Query psy5607
Match_columns 769
No_of_seqs 588 out of 4177
Neff 8.8
Searched_HMMs 29240
Date Fri Aug 16 21:53:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5607.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/5607hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3kyl_A Telomerase reverse tran 99.7 1.1E-15 3.6E-20 162.1 18.1 186 164-389 181-375 (596)
2 1mu2_A HIV-2 RT; HIV-2 reverse 99.6 6.3E-15 2.2E-19 168.4 21.8 67 642-712 489-555 (555)
3 2zd1_A Reverse transcriptase/r 99.6 1.6E-15 5.6E-20 173.3 14.0 115 246-388 104-224 (557)
4 3qio_A GAG-POL polyprotein; RN 99.4 2.4E-13 8.2E-18 126.8 6.7 73 642-714 65-147 (150)
5 3p1g_A Xenotropic murine leuke 99.3 1.5E-12 5.2E-17 123.0 4.5 71 642-714 80-156 (165)
6 2e4l_A Ribonuclease HI, RNAse 99.3 3.1E-12 1.1E-16 120.8 6.2 72 642-714 64-145 (158)
7 1jl1_A Ribonuclease HI; RNAse 99.3 3.5E-12 1.2E-16 120.0 6.5 72 642-714 62-143 (155)
8 2qkb_A Ribonuclease H1, HS-RNA 99.3 4.1E-12 1.4E-16 119.6 6.5 71 642-713 70-150 (154)
9 2lsn_A Reverse transcriptase; 99.3 1.6E-12 5.4E-17 122.6 3.4 71 642-712 75-161 (165)
10 3h08_A RNH (ribonuclease H); R 99.3 2.6E-12 8.7E-17 119.9 4.8 71 642-713 62-143 (146)
11 1ril_A Ribonuclease H; hydrola 99.2 3.9E-12 1.3E-16 121.0 4.4 72 642-714 66-148 (166)
12 2kq2_A Ribonuclease H-related 98.9 5.2E-11 1.8E-15 110.8 -3.3 68 644-715 71-138 (147)
13 3u3g_D Ribonuclease H, RNAse H 98.5 5E-08 1.7E-12 89.9 5.2 65 644-713 71-136 (140)
14 3hst_B Protein RV2228C/MT2287; 98.5 1E-07 3.5E-12 87.9 6.4 68 642-714 66-133 (141)
15 2ehg_A Ribonuclease HI; RNAse 98.4 7.9E-08 2.7E-12 89.6 3.6 67 642-714 68-134 (149)
16 3fsi_A RT, reverse transcripta 98.3 1.7E-06 5.8E-11 88.3 9.2 131 246-427 119-254 (255)
17 2zd1_B P51 RT; P51/P66, hetero 97.6 2.9E-05 1E-09 85.2 3.8 116 246-389 102-223 (428)
18 1rw3_A POL polyprotein; RNA an 97.3 0.0004 1.4E-08 77.0 8.5 130 246-426 123-257 (455)
19 1xr5_A Genome polyprotein; RNA 97.2 0.00039 1.3E-08 76.9 7.3 188 165-389 160-361 (466)
20 1ra6_A P3D, genome polyprotein 97.2 0.00077 2.6E-08 74.4 9.2 189 166-390 161-363 (461)
21 3uqs_A RNA-dependent RNA polym 96.8 0.032 1.1E-06 62.0 17.3 181 181-388 179-376 (515)
22 1zbf_A Ribonuclease H-related 94.3 0.0059 2E-07 55.5 -0.8 63 644-706 72-139 (142)
23 2ckw_A RNA-directed RNA polyme 90.8 5.3 0.00018 44.3 16.9 183 181-389 179-383 (515)
24 1u09_A Polyprotein; protein-DN 90.3 2.5 8.5E-05 46.5 13.5 201 153-387 150-370 (476)
25 3bso_A RNA dependent RNA polym 90.3 3.5 0.00012 45.7 14.8 180 181-389 179-377 (510)
26 3n6m_A RNA-dependent RNA polym 88.6 1.8 6.3E-05 47.2 10.7 177 181-388 171-362 (462)
27 1khv_A RNA-directed RNA polyme 88.2 8.1 0.00028 42.8 15.9 184 181-388 185-389 (516)
28 2ijd_1 Picornain 3C, RNA-direc 81.3 6.1 0.00021 45.1 10.8 177 181-389 354-545 (644)
29 1xr7_A Genome polyprotein; RNA 76.4 23 0.00079 38.5 13.2 175 181-388 171-360 (460)
30 4htu_A Ribonuclease H, RNAse H 74.4 1.9 6.5E-05 38.2 3.1 39 642-680 64-105 (134)
31 3avx_A Elongation factor TS, e 69.4 15 0.00052 44.5 10.1 177 164-388 900-1082(1289)
32 3hkw_A NS5B RNA-dependent RNA 60.1 69 0.0024 34.8 12.0 207 151-379 128-352 (581)
No 1
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A {Tribolium castaneum} PDB: 3du5_A 3du6_A
Probab=99.67 E-value=1.1e-15 Score=162.07 Aligned_cols=186 Identities=15% Similarity=0.162 Sum_probs=137.4
Q ss_pred ccEEEEeecCCCCCCCCCCCcccc--cCCchhHHHHHHHHhhhhHHHHhcCCCCCCcccccCCCChhhHHHHHHHHHHHh
Q psy5607 164 ESLILPLLKPGKDRLVPSNYRPIS--LLNCSGKILEKMVNKRLFWVLENRGLINPFQSGGRFRRSTIDNLVFLEKEAAQG 241 (769)
Q Consensus 164 ~a~i~~i~K~~kd~~~~~~yRPIs--ll~~~~Ki~ekii~~rL~~~~~~~~~l~~~Q~Gfr~~rs~~d~i~~l~~~i~~~ 241 (769)
.+.+-.|+|.. |||-|- -.....+-.=|++..+....+++ .+.+..|+.++...+.+..
T Consensus 181 ~~~~~~i~~~~-------n~~~i~~~f~~~~~~~~lKl~~~~~~~~~~~---------~~~~~~sihqa~~~L~q~s--- 241 (596)
T 3kyl_A 181 RGVLNIIPKQD-------NFRAIVSIFPDSARKPFFKLLTSKIYKVLEE---------KYKTSGSLYTCWSEFTQKT--- 241 (596)
T ss_dssp SEEEEEEECSS-------SEEEEEEECCCCSSHHHHHHHHHHHHHHHHH---------HSCCCCCSSHHHHHHHHHC---
T ss_pred chhhhhCcccc-------cHHHHHHHhhhhccCCceEEEeccCCcchhh---------hccccccHHHHHHHHHhhc---
Confidence 45667778864 677662 12333445556666666666664 2445566777776665332
Q ss_pred hcccccEEEEEecccCCCCCCChHHHHHHHhcCCC---CchhHHHHHHHhcCCeEEEEeCCccceeeeccCCCCCCCCch
Q psy5607 242 LAKKECTVALLLDGQKAFDMTWRFKIIETLKGFNI---NGYMLRYLCNFLYNRSFKVKCNGSFSNSFPLQNGIVQGSSLS 318 (769)
Q Consensus 242 ~~~~~~~~~v~lD~~kAFD~V~~~~L~~~L~~~g~---~~~~~~~i~~~l~~~~~~v~~~~~~s~~~~~~~GvpQGs~LS 318 (769)
....+++-+|++++||+|+|+.|+..|...+. +..+..||+.++.... |..+|. ......|+|||+++|
T Consensus 242 ---~G~~yVVDaDIkkFFDnINHdkLLk~L~~~i~~IlDk~Il~LIkk~Lka~L--V~igGk---~y~qekGTPQGGVIS 313 (596)
T 3kyl_A 242 ---QGQIYGIKVDIRDAYGNVKIPVLCKLIQSIPTHLLDSEKKNFIVDHISNQF--VAFRRK---IYKWNHGLLQGDPLS 313 (596)
T ss_dssp ---CSCCEEEEEEESSTTTTCCHHHHHHHHTTSCTTTSCHHHHHHHHHHHHCEE--EESSSS---EEEECSSSCBTCTTH
T ss_pred ---CCCeEEEeeEHHhhCCCCCHHHHHHHHHhhccccccHHHHHHHHHHHhhCe--EEECCE---EEecCCcccCCcchh
Confidence 34579999999999999999999999999875 6778889999887655 444553 355678999999999
Q ss_pred HHHHHHHHHHHHhhhc----CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCCCceEE
Q psy5607 319 PVLFIIFMNDILDIIK----VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADPKKSAC 389 (769)
Q Consensus 319 PlLf~l~~~~l~~~l~----~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~~Kt~~ 389 (769)
|+|.|+|++++.+.+. .+...+.||||+++++.+ .+..+..++.+..| +++| ++||.+
T Consensus 314 PLLANIYLheLDkel~~~l~kd~~LVRYADDFVIi~~S------ke~Aerfl~~Lkg~-----leLN--pEKTrI 375 (596)
T 3kyl_A 314 GCLCELYMAFMDRLYFSNLDKDAFIHRTVDDYFFCSPH------PHKVYDFELLIKGV-----YQVN--PTKTRT 375 (596)
T ss_dssp HHHHHHHHHHHHHHHSTTSCTTSEEEECSSEEEEEESC------HHHHHHHHHHHHHH-----SCEE--EEEEEE
T ss_pred HHHHHHHHHHHHHHHHHhhccCceEEEEcCcEEEEECC------HHHHHHHHHHhhCc-----ceEC--chhcee
Confidence 9999999999998763 467889999999999986 44455555555544 3999 999986
No 2
>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=99.64 E-value=6.3e-15 Score=168.40 Aligned_cols=67 Identities=21% Similarity=0.363 Sum_probs=57.2
Q ss_pred CCeEEEEcCcHHHHHHHHccCcCCCcchHHHHHHHHHHHhcCCceEEEEEecCCCCCccchhhhhhhhCcC
Q psy5607 642 HSKFLLVSDSMSAIQAIANICSSYKNSLTSKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAKNPC 712 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~~wvp~H~gi~gNe~aD~~Ak~a~ 712 (769)
..++.|+|||++++++|++|...+++++.+++.+.+ ..+..|.|.|||||+|++|||.||+|||+|+
T Consensus 489 ~~~v~I~tDS~~v~~~i~~~~~~~~~~l~~~~~~~~----~~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a~ 555 (555)
T 1mu2_A 489 GPKVNIIVDSQYVMGIVASQPTESESKIVNQIIEEM----IKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 555 (555)
T ss_dssp CSEEEEEESCHHHHHHHHTCCSEESCHHHHHHHHHH----HHCSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred CCeEEEEEehHHHHHHHhcccccccHHHHHHHHHHh----ccCCcEEEEEEECCCCChhHHHHHHHHHhhC
Confidence 678999999999999999987776777777555543 2356899999999999999999999999985
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=99.62 E-value=1.6e-15 Score=173.30 Aligned_cols=115 Identities=17% Similarity=0.067 Sum_probs=79.3
Q ss_pred ccEEEEEecccCCCCCCChHHHHHHHhcCCCCchhHHHHHHHhcCCeEEEEe---CCccceeeeccCCCCCCCCchHHHH
Q psy5607 246 ECTVALLLDGQKAFDMTWRFKIIETLKGFNINGYMLRYLCNFLYNRSFKVKC---NGSFSNSFPLQNGIVQGSSLSPVLF 322 (769)
Q Consensus 246 ~~~~~v~lD~~kAFD~V~~~~L~~~L~~~g~~~~~~~~i~~~l~~~~~~v~~---~~~~s~~~~~~~GvpQGs~LSPlLf 322 (769)
...+..++|+.+||-.|.-+ +.-.. .+.+.+ ++........-..+|||-.-||.+|
T Consensus 104 ~~~~~s~lDl~~~y~qi~l~------------~~d~~---------~taF~~p~~~~~t~~g~y~~~~mPfGl~nap~~f 162 (557)
T 2zd1_A 104 KKKSVTVLDVGDAYFSVPLD------------EDFRK---------YTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIF 162 (557)
T ss_dssp CCSEEEEEECTTGGGGSBCC------------TTTGG---------GGCEEECCGGGCSCCEEEEESBCCTTCTTHHHHH
T ss_pred CCCeeEEehhhhhhheeEcC------------ccccc---------eeEEEeecCCCCCCceEEEEEeeCCCCCCHHHHH
Confidence 46788999999999888532 11110 011111 1111112233567999999999999
Q ss_pred HHHHHHHHhhhc---CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCCCceE
Q psy5607 323 IIFMNDILDIIK---VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADPKKSA 388 (769)
Q Consensus 323 ~l~~~~l~~~l~---~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~~Kt~ 388 (769)
..+|+.++..+. +.+.+..|.||+.+++.. + .++....++.+.+.+.+.||.+| ++||+
T Consensus 163 q~~m~~il~~~~~~~~~~~v~~Y~DDIli~s~~-~----~~eh~~~l~~v~~~l~~~gl~l~--~~Kc~ 224 (557)
T 2zd1_A 163 QSSMTKILEPFAAQNPDIVIYQYMDDLYVGSDL-E----IGQHRTKIEELRQHLLRWGLTTP--DKKHQ 224 (557)
T ss_dssp HHHHHHHHHHHHHTCTTEEEEEETTEEEEEECS-C----HHHHHHHHHHHHHHHHTTTCCCC--CSCCS
T ss_pred HHHHHHHHHHhhhcCCCceEEEEecCEEEecCc-h----HHHHHHHHHHHHHHHHHcCCccC--hhhcC
Confidence 999999988754 345688999999998762 1 34445567777788889999999 99975
No 4
>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=99.40 E-value=2.4e-13 Score=126.82 Aligned_cols=73 Identities=25% Similarity=0.344 Sum_probs=55.3
Q ss_pred CCeEEEEcCcHHHHHHHHcc---------CcCCCcchH-HHHHHHHHHHhcCCceEEEEEecCCCCCccchhhhhhhhCc
Q psy5607 642 HSKFLLVSDSMSAIQAIANI---------CSSYKNSLT-SKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAKNP 711 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~~---------~~~~~~~~~-~~i~~~~~~~~~~~~~v~~~wvp~H~gi~gNe~aD~~Ak~a 711 (769)
..++.|+|||+|++++|..+ ....|.++. .++++.+.++..+...|.|.|||||+|++|||+||+||++|
T Consensus 65 ~~~v~i~tDS~~v~~~i~~w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LA~~a 144 (150)
T 3qio_A 65 GLEVNIVTDSQYALGIITQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 144 (150)
T ss_dssp CSEEEEEESCHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHTTCSEEEEEECCTTSCCHHHHHHHHHHHTT
T ss_pred CCcEEEEeCcHHHHHHHHHHHHHHhhcCcCcCcCcccccHHHHHHHHHHHhhcCceEEEEccCcCCChhHHHHHHHHHHH
Confidence 57899999999999999875 223344443 46666665555677899999999999999999999999999
Q ss_pred CCC
Q psy5607 712 CTS 714 (769)
Q Consensus 712 ~~~ 714 (769)
+..
T Consensus 145 ~~~ 147 (150)
T 3qio_A 145 IRK 147 (150)
T ss_dssp TSC
T ss_pred HHH
Confidence 853
No 5
>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=99.28 E-value=1.5e-12 Score=123.04 Aligned_cols=71 Identities=21% Similarity=0.246 Sum_probs=56.9
Q ss_pred CCeEEEEcCcHHHHHHHHccCcCCCcchH-HHHHHHHHHHhcCCceEEEEEecCCCC-----CccchhhhhhhhCcCCC
Q psy5607 642 HSKFLLVSDSMSAIQAIANICSSYKNSLT-SKIYSAWMDLKSGGKEVTLMWCPSHCG-----ISGNEAVDMAAKNPCTS 714 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~~~~~~~~~~~-~~i~~~~~~~~~~~~~v~~~wvp~H~g-----i~gNe~aD~~Ak~a~~~ 714 (769)
..++.|+|||+|++++| |....|+++. .++++.+......+..|+|.|||||+| ++|||+||+|||+|+..
T Consensus 80 ~~~v~I~tDS~~vi~~i--w~~~~g~~v~n~dl~~~l~~~l~~~~~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~aa~~ 156 (165)
T 3p1g_A 80 GKKLNVYTDSRYAFATA--HVHSEGREIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRMADQAAREAAMK 156 (165)
T ss_dssp TSEEEEEECCHHHHHHH--HSCCCSCCCSSHHHHHHHHHHTTSBSEEEEEECCSSCCSCSHHHHHHHHHHHHHHHHHHH
T ss_pred CceEEEEEchHHHHhhh--hcccCCCcccCHHHHHHHHHHHhcCCceEEEEecCCCCCCcCcchHHHHHHHHHHHHHhc
Confidence 67899999999999999 4445556554 455555533334678999999999999 99999999999999865
No 6
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=99.27 E-value=3.1e-12 Score=120.78 Aligned_cols=72 Identities=21% Similarity=0.308 Sum_probs=58.6
Q ss_pred CCeEEEEcCcHHHHHHHHc---------cCcCCCcchH-HHHHHHHHHHhcCCceEEEEEecCCCCCccchhhhhhhhCc
Q psy5607 642 HSKFLLVSDSMSAIQAIAN---------ICSSYKNSLT-SKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAKNP 711 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~---------~~~~~~~~~~-~~i~~~~~~~~~~~~~v~~~wvp~H~gi~gNe~aD~~Ak~a 711 (769)
..++.|+|||++++++|.. +..+.|+++. .++++.+.++.. +..|.|.|||||+|++|||.||+|||+|
T Consensus 64 ~~~v~I~tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~-~~~v~~~wV~gH~g~~~Ne~AD~LAk~a 142 (158)
T 2e4l_A 64 PCKIILTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQ-LHQIDWRWVKGHAGHAENERCDQLARAA 142 (158)
T ss_dssp CCEEEEEECCHHHHHHHHTHHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHT-TSEEEEEECCTTCCCHHHHHHHHHHHHH
T ss_pred CCeEEEEeCHHHHHHHHHHHHHHHHHccccccCCCcccCHHHHHHHHHHHc-cCcEEEEEccCCCCchhHHHHHHHHHHH
Confidence 4789999999999999987 3444455544 466677776654 4689999999999999999999999999
Q ss_pred CCC
Q psy5607 712 CTS 714 (769)
Q Consensus 712 ~~~ 714 (769)
+..
T Consensus 143 ~~~ 145 (158)
T 2e4l_A 143 AEA 145 (158)
T ss_dssp HHS
T ss_pred HHh
Confidence 864
No 7
>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=99.27 E-value=3.5e-12 Score=120.01 Aligned_cols=72 Identities=19% Similarity=0.312 Sum_probs=59.0
Q ss_pred CCeEEEEcCcHHHHHHHHc---------cCcCCCcchH-HHHHHHHHHHhcCCceEEEEEecCCCCCccchhhhhhhhCc
Q psy5607 642 HSKFLLVSDSMSAIQAIAN---------ICSSYKNSLT-SKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAKNP 711 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~---------~~~~~~~~~~-~~i~~~~~~~~~~~~~v~~~wvp~H~gi~gNe~aD~~Ak~a 711 (769)
..++.|+|||++++++|.. +..++|+++. .++++.+.++.. ...|.|.|||||+|++|||.||+|||+|
T Consensus 62 ~~~v~I~tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~-~~~v~~~wV~gH~g~~~Ne~AD~LA~~a 140 (155)
T 1jl1_A 62 HAEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALG-QHQIKWEWVKGHAGHPENERADELARAA 140 (155)
T ss_dssp CCEEEEEECCHHHHHHHHTTHHHHHHTTTBCTTSCBCTTHHHHHHHHHHTT-TCEEEEEECCSSTTCHHHHHHHHHHHHH
T ss_pred CCcEEEEeCHHHHHHHHHHHHHHHhhcccccccCCccCCHHHHHHHHHHHc-cCceEEEEcCCCCCCHHHHHHHHHHHHH
Confidence 4789999999999999986 3444555554 467777777654 4689999999999999999999999999
Q ss_pred CCC
Q psy5607 712 CTS 714 (769)
Q Consensus 712 ~~~ 714 (769)
+..
T Consensus 141 ~~~ 143 (155)
T 1jl1_A 141 AMN 143 (155)
T ss_dssp HHS
T ss_pred Hhc
Confidence 965
No 8
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=99.26 E-value=4.1e-12 Score=119.63 Aligned_cols=71 Identities=28% Similarity=0.415 Sum_probs=57.3
Q ss_pred CCeEEEEcCcHHHHHHHHcc---------CcCCCcchH-HHHHHHHHHHhcCCceEEEEEecCCCCCccchhhhhhhhCc
Q psy5607 642 HSKFLLVSDSMSAIQAIANI---------CSSYKNSLT-SKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAKNP 711 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~~---------~~~~~~~~~-~~i~~~~~~~~~~~~~v~~~wvp~H~gi~gNe~aD~~Ak~a 711 (769)
..+++|+|||++++++|..+ +..+|.++. .++++.+.++.. +..|.|.|||||+|++|||.||+|||+|
T Consensus 70 ~~~v~i~tDS~~vi~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~-~~~v~~~~V~~H~g~~~N~~AD~LA~~a 148 (154)
T 2qkb_A 70 INKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQ-GMDIQWMHVPGHSGFIGNEEADRLAREG 148 (154)
T ss_dssp CCEEEEEESCHHHHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHT-TCEEEEEECCTTSSCHHHHHHHHHHHHH
T ss_pred CceEEEEECcHHHHhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHc-CCceEEEEccCCCCCHhHHHHHHHHHHH
Confidence 57899999999999999863 334444443 466776666654 5679999999999999999999999999
Q ss_pred CC
Q psy5607 712 CT 713 (769)
Q Consensus 712 ~~ 713 (769)
+.
T Consensus 149 ~~ 150 (154)
T 2qkb_A 149 AK 150 (154)
T ss_dssp HT
T ss_pred HH
Confidence 84
No 9
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=99.26 E-value=1.6e-12 Score=122.65 Aligned_cols=71 Identities=17% Similarity=0.202 Sum_probs=57.7
Q ss_pred CCeEEEEcCcHHHHHHHHc---------cCcCCCcchH-HHHHHHHHHHhcCCceEEEEEecCCCCC------ccchhhh
Q psy5607 642 HSKFLLVSDSMSAIQAIAN---------ICSSYKNSLT-SKIYSAWMDLKSGGKEVTLMWCPSHCGI------SGNEAVD 705 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~---------~~~~~~~~~~-~~i~~~~~~~~~~~~~v~~~wvp~H~gi------~gNe~aD 705 (769)
+.+|.|+|||+|++++|.. |+..+|+++. .++++.+.++......|+|.|||||+|+ +|||+||
T Consensus 75 ~~~v~I~TDS~Yvi~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~~v~~~~VkgH~g~~~~~~~~gNe~AD 154 (165)
T 2lsn_A 75 PGPVLVITDSFYVAESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKPDITIQHEKGHQPTNTSIHTEGNALAD 154 (165)
T ss_dssp SSCEEEEESCHHHHHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCTTCEEEECCSSSCSSSCHHHHHHHHHH
T ss_pred CCeEEEEeChHHHHhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCCCEEEEEEeCCCCccCCCCChHHHHHH
Confidence 4579999999999999974 3455566654 5777777776666668999999999995 5899999
Q ss_pred hhhhCcC
Q psy5607 706 MAAKNPC 712 (769)
Q Consensus 706 ~~Ak~a~ 712 (769)
+||++|+
T Consensus 155 ~LA~~gA 161 (165)
T 2lsn_A 155 KLATQGS 161 (165)
T ss_dssp HHHHHHH
T ss_pred HHHHHhh
Confidence 9999987
No 10
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=99.26 E-value=2.6e-12 Score=119.93 Aligned_cols=71 Identities=18% Similarity=0.186 Sum_probs=52.9
Q ss_pred CCeEEEEcCcHHHHHHHHc-c---------CcCCCcchH-HHHHHHHHHHhcCCceEEEEEecCCCCCccchhhhhhhhC
Q psy5607 642 HSKFLLVSDSMSAIQAIAN-I---------CSSYKNSLT-SKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAKN 710 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~-~---------~~~~~~~~~-~~i~~~~~~~~~~~~~v~~~wvp~H~gi~gNe~aD~~Ak~ 710 (769)
..+++|+|||+|++++|.. | +.++|.++. .++++.+.++... ..|.|.|||||+|++|||.||+|||+
T Consensus 62 ~~~v~I~tDS~~vi~~i~~~w~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~~~-~~v~~~~V~gH~g~~~N~~AD~LA~~ 140 (146)
T 3h08_A 62 PARVQLYSDSAYLVNAMNEGWLKRWVKNGWKTAAKKPVENIDLWQEILKLTTL-HRVTFHKVKGHSDNPYNSRADELARL 140 (146)
T ss_dssp CCEEEEEESCHHHHHHHHSSHHHHHHHTTCC----CCCTTHHHHHHHHHHHHH-SEEEEEECCC-CCSHHHHHHHHHHHH
T ss_pred cCcEEEEeChHHHHHHHHHHHHHHHHHCCCccCCCCCcCCHHHHHHHHHHHhh-CceEEEEcCCcCCcHhHHHHHHHHHH
Confidence 5789999999999999987 2 223343332 4566666555443 47999999999999999999999999
Q ss_pred cCC
Q psy5607 711 PCT 713 (769)
Q Consensus 711 a~~ 713 (769)
|+.
T Consensus 141 a~~ 143 (146)
T 3h08_A 141 AIK 143 (146)
T ss_dssp HHH
T ss_pred HHH
Confidence 974
No 11
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=99.23 E-value=3.9e-12 Score=120.99 Aligned_cols=72 Identities=19% Similarity=0.229 Sum_probs=59.9
Q ss_pred CCeEEEEcCcHHHHHHHHc----------cCcCCCcchH-HHHHHHHHHHhcCCceEEEEEecCCCCCccchhhhhhhhC
Q psy5607 642 HSKFLLVSDSMSAIQAIAN----------ICSSYKNSLT-SKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAKN 710 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~----------~~~~~~~~~~-~~i~~~~~~~~~~~~~v~~~wvp~H~gi~gNe~aD~~Ak~ 710 (769)
..+|.|+|||+|++++|.+ ++.++|+++. .++++.+.++... ..|.|.|||||+|++|||.||+|||+
T Consensus 66 ~~~v~I~tDS~~vi~~i~~~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~~-~~v~~~wV~gH~g~~~Ne~AD~LAk~ 144 (166)
T 1ril_A 66 PCEVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAP-HRVRFHFVKGHTGHPENERVDREARR 144 (166)
T ss_dssp CCEEEEECCCHHHHHHHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTT-SEEECCCCCGGGSCTHHHHHHHHHHH
T ss_pred CCeEEEEeChHHHHHHHhhhHHHHHHhcccccccCCccCcHHHHHHHHHHHhc-CeEEEEEeeCCCCchhHHHHHHHHHH
Confidence 4589999999999999998 4555565554 4677777777654 58999999999999999999999999
Q ss_pred cCCC
Q psy5607 711 PCTS 714 (769)
Q Consensus 711 a~~~ 714 (769)
|+..
T Consensus 145 a~~~ 148 (166)
T 1ril_A 145 QAQS 148 (166)
T ss_dssp HHTS
T ss_pred HHHH
Confidence 9866
No 12
>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=98.89 E-value=5.2e-11 Score=110.79 Aligned_cols=68 Identities=16% Similarity=0.085 Sum_probs=50.1
Q ss_pred eEEEEcCcHHHHHHHHccCcCCCcchHHHHHHHHHHHhcCCceEEEEEecCCCCCccchhhhhhhhCcCCCC
Q psy5607 644 KFLLVSDSMSAIQAIANICSSYKNSLTSKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAKNPCTST 715 (769)
Q Consensus 644 ~~~i~tDs~~~~~~i~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~~wvp~H~gi~gNe~aD~~Ak~a~~~~ 715 (769)
+|.|+|||+.+.+-+.+.+..+. .......+.+.++.. .|.|.|||||+|++|||+||+|||+|+...
T Consensus 71 ~v~I~tDS~~i~~w~~~~w~~~~-~~~~~~~~l~~~l~~---~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~~ 138 (147)
T 2kq2_A 71 KIRILHDYAGIAFWATGEWKAKN-EFTQAYAKLMNQYRG---IYSFEKVKAHSGNEFNDYVDMKAKSALGIR 138 (147)
T ss_dssp CCCBSSCCSTHHHHTTSSSSCCH-HHHHHHHCGGGGGST---TCCBCCCCCCCCCHHHHHHHHHHHHHHTCC
T ss_pred eEEEEECcHHHHHHHhCCCccCC-cchHHHHHHHHHhcC---CeeEEEecCcCCCcchHHHHHHHHHHHhcc
Confidence 89999999977766655443321 122344444444533 799999999999999999999999999763
No 13
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=98.55 E-value=5e-08 Score=89.89 Aligned_cols=65 Identities=9% Similarity=0.144 Sum_probs=50.4
Q ss_pred eEEEEcCcHHHHHHHHccCcCCCcchHHHHHHHHHHH-hcCCceEEEEEecCCCCCccchhhhhhhhCcCC
Q psy5607 644 KFLLVSDSMSAIQAIANICSSYKNSLTSKIYSAWMDL-KSGGKEVTLMWCPSHCGISGNEAVDMAAKNPCT 713 (769)
Q Consensus 644 ~~~i~tDs~~~~~~i~~~~~~~~~~~~~~i~~~~~~~-~~~~~~v~~~wvp~H~gi~gNe~aD~~Ak~a~~ 713 (769)
+++|+|||+++++.++++++.....+. .+++.+.++ ......|+|.|||+ +|||.||+|||+|+.
T Consensus 71 ~v~i~tDS~~vi~~i~~~~~~~~~~l~-~~~~~i~~l~~~~~~~v~~~~V~~----~~N~~AD~LA~~a~~ 136 (140)
T 3u3g_D 71 EVEVRMDSELIVRQMQGVYKVKEPTLK-EKFAKIAHIKMERVPNLVFVHIPR----EKNARADELVNEAID 136 (140)
T ss_dssp EEEEEESCHHHHHHHTTSSCCCCGGGH-HHHHHHHHHHHHHCTTCEEEECCG----GGGHHHHHHHHHHHH
T ss_pred eEEEEeChHHHHHHhCCCcccCCHHHH-HHHHHHHHHhhcCCCcEEEEEcCc----hhhHHHHHHHHHHHH
Confidence 899999999999999987654334444 344445555 44445899999994 899999999999874
No 14
>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=98.52 E-value=1e-07 Score=87.94 Aligned_cols=68 Identities=16% Similarity=0.206 Sum_probs=53.8
Q ss_pred CCeEEEEcCcHHHHHHHHccCcCCCcchHHHHHHHHHHHhcCCceEEEEEecCCCCCccchhhhhhhhCcCCC
Q psy5607 642 HSKFLLVSDSMSAIQAIANICSSYKNSLTSKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAKNPCTS 714 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~~wvp~H~gi~gNe~aD~~Ak~a~~~ 714 (769)
..+++|+|||+++++.+++.+..... ....+++.+.++..+...|+|.|||+ +|||.||+|||+|+..
T Consensus 66 ~~~v~i~tDS~~vv~~i~~~~~~~~~-~l~~~~~~i~~l~~~~~~v~~~~V~~----~~N~~AD~LA~~a~~~ 133 (141)
T 3hst_B 66 ATEAAVLMDSKLVVEQMSGRWKVKHP-DLLKLYVQAQALASQFRRINYEWVPR----ARNTYADRLANDAMDA 133 (141)
T ss_dssp CSEEEEEESCHHHHHHHTTSSCCCSH-HHHHHHHHHHHHHTTSSEEEEEECCG----GGCHHHHHHHHHHHHH
T ss_pred CceEEEEeChHHHHHHHhCCcccCCH-HHHHHHHHHHHHHhcCCeEEEEEcCC----cccHHHHHHHHHHHHH
Confidence 57899999999999999985443222 33445555667777778999999995 8999999999999854
No 15
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=98.44 E-value=7.9e-08 Score=89.62 Aligned_cols=67 Identities=19% Similarity=0.258 Sum_probs=51.3
Q ss_pred CCeEEEEcCcHHHHHHHHccCcCCCcchHHHHHHHHHHHhcCCceEEEEEecCCCCCccchhhhhhhhCcCCC
Q psy5607 642 HSKFLLVSDSMSAIQAIANICSSYKNSLTSKIYSAWMDLKSGGKEVTLMWCPSHCGISGNEAVDMAAKNPCTS 714 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~~wvp~H~gi~gNe~aD~~Ak~a~~~ 714 (769)
..++.|+|||+++++.+++++..+. .....+++.+.++..+. .|.|.|||+ ++||.||+|||+|+..
T Consensus 68 ~~~v~i~tDS~~vi~~i~~~w~~~~-~~~~~l~~~i~~l~~~~-~v~~~~V~~----~~N~~AD~LA~~a~~~ 134 (149)
T 2ehg_A 68 ISSPIIKGDSQLVIKQMNGEYKVKA-KRIIPLYEKAIELKKKL-NATLIWVPR----EENKEADRLSRVAYEL 134 (149)
T ss_dssp CCSCEEEESCHHHHHHHTTSSCCCC-TTHHHHHHHHHHHHHHH-TCEEEECCG----GGCHHHHHHHHHHHHH
T ss_pred CCEEEEEeChHHHHHHHhCccccCC-HHHHHHHHHHHHHHhcC-CEEEEEcCC----cccHHHHHHHHHHHHh
Confidence 4689999999999999999755432 23445555555554433 599999999 5999999999999854
No 16
>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=98.28 E-value=1.7e-06 Score=88.33 Aligned_cols=131 Identities=21% Similarity=0.174 Sum_probs=94.5
Q ss_pred ccEEEEEecccCCCCCCChHHHHHHHhcCCCCchhHHHHHHHhcCCeEEEEeCCc--cceeeeccCCCCCCCCchHHHHH
Q psy5607 246 ECTVALLLDGQKAFDMTWRFKIIETLKGFNINGYMLRYLCNFLYNRSFKVKCNGS--FSNSFPLQNGIVQGSSLSPVLFI 323 (769)
Q Consensus 246 ~~~~~v~lD~~kAFD~V~~~~L~~~L~~~g~~~~~~~~i~~~l~~~~~~v~~~~~--~s~~~~~~~GvpQGs~LSPlLf~ 323 (769)
...+..++|+++||..|..+.--..+.. +.+.+. .......-.-+|||-.-||.+|.
T Consensus 119 ~~~~~s~lDl~~~y~qI~l~~~d~~~ta---------------------F~~~~~~~t~~g~y~~~~mPfGl~~sP~~fq 177 (255)
T 3fsi_A 119 SHQWYTVLDLKDAFFCLRLHPTSQPLFA---------------------FEWRDPEMGISGQLTWTRLPQGFKNSPTLFD 177 (255)
T ss_dssp TCCEEEEEEBTTCGGGSBBCTTTGGGGC---------------------EECCCSSSCCSSEEEESBCCTTCTTHHHHHH
T ss_pred CCcEEEEccccceeEeeecCccccCceE---------------------EEecCCCCCccceEEEEEeCCCCCCcHHHHH
Confidence 4568899999999999864321111111 111110 00111223458999999999999
Q ss_pred HHHHHHHhhhc---CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCCCceEEEEeecCCCCCC
Q psy5607 324 IFMNDILDIIK---VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADPKKSACILFSRARNPTF 400 (769)
Q Consensus 324 l~~~~l~~~l~---~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~~Kt~~i~~~~~~~~~~ 400 (769)
.+|+.+...+. .......|+||+.+++.. .+.....++.+.+.++++|+.+| ++||+...
T Consensus 178 ~~m~~il~~~~~~~~~~~v~~Y~DDili~s~~------~eeh~~~l~~v~~~L~~~gl~l~--~~Kc~f~~--------- 240 (255)
T 3fsi_A 178 EALHRDLADFRIQHPDLILLQYVDDLLLAATS------ELDCQQGTRALLQTLGNLGYRAS--AKKAQICQ--------- 240 (255)
T ss_dssp HHHHHHTHHHHHHCTTCEEEEETTEEEEEESS------HHHHHHHHHHHHHHHHHHTCCBC--TTTCEEEE---------
T ss_pred HHHHHHHHHHHHhCcCcEEEEEcCCeEEEeCC------HHHHHHHHHHHHHHHHHCCeEEC--HHHhcccC---------
Confidence 99999988764 456788999999999874 56666778889999999999999 99998643
Q ss_pred CCeecCCCCcccccceeEeeeEecCcC
Q psy5607 401 PPLFYNGSELKFESNIKFLGLYWDAKM 427 (769)
Q Consensus 401 ~~i~i~~~~i~~~~~~kyLGv~id~~l 427 (769)
..++|||..++.+.
T Consensus 241 -------------~~~~fLG~~i~~~g 254 (255)
T 3fsi_A 241 -------------KQVKYLGYLLKEGQ 254 (255)
T ss_dssp -------------SEEEETTEEEETTB
T ss_pred -------------CceEEEEEEEeCCc
Confidence 35899999998653
No 17
>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=97.58 E-value=2.9e-05 Score=85.18 Aligned_cols=116 Identities=17% Similarity=0.064 Sum_probs=71.3
Q ss_pred ccEEEEEecccCCCCCCChHHHHHHHhcCCCCchhHHHHHHHhcCCeEEEEeC---CccceeeeccCCCCCCCCchHHHH
Q psy5607 246 ECTVALLLDGQKAFDMTWRFKIIETLKGFNINGYMLRYLCNFLYNRSFKVKCN---GSFSNSFPLQNGIVQGSSLSPVLF 322 (769)
Q Consensus 246 ~~~~~v~lD~~kAFD~V~~~~L~~~L~~~g~~~~~~~~i~~~l~~~~~~v~~~---~~~s~~~~~~~GvpQGs~LSPlLf 322 (769)
...+..++|+.+||-.|.-+ +.... .+.+.+. +........-..+|||-.-||.+|
T Consensus 102 ~~~~~s~lDl~~gy~qI~l~------------~~d~~---------~taF~~p~~~~~t~~g~y~~~vmPfGl~nsPa~f 160 (428)
T 2zd1_B 102 KKKSVTVLDVGDAYFSVPLD------------EDFRK---------YTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIF 160 (428)
T ss_dssp GSSEEEEEECGGGGGGSBCC------------TTTGG---------GGCEEECCGGGCSCCEEEEESBCCTTCTHHHHHH
T ss_pred ccceEEEeeccCceeeEEcC------------ccccc---------eeEEEeecCCCCCCCceEEEEeeCCCCcchHHHH
Confidence 34688999999999888532 11100 0111111 111111233467999999999999
Q ss_pred HHHHHHHHhhhc---CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCCCceEE
Q psy5607 323 IIFMNDILDIIK---VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADPKKSAC 389 (769)
Q Consensus 323 ~l~~~~l~~~l~---~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~~Kt~~ 389 (769)
..+|+.++..+. .++.+..|+||+.+++.+. .++....++.+.+-+.+.||.+| ++||+.
T Consensus 161 q~~m~~il~~~~~~~~~~~v~vY~DDIlI~s~~~-----~~eh~~~l~~v~~~l~~~gL~l~--~~Kc~~ 223 (428)
T 2zd1_B 161 QSSMTKILEPFKKQNPDIVIYQYMDDLYVGSDLE-----IGQHRTKIEELRQHLLRWGLTTP--DKKHQK 223 (428)
T ss_dssp HHHHHHHHHHHHHHCTTCEEEEETTEEEEEECSC-----HHHHHHHHHHHHHHHHHHHC-----------
T ss_pred HHHHHHHHHHHhhcCCCceEEEEecceEEecCCc-----HHHHHHHHHHHHHHHHHhCCccC--hhHccc
Confidence 999999988754 3456889999999988631 34445566677777788999999 999863
No 18
>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=97.29 E-value=0.0004 Score=77.00 Aligned_cols=130 Identities=21% Similarity=0.174 Sum_probs=90.3
Q ss_pred ccEEEEEecccCCCCCCChHHHHHHHhcCCCCchhHHHHHHHhcCCeEEEEeCC--ccceeeeccCCCCCCCCchHHHHH
Q psy5607 246 ECTVALLLDGQKAFDMTWRFKIIETLKGFNINGYMLRYLCNFLYNRSFKVKCNG--SFSNSFPLQNGIVQGSSLSPVLFI 323 (769)
Q Consensus 246 ~~~~~v~lD~~kAFD~V~~~~L~~~L~~~g~~~~~~~~i~~~l~~~~~~v~~~~--~~s~~~~~~~GvpQGs~LSPlLf~ 323 (769)
...+..++|+.+||-.|.-+ +.... .+.+.+.+ ........-.-+|||-.-||.+|.
T Consensus 123 ~~~~~s~lDl~~~y~qi~l~------------~~d~~---------~taF~~~~p~~~~~g~y~~~~mpfGl~naP~~fq 181 (455)
T 1rw3_A 123 SHQWYTVLDLKDAFFCLRLH------------PTSQP---------LFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLFD 181 (455)
T ss_dssp TCCEEEEEEBTTGGGGSBBC------------STTSG---------GGCEEECTTSSSCCEEEEESBCCSSCTTHHHHHH
T ss_pred CCceEEecchhhhheeEecc------------ccccc---------eeEEeecCCCCCCCceEEEEecCCCCCCcHHHHH
Confidence 45678999999999887532 11100 01111110 000112234568999999999999
Q ss_pred HHHHHHHhhhc---CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCCCceEEEEeecCCCCCC
Q psy5607 324 IFMNDILDIIK---VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADPKKSACILFSRARNPTF 400 (769)
Q Consensus 324 l~~~~l~~~l~---~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~~Kt~~i~~~~~~~~~~ 400 (769)
-+|+.++..+. .......|+||+.+.+.+ .++....++.+.+-+.+.||.+| ++||+..
T Consensus 182 ~~m~~~l~~~~~~~~~~~v~~YvDDili~s~~------~~e~~~~l~~v~~~l~~~gl~l~--~~K~~f~---------- 243 (455)
T 1rw3_A 182 EALHRDLADFRIQHPDLILLQYVDDLLLAATS------ELDCQQGTRALLQTLGNLGYRAS--AKKAQIC---------- 243 (455)
T ss_dssp HHHHHHHHHHHHTCTTCEEEEETTEEEEEESS------HHHHHHHHHHHHHHHHHHTCCBC--GGGCCCS----------
T ss_pred HHHHHHHHHhhhhCCCceEEEEcCCEEEecCC------HHHHHHHHHHHHHHHHHcCCccC--ccchhhh----------
Confidence 99999988763 456788999999998774 45555667777788889999999 9998742
Q ss_pred CCeecCCCCcccccceeEeeeEecCc
Q psy5607 401 PPLFYNGSELKFESNIKFLGLYWDAK 426 (769)
Q Consensus 401 ~~i~i~~~~i~~~~~~kyLGv~id~~ 426 (769)
...++|||..++.+
T Consensus 244 ------------~~~~~fLG~~i~~~ 257 (455)
T 1rw3_A 244 ------------QKQVKYLGYLLKEG 257 (455)
T ss_dssp ------------BSSCEETTEEESSS
T ss_pred ------------ccceeEeeeeccCC
Confidence 23579999999865
No 19
>1xr5_A Genome polyprotein; RNA-dependent RNA polymerase, transferase; 2.80A {Human rhinovirus 14} SCOP: e.8.1.4
Probab=97.22 E-value=0.00039 Score=76.94 Aligned_cols=188 Identities=12% Similarity=0.096 Sum_probs=123.1
Q ss_pred cEEEEeecCCCCCCCCCCCcccccCCchhHHHHHHHHhhhhHHHHhcC-CCCCCcccccCCCChhhHHHHHHHHHHHhhc
Q psy5607 165 SLILPLLKPGKDRLVPSNYRPISLLNCSGKILEKMVNKRLFWVLENRG-LINPFQSGGRFRRSTIDNLVFLEKEAAQGLA 243 (769)
Q Consensus 165 a~i~~i~K~~kd~~~~~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~-~l~~~Q~Gfr~~rs~~d~i~~l~~~i~~~~~ 243 (769)
..+.++.|-. .+.-|+|+..+....+.++.+...+...+..+. ...+.+.|+.|. +-.+.+. ..+.
T Consensus 160 dEl~~~~Kv~-----~~KtR~i~~~p~~~~i~~r~~~~~~~~~~~~~~~~~~p~~vG~~p~-~~w~~l~-------~~l~ 226 (466)
T 1xr5_A 160 DELRSVDKVR-----LGKSRLIEASSLNDSVNMRMKLGNLYKAFHQNPGVLTGSAVGCDPD-VFWSVIP-------CLMD 226 (466)
T ss_dssp CCEECHHHHH-----TTCCCEEEECCHHHHHHHTTTSHHHHHHHHHCTBTTTTBCSSCCHH-HHGGGHH-------HHCC
T ss_pred CCcCCHHhcc-----CCCCcEEEECCHHHHHHHHHHHHHHHHHHHHccCCccCceeccCCc-chHHHHH-------Hhcc
Confidence 3444555532 246899999999999999998877766665543 457889999885 2222222 1122
Q ss_pred ccccEEEEEecccCCCCCCChHHHH---HHHhcCCCCchhHHHHHHHhcCCeEEEEeCCccceeeeccCCCCCCCCchHH
Q psy5607 244 KKECTVALLLDGQKAFDMTWRFKII---ETLKGFNINGYMLRYLCNFLYNRSFKVKCNGSFSNSFPLQNGIVQGSSLSPV 320 (769)
Q Consensus 244 ~~~~~~~v~lD~~kAFD~V~~~~L~---~~L~~~g~~~~~~~~i~~~l~~~~~~v~~~~~~s~~~~~~~GvpQGs~LSPl 320 (769)
+ .++.+|+++...++++..+. +.|..+++++. .++..++. + .+..+| ..+...+|+|+|++..-+
T Consensus 227 -g---~~~~~D~S~FDss~~~~~~~~i~~il~~~~~~~~--~l~~~l~~-~--~~~~~g---~v~~~~~G~PSG~p~Tsi 294 (466)
T 1xr5_A 227 -G---HLMAFDYSNFDASLSPVWFVCLEKVLTKLGFAGS--SLIQSICN-T--HHIFRD---EIYVVEGGMPSGCSGTSI 294 (466)
T ss_dssp -S---CCEEEEESSTGGGCCHHHHHHHHHHHHHHTCTTT--THHHHHHS-E--EEECSS---SEEEEESCCCTTSSSHHH
T ss_pred -C---CEEeceeCCCCCcCCHHHHHHHHHHHHHcCCChH--HHHHHhhC-c--EEEECC---EEEEEeCcCCCCCCchhc
Confidence 2 26679999999999987554 56677777774 45555553 2 233443 467889999999766544
Q ss_pred ----HHHHHHHHHHhhh----c-CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCC-CceEE
Q psy5607 321 ----LFIIFMNDILDII----K-VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADP-KKSAC 389 (769)
Q Consensus 321 ----Lf~l~~~~l~~~l----~-~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~-~Kt~~ 389 (769)
+-++++....... . ..+..+.|.||.++.....- ..+.+.+.++..||.++ + +||+.
T Consensus 295 ~NSi~n~i~i~~a~~~~~~~~~~~~~~~~~yGDD~iis~~~~~----------~~~~l~~~~~~~Gl~~t--~~dKt~~ 361 (466)
T 1xr5_A 295 FNSMINNIIIRTLILDAYKGIDLDKLKILAYGDDLIVSYPYEL----------DPQVLATLGKNYGLTIT--PPDKSET 361 (466)
T ss_dssp HHHHHHHHHHHHHHHHHCSSCCGGGCEEEEETTEEEEECSSCC----------CHHHHHHHHTTTTCCEE--CCSSCSS
T ss_pred hhhHHHHHHHHHHHHHHhcCCCccceEEEEECCCCCceeCCCC----------CHHHHHHHHHHcCCccC--hhhhcCC
Confidence 4444444433221 1 25678899999999765421 13555566778999999 7 88873
No 20
>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=97.19 E-value=0.00077 Score=74.41 Aligned_cols=189 Identities=13% Similarity=0.104 Sum_probs=125.9
Q ss_pred EEEEeecCCCCCCCCCCCcccccCCchhHHHHHHHHhhhhHHHHhcC-CCCCCcccccCCCChhhHHHHHHHHHHHhhcc
Q psy5607 166 LILPLLKPGKDRLVPSNYRPISLLNCSGKILEKMVNKRLFWVLENRG-LINPFQSGGRFRRSTIDNLVFLEKEAAQGLAK 244 (769)
Q Consensus 166 ~i~~i~K~~kd~~~~~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~-~l~~~Q~Gfr~~rs~~d~i~~l~~~i~~~~~~ 244 (769)
...++.|-. .+.-|.|+..+....+.++.+...+...+..+. ...+.+.|+.|.+ -.+.+. ....
T Consensus 161 El~~~~Kv~-----~gKtR~~~~~p~~~~l~~r~~~~~~~~~~~~~~~~~~~~~VG~np~~-~w~~l~-------~~l~- 226 (461)
T 1ra6_A 161 ELRSKTKVE-----QGKSRLIEASSLNDSVAMRMAFGNLYAAFHKNPGVITGSAVGXDPDL-FWSKIP-------VLME- 226 (461)
T ss_dssp CEECHHHHH-----TTCCCEEEECCHHHHHHHHHHHHHHHHHHHHCTBTTTTBCTTCCHHH-HTTTHH-------HHSC-
T ss_pred cccCHHHhc-----CCCcceEEeCCHHHHHHHHHHHHHHHHHHHHcCCCCcCceeCCCccc-cHHHHH-------HhcC-
Confidence 445555632 246899999999999999998877766665544 4468899988852 122222 1122
Q ss_pred cccEEEEEecccCCCCCCChHHHH---HHHhcCCCCchhHHHHHHHhcCCeEEEEeCCccceeeeccCCCCCCCCchHHH
Q psy5607 245 KECTVALLLDGQKAFDMTWRFKII---ETLKGFNINGYMLRYLCNFLYNRSFKVKCNGSFSNSFPLQNGIVQGSSLSPVL 321 (769)
Q Consensus 245 ~~~~~~v~lD~~kAFD~V~~~~L~---~~L~~~g~~~~~~~~i~~~l~~~~~~v~~~~~~s~~~~~~~GvpQGs~LSPlL 321 (769)
+ .++.+|+++...++++..+. +.|..+++++. ..++..++. + .+..+| ..+.+.+|.|+|+|..-++
T Consensus 227 ~---~~~~~DyS~FDss~~~~~~~~~~~il~~~~~~~~-~~l~~~l~~-~--~~~~~g---~v~~~~~G~PSG~p~Tsv~ 296 (461)
T 1ra6_A 227 E---KLFAFDYTGYDASLSPAWFEALKMVLEKIGFGDR-VDYIDYLNH-S--HHLYKN---KTYXVKGGMPSGXSGTSIF 296 (461)
T ss_dssp S---EEECCEESSHHHHCCHHHHHHHHHHHHHTTTGGG-THHHHHHHE-E--EEEETT---EEEEEESCCCTBSTTHHHH
T ss_pred C---CEEeceeCCCccchhHHHHHHHHHHHHHhCCCcH-HHHHHhhcC-e--EEEECC---EEEEEEeecCCCCCeeeee
Confidence 2 36779999888899886444 77888888876 677777665 3 234455 4678899999997765443
Q ss_pred ----HHHHHHHHHhhhc-----CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCC-CceEEE
Q psy5607 322 ----FIIFMNDILDIIK-----VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADP-KKSACI 390 (769)
Q Consensus 322 ----f~l~~~~l~~~l~-----~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~-~Kt~~i 390 (769)
-++++.-...... ..+..+.|.||.++-....- ..+.+.+.++..||+++ + +||..+
T Consensus 297 NSl~n~i~~~~~~~~~~~~~~~~~~~~~~yGDD~i~~~~~~~----------~~~~l~~~~~~~Gl~~t--~~dKt~~~ 363 (461)
T 1ra6_A 297 NSMINNLIIRTLLLKTYKGIDLDHLKMIAYGDDVIASYPHEV----------DASLLAQSGKDYGLTMT--PADKSATF 363 (461)
T ss_dssp HHHHHHHHHHHHHHHHSTTCCGGGCEEEEETTEEEEEESSCC----------CHHHHHHHHHHTTCCEE--STTTCSSC
T ss_pred hHHHHHHHHHHHHHHcCCCCCCceEEEEecCCceEEEecccc----------CHHHHHHHHHHcCceec--ccccCCCC
Confidence 3333333222111 25678899999999876421 24466667778999998 6 687643
No 21
>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=96.75 E-value=0.032 Score=62.04 Aligned_cols=181 Identities=11% Similarity=0.005 Sum_probs=123.0
Q ss_pred CCCcccccCCchhHHHHHHHHhhhhHHHHhcCCCCCCcccccCCCChhhHHHHHHHHHHHhhcccccEEEEEecccCCCC
Q psy5607 181 SNYRPISLLNCSGKILEKMVNKRLFWVLENRGLINPFQSGGRFRRSTIDNLVFLEKEAAQGLAKKECTVALLLDGQKAFD 260 (769)
Q Consensus 181 ~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~~l~~~Q~Gfr~~rs~~d~i~~l~~~i~~~~~~~~~~~~v~lD~~kAFD 260 (769)
+.-|.|...+.-.-+.+|.+...+...+..+....+.+.|..+.. -. ..+...+.++ ..++-+|+++.-.
T Consensus 179 gKTR~~~~~pl~~~l~~R~~f~~f~~~~~~~~~~~~~aVG~np~~-~w-------~~l~~~L~~~--~~~~~~DyS~FDs 248 (515)
T 3uqs_A 179 IKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNE-DG-------PFIFARHANF--RYHMDADYTRWDS 248 (515)
T ss_dssp CCCCEEEECCHHHHHHHHHHHHHHHHHHHHTTTTSSBCTTCCHHH-HH-------HHHHHHHTTS--SEEECCCCSSTGG
T ss_pred CCceEEEECChHHHHHHHHHHHHHHHHHHhcCcCCCccccccCCC-CH-------HHHHHHhhcC--CeEEeceecCCcc
Confidence 568999999999999999998888888887666668888888752 11 1122222222 4678899998777
Q ss_pred CCChHH---HHHHHhcCCCCchhHHHHH-HHhcCCeEEEEeCCccceeeeccCCCCCCCCchHHHHHHH----HHHHHhh
Q psy5607 261 MTWRFK---IIETLKGFNINGYMLRYLC-NFLYNRSFKVKCNGSFSNSFPLQNGIVQGSSLSPVLFIIF----MNDILDI 332 (769)
Q Consensus 261 ~V~~~~---L~~~L~~~g~~~~~~~~i~-~~l~~~~~~v~~~~~~s~~~~~~~GvpQGs~LSPlLf~l~----~~~l~~~ 332 (769)
++++.. +.+.|.++..++.+..++. +++..+ .+..+| ..+.+..|.|.|+|..-++=.++ +.-....
T Consensus 249 sl~~~~~~a~~~il~~~~~~~~~~~~~~~~Ll~~s--~~~~~g---~v~~v~gG~PSG~p~Tsi~NSi~n~i~~~~a~~~ 323 (515)
T 3uqs_A 249 TQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPS--LLDVGD---YKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVE 323 (515)
T ss_dssp GCCHHHHHHHHHHHHHTSSSHHHHHHHHHHHHSCE--EEECSS---EEEEECSSCCCCSTHHHHHHHHHHHHHHHHHHHH
T ss_pred cccHHHHHHHHHHHHHhccCCHHHHHHHHHhhcCc--eEEECC---EEEEEcCCccCCCcceeeEchHHHHHHHHHHHHH
Confidence 887765 5677888887777766654 555432 233444 56788999999988765544442 2222111
Q ss_pred -hc-------CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCC-CceE
Q psy5607 333 -IK-------VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADP-KKSA 388 (769)
Q Consensus 333 -l~-------~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~-~Kt~ 388 (769)
.. ..+..+.|.||.++-+...- ..+.+.+.+++.||+++ + +||.
T Consensus 324 ~~g~~~~~f~~~~~~~~yGDD~i~sv~~~~----------~~~~l~~~~~~~Gl~~t--~~dKt~ 376 (515)
T 3uqs_A 324 VTRVDPDIVMQESEFSFYGDDEVVSTNLEL----------DMVKYTMALRRYGLLPT--RADKEE 376 (515)
T ss_dssp HHCCCHHHHHHTEEEEEETTEEEEEESSCC----------CHHHHHHHHHHTTCCCC--CTTCCS
T ss_pred hcCCCHHHhhhheEEEEeCCceEEEecccc----------CHHHHHHHHHHhCcEec--cccccC
Confidence 11 23556899999998766321 24567777888999999 6 7875
No 22
>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=94.29 E-value=0.0059 Score=55.48 Aligned_cols=63 Identities=14% Similarity=0.045 Sum_probs=43.9
Q ss_pred eEEEEcCcHHHHHHHHccCc-C-CCcc-hHHHHHHHHHHHhc--CCceEEEEEecCCCCCccchhhhh
Q psy5607 644 KFLLVSDSMSAIQAIANICS-S-YKNS-LTSKIYSAWMDLKS--GGKEVTLMWCPSHCGISGNEAVDM 706 (769)
Q Consensus 644 ~~~i~tDs~~~~~~i~~~~~-~-~~~~-~~~~i~~~~~~~~~--~~~~v~~~wvp~H~gi~gNe~aD~ 706 (769)
++.|+|||+++++.+++... . .+.+ ...++++++.++.. ..+.++...|+.|++..||+.||-
T Consensus 72 ~v~i~tDS~~vi~w~~~~~~k~~~~~~v~n~dLw~~l~~~~~w~~~~~~~~~~~kw~~~~~ge~pad~ 139 (142)
T 1zbf_A 72 RKPIYSNSQTAIKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADY 139 (142)
T ss_dssp CCCEEESCHHHHHHHHHTCCCCCCCCSTTTHHHHHHHHHHHHHHHHCCCCCCEEECCHHHHCSCTTCC
T ss_pred eEEEEEehHHHHHHHHcCCccCCCCCCcccHHHHHHHHHHHHHHhhCCCceeEEEeccCccCcCcccc
Confidence 89999999999999987642 2 1222 23455555443311 234577888999999999999994
No 23
>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=90.82 E-value=5.3 Score=44.30 Aligned_cols=183 Identities=15% Similarity=0.080 Sum_probs=105.1
Q ss_pred CCCcccccCCchhHHHHHHHHhhhhHHHHhcCCCCCCcccccCCCChhhHHHHHHHHHHHhhcccccEEEEEecccCCCC
Q psy5607 181 SNYRPISLLNCSGKILEKMVNKRLFWVLENRGLINPFQSGGRFRRSTIDNLVFLEKEAAQGLAKKECTVALLLDGQKAFD 260 (769)
Q Consensus 181 ~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~~l~~~Q~Gfr~~rs~~d~i~~l~~~i~~~~~~~~~~~~v~lD~~kAFD 260 (769)
+.-|-|...+...-+..+.....+...+..+....+.+-|--+...-.+ .+...+ .+ -.++.+|++ .||
T Consensus 179 ~KTR~~~~~p~~~~l~~~~~f~~~~~~~~~~~~~~p~~VG~np~~~~w~-------~l~~~L-~~--~~~~~~DyS-~FD 247 (515)
T 2ckw_A 179 GKRRLLWGCDAATTLIATAAFKAVATRLQVVTPMTPVAVGINMDSVQMQ-------VMNDSL-KG--GVLYCLDYS-KWD 247 (515)
T ss_dssp TCCCEEEEECHHHHHHHHHHHHHHHHHHHTTTTSSSBCTTCCTTSHHHH-------HHHHTT-TT--SEEECCCCS-STG
T ss_pred CCceEEEeCChHHHHHHHHHHHHHHHHHHhhccccCcccccCCCCchHH-------HHHHhC-CC--CcEEeeecc-CcC
Confidence 4589998888777777776666666655544445667777766543221 121222 22 244459998 788
Q ss_pred CCChHHH----HHHHhcCCCCchhH-HHHHHHhcCCeEEEEeCCccceeeeccCCCCCCCCchHHHHHHHHHHHHhh---
Q psy5607 261 MTWRFKI----IETLKGFNINGYML-RYLCNFLYNRSFKVKCNGSFSNSFPLQNGIVQGSSLSPVLFIIFMNDILDI--- 332 (769)
Q Consensus 261 ~V~~~~L----~~~L~~~g~~~~~~-~~i~~~l~~~~~~v~~~~~~s~~~~~~~GvpQGs~LSPlLf~l~~~~l~~~--- 332 (769)
+--+..+ .+.+..+..+..+. .++.++++ +.+ ...+| ..+.+.+|.|-|++..-++=+++..-+...
T Consensus 248 ss~~~~~~~~~~~i~~~~~~~~~~~~~~~~~L~~-~~i-~~~~g---~v~~~~~G~PSG~p~Tsi~NSi~N~i~~~~a~~ 322 (515)
T 2ckw_A 248 STQNPAVTAASLAILERFAEPHPIVSCAIEALSS-PAE-GYVND---IKFVTRGGLPSGMPFTSVVNSINHMIYVAAAIL 322 (515)
T ss_dssp GGCCHHHHHHHHHHHHTTBCCCTHHHHHHHHHHS-CCE-EEETT---EEEECSSSCCTTSTTHHHHHHHHHHHHHHHHHH
T ss_pred CcCCHHHHHHHHHHHHHHhcCChHHHHHHHHHhC-Cce-EEECC---EEEEEeCcccCCCCeeecchHHHHHHHHHHHHH
Confidence 7665555 44555555444444 34555554 322 24455 357889999999998765444422221111
Q ss_pred -----hc--------CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCC-CceEE
Q psy5607 333 -----IK--------VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADP-KKSAC 389 (769)
Q Consensus 333 -----l~--------~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~-~Kt~~ 389 (769)
.. ..+..+.|-||..+-... .....++.+.+.++..||.++ + +|+..
T Consensus 323 ~~~~~~~~~~~~~~~~~~~~~~yGDD~i~s~~~--------~~~~~~~~~~~~~~~~Gl~~t--~~dKt~~ 383 (515)
T 2ckw_A 323 QAYESHNVPYTGNVFQVETIHTYGDDCMYSVCP--------ATASIFHTVLANLTSYGLKPT--AADKSDA 383 (515)
T ss_dssp HHHHHTTCCCCSCHHHHSEEEEETTEEEEEECH--------HHHHTHHHHHHHHHHHTCCC----------
T ss_pred HHHhhcCCCcccccccceEEEEECCceEEEecc--------hhHHHHHHHHHHHHHcCcEEe--ccccCCC
Confidence 11 135688999999997752 122234567777789999998 6 47764
No 24
>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=90.32 E-value=2.5 Score=46.48 Aligned_cols=201 Identities=13% Similarity=0.128 Sum_probs=116.3
Q ss_pred ccCCCCCcccc---ccEEEEeecCCCCCCCCCCCcccccCCchhHHHHHHHHhhhhHHHHhcC-CCCCCcccccCCCChh
Q psy5607 153 SSVGKFPKSWG---ESLILPLLKPGKDRLVPSNYRPISLLNCSGKILEKMVNKRLFWVLENRG-LINPFQSGGRFRRSTI 228 (769)
Q Consensus 153 l~~g~~P~~~k---~a~i~~i~K~~kd~~~~~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~-~l~~~Q~Gfr~~rs~~ 228 (769)
+..|.++--|. +..+.++.|-. .+.-|-|...+...-+.++.....+...+..+. ...+.+-| .+.
T Consensus 150 l~~g~~~~~~~~~LKdElr~~eKv~-----~~KtR~i~~~p~~~~l~~r~~~~~f~~~~~~~~~~~~p~~VG----~np- 219 (476)
T 1u09_A 150 MEKREYKFACQTFLKDEIRPMEKVR-----AGKTRIVDVLPVEHILYTRMMIGRFCAQMHSNNGPQIGSAVG----CNP- 219 (476)
T ss_dssp HHTTCCCCCEEEEECCCEEEHHHHH-----TTCCCEEEECCHHHHHHHHHHHHHHHHHHHHTCBGGGTBCTT----CCH-
T ss_pred HhcCCCCceeccccccCcCcHHhcc-----CCCceEEEeCCHHHHHHHHHHHHHHHHHHHhCCCCCcCceec----ccc-
Confidence 45555433343 34445555532 245799999999999999888877776665432 22333444 333
Q ss_pred hHHHHHHHHHHHhhcccccEEEEEecccCCCCCCChHHHHHHHhc------CCCCchhHHHHHHHhcCCeEEEEeCCccc
Q psy5607 229 DNLVFLEKEAAQGLAKKECTVALLLDGQKAFDMTWRFKIIETLKG------FNINGYMLRYLCNFLYNRSFKVKCNGSFS 302 (769)
Q Consensus 229 d~i~~l~~~i~~~~~~~~~~~~v~lD~~kAFD~V~~~~L~~~L~~------~g~~~~~~~~i~~~l~~~~~~v~~~~~~s 302 (769)
+ .-...+...+.++. .++.+|+++ ||+--+..++..+.. .|+++....++++++. +. +..+|
T Consensus 220 ~---~~W~~l~~~l~~~~--~~~~~DyS~-FDss~~~~~~~~i~~~~f~~~~~~~~~~~~~l~~L~~-s~--~~~~g--- 287 (476)
T 1u09_A 220 D---VDWQRFGTHFAQYR--NVWDVDYSA-FDANHCSDAMNIMFEEVFRTEFGFHPNAEWILKTLVN-TE--HAYEN--- 287 (476)
T ss_dssp H---HHHHHHHHHHTTSS--EEEEEEESS-TTTTCCHHHHHHHHHHHSCGGGTCCHHHHHHHHTTTE-EE--EEEEE---
T ss_pred c---hhHHHHHHHHhhCC--cEEeeeccc-cCCcCCHHHHHHHHHHHhccccCCCHHHHHHHHHhhC-cE--EEECC---
Confidence 1 11122222233332 467999997 897544445544432 3556655556666543 22 22333
Q ss_pred eeeeccCCCCCCCCchHHHHHHH----HHHHHhhh--c---CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHH
Q psy5607 303 NSFPLQNGIVQGSSLSPVLFIIF----MNDILDII--K---VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWS 373 (769)
Q Consensus 303 ~~~~~~~GvpQGs~LSPlLf~l~----~~~l~~~l--~---~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~ 373 (769)
..+.+.+|.|-|++..-++=+++ +.-....+ . ..+....|-||..+...... .++.+.+.+
T Consensus 288 ~v~~~~~G~pSG~p~T~~~Nsl~n~~~~~~a~~~~~~~~~~~~~~~~~~GDD~i~~~~~~~----------~~~~~~~~~ 357 (476)
T 1u09_A 288 KRITVEGGMPSGCSATSIINTILNNIYVLYALRRHYEGVELDTYTMISYGDDIVVASDYDL----------DFEALKPHF 357 (476)
T ss_dssp EEEEEESSCCTTCTTHHHHHHHHHHHHHHHHHHHHSSSCCGGGCEEEEETTEEEEEESSCC----------CHHHHHHHH
T ss_pred EEEEEeCcCCCCCcceecchHHHHHHHHHHHHHHHcCCCCccceeEEEEcCCeeeecCccc----------CHHHHHHHH
Confidence 45678999999999876544332 22222222 1 23667899999999875421 245566677
Q ss_pred HHhCcccccCC-Cce
Q psy5607 374 NQNGLIFSADP-KKS 387 (769)
Q Consensus 374 ~~~GL~in~~~-~Kt 387 (769)
+..|+.++ + +||
T Consensus 358 ~~~Gl~~t--~~dKt 370 (476)
T 1u09_A 358 KSLGQTIT--PADKS 370 (476)
T ss_dssp HTTTCCEE--ESCCS
T ss_pred HHcCcEec--ccccc
Confidence 78999988 4 554
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=90.31 E-value=3.5 Score=45.74 Aligned_cols=180 Identities=14% Similarity=0.079 Sum_probs=112.9
Q ss_pred CCCcccccCCchhHHHHHHHHhhhhHHHHhcCCCCCCcccccCCCChhhHHHHHHHHHHHhhcccccEEEEEecccCCCC
Q psy5607 181 SNYRPISLLNCSGKILEKMVNKRLFWVLENRGLINPFQSGGRFRRSTIDNLVFLEKEAAQGLAKKECTVALLLDGQKAFD 260 (769)
Q Consensus 181 ~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~~l~~~Q~Gfr~~rs~~d~i~~l~~~i~~~~~~~~~~~~v~lD~~kAFD 260 (769)
+.-|.|...+...-+.+++....+...+..+....+.+-|-.|. +-. .. +.....++ ..++.+|++ .||
T Consensus 179 ~KtR~~~~~p~~~~l~~r~~~~~~~~~~~~~~~~~~~~VG~np~-~~w---~~----l~~~l~~~--~~~~~~DyS-~FD 247 (510)
T 3bso_A 179 IKKRLLWGSDLATMIRCARAFGGLMDELKTHCVTLPIRVGMNMN-EDG---PI----IFERHSRY--RYHYDADYS-RWD 247 (510)
T ss_dssp CCCCEEEECCHHHHHHHHHHHHHHHHHHHHTTTTSSBCTTCCHH-HHH---HH----HHHHHHTS--SEEEEEEET-TTG
T ss_pred CCceEEEECCHHHHHHHHHHHHHHHHHHHHcCCCcCceecccCC-ccH---HH----HHHhhccC--CeEEecchh-ccc
Confidence 56899999999999999999988887777766666667766554 111 11 11122222 244589999 788
Q ss_pred CCChHHH----HHHHhcCCCCchhHHHH-HHHhcCCeEEEEeCCccceeeeccCCCCCCCCchHHHHHHHHHHHHhh---
Q psy5607 261 MTWRFKI----IETLKGFNINGYMLRYL-CNFLYNRSFKVKCNGSFSNSFPLQNGIVQGSSLSPVLFIIFMNDILDI--- 332 (769)
Q Consensus 261 ~V~~~~L----~~~L~~~g~~~~~~~~i-~~~l~~~~~~v~~~~~~s~~~~~~~GvpQGs~LSPlLf~l~~~~l~~~--- 332 (769)
+--+..+ ++.|.+++....+.+.+ ..++. +. ....+| ..+.+.+|.|=|++..-++=++ ++.+...
T Consensus 248 ssl~p~~~~~~~~il~~~~~~~~~~~~~~~~l~~-~~-~~~~~g---~v~~~~~G~PSG~p~Tsi~NSi-~N~i~~~~a~ 321 (510)
T 3bso_A 248 STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLS-PS-VVDVGD---FTISINEGLPSGVPCTSQWNSI-AHWLLTLCAL 321 (510)
T ss_dssp GGCCHHHHHHHHHHHHHTSSSHHHHHHHHHHHHS-CE-EEECSS---EEEEECSSCCTTSTTHHHHHHH-HHHHHHHHHH
T ss_pred ccchHHHHHHHHHHHHHHhcCcHHHHHHHHHhhc-ce-eeecCC---EEEEEeCcccCCCCeeeccchH-HHHHHHHHHH
Confidence 6665533 45666776665544333 33332 22 223334 3577899999999987655444 3333211
Q ss_pred -----hc-----CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCC-CceEE
Q psy5607 333 -----IK-----VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADP-KKSAC 389 (769)
Q Consensus 333 -----l~-----~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~-~Kt~~ 389 (769)
+. ..+..+.|-||..+-....- ..+.+.+.+++.||.++ + +|+..
T Consensus 322 ~~~~~~~~~~~~~~~~~~~yGDD~i~s~~~~~----------~~~~~~~~~~~~Gl~~t--~~dKt~~ 377 (510)
T 3bso_A 322 SEVTNLSPDIIQANSLFSFYGDDEIVSTDIKL----------DPEKLTAKLKEYGLKPT--RPDKTEG 377 (510)
T ss_dssp HHHHTCCHHHHHHTEEEEEETTEEEEEESSCC----------CHHHHHHHHHHTTCCEE--CTTCCSS
T ss_pred HHhcCCCHHHhhheEEEEEecCceeeccCccc----------cHHHHHHHHHHcCcCcc--ccccccC
Confidence 11 23456899999998766421 23556667778999999 7 58763
No 26
>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=88.62 E-value=1.8 Score=47.18 Aligned_cols=177 Identities=15% Similarity=0.125 Sum_probs=115.6
Q ss_pred CCCcccccCCchhHHHHHHHHhhhhHHHHhcC-CCCCCcccccCCCChhhHHHHHHHHHHHhhcccccEEEEEecccCCC
Q psy5607 181 SNYRPISLLNCSGKILEKMVNKRLFWVLENRG-LINPFQSGGRFRRSTIDNLVFLEKEAAQGLAKKECTVALLLDGQKAF 259 (769)
Q Consensus 181 ~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~-~l~~~Q~Gfr~~rs~~d~i~~l~~~i~~~~~~~~~~~~v~lD~~kAF 259 (769)
+.-|-|...+...-+..|+....+...+..++ ...+.+-|--+. +-.+ .+...+. + .++.+|.++ |
T Consensus 171 ~KTR~f~~~p~~~~l~~r~~f~~~~~~f~~~~~~~~p~~VG~np~-~~W~-------~l~~~l~-~---~~~~~DyS~-F 237 (462)
T 3n6m_A 171 GKSRLIEASSLNDSVYLRMAFGHLYETFHANPGTITGSAVGCNPD-TFWS-------KLPILLP-G---SLFAFDYSG-Y 237 (462)
T ss_dssp TCCCEEEECCHHHHHHHHHHHHHHHHHHHHCTBTTTTBCTTCCHH-HHHH-------HHHHHSC-S---EEECEEEES-H
T ss_pred CCeeEEEeCChHHHHHHHHHHHHHHHHHHhcCCcCchhhhCCccC-CcHH-------HHHHHcC-C---eEEeeecCC-C
Confidence 56799999999999999999888866665443 556777776552 1111 1112121 2 366799986 8
Q ss_pred CCCChHHH----HHHHhcCCCCchhHHHHHHHhcCCeEEEEeCCccceeeeccCCCCCCCCchHHHHHHHHHHHHhh---
Q psy5607 260 DMTWRFKI----IETLKGFNINGYMLRYLCNFLYNRSFKVKCNGSFSNSFPLQNGIVQGSSLSPVLFIIFMNDILDI--- 332 (769)
Q Consensus 260 D~V~~~~L----~~~L~~~g~~~~~~~~i~~~l~~~~~~v~~~~~~s~~~~~~~GvpQGs~LSPlLf~l~~~~l~~~--- 332 (769)
|+--+..+ .+.|..+++++....++..++. + .+..+| ..+.+.+|.|=|+|..-++=+++..-+...
T Consensus 238 Dssl~~~~~~ai~~il~~~~~~~~~~~l~~~l~~-~--~~~~~g---~v~~~~~G~PSG~p~Tsv~NSl~n~i~~~~a~~ 311 (462)
T 3n6m_A 238 DASLSPVWFRALELVLREIGYSEGAISLIEGINH-T--HHVYRN---KTYCVLGGMPSGCSGTSIFNSMINNIIIRALLI 311 (462)
T ss_dssp HHHCCHHHHHHHHHHHHHTTCCHHHHGGGHHHHE-E--EEEETT---EEEEEESSCCCSCSTTHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHhCCCcHHHHHHHHhhC-c--EEEeCC---cEEEEeCCcCCCCCccccchHHHHHHHHHHHHH
Confidence 87555544 4456677888776556666653 2 233344 567889999999999877655533322221
Q ss_pred -----hc-CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCC-CceE
Q psy5607 333 -----IK-VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADP-KKSA 388 (769)
Q Consensus 333 -----l~-~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~-~Kt~ 388 (769)
+. ..+..+.|-||..+-....- ..+.+.+.+++.||.++ + +||.
T Consensus 312 ~~~~~~~~~~~~~~~yGDD~i~s~~~~~----------~~~~l~~~~~~~Gl~~t--~~dKt~ 362 (462)
T 3n6m_A 312 KTFKGIDLDELNMVAYGDDVLASYPFPI----------DCLELAKTGKEYGLTMT--PADKSP 362 (462)
T ss_dssp HHSTTCCGGGCEEEEETTEEEEEESSCC----------CHHHHHHHHHHTTCEEE--ESSSSS
T ss_pred HHcCCCCcceEEEEeecCceEEEeCccc----------CHHHHHHHHHHcCceec--hhhccC
Confidence 11 35678899999999776421 34566677788999998 5 4765
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=88.20 E-value=8.1 Score=42.81 Aligned_cols=184 Identities=14% Similarity=0.089 Sum_probs=111.5
Q ss_pred CCCcccccCCchhHHHHHHHHhhhhHHHHhcCCCCCCcccccCCCChhhHHHHHHHHHHHhhcccccEEEEEecccCCCC
Q psy5607 181 SNYRPISLLNCSGKILEKMVNKRLFWVLENRGLINPFQSGGRFRRSTIDNLVFLEKEAAQGLAKKECTVALLLDGQKAFD 260 (769)
Q Consensus 181 ~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~~l~~~Q~Gfr~~rs~~d~i~~l~~~i~~~~~~~~~~~~v~lD~~kAFD 260 (769)
+.-|-|...+...-+.++.....+...+..+....+.+-|.-+...-.+.+. ..+. .++. .++.+|.+ .||
T Consensus 185 ~KtR~~~~~p~~~~l~~~~~f~~~~~~~~~~~~~~p~~VG~np~~~~w~~l~---~~L~---~~~~--~~~~~DyS-~FD 255 (516)
T 1khv_A 185 GKKRLLWGCDVGVAVCAAAVFHNICYKLKMVARFGPIAVGVDMTSRDVDVII---NNLT---SKAS--DFLCLDYS-KWD 255 (516)
T ss_dssp CCCCEEEEECHHHHHHHHHHHHHHHHHHHHTTTTSSBCTTCCTTSTHHHHHH---HHHH---HHCS--EEEEEEET-THH
T ss_pred CCceEEEecChhHHHHHHHHHHHHHHHHHhcCcccceeeccCCCcchHHHHH---HHhh---hcCC--eEEeCccc-ccC
Confidence 5689998888887777777666666656544456778888877765333332 1111 1222 46779998 688
Q ss_pred CCChHHH----HHHHhcCCCCchhH-HHHHHHhcCCeEEEEeCCccceeeeccCCCCCCCCchHHHHHHHHHH-------
Q psy5607 261 MTWRFKI----IETLKGFNINGYML-RYLCNFLYNRSFKVKCNGSFSNSFPLQNGIVQGSSLSPVLFIIFMND------- 328 (769)
Q Consensus 261 ~V~~~~L----~~~L~~~g~~~~~~-~~i~~~l~~~~~~v~~~~~~s~~~~~~~GvpQGs~LSPlLf~l~~~~------- 328 (769)
+--+..+ .+.+..+..+..+. .+++++++.. ....+| ..+.+.+|.|-|++..-++=+++..-
T Consensus 256 ssl~~~~~~~~~~il~~~~~~~~~~~~~~~~L~~~~--~~~~~g---~v~~~~~G~PSG~p~Tsi~NSi~N~i~i~~a~~ 330 (516)
T 1khv_A 256 STMSPCVVRLAIDILADCCEQTELTKSVVLTLKSHP--MTILDA---MIVQTKRGLPSGMPFTSVINSICHWLLWSAAVY 330 (516)
T ss_dssp HHCCHHHHHHHHHHHHTTBCCSHHHHHHHHHHHSCC--EEECSS---EEECCSSCCCTTSTTHHHHHHHHHHHHHHHHHH
T ss_pred cchHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCc--eEEECC---EEEEEeCCcCCCCCeecchhHHHHHHHHHHHHH
Confidence 5444443 45555665444444 3455555422 223444 35778999999999876544333111
Q ss_pred -HHhhhc-------CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCC-CceE
Q psy5607 329 -ILDIIK-------VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADP-KKSA 388 (769)
Q Consensus 329 -l~~~l~-------~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~-~Kt~ 388 (769)
...... ..+..+.|-||..+-... .....++.+.+.++..||.++ + +|+.
T Consensus 331 ~~~~~~g~~~~~~~~~~~~~~yGDD~i~s~~~--------~~~~~~~~~~~~~~~~Gl~~t--~~dKt~ 389 (516)
T 1khv_A 331 KSCAEIGLHCSNLYEDAPFYTYGDDGVYAMTP--------MMVSLLPAIIENLRDYGLSPT--AADKTE 389 (516)
T ss_dssp HHHHHTTCCCCCHHHHSCEEEETTEEEEEECH--------HHHHTHHHHHHHHHHTTCCEE--ESSTTS
T ss_pred HHHHhcCCCHHHHhhceeEEEecCceEEEecc--------hhhhHHHHHHHHHHHcCcEec--cccccC
Confidence 111111 135788999999997752 112344567777788999998 5 5654
No 28
>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=81.26 E-value=6.1 Score=45.09 Aligned_cols=177 Identities=14% Similarity=0.165 Sum_probs=112.5
Q ss_pred CCCcccccCCchhHHHHHHHHhhhhHHHHhcC-CCCCCcccccCCCChhhHHHHHHHHHHHhhcccccEEEEEecccCCC
Q psy5607 181 SNYRPISLLNCSGKILEKMVNKRLFWVLENRG-LINPFQSGGRFRRSTIDNLVFLEKEAAQGLAKKECTVALLLDGQKAF 259 (769)
Q Consensus 181 ~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~-~l~~~Q~Gfr~~rs~~d~i~~l~~~i~~~~~~~~~~~~v~lD~~kAF 259 (769)
+.-|-|...+...-+.+|.....+...+..+. ...+.+-|--|. +-. ..+...+. + .++.+|++ .|
T Consensus 354 ~KtR~~~~~p~~~~l~~r~~~~~~~~~~~~~~~~~~p~~VG~np~-~~w-------~~l~~~l~-g---~~~~~DyS-~F 420 (644)
T 2ijd_1 354 GKSRLIEASSLNDSVAMRMAFGNLYAAFHKNPGVITGSAVGCDPD-LFW-------SKIPVLME-E---KLFAFDYT-GY 420 (644)
T ss_dssp CCCCEEEECCHHHHHHHHHHHHHHHHHHHSCTTTTTCBCTTCCHH-HHH-------HHHHHHSC-S---EEECEEES-SH
T ss_pred CCeeEEEeCCHHHHHHHHHHHHHHHHHHHhccccccCcccCCCCc-hhH-------HHHHHhcC-C---cEEeeeec-Cc
Confidence 56899999999999999999888877766543 445677775552 111 11212222 2 36679997 68
Q ss_pred CCCChH----HHHHHHhcCCCCchhHHHHHHHhcCCeEEEEeCCccceeeeccCCCCCCCCchHHHHHHHHHHHHhh---
Q psy5607 260 DMTWRF----KIIETLKGFNINGYMLRYLCNFLYNRSFKVKCNGSFSNSFPLQNGIVQGSSLSPVLFIIFMNDILDI--- 332 (769)
Q Consensus 260 D~V~~~----~L~~~L~~~g~~~~~~~~i~~~l~~~~~~v~~~~~~s~~~~~~~GvpQGs~LSPlLf~l~~~~l~~~--- 332 (769)
|+--+. .+.+.|..+++++. ..++..+.. + .+..+| ..+.+.+|.|-|+|..-++=+++..-+...
T Consensus 421 Dssl~~~~~~~~~~il~~~~~~~~-~~l~~~l~~-~--~~~~~g---~v~~~~~G~PSG~p~Tsi~NSlvn~i~~~~a~~ 493 (644)
T 2ijd_1 421 DASLSPAWFEALKMVLEKIGFGDR-VDYIDYLNH-S--HHLYKN---KTYCVKGGMPSGCSGTSIFNSMINNLIIRTLLL 493 (644)
T ss_dssp HHHCCHHHHHHHHHHHHHTTTGGG-THHHHHHHE-E--EEECSS---EEEEEESSCCSBSTTHHHHHHHHHHHHHHHHHH
T ss_pred cccccHHHHHHHHHHHHHhCCCCH-HHHHHhhhC-c--EEEECC---EEEEEeeecCCCCCceecchHHHHHHHHHHHHH
Confidence 865554 34456677787775 555565543 2 223344 567889999999998755444322222221
Q ss_pred -h----c-CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCC-CceEE
Q psy5607 333 -I----K-VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADP-KKSAC 389 (769)
Q Consensus 333 -l----~-~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~-~Kt~~ 389 (769)
. . ..+..+.|-||..+-....- .++.+.+.+++.||.++ + +||..
T Consensus 494 ~~~~~~~~~~~~~~~yGDD~i~s~~~~~----------~~~~~~~~~~~~Gl~~t--~~dKt~~ 545 (644)
T 2ijd_1 494 KTYKGIDLDHLKMIAYGDDVIASYPHEV----------DASLLAQSGKDYGLTMT--PADKSAT 545 (644)
T ss_dssp HHSSSCCGGGCEEEEETTEEEEEESSCC----------CHHHHHHHHHHTTCCEE--ETTTCSS
T ss_pred hhccCCCCceeEEEEeCCcEEEeccccc----------CHHHHHHHHHHcCCEec--hhhccCC
Confidence 1 1 25678899999998875421 24556667778999998 5 57653
No 29
>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=76.38 E-value=23 Score=38.48 Aligned_cols=175 Identities=17% Similarity=0.199 Sum_probs=112.6
Q ss_pred CCCcccccCCchhHHHHHHHHhhhhHHHHhcC-CCCCCcccccCCCChhhHHHHHHHHHHHhhcccccEEEEEecccCCC
Q psy5607 181 SNYRPISLLNCSGKILEKMVNKRLFWVLENRG-LINPFQSGGRFRRSTIDNLVFLEKEAAQGLAKKECTVALLLDGQKAF 259 (769)
Q Consensus 181 ~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~-~l~~~Q~Gfr~~rs~~d~i~~l~~~i~~~~~~~~~~~~v~lD~~kAF 259 (769)
+.-|-|...+...-+.++.....+...+..+. ...+.+-|.-+. + -...+...+. + ..++-+|++ .|
T Consensus 171 ~KtR~i~~~p~~~~l~~r~~~~~~~~~~~~~~~~~~p~~VG~np~-~-------~W~~l~~~l~-g--~~~~~~DyS-~F 238 (460)
T 1xr7_A 171 GKTRVIEASSINDTILFRTVYGNLFSKFHLNPGVVTGCAVGCDPE-T-------FWSKIPLMLD-G--DCIMAFDYT-NY 238 (460)
T ss_dssp TCCCEEEECCHHHHHHHHHHHHHHHHHHHHCCBTTTTBCTTCCHH-H-------HHHHHHHHSC-S--SEEEEEEES-SH
T ss_pred CCcceEEeCCHHHHHHHHHHHHHHHHHHHHcCCCccCcccCCCCc-h-------hHHHHHHhcC-C--CeEEcCccC-CC
Confidence 56899999999999999999988866666543 456777776653 1 1122223333 3 356789996 78
Q ss_pred CCCChHH----HHHHHhcCCCCchhHHHHHHHhcCCeEEEEeCCccceeeeccCCCCCCCCchHHHHHHHHHHHHh----
Q psy5607 260 DMTWRFK----IIETLKGFNINGYMLRYLCNFLYNRSFKVKCNGSFSNSFPLQNGIVQGSSLSPVLFIIFMNDILD---- 331 (769)
Q Consensus 260 D~V~~~~----L~~~L~~~g~~~~~~~~i~~~l~~~~~~v~~~~~~s~~~~~~~GvpQGs~LSPlLf~l~~~~l~~---- 331 (769)
|+--+.. +.+.|...++++.++. .+.. + .+..+| ..+.+.+|.|=|++..-++=+++..-+..
T Consensus 239 Dss~~~~~~~~i~~il~~~~~~~~l~~---~l~~-~--~~~~~g---~v~~~~~G~PSG~p~Tsi~NSl~n~i~~~~a~~ 309 (460)
T 1xr7_A 239 DGSIHPIWFKALGMVLDNLSFNPTLIN---RLCN-S--KHIFKS---TYYEVEGGVPSGCSGTSIFNSMINNIIIRTLVL 309 (460)
T ss_dssp HHHCCHHHHHHHHHHHHHTTSCSSTTH---HHHE-E--EEEETT---EEEEEESSCCTTSTTHHHHHHHHHHHHHHHHHH
T ss_pred cCcCCHHHHHHHHHHHHhcCCCHHHHH---HHhC-c--EEEECC---EEEEEeCCccCCCCccccchhHHHHHHHHHHHH
Confidence 8665543 4455667787775443 3332 2 234455 46788999999999875544443222211
Q ss_pred hh----c-CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCC-CceE
Q psy5607 332 II----K-VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADP-KKSA 388 (769)
Q Consensus 332 ~l----~-~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~-~Kt~ 388 (769)
.+ . ..+..+.|-||..+-....- .++.+.+.++..||.++ + +||+
T Consensus 310 ~~~~~~~~~~~~~~~yGDD~i~s~~~~~----------~~~~l~~~~~~~Gl~~t--~~dKt~ 360 (460)
T 1xr7_A 310 DAYKHIDLDKLKIIAYGDDVIFSYKYKL----------DMEAIAKEGQKYGLTIT--PADKSS 360 (460)
T ss_dssp HHCSSCCGGGCEEEEETTEEEEEESSCC----------CHHHHHHTTGGGTCCEE--ESTTCS
T ss_pred HHhcCCCccceeEEEecCceEEEeCCcC----------CHHHHHHHHHHcCcEec--hhhhcC
Confidence 11 1 25678899999999775421 25566777889999998 5 5765
No 30
>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=74.40 E-value=1.9 Score=38.24 Aligned_cols=39 Identities=21% Similarity=0.159 Sum_probs=25.3
Q ss_pred CCeEEEEcCcHHHHHHHHcc--CcCCCcch-HHHHHHHHHHH
Q psy5607 642 HSKFLLVSDSMSAIQAIANI--CSSYKNSL-TSKIYSAWMDL 680 (769)
Q Consensus 642 ~~~~~i~tDs~~~~~~i~~~--~~~~~~~~-~~~i~~~~~~~ 680 (769)
+.++.|+|||+|+++-|.++ +...++++ ..+++++++++
T Consensus 64 ~~~v~i~tDSqyVi~wi~~~~~kt~~~~~vkN~dLw~~ld~~ 105 (134)
T 4htu_A 64 NSRKPIYSNSQTAIKWVKDKKAKSTLVRNEETALIWKLVDEA 105 (134)
T ss_dssp TCCCCEEESCHHHHHHHHHTCCCCCCCCSSTTHHHHHHHHHH
T ss_pred CCCEEEEcchHHHHHHHHcCCcccCCCCCccCHHHHHHHHHH
Confidence 33589999999999999863 33333333 34666555533
No 31
>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=69.38 E-value=15 Score=44.54 Aligned_cols=177 Identities=14% Similarity=0.068 Sum_probs=100.7
Q ss_pred ccEEEEeecCCCCCCCCCCCcccccCCchhHHHHHHHHhhhhHHHHhcCCCCCCcccccCCCChhhHHHHHHHHHHHhhc
Q psy5607 164 ESLILPLLKPGKDRLVPSNYRPISLLNCSGKILEKMVNKRLFWVLENRGLINPFQSGGRFRRSTIDNLVFLEKEAAQGLA 243 (769)
Q Consensus 164 ~a~i~~i~K~~kd~~~~~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~~l~~~Q~Gfr~~rs~~d~i~~l~~~i~~~~~ 243 (769)
...++..||.. +.=|-|+..+.+--.+++-+..-|+..+..-++==..|. .. +.+ +..
T Consensus 900 ~~~~~~vpk~~------~~~r~~~~ep~~nm~~q~~~~~~i~~~l~~~~i~l~~q~--------~n------q~~--a~~ 957 (1289)
T 3avx_A 900 FNKAVTVPKNS------KTDRCIAIEPGWNMFFQLGIGGILRDRLRCWGIDLNDQT--------IN------QRR--AHE 957 (1289)
T ss_dssp EEEEEEECCCS------SCCEEEEECCHHHHHHHHHHHHHHHHHHGGGTCCTTCTH--------HH------HHH--HHH
T ss_pred CCceEeecCCC------cccceeecCCcHHHHHHHHhHHHHHHHHHhcCCCccccc--------hh------HHH--Hhh
Confidence 34577889987 345899999988888887776666666653222111231 11 111 111
Q ss_pred ccccEEEEEecccCCCCCCChHHHHHHHhcCCCCchhHHHHHHHhcCCeEEEEe-CCccceeeeccCCCCCCCC----ch
Q psy5607 244 KKECTVALLLDGQKAFDMTWRFKIIETLKGFNINGYMLRYLCNFLYNRSFKVKC-NGSFSNSFPLQNGIVQGSS----LS 318 (769)
Q Consensus 244 ~~~~~~~v~lD~~kAFD~V~~~~L~~~L~~~g~~~~~~~~i~~~l~~~~~~v~~-~~~~s~~~~~~~GvpQGs~----LS 318 (769)
-.....+..+|++.|=|+|+..... .=+|+.|...+..+-+ -...+ +|.. +..+.=--+|.- |=
T Consensus 958 ~s~~~~~~t~dls~asd~~s~~l~~-----~~lp~~~~~~~~~~rs---~~~~~~~g~~---~~~~~~~~mgng~tfel~ 1026 (1289)
T 3avx_A 958 GSVTNNLATVDLSAASDSISLALCE-----LLLPPGWFEVLMDLRS---PKGRLPDGSV---VTYEKISSMGNGYTFELE 1026 (1289)
T ss_dssp HHHHSCEEEECBTTGGGGCBHHHHH-----TTSCHHHHHHHHHHSC---CEEECTTSCE---EECSBSCCTTSTTHHHHH
T ss_pred cccccceeEEEccccccHhHHHHHH-----HHcCHHHHHHHHhhcC---cccccCCCcE---eehhhhhcccCceeEeHH
Confidence 1233467889999999999975433 3367766555555433 33344 3322 222222234442 22
Q ss_pred HHHHHHHHHHHHhhhcC-CceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHHHHHhCcccccCCCceE
Q psy5607 319 PVLFIIFMNDILDIIKV-PLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKWSNQNGLIFSADPKKSA 388 (769)
Q Consensus 319 PlLf~l~~~~l~~~l~~-~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w~~~~GL~in~~~~Kt~ 388 (769)
.++|.-....+...+.. ...+..|-||+.+=.. +...+.+.....|+..| .+||-
T Consensus 1027 s~~~~~~~~~~~~~~~~~~~~~~~ygddii~~~~-------------~~~~~~~~~~~~~f~~n--~~ktf 1082 (1289)
T 3avx_A 1027 SLIFASLARSVCEILDLDSSEVTVYGDDIILPSC-------------AVPALREVFKYVGFTTN--TKKTF 1082 (1289)
T ss_dssp HHHHHHHHHHHHHHTTCCGGGCEEETTEEEEEGG-------------GHHHHHHHHHHTTCCBC--GGGCB
T ss_pred HHHHHHHHHHHHHHhCCCCceEEEecCcEEeehh-------------hhHHHHHHHHHhceecC--Ccccc
Confidence 33333333333333343 4677899999987543 33444555667899999 99974
No 32
>3hkw_A NS5B RNA-dependent RNA polymerase; HCV polymerase, 1,5-benzodiazepine, transferase; HET: IX6; 1.55A {Hepatitis c virus subtype 1A} SCOP: e.8.1.4 PDB: 3qgi_A* 3qgh_A* 2xi3_A* 2xi2_A* 3e51_A* 3bsa_A* 3bsc_A* 3br9_A* 3co9_A* 3cvk_A* 3cwj_A* 3d28_A* 3d5m_A* 3cde_A* 3gyn_A* 3h2l_A* 3igv_A* 2ax0_A* 2awz_A* 2ax1_A* ...
Probab=60.13 E-value=69 Score=34.83 Aligned_cols=207 Identities=12% Similarity=0.039 Sum_probs=116.6
Q ss_pred hcccCCCCC--ccc-cccEEEEe--ecCCCCCCCCCCCcccccCCchhHHHHHHHHhhhhHHHHhcCCCCCCcccccCCC
Q psy5607 151 DFSSVGKFP--KSW-GESLILPL--LKPGKDRLVPSNYRPISLLNCSGKILEKMVNKRLFWVLENRGLINPFQSGGRFRR 225 (769)
Q Consensus 151 ~~l~~g~~P--~~~-k~a~i~~i--~K~~kd~~~~~~yRPIsll~~~~Ki~ekii~~rL~~~~~~~~~l~~~Q~Gfr~~r 225 (769)
++++.+..| ... -+..|... -|+|+ +.=|-|.-.+.-.++.|+.+..-+...+.. -+--.-+||.
T Consensus 128 ~l~e~~~~piptti~ak~evf~~~p~kg~r-----k~pRlIvyPdl~vRvcek~~lyd~~~~lp~--aimG~ayGFq--- 197 (581)
T 3hkw_A 128 DLLEDSVTPIDTTIMAKNEVFCVQPEKGGR-----KPARLIVFPDLGVRVCEKMALYDVVSKLPQ--AVMGSSYGFQ--- 197 (581)
T ss_dssp HHHHCSSSCCCEEEEECCCEEECBC--CBS-----CCCCEEEECCHHHHHHHHHHHHHHHHHHHH--HHHGGGBGGG---
T ss_pred HHHhcCCCCCCeeEeecceEEEecCCcCCC-----CCCceecCCCCCcceeeeeeecCccccCce--eeeccccCCC---
Confidence 455566664 333 22333333 24443 556888888888999998888777444432 2223456774
Q ss_pred ChhhHHHHHHHHHHHhhcccccEEEEEecccCCCC-CCChHHHH---HHHhcCCCCchhHHHHHHHhcCCeE---EEEeC
Q psy5607 226 STIDNLVFLEKEAAQGLAKKECTVALLLDGQKAFD-MTWRFKII---ETLKGFNINGYMLRYLCNFLYNRSF---KVKCN 298 (769)
Q Consensus 226 s~~d~i~~l~~~i~~~~~~~~~~~~v~lD~~kAFD-~V~~~~L~---~~L~~~g~~~~~~~~i~~~l~~~~~---~v~~~ 298 (769)
-......+.+.+.|+..+.-+.+.+|.+ .|| +|..+.|- ...+..-.++.....+++.++...+ .....
T Consensus 198 ---Yt~~qrg~~l~kkW~sfk~PVAIg~DTs-rFDShVTe~DLr~EhsIYq~c~lDPEaRKLI~sLtERLYvGGPm~nsk 273 (581)
T 3hkw_A 198 ---YSPGQRVEFLVQAWKSKKSPMGFSYDTR-CFDSTVTESDIRTEEAIYQCCDLDPQARVAIKSLTERLYVGGPLTNSK 273 (581)
T ss_dssp ---SCHHHHHHHHHHHHHHSSSEEEEEECBT-THHHHCCHHHHHHHHHHHTTSBCCHHHHHHHHHHHHHTTTCEEEECTT
T ss_pred ---CCHHHHHHHHHHHHhccCCCeEEecCcc-ccCCcCCHHHHHhHHHHHHHhcCCHHHHHHHHHHHhccccCCceEeCC
Confidence 3345566777788888888888999965 666 57766553 2334334577777777655543311 11112
Q ss_pred CccceeeeccCCCCCCCCch-----HHHHHHHHHHHHhhhc-CCceeeeeeccceEEEeccCHHHHHHHHHHHHHHHHHH
Q psy5607 299 GSFSNSFPLQNGIVQGSSLS-----PVLFIIFMNDILDIIK-VPLRRLLFIDDFLVIARGKVIELLRIKIQKALNDILKW 372 (769)
Q Consensus 299 ~~~s~~~~~~~GvpQGs~LS-----PlLf~l~~~~l~~~l~-~~~~~~~yADD~~l~~~~~~~~~~~~~lq~~l~~l~~w 372 (769)
|+.-.. +|.+--.++- .+...+....+.+... .+...+---||.++++.+...++....++ .+.++
T Consensus 274 G~~~gY----RgCRaSGdltTSlGNtLtCyikA~AacraaGl~~~~mLvcGDD~VVI~Es~g~~ed~~~Lr----al~ea 345 (581)
T 3hkw_A 274 GENCGY----RRCRASGVLTTSCGNTLTCYIKARAACRAAGLQDCTMLVCGDDLVVICESAGVQEDAASLR----AFTEA 345 (581)
T ss_dssp SCEEEE----ECSCCTTSTTHHHHHHHHHHHHHHHHHHHTTCEEEEEEEETTEEEEEEECCCHHHHHHHHH----HHHHH
T ss_pred CCeecc----cCCcCCCCCCcCcccHHHHHHHHHHHHHhcCCCCceEEEeCCCEEEEEecCCchhHHHHHH----HHHHH
Confidence 221111 1444333331 2221122233344444 46778888999999999876655554444 35555
Q ss_pred HHHhCcc
Q psy5607 373 SNQNGLI 379 (769)
Q Consensus 373 ~~~~GL~ 379 (769)
....|+.
T Consensus 346 ~~ryGf~ 352 (581)
T 3hkw_A 346 MTRYSAP 352 (581)
T ss_dssp HHHTTCC
T ss_pred HHhcCCC
Confidence 6677776
Done!