Query psy4044
Match_columns 460
No_of_seqs 321 out of 1886
Neff 8.4
Searched_HMMs 29240
Date Fri Aug 16 23:55:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4044.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/4044hhsearch_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 7.3E-60 2.5E-64 488.8 13.2 307 60-370 70-446 (455)
2 2zd1_A Reverse transcriptase/r 100.0 4.3E-53 1.5E-57 448.0 32.8 284 40-331 23-385 (557)
3 2zd1_B P51 RT; P51/P66, hetero 100.0 9.4E-54 3.2E-58 438.2 23.9 302 40-350 21-404 (428)
4 1mu2_A HIV-2 RT; HIV-2 reverse 100.0 7.2E-52 2.5E-56 438.5 26.3 341 40-396 21-553 (555)
5 3fsi_A RT, reverse transcripta 100.0 7.2E-43 2.5E-47 334.3 16.9 195 40-235 38-254 (255)
6 3hst_B Protein RV2228C/MT2287; 99.1 1.1E-10 3.7E-15 100.4 6.5 119 276-396 2-129 (141)
7 3u3g_D Ribonuclease H, RNAse H 99.0 2E-10 6.7E-15 98.4 6.5 119 276-396 2-133 (140)
8 2ehg_A Ribonuclease HI; RNAse 99.0 2.1E-10 7.3E-15 99.6 5.9 116 278-396 2-130 (149)
9 2e4l_A Ribonuclease HI, RNAse 98.9 2.1E-09 7.3E-14 94.3 7.2 116 276-396 5-141 (158)
10 3h08_A RNH (ribonuclease H); R 98.9 1.7E-09 5.9E-14 93.6 5.7 116 276-396 3-140 (146)
11 1jl1_A Ribonuclease HI; RNAse 98.8 3.5E-09 1.2E-13 92.6 6.5 115 277-396 4-139 (155)
12 3p1g_A Xenotropic murine leuke 98.8 6.5E-09 2.2E-13 91.6 7.5 116 276-396 22-152 (165)
13 3qio_A GAG-POL polyprotein; RN 98.8 9.3E-09 3.2E-13 89.3 7.6 113 276-397 11-144 (150)
14 2qkb_A Ribonuclease H1, HS-RNA 98.8 7.8E-09 2.7E-13 90.2 6.9 115 276-396 6-147 (154)
15 1ril_A Ribonuclease H; hydrola 98.7 6.3E-09 2.2E-13 92.0 5.1 116 276-396 7-144 (166)
16 2lsn_A Reverse transcriptase; 98.6 6.7E-08 2.3E-12 85.0 7.2 119 275-396 5-159 (165)
17 2kq2_A Ribonuclease H-related 98.5 7.1E-09 2.4E-13 89.8 -1.6 116 275-396 4-133 (147)
18 1zbf_A Ribonuclease H-related 98.3 1E-06 3.6E-11 75.3 6.6 114 277-392 11-139 (142)
19 4htu_A Ribonuclease H, RNAse H 98.0 7.7E-06 2.6E-10 68.7 6.4 101 278-380 6-119 (134)
20 3kyl_A Telomerase reverse tran 96.9 0.004 1.4E-07 62.8 9.9 129 105-238 241-401 (596)
21 1xr5_A Genome polyprotein; RNA 70.4 8.4 0.00029 38.9 7.3 88 143-235 281-381 (466)
22 2zd1_A Reverse transcriptase/r 65.4 4.2 0.00014 42.2 3.9 108 277-396 439-556 (557)
23 1mu2_A HIV-2 RT; HIV-2 reverse 61.3 4.7 0.00016 41.8 3.3 18 277-294 436-459 (555)
24 1ra6_A P3D, genome polyprotein 53.5 34 0.0012 34.3 8.1 88 143-235 282-382 (461)
25 3bso_A RNA dependent RNA polym 47.8 36 0.0012 34.7 7.3 95 133-232 282-396 (510)
26 1u09_A Polyprotein; protein-DN 43.8 1.1E+02 0.0038 30.6 10.2 87 143-234 292-393 (476)
27 1khv_A RNA-directed RNA polyme 42.2 45 0.0015 33.9 7.0 57 175-233 348-408 (516)
28 3avx_A Elongation factor TS, e 40.0 29 0.00098 39.3 5.3 128 109-247 962-1115(1289)
29 2ijd_1 Picornain 3C, RNA-direc 37.5 74 0.0025 33.4 7.9 87 143-234 465-564 (644)
30 3uqs_A RNA-dependent RNA polym 37.4 34 0.0012 34.9 5.1 56 175-234 337-398 (515)
31 2ckw_A RNA-directed RNA polyme 35.2 34 0.0012 34.9 4.8 57 175-233 341-399 (515)
32 1xr7_A Genome polyprotein; RNA 25.1 1.2E+02 0.0042 30.2 6.8 87 143-234 281-380 (460)
33 3n6m_A RNA-dependent RNA polym 23.4 54 0.0018 32.9 3.7 88 143-235 283-383 (462)
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=7.3e-60 Score=488.79 Aligned_cols=307 Identities=15% Similarity=0.218 Sum_probs=264.0
Q ss_pred hcCCcccccceEeecC-CCCeeeeeecc----ccCCCCccCCCccchhhhcc-CCceEEEEeccccccccccCCCCccee
Q psy4044 60 LCSGRRVHDLTLLLSS-RDGFQDLGDRA----FLSLKKFHLINHFRVPDFLQ-RGDFLVKIDLSQAYFHVPIRPSHQRFL 133 (460)
Q Consensus 60 ~~~~~~~sp~~~V~Kk-~g~~R~~~D~r----~~~~~~~plp~i~~ll~~l~-~~~~~s~lDl~~ay~qi~l~~~~~~~t 133 (460)
++.+.+.+|+++|+|| +|++|+|+||| .+.++.+|+|++++++++++ ++++|+++|+++|||||+|+++|+++|
T Consensus 70 ~~~sp~~spv~~V~Kk~~g~~R~~~D~r~LN~~~~~~~~~lp~~~~ll~~l~~~~~~~s~lDl~~~y~qi~l~~~d~~~t 149 (455)
T 1rw3_A 70 PCQSPWNTPLLPVKKPGTNDYRPVQDLREVNKRVEDIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLF 149 (455)
T ss_dssp EECCSCBBCEECCCCSSSSCCCCEECTHHHHHTBCCCCCCCCCHHHHHTTCCTTCCEEEEEEBTTGGGGSBBCSTTSGGG
T ss_pred ecCCcccCceEEEeccCCCcEEEchhHHHHHhhccCCCCCCCCHHHHhhhhccCCceEEecchhhhheeEecccccccee
Confidence 4567789999999999 79999999999 67789999999999999997 999999999999999999999999999
Q ss_pred EEEE------cCeeEEEcccCccCCCchHHHHHHHHHHHHHHHh--cCCEEEEEecCeEEecCCHHHHHHHHHHHHHHHH
Q psy4044 134 SVVY------RDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRN--LGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQ 205 (460)
Q Consensus 134 aF~~------~~g~y~~~~lpfGl~~ap~~fq~~~~~il~~l~~--~g~~v~~YvDDili~s~~~~~~~~~l~~v~~~l~ 205 (460)
||.| +.|+|+|+|||||++|||++||++|+.++..+.. .+..+.+|+|||+|++++.++|..++++|+++|+
T Consensus 150 aF~~~~p~~~~~g~y~~~~mpfGl~naP~~fq~~m~~~l~~~~~~~~~~~v~~YvDDili~s~~~~e~~~~l~~v~~~l~ 229 (455)
T 1rw3_A 150 AFEWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLG 229 (455)
T ss_dssp CEEECTTSSSCCEEEEESBCCSSCTTHHHHHHHHHHHHHHHHHHTCTTCEEEEETTEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred EEeecCCCCCCCceEEEEecCCCCCCcHHHHHHHHHHHHHHhhhhCCCceEEEEcCCEEEecCCHHHHHHHHHHHHHHHH
Confidence 9998 4899999999999999999999999999988753 3578999999999999999999999999999999
Q ss_pred HcCCcccccccccccccccccccEEEcCCCCcc---------cCCcc-chHHHHHHHHh---------------------
Q psy4044 206 SLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSK---------SLPLE-KQSTIQRYLLT--------------------- 254 (460)
Q Consensus 206 ~~gl~l~~~K~~~~~~~~v~~LG~~i~~~g~~~---------~~p~~-k~~~l~~flg~--------------------- 254 (460)
++|+.+|++||+|. ..+++||||+|+.+|+++ .+|.+ .++++|+|+|.
T Consensus 230 ~~gl~l~~~K~~f~-~~~~~fLG~~i~~~gi~~~~~kv~~i~~~~~p~t~k~l~~flG~~~y~r~fi~~~~~~~~pL~~l 308 (455)
T 1rw3_A 230 NLGYRASAKKAQIC-QKQVKYLGYLLKEGQRWLTEARKETVMGQPTPKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPL 308 (455)
T ss_dssp HHTCCBCGGGCCCS-BSSCEETTEEESSSEECCCTTCCCCCCCCCTTTHHHHHHHTTTTTCCCSSCCCCCGGGCCTTCC-
T ss_pred HcCCccCccchhhh-ccceeEeeeeccCCeeEEChhHhhhhccCCCCCCHHHhhhhcccchHHHHHHhhhhhhcccHHHH
Confidence 99999999999876 679999999999999763 23433 56789999997
Q ss_pred -hh--hhhhHHHHHh----------ccCCCC---CCCCeeEEEEccccccceeEEeee---------ecceecCCccccC
Q psy4044 255 -LT--QIQWWSVALH----------RSSPIF---PQAPQVFVSTDASNSGWGAIVDNH---------SLGGVWSDHQEMW 309 (460)
Q Consensus 255 -~~--~~~ww~~~~~----------~~~pil---~~~~~~~l~tDAS~~g~Gavl~q~---------~~s~~~~~~e~~y 309 (460)
++ .+.| +++++ .+.|++ ++..++.++||||+.|+|||+.|. |.|++++++|.+|
T Consensus 309 lkk~~~~~W-~~~~~~af~~lK~~l~~~pvL~~p~~~~~~~l~~DAS~~~~gavL~q~~~~~~~~i~y~Sk~l~~~e~~y 387 (455)
T 1rw3_A 309 TKTGTLFNW-GPDQQKAYQEIKQALLTAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGPWRRPVAYLSKKLDPVAAGW 387 (455)
T ss_dssp -------CC-CCCCSSSCCHHHHHTCSSCCSCCSSSCCTTSCEEEEEECSSSBEECCBCTTTTCCCCCCCBCSCSSCSSS
T ss_pred hcCCCCcCc-hHHHHHHHHHHHHHhhcCcccccCCCCCcEEEEEeccCCcceeEEEEecCCcEEEEEEEcccCCcccccc
Confidence 22 3444 44432 456665 346789999999999999999985 7899999999999
Q ss_pred ChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHhhcCCCcchhhhHHHHHHHHHH
Q psy4044 310 HINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLA 370 (460)
Q Consensus 310 s~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~~~~~~~~~~~~~~~r~i~~~~ 370 (460)
++.++|++|+++|+++|++|+.|++|+|+|||+ +..++++.. .+.....|+.||+..+.
T Consensus 388 s~~ekEllAi~~a~~~~~~yl~g~~~~v~tDh~-~~~~l~~~~-~~~~~~~Rl~rW~~~L~ 446 (455)
T 1rw3_A 388 PPCLRMVAAIAVLTKDAGKLTMGQPLVIKAPHA-VEALVKQPP-DRWLSNARMTHYQALLL 446 (455)
T ss_dssp CCSSHHHHHHHHHHHHHHGGGCSSCEEEECSSC-TTTTSSSTT-TTTCCCCCCSCCCCCCC
T ss_pred chHHHHHHHHHHHHHHHHHHcCCCcEEEEecCh-HHHHhCCCc-cccccchHHHHHHHHhC
Confidence 999999999999999999999999999999998 557877532 11113467777775443
No 2
>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=4.3e-53 Score=447.99 Aligned_cols=284 Identities=13% Similarity=0.146 Sum_probs=235.2
Q ss_pred CCCCCCchHHHHHHHHhhh-h---------hcCCcccccceEeecCCC-Ceeeeeecc----ccCC---CCccCCCccch
Q psy4044 40 HPPNQDSFFEVARHTAILL-L---------LCSGRRVHDLTLLLSSRD-GFQDLGDRA----FLSL---KKFHLINHFRV 101 (460)
Q Consensus 40 ~~p~~~~~~~~~~~~~~~~-~---------~~~~~~~sp~~~V~Kk~g-~~R~~~D~r----~~~~---~~~plp~i~~l 101 (460)
.+|++.+.-+....+++.+ + +..+.+.+|+++|+||+| +||+|+||| .+.+ +.||+|++++
T Consensus 23 ~~~~~~~~~~~~~~~~~i~~ll~~G~I~~v~s~s~~~spv~~V~Kk~g~k~R~~vD~r~LN~~t~~~~~~~~plP~i~~- 101 (557)
T 2zd1_A 23 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAG- 101 (557)
T ss_dssp CCCCCCCHHHHHHHHHHHHHHHHTTSEEECCSCCCCBBCEEEEECSSCSCEEEEECCHHHHHHBCCCCCTTSSCCCGGG-
T ss_pred cCCcCCCHHHHHHHHHHHHHHHHCCCEEECCCCCCCcCCeEEEECCCCCceEEEEEhHHHhhhccccccccCCCCCchh-
Confidence 4556666655555444433 2 246788999999999999 999999999 5666 9999999977
Q ss_pred hhhccCCceEEEEeccccccccccCCCCcceeEEEE-------cCeeEEEcccCccCCCchHHHHHHHHHHHHHHHhc--
Q psy4044 102 PDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVY-------RDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNL-- 172 (460)
Q Consensus 102 l~~l~~~~~~s~lDl~~ay~qi~l~~~~~~~taF~~-------~~g~y~~~~lpfGl~~ap~~fq~~~~~il~~l~~~-- 172 (460)
|+++++|+++|+++|||||+|+++|+++|||.| ++|+|+|+||||||+|||++||++|+.++..+...
T Consensus 102 ---l~~~~~~s~lDl~~~y~qi~l~~~d~~~taF~~p~~~~~t~~g~y~~~~mPfGl~nap~~fq~~m~~il~~~~~~~~ 178 (557)
T 2zd1_A 102 ---LKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFAAQNP 178 (557)
T ss_dssp ---SCCCSEEEEEECTTGGGGSBCCTTTGGGGCEEECCGGGCSCCEEEEESBCCTTCTTHHHHHHHHHHHHHHHHHHTCT
T ss_pred ---hcCCCeeEEehhhhhhheeEcCccccceeEEEeecCCCCCCceEEEEEeeCCCCCCHHHHHHHHHHHHHHHhhhcCC
Confidence 489999999999999999999999999999996 78999999999999999999999999999887643
Q ss_pred CCEEEEEecCeEEecC-CHHHHHHHHHHHHHHHHHcCCcccccccccccccccccccEEEcCCCCcc---cCCcc---ch
Q psy4044 173 GMRVIVYLDDLLLGNQ-DSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSK---SLPLE---KQ 245 (460)
Q Consensus 173 g~~v~~YvDDili~s~-~~~~~~~~l~~v~~~l~~~gl~l~~~K~~~~~~~~v~~LG~~i~~~g~~~---~~p~~---k~ 245 (460)
+..+.+|+|||+|+|+ +.++|..++++|+++|+++||.+|++||++. .+++||||+|+.+|+++ ++|.+ ++
T Consensus 179 ~~~v~~Y~DDIli~s~~~~~eh~~~l~~v~~~l~~~gl~l~~~Kc~f~--~~~~fLG~~i~~~gi~~~~~k~~~~~~~t~ 256 (557)
T 2zd1_A 179 DIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQKE--PPFLWMGYELHPDKWTVQPIVLPEKDSWTV 256 (557)
T ss_dssp TEEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHTTTCCCCCSCCSCC--SSEEETTEEECSSCEEESCCCCCCCSCEEH
T ss_pred CceEEEEecCEEEecCchHHHHHHHHHHHHHHHHHcCCccChhhcCCC--CceEEeeEEEccCcEEEcceecccccCCCH
Confidence 3469999999999999 6999999999999999999999999999863 48999999999999874 24433 68
Q ss_pred HHHHHHHHh--------------------h------hhhhhHHHHHh----------ccCCCC---CCCCeeEEEEcccc
Q psy4044 246 STIQRYLLT--------------------L------TQIQWWSVALH----------RSSPIF---PQAPQVFVSTDASN 286 (460)
Q Consensus 246 ~~l~~flg~--------------------~------~~~~ww~~~~~----------~~~pil---~~~~~~~l~tDAS~ 286 (460)
+++|+|+|. + ..+.| +++++ .+.|++ ++..++.++||||+
T Consensus 257 k~lr~flG~~~~yrrfi~~~~~~pl~~ll~~~~~~~~~~~W-t~~~~~af~~lK~~L~~~p~L~~pd~~~~~~l~~das~ 335 (557)
T 2zd1_A 257 NDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL-TEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQG 335 (557)
T ss_dssp HHHHHHHHHHHHHTTTSTTCCCHHHHGGGTTCCCTTCEECC-CHHHHHHHHHHHHHTSSCCCBCCCCTTSCCEEEEEEEE
T ss_pred HHHHHHhhHHHhhhhhccchhHHHHHHHhcccCCCCCceec-CHHHHHHHHHHHHHHhCccceeecCCCCCEEEEEecCC
Confidence 899999996 1 23555 55553 456665 56788999999999
Q ss_pred cc-ceeEEeee----ecceecCCccccCChhHHHHHH-HHHHHHhhCCcCC
Q psy4044 287 SG-WGAIVDNH----SLGGVWSDHQEMWHINLKEMFA-VRSALERKLPVLQ 331 (460)
Q Consensus 287 ~g-~Gavl~q~----~~s~~~~~~e~~ys~~~~EllA-i~~al~~~~~~l~ 331 (460)
.| +|+++.|+ +.++.+. ++.+|+++++|++| ++.++++|++|+.
T Consensus 336 ~g~~g~vl~q~~~~~~~~~~~~-~~~~y~~~e~e~la~vv~~l~~~~~~l~ 385 (557)
T 2zd1_A 336 QGQWTYQIYQEPFKNLKTGKYA-RMRGAHTNDVKQLTEAVQKITTESIVIW 385 (557)
T ss_dssp TTEEEEEEEEETTEEEEEEEEE-CCSCSEECHHHHHHHHHHHHHHHHHHHH
T ss_pred CCcEEEEEecCCCceeeeeecc-cccccCCChHHHHHHHHHHhhhhheEEe
Confidence 86 69999985 4455555 68888899999888 8888888765543
No 3
>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=9.4e-54 Score=438.20 Aligned_cols=302 Identities=13% Similarity=0.127 Sum_probs=244.2
Q ss_pred CCCCCCchHHHHHHHHhhh-h---------hcCCcccccceEeecCCC-Ceeeeeecc----ccCC---CCccCCCccch
Q psy4044 40 HPPNQDSFFEVARHTAILL-L---------LCSGRRVHDLTLLLSSRD-GFQDLGDRA----FLSL---KKFHLINHFRV 101 (460)
Q Consensus 40 ~~p~~~~~~~~~~~~~~~~-~---------~~~~~~~sp~~~V~Kk~g-~~R~~~D~r----~~~~---~~~plp~i~~l 101 (460)
.+|++.+.-+....+++.+ + +..+.+.+|+++|+||+| ++|+|+||| .+.+ +.||+|++++
T Consensus 21 ~~~~~~~~~~~~~~~~~i~~ll~~G~I~~v~s~s~~~sPv~~V~Kk~g~k~R~~vD~r~LN~~t~~~~~~~~plP~i~~- 99 (428)
T 2zd1_B 21 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAG- 99 (428)
T ss_dssp CCCCCCCHHHHHHHHHHHHHHHHTTSEEECCTTCCCBBCEEEECCTTCSSCEEEECTHHHHHHBCCCCCTTSCCCCCTT-
T ss_pred CCCcCCCHHHHHHHHHHHHHHHHCCCceECCCCCCccCceeeccCCCCCceEEEEechHhcCcccccccccCCCCCchh-
Confidence 4566666655555444433 2 145678999999999998 799999999 5566 8999999986
Q ss_pred hhhccCCceEEEEeccccccccccCCCCcceeEEEE-------cCeeEEEcccCccCCCchHHHHHHHHHHHHHHHhc--
Q psy4044 102 PDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVY-------RDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNL-- 172 (460)
Q Consensus 102 l~~l~~~~~~s~lDl~~ay~qi~l~~~~~~~taF~~-------~~g~y~~~~lpfGl~~ap~~fq~~~~~il~~l~~~-- 172 (460)
|+++++|+++|+++|||||+|+++|+++|||.| ++|+|+|+|||||++|||++||++|+.++..+...
T Consensus 100 ---l~~~~~~s~lDl~~gy~qI~l~~~d~~~taF~~p~~~~~t~~g~y~~~vmPfGl~nsPa~fq~~m~~il~~~~~~~~ 176 (428)
T 2zd1_B 100 ---LKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFKKQNP 176 (428)
T ss_dssp ---GGGSSEEEEEECGGGGGGSBCCTTTGGGGCEEECCGGGCSCCEEEEESBCCTTCTHHHHHHHHHHHHHHHHHHHHCT
T ss_pred ---ccccceEEEeeccCceeeEEcCccccceeEEEeecCCCCCCCceEEEEeeCCCCcchHHHHHHHHHHHHHHHhhcCC
Confidence 589999999999999999999999999999996 57999999999999999999999999999877643
Q ss_pred CCEEEEEecCeEEecCC-HHHHHHHHHHHHHHHHHcCCcccccccccccccccccccEEEcCCCCccc---CC---ccch
Q psy4044 173 GMRVIVYLDDLLLGNQD-SVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSKS---LP---LEKQ 245 (460)
Q Consensus 173 g~~v~~YvDDili~s~~-~~~~~~~l~~v~~~l~~~gl~l~~~K~~~~~~~~v~~LG~~i~~~g~~~~---~p---~~k~ 245 (460)
+..+.+|+|||+|+|++ .++|..+++.|+++|+++||.+|++||++ ..+++||||+|+.+|+++. +| +..+
T Consensus 177 ~~~v~vY~DDIlI~s~~~~~eh~~~l~~v~~~l~~~gL~l~~~Kc~~--~~~~~fLG~~i~~~~i~~~~~ki~~~~~~t~ 254 (428)
T 2zd1_B 177 DIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQK--EPPFLWMGYELHPDKWTVQPIVLPEKDSWTV 254 (428)
T ss_dssp TCEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHHHC--------------CTTCCEEECGGGCCCCCCCCCCCSSEEH
T ss_pred CceEEEEecceEEecCCcHHHHHHHHHHHHHHHHHhCCccChhHccc--cceEEEeccEecCCceEecccccccccccCH
Confidence 34699999999999995 79999999999999999999999999986 4579999999999998743 33 2368
Q ss_pred HHHHHHHHh--------------------h------hhhhhHHHHHh----------ccCCCC---CCCCeeEEEEcccc
Q psy4044 246 STIQRYLLT--------------------L------TQIQWWSVALH----------RSSPIF---PQAPQVFVSTDASN 286 (460)
Q Consensus 246 ~~l~~flg~--------------------~------~~~~ww~~~~~----------~~~pil---~~~~~~~l~tDAS~ 286 (460)
+++|+|+|. + ..+.| +++++ .+.|++ +++.++.++||||+
T Consensus 255 k~lr~flG~~~yyrrFi~~~s~~pL~~llkk~~~~~~~~~W-t~~~~~af~~lK~~L~~~p~l~~pd~~~~~~l~~das~ 333 (428)
T 2zd1_B 255 NDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL-TEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQG 333 (428)
T ss_dssp HHHHHHHHHHHHHTTTCTTCCCHHHHHTTCSCCCTTCEECC-CHHHHHHHHHHHHHTTSCCTTCCCCTTSCCEEEEEEEE
T ss_pred HHHHHHhhhHHHHHHhcCCccHHHHHHHHccCCCCCCeecC-CHHHHHHHHHHHHHHhcchhccccCCCCCEEEEEecCC
Confidence 889999997 1 23555 55553 356664 56788999999999
Q ss_pred c-cceeEEeee----ecceecCCccccCChhHHHHHH-HHHHHHhhCCcCCCc---EEEEEeCchhhHHHHhh
Q psy4044 287 S-GWGAIVDNH----SLGGVWSDHQEMWHINLKEMFA-VRSALERKLPVLQDK---VVLIQSDNQTVVSYIHK 350 (460)
Q Consensus 287 ~-g~Gavl~q~----~~s~~~~~~e~~ys~~~~EllA-i~~al~~~~~~l~g~---~v~i~tD~~~l~~~l~~ 350 (460)
. ++|+++.|+ |.|++++ ++.+|+++++|++| ++.|+++|++||.|+ .++++|||+.+ .|+.+
T Consensus 334 ~g~~g~vl~q~~~~~~~s~~~~-~~~~y~~~~~e~la~vv~al~~~r~yl~G~~~~~~i~~td~~~~-~~~~~ 404 (428)
T 2zd1_B 334 QGQWTYQIYQEPFKNLKTGKYA-RMRGAHTNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKETWE-TWWTE 404 (428)
T ss_dssp TTEEEEEEESSTTCEEEEEEEE-CCSSCTTCHHHHHHHHHHHHHHHHHHHHSSCCEEEESSCHHHHH-HHHHH
T ss_pred CCcEEEEEecCCCceeeecccc-hhhhcccchHHHHHHHHHHhhccceEEECCCCcEECCccHHHHH-HHHHh
Confidence 6 669999985 8899999 99999999999999 999999999999874 57889999998 45553
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=7.2e-52 Score=438.45 Aligned_cols=341 Identities=15% Similarity=0.176 Sum_probs=264.2
Q ss_pred CCCCCCchHHHHHHHHhhh-h-------hc--CCcccccceEeecCCC-Ceeeeeecc----ccCCC---CccCCCccch
Q psy4044 40 HPPNQDSFFEVARHTAILL-L-------LC--SGRRVHDLTLLLSSRD-GFQDLGDRA----FLSLK---KFHLINHFRV 101 (460)
Q Consensus 40 ~~p~~~~~~~~~~~~~~~~-~-------~~--~~~~~sp~~~V~Kk~g-~~R~~~D~r----~~~~~---~~plp~i~~l 101 (460)
.+|++.+..+....+++.. + ++ ...+.+|+++|+||+| +||+|+||| .|.++ .||+|.+++
T Consensus 21 ~~~~~~~~~~~~~~~~~i~~ll~~G~I~~~~~~s~~~spv~~V~Kk~g~k~R~~vD~r~LN~~t~~~~~~~~~lP~~~~- 99 (555)
T 1mu2_A 21 LRQWPLTKEKIEALKEICEKMEKEGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNKVTQDFTEIQLGIPHPAG- 99 (555)
T ss_dssp CCCCCCCHHHHHHHHHHHHHHHHHTSEEECCTTCCCBBCEEECCCCC----CEEECTHHHHHHBCCCCCCCCSCCCGGG-
T ss_pred cCCcCCCHHHHHHHHHHHHHHHHCCCeEECCCCCCCCCceEEecCCCCCceEEEEehHHhhhhCcccccccCCCCchhh-
Confidence 4566666655555444433 2 22 5788999999999997 699999999 55566 899999876
Q ss_pred hhhccCCceEEEEeccccccccccCCCCcceeEEEEc-------CeeEEEcccCccCCCchHHHHHHHHHHHHHHHhc--
Q psy4044 102 PDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYR-------DTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNL-- 172 (460)
Q Consensus 102 l~~l~~~~~~s~lDl~~ay~qi~l~~~~~~~taF~~~-------~g~y~~~~lpfGl~~ap~~fq~~~~~il~~l~~~-- 172 (460)
|+++++|+++|+++|||||+|+++|+++|||.|+ +|+|+|+||||||+|||++||++|+.++..+...
T Consensus 100 ---l~~~~~~s~lDl~~~y~qI~l~~~d~~~taF~~p~~~~~~~~g~y~~~~mPfGl~napa~fq~~m~~il~~~~~~~~ 176 (555)
T 1mu2_A 100 ---LAKKRRITVLDVGDAYFSIPLHEDFRPYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQHTMRQVLEPFRKANK 176 (555)
T ss_dssp ---SBCCSEEEEEECBSSGGGSBCCTTTGGGGCEEC---------CEEEESBCCTTCTTHHHHHHHHHHHHHHHHHHHCT
T ss_pred ---cCCCceEEEehhHhcceEEEeccCceeeeEEEeecCCCCCCceEEEEEEeCCCCCCcHHHHHHHHHHHHHHHHhhCC
Confidence 5999999999999999999999999999999996 7999999999999999999999999999887643
Q ss_pred CCEEEEEecCeEEecC-CHHHHHHHHHHHHHHHHHcCCcccccccccccccccccccEEEcCCCCccc---C---Cccch
Q psy4044 173 GMRVIVYLDDLLLGNQ-DSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSKS---L---PLEKQ 245 (460)
Q Consensus 173 g~~v~~YvDDili~s~-~~~~~~~~l~~v~~~l~~~gl~l~~~K~~~~~~~~v~~LG~~i~~~g~~~~---~---p~~k~ 245 (460)
+.++.+|+|||+|+|+ +.++|..++++|+++|+++||.+|++|| ++ .++++||||+|+.+|+++. + ++..+
T Consensus 177 ~~~v~~Y~DDIli~s~~~~~eh~~~l~~v~~~l~~~gl~l~~~K~-~~-~~~~~fLG~~i~~~gi~~~~~ki~~i~~~t~ 254 (555)
T 1mu2_A 177 DVIIIQYMDDILIASDRTDLEHDRVVLQLKELLNGLGFSTPDEKF-QK-DPPYHWMGYELWPTKWKLQKIQLPQKEIWTV 254 (555)
T ss_dssp TSEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHTTCBCCSTTE-EC-SSSEEETTEEECSSEEEECCCCCCCCSSCBH
T ss_pred CcEEEEEecceEEecCCCHHHHHHHHHHHHHHHHHcCCccCHHHh-cc-CCceeEEeEEEeCCceeccccccCcCCCCCH
Confidence 4569999999999999 7999999999999999999999999999 44 6799999999999998742 2 24578
Q ss_pred HHHHHHHHh--------------------h------hhhhhHHHHHh----------ccCCCC---CCCCeeEEEEcccc
Q psy4044 246 STIQRYLLT--------------------L------TQIQWWSVALH----------RSSPIF---PQAPQVFVSTDASN 286 (460)
Q Consensus 246 ~~l~~flg~--------------------~------~~~~ww~~~~~----------~~~pil---~~~~~~~l~tDAS~ 286 (460)
+++|+|+|. + ..+.| +++++ .+.|++ ++..++.++||||.
T Consensus 255 k~lr~flG~~~~~rrfi~~~~~~pL~~llk~~~~~~~~~~w-t~~~~~af~~lK~~L~~~p~L~~p~~~~~~~l~~das~ 333 (555)
T 1mu2_A 255 NDIQKLVGVLNWAAQLYPGIKTKHLCRLISGKMTLTEEVQW-TELAEAELEENRIILSQEQEGHYYQEEKELEATVQKDQ 333 (555)
T ss_dssp HHHHHHHHHHHHHHHHSTTCCCHHHHTTSCSSSCTTCBCCC-CHHHHHHHHHHHHHHSCCEEEECBCTTSCCEEEEEECS
T ss_pred HHHHhHhhhhhhhhhccCccchHHHHHHhccCCCCCCcccC-CHHHHHHHHHHHHHHhhCccccccCCCCCEEEEEecCC
Confidence 899999997 1 34555 55553 456665 56789999999999
Q ss_pred cc-ceeEEeee-------ecce----------------------------------------------------------
Q psy4044 287 SG-WGAIVDNH-------SLGG---------------------------------------------------------- 300 (460)
Q Consensus 287 ~g-~Gavl~q~-------~~s~---------------------------------------------------------- 300 (460)
.| +|+||.|. ++|+
T Consensus 334 ~ga~g~vl~Q~~~~~~~~~~s~~~~~~~~~~~~la~~v~~l~~~~~~l~g~~~~~~v~~~~~~w~~~~td~~~l~~~p~~ 413 (555)
T 1mu2_A 334 DNQWTYKIHQEEKILKVGKYAKVKNTHTNGIRLLAQVVQKIGKEALVIWGRIPKFHLPVEREIWEQWWDNYWQVTWIPDW 413 (555)
T ss_dssp SSCEEEEEEETTEEEEEEEECCC--CEECHHHHHHHHHHHHHHHHHHHHSSCCEEEESBCHHHHHHHHHHCSSBCCCCSE
T ss_pred CCcEEEEEeeCCcceeeeeccccccccCCHHHHHHHHHHHhchhheeeeCCCeeEECCccHHHHHHhhhccchhhcCCcH
Confidence 96 99999874 0000
Q ss_pred ------------------------------ecCC-------------------ccccCChhHHHHHHHHHHHHhhCCcCC
Q psy4044 301 ------------------------------VWSD-------------------HQEMWHINLKEMFAVRSALERKLPVLQ 331 (460)
Q Consensus 301 ------------------------------~~~~-------------------~e~~ys~~~~EllAi~~al~~~~~~l~ 331 (460)
+.+. .....+.+..|+.|++.||+. .
T Consensus 414 ~~~~~~~~~~~~~~~~~~p~~~~~~iytDGs~~~n~g~~g~G~v~~~~~~~~~~~~~~TNn~aEl~A~i~aL~~-----~ 488 (555)
T 1mu2_A 414 DFVSTPPLVRLAFNLVGDPIPGAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTD-----S 488 (555)
T ss_dssp EECCCSSCBCCCCCEESSCCTTCEEEEEEEEECTTTCCEEEEEEETTSCEEEEEESSCCHHHHHHHHHHHHHHT-----S
T ss_pred HhccCCcccccccccCCCCCCCceEEEEcccccCCCCCceEEEEEEeCCEeeccCCCCCHHHHHHHHHHHHHHc-----C
Confidence 0000 001236778888888888876 4
Q ss_pred CcEEEEEeCchhhHHHHhhcCCCcchhhhHHHHHHHHHHHHcCCeEEEEEeCCCC----CCCCCccccC
Q psy4044 332 DKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKF----NTWADSLSRQ 396 (460)
Q Consensus 332 g~~v~i~tD~~~l~~~l~~~~~~~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~~----N~~AD~LSR~ 396 (460)
+.++.|+|||+.++..+++....+ ...+...+...+.. ...+.+.||||+. |..||.|++.
T Consensus 489 ~~~v~I~tDS~~v~~~i~~~~~~~---~~~l~~~~~~~~~~-~~~v~~~wV~~H~g~~~Ne~AD~LA~~ 553 (555)
T 1mu2_A 489 GPKVNIIVDSQYVMGIVASQPTES---ESKIVNQIIEEMIK-KEAIYVAWVPAHKGIGGNQEVDHLVSQ 553 (555)
T ss_dssp CSEEEEEESCHHHHHHHHTCCSEE---SCHHHHHHHHHHHH-CSEEEEEECCSSSCCTTHHHHHHHHHT
T ss_pred CCeEEEEEehHHHHHHHhcccccc---cHHHHHHHHHHhcc-CCcEEEEEEECCCCChhHHHHHHHHHh
Confidence 578999999999999998633222 23444455444444 3578999999954 8899999874
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=7.2e-43 Score=334.34 Aligned_cols=195 Identities=17% Similarity=0.229 Sum_probs=169.1
Q ss_pred CCCCCCchHHHHHHHHhhh--------hhcCCcccccceEeecCC-CCeeeeeecc----ccCCCCccCCCccchhhhcc
Q psy4044 40 HPPNQDSFFEVARHTAILL--------LLCSGRRVHDLTLLLSSR-DGFQDLGDRA----FLSLKKFHLINHFRVPDFLQ 106 (460)
Q Consensus 40 ~~p~~~~~~~~~~~~~~~~--------~~~~~~~~sp~~~V~Kk~-g~~R~~~D~r----~~~~~~~plp~i~~ll~~l~ 106 (460)
.+|++.+.-+....++..+ .++.+.+.||+++|+||+ |++|+|+||| .+.++.||+|++++++++++
T Consensus 38 ~~~~~~~~~~~~~~~~~i~~ll~~G~I~~~~sp~~sp~~~V~Kk~~g~~R~~~D~r~LN~~t~~~~~~lp~~~~ll~~l~ 117 (255)
T 3fsi_A 38 IKQYPMSQEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLREVNKRVEDIHPTVPNPYNLLSGLP 117 (255)
T ss_dssp CCCCCCCHHHHHHHHHHHHHHHHTTSEEEECCSCBCCBCCC-------CCCCBCCHHHHTTBCCCCCCSCCHHHHHTTCC
T ss_pred CCCccCCHHHHHHHHHHHHHHHhCCeEEecCCCeECceeEeecCCCCceeEEeEhhhhccccccCCCCCCcHHHHHHHhh
Confidence 3556666655555544443 245677899999999996 9999999999 66789999999999999999
Q ss_pred -CCceEEEEeccccccccccCCCCcceeEEE------EcCeeEEEcccCccCCCchHHHHHHHHHHHHHHHh--cCCEEE
Q psy4044 107 -RGDFLVKIDLSQAYFHVPIRPSHQRFLSVV------YRDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRN--LGMRVI 177 (460)
Q Consensus 107 -~~~~~s~lDl~~ay~qi~l~~~~~~~taF~------~~~g~y~~~~lpfGl~~ap~~fq~~~~~il~~l~~--~g~~v~ 177 (460)
++++|+++|+++|||||+|+++|+++|||. |+.|+|+|+|||||++|||++||++|+.++..+.. .+..+.
T Consensus 118 ~~~~~~s~lDl~~~y~qI~l~~~d~~~taF~~~~~~~t~~g~y~~~~mPfGl~~sP~~fq~~m~~il~~~~~~~~~~~v~ 197 (255)
T 3fsi_A 118 PSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILL 197 (255)
T ss_dssp TTCCEEEEEEBTTCGGGSBBCTTTGGGGCEECCCSSSCCSSEEEESBCCTTCTTHHHHHHHHHHHHTHHHHHHCTTCEEE
T ss_pred cCCcEEEEccccceeEeeecCccccCceEEEecCCCCCccceEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhCcCcEEE
Confidence 999999999999999999999999999999 56899999999999999999999999999988764 356899
Q ss_pred EEecCeEEecCCHHHHHHHHHHHHHHHHHcCCcccccccccccccccccccEEEcCCC
Q psy4044 178 VYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNPTL 235 (460)
Q Consensus 178 ~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~~K~~~~~~~~v~~LG~~i~~~g 235 (460)
+|+|||+|++++.++|..+++.|+++|+++||.+|++||+|. .++++||||+|+.+|
T Consensus 198 ~Y~DDili~s~~~eeh~~~l~~v~~~L~~~gl~l~~~Kc~f~-~~~~~fLG~~i~~~g 254 (255)
T 3fsi_A 198 QYVDDLLLAATSELDCQQGTRALLQTLGNLGYRASAKKAQIC-QKQVKYLGYLLKEGQ 254 (255)
T ss_dssp EETTEEEEEESSHHHHHHHHHHHHHHHHHHTCCBCTTTCEEE-ESEEEETTEEEETTB
T ss_pred EEcCCeEEEeCCHHHHHHHHHHHHHHHHHCCeEECHHHhccc-CCceEEEEEEEeCCc
Confidence 999999999999999999999999999999999999999876 679999999999887
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=99.09 E-value=1.1e-10 Score=100.40 Aligned_cols=119 Identities=20% Similarity=0.212 Sum_probs=86.3
Q ss_pred CeeEEEEccccc------cceeEEeeee---cceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHH
Q psy4044 276 PQVFVSTDASNS------GWGAIVDNHS---LGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVS 346 (460)
Q Consensus 276 ~~~~l~tDAS~~------g~Gavl~q~~---~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~ 346 (460)
..+.||||+|.. |+|+++.... .-..++......+.++.|+.|++.||+.... +..+++.|+||++.++.
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 368999999853 7888876421 0112222333568899999999999987532 33478999999999999
Q ss_pred HHhhcCCCcchhhhHHHHHHHHHHHHcCCeEEEEEeCCCCCCCCCccccC
Q psy4044 347 YIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKFNTWADSLSRQ 396 (460)
Q Consensus 347 ~l~~~~~~~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~~N~~AD~LSR~ 396 (460)
.+++.-..++..+..+...+..++..+ ..+++.|||++.|..||.|+|.
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 998743345555556666666666543 4799999999999999999874
No 7
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=99.05 E-value=2e-10 Score=98.45 Aligned_cols=119 Identities=22% Similarity=0.185 Sum_probs=86.7
Q ss_pred CeeEEEEcccc------ccceeEEeeee--cceecCCccccCChhHHHHHHHHHHHHhhCCcCCCc----EEEEEeCchh
Q psy4044 276 PQVFVSTDASN------SGWGAIVDNHS--LGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDK----VVLIQSDNQT 343 (460)
Q Consensus 276 ~~~~l~tDAS~------~g~Gavl~q~~--~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~----~v~i~tD~~~ 343 (460)
..+.||||+|. .|+|+++...- .-..++......+.++.|+.|++.||+..... .-. ++.|+||++.
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 NKIIIYTDGGARGNPGPAGIGVVITDEKGNTLHESSAYIGETTNNVAEYEALIRALEDLQMF-GDKLVDMEVEVRMDSEL 80 (140)
T ss_dssp CEEEEEEEEEESSTTEEEEEEEEEECTTSCEEEEEEEEEEEECHHHHHHHHHHHHHHHHGGG-GGGGTTCEEEEEESCHH
T ss_pred ceEEEEEecCCCCCCCCcEEEEEEEeCCCCEEEEEEeeCCCCchHHHHHHHHHHHHHHHHHc-CCCCCCceEEEEeChHH
Confidence 35799999985 48888876420 00111222223588999999999999985432 223 9999999999
Q ss_pred hHHHHhhcCCCcchhhhHHHHHHHHH-HHHcCCeEEEEEeCCCCCCCCCccccC
Q psy4044 344 VVSYIHKEGGTKSFKLLREVEALFDL-AVRHNITLMARYIPGKFNTWADSLSRQ 396 (460)
Q Consensus 344 l~~~l~~~~~~~~~~~~~~~r~i~~~-~~~~~~~~~i~~vpg~~N~~AD~LSR~ 396 (460)
++..+++....++..+..+...+..+ +..+. .+++.|||+..|..||.|++.
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 99999874444556666777777777 66653 688899999999999999874
No 8
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=99.03 E-value=2.1e-10 Score=99.65 Aligned_cols=116 Identities=20% Similarity=0.147 Sum_probs=84.9
Q ss_pred eEEEEccccc-------cc-eeEEeee---e--cceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhh
Q psy4044 278 VFVSTDASNS-------GW-GAIVDNH---S--LGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTV 344 (460)
Q Consensus 278 ~~l~tDAS~~-------g~-Gavl~q~---~--~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l 344 (460)
+.+|||+|.. |+ |+++... . .+....+.+...+.++.|+.|++.||+.... +..+++.|+|||+.+
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 5799998865 54 8777641 1 1111111223568999999999999987542 234689999999999
Q ss_pred HHHHhhcCCCcchhhhHHHHHHHHHHHHcCCeEEEEEeCCCCCCCCCccccC
Q psy4044 345 VSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKFNTWADSLSRQ 396 (460)
Q Consensus 345 ~~~l~~~~~~~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~~N~~AD~LSR~ 396 (460)
+..+++.-..+++.+..+...+..++..+ ++.+.||||+.|..||.|+|.
T Consensus 81 i~~i~~~w~~~~~~~~~l~~~i~~l~~~~--~v~~~~V~~~~N~~AD~LA~~ 130 (149)
T 2ehg_A 81 IKQMNGEYKVKAKRIIPLYEKAIELKKKL--NATLIWVPREENKEADRLSRV 130 (149)
T ss_dssp HHHHTTSSCCCCTTHHHHHHHHHHHHHHH--TCEEEECCGGGCHHHHHHHHH
T ss_pred HHHHhCccccCCHHHHHHHHHHHHHHhcC--CEEEEEcCCcccHHHHHHHHH
Confidence 99998743334455677788888888876 488899999999999999985
No 9
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=98.89 E-value=2.1e-09 Score=94.26 Aligned_cols=116 Identities=22% Similarity=0.173 Sum_probs=78.4
Q ss_pred CeeEEEEccccc------cceeEEeeeecceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHh
Q psy4044 276 PQVFVSTDASNS------GWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIH 349 (460)
Q Consensus 276 ~~~~l~tDAS~~------g~Gavl~q~~~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~ 349 (460)
..+.||||+|.. |+|+++...-....++......+.++.|+.|++.||+.... +.++.|+||++.++..++
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 KLIHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFSLTTNNRMELLAPIVALEALKE---PCKIILTSDSQYMRQGIM 81 (158)
T ss_dssp CEEEEEEEEEESSSSEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCSS---CCEEEEEECCHHHHHHHH
T ss_pred CeEEEEEcccccCCCCcEEEEEEEEECCEEEEEecCcCCCccHHHHHHHHHHHHHHhcc---CCeEEEEeCHHHHHHHHH
Confidence 468999999863 77887753210111222223457899999999999997543 389999999999988776
Q ss_pred h--------cC--CC-cchhhhHHHHHHHHHHHHcCCeEEEEEeCCC----CCCCCCccccC
Q psy4044 350 K--------EG--GT-KSFKLLREVEALFDLAVRHNITLMARYIPGK----FNTWADSLSRQ 396 (460)
Q Consensus 350 ~--------~~--~~-~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~----~N~~AD~LSR~ 396 (460)
+ .- .. +......+.+.+..++. ...+.+.||||+ .|..||.|+|.
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 TWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQ--LHQIDWRWVKGHAGHAENERCDQLARA 141 (158)
T ss_dssp THHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHT--TSEEEEEECCTTCCCHHHHHHHHHHHH
T ss_pred HHHHHHHHccccccCCCcccCHHHHHHHHHHHc--cCcEEEEEccCCCCchhHHHHHHHHHH
Confidence 4 10 00 11122345566666665 357899999987 57889999875
No 10
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=98.87 E-value=1.7e-09 Score=93.55 Aligned_cols=116 Identities=23% Similarity=0.300 Sum_probs=79.2
Q ss_pred CeeEEEEcccc------ccceeEEeeeecceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHh
Q psy4044 276 PQVFVSTDASN------SGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIH 349 (460)
Q Consensus 276 ~~~~l~tDAS~------~g~Gavl~q~~~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~ 349 (460)
..+.+|||+|. .|+|+++...-....++......+.++.|+.|++.||+.... ..++.|+||++.++..++
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 57899999993 477777764211112222233567899999999999998654 589999999998888776
Q ss_pred hc-------CC-----CcchhhhHHHHHHHHHHHHcCCeEEEEEeCCC----CCCCCCccccC
Q psy4044 350 KE-------GG-----TKSFKLLREVEALFDLAVRHNITLMARYIPGK----FNTWADSLSRQ 396 (460)
Q Consensus 350 ~~-------~~-----~~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~----~N~~AD~LSR~ 396 (460)
+. ++ ........+.+.+..++..+ .+.+.||||+ .|..||.|+|.
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 40 10 01112345777777777754 6888999965 57789998874
No 11
>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=98.84 E-value=3.5e-09 Score=92.61 Aligned_cols=115 Identities=26% Similarity=0.214 Sum_probs=78.1
Q ss_pred eeEEEEccccc------cceeEEeeeecceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHhh
Q psy4044 277 QVFVSTDASNS------GWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHK 350 (460)
Q Consensus 277 ~~~l~tDAS~~------g~Gavl~q~~~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~~ 350 (460)
.+.+|||+|.. |+|+++...-....++......+.+..|+.|++.||+.... ..++.|+|||+.++..+++
T Consensus 4 ~~~iytDGs~~~n~~~~G~G~v~~~~~~~~~~~~~~~~~tn~~aEl~A~~~aL~~~~~---~~~v~I~tDS~~vi~~i~~ 80 (155)
T 1jl1_A 4 QVEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKE---HAEVILSTDSQYVRQGITQ 80 (155)
T ss_dssp CEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCCS---CCEEEEEECCHHHHHHHHT
T ss_pred eEEEEEccccCCCCCceEEEEEEEECCeEEEEecCCCCCcHHHHHHHHHHHHHHHhCc---CCcEEEEeCHHHHHHHHHH
Confidence 57899999863 67777763211111222223457899999999999998653 3799999999999988874
Q ss_pred ------cCCC-----cchhhhHHHHHHHHHHHHcCCeEEEEEeCCC----CCCCCCccccC
Q psy4044 351 ------EGGT-----KSFKLLREVEALFDLAVRHNITLMARYIPGK----FNTWADSLSRQ 396 (460)
Q Consensus 351 ------~~~~-----~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~----~N~~AD~LSR~ 396 (460)
.++- +......+.+.+..++. ...+.+.||||+ .|..||.|+|.
T Consensus 81 w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~--~~~v~~~wV~gH~g~~~Ne~AD~LA~~ 139 (155)
T 1jl1_A 81 WIHNWKKRGWKTADKKPVKNVDLWQRLDAALG--QHQIKWEWVKGHAGHPENERADELARA 139 (155)
T ss_dssp THHHHHHTTTBCTTSCBCTTHHHHHHHHHHTT--TCEEEEEECCSSTTCHHHHHHHHHHHH
T ss_pred HHHHHhhcccccccCCccCCHHHHHHHHHHHc--cCceEEEEcCCCCCCHHHHHHHHHHHH
Confidence 0010 01122345566656554 357899999976 58889999886
No 12
>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=98.82 E-value=6.5e-09 Score=91.62 Aligned_cols=116 Identities=21% Similarity=0.125 Sum_probs=75.7
Q ss_pred CeeEEEEccccc------cceeEEeeeecceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHh
Q psy4044 276 PQVFVSTDASNS------GWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIH 349 (460)
Q Consensus 276 ~~~~l~tDAS~~------g~Gavl~q~~~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~ 349 (460)
..+.+|||+|.. |+|+++...-............+.++.|+.|++.||+.. ...++.|+||++.++..+.
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 359999999963 577776532100011122334588999999999999986 3689999999998887663
Q ss_pred hcCCCcchhhhHHHHHHHHHHHHcCCeEEEEEeCCCC---------CCCCCccccC
Q psy4044 350 KEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKF---------NTWADSLSRQ 396 (460)
Q Consensus 350 ~~~~~~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~~---------N~~AD~LSR~ 396 (460)
.....+.-....+.+.+...+. ....+.+.||||+. |..||.|+|.
T Consensus 98 ~~~~g~~v~n~dl~~~l~~~l~-~~~~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~ 152 (165)
T 3p1g_A 98 VHSEGREIKNKNEILALLKALF-LPKRLSIIHCPGHQKGNSAEARGNRMADQAARE 152 (165)
T ss_dssp SCCCSCCCSSHHHHHHHHHHTT-SBSEEEEEECCSSCCSCSHHHHHHHHHHHHHHH
T ss_pred cccCCCcccCHHHHHHHHHHHh-cCCceEEEEecCCCCCCcCcchHHHHHHHHHHH
Confidence 2111111112333444422221 24579999999998 7889999875
No 13
>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=98.79 E-value=9.3e-09 Score=89.28 Aligned_cols=113 Identities=18% Similarity=0.152 Sum_probs=76.4
Q ss_pred CeeEEEEcccc------ccceeEEeeeecceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHh
Q psy4044 276 PQVFVSTDASN------SGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIH 349 (460)
Q Consensus 276 ~~~~l~tDAS~------~g~Gavl~q~~~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~ 349 (460)
..+.+|||+|. .|+|+++.... .... .....+.++.|+.|++.||+.. +.++.|+|||+.++..++
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 35899999994 46777765321 1111 1345688999999999999973 589999999999988776
Q ss_pred hc------CC----Cc-chhhhHHHHHHHHHHHHcCCeEEEEEeCCCC----CCCCCccccCC
Q psy4044 350 KE------GG----TK-SFKLLREVEALFDLAVRHNITLMARYIPGKF----NTWADSLSRQK 397 (460)
Q Consensus 350 ~~------~~----~~-~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~~----N~~AD~LSR~~ 397 (460)
+. ++ .. ......+.+.+...+.. ...+.+.||||+. |..||.|+|.-
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 QWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIK-KEKVYLAWVPAHKGIGGNEQVDKLVSAG 144 (150)
T ss_dssp HHHHHHCC------------CHHHHHHHHHHHTT-CSEEEEEECCTTSCCHHHHHHHHHHHTT
T ss_pred HHHHHHhhcCcCcCcCcccccHHHHHHHHHHHhh-cCceEEEEccCcCCChhHHHHHHHHHHH
Confidence 52 00 00 11223344444443333 4579999999999 99999999863
No 14
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=98.78 E-value=7.8e-09 Score=90.24 Aligned_cols=115 Identities=22% Similarity=0.189 Sum_probs=79.2
Q ss_pred CeeEEEEccccc---------cceeEEeee---ecceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchh
Q psy4044 276 PQVFVSTDASNS---------GWGAIVDNH---SLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQT 343 (460)
Q Consensus 276 ~~~~l~tDAS~~---------g~Gavl~q~---~~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~ 343 (460)
..+.||||+|.. |+|+++... ..++.+.. ..+.++.|+.|++.||+.... ....+++|+||++.
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 458999999852 566665421 12333332 368899999999999988532 33478999999999
Q ss_pred hHHHHhhc------CC----C-cchhhhHHHHHHHHHHHHcCCeEEEEEeCCCC----CCCCCccccC
Q psy4044 344 VVSYIHKE------GG----T-KSFKLLREVEALFDLAVRHNITLMARYIPGKF----NTWADSLSRQ 396 (460)
Q Consensus 344 l~~~l~~~------~~----~-~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~~----N~~AD~LSR~ 396 (460)
++..+++. ++ . .......+.+.+..++. ++.+++.||||+. |..||.|+|.
T Consensus 82 vi~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~--~~~v~~~~V~~H~g~~~N~~AD~LA~~ 147 (154)
T 2qkb_A 82 TINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQ--GMDIQWMHVPGHSGFIGNEEADRLARE 147 (154)
T ss_dssp HHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHT--TCEEEEEECCTTSSCHHHHHHHHHHHH
T ss_pred HHhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHc--CCceEEEEccCCCCCHhHHHHHHHHHH
Confidence 88777641 11 0 11123456667766665 4679999999977 8899999875
No 15
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=98.74 E-value=6.3e-09 Score=91.99 Aligned_cols=116 Identities=20% Similarity=0.144 Sum_probs=79.3
Q ss_pred CeeEEEEccccc------cceeEEeeeecceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHh
Q psy4044 276 PQVFVSTDASNS------GWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIH 349 (460)
Q Consensus 276 ~~~~l~tDAS~~------g~Gavl~q~~~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~ 349 (460)
..+.||||+|.. |+|+++...-....++......+.+..|+.|++.||+.... ..+++|+|||+.++..++
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 468899999863 67777753211122333334568999999999999997543 358999999999987776
Q ss_pred h----------cCCC--cchhhhHHHHHHHHHHHHcCCeEEEEEeCCC----CCCCCCccccC
Q psy4044 350 K----------EGGT--KSFKLLREVEALFDLAVRHNITLMARYIPGK----FNTWADSLSRQ 396 (460)
Q Consensus 350 ~----------~~~~--~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~----~N~~AD~LSR~ 396 (460)
+ .+.+ +......+.+.+..++. .+.+.+.||||. .|..||.|+|.
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 EGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMA--PHRVRFHFVKGHTGHPENERVDREARR 144 (166)
T ss_dssp SSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHT--TSEEECCCCCGGGSCTHHHHHHHHHHH
T ss_pred hhHHHHHHhcccccccCCccCcHHHHHHHHHHHh--cCeEEEEEeeCCCCchhHHHHHHHHHH
Confidence 5 1100 01122346666666665 357889999965 78899999986
No 16
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=98.60 E-value=6.7e-08 Score=84.99 Aligned_cols=119 Identities=21% Similarity=0.184 Sum_probs=75.9
Q ss_pred CCeeEEEEcccc-----------ccceeEEeee----ecceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEe
Q psy4044 275 APQVFVSTDASN-----------SGWGAIVDNH----SLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQS 339 (460)
Q Consensus 275 ~~~~~l~tDAS~-----------~g~Gavl~q~----~~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~t 339 (460)
...++||||+|. .|+|+++... ..++.+.....+...+..|+.|+..|++.-. -.+.+|.|+|
T Consensus 5 ~~evviYTDGsc~gNpgp~~~~~aG~Gv~~~~~~~~~~~~~~~~~~tnn~te~~Aei~Al~~al~~al--~~~~~v~I~T 82 (165)
T 2lsn_A 5 QYEGVFYTDGSAIKSPDPTKSNNAGMGIVHATYKPEYQVLNQWSIPLGNHTAQMAEIAAVEFACKKAL--KIPGPVLVIT 82 (165)
T ss_dssp CCSEEEEEEEEEEECSSCTTCEEEEEEEEEECCSSSCCEEEEEEEEESSCCHHHHHHHHHHHHHHHHH--HSSSCEEEEE
T ss_pred CceEEEEEcCCCCCCCCCCCCCcEEEEEEEEECCCccEEeccccCCchHHHHHHHHHHHHHHHHHHHh--cCCCeEEEEe
Confidence 456899999993 4788877532 2233344444455666777777777765421 1356899999
Q ss_pred CchhhHHHHhh----------cCCCcch-hhhHHHHHHHHHHHHcCCeEEEEEeCCCC----------CCCCCccccC
Q psy4044 340 DNQTVVSYIHK----------EGGTKSF-KLLREVEALFDLAVRHNITLMARYIPGKF----------NTWADSLSRQ 396 (460)
Q Consensus 340 D~~~l~~~l~~----------~~~~~~~-~~~~~~r~i~~~~~~~~~~~~i~~vpg~~----------N~~AD~LSR~ 396 (460)
||+.++..+++ ....+.+ ....+.+.+.+++..+. ++++.||+|+. |..||.|+|.
T Consensus 83 DS~Yvi~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~-~v~~~~VkgH~g~~~~~~~~gNe~AD~LA~~ 159 (165)
T 2lsn_A 83 DSFYVAESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKP-DITIQHEKGHQPTNTSIHTEGNALADKLATQ 159 (165)
T ss_dssp SCHHHHHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCT-TCEEEECCSSSCSSSCHHHHHHHHHHHHHHH
T ss_pred ChHHHHhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCC-CEEEEEEeCCCCccCCCCChHHHHHHHHHHH
Confidence 99999876652 1111111 23446666666555443 67889999985 7789988874
No 17
>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=98.50 E-value=7.1e-09 Score=89.76 Aligned_cols=116 Identities=15% Similarity=0.051 Sum_probs=73.9
Q ss_pred CCeeEEEEcccc----ccceeEEeee----ecce-ecCCccc-cCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhh
Q psy4044 275 APQVFVSTDASN----SGWGAIVDNH----SLGG-VWSDHQE-MWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTV 344 (460)
Q Consensus 275 ~~~~~l~tDAS~----~g~Gavl~q~----~~s~-~~~~~e~-~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l 344 (460)
...+.+|||+|. .|+|+++... ..++ .....+. ..+.++.|+.|++.||+..... +.++.|+|||+.+
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 RTEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYAVKKASQL--GVKIRILHDYAGI 81 (147)
T ss_dssp TSCCEEECCCCCBTTBCEEEEEEEETTEEEEEEEEECCCGGGGGTCTTHHHHHHHHHHHHHHHHH--TCCCCBSSCCSTH
T ss_pred CCeEEEEECCCCCCCCcEEEEEEEECCEEEEEEeccccccccccccHHHHHHHHHHHHHHHHHHC--CCeEEEEECcHHH
Confidence 446899999986 5888888632 1222 2222221 3578999999999999853221 3389999999999
Q ss_pred HHHHhhcCCCcchhhhHHHHHHHHHHHHcCCeEEEEEeCCCC----CCCCCccccC
Q psy4044 345 VSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKF----NTWADSLSRQ 396 (460)
Q Consensus 345 ~~~l~~~~~~~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~~----N~~AD~LSR~ 396 (460)
..|+.+.-..+.... ....++..++.-.+.+.||||.. |..||.|+|.
T Consensus 82 ~~w~~~~w~~~~~~~----~~~~~l~~~l~~~v~~~wV~gH~g~~~Ne~AD~LA~~ 133 (147)
T 2kq2_A 82 AFWATGEWKAKNEFT----QAYAKLMNQYRGIYSFEKVKAHSGNEFNDYVDMKAKS 133 (147)
T ss_dssp HHHTTSSSSCCHHHH----HHHHCGGGGGSTTCCBCCCCCCCCCHHHHHHHHHHHH
T ss_pred HHHHhCCCccCCcch----HHHHHHHHHhcCCeeEEEecCcCCCcchHHHHHHHHH
Confidence 888765211221111 11112222222157789999976 8889999986
No 18
>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=98.28 E-value=1e-06 Score=75.28 Aligned_cols=114 Identities=12% Similarity=0.017 Sum_probs=73.3
Q ss_pred eeEEEEcccc------ccceeEEeeeecceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHhh
Q psy4044 277 QVFVSTDASN------SGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHK 350 (460)
Q Consensus 277 ~~~l~tDAS~------~g~Gavl~q~~~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~~ 350 (460)
.+.||||+|. .|+|+++...-.....+......+.++.|++|++.||+.....- . ++.|+|||+.++.++++
T Consensus 11 ~~~iy~DGa~~gNpG~~G~G~vl~~~g~~~~~~~~~~~~TNN~aEl~A~i~aL~~~~~~~-~-~v~i~tDS~~vi~w~~~ 88 (142)
T 1zbf_A 11 WESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERN-S-RKPIYSNSQTAIKWVKD 88 (142)
T ss_dssp SSSEEEEEEECSSSEEEEEEEEETTTCCEEEECCCEEEECHHHHHHHHHHHHHHHHHHTT-C-CCCEEESCHHHHHHHHH
T ss_pred eEEEEEeeccCCCCCCeEEEEEEEeCCEEEEEecccCCcCcHHHHHHHHHHHHHHHHhCC-C-eEEEEEehHHHHHHHHc
Confidence 4689999875 37888886210000112223356899999999999998864321 1 89999999999999987
Q ss_pred cCC-------CcchhhhHHHHHHHHHHHHcCCeEEEEEeCCC--CCCCCCc
Q psy4044 351 EGG-------TKSFKLLREVEALFDLAVRHNITLMARYIPGK--FNTWADS 392 (460)
Q Consensus 351 ~~~-------~~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~--~N~~AD~ 392 (460)
... .++..+-..+..+..|+..+.+...+.--..+ -|.+||+
T Consensus 89 ~~~k~~~~~~v~n~dLw~~l~~~~~w~~~~~~~~~~~kw~~~~~ge~pad~ 139 (142)
T 1zbf_A 89 KKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADY 139 (142)
T ss_dssp TCCCCCCCCSTTTHHHHHHHHHHHHHHHHCCCCCCEEECCHHHHCSCTTCC
T ss_pred CCccCCCCCCcccHHHHHHHHHHHHHHhhCCCceeEEEeccCccCcCcccc
Confidence 431 12233444445555677777766554433334 4668885
No 19
>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=98.02 E-value=7.7e-06 Score=68.72 Aligned_cols=101 Identities=12% Similarity=0.081 Sum_probs=65.0
Q ss_pred eEEEEcccc------ccceeEEeeeecceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHhhc
Q psy4044 278 VFVSTDASN------SGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKE 351 (460)
Q Consensus 278 ~~l~tDAS~------~g~Gavl~q~~~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~~~ 351 (460)
..||||+|. .|+|+|+...-...........-+.|+.|++|++.||+.... .+.++.|+|||+.++.|+++.
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 478999885 467777753100011112233569999999999999998643 233589999999999999863
Q ss_pred CC-------CcchhhhHHHHHHHHHHHHcCCeEEEE
Q psy4044 352 GG-------TKSFKLLREVEALFDLAVRHNITLMAR 380 (460)
Q Consensus 352 ~~-------~~~~~~~~~~r~i~~~~~~~~~~~~i~ 380 (460)
+- .++..+-.....+..|+..+.+.-.|.
T Consensus 84 ~~kt~~~~~vkN~dLw~~ld~~~~~l~~~~~~~~~~ 119 (134)
T 4htu_A 84 KAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPIL 119 (134)
T ss_dssp CCCCCCCCSSTTHHHHHHHHHHHHHHHHCCCCCCEE
T ss_pred CcccCCCCCccCHHHHHHHHHHHHHHHhCCCCCceE
Confidence 21 133344444555556777766654443
No 20
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A {Tribolium castaneum} PDB: 3du5_A 3du6_A
Probab=96.86 E-value=0.004 Score=62.83 Aligned_cols=129 Identities=16% Similarity=0.132 Sum_probs=92.1
Q ss_pred ccCCceEEEEecccccccccc-------CCC-----Ccc---------eeEEEEcCe-eE-EEcccCccCCCchHHHHHH
Q psy4044 105 LQRGDFLVKIDLSQAYFHVPI-------RPS-----HQR---------FLSVVYRDT-LY-CMTCLPFGLASAPQVFAKL 161 (460)
Q Consensus 105 l~~~~~~s~lDl~~ay~qi~l-------~~~-----~~~---------~taF~~~~g-~y-~~~~lpfGl~~ap~~fq~~ 161 (460)
..|..|..-+|+++.|-.|.- +.. |.. +...+..+| .| +-.-.|+|...||-+..-+
T Consensus 241 s~G~~yVVDaDIkkFFDnINHdkLLk~L~~~i~~IlDk~Il~LIkk~Lka~LV~igGk~y~qekGTPQGGVISPLLANIY 320 (596)
T 3kyl_A 241 TQGQIYGIKVDIRDAYGNVKIPVLCKLIQSIPTHLLDSEKKNFIVDHISNQFVAFRRKIYKWNHGLLQGDPLSGCLCELY 320 (596)
T ss_dssp CCSCCEEEEEEESSTTTTCCHHHHHHHHTTSCTTTSCHHHHHHHHHHHHCEEEESSSSEEEECSSSCBTCTTHHHHHHHH
T ss_pred cCCCeEEEeeEHHhhCCCCCHHHHHHHHHhhccccccHHHHHHHHHHHhhCeEEECCEEEecCCcccCCcchhHHHHHHH
Confidence 358889999999999998874 221 111 111122233 33 3577899999999999998
Q ss_pred HHHHHHHHHh---cCCEEEEEecCeEEecCCHHHHHHHHHHHHHHHHHcCCcccccccccc------cccccccccEEEc
Q psy4044 162 TNWIANYLRN---LGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLW------PVQTCQYLGIMWN 232 (460)
Q Consensus 162 ~~~il~~l~~---~g~~v~~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~~K~~~~------~~~~v~~LG~~i~ 232 (460)
++.+-..+.. .+..++.|.||+++.+.+.++....++ .+...+ .+|++|+... +...+.|+|+.++
T Consensus 321 LheLDkel~~~l~kd~~LVRYADDFVIi~~Ske~Aerfl~----~Lkg~l-eLNpEKTrInF~~~~lp~~~fpwCGLLID 395 (596)
T 3kyl_A 321 MAFMDRLYFSNLDKDAFIHRTVDDYFFCSPHPHKVYDFEL----LIKGVY-QVNPTKTRTNLPTHRHPQDEIPYCGKIFN 395 (596)
T ss_dssp HHHHHHHHSTTSCTTSEEEECSSEEEEEESCHHHHHHHHH----HHHHHS-CEEEEEEEECCTTSSSCCSEEEETTEEEE
T ss_pred HHHHHHHHHHhhccCceEEEEcCcEEEEECCHHHHHHHHH----HhhCcc-eECchhceeecccccCCCceeeeeeEEEE
Confidence 8887765421 245789999999999999887655555 344554 9999998541 2356899999999
Q ss_pred CCCCcc
Q psy4044 233 PTLDSK 238 (460)
Q Consensus 233 ~~g~~~ 238 (460)
....++
T Consensus 396 tkTLEI 401 (596)
T 3kyl_A 396 LTTRQV 401 (596)
T ss_dssp TTTCCE
T ss_pred CCEEEE
Confidence 999775
No 21
>1xr5_A Genome polyprotein; RNA-dependent RNA polymerase, transferase; 2.80A {Human rhinovirus 14} SCOP: e.8.1.4
Probab=70.40 E-value=8.4 Score=38.93 Aligned_cols=88 Identities=14% Similarity=0.301 Sum_probs=59.1
Q ss_pred EEcccCccCCCchHHHHHHHHHHH--HHHHhc-------CCEEEEEecCeEEecCCHHHHHHHHHHHHHHHHHcCCcccc
Q psy4044 143 CMTCLPFGLASAPQVFAKLTNWIA--NYLRNL-------GMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNL 213 (460)
Q Consensus 143 ~~~~lpfGl~~ap~~fq~~~~~il--~~l~~~-------g~~v~~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~ 213 (460)
...-+|-|.. +-.+.+.+++.++ ..+... ...+.+|=||.++.-+..- .+..+.+.+.++|+.+++
T Consensus 281 ~~~G~PSG~p-~Tsi~NSi~n~i~i~~a~~~~~~~~~~~~~~~~~yGDD~iis~~~~~----~~~~l~~~~~~~Gl~~t~ 355 (466)
T 1xr5_A 281 VEGGMPSGCS-GTSIFNSMINNIIIRTLILDAYKGIDLDKLKILAYGDDLIVSYPYEL----DPQVLATLGKNYGLTITP 355 (466)
T ss_dssp EESCCCTTSS-SHHHHHHHHHHHHHHHHHHHHCSSCCGGGCEEEEETTEEEEECSSCC----CHHHHHHHHTTTTCCEEC
T ss_pred EeCcCCCCCC-chhchhhHHHHHHHHHHHHHHhcCCCccceEEEEECCCCCceeCCCC----CHHHHHHHHHHcCCccCh
Confidence 4556676653 4567777777665 111111 2367899999999876532 246677788999999998
Q ss_pred -cccccc---cccccccccEEEcCCC
Q psy4044 214 -ERSVLW---PVQTCQYLGIMWNPTL 235 (460)
Q Consensus 214 -~K~~~~---~~~~v~~LG~~i~~~g 235 (460)
+|+..+ .-.++.|||+.+...+
T Consensus 356 ~dKt~~~~~~~~~~l~FL~r~~~~~~ 381 (466)
T 1xr5_A 356 PDKSETFTKMTWENLTFLKRYFKPDQ 381 (466)
T ss_dssp CSSCSSCCCCCTTTCCBTTBEEEECS
T ss_pred hhhcCCCCCCCcCCceEecceEeecC
Confidence 898633 1357999999876544
No 22
>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=65.39 E-value=4.2 Score=42.17 Aligned_cols=108 Identities=16% Similarity=0.128 Sum_probs=74.7
Q ss_pred eeEEEEcccc------ccceeEEeeeecceecCCccccCChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHhh
Q psy4044 277 QVFVSTDASN------SGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHK 350 (460)
Q Consensus 277 ~~~l~tDAS~------~g~Gavl~q~~~s~~~~~~e~~ys~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~~ 350 (460)
.+.+|||+|. .|+|+++... ..... .....+.++.|+.|++.||+.. ..++.|+|||+.++..+++
T Consensus 439 ~~~iytDGs~~~n~g~~g~g~v~~~~-~~~~~--~~~~~TNn~aEl~Ai~~aL~~~-----~~~v~I~tDS~~vi~~i~~ 510 (557)
T 2zd1_A 439 AETFYVDGAANRETKLGKAGYVTNKG-RQKVV--PLTNTTNQKTELQAIYLALQDS-----GLEVNIVTDSQYALGIIQA 510 (557)
T ss_dssp SCEEEEEEEECTTTCCEEEEEEETTS-CEEEE--EECSCCHHHHHHHHHHHHHHHS-----CSEEEEEECCHHHHHHHTT
T ss_pred CEEEEEccCCCCCCCceEEEEEEECC-cEEEe--cCCCCCHHHHHHHHHHHHHHhC-----CCcEEEEeChHHHHHHHhc
Confidence 4899999984 3566666421 01111 2345689999999999999985 6899999999999999987
Q ss_pred cCCCcchhhhHHHHHHHHHHHHcCCeEEEEEeCCCC----CCCCCccccC
Q psy4044 351 EGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKF----NTWADSLSRQ 396 (460)
Q Consensus 351 ~~~~~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~~----N~~AD~LSR~ 396 (460)
..... ...+...+...+.. ...+.+.||||+. |..||.|++.
T Consensus 511 ~~~~~---~~~l~~~~~~~l~~-~~~v~~~wV~~H~g~~~Ne~AD~LA~~ 556 (557)
T 2zd1_A 511 QPDKS---ESELVNQIIEQLIK-KEKVYLAWVPAHKGIGGNEQVDKLVSA 556 (557)
T ss_dssp CCSEE---SSHHHHHHHHHHHH-CSEEEEEECCSSSCCTTCCGGGGCC--
T ss_pred CCccC---CHHHHHHHHHHHhc-CCCEEEEEcCCCCCChhHHHHHHHHhc
Confidence 43221 23344444433333 3479999999965 9999999874
No 23
>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=61.27 E-value=4.7 Score=41.77 Aligned_cols=18 Identities=28% Similarity=0.185 Sum_probs=13.4
Q ss_pred eeEEEEcccc------ccceeEEe
Q psy4044 277 QVFVSTDASN------SGWGAIVD 294 (460)
Q Consensus 277 ~~~l~tDAS~------~g~Gavl~ 294 (460)
.+.+|||+|. .|+|+++.
T Consensus 436 ~~~iytDGs~~~n~g~~g~G~v~~ 459 (555)
T 1mu2_A 436 AETFYTDGSCNRQSKEGKAGYVTD 459 (555)
T ss_dssp CEEEEEEEEECTTTCCEEEEEEET
T ss_pred ceEEEEcccccCCCCCceEEEEEE
Confidence 5899999984 36666665
No 24
>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=53.48 E-value=34 Score=34.32 Aligned_cols=88 Identities=15% Similarity=0.251 Sum_probs=56.9
Q ss_pred EEcccCccCCCchHHHHHHHHHHHHH--HHh-------cCCEEEEEecCeEEecCCHHHHHHHHHHHHHHHHHcCCcccc
Q psy4044 143 CMTCLPFGLASAPQVFAKLTNWIANY--LRN-------LGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNL 213 (460)
Q Consensus 143 ~~~~lpfGl~~ap~~fq~~~~~il~~--l~~-------~g~~v~~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~ 213 (460)
...-+|-|.. +-.+++.+++.++-. +.. ....+++|=||.++.-+..- .+..+.+.+.++|+.++.
T Consensus 282 ~~~G~PSG~p-~Tsv~NSl~n~i~~~~~~~~~~~~~~~~~~~~~~yGDD~i~~~~~~~----~~~~l~~~~~~~Gl~~t~ 356 (461)
T 1ra6_A 282 VKGGMPSGXS-GTSIFNSMINNLIIRTLLLKTYKGIDLDHLKMIAYGDDVIASYPHEV----DASLLAQSGKDYGLTMTP 356 (461)
T ss_dssp EESCCCTBST-THHHHHHHHHHHHHHHHHHHHSTTCCGGGCEEEEETTEEEEEESSCC----CHHHHHHHHHHTTCCEES
T ss_pred EEeecCCCCC-eeeeehHHHHHHHHHHHHHHcCCCCCCceEEEEecCCceEEEecccc----CHHHHHHHHHHcCceecc
Confidence 3455666643 456777777766521 111 12367899999999866432 355677788999999985
Q ss_pred -cccccc---cccccccccEEEcCCC
Q psy4044 214 -ERSVLW---PVQTCQYLGIMWNPTL 235 (460)
Q Consensus 214 -~K~~~~---~~~~v~~LG~~i~~~g 235 (460)
+|+..+ ...++.||++.+...+
T Consensus 357 ~dKt~~~~~~~~~~l~FLkr~~~~~~ 382 (461)
T 1ra6_A 357 ADKSATFETVTWENVTFLKRFFRADE 382 (461)
T ss_dssp TTTCSSCCCCCTTTCCBTTBEEEECS
T ss_pred cccCCCCCCcCcCCceEEeeeeEEcC
Confidence 686421 2357999977665543
No 25
>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=47.79 E-value=36 Score=34.68 Aligned_cols=95 Identities=15% Similarity=0.176 Sum_probs=59.8
Q ss_pred eEEEEcCe-eE-EEcccCccCCCchHHHHHHHHHHHHH--HHh-cC---------CEEEEEecCeEEecCCHHHHHHHHH
Q psy4044 133 LSVVYRDT-LY-CMTCLPFGLASAPQVFAKLTNWIANY--LRN-LG---------MRVIVYLDDLLLGNQDSVLLRSQAR 198 (460)
Q Consensus 133 taF~~~~g-~y-~~~~lpfGl~~ap~~fq~~~~~il~~--l~~-~g---------~~v~~YvDDili~s~~~~~~~~~l~ 198 (460)
....+.+| .| ...-||=|.. +-.+++.+++.++.. +.. .| ...++|=||.++..+..- ...
T Consensus 282 ~~~~~~~g~v~~~~~G~PSG~p-~Tsi~NSi~N~i~~~~a~~~~~~~~~~~~~~~~~~~~yGDD~i~s~~~~~----~~~ 356 (510)
T 3bso_A 282 PSVVDVGDFTISINEGLPSGVP-CTSQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKL----DPE 356 (510)
T ss_dssp CEEEECSSEEEEECSSCCTTST-THHHHHHHHHHHHHHHHHHHHHTCCHHHHHHTEEEEEETTEEEEEESSCC----CHH
T ss_pred ceeeecCCEEEEEeCcccCCCC-eeeccchHHHHHHHHHHHHHhcCCCHHHhhheEEEEEecCceeeccCccc----cHH
Confidence 34556666 33 4566676654 456777777666511 111 12 134799999999876431 346
Q ss_pred HHHHHHHHcCCcccc-cccccc-----cccccccccEEEc
Q psy4044 199 AAVATLQSLRWSVNL-ERSVLW-----PVQTCQYLGIMWN 232 (460)
Q Consensus 199 ~v~~~l~~~gl~l~~-~K~~~~-----~~~~v~~LG~~i~ 232 (460)
.+.+.+.++|+.+++ +|+.-. ...++.||++.+.
T Consensus 357 ~~~~~~~~~Gl~~t~~dKt~~~~~~~~~~~~l~FLkr~f~ 396 (510)
T 3bso_A 357 KLTAKLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVT 396 (510)
T ss_dssp HHHHHHHHTTCCEECTTCCSSSCCCBSCCTTCEETTEEEE
T ss_pred HHHHHHHHcCcCccccccccCcccccCCcCCCeeeCcEeE
Confidence 677888999999998 587421 2457999966553
No 26
>1u09_A Polyprotein; protein-DNA complex, RNA-dependent RNA polymerase, foot and disease virus, transferase; 1.91A {Foot-and-mouth disease virus} SCOP: e.8.1.4 PDB: 1wne_A 2e9r_X* 2e9t_A* 2e9z_A* 2ec0_A 3kmq_A 3kms_A 3koa_A 3kna_A 3klv_A 3nky_A 3nma_A 2f8e_X* 2d7s_A* 3nl0_A
Probab=43.81 E-value=1.1e+02 Score=30.61 Aligned_cols=87 Identities=18% Similarity=0.278 Sum_probs=54.0
Q ss_pred EEcccCccCCCchHHHHHHHHHHH--HHHHhc--C-----CEEEEEecCeEEecCCHHHHHHHHHHHHHHHHHcCCcccc
Q psy4044 143 CMTCLPFGLASAPQVFAKLTNWIA--NYLRNL--G-----MRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNL 213 (460)
Q Consensus 143 ~~~~lpfGl~~ap~~fq~~~~~il--~~l~~~--g-----~~v~~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~ 213 (460)
....+|-|... ..+.+.+++.++ ..+... + ..+.+|=||.++..+..- .+..+.+.+.++|+.++.
T Consensus 292 ~~~G~pSG~p~-T~~~Nsl~n~~~~~~a~~~~~~~~~~~~~~~~~~GDD~i~~~~~~~----~~~~~~~~~~~~Gl~~t~ 366 (476)
T 1u09_A 292 VEGGMPSGCSA-TSIINTILNNIYVLYALRRHYEGVELDTYTMISYGDDIVVASDYDL----DFEALKPHFKSLGQTITP 366 (476)
T ss_dssp EESSCCTTCTT-HHHHHHHHHHHHHHHHHHHHSSSCCGGGCEEEEETTEEEEEESSCC----CHHHHHHHHHTTTCCEEE
T ss_pred EeCcCCCCCcc-eecchHHHHHHHHHHHHHHHcCCCCccceeEEEEcCCeeeecCccc----CHHHHHHHHHHcCcEecc
Confidence 34555555433 355566665554 112111 2 357899999999876432 356677788899999984
Q ss_pred -ccccc-----ccccccccccEEEcCC
Q psy4044 214 -ERSVL-----WPVQTCQYLGIMWNPT 234 (460)
Q Consensus 214 -~K~~~-----~~~~~v~~LG~~i~~~ 234 (460)
+|+.. ....++.||++.+...
T Consensus 367 ~dKt~~~~~~~~~~~~~~FL~r~~~~~ 393 (476)
T 1u09_A 367 ADKSDKGFVLGHSITDVTFLKRHFHMD 393 (476)
T ss_dssp SCCSSSSCCSCCCGGGCEETTEEEEEC
T ss_pred ccccccccccccccccceEeeeeeeEc
Confidence 66531 2245789998876553
No 27
>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=42.19 E-value=45 Score=33.94 Aligned_cols=57 Identities=16% Similarity=0.207 Sum_probs=39.9
Q ss_pred EEEEEecCeEEecCCHHHHHHHHHHHHHHHHHcCCcccc-cccccc---cccccccccEEEcC
Q psy4044 175 RVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNL-ERSVLW---PVQTCQYLGIMWNP 233 (460)
Q Consensus 175 ~v~~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~-~K~~~~---~~~~v~~LG~~i~~ 233 (460)
.+.+|=||.++..+.. +...+..+.+.+.++|+.++. +|+... .-.++.||++....
T Consensus 348 ~~~~yGDD~i~s~~~~--~~~~~~~~~~~~~~~Gl~~t~~dKt~~~~~~~l~~~~FLkr~f~~ 408 (516)
T 1khv_A 348 PFYTYGDDGVYAMTPM--MVSLLPAIIENLRDYGLSPTAADKTEFIDVCPLNKISFLKRTFEL 408 (516)
T ss_dssp CEEEETTEEEEEECHH--HHHTHHHHHHHHHHTTCCEEESSTTSCSCCBCGGGCEETTEEEEE
T ss_pred eEEEecCceEEEecch--hhhHHHHHHHHHHHcCcEeccccccCCCccccCCCCeeeCcccee
Confidence 5789999999987633 223345677888999999986 677421 22378999886543
No 28
>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B
Probab=39.99 E-value=29 Score=39.30 Aligned_cols=128 Identities=16% Similarity=0.139 Sum_probs=69.8
Q ss_pred ceEEEEeccccccccccC------CCC--------cceeEEEEcCeeEEEccc-CccCCCchHHHHHHHHHHH----HHH
Q psy4044 109 DFLVKIDLSQAYFHVPIR------PSH--------QRFLSVVYRDTLYCMTCL-PFGLASAPQVFAKLTNWIA----NYL 169 (460)
Q Consensus 109 ~~~s~lDl~~ay~qi~l~------~~~--------~~~taF~~~~g~y~~~~l-pfGl~~ap~~fq~~~~~il----~~l 169 (460)
.-+.++||++|=-.|.+. |.. +--.+..-.+..++|..+ .||- .--.-.+.++-..+ ..+
T Consensus 962 ~~~~t~dls~asd~~s~~l~~~~lp~~~~~~~~~~rs~~~~~~~g~~~~~~~~~~mgn-g~tfel~s~~~~~~~~~~~~~ 1040 (1289)
T 3avx_A 962 NNLATVDLSAASDSISLALCELLLPPGWFEVLMDLRSPKGRLPDGSVVTYEKISSMGN-GYTFELESLIFASLARSVCEI 1040 (1289)
T ss_dssp SCEEEECBTTGGGGCBHHHHHTTSCHHHHHHHHHHSCCEEECTTSCEEECSBSCCTTS-TTHHHHHHHHHHHHHHHHHHH
T ss_pred cceeEEEccccccHhHHHHHHHHcCHHHHHHHHhhcCcccccCCCcEeehhhhhcccC-ceeEeHHHHHHHHHHHHHHHH
Confidence 368899999998877531 111 001111123345676554 3332 11122233332222 111
Q ss_pred Hhc-CCEEEEEecCeEEecCCHHHHHHHHHHHHHHHHHcCCcccccccccccccc------cccccEEEcCCCCcccCCc
Q psy4044 170 RNL-GMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQT------CQYLGIMWNPTLDSKSLPL 242 (460)
Q Consensus 170 ~~~-g~~v~~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~~K~~~~~~~~------v~~LG~~i~~~g~~~~~p~ 242 (460)
... ...|.+|=|||++-++ ....+++.|.-.||..|.+|.-+.+ .= --|.|+.+.+--+ +.|.
T Consensus 1041 ~~~~~~~~~~ygddii~~~~-------~~~~~~~~~~~~~f~~n~~ktf~~g-~frescg~~~~~g~dv~p~y~--~~~~ 1110 (1289)
T 3avx_A 1041 LDLDSSEVTVYGDDIILPSC-------AVPALREVFKYVGFTTNTKKTFSEG-PFRESCGKHYYSGVDVTPFYI--RHRI 1110 (1289)
T ss_dssp TTCCGGGCEEETTEEEEEGG-------GHHHHHHHHHHTTCCBCGGGCBSSS-SEEEETTEEEETTEECCCCCC--CSCC
T ss_pred hCCCCceEEEecCcEEeehh-------hhHHHHHHHHHhceecCCccccccC-cchhhhcccccCCccccceEE--eccc
Confidence 111 1258899999999886 4456778899999999999983322 11 1256666665543 3555
Q ss_pred cchHH
Q psy4044 243 EKQST 247 (460)
Q Consensus 243 ~k~~~ 247 (460)
..+..
T Consensus 1111 ~~~~~ 1115 (1289)
T 3avx_A 1111 VSPAD 1115 (1289)
T ss_dssp CSHHH
T ss_pred ccHHH
Confidence 55444
No 29
>2ijd_1 Picornain 3C, RNA-directed RNA polymerase; RNA-dependent RNA polymerase, picornavirus, protease, hydrolase, transferase; 3.40A {Human poliovirus 1} SCOP: b.47.1.4 e.8.1.4
Probab=37.51 E-value=74 Score=33.39 Aligned_cols=87 Identities=14% Similarity=0.251 Sum_probs=56.1
Q ss_pred EEcccCccCCCchHHHHHHHHHHHHHH--Hhc-------CCEEEEEecCeEEecCCHHHHHHHHHHHHHHHHHcCCcccc
Q psy4044 143 CMTCLPFGLASAPQVFAKLTNWIANYL--RNL-------GMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNL 213 (460)
Q Consensus 143 ~~~~lpfGl~~ap~~fq~~~~~il~~l--~~~-------g~~v~~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~ 213 (460)
...-||=|.. +-.+++.+++.++-.. ... ...+++|=||.++..+..- .+..+.+.+.++|+.++.
T Consensus 465 ~~~G~PSG~p-~Tsi~NSlvn~i~~~~a~~~~~~~~~~~~~~~~~yGDD~i~s~~~~~----~~~~~~~~~~~~Gl~~t~ 539 (644)
T 2ijd_1 465 VKGGMPSGCS-GTSIFNSMINNLIIRTLLLKTYKGIDLDHLKMIAYGDDVIASYPHEV----DASLLAQSGKDYGLTMTP 539 (644)
T ss_dssp EESSCCSBST-THHHHHHHHHHHHHHHHHHHHSSSCCGGGCEEEEETTEEEEEESSCC----CHHHHHHHHHHTTCCEEE
T ss_pred EeeecCCCCC-ceecchHHHHHHHHHHHHHhhccCCCCceeEEEEeCCcEEEeccccc----CHHHHHHHHHHcCCEech
Confidence 4456777654 5577777777766221 111 2357899999999876532 356677788999999986
Q ss_pred -cccccc---cccccccccEEEcCC
Q psy4044 214 -ERSVLW---PVQTCQYLGIMWNPT 234 (460)
Q Consensus 214 -~K~~~~---~~~~v~~LG~~i~~~ 234 (460)
+|..-+ ...++.||.+.+...
T Consensus 540 ~dKt~~~~~~~~~~l~FLkr~f~~~ 564 (644)
T 2ijd_1 540 ADKSATFETVTWENVTFLKRFFRAD 564 (644)
T ss_dssp TTTCSSCCCCCTTTCBSSSCEEEEC
T ss_pred hhccCCCcccccCCeEEEeeeeEec
Confidence 576421 235799996555443
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=37.36 E-value=34 Score=34.89 Aligned_cols=56 Identities=11% Similarity=0.013 Sum_probs=40.8
Q ss_pred EEEEEecCeEEecCCHHHHHHHHHHHHHHHHHcCCcccc-cccccc-----cccccccccEEEcCC
Q psy4044 175 RVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNL-ERSVLW-----PVQTCQYLGIMWNPT 234 (460)
Q Consensus 175 ~v~~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~-~K~~~~-----~~~~v~~LG~~i~~~ 234 (460)
.+++|=||.++..+..- ....+.+.+.++|+.+++ +|+.-. .-.++.||.+.....
T Consensus 337 ~~~~yGDD~i~sv~~~~----~~~~l~~~~~~~Gl~~t~~dKt~~~~~~~~~~~~~~FLkR~f~~~ 398 (515)
T 3uqs_A 337 EFSFYGDDEVVSTNLEL----DMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGD 398 (515)
T ss_dssp EEEEETTEEEEEESSCC----CHHHHHHHHHHTTCCCCCTTCCSSCCCCBSCSTTCEETTEEEEEE
T ss_pred EEEEeCCceEEEecccc----CHHHHHHHHHHhCcEeccccccCCccccCCCCCCCeeCCCCcEeC
Confidence 35789999999776422 356778889999999998 777421 235789999877443
No 31
>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=35.18 E-value=34 Score=34.87 Aligned_cols=57 Identities=19% Similarity=0.173 Sum_probs=35.2
Q ss_pred EEEEEecCeEEecCCHHHHHHHHHHHHHHHHHcCCccccc-ccccc-cccccccccEEEcC
Q psy4044 175 RVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLE-RSVLW-PVQTCQYLGIMWNP 233 (460)
Q Consensus 175 ~v~~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~~-K~~~~-~~~~v~~LG~~i~~ 233 (460)
.+++|=||.++..+.. +...+..+.+.+.++|+.++.. |+.-. ...++.||++.+..
T Consensus 341 ~~~~yGDD~i~s~~~~--~~~~~~~~~~~~~~~Gl~~t~~dKt~~~~~~~~l~FLkr~f~~ 399 (515)
T 2ckw_A 341 TIHTYGDDCMYSVCPA--TASIFHTVLANLTSYGLKPTAADKSDAIKPTNTPVFLKRTFTQ 399 (515)
T ss_dssp EEEEETTEEEEEECHH--HHHTHHHHHHHHHHHTCCC---------CCCSSCEETTEEEEE
T ss_pred EEEEECCceEEEecch--hHHHHHHHHHHHHHcCcEEeccccCCCCCccCCceecCCccEE
Confidence 5789999999987643 2233456778889999998874 66322 12359999776653
No 32
>1xr7_A Genome polyprotein; RNA-dependent RNA polymerase, transferase; 2.30A {Human rhinovirus 16} SCOP: e.8.1.4 PDB: 1tp7_A* 1xr6_A
Probab=25.13 E-value=1.2e+02 Score=30.17 Aligned_cols=87 Identities=15% Similarity=0.242 Sum_probs=56.4
Q ss_pred EEcccCccCCCchHHHHHHHHHHHHH--HHhc-------CCEEEEEecCeEEecCCHHHHHHHHHHHHHHHHHcCCcccc
Q psy4044 143 CMTCLPFGLASAPQVFAKLTNWIANY--LRNL-------GMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNL 213 (460)
Q Consensus 143 ~~~~lpfGl~~ap~~fq~~~~~il~~--l~~~-------g~~v~~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~ 213 (460)
...-||=|.. +-.+.+.+++.++-. +... ...+.+|=||.++..+..- .+..+.+.+.++|+.++.
T Consensus 281 ~~~G~PSG~p-~Tsi~NSl~n~i~~~~a~~~~~~~~~~~~~~~~~yGDD~i~s~~~~~----~~~~l~~~~~~~Gl~~t~ 355 (460)
T 1xr7_A 281 VEGGVPSGCS-GTSIFNSMINNIIIRTLVLDAYKHIDLDKLKIIAYGDDVIFSYKYKL----DMEAIAKEGQKYGLTITP 355 (460)
T ss_dssp EESSCCTTST-THHHHHHHHHHHHHHHHHHHHCSSCCGGGCEEEEETTEEEEEESSCC----CHHHHHHTTGGGTCCEEE
T ss_pred EeCCccCCCC-ccccchhHHHHHHHHHHHHHHhcCCCccceeEEEecCceEEEeCCcC----CHHHHHHHHHHcCcEech
Confidence 4556676654 456777777776521 2111 2367899999999866432 356677888999999985
Q ss_pred -cccccc---cccccccccEEEcCC
Q psy4044 214 -ERSVLW---PVQTCQYLGIMWNPT 234 (460)
Q Consensus 214 -~K~~~~---~~~~v~~LG~~i~~~ 234 (460)
+|..-+ ...++.||.+.+...
T Consensus 356 ~dKt~~~~~~~~~~l~FLkr~f~~~ 380 (460)
T 1xr7_A 356 ADKSSEFKELDYGNVTFLKRGFRQD 380 (460)
T ss_dssp STTCSSCCCBCTTTCCBTTBEEEEC
T ss_pred hhhcCCCCCCCcCCceEEeeeeEEc
Confidence 677421 245799996655443
No 33
>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=23.37 E-value=54 Score=32.89 Aligned_cols=88 Identities=16% Similarity=0.257 Sum_probs=54.6
Q ss_pred EEcccCccCCCchHHHHHHHHHHHH---HHH---hc---CCEEEEEecCeEEecCCHHHHHHHHHHHHHHHHHcCCcccc
Q psy4044 143 CMTCLPFGLASAPQVFAKLTNWIAN---YLR---NL---GMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNL 213 (460)
Q Consensus 143 ~~~~lpfGl~~ap~~fq~~~~~il~---~l~---~~---g~~v~~YvDDili~s~~~~~~~~~l~~v~~~l~~~gl~l~~ 213 (460)
...-+|=|. .+-.+...+|+.++- .+. .. ...+.+|=||.++..+..- ....+-+.++++|+..+.
T Consensus 283 ~~~G~PSG~-p~Tsv~NSl~n~i~~~~a~~~~~~~~~~~~~~~~~yGDD~i~s~~~~~----~~~~l~~~~~~~Gl~~t~ 357 (462)
T 3n6m_A 283 VLGGMPSGC-SGTSIFNSMINNIIIRALLIKTFKGIDLDELNMVAYGDDVLASYPFPI----DCLELAKTGKEYGLTMTP 357 (462)
T ss_dssp EESSCCCSC-STTHHHHHHHHHHHHHHHHHHHSTTCCGGGCEEEEETTEEEEEESSCC----CHHHHHHHHHHTTCEEEE
T ss_pred EeCCcCCCC-CccccchHHHHHHHHHHHHHHHcCCCCcceEEEEeecCceEEEeCccc----CHHHHHHHHHHcCceech
Confidence 455677775 344566666666551 111 11 2357899999999876531 355677778999999987
Q ss_pred c-ccccc---cccccccccEEEcCCC
Q psy4044 214 E-RSVLW---PVQTCQYLGIMWNPTL 235 (460)
Q Consensus 214 ~-K~~~~---~~~~v~~LG~~i~~~g 235 (460)
. |..-+ .-.++.||.+-+...+
T Consensus 358 ~dKt~~~~~~~~~~l~FLkR~f~~d~ 383 (462)
T 3n6m_A 358 ADKSPCFNEVNWDNATFLKRGFLPDE 383 (462)
T ss_dssp SSSSSSCSCCCTTTCCBTTBEEEECS
T ss_pred hhccCCCCCccccCCeEeCcceeecC
Confidence 4 76311 2357889966554443
Done!