ~LK~~l~~l~~~~Pi---l~~~~p~~L~TDAS~~-GiGAVL~q----a~~Sr~ls~aE~~ysi~ekELlA-Iv~AL~~~r 821 (1097)
+||..+. ..|+ .+++++|+++||||+. +||+|+.| +|.|++++ ++++|+++++|++| |++|+++|+
T Consensus 305 ~lK~~L~----~~p~l~~pd~~~~~~l~~das~~g~~g~vl~q~~~~~~~s~~~~-~~~~y~~~~~e~la~vv~al~~~r 379 (428)
T 2zd1_B 305 ENREILK----EPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYA-RMRGAHTNDVKQLTEAVQKITTES 379 (428)
T ss_dssp HHHHHTT----SCCTTCCCCTTSCCEEEEEEEETTEEEEEEESSTTCEEEEEEEE-CCSSCTTCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHh----cchhccccCCCCCEEEEEecCCCCcEEEEEecCCCceeeecccc-hhhhcccchHHHHHHHHHHhhccc
Confidence 9998653 3443 3678999999999996 56999999 58999999 99999999999999 999999999
Q ss_pred hhhccC---ceEeecCcHHHHHHHH
Q psy14859 822 PLLQSS---VVMVQSDNQTVVSYLR 843 (1097)
Q Consensus 822 ~~L~g~---~~~V~TDhk~lv~~l~ 843 (1097)
+||.|+ .++++|||+.+. |+.
T Consensus 380 ~yl~G~~~~~~i~~td~~~~~-~~~ 403 (428)
T 2zd1_B 380 IVIWGKTPKFKLPIQKETWET-WWT 403 (428)
T ss_dssp HHHHSSCCEEEESSCHHHHHH-HHH
T ss_pred eEEECCCCcEECCccHHHHHH-HHH
Confidence 999886 478899999984 443
No 3
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} PDB: 3is9_A* 3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Probab=100.00 E-value=3.7e-62 Score=592.84 Aligned_cols=353 Identities=16% Similarity=0.194 Sum_probs=308.9
Q ss_pred eeEee--eCCCCCccCCCCCCCccccccCCcccHHHHHHHHHHHHHcCCccccCCCCCcceeEEEEecCCC-Cccccccc
Q psy14859 442 LVRIV--SGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNG-GTRPVLNL 518 (1097)
Q Consensus 442 v~~~I--~g~~~pv~~~p~r~p~~~lr~~s~~~~~~i~~eI~~ll~~GiI~~~~s~S~~~SPv~~V~Kkdg-k~R~vvD~ 518 (1097)
..|.| .+...|+..++|++++ ..+++++++|++|+++|+|+++++.|||++|+++|+||+| ++|+|+||
T Consensus 8 ~~~~i~l~~~~~p~~~~~~~~~~--------~~~~~~~~~i~~ll~~G~I~~v~s~s~~~spv~~V~Kk~g~k~R~~vD~ 79 (557)
T 2zd1_A 8 ETVPVKLKPGMDGPKVKQWPLTE--------EKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDF 79 (557)
T ss_dssp CCCCCCBCTTCCCCBCCCCCCCH--------HHHHHHHHHHHHHHHTTSEEECCSCCCCBBCEEEEECSSCSCEEEEECC
T ss_pred cceeeeCCCCCCCCccCCcCCCH--------HHHHHHHHHHHHHHHCCCEEECCCCCCCcCCeEEEECCCCCceEEEEEh
Confidence 33555 5666788888888777 4568999999999999999997678999999999999999 99999999
Q ss_pred CCcccccCC---ccccccccccccccccCCceeEEeccccccccccccccccccccccc-------ccceEEeeccCccC
Q psy14859 519 KGLNQFLSP---KKFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSY-------NGDVLAMTCLPFGL 588 (1097)
Q Consensus 519 R~LN~~t~~---~~~plP~i~~ll~~L~~~~~fs~lDLksAY~qI~L~~edr~~taF~t-------~~g~y~~~rLPFGL 588 (1097)
|.||+.|.+ ++||+|.+++ |+++++|+++|+++|||||+|+++|+++|+|.| ++|+|+|+||||||
T Consensus 80 r~LN~~t~~~~~~~~plP~i~~----l~~~~~~s~lDl~~~y~qi~l~~~d~~~taF~~p~~~~~t~~g~y~~~~mPfGl 155 (557)
T 2zd1_A 80 RELNKRTQDFWEVQLGIPHPAG----LKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGW 155 (557)
T ss_dssp HHHHHHBCCCCCTTSSCCCGGG----SCCCSEEEEEECTTGGGGSBCCTTTGGGGCEEECCGGGCSCCEEEEESBCCTTC
T ss_pred HHHhhhccccccccCCCCCchh----hcCCCeeEEehhhhhhheeEcCccccceeEEEeecCCCCCCceEEEEEeeCCCC
Confidence 999999999 9999999977 489999999999999999999999999999996 78999999999999
Q ss_pred CCChHHHHHhhHHHHhhhhcc--CceEEEEecCceeeec-CchhHHHhhhHHHHHHhhccceeccccCCCCCCCeEEEee
Q psy14859 589 ATAPQAFASLSNWVASLLRSR--GMRVVVYLDDFLLVNQ-DPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLG 665 (1097)
Q Consensus 589 ~nSP~~Fqr~m~~il~~lr~~--g~~v~vYvDDILI~s~-s~eeh~~~l~~Vl~~L~~~Gl~ln~~Kc~f~p~~~v~fLG 665 (1097)
+|||++||++|+.+++.+... +..+.+|+|||+|+++ +.++|..+++.|+++|+++||++|++||+|. .+++|||
T Consensus 156 ~nap~~fq~~m~~il~~~~~~~~~~~v~~Y~DDIli~s~~~~~eh~~~l~~v~~~l~~~gl~l~~~Kc~f~--~~~~fLG 233 (557)
T 2zd1_A 156 KGSPAIFQSSMTKILEPFAAQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQKE--PPFLWMG 233 (557)
T ss_dssp TTHHHHHHHHHHHHHHHHHHTCTTEEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHTTTCCCCCSCCSCC--SSEEETT
T ss_pred CCHHHHHHHHHHHHHHHhhhcCCCceEEEEecCEEEecCchHHHHHHHHHHHHHHHHHcCCccChhhcCCC--CceEEee
Confidence 999999999999999988753 3469999999999999 5899999999999999999999999999984 5799999
Q ss_pred EEeCCCCCcccCcchhhhhhhHHHHHhhhccccChhhhhhhhhccccccccccCCccchhhhHHHHHHhh--cCCCCCCC
Q psy14859 666 IMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLR--LGAPHLTP 743 (1097)
Q Consensus 666 ~iIs~~gi~v~l~~~Ki~ai~~~~~il~~~~P~t~keLrsfLGllny~r~fI~~~~~~arpL~~ll~~lk--k~~~~W~~ 743 (1097)
|+|+.+|+++ ++.|+. .+.++|++++|+|+|++||||+||++++ ++||+.+++... ...+.|++
T Consensus 234 ~~i~~~gi~~--~~~k~~----------~~~~~t~k~lr~flG~~~~yrrfi~~~~--~~pl~~ll~~~~~~~~~~~Wt~ 299 (557)
T 2zd1_A 234 YELHPDKWTV--QPIVLP----------EKDSWTVNDIQKLVGKLNWASQIYPGIK--VRQLSKLLRGTKALTEVIPLTE 299 (557)
T ss_dssp EEECSSCEEE--SCCCCC----------CCSCEEHHHHHHHHHHHHHHTTTSTTCC--CHHHHGGGTTCCCTTCEECCCH
T ss_pred EEEccCcEEE--cceecc----------cccCCCHHHHHHHhhHHHhhhhhccchh--HHHHHHHhcccCCCCCceecCH
Confidence 9999999976 566652 2345599999999999999999999998 688887765421 24689999
Q ss_pred CCcccchhhHHhhhhCCCCCCCC---CCCcceeeeeccCCCC-Ccceeecc----ccccccchhhhcccchHHhhhh-HH
Q psy14859 744 INPAVLPKLEWWLNALPLSSPIF---PRQVQHFISTDASDLG-WGSQVDSS----FLSGLWSREQQNWHINKKEMFA-VH 814 (1097)
Q Consensus 744 ~~q~Af~~LK~~l~~l~~~~Pil---~~~~p~~L~TDAS~~G-iGAVL~qa----~~Sr~ls~aE~~ysi~ekELlA-Iv 814 (1097)
++++||++||..+. ..|++ +++++|+|+||||+.| ||+||.|. +.+..+. ++++|+++++|++| ++
T Consensus 300 ~~~~af~~lK~~L~----~~p~L~~pd~~~~~~l~~das~~g~~g~vl~q~~~~~~~~~~~~-~~~~y~~~e~e~la~vv 374 (557)
T 2zd1_A 300 EAELELAENREILK----EPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYA-RMRGAHTNDVKQLTEAV 374 (557)
T ss_dssp HHHHHHHHHHHHTS----SCCCBCCCCTTSCCEEEEEEEETTEEEEEEEEETTEEEEEEEEE-CCSCSEECHHHHHHHHH
T ss_pred HHHHHHHHHHHHHh----CccceeecCCCCCEEEEEecCCCCcEEEEEecCCCceeeeeecc-cccccCCChHHHHHHHH
Confidence 99999999998553 34443 5789999999999987 59999993 4455555 79999999999999 99
Q ss_pred HHHHHhhhhhccC
Q psy14859 815 QALSLNLPLLQSS 827 (1097)
Q Consensus 815 ~AL~~~r~~L~g~ 827 (1097)
.++++|++||.|+
T Consensus 375 ~~l~~~~~~l~g~ 387 (557)
T 2zd1_A 375 QKITTESIVIWGK 387 (557)
T ss_dssp HHHHHHHHHHHSS
T ss_pred HHhhhhheEEeCC
Confidence 9999999988754
No 4
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug design, transferase; 2.35A {Human immunodeficiency virus 2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Probab=100.00 E-value=3.1e-61 Score=584.52 Aligned_cols=315 Identities=16% Similarity=0.223 Sum_probs=275.3
Q ss_pred eEee--eCCCCCccCCCCCCCccccccCCcccHHHHHHHHHHHHHcCCccccCCCCCcceeEEEEecCCC-CcccccccC
Q psy14859 443 VRIV--SGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNG-GTRPVLNLK 519 (1097)
Q Consensus 443 ~~~I--~g~~~pv~~~p~r~p~~~lr~~s~~~~~~i~~eI~~ll~~GiI~~~~s~S~~~SPv~~V~Kkdg-k~R~vvD~R 519 (1097)
.|.| .....|+..++|++++ ..+++++++|++|+++|+|+++.+.|||++|+++|+||+| |+|+|+|||
T Consensus 7 ~~~i~l~~~~~p~~~~~~~~~~--------~~~~~~~~~i~~ll~~G~I~~~~~~s~~~spv~~V~Kk~g~k~R~~vD~r 78 (555)
T 1mu2_A 7 PIKIMLKPGKDGPKLRQWPLTK--------EKIEALKEICEKMEKEGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFR 78 (555)
T ss_dssp CCCCCBCTTCCCCBCCCCCCCH--------HHHHHHHHHHHHHHHHTSEEECCTTCCCBBCEEECCCCC----CEEECTH
T ss_pred ceEEEecCCCCCCCcCCcCCCH--------HHHHHHHHHHHHHHHCCCeEECCCCCCCCCceEEecCCCCCceEEEEehH
Confidence 3445 5566777788887776 4568999999999999999998668999999999999997 699999999
Q ss_pred CcccccCCc---cccccccccccccccCCceeEEecccccccccccccccccccccccc-------cceEEeeccCccCC
Q psy14859 520 GLNQFLSPK---KFSLINHFRIPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSYN-------GDVLAMTCLPFGLA 589 (1097)
Q Consensus 520 ~LN~~t~~~---~~plP~i~~ll~~L~~~~~fs~lDLksAY~qI~L~~edr~~taF~t~-------~g~y~~~rLPFGL~ 589 (1097)
.||+.|.++ +|++|.+++ |+++++|+++|+++|||||+|+++|+++|+|.|+ +|+|+|+||||||+
T Consensus 79 ~LN~~t~~~~~~~~~lP~~~~----l~~~~~~s~lDl~~~y~qI~l~~~d~~~taF~~p~~~~~~~~g~y~~~~mPfGl~ 154 (555)
T 1mu2_A 79 ELNKVTQDFTEIQLGIPHPAG----LAKKRRITVLDVGDAYFSIPLHEDFRPYTAFTLPSVNNAEPGKRYIYKVLPQGWK 154 (555)
T ss_dssp HHHHHBCCCCCCCCSCCCGGG----SBCCSEEEEEECBSSGGGSBCCTTTGGGGCEEC---------CEEEESBCCTTCT
T ss_pred HhhhhCcccccccCCCCchhh----cCCCceEEEehhHhcceEEEeccCceeeeEEEeecCCCCCCceEEEEEEeCCCCC
Confidence 999999988 999999876 6899999999999999999999999999999995 79999999999999
Q ss_pred CChHHHHHhhHHHHhhhhcc--CceEEEEecCceeeec-CchhHHHhhhHHHHHHhhccceeccccCCCCCCCeEEEeeE
Q psy14859 590 TAPQAFASLSNWVASLLRSR--GMRVVVYLDDFLLVNQ-DPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLGI 666 (1097)
Q Consensus 590 nSP~~Fqr~m~~il~~lr~~--g~~v~vYvDDILI~s~-s~eeh~~~l~~Vl~~L~~~Gl~ln~~Kc~f~p~~~v~fLG~ 666 (1097)
|||++||++|+.+++.+... +..+.+|+|||+|+++ +.++|..+++.|+++|+++||++|++||+ + ..+++||||
T Consensus 155 napa~fq~~m~~il~~~~~~~~~~~v~~Y~DDIli~s~~~~~eh~~~l~~v~~~l~~~gl~l~~~K~~-~-~~~~~fLG~ 232 (555)
T 1mu2_A 155 GSPAIFQHTMRQVLEPFRKANKDVIIIQYMDDILIASDRTDLEHDRVVLQLKELLNGLGFSTPDEKFQ-K-DPPYHWMGY 232 (555)
T ss_dssp THHHHHHHHHHHHHHHHHHHCTTSEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHTTCBCCSTTEE-C-SSSEEETTE
T ss_pred CcHHHHHHHHHHHHHHHHhhCCCcEEEEEecceEEecCCCHHHHHHHHHHHHHHHHHcCCccCHHHhc-c-CCceeEEeE
Confidence 99999999999999987643 4569999999999999 79999999999999999999999999995 5 889999999
Q ss_pred EeCCCCCcccCcchhhhhhhHHHHHhhhccccChhhhhhhhhccccccccccCCccchhhhHHHHHHhh--cCCCCCCCC
Q psy14859 667 MWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLR--LGAPHLTPI 744 (1097)
Q Consensus 667 iIs~~gi~v~l~~~Ki~ai~~~~~il~~~~P~t~keLrsfLGllny~r~fI~~~~~~arpL~~ll~~lk--k~~~~W~~~ 744 (1097)
+|+.+|+++ ++.|+.++ .|+|++++|+|+|++||||+||++++ ++||+.+++..+ ...+.|+++
T Consensus 233 ~i~~~gi~~--~~~ki~~i----------~~~t~k~lr~flG~~~~~rrfi~~~~--~~pL~~llk~~~~~~~~~~wt~~ 298 (555)
T 1mu2_A 233 ELWPTKWKL--QKIQLPQK----------EIWTVNDIQKLVGVLNWAAQLYPGIK--TKHLCRLISGKMTLTEEVQWTEL 298 (555)
T ss_dssp EECSSEEEE--CCCCCCCC----------SSCBHHHHHHHHHHHHHHHHHSTTCC--CHHHHTTSCSSSCTTCBCCCCHH
T ss_pred EEeCCceec--cccccCcC----------CCCCHHHHHhHhhhhhhhhhccCccc--hHHHHHHhccCCCCCCcccCCHH
Confidence 999999976 77777543 58899999999999999999999997 789887654211 147999999
Q ss_pred CcccchhhHHhhhhCCCCCCC---CCCCcceeeeeccCCCC-Ccceeec
Q psy14859 745 NPAVLPKLEWWLNALPLSSPI---FPRQVQHFISTDASDLG-WGSQVDS 789 (1097)
Q Consensus 745 ~q~Af~~LK~~l~~l~~~~Pi---l~~~~p~~L~TDAS~~G-iGAVL~q 789 (1097)
+++||++||..+. +.|+ .+++.+|+++||||+.| +|+||.|
T Consensus 299 ~~~af~~lK~~L~----~~p~L~~p~~~~~~~l~~das~~ga~g~vl~Q 343 (555)
T 1mu2_A 299 AEAELEENRIILS----QEQEGHYYQEEKELEATVQKDQDNQWTYKIHQ 343 (555)
T ss_dssp HHHHHHHHHHHHS----CCEEEECBCTTSCCEEEEEECSSSCEEEEEEE
T ss_pred HHHHHHHHHHHHh----hCccccccCCCCCEEEEEecCCCCcEEEEEee
Confidence 9999999998653 4454 35789999999999996 9999998
No 5
>3fsi_A RT, reverse transcriptase domain; transferase/DNA MMLV RT, protein-DNA complex, drug-DNA complex; HET: OWL; 1.75A {Moloney murine leukemia virus} SCOP: e.8.1.2 PDB: 1d1u_A 1n4l_A* 1ztt_A 2fjv_A* 2fjw_A 2fjx_A* 2fvp_A 2fvq_A 2fvr_A 2fvs_A 2r2r_A* 2r2s_A* 2r2t_A* 2r2u_A* 1ztw_A* 1i6j_A 1qaj_A* 1d0e_A* 1nnd_A 1mml_A ...
Probab=100.00 E-value=8.2e-46 Score=406.93 Aligned_cols=238 Identities=22% Similarity=0.345 Sum_probs=210.8
Q ss_pred HHHHHHHhhhc---CCC-CCCeeEee--eCCCCCccCCCCCCCccccccCCcccHHHHHHHHHHHHHcCCccccCCCCCc
Q psy14859 425 RLRRFVDAWIR---LGA-PAPLVRIV--SGYAIPFSAKPPLVPLCSLQHLATPVSSAMSLHIQEMLETGVLKRLDSTTGF 498 (1097)
Q Consensus 425 ~l~~f~~~~~~---~~~-~~~v~~~I--~g~~~pv~~~p~r~p~~~lr~~s~~~~~~i~~eI~~ll~~GiI~~~~s~S~~ 498 (1097)
+|++|.++|.+ ++. ...+.|.| .....|+..++|++++ ..+++++++|++|+++|+|+++ .|+|
T Consensus 2 ~L~~~~dvF~~~~~~~~~~~~~~~~i~l~~~~~p~~~~~~~~~~--------~~~~~~~~~i~~ll~~G~I~~~--~sp~ 71 (255)
T 3fsi_A 2 WLSDFPQAWAETGGMGLAVRQAPLIIPLKATSTPVSIKQYPMSQ--------EARLGIKPHIQRLLDQGILVPC--QSPW 71 (255)
T ss_dssp HHHHCTTTBHHHHCSCCCTTSCCBCCCBCTTCCCCBCCCCCCCH--------HHHHHHHHHHHHHHHTTSEEEE--CCSC
T ss_pred hhHhhhHhhcCcCCCCCCCCccceEEEeCCCCCCccCCCccCCH--------HHHHHHHHHHHHHHhCCeEEec--CCCe
Confidence 46677777743 222 34566777 5677889999888877 4558999999999999999995 8999
Q ss_pred ceeEEEEecCC-CCcccccccCCcccccCCcccccccccccccccc-CCceeEEecccccccccccccccccccccc---
Q psy14859 499 LSRLFLVPKGN-GGTRPVLNLKGLNQFLSPKKFSLINHFRIPSFLQ-KGDYMISIDLSQAYFHVPIKTTHQRFLALS--- 573 (1097)
Q Consensus 499 ~SPv~~V~Kkd-gk~R~vvD~R~LN~~t~~~~~plP~i~~ll~~L~-~~~~fs~lDLksAY~qI~L~~edr~~taF~--- 573 (1097)
++|+++|+||+ |++|+|+|||.||+.|.++.+++|+++++++.++ ++++|+++|+++|||||+|+++|+++|+|.
T Consensus 72 ~sp~~~V~Kk~~g~~R~~~D~r~LN~~t~~~~~~lp~~~~ll~~l~~~~~~~s~lDl~~~y~qI~l~~~d~~~taF~~~~ 151 (255)
T 3fsi_A 72 NTPLLPVKKPGTNDYRPVQDLREVNKRVEDIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRD 151 (255)
T ss_dssp BCCBCCC-------CCCCBCCHHHHTTBCCCCCCSCCHHHHHTTCCTTCCEEEEEEBTTCGGGSBBCTTTGGGGCEECCC
T ss_pred ECceeEeecCCCCceeEEeEhhhhccccccCCCCCCcHHHHHHHhhcCCcEEEEccccceeEeeecCccccCceEEEecC
Confidence 99999999997 9999999999999999999999999999999999 999999999999999999999999999999
Q ss_pred ---cccceEEeeccCccCCCChHHHHHhhHHHHhhhhc--cCceEEEEecCceeeecCchhHHHhhhHHHHHHhhcccee
Q psy14859 574 ---YNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRS--RGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIV 648 (1097)
Q Consensus 574 ---t~~g~y~~~rLPFGL~nSP~~Fqr~m~~il~~lr~--~g~~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~l 648 (1097)
++.|+|+|+|||||++|||++||++|+.+++.++. .+..+.+|+|||+|++++.++|..+++.|+++|+++||++
T Consensus 152 ~~~t~~g~y~~~~mPfGl~~sP~~fq~~m~~il~~~~~~~~~~~v~~Y~DDili~s~~~eeh~~~l~~v~~~L~~~gl~l 231 (255)
T 3fsi_A 152 PEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRA 231 (255)
T ss_dssp SSSCCSSEEEESBCCTTCTTHHHHHHHHHHHHTHHHHHHCTTCEEEEETTEEEEEESSHHHHHHHHHHHHHHHHHHTCCB
T ss_pred CCCCccceEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhCcCcEEEEEcCCeEEEeCCHHHHHHHHHHHHHHHHHCCeEE
Confidence 45899999999999999999999999999998764 3568999999999999999999999999999999999999
Q ss_pred ccccCCCCCCCeEEEeeEEeCCCCC
Q psy14859 649 NLQKSSLSPAPVLQFLGIMWDPHLD 673 (1097)
Q Consensus 649 n~~Kc~f~p~~~v~fLG~iIs~~gi 673 (1097)
|++||+|+ .++++||||+|+.+|+
T Consensus 232 ~~~Kc~f~-~~~~~fLG~~i~~~gv 255 (255)
T 3fsi_A 232 SAKKAQIC-QKQVKYLGYLLKEGQR 255 (255)
T ss_dssp CTTTCEEE-ESEEEETTEEEETTBC
T ss_pred CHHHhccc-CCceEEEEEEEeCCcC
Confidence 99999998 9999999999998874
No 6
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain, fusion protein, maltose binding protein, HYDR; HET: MLR TAR; 2.25A {Mycobacterium tuberculosis}
Probab=98.71 E-value=1.1e-08 Score=101.06 Aligned_cols=119 Identities=22% Similarity=0.192 Sum_probs=87.1
Q ss_pred cceeeeeccCCC------CCcceeeccccc---cccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHH
Q psy14859 770 VQHFISTDASDL------GWGSQVDSSFLS---GLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVS 840 (1097)
Q Consensus 770 ~p~~L~TDAS~~------GiGAVL~qa~~S---r~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~ 840 (1097)
..+.||||+|.. |+|+++...-.. ..++......+.++.|+.|++.||+.... +..++++|+||++.++.
T Consensus 2 ~~~~iy~DGs~~~~~g~~g~G~v~~~~~~~~~~~~~~~~~~~~tn~~aEl~A~~~aL~~a~~-~~~~~v~i~tDS~~vv~ 80 (141)
T 3hst_B 2 VKVVIEADGGSRGNPGPAGYGAVVWTADHSTVLAESKQAIGRATNNVAEYRGLIAGLDDAVK-LGATEAAVLMDSKLVVE 80 (141)
T ss_dssp CEEEEEEEEEESSSSEEEEEEEEEEETTSCSEEEEEEEEEEEECHHHHHHHHHHHHHHHHHH-HTCSEEEEEESCHHHHH
T ss_pred cEEEEEEecCCCCCCCCcEEEEEEEeCCCCcEEEeeeccCCCCchHHHHHHHHHHHHHHHHH-CCCceEEEEeChHHHHH
Confidence 357899999864 678787652111 12223333567799999999999996433 44578999999999999
Q ss_pred HHHhcCCCCchhhHHHHHHHHHHhhccCceEEEEEecCCCccccccccCC
Q psy14859 841 YLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSLSRS 890 (1097)
Q Consensus 841 ~l~~~~~~~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk~N~~ADaLSR~ 890 (1097)
++++....+...+..++.++..++.++ ..+++.|||+..|..||.|+|.
T Consensus 81 ~i~~~~~~~~~~l~~~~~~i~~l~~~~-~~v~~~~V~~~~N~~AD~LA~~ 129 (141)
T 3hst_B 81 QMSGRWKVKHPDLLKLYVQAQALASQF-RRINYEWVPRARNTYADRLAND 129 (141)
T ss_dssp HHTTSSCCCSHHHHHHHHHHHHHHTTS-SEEEEEECCGGGCHHHHHHHHH
T ss_pred HHhCCcccCCHHHHHHHHHHHHHHhcC-CeEEEEEcCCcccHHHHHHHHH
Confidence 998754455555556666666666665 3678899999999999999875
No 7
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=98.66 E-value=1.5e-08 Score=101.57 Aligned_cols=116 Identities=19% Similarity=0.060 Sum_probs=85.1
Q ss_pred eeeeeccCCC-------CC-cceeecc-----ccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHH
Q psy14859 772 HFISTDASDL-------GW-GSQVDSS-----FLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTV 838 (1097)
Q Consensus 772 ~~L~TDAS~~-------Gi-GAVL~qa-----~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~l 838 (1097)
+.++||+|.. |+ |+++... ..+....+.+...+.++.|+.|++.||+.... +..++++|+||++.+
T Consensus 2 ~~iy~DGs~~~~n~g~~G~~G~vi~~~g~~~~~~~~~~~~~~~~~tnn~aEl~A~~~aL~~a~~-~g~~~v~i~tDS~~v 80 (149)
T 2ehg_A 2 IIGYFDGLCEPKNPGGIATFGFVIYLDNRKIEGYGLAEKPFSINSTNNVAEYSGLICLMETMLR-LGISSPIIKGDSQLV 80 (149)
T ss_dssp CEEEEEEEEESSSSSSEEEEEEEEECSSCEEEEEEECSCTTCTTCCHHHHHHHHHHHHHHHHHH-HTCCSCEEEESCHHH
T ss_pred EEEEEeeccCCCCCChheEEEEEEEECCEEEEEeccccCCCCCCccHHHHHHHHHHHHHHHHHH-cCCCEEEEEeChHHH
Confidence 5789999865 43 7777651 01111111123567889999999999996543 345789999999999
Q ss_pred HHHHHhcCCCCchhhHHHHHHHHHHhhccCceEEEEEecCCCccccccccCC
Q psy14859 839 VSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVADSLSRS 890 (1097)
Q Consensus 839 v~~l~~~~~~~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk~N~~ADaLSR~ 890 (1097)
+.++++....+...+..+..++..++.+++ +++.||||+.|..||.|+|.
T Consensus 81 i~~i~~~w~~~~~~~~~l~~~i~~l~~~~~--v~~~~V~~~~N~~AD~LA~~ 130 (149)
T 2ehg_A 81 IKQMNGEYKVKAKRIIPLYEKAIELKKKLN--ATLIWVPREENKEADRLSRV 130 (149)
T ss_dssp HHHHTTSSCCCCTTHHHHHHHHHHHHHHHT--CEEEECCGGGCHHHHHHHHH
T ss_pred HHHHhCccccCCHHHHHHHHHHHHHHhcCC--EEEEEcCCcccHHHHHHHHH
Confidence 999988644444456677788888888875 66799999999999999985
No 8
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=98.64 E-value=1.8e-08 Score=99.14 Aligned_cols=119 Identities=21% Similarity=0.115 Sum_probs=86.6
Q ss_pred cceeeeeccCC------CCCcceeeccccc--cccchhhhcccchHHhhhhHHHHHHHhhhhhccC----ceEeecCcHH
Q psy14859 770 VQHFISTDASD------LGWGSQVDSSFLS--GLWSREQQNWHINKKEMFAVHQALSLNLPLLQSS----VVMVQSDNQT 837 (1097)
Q Consensus 770 ~p~~L~TDAS~------~GiGAVL~qa~~S--r~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~----~~~V~TDhk~ 837 (1097)
..+.||||+|. .|+|+++...-.. ..++......+.++.|+.|++.||+.... +... ++.|+||++.
T Consensus 2 ~~~~iy~DGs~~~n~g~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~aEl~A~~~aL~~a~~-~~~~~~~~~v~i~tDS~~ 80 (140)
T 3u3g_D 2 NKIIIYTDGGARGNPGPAGIGVVITDEKGNTLHESSAYIGETTNNVAEYEALIRALEDLQM-FGDKLVDMEVEVRMDSEL 80 (140)
T ss_dssp CEEEEEEEEEESSTTEEEEEEEEEECTTSCEEEEEEEEEEEECHHHHHHHHHHHHHHHHGG-GGGGGTTCEEEEEESCHH
T ss_pred ceEEEEEecCCCCCCCCcEEEEEEEeCCCCEEEEEEeeCCCCchHHHHHHHHHHHHHHHHH-cCCCCCCceEEEEeChHH
Confidence 35789999986 3778887652100 11222223457889999999999996443 2223 8999999999
Q ss_pred HHHHHHhcCCCCchhhHHHHHHHHHH-hhccCceEEEEEecCCCccccccccCC
Q psy14859 838 VVSYLRRQGGTKSLSLLSEVEKIFLL-SQDWRIHILAQFIPGAYNSVADSLSRS 890 (1097)
Q Consensus 838 lv~~l~~~~~~~~~~l~~~~~r~~~~-L~~f~~~i~I~hipGk~N~~ADaLSR~ 890 (1097)
++.++++....+...+..++.++..+ ++.+. .+++.|||+..|..||.|++.
T Consensus 81 vi~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~-~v~~~~V~~~~N~~AD~LA~~ 133 (140)
T 3u3g_D 81 IVRQMQGVYKVKEPTLKEKFAKIAHIKMERVP-NLVFVHIPREKNARADELVNE 133 (140)
T ss_dssp HHHHHTTSSCCCCGGGHHHHHHHHHHHHHHCT-TCEEEECCGGGGHHHHHHHHH
T ss_pred HHHHhCCCcccCCHHHHHHHHHHHHHhhcCCC-cEEEEEcCchhhHHHHHHHHH
Confidence 99999886555565666777777777 77763 466799999999999999874
No 9
>3oym_A PFV integrase, P42IN; protein-DNA complex; HET: DNA; 2.02A {Human spumaretrovirus} PDB: 3oyn_A* 3s3o_A* 4be2_A* 3l2q_A 3l2s_A 3l2r_A* 3l2u_A* 3l2v_A* 3l2w_A* 3l2t_A* 3os1_A* 3os2_A* 3os0_A* 3oya_A* 3oy9_A* 3oyc_A* 3oyd_A* 3oye_A* 3oyb_A* 3oyg_A* ...
Probab=98.36 E-value=5.1e-07 Score=104.15 Aligned_cols=115 Identities=13% Similarity=0.070 Sum_probs=90.7
Q ss_pred HHHhhhhhhcccccCCCCCCChHHhHHHhhccccCCCcHHHHHHHhhcchhhhccCCCCcccccccccccccccccccCC
Q psy14859 939 LLLLSSGRRVHDLTLLSLDPDHFQELDDFVVFWPVFGSKTDSSSHLQSGWKIKENSSDPLFCIPTWIRHLSTLSQRRMGS 1018 (1097)
Q Consensus 939 ~l~~~~g~~~Hd~~~~~GH~G~~kT~~rl~~~f~Wp~M~~dV~~yV~~C~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~ 1018 (1097)
...++ .++|+ .||+|..+|+.++++.||||+|+++|+.|++.|..|+....... .+ ..+.......
T Consensus 57 ~~~il--~~~H~----~gH~g~~~~~~~l~~~~~~~~~~~~v~~~~~~C~~C~~~k~~~~--~~------~~~~~~~~~~ 122 (395)
T 3oym_A 57 RQKIV--LQAHN----LAHTGREATLLKIANLYWWPNMRKDVVKQLGRCQQCLITNASNK--AS------GPILRPDRPQ 122 (395)
T ss_dssp HHHHH--HHHHH----TTTCCHHHHHHHHHTTBCCTTHHHHHHHHHTTCHHHHHHSCCCS--EE------CCCCCCCCCS
T ss_pred HHHHH--HHHHh----cCCCCHHHHHHHHhCCeECCCHHHHHHHhCccChhhcccCCCCC--CC------CCCcCCCCCC
Confidence 33444 66887 58999999999999999999999999999999999986543311 11 1122334577
Q ss_pred CCCCcccccccccccCCCCcceeEEEEeeecccceeeccCCCcchhhhhh
Q psy14859 1019 RPLTSLFITTRGIVQPASRSVIAGWVKTALRGANIIASPGSMRSAVATFR 1068 (1097)
Q Consensus 1019 ~~~~~~~i~~~g~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~t~~ 1068 (1097)
.|+....+|..|+++. +.+...++|..|.+++++++.|.+..++..+..
T Consensus 123 ~p~~~~~~D~~~~~~~-~~g~~y~l~~vD~~sr~~~~~~~~~~~~~~~~~ 171 (395)
T 3oym_A 123 KPFDKFFIDYIGPLPP-SQGYLYVLVVVDGMTGFTWLYPTKAPSTSATVK 171 (395)
T ss_dssp STTSEEEEEEECCCSC-BTTBCEEEEEEETTTCCEEEEEESSSCHHHHHH
T ss_pred CCceEEEEEEecccCC-CCCccEEEEEEecCCceEEEEEecCCcHHHHHH
Confidence 8999999999998865 578999999999999999999998777665554
No 10
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=98.30 E-value=2.7e-07 Score=93.60 Aligned_cols=116 Identities=21% Similarity=0.116 Sum_probs=77.9
Q ss_pred cceeeeeccCCC------CCcceeeccccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHH
Q psy14859 770 VQHFISTDASDL------GWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLR 843 (1097)
Q Consensus 770 ~p~~L~TDAS~~------GiGAVL~qa~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~ 843 (1097)
..+.+|||+|.. |+|+|+...-....++......+.++.|+.|++.||+... ..++++|+||++.++..++
T Consensus 5 ~~i~iytDGs~~~n~g~~G~G~v~~~~~~~~~~~~~~~~~tn~~aEl~A~~~AL~~~~---~~~~v~I~tDS~~vi~~i~ 81 (158)
T 2e4l_A 5 KLIHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFSLTTNNRMELLAPIVALEALK---EPCKIILTSDSQYMRQGIM 81 (158)
T ss_dssp CEEEEEEEEEESSSSEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCS---SCCEEEEEECCHHHHHHHH
T ss_pred CeEEEEEcccccCCCCcEEEEEEEEECCEEEEEecCcCCCccHHHHHHHHHHHHHHhc---cCCeEEEEeCHHHHHHHHH
Confidence 468899999875 6777775421111222222345778999999999999643 2378999999999988776
Q ss_pred h--------cCCC---CchhhHHHHHHHHHHhhccCceEEEEEecCC----CccccccccCC
Q psy14859 844 R--------QGGT---KSLSLLSEVEKIFLLSQDWRIHILAQFIPGA----YNSVADSLSRS 890 (1097)
Q Consensus 844 ~--------~~~~---~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk----~N~~ADaLSR~ 890 (1097)
+ ...+ .......+.+++..++..+ .+.+.||||. .|..||.|+|.
T Consensus 82 ~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~--~v~~~wV~gH~g~~~Ne~AD~LAk~ 141 (158)
T 2e4l_A 82 TWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQLH--QIDWRWVKGHAGHAENERCDQLARA 141 (158)
T ss_dssp THHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHTTS--EEEEEECCTTCCCHHHHHHHHHHHH
T ss_pred HHHHHHHHccccccCCCcccCHHHHHHHHHHHccC--cEEEEEccCCCCchhHHHHHHHHHH
Confidence 5 1111 1111224555666666654 6778999976 68899999875
No 11
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=98.29 E-value=2e-07 Score=92.99 Aligned_cols=116 Identities=22% Similarity=0.227 Sum_probs=78.0
Q ss_pred cceeeeeccCCC------CCcceeeccccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHH
Q psy14859 770 VQHFISTDASDL------GWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLR 843 (1097)
Q Consensus 770 ~p~~L~TDAS~~------GiGAVL~qa~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~ 843 (1097)
..+++|||+|.. |+|+++...-....++......+.++.||.|++.||+.... .++++|+||++.++..++
T Consensus 3 ~~i~iytDGs~~~n~g~~g~G~v~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~AL~~~~~---~~~v~I~tDS~~vi~~i~ 79 (146)
T 3h08_A 3 KTITIYTDGAASGNPGKGGWGALLMYGSSRKEISGYDPATTNNRMELMAAIKGLEALKE---PARVQLYSDSAYLVNAMN 79 (146)
T ss_dssp CEEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCSS---CCEEEEEESCHHHHHHHH
T ss_pred ceEEEEEecCCCCCCCceEEEEEEEECCeeEEeecCCCCCcHHHHHHHHHHHHHHhcCc---cCcEEEEeChHHHHHHHH
Confidence 468999999953 67777764211122233333557789999999999996543 578999999998888766
Q ss_pred hc------------CCCCchhhHHHHHHHHHHhhccCceEEEEEecC----CCccccccccCC
Q psy14859 844 RQ------------GGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPG----AYNSVADSLSRS 890 (1097)
Q Consensus 844 ~~------------~~~~~~~l~~~~~r~~~~L~~f~~~i~I~hipG----k~N~~ADaLSR~ 890 (1097)
+. ..........+.+++..++..+ .+.+.|||| ..|..||.|+|.
T Consensus 80 ~~w~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~~~~--~v~~~~V~gH~g~~~N~~AD~LA~~ 140 (146)
T 3h08_A 80 EGWLKRWVKNGWKTAAKKPVENIDLWQEILKLTTLH--RVTFHKVKGHSDNPYNSRADELARL 140 (146)
T ss_dssp SSHHHHHHHTTCC----CCCTTHHHHHHHHHHHHHS--EEEEEECCC-CCSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCccCCCCCcCCHHHHHHHHHHHhhC--ceEEEEcCCcCCcHhHHHHHHHHHH
Confidence 51 0111112235666676667765 467799995 568899999874
No 12
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability, hydrogen exchange, cooperativity, hydrolase; 1.30A {Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A 1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A 1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A 3aa5_X 1rbv_A ...
Probab=98.26 E-value=3.8e-07 Score=92.14 Aligned_cols=116 Identities=22% Similarity=0.169 Sum_probs=78.5
Q ss_pred cceeeeeccCCC------CCcceeeccccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHH
Q psy14859 770 VQHFISTDASDL------GWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLR 843 (1097)
Q Consensus 770 ~p~~L~TDAS~~------GiGAVL~qa~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~ 843 (1097)
+.+.+|||+|.. |+|+++...-....++......+.++.|+.|++.||+.... .+++.|+||++.++..++
T Consensus 3 ~~~~iytDGs~~~n~~~~G~G~v~~~~~~~~~~~~~~~~~tn~~aEl~A~~~aL~~~~~---~~~v~I~tDS~~vi~~i~ 79 (155)
T 1jl1_A 3 KQVEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKE---HAEVILSTDSQYVRQGIT 79 (155)
T ss_dssp CCEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCCS---CCEEEEEECCHHHHHHHH
T ss_pred ceEEEEEccccCCCCCceEEEEEEEECCeEEEEecCCCCCcHHHHHHHHHHHHHHHhCc---CCcEEEEeCHHHHHHHHH
Confidence 357899999874 57777764211122232233456789999999999986543 378999999999998887
Q ss_pred h--------cCCC---CchhhHHHHHHHHHHhhccCceEEEEEecCC----CccccccccCC
Q psy14859 844 R--------QGGT---KSLSLLSEVEKIFLLSQDWRIHILAQFIPGA----YNSVADSLSRS 890 (1097)
Q Consensus 844 ~--------~~~~---~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk----~N~~ADaLSR~ 890 (1097)
+ ...+ .......+.+++..++.. +.+.+.||||. .|..||.|+|.
T Consensus 80 ~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~--~~v~~~wV~gH~g~~~Ne~AD~LA~~ 139 (155)
T 1jl1_A 80 QWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQ--HQIKWEWVKGHAGHPENERADELARA 139 (155)
T ss_dssp TTHHHHHHTTTBCTTSCBCTTHHHHHHHHHHTTT--CEEEEEECCSSTTCHHHHHHHHHHHH
T ss_pred HHHHHHhhcccccccCCccCCHHHHHHHHHHHcc--CceEEEEcCCCCCCHHHHHHHHHHHH
Confidence 5 1100 111123455666666665 36778999976 69899999885
No 13
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV, RNAse H, reverse transcriptase, transcription; 1.50A {Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A 3v1r_A* 2hb5_A 4e89_A
Probab=98.25 E-value=8.8e-07 Score=90.45 Aligned_cols=116 Identities=16% Similarity=0.125 Sum_probs=76.2
Q ss_pred cceeeeeccCCC------CCcceeeccccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHH
Q psy14859 770 VQHFISTDASDL------GWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLR 843 (1097)
Q Consensus 770 ~p~~L~TDAS~~------GiGAVL~qa~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~ 843 (1097)
..+.+|||+|.. |+|+++...--...........+.++.|+.|++.||+.. ..+++.|+||++.++..+-
T Consensus 22 ~~i~iytDGs~~~npG~~g~G~vi~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~----~~~~v~I~tDS~~vi~~iw 97 (165)
T 3p1g_A 22 ADYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMA----EGKKLNVYTDSRYAFATAH 97 (165)
T ss_dssp CSEEEEEEEEEEEETTEEEEEEEEECSSCEEEEEEECTTCCHHHHHHHHHHHHHHHT----BTSEEEEEECCHHHHHHHH
T ss_pred CCEEEEEEcccCCCCCceEEEEEEEECCEEEEEecCCCCCcHHHHHHHHHHHHHHHc----cCceEEEEEchHHHHhhhh
Confidence 458999999984 467777642110111122234477899999999999975 4789999999998877663
Q ss_pred hcCCCCchhhHHHHHHHHHHhhccCceEEEEEecCCC---------ccccccccCC
Q psy14859 844 RQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAY---------NSVADSLSRS 890 (1097)
Q Consensus 844 ~~~~~~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk~---------N~~ADaLSR~ 890 (1097)
.....+......+++++...+.. ...+.+.||+|.. |..||.|+|.
T Consensus 98 ~~~~g~~v~n~dl~~~l~~~l~~-~~~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~ 152 (165)
T 3p1g_A 98 VHSEGREIKNKNEILALLKALFL-PKRLSIIHCPGHQKGNSAEARGNRMADQAARE 152 (165)
T ss_dssp SCCCSCCCSSHHHHHHHHHHTTS-BSEEEEEECCSSCCSCSHHHHHHHHHHHHHHH
T ss_pred cccCCCcccCHHHHHHHHHHHhc-CCceEEEEecCCCCCCcCcchHHHHHHHHHHH
Confidence 22211111222344555444433 3467889999988 8899999875
No 14
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=98.23 E-value=3.2e-07 Score=93.86 Aligned_cols=116 Identities=17% Similarity=0.143 Sum_probs=78.3
Q ss_pred cceeeeeccCCC------CCcceeeccccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHH
Q psy14859 770 VQHFISTDASDL------GWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLR 843 (1097)
Q Consensus 770 ~p~~L~TDAS~~------GiGAVL~qa~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~ 843 (1097)
..+.||||+|.. |+|+|+...-....++......+.++.|+.|++.||+.... ..+++|+||++.++..++
T Consensus 7 ~~i~iytDGs~~~n~g~~G~G~v~~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~---~~~v~I~tDS~~vi~~i~ 83 (166)
T 1ril_A 7 KRVALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKE---PCEVDLYTDSHYLKKAFT 83 (166)
T ss_dssp CCCCEEEEEEESSTTEEEEEEEEECBTTBCCEECCEEEEECHHHHHHHHHHHHHHSCCS---CCEEEEECCCHHHHHHHH
T ss_pred ccEEEEECccccCCCCCEEEEEEEEECCEEEEEecCCCCCcHHHHHHHHHHHHHHHhcc---CCeEEEEeChHHHHHHHh
Confidence 468899999875 56777754211122333334567889999999999985432 358999999999988776
Q ss_pred h----------cCCCC--chhhHHHHHHHHHHhhccCceEEEEEecCC----CccccccccCC
Q psy14859 844 R----------QGGTK--SLSLLSEVEKIFLLSQDWRIHILAQFIPGA----YNSVADSLSRS 890 (1097)
Q Consensus 844 ~----------~~~~~--~~~l~~~~~r~~~~L~~f~~~i~I~hipGk----~N~~ADaLSR~ 890 (1097)
+ -+... ......+++++..++..+ .+.+.||||. .|..||.|+|.
T Consensus 84 ~~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~~~--~v~~~wV~gH~g~~~Ne~AD~LAk~ 144 (166)
T 1ril_A 84 EGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPH--RVRFHFVKGHTGHPENERVDREARR 144 (166)
T ss_dssp SSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTTS--EEECCCCCGGGSCTHHHHHHHHHHH
T ss_pred hhHHHHHHhcccccccCCccCcHHHHHHHHHHHhcC--eEEEEEeeCCCCchhHHHHHHHHHH
Confidence 6 11111 111234566666666654 5777999965 79999999885
No 15
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase, hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} SCOP: c.55.3.1 PDB: 3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A
Probab=98.22 E-value=7.4e-07 Score=89.62 Aligned_cols=113 Identities=15% Similarity=0.097 Sum_probs=75.5
Q ss_pred cceeeeeccCC------CCCcceeeccccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHH
Q psy14859 770 VQHFISTDASD------LGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLR 843 (1097)
Q Consensus 770 ~p~~L~TDAS~------~GiGAVL~qa~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~ 843 (1097)
..+.+|||+|. .|+|+++.... ...+ .....+.++.|+.|++.||+.. +++++|+||++.++..++
T Consensus 11 ~~~~iytDGs~~~n~g~~g~G~v~~~~~-~~~~--~~~~~Tnn~aEl~A~i~AL~~~-----~~~v~i~tDS~~v~~~i~ 82 (150)
T 3qio_A 11 GAETFYVDGAANRETKLGKAGYVTNRGR-QKVV--TLTDTTNQKTELQAIYLALQDS-----GLEVNIVTDSQYALGIIT 82 (150)
T ss_dssp TCEEEEEEEEECTTTCCEEEEEEETTSC-EEEE--EESSCCHHHHHHHHHHHHHHHS-----CSEEEEEESCHHHHHHHH
T ss_pred CCEEEEEccCCCCCCCCeEEEEEEEcCC-EEEE--eCCCCCHHHHHHHHHHHHHHhC-----CCcEEEEeCcHHHHHHHH
Confidence 45899999996 35666665421 1111 1234577899999999999962 589999999999987776
Q ss_pred hc-----------CCCCchhhHHHHHHHHHHhhccCceEEEEEecCCC----ccccccccCCC
Q psy14859 844 RQ-----------GGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAY----NSVADSLSRSK 891 (1097)
Q Consensus 844 ~~-----------~~~~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk~----N~~ADaLSR~~ 891 (1097)
+. ...+......+.+++...+.++ ..+.+.||||.. |..||.|+|..
T Consensus 83 ~w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~~~-~~v~~~wV~gH~g~~~Ne~AD~LA~~a 144 (150)
T 3qio_A 83 QWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKK-EKVYLAWVPAHKGIGGNEQVDKLVSAG 144 (150)
T ss_dssp HHHHHHCC------------CHHHHHHHHHHHTTC-SEEEEEECCTTSCCHHHHHHHHHHHTT
T ss_pred HHHHHHhhcCcCcCcCcccccHHHHHHHHHHHhhc-CceEEEEccCcCCChhHHHHHHHHHHH
Confidence 52 1001111223455555444443 367889999998 99999999863
No 16
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=98.20 E-value=1e-06 Score=88.75 Aligned_cols=115 Identities=16% Similarity=0.111 Sum_probs=77.1
Q ss_pred cceeeeeccCCC---------CCcceeecc---ccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHH
Q psy14859 770 VQHFISTDASDL---------GWGSQVDSS---FLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQT 837 (1097)
Q Consensus 770 ~p~~L~TDAS~~---------GiGAVL~qa---~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~ 837 (1097)
..+.+|||+|.. |+|+++... ..+..+.. ..+.++.||.|++.||+.... ....+++|+||++.
T Consensus 6 ~~~~iytDGs~~~n~~~~~~aG~Gvv~~~~~~~~~~~~l~~---~~tn~~aEl~A~~~aL~~~~~-~~~~~v~i~tDS~~ 81 (154)
T 2qkb_A 6 DFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPG---RQTNQRAEIHAACKAIEQAKT-QNINKLVLYTNSMF 81 (154)
T ss_dssp TEEEEEEEEEEETTTSSSCEEEEEEECSTTCTTCEEEECCS---SCCHHHHHHHHHHHHHHHHHH-TTCCEEEEEESCHH
T ss_pred CeEEEEEccCcCCCCCCCCcEEEEEEEECCCceeEEeecCC---CCchHHHHHHHHHHHHHHHHh-CCCceEEEEECcHH
Confidence 458899999863 455565431 12222221 357789999999999996543 34578999999998
Q ss_pred HHHHHHhc---------CCC--CchhhHHHHHHHHHHhhccCceEEEEEecCCC----ccccccccCC
Q psy14859 838 VVSYLRRQ---------GGT--KSLSLLSEVEKIFLLSQDWRIHILAQFIPGAY----NSVADSLSRS 890 (1097)
Q Consensus 838 lv~~l~~~---------~~~--~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk~----N~~ADaLSR~ 890 (1097)
++..+++. +.. .......+++++..++..+ .+.+.||||.. |..||.|+|.
T Consensus 82 vi~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~~~--~v~~~~V~~H~g~~~N~~AD~LA~~ 147 (154)
T 2qkb_A 82 TINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGM--DIQWMHVPGHSGFIGNEEADRLARE 147 (154)
T ss_dssp HHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHTTC--EEEEEECCTTSSCHHHHHHHHHHHH
T ss_pred HHhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHcCC--ceEEEEccCCCCCHhHHHHHHHHHH
Confidence 88777651 001 1112234566666666654 57789999966 9999999875
No 17
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=98.16 E-value=1.5e-06 Score=88.69 Aligned_cols=121 Identities=21% Similarity=0.085 Sum_probs=73.1
Q ss_pred CcceeeeeccCC-----------CCCcceeeccccccccchhhhcccchHHhhhhHHHHHHHhhh-hh-ccCceEeecCc
Q psy14859 769 QVQHFISTDASD-----------LGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLP-LL-QSSVVMVQSDN 835 (1097)
Q Consensus 769 ~~p~~L~TDAS~-----------~GiGAVL~qa~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~-~L-~g~~~~V~TDh 835 (1097)
+..++||||+|. .|+|+++...--.+.+...+.....+..|+.|.+.||..... .+ .+++++|+|||
T Consensus 5 ~~evviYTDGsc~gNpgp~~~~~aG~Gv~~~~~~~~~~~~~~~~~~tnn~te~~Aei~Al~~al~~al~~~~~v~I~TDS 84 (165)
T 2lsn_A 5 QYEGVFYTDGSAIKSPDPTKSNNAGMGIVHATYKPEYQVLNQWSIPLGNHTAQMAEIAAVEFACKKALKIPGPVLVITDS 84 (165)
T ss_dssp CCSEEEEEEEEEEECSSCTTCEEEEEEEEEECCSSSCCEEEEEEEEESSCCHHHHHHHHHHHHHHHHHHSSSCEEEEESC
T ss_pred CceEEEEEcCCCCCCCCCCCCCcEEEEEEEEECCCccEEeccccCCchHHHHHHHHHHHHHHHHHHHhcCCCeEEEEeCh
Confidence 356899999994 367777754222233333333334455566666666553221 12 46789999999
Q ss_pred HHHHHHHHh-----------cCCCCchhhHHHHHHHHHHhhccCceEEEEEecCCC----------ccccccccCC
Q psy14859 836 QTVVSYLRR-----------QGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAY----------NSVADSLSRS 890 (1097)
Q Consensus 836 k~lv~~l~~-----------~~~~~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk~----------N~~ADaLSR~ 890 (1097)
+-++..++. ....+......+.+++...+..+. ++++.||+|.. |..||.|+|.
T Consensus 85 ~Yvi~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~-~v~~~~VkgH~g~~~~~~~~gNe~AD~LA~~ 159 (165)
T 2lsn_A 85 FYVAESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKP-DITIQHEKGHQPTNTSIHTEGNALADKLATQ 159 (165)
T ss_dssp HHHHHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCT-TCEEEECCSSSCSSSCHHHHHHHHHHHHHHH
T ss_pred HHHHhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCC-CEEEEEEeCCCCccCCCCChHHHHHHHHHHH
Confidence 998766643 111111122345666766666543 46679999874 8889998874
No 18
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO enzyme, structural genomics, protein structure initiative; NMR {Desulfitobacterium hafniense dcb-2} PDB: 2kw4_A
Probab=98.08 E-value=4.5e-07 Score=90.81 Aligned_cols=116 Identities=12% Similarity=0.052 Sum_probs=74.0
Q ss_pred CcceeeeeccCC----CCCcceeecc----cccc-ccchhh-hcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHH
Q psy14859 769 QVQHFISTDASD----LGWGSQVDSS----FLSG-LWSREQ-QNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTV 838 (1097)
Q Consensus 769 ~~p~~L~TDAS~----~GiGAVL~qa----~~Sr-~ls~aE-~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~l 838 (1097)
...+.+|||+|. .|+|+++... ..+. .....+ ..-+.++.|+.|++.||+.... .+.++.|+||++.+
T Consensus 4 ~~~i~iytDGs~~~g~~G~G~vi~~~g~~~~~~~~~~~~~~~~~~tNn~aEl~A~~~AL~~a~~--~~~~v~I~tDS~~i 81 (147)
T 2kq2_A 4 RTEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYAVKKASQ--LGVKIRILHDYAGI 81 (147)
T ss_dssp TSCCEEECCCCCBTTBCEEEEEEEETTEEEEEEEEECCCGGGGGTCTTHHHHHHHHHHHHHHHH--HTCCCCBSSCCSTH
T ss_pred CCeEEEEECCCCCCCCcEEEEEEEECCEEEEEEeccccccccccccHHHHHHHHHHHHHHHHHH--CCCeEEEEECcHHH
Confidence 356889999987 5788888641 1121 111111 1347889999999999995332 24499999999999
Q ss_pred HHHHHhcCCCCchhhHHHHHHHHHHhhccCceEEEEEecCCC----ccccccccCC
Q psy14859 839 VSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAY----NSVADSLSRS 890 (1097)
Q Consensus 839 v~~l~~~~~~~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk~----N~~ADaLSR~ 890 (1097)
..|+.+...+.... .....+++++..-.+.+.||||.. |..||.|+|.
T Consensus 82 ~~w~~~~w~~~~~~----~~~~~~l~~~l~~~v~~~wV~gH~g~~~Ne~AD~LA~~ 133 (147)
T 2kq2_A 82 AFWATGEWKAKNEF----TQAYAKLMNQYRGIYSFEKVKAHSGNEFNDYVDMKAKS 133 (147)
T ss_dssp HHHTTSSSSCCHHH----HHHHHCGGGGGSTTCCBCCCCCCCCCHHHHHHHHHHHH
T ss_pred HHHHhCCCccCCcc----hHHHHHHHHHhcCCeeEEEecCcCCCcchHHHHHHHHH
Confidence 88876533222211 122333333321145669999864 8899999885
No 19
>1zbf_A Ribonuclease H-related protein; RNAse H, RNA/DNA hybrid, DDE motif, hydrolase; 1.50A {Bacillus halodurans} SCOP: c.55.3.1 PDB: 1zbi_A 2g8u_A 2g8i_A 2g8h_A 2g8k_A 2g8f_A 2g8v_A 2g8w_A 3ey1_A* 1zbl_A 3d0p_A* 3i8d_A* 2r7y_A*
Probab=97.66 E-value=4.1e-05 Score=76.12 Aligned_cols=115 Identities=11% Similarity=-0.021 Sum_probs=72.6
Q ss_pred cceeeeeccCCC------CCcceeeccccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHH
Q psy14859 770 VQHFISTDASDL------GWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLR 843 (1097)
Q Consensus 770 ~p~~L~TDAS~~------GiGAVL~qa~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~ 843 (1097)
.-+.|+||+|.. |+|+|+...-.....+......+.++.|++|++.||+..... .. ++.|+||++.++.|++
T Consensus 10 ~~~~iy~DGa~~gNpG~~G~G~vl~~~g~~~~~~~~~~~~TNN~aEl~A~i~aL~~~~~~-~~-~v~i~tDS~~vi~w~~ 87 (142)
T 1zbf_A 10 IWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKER-NS-RKPIYSNSQTAIKWVK 87 (142)
T ss_dssp CSSSEEEEEEECSSSEEEEEEEEETTTCCEEEECCCEEEECHHHHHHHHHHHHHHHHHHT-TC-CCCEEESCHHHHHHHH
T ss_pred CeEEEEEeeccCCCCCCeEEEEEEEeCCEEEEEecccCCcCcHHHHHHHHHHHHHHHHhC-CC-eEEEEEehHHHHHHHH
Confidence 347899999764 678888631000001112235678999999999999975542 12 8999999999999998
Q ss_pred hcCCC-------CchhhHHHHHHHHHHhhccCceEEEEEecCC--Ccccccc
Q psy14859 844 RQGGT-------KSLSLLSEVEKIFLLSQDWRIHILAQFIPGA--YNSVADS 886 (1097)
Q Consensus 844 ~~~~~-------~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk--~N~~ADa 886 (1097)
+.... +...+-.++.+...|+....+...+..--.+ .|.+||.
T Consensus 88 ~~~~k~~~~~~v~n~dLw~~l~~~~~w~~~~~~~~~~~kw~~~~~ge~pad~ 139 (142)
T 1zbf_A 88 DKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADY 139 (142)
T ss_dssp HTCCCCCCCCSTTTHHHHHHHHHHHHHHHHCCCCCCEEECCHHHHCSCTTCC
T ss_pred cCCccCCCCCCcccHHHHHHHHHHHHHHhhCCCceeEEEeccCccCcCcccc
Confidence 85411 2223444555666777777665533322222 4567775
No 20
>3f9k_A Integrase; protein-protein complex, AIDS, DNA integration, endonuclease magnesium, metal-binding, multifunctional enzyme; 3.20A {Human immunodeficiency virus type 2} PDB: 1e0e_A
Probab=97.53 E-value=1.3e-05 Score=84.32 Aligned_cols=90 Identities=8% Similarity=-0.090 Sum_probs=63.2
Q ss_pred CCCCChHHhHHHhhccccCCCcHHHHHHHhhcchhhhccCCCCcccccccccccccccccccCCCCCCcccccccccccC
Q psy14859 955 SLDPDHFQELDDFVVFWPVFGSKTDSSSHLQSGWKIKENSSDPLFCIPTWIRHLSTLSQRRMGSRPLTSLFITTRGIVQP 1034 (1097)
Q Consensus 955 ~GH~G~~kT~~rl~~~f~Wp~M~~dV~~yV~~C~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~i~~~g~~~~ 1034 (1097)
.+|.|..+|+++|++.||||+|. |++||+.|..|+.....+ ..| ...|+....+|..++
T Consensus 11 ~~H~~~h~~~~~l~~~~~wp~~~--~~~~v~~C~~Cq~~k~~~--~~~--------------~~~p~~~w~~D~~~~--- 69 (210)
T 3f9k_A 11 EEHEKYHSNVKELSHKFGIPNLV--ARQIVNSCAQCQQKGEAI--HGQ--------------VNAELGTWQMDCTHL--- 69 (210)
T ss_dssp HHHHHHCCCHHHHHHHHCCCHHH--HHHHHHTCTTTTTCCCCC--CCC--------------TTSCTTEEEEEEEEE---
T ss_pred HhHHHhccCHHHHHHhCCCChHH--HHHHHhcCHHHHccCCCC--CCC--------------CCCCCCeEeEeeccc---
Confidence 56889999999999999999998 999999999999764221 111 112233333443321
Q ss_pred CCCcceeEEEEeeecccceeeccCCCcchhhhhh
Q psy14859 1035 ASRSVIAGWVKTALRGANIIASPGSMRSAVATFR 1068 (1097)
Q Consensus 1035 ~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~t~~ 1068 (1097)
+...++|..|.+++++++.+.+..++.....
T Consensus 70 ---~~~y~l~~vD~~sr~~~~~~~~~~~~~~~~~ 100 (210)
T 3f9k_A 70 ---EGKIIIVAVHVASGFIEAEVIPQESGRQTAL 100 (210)
T ss_dssp ---TTEEEEEEEETTTTEEEEEEESSCCHHHHHH
T ss_pred ---CCeEEEEEEEcCCCcEEEEEeCCcchHHHHH
Confidence 2356888888889999999988766655443
No 21
>4htu_A Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, W-C base PAIR, wobble base PAIR, D helix; HET: DNA UCL; 1.49A {Bacillus halodurans} PDB: 3d0p_A* 4hue_A* 4huf_A* 4hug_A* 1zbf_A 1zbi_A 2g8u_A 3uld_A* 3ey1_A* 3twh_A* 2g8f_A 2g8v_A 2g8w_A 2g8i_A 2g8h_A 2g8k_A 3i8d_A* 2r7y_A* 1zbl_A
Probab=97.37 E-value=0.00017 Score=70.76 Aligned_cols=100 Identities=11% Similarity=0.019 Sum_probs=65.1
Q ss_pred eeeeeccCCC------CCcceeeccccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHHhc
Q psy14859 772 HFISTDASDL------GWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQ 845 (1097)
Q Consensus 772 ~~L~TDAS~~------GiGAVL~qa~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~~~ 845 (1097)
..||||+|.. |+|+|+...-...........-+.++.|++|++.||+.... .+.++.|+|||+.++.|+++.
T Consensus 6 ~~iytDGac~GNPGp~G~ggV~~~~g~~~~~~g~~~~tTNN~aEl~A~i~aL~~l~~--~~~~v~i~tDSqyVi~wi~~~ 83 (134)
T 4htu_A 6 ESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKE--RNSRKPIYSNSQTAIKWVKDK 83 (134)
T ss_dssp SSEEEEEEEETTTEEEEEEEEETTTCCEEEEEEEEEEECHHHHHHHHHHHHHHHHHH--TTCCCCEEESCHHHHHHHHHT
T ss_pred eEEEEeeccCCCCCCeEEEEEEEECCEEEEEecCCCCCchHHHHHHHHHHHHHHHHh--CCCCEEEEcchHHHHHHHHcC
Confidence 4689999874 57777755111111222233568899999999999997544 244589999999999999874
Q ss_pred CCC-------CchhhHHHHHHHHHHhhccCceEEE
Q psy14859 846 GGT-------KSLSLLSEVEKIFLLSQDWRIHILA 873 (1097)
Q Consensus 846 ~~~-------~~~~l~~~~~r~~~~L~~f~~~i~I 873 (1097)
+.. +...+-.++.+...+|..+.+...|
T Consensus 84 ~~kt~~~~~vkN~dLw~~ld~~~~~l~~~~~~~~~ 118 (134)
T 4htu_A 84 KAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPI 118 (134)
T ss_dssp CCCCCCCCSSTTHHHHHHHHHHHHHHHHCCCCCCE
T ss_pred CcccCCCCCccCHHHHHHHHHHHHHHHhCCCCCce
Confidence 321 2333334455555777776654433
No 22
>3hph_A Integrase, IN; protein-protein complex, tetramer, DNA integration, endonucl magnesium, metal-binding, multifunctional enzyme; 2.64A {Maedi visna virus} PDB: 3hpg_A
Probab=96.95 E-value=0.00016 Score=76.37 Aligned_cols=90 Identities=9% Similarity=-0.133 Sum_probs=55.5
Q ss_pred CCCChHHhHHHhhccccCCCcHHHHHHHhhcchhhhccCCC--CcccccccccccccccccccCCCCCCccccccccccc
Q psy14859 956 LDPDHFQELDDFVVFWPVFGSKTDSSSHLQSGWKIKENSSD--PLFCIPTWIRHLSTLSQRRMGSRPLTSLFITTRGIVQ 1033 (1097)
Q Consensus 956 GH~G~~kT~~rl~~~f~Wp~M~~dV~~yV~~C~~~~~~~~~--~l~~~p~~~~~~~~~~~~~~~~~~~~~~~i~~~g~~~ 1033 (1097)
+|.|...+.++|++.||||+| ||++||+.|..|+..... +....+ .|.....+|..
T Consensus 11 ~H~~~h~~~~~l~~~~~~p~~--~~~~~v~~C~~Cq~~k~~~~~~~~~~----------------~p~~~w~~D~t---- 68 (219)
T 3hph_A 11 EHNKWHQDAVSLHLEFGIPRT--AAEDIVQQCDVCQENKMPSTLRGSNK----------------RGIDHWQVDYT---- 68 (219)
T ss_dssp HHHHHCCCHHHHHHHSCCCHH--HHHHHHTTCTTC--------------------------------CCEEEEEEE----
T ss_pred HHHHHhcCHHHHHHhCCCCHH--HHHHHHHcCHHHHcCCCCCCCCCCCC----------------CCCceEEEEEe----
Confidence 455666677889999999999 999999999999876431 100111 11111112221
Q ss_pred CCCCcceeEEEEeeecccceeeccCCCcchhhhhhh
Q psy14859 1034 PASRSVIAGWVKTALRGANIIASPGSMRSAVATFRY 1069 (1097)
Q Consensus 1034 ~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~t~~~ 1069 (1097)
..+...++|..|.+++++.+.+.+..++..+...
T Consensus 69 --~~~~~y~~~~iD~~Sr~~~~~~~~~~~~~~~~~~ 102 (219)
T 3hph_A 69 --HYEDKIILVWVETNSGLIYAERVKGETGQEFRVQ 102 (219)
T ss_dssp --EETTEEEEEEEETTTCCEEEEEESCCCHHHHHHH
T ss_pred --cCCCEEEEEEEeCCCCcEEEEEeCCCCHHHHHHH
Confidence 1234688888899999999999887776655443
No 23
>1k6y_A Integrase; HIV-1, domain organization, transferase; 2.40A {Human immunodeficiency virus 1} SCOP: a.4.10.1 c.55.3.2 PDB: 1wjb_A 1wjd_A 1wjf_A 1wja_A 1wjc_A 1wje_A
Probab=96.52 E-value=0.00048 Score=72.11 Aligned_cols=89 Identities=7% Similarity=-0.137 Sum_probs=56.4
Q ss_pred CCChHHhHHHhhccccCCCcHHHHHHHhhcchhhhccCCCCcccccccccccccccccccCCCCCCcccccccccccCCC
Q psy14859 957 DPDHFQELDDFVVFWPVFGSKTDSSSHLQSGWKIKENSSDPLFCIPTWIRHLSTLSQRRMGSRPLTSLFITTRGIVQPAS 1036 (1097)
Q Consensus 957 H~G~~kT~~rl~~~f~Wp~M~~dV~~yV~~C~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~i~~~g~~~~~~ 1036 (1097)
|.|...++++|++.||||+| ++++||+.|..|+.....+. .| ...|.....+|..++
T Consensus 12 H~~~h~~~~~l~~~~~~p~~--~~~~~~~~C~~C~~~~~~~~--~~--------------~~~p~~~w~~D~~~~----- 68 (212)
T 1k6y_A 12 HEKYHSNWRAMASDFNLPPV--VAKEIVASCDKCQLKGEAMH--GQ--------------VDCSPGIWQLDCTHL----- 68 (212)
T ss_dssp HHHHCCCHHHHHHHHTCCHH--HHHHHHHHCTTCCCC-------------------------CCTTEEEEEEEEE-----
T ss_pred hHhhhcCHHHHHHhcCCCHH--HHHHHHhhChhhhccCCCCC--CC--------------CCCCCCeeeEEEecC-----
Confidence 44555667778889999999 68999999999987632210 01 112333334444443
Q ss_pred CcceeEEEEeeecccceeeccCCCcchhhhhhh
Q psy14859 1037 RSVIAGWVKTALRGANIIASPGSMRSAVATFRY 1069 (1097)
Q Consensus 1037 ~~~~~~~v~~~~~~~~~~~~~~~~~~~~~t~~~ 1069 (1097)
+...++|..|.+++++.+.+.+..++......
T Consensus 69 -~~~~~l~~vD~~Sr~~~~~~~~~~~~~~~~~~ 100 (212)
T 1k6y_A 69 -EGKVILVAVHVASGYIEAEVIPAETGQETAYF 100 (212)
T ss_dssp -TTEEEEEEEETTTTEEEEEEESSCCHHHHHHH
T ss_pred -CCeEEEEEEEccCCcEEEEEecCcchHHHHHH
Confidence 33456677788999999988887766554433
No 24
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A {Tribolium castaneum} PDB: 3du5_A 3du6_A
Probab=96.36 E-value=0.0042 Score=72.33 Aligned_cols=135 Identities=16% Similarity=0.153 Sum_probs=94.6
Q ss_pred cccCCceeEEeccccccccccccc-------c-----cccccc----------cccccceE-EeeccCccCCCChHHHHH
Q psy14859 541 FLQKGDYMISIDLSQAYFHVPIKT-------T-----HQRFLA----------LSYNGDVL-AMTCLPFGLATAPQAFAS 597 (1097)
Q Consensus 541 ~L~~~~~fs~lDLksAY~qI~L~~-------e-----dr~~ta----------F~t~~g~y-~~~rLPFGL~nSP~~Fqr 597 (1097)
...|..|...+|+++.|-.|.-+. . |..... +...+..| +-...|+|..-||-+-.-
T Consensus 240 ~s~G~~yVVDaDIkkFFDnINHdkLLk~L~~~i~~IlDk~Il~LIkk~Lka~LV~igGk~y~qekGTPQGGVISPLLANI 319 (596)
T 3kyl_A 240 KTQGQIYGIKVDIRDAYGNVKIPVLCKLIQSIPTHLLDSEKKNFIVDHISNQFVAFRRKIYKWNHGLLQGDPLSGCLCEL 319 (596)
T ss_dssp HCCSCCEEEEEEESSTTTTCCHHHHHHHHTTSCTTTSCHHHHHHHHHHHHCEEEESSSSEEEECSSSCBTCTTHHHHHHH
T ss_pred hcCCCeEEEeeEHHhhCCCCCHHHHHHHHHhhccccccHHHHHHHHHHHhhCeEEECCEEEecCCcccCCcchhHHHHHH
Confidence 345788999999999998886421 1 111010 11122333 356889999999999988
Q ss_pred hhHHHHhhhhc---cCceEEEEecCceeeecCchhHHHhhhHHHHHHhhccceeccccCCCC------CCCeEEEeeEEe
Q psy14859 598 LSNWVASLLRS---RGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLS------PAPVLQFLGIMW 668 (1097)
Q Consensus 598 ~m~~il~~lr~---~g~~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~ln~~Kc~f~------p~~~v~fLG~iI 668 (1097)
.++.+.+.+.. .+..++.|.||++|.+.+.+++...++. ++..+ .+|++|.... +...+.|+|+.|
T Consensus 320 YLheLDkel~~~l~kd~~LVRYADDFVIi~~Ske~Aerfl~~----Lkg~l-eLNpEKTrInF~~~~lp~~~fpwCGLLI 394 (596)
T 3kyl_A 320 YMAFMDRLYFSNLDKDAFIHRTVDDYFFCSPHPHKVYDFELL----IKGVY-QVNPTKTRTNLPTHRHPQDEIPYCGKIF 394 (596)
T ss_dssp HHHHHHHHHSTTSCTTSEEEECSSEEEEEESCHHHHHHHHHH----HHHHS-CEEEEEEEECCTTSSSCCSEEEETTEEE
T ss_pred HHHHHHHHHHHhhccCceEEEEcCcEEEEECCHHHHHHHHHH----hhCcc-eECchhceeecccccCCCceeeeeeEEE
Confidence 88887665421 2457899999999999998876665553 34443 9999997642 346799999999
Q ss_pred CCCCCcccCcch
Q psy14859 669 DPHLDRMWLPED 680 (1097)
Q Consensus 669 s~~gi~v~l~~~ 680 (1097)
+....+++.+-.
T Consensus 395 DtkTLEI~kDyS 406 (596)
T 3kyl_A 395 NLTTRQVRTLYK 406 (596)
T ss_dssp ETTTCCEEECCC
T ss_pred ECCEEEEEeChh
Confidence 999998754433
No 25
>3nnq_A Integrase P46, N-terminal domain of moloney murine leukemia VIRU integrase; retroviral integrase, Zn finger; 2.69A {Moloney murine leukemia virus}
Probab=52.60 E-value=9.5 Score=35.91 Aligned_cols=61 Identities=11% Similarity=0.021 Sum_probs=44.3
Q ss_pred ceEEecchhHHHHHhhhhhhcccccCCCCCCChHHhHHHhhcc---ccCCCcHHHHHHHhhcchhhh-ccCCC
Q psy14859 928 NHFQVSRHVAILLLLSSGRRVHDLTLLSLDPDHFQELDDFVVF---WPVFGSKTDSSSHLQSGWKIK-ENSSD 996 (1097)
Q Consensus 928 ~r~~~~~~~~~~l~~~~g~~~Hd~~~~~GH~G~~kT~~rl~~~---f~Wp~M~~dV~~yV~~C~~~~-~~~~~ 996 (1097)
++.++|...+.... ...|..+ |.|..+....|.+. ||-|+..+-+++.+.+|.-|. .|+..
T Consensus 41 Gk~vlP~~~~~eli----~~lH~lT----HLg~~kl~~Ll~r~e~~~~i~~~~~~~~~Vt~sC~aCaqvNa~~ 105 (114)
T 3nnq_A 41 GKPVMPDQFTFELL----DFLHQLT----HLSFSKMKALLERSHSPYYMLNRDRTLKNITETCKACAQVNASK 105 (114)
T ss_dssp TEEEECHHHHHHHH----HHHHHHH----CCCHHHHHHHHHHHCCSSEETTHHHHHHHHHHHCHHHHHHHCCC
T ss_pred CCCcCCHHHHHHHH----HHHHHHh----ccCHHHHHHHHHhhccceeeeCHHHHHHHHHHHHHHHHHhCCcc
Confidence 55667764332222 2255543 88999999999875 999999999999999999775 45544
No 26
>3s8i_A Protein DDI1 homolog 1; protease, structural genomics, structural genomics consortiu retropepsin-like domain, protein turnover, hydrolase; 1.70A {Homo sapiens}
Probab=41.45 E-value=10 Score=37.33 Aligned_cols=38 Identities=16% Similarity=0.017 Sum_probs=31.9
Q ss_pred CCCCcccchHHHHhcCCcccCCCCcCCCCCcccceeec
Q psy14859 362 PRDPHLASLLLRARRGKKSSSPQNLEPPGRVSLKVQTL 399 (1097)
Q Consensus 362 ~~~~~ilG~d~l~~~g~~i~~~~~~~~~~~~~~~l~~l 399 (1097)
..-+.|+|+|++.++++.||+..+.+.++.+...+.++
T Consensus 105 ~~~d~LLGmD~L~~~~~~ID~~~~~L~l~~~~~~~pfl 142 (148)
T 3s8i_A 105 QPMDMLLGLDMLRRHQCSIDLKKNVLVIGTTGTQTYFL 142 (148)
T ss_dssp CSSSEEECHHHHHHTTCEEETTTTEEECTTTCCEEECC
T ss_pred CCcCeeccHHHHHhCCEEEEcCCCEEEEccCCeEEeec
Confidence 34578999999999999999999999888766555555
No 27
>1xr5_A Genome polyprotein; RNA-dependent RNA polymerase, transferase; 2.80A {Human rhinovirus 14} SCOP: e.8.1.4
Probab=34.59 E-value=19 Score=42.11 Aligned_cols=86 Identities=17% Similarity=0.252 Sum_probs=57.5
Q ss_pred eeccCccCCCChHHHHHhhHHHHhhh------hcc---CceEEEEecCceeeecCchhHHHhhhHHHHHHhhccceecc-
Q psy14859 581 MTCLPFGLATAPQAFASLSNWVASLL------RSR---GMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNL- 650 (1097)
Q Consensus 581 ~~rLPFGL~nSP~~Fqr~m~~il~~l------r~~---g~~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~ln~- 650 (1097)
...||-|.. +-.++..+++.++-.. ... ...+++|=||.++.....- .+..+.+.++++|+.++.
T Consensus 282 ~~G~PSG~p-~Tsi~NSi~n~i~i~~a~~~~~~~~~~~~~~~~~yGDD~iis~~~~~----~~~~l~~~~~~~Gl~~t~~ 356 (466)
T 1xr5_A 282 EGGMPSGCS-GTSIFNSMINNIIIRTLILDAYKGIDLDKLKILAYGDDLIVSYPYEL----DPQVLATLGKNYGLTITPP 356 (466)
T ss_dssp ESCCCTTSS-SHHHHHHHHHHHHHHHHHHHHCSSCCGGGCEEEEETTEEEEECSSCC----CHHHHHHHHTTTTCCEECC
T ss_pred eCcCCCCCC-chhchhhHHHHHHHHHHHHHHhcCCCccceEEEEECCCCCceeCCCC----CHHHHHHHHHHcCCccChh
Confidence 445666642 4466666665544311 111 2467899999999877542 356677888999999999
Q ss_pred ccCCCC---CCCeEEEeeEEeCCC
Q psy14859 651 QKSSLS---PAPVLQFLGIMWDPH 671 (1097)
Q Consensus 651 ~Kc~f~---p~~~v~fLG~iIs~~ 671 (1097)
+|+... ...++.|||+.+..+
T Consensus 357 dKt~~~~~~~~~~l~FL~r~~~~~ 380 (466)
T 1xr5_A 357 DKSETFTKMTWENLTFLKRYFKPD 380 (466)
T ss_dssp SSCSSCCCCCTTTCCBTTBEEEEC
T ss_pred hhcCCCCCCCcCCceEecceEeec
Confidence 888743 246899999877543
No 28
>3bso_A RNA dependent RNA polymerase; RNA-dependent RNA polymerase, viral replication, antiviral E inhibitor, helicase, hydrolase; HET: CTP; 1.74A {Norwalk virus} PDB: 3bsn_A* 3h5x_A* 3h5y_A* 1sh0_A 1sh2_A 1sh3_A 2b43_A
Probab=28.55 E-value=36 Score=40.32 Aligned_cols=98 Identities=18% Similarity=0.157 Sum_probs=59.9
Q ss_pred EeeccCccCCCChHHHHHhhHHHHhhh--hc-cC---------ceEEEEecCceeeecCchhHHHhhhHHHHHHhhccce
Q psy14859 580 AMTCLPFGLATAPQAFASLSNWVASLL--RS-RG---------MRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWI 647 (1097)
Q Consensus 580 ~~~rLPFGL~nSP~~Fqr~m~~il~~l--r~-~g---------~~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~ 647 (1097)
....||=|.. +-.+++.+++.++..+ .. .| ...++|=||.++..+..- .+..+.+.++++|+.
T Consensus 294 ~~~G~PSG~p-~Tsi~NSi~N~i~~~~a~~~~~~~~~~~~~~~~~~~~yGDD~i~s~~~~~----~~~~~~~~~~~~Gl~ 368 (510)
T 3bso_A 294 INEGLPSGVP-CTSQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKL----DPEKLTAKLKEYGLK 368 (510)
T ss_dssp ECSSCCTTST-THHHHHHHHHHHHHHHHHHHHHTCCHHHHHHTEEEEEETTEEEEEESSCC----CHHHHHHHHHHTTCC
T ss_pred EeCcccCCCC-eeeccchHHHHHHHHHHHHHhcCCCHHHhhheEEEEEecCceeeccCccc----cHHHHHHHHHHcCcC
Confidence 3455666643 4556666666654311 11 01 234799999999887542 446777888999999
Q ss_pred ecc-ccCCC-----CCCCeEEEeeEE--eCCCCCcccCcchhh
Q psy14859 648 VNL-QKSSL-----SPAPVLQFLGIM--WDPHLDRMWLPEDKQ 682 (1097)
Q Consensus 648 ln~-~Kc~f-----~p~~~v~fLG~i--Is~~gi~v~l~~~Ki 682 (1097)
+++ +|+.- ....++.||++. .+.+++...++.+++
T Consensus 369 ~t~~dKt~~~~~~~~~~~~l~FLkr~f~~~~~~~~p~L~~~~I 411 (510)
T 3bso_A 369 PTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSI 411 (510)
T ss_dssp EECTTCCSSSCCCBSCCTTCEETTEEEEEETTEEEEEECHHHH
T ss_pred ccccccccCcccccCCcCCCeeeCcEeEEcCCEEEeecCHHHH
Confidence 999 58652 135679999554 455554433344444
No 29
>1ra6_A P3D, genome polyprotein; nucleotidyltransferase, RNA-dependent, polym terminus, transferase; 2.00A {Human poliovirus 1} SCOP: e.8.1.4 PDB: 1ra7_A* 2ily_A* 2ilz_A* 2im0_A* 2im1_A* 2im2_A* 2im3_A* 2ijf_A 3ol9_A* 3ol7_A 3ol8_A 3ol6_A* 3ola_A* 3olb_A* 1tql_A 1rdr_A 1raj_A 3ddk_A 3cdu_A 3cdw_A
Probab=25.97 E-value=47 Score=38.78 Aligned_cols=84 Identities=17% Similarity=0.190 Sum_probs=54.2
Q ss_pred eeccCccCCCChHHHHHhhHHHHhhhh------c---cCceEEEEecCceeeecCchhHHHhhhHHHHHHhhccceecc-
Q psy14859 581 MTCLPFGLATAPQAFASLSNWVASLLR------S---RGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNL- 650 (1097)
Q Consensus 581 ~~rLPFGL~nSP~~Fqr~m~~il~~lr------~---~g~~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~ln~- 650 (1097)
...||-|. .+-.+++.+|+.++-... . ....+++|=||.++..+..- .+..+.+.++++|+.++.
T Consensus 283 ~~G~PSG~-p~Tsv~NSl~n~i~~~~~~~~~~~~~~~~~~~~~~yGDD~i~~~~~~~----~~~~l~~~~~~~Gl~~t~~ 357 (461)
T 1ra6_A 283 KGGMPSGX-SGTSIFNSMINNLIIRTLLLKTYKGIDLDHLKMIAYGDDVIASYPHEV----DASLLAQSGKDYGLTMTPA 357 (461)
T ss_dssp ESCCCTBS-TTHHHHHHHHHHHHHHHHHHHHSTTCCGGGCEEEEETTEEEEEESSCC----CHHHHHHHHHHTTCCEEST
T ss_pred EeecCCCC-CeeeeehHHHHHHHHHHHHHHcCCCCCCceEEEEecCCceEEEecccc----CHHHHHHHHHHcCceeccc
Confidence 34466664 244666666665543211 1 12467899999999977542 356777888999999996
Q ss_pred ccCCCC---CCCeEEEeeEEeC
Q psy14859 651 QKSSLS---PAPVLQFLGIMWD 669 (1097)
Q Consensus 651 ~Kc~f~---p~~~v~fLG~iIs 669 (1097)
+|.... ...++.||++.+.
T Consensus 358 dKt~~~~~~~~~~l~FLkr~~~ 379 (461)
T 1ra6_A 358 DKSATFETVTWENVTFLKRFFR 379 (461)
T ss_dssp TTCSSCCCCCTTTCCBTTBEEE
T ss_pred ccCCCCCCcCcCCceEEeeeeE
Confidence 676521 2578999965544
No 30
>3uqs_A RNA-dependent RNA polymerase; transferase; 2.00A {Murine norovirus} PDB: 3ur0_A* 3upf_A* 3sfg_A* 3nah_A 3nai_A 3qid_A* 3sfu_A*
Probab=24.72 E-value=73 Score=37.74 Aligned_cols=67 Identities=15% Similarity=0.008 Sum_probs=46.6
Q ss_pred eEEEEecCceeeecCchhHHHhhhHHHHHHhhccceecc-ccCCC-----CCCCeEEEeeEEe--CCCCCcccCcchhh
Q psy14859 612 RVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNL-QKSSL-----SPAPVLQFLGIMW--DPHLDRMWLPEDKQ 682 (1097)
Q Consensus 612 ~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~ln~-~Kc~f-----~p~~~v~fLG~iI--s~~gi~v~l~~~Ki 682 (1097)
.+++|=||.++..+.. -....+.+.++++|+..+. +|..- .+..++.||.+.+ +.+++...++.+.+
T Consensus 337 ~~~~yGDD~i~sv~~~----~~~~~l~~~~~~~Gl~~t~~dKt~~~~~~~~~~~~~~FLkR~f~~~~~~~~~~L~~~~I 411 (515)
T 3uqs_A 337 EFSFYGDDEVVSTNLE----LDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASI 411 (515)
T ss_dssp EEEEETTEEEEEESSC----CCHHHHHHHHHHTTCCCCCTTCCSSCCCCBSCSTTCEETTEEEEEETTEEEEECCHHHH
T ss_pred EEEEeCCceEEEeccc----cCHHHHHHHHHHhCcEeccccccCCccccCCCCCCCeeCCCCcEeCCCEEEeccCHHHH
Confidence 3579999999987753 2456778889999999999 77652 1347899997665 45555444444444
No 31
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} PDB: 3is9_A* 3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Probab=23.30 E-value=24 Score=42.17 Aligned_cols=109 Identities=17% Similarity=0.101 Sum_probs=74.5
Q ss_pred cceeeeeccCC------CCCcceeeccccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHH
Q psy14859 770 VQHFISTDASD------LGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLR 843 (1097)
Q Consensus 770 ~p~~L~TDAS~------~GiGAVL~qa~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~ 843 (1097)
..+++|||+|. .|+|+++... ....+ ....-+.++.|+.|++.||+.. .+++.|+||++.++..++
T Consensus 438 ~~~~iytDGs~~~n~g~~g~g~v~~~~-~~~~~--~~~~~TNn~aEl~Ai~~aL~~~-----~~~v~I~tDS~~vi~~i~ 509 (557)
T 2zd1_A 438 GAETFYVDGAANRETKLGKAGYVTNKG-RQKVV--PLTNTTNQKTELQAIYLALQDS-----GLEVNIVTDSQYALGIIQ 509 (557)
T ss_dssp TSCEEEEEEEECTTTCCEEEEEEETTS-CEEEE--EECSCCHHHHHHHHHHHHHHHS-----CSEEEEEECCHHHHHHHT
T ss_pred CCEEEEEccCCCCCCCceEEEEEEECC-cEEEe--cCCCCCHHHHHHHHHHHHHHhC-----CCcEEEEeChHHHHHHHh
Confidence 45899999985 3456666421 11111 2234578899999999999965 689999999999999998
Q ss_pred hcCCCCchhhHHHHHHHHHHhhccCceEEEEEecCCC----ccccccccCC
Q psy14859 844 RQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAY----NSVADSLSRS 890 (1097)
Q Consensus 844 ~~~~~~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk~----N~~ADaLSR~ 890 (1097)
+...... ..+..++...+.+. ..+.+.||+|.. |..||.|++.
T Consensus 510 ~~~~~~~---~~l~~~~~~~l~~~-~~v~~~wV~~H~g~~~Ne~AD~LA~~ 556 (557)
T 2zd1_A 510 AQPDKSE---SELVNQIIEQLIKK-EKVYLAWVPAHKGIGGNEQVDKLVSA 556 (557)
T ss_dssp TCCSEES---SHHHHHHHHHHHHC-SEEEEEECCSSSCCTTCCGGGGCC--
T ss_pred cCCccCC---HHHHHHHHHHHhcC-CCEEEEEcCCCCCChhHHHHHHHHhc
Confidence 7433212 23344555444444 367889999964 9999999874
No 32
>3n6m_A RNA-dependent RNA polymerase; EV71, RDRP, GTP, transferase; HET: GTP; 2.50A {Human enterovirus 71} SCOP: e.8.1.4 PDB: 3n6l_A* 3n6n_A*
Probab=23.08 E-value=70 Score=37.36 Aligned_cols=119 Identities=21% Similarity=0.148 Sum_probs=66.6
Q ss_pred eeccCccCCCChHHHHHhhHHHHhh--h-h---cc---CceEEEEecCceeeecCchhHHHhhhHHHHHHhhccceeccc
Q psy14859 581 MTCLPFGLATAPQAFASLSNWVASL--L-R---SR---GMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQ 651 (1097)
Q Consensus 581 ~~rLPFGL~nSP~~Fqr~m~~il~~--l-r---~~---g~~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~ln~~ 651 (1097)
+..||=|. .+-.++..+|+.++-. + . .. ...+++|=||.++..+..- ....+-+.++++|+..+..
T Consensus 284 ~~G~PSG~-p~Tsv~NSl~n~i~~~~a~~~~~~~~~~~~~~~~~yGDD~i~s~~~~~----~~~~l~~~~~~~Gl~~t~~ 358 (462)
T 3n6m_A 284 LGGMPSGC-SGTSIFNSMINNIIIRALLIKTFKGIDLDELNMVAYGDDVLASYPFPI----DCLELAKTGKEYGLTMTPA 358 (462)
T ss_dssp ESSCCCSC-STTHHHHHHHHHHHHHHHHHHHSTTCCGGGCEEEEETTEEEEEESSCC----CHHHHHHHHHHTTCEEEES
T ss_pred eCCcCCCC-CccccchHHHHHHHHHHHHHHHcCCCCcceEEEEeecCceEEEeCccc----CHHHHHHHHHHcCceechh
Confidence 44566664 3444555565554331 1 1 11 2357899999999887531 4566777889999999874
Q ss_pred -cCCCC---CCCeEEEeeE--EeCCC---CCcccCcchhhhhhhHHHHHhhhcc-c-cChhhhhhhhhcc
Q psy14859 652 -KSSLS---PAPVLQFLGI--MWDPH---LDRMWLPEDKQLTLGNILRTLLASK-T-WNLDSARSLLGYL 710 (1097)
Q Consensus 652 -Kc~f~---p~~~v~fLG~--iIs~~---gi~v~l~~~Ki~ai~~~~~il~~~~-P-~t~keLrsfLGll 710 (1097)
|..-. +..++.||.+ ..+.. .+...++++.+. +++.|.+ | .+...+++++..+
T Consensus 359 dKt~~~~~~~~~~l~FLkR~f~~d~~~~~~~~p~L~~e~I~------~~l~W~r~~~~~~~~l~s~~~~a 422 (462)
T 3n6m_A 359 DKSPCFNEVNWDNATFLKRGFLPDEQFPFLIHPTMPMREIH------ESIRWTKDARNTQDHVRSLCLLA 422 (462)
T ss_dssp SSSSSCSCCCTTTCCBTTBEEEECSSCTTSEEEECCHHHHH------HHHTEESCGGGHHHHHHHHHHHH
T ss_pred hccCCCCCccccCCeEeCcceeecCCCceEEEEecCHHHHH------HhheEECCcHHHHHHHHHHHHHH
Confidence 65411 2467889954 44432 233334555553 3444543 2 2333455544433
No 33
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug design, transferase; 2.35A {Human immunodeficiency virus 2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Probab=21.32 E-value=28 Score=41.63 Aligned_cols=109 Identities=19% Similarity=0.081 Sum_probs=75.7
Q ss_pred cceeeeeccCCC------CCcceeeccccccccchhhhcccchHHhhhhHHHHHHHhhhhhccCceEeecCcHHHHHHHH
Q psy14859 770 VQHFISTDASDL------GWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLR 843 (1097)
Q Consensus 770 ~p~~L~TDAS~~------GiGAVL~qa~~Sr~ls~aE~~ysi~ekELlAIv~AL~~~r~~L~g~~~~V~TDhk~lv~~l~ 843 (1097)
..+++|||+|.. |+|+++... .........-+.++.|+.|++.||+. .++++.|+||++.++..++
T Consensus 435 ~~~~iytDGs~~~n~g~~g~G~v~~~~---~~~~~~~~~~TNn~aEl~A~i~aL~~-----~~~~v~I~tDS~~v~~~i~ 506 (555)
T 1mu2_A 435 GAETFYTDGSCNRQSKEGKAGYVTDRG---KDKVKKLEQTTNQQAELEAFAMALTD-----SGPKVNIIVDSQYVMGIVA 506 (555)
T ss_dssp TCEEEEEEEEECTTTCCEEEEEEETTS---CEEEEEESSCCHHHHHHHHHHHHHHT-----SCSEEEEEESCHHHHHHHH
T ss_pred CceEEEEcccccCCCCCceEEEEEEeC---CEeeccCCCCCHHHHHHHHHHHHHHc-----CCCeEEEEEehHHHHHHHh
Confidence 458999999853 455665431 11122233457789999999999986 5689999999999999998
Q ss_pred hcCCCCchhhHHHHHHHHHHhhccCceEEEEEecCC----CccccccccCC
Q psy14859 844 RQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGA----YNSVADSLSRS 890 (1097)
Q Consensus 844 ~~~~~~~~~l~~~~~r~~~~L~~f~~~i~I~hipGk----~N~~ADaLSR~ 890 (1097)
+....... .+.+++.+.+.++ ..+.+.||||. .|..||.|++.
T Consensus 507 ~~~~~~~~---~l~~~~~~~~~~~-~~v~~~wV~~H~g~~~Ne~AD~LA~~ 553 (555)
T 1mu2_A 507 SQPTESES---KIVNQIIEEMIKK-EAIYVAWVPAHKGIGGNQEVDHLVSQ 553 (555)
T ss_dssp TCCSEESC---HHHHHHHHHHHHC-SEEEEEECCSSSCCTTHHHHHHHHHT
T ss_pred cccccccH---HHHHHHHHHhccC-CcEEEEEEECCCCChhHHHHHHHHHh
Confidence 74322222 3344455454443 46788999995 59999999874
No 34
>2ckw_A RNA-directed RNA polymerase; hydrolase, nucleotide-binding, nucleotidyltransferase, covalent protein-RNA linkage, RNA elongation; 2.3A {Sapporo virus} PDB: 2uuw_A 2wk4_A 2uut_A
Probab=20.81 E-value=65 Score=38.12 Aligned_cols=69 Identities=22% Similarity=0.154 Sum_probs=41.1
Q ss_pred eEEEEecCceeeecCchhHHHhhhHHHHHHhhccceeccc-cCCC-CCCCeEEEeeEEe--CCCCCcccCcchhh
Q psy14859 612 RVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQ-KSSL-SPAPVLQFLGIMW--DPHLDRMWLPEDKQ 682 (1097)
Q Consensus 612 ~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~ln~~-Kc~f-~p~~~v~fLG~iI--s~~gi~v~l~~~Ki 682 (1097)
.+++|=||.++..+.. +...+..+.+.+.++|+..+.. |... .+..++.||++.+ ..+++...++.+++
T Consensus 341 ~~~~yGDD~i~s~~~~--~~~~~~~~~~~~~~~Gl~~t~~dKt~~~~~~~~l~FLkr~f~~~~~~~~p~l~~~~I 413 (515)
T 2ckw_A 341 TIHTYGDDCMYSVCPA--TASIFHTVLANLTSYGLKPTAADKSDAIKPTNTPVFLKRTFTQTPHGIRALLDITSI 413 (515)
T ss_dssp EEEEETTEEEEEECHH--HHHTHHHHHHHHHHHTCCC---------CCCSSCEETTEEEEEETTEEEEEECHHHH
T ss_pred EEEEECCceEEEecch--hHHHHHHHHHHHHHcCcEEeccccCCCCCccCCceecCCccEECCCEEEecCCHHHH
Confidence 5789999999987643 2233456778889999998874 6542 2234599996554 34444433455544
No 35
>1khv_A RNA-directed RNA polymerase; RNA-dependent RNA polymerase, transferase; 2.50A {Rabbit hemorrhagic disease virus} SCOP: e.8.1.4 PDB: 1khw_A
Probab=20.20 E-value=1.3e+02 Score=35.45 Aligned_cols=69 Identities=14% Similarity=0.029 Sum_probs=45.9
Q ss_pred eEEEEecCceeeecCchhHHHhhhHHHHHHhhccceecc-ccCCCC---CCCeEEEeeEEe--CCCCCcccCcchhh
Q psy14859 612 RVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNL-QKSSLS---PAPVLQFLGIMW--DPHLDRMWLPEDKQ 682 (1097)
Q Consensus 612 ~v~vYvDDILI~s~s~eeh~~~l~~Vl~~L~~~Gl~ln~-~Kc~f~---p~~~v~fLG~iI--s~~gi~v~l~~~Ki 682 (1097)
.+++|=||.++..+.. +...+..+.+.+.++|+..+. +|+... +-.+++||++.+ +.+++...++++++
T Consensus 348 ~~~~yGDD~i~s~~~~--~~~~~~~~~~~~~~~Gl~~t~~dKt~~~~~~~l~~~~FLkr~f~~~~~~~~p~l~~~~I 422 (516)
T 1khv_A 348 PFYTYGDDGVYAMTPM--MVSLLPAIIENLRDYGLSPTAADKTEFIDVCPLNKISFLKRTFELTDIGWVSKLDKSSI 422 (516)
T ss_dssp CEEEETTEEEEEECHH--HHHTHHHHHHHHHHTTCCEEESSTTSCSCCBCGGGCEETTEEEEEETTEEEEEECHHHH
T ss_pred eEEEecCceEEEecch--hhhHHHHHHHHHHHcCcEeccccccCCCccccCCCCeeeCccceeCCCeEeecCCHHHH
Confidence 5789999999987633 223445677888899999986 576532 234889988754 34454444455555
Done!