Query psy15380
Match_columns 1738
No_of_seqs 607 out of 2104
Neff 7.4
Searched_HMMs 29240
Date Fri Aug 16 19:31:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15380.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/15380hhsearch_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 1.2E-40 4.2E-45 418.9 7.7 376 1129-1720 48-432 (455)
2 2zd1_A Reverse transcriptase/r 100.0 7.8E-34 2.7E-38 365.1 16.6 449 1129-1717 29-512 (557)
3 1mu2_A HIV-2 RT; HIV-2 reverse 100.0 4.7E-34 1.6E-38 367.0 14.3 450 1129-1715 27-507 (555)
4 2zd1_B P51 RT; P51/P66, hetero 100.0 9.6E-32 3.3E-36 333.7 21.0 185 1129-1335 27-216 (428)
5 3fsi_A RT, reverse transcripta 100.0 9.2E-32 3.2E-36 312.4 13.2 187 1129-1335 44-231 (255)
6 3s8i_A Protein DDI1 homolog 1; 97.9 1.2E-05 4E-10 84.5 7.2 82 889-1008 35-120 (148)
7 2i1a_A DNA damage-inducible pr 97.8 2.3E-05 8E-10 82.5 6.4 90 875-1007 28-120 (148)
8 1fmb_A EIAV protease; hydrolas 97.2 0.0006 2.1E-08 66.6 7.1 65 889-958 19-84 (104)
9 2a51_A Nucleocapsid protein; s 96.8 0.0006 2.1E-08 54.3 3.2 37 690-739 2-39 (39)
10 2ec7_A GAG polyprotein (PR55GA 96.8 0.00051 1.8E-08 57.7 2.9 40 688-740 6-46 (49)
11 2bl6_A Nucleocapsid protein P1 96.7 0.00057 2E-08 53.8 2.3 35 690-739 2-37 (37)
12 2cqf_A RNA-binding protein LIN 96.6 0.0016 5.4E-08 57.8 4.2 41 688-740 7-48 (63)
13 1a1t_A Nucleocapsid protein; s 96.6 0.00095 3.3E-08 57.5 2.6 41 687-740 11-52 (55)
14 2li8_A Protein LIN-28 homolog 96.5 0.00072 2.5E-08 61.8 1.3 42 687-740 23-65 (74)
15 2ihx_A Nucleocapsid (NC) prote 96.5 0.0014 4.7E-08 57.8 3.0 45 688-740 4-49 (61)
16 2bl6_A Nucleocapsid protein P1 96.5 0.0014 4.8E-08 51.5 2.8 30 723-752 2-31 (37)
17 3hst_B Protein RV2228C/MT2287; 96.4 0.0077 2.6E-07 62.3 8.9 76 1622-1715 2-84 (141)
18 1cl4_A Protein (GAG polyprotei 96.3 0.0013 4.6E-08 57.7 2.0 47 689-740 2-49 (60)
19 2lli_A Protein AIR2; RNA surve 96.2 0.0031 1.1E-07 64.1 4.2 26 723-748 44-72 (124)
20 3nyb_B Protein AIR2; polya RNA 96.1 0.003 1E-07 59.0 3.3 56 687-757 4-64 (83)
21 3u3g_D Ribonuclease H, RNAse H 96.0 0.0096 3.3E-07 61.4 7.2 76 1623-1716 3-88 (140)
22 2li8_A Protein LIN-28 homolog 96.0 0.0029 1E-07 57.8 2.7 59 696-757 2-64 (74)
23 2a51_A Nucleocapsid protein; s 96.0 0.0041 1.4E-07 49.5 3.1 31 723-753 2-34 (39)
24 2hs1_A HIV-1 protease; ultra-h 95.8 0.016 5.4E-07 55.9 7.1 61 889-958 19-79 (99)
25 2ec7_A GAG polyprotein (PR55GA 95.5 0.0066 2.3E-07 50.9 2.9 38 720-757 5-45 (49)
26 2lli_A Protein AIR2; RNA surve 95.4 0.013 4.6E-07 59.4 5.2 54 688-757 4-60 (124)
27 4htu_A Ribonuclease H, RNAse H 95.4 0.0096 3.3E-07 60.8 4.0 81 1624-1727 6-96 (134)
28 1a1t_A Nucleocapsid protein; s 95.3 0.0074 2.5E-07 51.9 2.6 39 719-757 10-51 (55)
29 3slz_A GAG-Pro-POL polyprotein 95.3 0.0086 2.9E-07 60.9 3.3 50 889-944 33-82 (132)
30 3ec0_A Protease; HIV-2, inhibi 95.2 0.034 1.2E-06 53.4 7.1 60 889-957 19-78 (99)
31 1dsq_A Nucleic acid binding pr 95.2 0.0072 2.5E-07 43.5 1.9 20 721-740 2-21 (26)
32 3ts2_A Protein LIN-28 homolog 95.2 0.0094 3.2E-07 62.2 3.4 41 688-740 97-138 (148)
33 2kq2_A Ribonuclease H-related 95.1 0.014 4.7E-07 61.1 4.6 77 1623-1715 6-87 (147)
34 1zbf_A Ribonuclease H-related 95.1 0.012 4.2E-07 61.0 4.0 83 1623-1726 11-101 (142)
35 2cqf_A RNA-binding protein LIN 95.1 0.012 4.1E-07 52.1 3.3 37 721-757 7-47 (63)
36 2ehg_A Ribonuclease HI; RNAse 95.1 0.052 1.8E-06 56.8 8.8 77 1624-1716 2-87 (149)
37 1nc8_A Nucleocapsid protein; H 95.0 0.0063 2.2E-07 45.0 1.1 22 720-741 5-26 (29)
38 2ihx_A Nucleocapsid (NC) prote 94.9 0.0092 3.1E-07 52.5 2.0 37 721-757 4-48 (61)
39 2hah_A Protease, retropepsin; 94.5 0.052 1.8E-06 53.8 6.4 67 889-958 24-93 (116)
40 1cl4_A Protein (GAG polyprotei 94.5 0.012 4.1E-07 51.6 1.6 36 722-757 2-48 (60)
41 3ts2_A Protein LIN-28 homolog 93.5 0.032 1.1E-06 58.2 3.0 39 721-759 97-139 (148)
42 1a6b_B Momulv, zinc finger pro 93.5 0.031 1.1E-06 44.4 2.0 22 720-741 9-30 (40)
43 3nyb_B Protein AIR2; polya RNA 93.4 0.026 9E-07 52.7 1.8 41 689-741 25-66 (83)
44 2e4l_A Ribonuclease HI, RNAse 93.1 0.15 5E-06 54.0 7.4 71 1623-1715 6-82 (158)
45 3h08_A RNH (ribonuclease H); R 93.1 0.055 1.9E-06 56.4 4.0 71 1623-1715 4-80 (146)
46 3p1g_A Xenotropic murine leuke 92.8 0.24 8.2E-06 52.7 8.4 80 1621-1727 21-108 (165)
47 1jl1_A Ribonuclease HI; RNAse 92.3 0.066 2.3E-06 56.4 3.3 71 1623-1715 4-80 (155)
48 2qkb_A Ribonuclease H1, HS-RNA 92.2 0.18 6E-06 53.0 6.5 42 1666-1715 47-88 (154)
49 2rsp_A RSV protease; hydrolase 92.2 0.074 2.5E-06 53.3 3.2 52 888-944 30-86 (124)
50 1u6p_A GAG polyprotein; MLV, A 91.2 0.11 3.8E-06 44.5 2.8 20 721-740 23-42 (56)
51 3ka2_A [L-Ala51;Gly51']HIV-1 p 91.1 0.34 1.2E-05 52.7 7.2 68 875-956 10-77 (203)
52 3hst_B Protein RV2228C/MT2287; 90.9 0.17 5.9E-06 52.0 4.6 73 1-81 49-125 (141)
53 1ril_A Ribonuclease H; hydrola 90.6 0.16 5.6E-06 54.1 4.2 71 1623-1715 8-84 (166)
54 3qio_A GAG-POL polyprotein; RN 90.6 0.11 3.7E-06 54.5 2.7 67 1622-1715 11-83 (150)
55 3u3g_D Ribonuclease H, RNAse H 89.9 0.33 1.1E-05 49.6 5.7 69 1-77 48-124 (140)
56 2ehg_A Ribonuclease HI; RNAse 88.4 0.24 8.1E-06 51.6 3.4 76 1-84 51-129 (149)
57 3ka2_A [L-Ala51;Gly51']HIV-1 p 87.5 0.83 2.8E-05 49.7 6.8 61 889-958 123-183 (203)
58 3sqf_A Protease; folded monome 87.0 0.35 1.2E-05 47.6 3.3 37 889-930 20-60 (114)
59 2ysa_A Retinoblastoma-binding 85.4 0.23 8E-06 42.3 1.0 20 721-740 7-26 (55)
60 2lsn_A Reverse transcriptase; 82.5 2.5 8.5E-05 44.8 7.6 75 1620-1711 4-89 (165)
61 3liy_A Protease; hydrolase, hy 78.5 1.9 6.5E-05 42.2 4.5 49 876-929 13-64 (116)
62 2kq2_A Ribonuclease H-related 76.3 0.9 3.1E-05 47.2 1.8 66 1-76 53-119 (147)
63 2qkb_A Ribonuclease H1, HS-RNA 75.9 1 3.4E-05 47.2 2.0 68 1-76 53-133 (154)
64 1a6b_B Momulv, zinc finger pro 72.7 1.5 5.1E-05 34.9 1.7 21 687-707 9-30 (40)
65 4htu_A Ribonuclease H, RNAse H 72.0 1.3 4.6E-05 45.0 1.7 35 1-44 48-82 (134)
66 3kyl_A Telomerase reverse tran 70.9 8.6 0.00029 47.1 8.5 146 1216-1388 240-407 (596)
67 1u6p_A GAG polyprotein; MLV, A 68.2 3.5 0.00012 35.3 3.2 22 686-707 21-43 (56)
68 2jys_A Protease/reverse transc 66.1 9.5 0.00033 35.5 5.8 61 873-944 7-68 (107)
69 1jl1_A Ribonuclease HI; RNAse 65.3 2.7 9.2E-05 44.0 2.4 50 27-76 63-125 (155)
70 1zbf_A Ribonuclease H-related 60.7 3.1 0.00011 42.9 1.8 37 1-46 54-90 (142)
71 2e4l_A Ribonuclease HI, RNAse 59.1 6.6 0.00022 41.1 4.1 50 27-76 65-127 (158)
72 3qio_A GAG-POL polyprotein; RN 57.0 6.5 0.00022 40.9 3.5 64 1-76 52-129 (150)
73 3p1g_A Xenotropic murine leuke 56.6 13 0.00045 39.2 5.9 62 1-77 66-134 (165)
74 3oym_A PFV integrase, P42IN; p 54.1 2 6.8E-05 52.0 -1.2 64 312-389 68-132 (395)
75 2zd1_A Reverse transcriptase/r 52.5 11 0.00038 47.9 5.4 63 1-76 479-542 (557)
76 3h08_A RNH (ribonuclease H); R 48.3 18 0.00062 37.0 5.3 19 26-44 62-80 (146)
77 1mu2_A HIV-2 RT; HIV-2 reverse 47.7 24 0.00084 44.7 7.4 81 1580-1681 292-374 (555)
78 1ril_A Ribonuclease H; hydrola 47.0 7.4 0.00025 41.1 2.0 49 27-75 67-129 (166)
79 1dsq_A Nucleic acid binding pr 44.7 9.5 0.00032 27.2 1.6 18 689-706 3-21 (26)
80 3f9k_A Integrase; protein-prot 39.8 5.9 0.0002 43.3 -0.1 23 324-348 25-47 (210)
81 2ysa_A Retinoblastoma-binding 39.0 13 0.00043 31.8 1.8 19 687-705 6-25 (55)
82 1nc8_A Nucleocapsid protein; H 39.0 13 0.00045 27.1 1.7 19 688-706 6-25 (29)
83 2pma_A Uncharacterized protein 32.5 45 0.0015 34.3 5.0 24 889-912 19-42 (146)
84 2lsn_A Reverse transcriptase; 27.4 53 0.0018 34.5 4.7 71 1-76 55-139 (165)
85 3alr_A Nanos protein; zinc-fin 25.8 21 0.00071 34.0 1.1 42 686-740 34-93 (106)
86 3g21_A GAG polyprotein, capsid 20.6 2.5E+02 0.0086 25.5 6.8 60 446-506 12-75 (77)
87 3hph_A Integrase, IN; protein- 20.1 15 0.00052 40.1 -1.3 24 324-349 24-47 (219)
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=1.2e-40 Score=418.92 Aligned_cols=376 Identities=16% Similarity=0.148 Sum_probs=279.0
Q ss_pred chhhHHHHHHHHHHHHhcCCeeecCCCCCCCCCceeeccccccCCCCCCCceEEeecCCccccCCCCcccccccCccccc
Q psy15380 1129 NINLRCDYNQAMTDLIDNGFMVKCASLDQGDLNGYFIPHHVVTKPDSPSSKMRIVYDASTKTSSGKSLNDILHAGSKMYN 1208 (1738)
Q Consensus 1129 ~p~l~~~y~~~i~e~l~~G~ie~v~~~~~~~~~~~y~Ph~~V~k~~~~ttk~Riv~D~sa~~~~~~sLN~~l~~gp~~~~ 1208 (1738)
+|+.+++|+++|++|++.|+|+++.++ |++|+++|.|++ ++++|+|+|+|. ||+.+.++++++|
T Consensus 48 ~~~~~~~~~~~i~~ll~~G~I~~~~sp-------~~spv~~V~Kk~--~g~~R~~~D~r~-------LN~~~~~~~~~lp 111 (455)
T 1rw3_A 48 SQEARLGIKPHIQRLLDQGILVPCQSP-------WNTPLLPVKKPG--TNDYRPVQDLRE-------VNKRVEDIHPTVP 111 (455)
T ss_dssp CTTHHHHSHHHHHHHHHTTSEEEECCS-------CBBCEECCCCSS--SSCCCCEECTHH-------HHHTBCCCCCCCC
T ss_pred CHHHHHHHHHHHHHHHhCCCEEecCCc-------ccCceEEEeccC--CCcEEEchhHHH-------HHhhccCCCCCCC
Confidence 478899999999999999999999775 999999999873 349999999964 8999999999999
Q ss_pred hhHHHhhhcc-cCcceeecccccceeeeEecccCcceEEEEeccCCcccceEEEEEEeeeccccchHHHHHHHHHHHHhh
Q psy15380 1209 DLFCILLKFR-LFPYALNGDITKMFLQIKLLSDYWKFQKILWRFSNKEKIDVYELRVVIFGTKASPYLAQRTVKQLIDDE 1287 (1738)
Q Consensus 1209 ~l~~iL~r~r-~~~~~~~~Dl~kaf~qv~l~~~dr~~~~f~w~~~~~~~~~~y~f~r~pFGl~~SP~~~~~~l~~~l~~~ 1287 (1738)
.+.++|.+++ ++++|+++|+++|||||+|+|+|+++|+|.|+....++.+.|+|+|||||+++||++||++|+.++.+.
T Consensus 112 ~~~~ll~~l~~~~~~~s~lDl~~~y~qi~l~~~d~~~taF~~~~p~~~~~g~y~~~~mpfGl~naP~~fq~~m~~~l~~~ 191 (455)
T 1rw3_A 112 NPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADF 191 (455)
T ss_dssp CHHHHHTTCCTTCCEEEEEEBTTGGGGSBBCSTTSGGGCEEECTTSSSCCEEEEESBCCSSCTTHHHHHHHHHHHHHHHH
T ss_pred CHHHHhhhhccCCceEEecchhhhheeEeccccccceeEEeecCCCCCCCceEEEEecCCCCCCcHHHHHHHHHHHHHHh
Confidence 9999999997 999999999999999999999999999999985555678899999999999999999999999999988
Q ss_pred hhcCcccccccccceeccceeeecCCHHHHHHHHHHHHHHHHhCCceEeeeccCChHhhhcCCCccchhhccccCCCCCC
Q psy15380 1288 SKNFPLACQYIGESLYMDDCVISFPSQKEAIEFFNQTVKLFASGGFRFTKWSSNSPEILEQIPIHDRLAEMVSWHTDDFS 1367 (1738)
Q Consensus 1288 ~~~~p~~~~~i~~~~YvDDili~~~s~ee~~~~~~~v~~~l~~~Gf~l~k~~SN~~~vl~~i~~~~~~~~~~~~~~~~~~ 1367 (1738)
...++. ..+..|||||+|+++|.+||.+++++++++|+++||.++ ++ +.. .....
T Consensus 192 ~~~~~~----~~v~~YvDDili~s~~~~e~~~~l~~v~~~l~~~gl~l~------~~-------K~~--------f~~~~ 246 (455)
T 1rw3_A 192 RIQHPD----LILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRAS------AK-------KAQ--------ICQKQ 246 (455)
T ss_dssp HHTCTT----CEEEEETTEEEEEESSHHHHHHHHHHHHHHHHHHTCCBC------GG-------GCC--------CSBSS
T ss_pred hhhCCC----ceEEEEcCCEEEecCCHHHHHHHHHHHHHHHHHcCCccC------cc-------chh--------hhccc
Confidence 765542 235679999999999999999999999999999999982 11 110 11245
Q ss_pred ceEeeeEEeccCCeEEEEec------CCCCCCCccccccc--ccccchhHHHHHHHHHHHHHhhccCCCCCCCchhhhHH
Q psy15380 1368 HKILGMLWNTSSDSLFFKIN------GLSKPLTKRGHTRV--NFGLLAPVILWAKLLIRELCILKLDWDSIPPPHLVQLW 1439 (1738)
Q Consensus 1368 ~k~LGi~W~~~~D~l~~~~~------~~~~~~TkR~vls~--plG~~~p~~l~~k~~ls~l~~~~~~Wd~~l~~~~~~~w 1439 (1738)
.++||+.|+... +..... ....+.|++++.+. .+|++.+.+-.+.
T Consensus 247 ~~fLG~~i~~~g--i~~~~~kv~~i~~~~~p~t~k~l~~flG~~~y~r~fi~~~~------------------------- 299 (455)
T 1rw3_A 247 VKYLGYLLKEGQ--RWLTEARKETVMGQPTPKTPRQLREFLGTAGFCRLWIPGFA------------------------- 299 (455)
T ss_dssp CEETTEEESSSE--ECCCTTCCCCCCCCCTTTHHHHHHHTTTTTCCCSSCCCCCG-------------------------
T ss_pred eeEeeeeccCCe--eEEChhHhhhhccCCCCCCHHHhhhhcccchHHHHHHhhhh-------------------------
Confidence 799999987543 222111 11145566666443 2333333222211
Q ss_pred HHHhhhcccccccccCcccchhhhccccCCCCCCCCchhhhhccCCCCCCCCCchhhHHHHHHHhhcCCcccccccCCCC
Q psy15380 1440 QTFQAQLPLLESLAFPRHIGVYLRRKNKMGKPQNVDKDDKILMNGFSKPRRNGRHFVILLRRLVEKTGGLKIQFKNTSSS 1519 (1738)
Q Consensus 1440 ~~~~~~~~~~~~~~~pr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1519 (1738)
.+.-| +- .++.+
T Consensus 300 -----------~~~~p--L~-------------------------------------~llkk------------------ 311 (455)
T 1rw3_A 300 -----------EMAAP--LY-------------------------------------PLTKT------------------ 311 (455)
T ss_dssp -----------GGCCT--TC-------------------------------------C----------------------
T ss_pred -----------hhccc--HH-------------------------------------HHhcC------------------
Confidence 11122 10 00000
Q ss_pred cccccccccCceeeecccchhhhhhhcccccccccccCccccchhHHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHH
Q psy15380 1520 TNLFRFREVGSLVYYDSYFNEIYISRRERENSCIESSTGRGLLAPVILWAKLLIRELCILKLDWDSIPPHHLVQLWQTFQ 1599 (1738)
Q Consensus 1520 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~plg~~~~~~~~~k~l~q~l~~~~~~WD~~l~~~~~~~w~~~~ 1599 (1738)
.....|++.. ...|..+.
T Consensus 312 ----------------------------------------------------------~~~~~W~~~~----~~af~~lK 329 (455)
T 1rw3_A 312 ----------------------------------------------------------GTLFNWGPDQ----QKAYQEIK 329 (455)
T ss_dssp --------------------------------------------------------------CCCCCC----SSSCCHHH
T ss_pred ----------------------------------------------------------CCCcCchHHH----HHHHHHHH
Confidence 0123455432 23344555
Q ss_pred HhcCCCCcEEEeeeeeccCCCceeeeeecccccccceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHH
Q psy15380 1600 AQLPLLESLAFPRHIGVYKDCKFQLIGFSDASEKGYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILL 1679 (1738)
Q Consensus 1600 ~~l~~l~~~~ipR~~~~~~~~~~~L~~F~DAS~~ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~ 1679 (1738)
+.|.....+..| +...++++|||||..|+|||++-+ .+|...+...+||....+.++++++++||+|++.
T Consensus 330 ~~l~~~pvL~~p-------~~~~~~~l~~DAS~~~~gavL~q~---~~~~~~~i~y~Sk~l~~~e~~ys~~ekEllAi~~ 399 (455)
T 1rw3_A 330 QALLTAPALGLP-------DLTKPFELFVDEKQGYAKGVLTQK---LGPWRRPVAYLSKKLDPVAAGWPPCLRMVAAIAV 399 (455)
T ss_dssp HHTCSSCCSCCS-------SSCCTTSCEEEEEECSSSBEECCB---CTTTTCCCCCCCBCSCSSCSSSCCSSHHHHHHHH
T ss_pred HHhhcCcccccC-------CCCCcEEEEEeccCCcceeEEEEe---cCCcEEEEEEEcccCCccccccchHHHHHHHHHH
Confidence 555553222222 234578999999999999987743 3566667778888888888899999999999999
Q ss_pred HHHHHHHHHHhcCCCCCcccEEEEechhhhHHhhcCCCccc
Q psy15380 1680 MSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHSPSHLF 1720 (1738)
Q Consensus 1680 ~~~l~~~~~~~l~~~~~~~~~~~~tDS~i~l~~i~~~~~~~ 1720 (1738)
|++...... . -..+.++||+. +++|++++..+|
T Consensus 400 a~~~~~~yl---~----g~~~~v~tDh~-~~~~l~~~~~~~ 432 (455)
T 1rw3_A 400 LTKDAGKLT---M----GQPLVIKAPHA-VEALVKQPPDRW 432 (455)
T ss_dssp HHHHHHGGG---C----SSCEEEECSSC-TTTTSSSTTTTT
T ss_pred HHHHHHHHc---C----CCcEEEEecCh-HHHHhCCCcccc
Confidence 987665432 2 24789999998 999999876544
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=7.8e-34 Score=365.08 Aligned_cols=449 Identities=14% Similarity=0.044 Sum_probs=296.7
Q ss_pred chhhHHHHHHHHHHHHhcCCeeecCCCCCCCCCceeeccccccCCCCCCCceEEeecCCccccCCCCccccccc---Ccc
Q psy15380 1129 NINLRCDYNQAMTDLIDNGFMVKCASLDQGDLNGYFIPHHVVTKPDSPSSKMRIVYDASTKTSSGKSLNDILHA---GSK 1205 (1738)
Q Consensus 1129 ~p~l~~~y~~~i~e~l~~G~ie~v~~~~~~~~~~~y~Ph~~V~k~~~~ttk~Riv~D~sa~~~~~~sLN~~l~~---gp~ 1205 (1738)
+|+.+++++++|++|++.|+|+++++. ..|.+|+++|.|+++ +|+|+|+|+|. ||+.+.+ +.+
T Consensus 29 ~~~~~~~~~~~i~~ll~~G~I~~v~s~-----s~~~spv~~V~Kk~g--~k~R~~vD~r~-------LN~~t~~~~~~~~ 94 (557)
T 2zd1_A 29 TEEKIKALVEICTEMEKEGKISKIGPE-----NPYNTPVFAIKKKDS--TKWRKLVDFRE-------LNKRTQDFWEVQL 94 (557)
T ss_dssp CHHHHHHHHHHHHHHHHTTSEEECCSC-----CCCBBCEEEEECSSC--SCEEEEECCHH-------HHHHBCCCCCTTS
T ss_pred CHHHHHHHHHHHHHHHHCCCEEECCCC-----CCCcCCeEEEECCCC--CceEEEEEhHH-------HhhhccccccccC
Confidence 478899999999999999999998542 159999999999875 59999999964 8999999 899
Q ss_pred ccchhHHHhhhcccCcceeecccccceeeeEecccCcceEEEEeccC-CcccceEEEEEEeeeccccchHHHHHHHHHHH
Q psy15380 1206 MYNDLFCILLKFRLFPYALNGDITKMFLQIKLLSDYWKFQKILWRFS-NKEKIDVYELRVVIFGTKASPYLAQRTVKQLI 1284 (1738)
Q Consensus 1206 ~~~~l~~iL~r~r~~~~~~~~Dl~kaf~qv~l~~~dr~~~~f~w~~~-~~~~~~~y~f~r~pFGl~~SP~~~~~~l~~~l 1284 (1738)
++|.+.+ ++++++|+++|+.+|||||+|+++|+++|+|.|.+. +.++.+.|+|+|||||+++||++||++|+.++
T Consensus 95 plP~i~~----l~~~~~~s~lDl~~~y~qi~l~~~d~~~taF~~p~~~~~t~~g~y~~~~mPfGl~nap~~fq~~m~~il 170 (557)
T 2zd1_A 95 GIPHPAG----LKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKIL 170 (557)
T ss_dssp SCCCGGG----SCCCSEEEEEECTTGGGGSBCCTTTGGGGCEEECCGGGCSCCEEEEESBCCTTCTTHHHHHHHHHHHHH
T ss_pred CCCCchh----hcCCCeeEEehhhhhhheeEcCccccceeEEEeecCCCCCCceEEEEEeeCCCCCCHHHHHHHHHHHHH
Confidence 9999876 489999999999999999999999999999999765 34688899999999999999999999999999
Q ss_pred HhhhhcCcccccccccceeccceeeecC-CHHHHHHHHHHHHHHHHhCCceEeeeccCChHhhhcCCCccchhhccccCC
Q psy15380 1285 DDESKNFPLACQYIGESLYMDDCVISFP-SQKEAIEFFNQTVKLFASGGFRFTKWSSNSPEILEQIPIHDRLAEMVSWHT 1363 (1738)
Q Consensus 1285 ~~~~~~~p~~~~~i~~~~YvDDili~~~-s~ee~~~~~~~v~~~l~~~Gf~l~k~~SN~~~vl~~i~~~~~~~~~~~~~~ 1363 (1738)
.++.+.+|. +.+..|||||+|+++ +.+||.+++++++++|+++||.+ |..+ .. .
T Consensus 171 ~~~~~~~~~----~~v~~Y~DDIli~s~~~~~eh~~~l~~v~~~l~~~gl~l-----~~~K--------c~--------f 225 (557)
T 2zd1_A 171 EPFAAQNPD----IVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTT-----PDKK--------HQ--------K 225 (557)
T ss_dssp HHHHHTCTT----EEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHTTTCCC-----CCSC--------CS--------C
T ss_pred HHhhhcCCC----ceEEEEecCEEEecCchHHHHHHHHHHHHHHHHHcCCcc-----Chhh--------cC--------C
Confidence 999887664 235679999999999 69999999999999999999987 2111 10 1
Q ss_pred CCCCceEeeeEEeccCCeEEEEecCCC--CCCCccccccc--cccc---chhHHHHHHHHHHHHHhhccC--CCCCCCch
Q psy15380 1364 DDFSHKILGMLWNTSSDSLFFKINGLS--KPLTKRGHTRV--NFGL---LAPVILWAKLLIRELCILKLD--WDSIPPPH 1434 (1738)
Q Consensus 1364 ~~~~~k~LGi~W~~~~D~l~~~~~~~~--~~~TkR~vls~--plG~---~~p~~l~~k~~ls~l~~~~~~--Wd~~l~~~ 1434 (1738)
....+.||+...... +........ ...|++++.++ -+|+ |.|-.- .+. |..+.++..+ -.-.++++
T Consensus 226 -~~~~~fLG~~i~~~g--i~~~~~k~~~~~~~t~k~lr~flG~~~~yrrfi~~~~-~~p-l~~ll~~~~~~~~~~~Wt~~ 300 (557)
T 2zd1_A 226 -EPPFLWMGYELHPDK--WTVQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIK-VRQ-LSKLLRGTKALTEVIPLTEE 300 (557)
T ss_dssp -CSSEEETTEEECSSC--EEESCCCCCCCSCEEHHHHHHHHHHHHHHTTTSTTCC-CHH-HHGGGTTCCCTTCEECCCHH
T ss_pred -CCceEEeeEEEccCc--EEEcceecccccCCCHHHHHHHhhHHHhhhhhccchh-HHH-HHHHhcccCCCCCceecCHH
Confidence 134789999976543 333221111 22366666553 1222 222111 133 3333333211 12245588
Q ss_pred hhhHHHHHhhhcccccccccCcccchhhhccccCCCCC-CCCchhhhhc-cCCCCCCCCCchhhHHHHHHHhhcCCcccc
Q psy15380 1435 LVQLWQTFQAQLPLLESLAFPRHIGVYLRRKNKMGKPQ-NVDKDDKILM-NGFSKPRRNGRHFVILLRRLVEKTGGLKIQ 1512 (1738)
Q Consensus 1435 ~~~~w~~~~~~~~~~~~~~~pr~~~~~~~~~~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1512 (1738)
.++.++.+...|.+.+.|+.|.- .+|- .+.|+|+.+. ++...+.+. ..
T Consensus 301 ~~~af~~lK~~L~~~p~L~~pd~-----------~~~~~l~~das~~g~~g~vl~q~~~----------------~~--- 350 (557)
T 2zd1_A 301 AELELAENREILKEPVHGVYYDP-----------SKDLIAEIQKQGQGQWTYQIYQEPF----------------KN--- 350 (557)
T ss_dssp HHHHHHHHHHHTSSCCCBCCCCT-----------TSCCEEEEEEEETTEEEEEEEEETT----------------EE---
T ss_pred HHHHHHHHHHHHhCccceeecCC-----------CCCEEEEEecCCCCcEEEEEecCCC----------------ce---
Confidence 99999999999988887777732 2222 3455555443 333222110 00
Q ss_pred cccCCCCcccccccccCceeeecccchhhhhhhcccccccccccCccccchhHHHHHHHHHHHHHhcCCCCCCCCChhhH
Q psy15380 1513 FKNTSSSTNLFRFREVGSLVYYDSYFNEIYISRRERENSCIESSTGRGLLAPVILWAKLLIRELCILKLDWDSIPPHHLV 1592 (1738)
Q Consensus 1513 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~plg~~~~~~~~~k~l~q~l~~~~~~WD~~l~~~~~ 1592 (1738)
+ .|| .|- + |+...-. -+-++|-++...+..-..++.....+. +|.. .
T Consensus 351 ----------~---~~~---~~~--------~--~~~y~~~----e~e~la~vv~~l~~~~~~l~g~~p~~~--vp~~-~ 397 (557)
T 2zd1_A 351 ----------L---KTG---KYA--------R--MRGAHTN----DVKQLTEAVQKITTESIVIWGKTPKFK--LPIQ-K 397 (557)
T ss_dssp ----------E---EEE---EEE--------C--CSCSEEC----HHHHHHHHHHHHHHHHHHHHSSCCEEE--ESBC-H
T ss_pred ----------e---eee---ecc--------c--ccccCCC----hHHHHHHHHHHhhhhheEEeCCCCCEE--CCCc-H
Confidence 0 001 111 0 1111100 122334344555555455554433332 3222 2
Q ss_pred HHHHHHHHhcCCCCcEEEeeeee------------c-cCCCceeeeeeccccc------ccceeEEEEEEecCCCcEEEE
Q psy15380 1593 QLWQTFQAQLPLLESLAFPRHIG------------V-YKDCKFQLIGFSDASE------KGYGALIFSRVSLPNGSIVIQ 1653 (1738)
Q Consensus 1593 ~~w~~~~~~l~~l~~~~ipR~~~------------~-~~~~~~~L~~F~DAS~------~ayga~vy~r~~~~~g~~~~~ 1653 (1738)
..|..|..+-..+.- +||.-. . .....-.+.+|+|||- .|||++++ +|.....
T Consensus 398 ~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~ep~~~~~~iytDGs~~~n~g~~g~g~v~~------~~~~~~~ 469 (557)
T 2zd1_A 398 ETWETWWTEYWQATW--IPEWEFVNTPPLVKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTN------KGRQKVV 469 (557)
T ss_dssp HHHHHHHHHCSSCCC--CCSEEECCCSSCBCCCCCCCSSCCTTSCEEEEEEEECTTTCCEEEEEEET------TSCEEEE
T ss_pred HHHHHHhhhchhhhc--CCchhhcCCcHHHHHHHhcccCCCCCCEEEEEccCCCCCCCceEEEEEEE------CCcEEEe
Confidence 356666655544321 233211 0 0012234889999985 34554443 2332221
Q ss_pred EEeeccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCCCCcccEEEEechhhhHHhhcCCC
Q psy15380 1654 LICAKSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHSPS 1717 (1738)
Q Consensus 1654 l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~~~~~~~~~~tDS~i~l~~i~~~~ 1717 (1738)
+....|-.+.||.|++.|++++ ...+.++|||+.|+..|.+..
T Consensus 470 ---------~~~~~TNn~aEl~Ai~~aL~~~------------~~~v~I~tDS~~vi~~i~~~~ 512 (557)
T 2zd1_A 470 ---------PLTNTTNQKTELQAIYLALQDS------------GLEVNIVTDSQYALGIIQAQP 512 (557)
T ss_dssp ---------EECSCCHHHHHHHHHHHHHHHS------------CSEEEEEECCHHHHHHHTTCC
T ss_pred ---------cCCCCCHHHHHHHHHHHHHHhC------------CCcEEEEeChHHHHHHHhcCC
Confidence 1234689999999999999876 357899999999999998743
No 3
>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=4.7e-34 Score=366.99 Aligned_cols=450 Identities=15% Similarity=0.075 Sum_probs=294.0
Q ss_pred chhhHHHHHHHHHHHHhcCCeeecCCCCCCCCCceeeccccccCCCCCCCceEEeecCCccccCCCCcccccccC---cc
Q psy15380 1129 NINLRCDYNQAMTDLIDNGFMVKCASLDQGDLNGYFIPHHVVTKPDSPSSKMRIVYDASTKTSSGKSLNDILHAG---SK 1205 (1738)
Q Consensus 1129 ~p~l~~~y~~~i~e~l~~G~ie~v~~~~~~~~~~~y~Ph~~V~k~~~~ttk~Riv~D~sa~~~~~~sLN~~l~~g---p~ 1205 (1738)
+|+.+++++++|++|++.|+|+++++. ..|.+|+++|.|+++ +|+|+|+|+|+ ||+.+..+ .+
T Consensus 27 ~~~~~~~~~~~i~~ll~~G~I~~~~~~-----s~~~spv~~V~Kk~g--~k~R~~vD~r~-------LN~~t~~~~~~~~ 92 (555)
T 1mu2_A 27 TKEKIEALKEICEKMEKEGQLEEAPPT-----NPYNTPTFAIKKKDK--NKWRMLIDFRE-------LNKVTQDFTEIQL 92 (555)
T ss_dssp CHHHHHHHHHHHHHHHHHTSEEECCTT-----CCCBBCEEECCCCC------CEEECTHH-------HHHHBCCCCCCCC
T ss_pred CHHHHHHHHHHHHHHHHCCCeEECCCC-----CCCCCceEEecCCCC--CceEEEEehHH-------hhhhCcccccccC
Confidence 478899999999999999999998432 149999999999874 48999999965 79999987 78
Q ss_pred ccchhHHHhhhcccCcceeecccccceeeeEecccCcceEEEEeccC-CcccceEEEEEEeeeccccchHHHHHHHHHHH
Q psy15380 1206 MYNDLFCILLKFRLFPYALNGDITKMFLQIKLLSDYWKFQKILWRFS-NKEKIDVYELRVVIFGTKASPYLAQRTVKQLI 1284 (1738)
Q Consensus 1206 ~~~~l~~iL~r~r~~~~~~~~Dl~kaf~qv~l~~~dr~~~~f~w~~~-~~~~~~~y~f~r~pFGl~~SP~~~~~~l~~~l 1284 (1738)
++|.+.+ ++++++|+++|+++|||||+|+++|+++|+|.|... +.++.+.|+|+|||||+++||++||++|+.++
T Consensus 93 ~lP~~~~----l~~~~~~s~lDl~~~y~qI~l~~~d~~~taF~~p~~~~~~~~g~y~~~~mPfGl~napa~fq~~m~~il 168 (555)
T 1mu2_A 93 GIPHPAG----LAKKRRITVLDVGDAYFSIPLHEDFRPYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQHTMRQVL 168 (555)
T ss_dssp SCCCGGG----SBCCSEEEEEECBSSGGGSBCCTTTGGGGCEEC---------CEEEESBCCTTCTTHHHHHHHHHHHHH
T ss_pred CCCchhh----cCCCceEEEehhHhcceEEEeccCceeeeEEEeecCCCCCCceEEEEEEeCCCCCCcHHHHHHHHHHHH
Confidence 8888765 589999999999999999999999999999999753 33566799999999999999999999999999
Q ss_pred HhhhhcCcccccccccceeccceeeecC-CHHHHHHHHHHHHHHHHhCCceEeeeccCChHhhhcCCCccchhhccccCC
Q psy15380 1285 DDESKNFPLACQYIGESLYMDDCVISFP-SQKEAIEFFNQTVKLFASGGFRFTKWSSNSPEILEQIPIHDRLAEMVSWHT 1363 (1738)
Q Consensus 1285 ~~~~~~~p~~~~~i~~~~YvDDili~~~-s~ee~~~~~~~v~~~l~~~Gf~l~k~~SN~~~vl~~i~~~~~~~~~~~~~~ 1363 (1738)
.++.+.+|. +.+..|||||+|+++ +.+||.+++++++++|+++||.+ |..+ ..
T Consensus 169 ~~~~~~~~~----~~v~~Y~DDIli~s~~~~~eh~~~l~~v~~~l~~~gl~l-----~~~K--------~~--------- 222 (555)
T 1mu2_A 169 EPFRKANKD----VIIIQYMDDILIASDRTDLEHDRVVLQLKELLNGLGFST-----PDEK--------FQ--------- 222 (555)
T ss_dssp HHHHHHCTT----SEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHTTCBC-----CSTT--------EE---------
T ss_pred HHHHhhCCC----cEEEEEecceEEecCCCHHHHHHHHHHHHHHHHHcCCcc-----CHHH--------hc---------
Confidence 999887653 235679999999999 79999999999999999999998 2211 10
Q ss_pred CCCCceEeeeEEeccCCeEEEEecCCC--CCCCccccccc--ccccchhHHHHH-HHHHHHHHhhccC--CCCCCCchhh
Q psy15380 1364 DDFSHKILGMLWNTSSDSLFFKINGLS--KPLTKRGHTRV--NFGLLAPVILWA-KLLIRELCILKLD--WDSIPPPHLV 1436 (1738)
Q Consensus 1364 ~~~~~k~LGi~W~~~~D~l~~~~~~~~--~~~TkR~vls~--plG~~~p~~l~~-k~~ls~l~~~~~~--Wd~~l~~~~~ 1436 (1738)
.....+.||+.... +.+........ .+.|++++.++ -+|++...+-.+ -..|..|.+++.+ -.-.++++.+
T Consensus 223 ~~~~~~fLG~~i~~--~gi~~~~~ki~~i~~~t~k~lr~flG~~~~~rrfi~~~~~~pL~~llk~~~~~~~~~~wt~~~~ 300 (555)
T 1mu2_A 223 KDPPYHWMGYELWP--TKWKLQKIQLPQKEIWTVNDIQKLVGVLNWAAQLYPGIKTKHLCRLISGKMTLTEEVQWTELAE 300 (555)
T ss_dssp CSSSEEETTEEECS--SEEEECCCCCCCCSSCBHHHHHHHHHHHHHHHHHSTTCCCHHHHTTSCSSSCTTCBCCCCHHHH
T ss_pred cCCceeEEeEEEeC--CceeccccccCcCCCCCHHHHHhHhhhhhhhhhccCccchHHHHHHhccCCCCCCcccCCHHHH
Confidence 12458999998754 44443322111 35577776554 133322221111 1233444443311 1224568899
Q ss_pred hHHHHHhhhcccccccccCcccchhhhccccCCCCC-CCCchhhhh-ccCCCCCCCCCchhhHHHHHHHhhcCCcccccc
Q psy15380 1437 QLWQTFQAQLPLLESLAFPRHIGVYLRRKNKMGKPQ-NVDKDDKIL-MNGFSKPRRNGRHFVILLRRLVEKTGGLKIQFK 1514 (1738)
Q Consensus 1437 ~~w~~~~~~~~~~~~~~~pr~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1514 (1738)
+.++.+...|.+.+.|+.|.- ++|- .+.|+|+.+ +++...+....+.
T Consensus 301 ~af~~lK~~L~~~p~L~~p~~-----------~~~~~l~~das~~ga~g~vl~Q~~~~~~-------------------- 349 (555)
T 1mu2_A 301 AELEENRIILSQEQEGHYYQE-----------EKELEATVQKDQDNQWTYKIHQEEKILK-------------------- 349 (555)
T ss_dssp HHHHHHHHHHSCCEEEECBCT-----------TSCCEEEEEECSSSCEEEEEEETTEEEE--------------------
T ss_pred HHHHHHHHHHhhCccccccCC-----------CCCEEEEEecCCCCcEEEEEeeCCccee--------------------
Confidence 999999999998888887732 1222 345666664 5555544211000
Q ss_pred cCCCCcccccccccCceeeecccchhhhhhhcccccccccccCccccchhHHHHHHHHHHHHHhcCCCCCCCCChhhHHH
Q psy15380 1515 NTSSSTNLFRFREVGSLVYYDSYFNEIYISRRERENSCIESSTGRGLLAPVILWAKLLIRELCILKLDWDSIPPHHLVQL 1594 (1738)
Q Consensus 1515 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~plg~~~~~~~~~k~l~q~l~~~~~~WD~~l~~~~~~~ 1594 (1738)
+| +|-+ ++. .....+-.++-++...+.....+|...... .+|.. ...
T Consensus 350 -------------~~---~~s~----------~~~----~~~~~~~~la~~v~~l~~~~~~l~g~~~~~--~v~~~-~~~ 396 (555)
T 1mu2_A 350 -------------VG---KYAK----------VKN----THTNGIRLLAQVVQKIGKEALVIWGRIPKF--HLPVE-REI 396 (555)
T ss_dssp -------------EE---EECC----------C------CEECHHHHHHHHHHHHHHHHHHHHSSCCEE--EESBC-HHH
T ss_pred -------------ee---eccc----------ccc----ccCCHHHHHHHHHHHhchhheeeeCCCeeE--ECCcc-HHH
Confidence 01 1110 000 001123344545555566666666554322 23332 345
Q ss_pred HHHHHHhcCCCCc---EE---Eeeeeec-----cCCCceeeeeecccccc------cceeEEEEEEecCCCcEEEEEEee
Q psy15380 1595 WQTFQAQLPLLES---LA---FPRHIGV-----YKDCKFQLIGFSDASEK------GYGALIFSRVSLPNGSIVIQLICA 1657 (1738)
Q Consensus 1595 w~~~~~~l~~l~~---~~---ipR~~~~-----~~~~~~~L~~F~DAS~~------ayga~vy~r~~~~~g~~~~~l~~a 1657 (1738)
|..|..+-..+.- +. -||.+.- .....-.+.+|+|||-. |||++++ .|....
T Consensus 397 w~~~~td~~~l~~~p~~~~~~~~~~~~~~~~~~~~p~~~~~~iytDGs~~~n~g~~g~G~v~~------~~~~~~----- 465 (555)
T 1mu2_A 397 WEQWWDNYWQVTWIPDWDFVSTPPLVRLAFNLVGDPIPGAETFYTDGSCNRQSKEGKAGYVTD------RGKDKV----- 465 (555)
T ss_dssp HHHHHHHCSSBCCCCSEEECCCSSCBCCCCCEESSCCTTCEEEEEEEEECTTTCCEEEEEEET------TSCEEE-----
T ss_pred HHHhhhccchhhcCCcHHhccCCcccccccccCCCCCCCceEEEEcccccCCCCCceEEEEEE------eCCEee-----
Confidence 8888865543221 11 1222211 01123358899999853 3444432 122111
Q ss_pred ccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCCCCcccEEEEechhhhHHhhcC
Q psy15380 1658 KSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHS 1715 (1738)
Q Consensus 1658 Ksrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~~~~~~~~~~tDS~i~l~~i~~ 1715 (1738)
.+....|-.+.||.|++.|++. . ...+.++|||+.|+.+|.+
T Consensus 466 ----~~~~~~TNn~aEl~A~i~aL~~--------~----~~~v~I~tDS~~v~~~i~~ 507 (555)
T 1mu2_A 466 ----KKLEQTTNQQAELEAFAMALTD--------S----GPKVNIIVDSQYVMGIVAS 507 (555)
T ss_dssp ----EEESSCCHHHHHHHHHHHHHHT--------S----CSEEEEEESCHHHHHHHHT
T ss_pred ----ccCCCCCHHHHHHHHHHHHHHc--------C----CCeEEEEEehHHHHHHHhc
Confidence 1123468889999999999875 2 4689999999999999986
No 4
>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=99.97 E-value=9.6e-32 Score=333.71 Aligned_cols=185 Identities=18% Similarity=0.142 Sum_probs=164.1
Q ss_pred chhhHHHHHHHHHHHHhcCCeeecCCCCCCCCCceeeccccccCCCCCCCceEEeecCCccccCCCCccccccc---Ccc
Q psy15380 1129 NINLRCDYNQAMTDLIDNGFMVKCASLDQGDLNGYFIPHHVVTKPDSPSSKMRIVYDASTKTSSGKSLNDILHA---GSK 1205 (1738)
Q Consensus 1129 ~p~l~~~y~~~i~e~l~~G~ie~v~~~~~~~~~~~y~Ph~~V~k~~~~ttk~Riv~D~sa~~~~~~sLN~~l~~---gp~ 1205 (1738)
+|+.+++++++|++|++.|+|+++++. ..|.+|+++|.|+++ +|+|+|+|+|+ ||+.+.. +.+
T Consensus 27 ~~~~~~~~~~~i~~ll~~G~I~~v~s~-----s~~~sPv~~V~Kk~g--~k~R~~vD~r~-------LN~~t~~~~~~~~ 92 (428)
T 2zd1_B 27 TEEKIKALVEICTEMEKEGKISKIGPE-----NPYNTPVFAIKKKDS--TKWRKLVDFRE-------LNKRTQDFWEVQL 92 (428)
T ss_dssp CHHHHHHHHHHHHHHHHTTSEEECCTT-----CCCBBCEEEECCTTC--SSCEEEECTHH-------HHHHBCCCCCTTS
T ss_pred CHHHHHHHHHHHHHHHHCCCceECCCC-----CCccCceeeccCCCC--CceEEEEechH-------hcCcccccccccC
Confidence 468899999999999999999998542 159999999999985 59999999965 7999998 889
Q ss_pred ccchhHHHhhhcccCcceeecccccceeeeEecccCcceEEEEeccCC-cccceEEEEEEeeeccccchHHHHHHHHHHH
Q psy15380 1206 MYNDLFCILLKFRLFPYALNGDITKMFLQIKLLSDYWKFQKILWRFSN-KEKIDVYELRVVIFGTKASPYLAQRTVKQLI 1284 (1738)
Q Consensus 1206 ~~~~l~~iL~r~r~~~~~~~~Dl~kaf~qv~l~~~dr~~~~f~w~~~~-~~~~~~y~f~r~pFGl~~SP~~~~~~l~~~l 1284 (1738)
++|.+.+ ++++++|+++|+++|||||+|+++|+++|+|.|...+ .++.+.|+|+|||||+++||++||++|+.++
T Consensus 93 plP~i~~----l~~~~~~s~lDl~~gy~qI~l~~~d~~~taF~~p~~~~~t~~g~y~~~vmPfGl~nsPa~fq~~m~~il 168 (428)
T 2zd1_B 93 GIPHPAG----LKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKIL 168 (428)
T ss_dssp CCCCCTT----GGGSSEEEEEECGGGGGGSBCCTTTGGGGCEEECCGGGCSCCEEEEESBCCTTCTHHHHHHHHHHHHHH
T ss_pred CCCCchh----ccccceEEEeeccCceeeEEcCccccceeEEEeecCCCCCCCceEEEEeeCCCCcchHHHHHHHHHHHH
Confidence 9998876 5899999999999999999999999999999997653 4678899999999999999999999999999
Q ss_pred HhhhhcCcccccccccceeccceeeecCC-HHHHHHHHHHHHHHHHhCCceE
Q psy15380 1285 DDESKNFPLACQYIGESLYMDDCVISFPS-QKEAIEFFNQTVKLFASGGFRF 1335 (1738)
Q Consensus 1285 ~~~~~~~p~~~~~i~~~~YvDDili~~~s-~ee~~~~~~~v~~~l~~~Gf~l 1335 (1738)
.+..+.+++ +.+..|||||+|++++ .+||.++++.++++|+++||.+
T Consensus 169 ~~~~~~~~~----~~v~vY~DDIlI~s~~~~~eh~~~l~~v~~~l~~~gL~l 216 (428)
T 2zd1_B 169 EPFKKQNPD----IVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTT 216 (428)
T ss_dssp HHHHHHCTT----CEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHHHC--
T ss_pred HHHhhcCCC----ceEEEEecceEEecCCcHHHHHHHHHHHHHHHHHhCCcc
Confidence 998877653 2356799999999995 8999999999999999999998
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=99.97 E-value=9.2e-32 Score=312.35 Aligned_cols=187 Identities=18% Similarity=0.228 Sum_probs=167.9
Q ss_pred chhhHHHHHHHHHHHHhcCCeeecCCCCCCCCCceeeccccccCCCCCCCceEEeecCCccccCCCCcccccccCccccc
Q psy15380 1129 NINLRCDYNQAMTDLIDNGFMVKCASLDQGDLNGYFIPHHVVTKPDSPSSKMRIVYDASTKTSSGKSLNDILHAGSKMYN 1208 (1738)
Q Consensus 1129 ~p~l~~~y~~~i~e~l~~G~ie~v~~~~~~~~~~~y~Ph~~V~k~~~~ttk~Riv~D~sa~~~~~~sLN~~l~~gp~~~~ 1208 (1738)
.|+.+++++++|++|+++|+|+++.++ |++|+++|.|++ ++++|+|+|+|+ ||+.+.++++++|
T Consensus 44 ~~~~~~~~~~~i~~ll~~G~I~~~~sp-------~~sp~~~V~Kk~--~g~~R~~~D~r~-------LN~~t~~~~~~lp 107 (255)
T 3fsi_A 44 SQEARLGIKPHIQRLLDQGILVPCQSP-------WNTPLLPVKKPG--TNDYRPVQDLRE-------VNKRVEDIHPTVP 107 (255)
T ss_dssp CHHHHHHHHHHHHHHHHTTSEEEECCS-------CBCCBCCC---------CCCCBCCHH-------HHTTBCCCCCCSC
T ss_pred CHHHHHHHHHHHHHHHhCCeEEecCCC-------eECceeEeecCC--CCceeEEeEhhh-------hccccccCCCCCC
Confidence 468889999999999999999999764 999999999985 349999999964 7999999999999
Q ss_pred hhHHHhhhcc-cCcceeecccccceeeeEecccCcceEEEEeccCCcccceEEEEEEeeeccccchHHHHHHHHHHHHhh
Q psy15380 1209 DLFCILLKFR-LFPYALNGDITKMFLQIKLLSDYWKFQKILWRFSNKEKIDVYELRVVIFGTKASPYLAQRTVKQLIDDE 1287 (1738)
Q Consensus 1209 ~l~~iL~r~r-~~~~~~~~Dl~kaf~qv~l~~~dr~~~~f~w~~~~~~~~~~y~f~r~pFGl~~SP~~~~~~l~~~l~~~ 1287 (1738)
.+.++|.+++ ++++|+++||++|||||+|+++|+++|+|.|.+...++.+.|+|+|||||+++||++||++|+.++.+.
T Consensus 108 ~~~~ll~~l~~~~~~~s~lDl~~~y~qI~l~~~d~~~taF~~~~~~~t~~g~y~~~~mPfGl~~sP~~fq~~m~~il~~~ 187 (255)
T 3fsi_A 108 NPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADF 187 (255)
T ss_dssp CHHHHHTTCCTTCCEEEEEEBTTCGGGSBBCTTTGGGGCEECCCSSSCCSSEEEESBCCTTCTTHHHHHHHHHHHHTHHH
T ss_pred cHHHHHHHhhcCCcEEEEccccceeEeeecCccccCceEEEecCCCCCccceEEEEEeCCCCCCcHHHHHHHHHHHHHHH
Confidence 9999999999 999999999999999999999999999999987666788899999999999999999999999999988
Q ss_pred hhcCcccccccccceeccceeeecCCHHHHHHHHHHHHHHHHhCCceE
Q psy15380 1288 SKNFPLACQYIGESLYMDDCVISFPSQKEAIEFFNQTVKLFASGGFRF 1335 (1738)
Q Consensus 1288 ~~~~p~~~~~i~~~~YvDDili~~~s~ee~~~~~~~v~~~l~~~Gf~l 1335 (1738)
.+.++. ..+..|||||++++++.+||.+++++++++|+++||.+
T Consensus 188 ~~~~~~----~~v~~Y~DDili~s~~~eeh~~~l~~v~~~L~~~gl~l 231 (255)
T 3fsi_A 188 RIQHPD----LILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRA 231 (255)
T ss_dssp HHHCTT----CEEEEETTEEEEEESSHHHHHHHHHHHHHHHHHHTCCB
T ss_pred HHhCcC----cEEEEEcCCeEEEeCCHHHHHHHHHHHHHHHHHCCeEE
Confidence 765543 33578999999999999999999999999999999998
No 6
>3s8i_A Protein DDI1 homolog 1; protease, structural genomics, structural genomics consortiu retropepsin-like domain, protein turnover, hydrolase; 1.70A {Homo sapiens}
Probab=97.92 E-value=1.2e-05 Score=84.47 Aligned_cols=82 Identities=16% Similarity=0.185 Sum_probs=55.9
Q ss_pred eeeEEeeCCCCccccCHhhHhhhCCCcce-e--eeEEeeccCCCcceeceE-EEEEecccCCcceEEEEEEeeccccCCC
Q psy15380 889 EMRFLLDCASMSNILSLSACKQLGLKTLF-V--ATDLKGVGSISSPVQGQV-TMRFGSRFDKRYNYTIKALVVNHVVDKL 964 (1738)
Q Consensus 889 ~v~aLLDSGS~vS~Is~~la~~LgL~~~~-~--~i~I~g~g~~~~~~~~~v-~v~i~~~~~~~~~~~i~a~Vvp~i~~~l 964 (1738)
.+++|+||||+.|+|+.++|++|||+... . ...+.|.|+. ...+.+ .+.|++++ ..+.+.+.|++.
T Consensus 35 ~v~~LVDTGAs~s~Is~~~A~rlGL~~~~~~~~~~~a~g~G~~--~~~g~v~~~~I~Ig~---~~~~~~~~Vle~----- 104 (148)
T 3s8i_A 35 PLKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGVAKGVGTQ--RIIGRVHLAQIQIEG---DFLQCSFSILED----- 104 (148)
T ss_dssp EEEEEECTTCSSCEEEHHHHHHTTCGGGEEGGGCEECCC---C--EEEEEEEEEEEEETT---EEEEEEEEEETT-----
T ss_pred EEEEEEeCCCCcEeeCHHHHHHcCCccccCcceeEEEEcCCcc--EEEEEEEEEEEEECC---EEEEEEEEEeCC-----
Confidence 78999999999999999999999998642 2 3455666543 223333 35666655 345666766651
Q ss_pred CccccchhhhHHhhhhhcccCCcCCCCCCceeeeeccccccccc
Q psy15380 965 PVKSVDLSKLEYLQNIRHKLADDEFMEPGNICGILGAQIYPYLV 1008 (1738)
Q Consensus 965 P~~~i~~~~~~~l~~l~~~Ladp~~~~~~~idlLIG~D~~~~i~ 1008 (1738)
..+|+|||+|++..+-
T Consensus 105 ----------------------------~~~d~LLGmD~L~~~~ 120 (148)
T 3s8i_A 105 ----------------------------QPMDMLLGLDMLRRHQ 120 (148)
T ss_dssp ----------------------------CSSSEEECHHHHHHTT
T ss_pred ----------------------------CCcCeeccHHHHHhCC
Confidence 2368999999988654
No 7
>2i1a_A DNA damage-inducible protein DDI1; acid protease fold, dimer, retroviral protease domain, protein turnover; HET: DNA; 2.30A {Saccharomyces cerevisiae}
Probab=97.77 E-value=2.3e-05 Score=82.51 Aligned_cols=90 Identities=14% Similarity=0.191 Sum_probs=53.7
Q ss_pred EEEEEEEecCCCceeeeEEeeCCCCccccCHhhHhhhCCCcce-eee--EEeeccCCCcceeceEEEEEecccCCcceEE
Q psy15380 875 TVKILVLDVYGKPHEMRFLLDCASMSNILSLSACKQLGLKTLF-VAT--DLKGVGSISSPVQGQVTMRFGSRFDKRYNYT 951 (1738)
Q Consensus 875 t~~V~v~~~~g~~~~v~aLLDSGS~vS~Is~~la~~LgL~~~~-~~i--~I~g~g~~~~~~~~~v~v~i~~~~~~~~~~~ 951 (1738)
.+++.+. |. .+++||||||+.|+|++++|++||++... ..+ ...|.|+... ........+.+++ ..+.
T Consensus 28 ~v~v~In---G~--~~~~LvDTGAs~s~is~~~a~~lgl~~~~~~~~~~~a~g~g~~~~-~~~~~~~~i~ig~---~~~~ 98 (148)
T 2i1a_A 28 YINIEIN---NY--PVKAFVDTGAQTTIMSTRLAKKTGLSRMIDKRFIGEARGVGTGKI-IGRIHQAQVKIET---QYIP 98 (148)
T ss_dssp EEEEEET---TE--EEEEEECTTCSSCEEEHHHHHHHTGGGGCBCCCC------------CEEEEEEEEEETT---EEEE
T ss_pred EEEEEEC---CE--EEEEEEECCCCccccCHHHHHHcCCCccCCcceEEEEecCCCccc-ccEEEEEEEEECC---EEec
Confidence 4555554 33 78999999999999999999999997643 333 3467766432 1122223555544 2345
Q ss_pred EEEEeeccccCCCCccccchhhhHHhhhhhcccCCcCCCCCCceeeeecccccccc
Q psy15380 952 IKALVVNHVVDKLPVKSVDLSKLEYLQNIRHKLADDEFMEPGNICGILGAQIYPYL 1007 (1738)
Q Consensus 952 i~a~Vvp~i~~~lP~~~i~~~~~~~l~~l~~~Ladp~~~~~~~idlLIG~D~~~~i 1007 (1738)
+.+.|++ .++|+|||+|++..+
T Consensus 99 ~~~~vl~----------------------------------~~~d~iLG~d~L~~~ 120 (148)
T 2i1a_A 99 CSFTVLD----------------------------------TDIDVLIGLDMLKRH 120 (148)
T ss_dssp EEEEEEC----------------------------------SSCSEEECHHHHHHT
T ss_pred eeEEEec----------------------------------CCCCeEecHHHHhhC
Confidence 5555554 135899999998875
No 8
>1fmb_A EIAV protease; hydrolase (acid proteinase), RNA-directed DNA polymerase, AS protease, endonuclease, polyprotein; HET: HYB; 1.80A {Equine infectious anemia virus} SCOP: b.50.1.1 PDB: 2fmb_A*
Probab=97.17 E-value=0.0006 Score=66.60 Aligned_cols=65 Identities=17% Similarity=0.285 Sum_probs=50.8
Q ss_pred eeeEEeeCCCCccccCHhhHhhhCCCcc-eeeeEEeeccCCCcceeceEEEEEecccCCcceEEEEEEeec
Q psy15380 889 EMRFLLDCASMSNILSLSACKQLGLKTL-FVATDLKGVGSISSPVQGQVTMRFGSRFDKRYNYTIKALVVN 958 (1738)
Q Consensus 889 ~v~aLLDSGS~vS~Is~~la~~LgL~~~-~~~i~I~g~g~~~~~~~~~v~v~i~~~~~~~~~~~i~a~Vvp 958 (1738)
.+.||||||||.|+|++..|.++++++. -.+..+.|+||. .++. +.++.+...+ +.....++|-|
T Consensus 19 ~~e~LLDTGAD~TVl~~~~w~~i~lp~~~w~p~~i~GiGG~-i~v~-~~~i~i~i~g---~~~~gtvlv~~ 84 (104)
T 1fmb_A 19 PLNVLLDTGADTSVLTTAHYNRLKYRGRKYQGTGIGGVGGN-VETF-STPVTIKKKG---RHIKTRMLVAD 84 (104)
T ss_dssp EEEEEECTTCSSCEEEHHHHHHCSSCCCCEECCCEEETTEE-ECCE-EEEEEEEETT---EEEEEEEEEES
T ss_pred EEEEEeccCCCcEEEccccCcccCCCCccCCccEEEeCCCe-EEee-EeeeEEEECC---eEEEEEEEECC
Confidence 6799999999999999999999999998 577888899885 3344 6777777765 44556666544
No 9
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=96.85 E-value=0.0006 Score=54.30 Aligned_cols=37 Identities=27% Similarity=0.675 Sum_probs=30.3
Q ss_pred cccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCC
Q psy15380 690 MCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPS 739 (1738)
Q Consensus 690 ~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s 739 (1738)
.|+.|+ .+|...+|+.. +...||+|.+.||++++|+.
T Consensus 2 ~C~~Cg~~GH~a~~C~~~-------------~~~~C~~Cg~~GH~~~~C~~ 39 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQP-------------RQEGCWNCGSKEHRFAQCPK 39 (39)
T ss_dssp BCTTTCCBSSCTTTCCSC-------------CCSSCTTTCCSSSCTTTSCC
T ss_pred eeeccCCCCcccccCCCC-------------CCCccccCCCCCCccCcCcC
Confidence 588898 78999999842 24689999999999999973
No 10
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1
Probab=96.85 E-value=0.00051 Score=57.67 Aligned_cols=40 Identities=30% Similarity=0.612 Sum_probs=33.8
Q ss_pred CccccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCCC
Q psy15380 688 GNMCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPSK 740 (1738)
Q Consensus 688 ~~~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s~ 740 (1738)
...|+.|+ .+|...+|+.- +...||+|.+.||++++|+.+
T Consensus 6 ~~~C~~Cg~~GH~a~~C~~~-------------~~~~C~~Cg~~GH~~~~C~~~ 46 (49)
T 2ec7_A 6 VIRCWNCGKEGHSARQCRAP-------------RRQGCWKCGKTGHVMAKCPER 46 (49)
T ss_dssp CCBCTTTCCBTCCTTTCCCS-------------SCCSCSSSCCSSCCGGGCCSS
T ss_pred cCeeeecCCCCcChhhCcCC-------------CCCeeCcCCCcCCccCCCcCC
Confidence 46799999 88999999852 246899999999999999875
No 11
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=96.75 E-value=0.00057 Score=53.76 Aligned_cols=35 Identities=29% Similarity=0.723 Sum_probs=25.4
Q ss_pred cccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCC
Q psy15380 690 MCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPS 739 (1738)
Q Consensus 690 ~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s 739 (1738)
.|+.|+ .+|...+|+. ...||+|.+.||++++|++
T Consensus 2 ~C~~Cg~~GH~~~~C~~---------------~~~C~~Cg~~GH~a~~C~~ 37 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRA---------------PKVCFKCKQPGHFSKQCRS 37 (37)
T ss_dssp CBSSSCCSSCCTTTSSC---------------BTTCSSCCCTTGGGGTTCC
T ss_pred cccccCCCCcchhhCcC---------------cCeEccCCCcCCccCcCcC
Confidence 477777 6788888863 1578888888888888763
No 12
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=96.57 E-value=0.0016 Score=57.75 Aligned_cols=41 Identities=29% Similarity=0.602 Sum_probs=34.4
Q ss_pred CccccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCCC
Q psy15380 688 GNMCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPSK 740 (1738)
Q Consensus 688 ~~~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s~ 740 (1738)
...|+.|+ .+|...+|+.-. ....||+|.+.||++++|+.+
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~~~------------~~~~C~~Cg~~GH~ar~Cp~~ 48 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKLPP------------QPKKCHFCQSISHMVASCPLK 48 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCSCC------------CSSCCTTTCCSSSCTTTCTGG
T ss_pred CCcccccCCCCcChhhCCCCC------------CCCccCCcCCcCCccCcCCCc
Confidence 46799999 789999998421 357899999999999999875
No 13
>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A
Probab=96.56 E-value=0.00095 Score=57.53 Aligned_cols=41 Identities=24% Similarity=0.596 Sum_probs=34.4
Q ss_pred cCccccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCCC
Q psy15380 687 RGNMCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPSK 740 (1738)
Q Consensus 687 ~~~~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s~ 740 (1738)
....|+.|+ .+|...+|+.- +...||+|.+.||++++|+.+
T Consensus 11 ~~~~C~~Cg~~GH~a~~C~~~-------------~~~~C~~Cg~~GH~~~~C~~~ 52 (55)
T 1a1t_A 11 KTVKCFNCGKEGHIAKNCRAP-------------RKKGCWKCGKEGHQMKDCTER 52 (55)
T ss_dssp GTCBCTTTCCBSSCGGGCSSC-------------SCCBCTTTCCBSSCGGGCSSS
T ss_pred CCcceeeeCCCCcChhhcCCC-------------CCCEeCCCCCcCCccCCCcCc
Confidence 346799999 78999999842 247899999999999999875
No 14
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=96.47 E-value=0.00072 Score=61.82 Aligned_cols=42 Identities=29% Similarity=0.609 Sum_probs=25.1
Q ss_pred cCccccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCCC
Q psy15380 687 RGNMCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPSK 740 (1738)
Q Consensus 687 ~~~~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s~ 740 (1738)
....|+.|+ .+|...+|+.-. ....||+|.+.||++++|+.+
T Consensus 23 r~~~C~~Cg~~GH~a~~C~~~~------------~~~~C~~Cg~~GH~ar~Cp~~ 65 (74)
T 2li8_A 23 KGDRCYNCGGLDHHAKECKLPP------------QPKKCHFCQSISHMVASCPLK 65 (74)
T ss_dssp TTSCCTTTCCSSSCTTTCSSCC------------CCCCCTTTCCTTSCGGGCTTG
T ss_pred CCCcccccCCcCcCcccCCCCC------------CCCccCCcCCcCCccCcCcCC
Confidence 344566676 567777776311 235677777777777766653
No 15
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=96.46 E-value=0.0014 Score=57.80 Aligned_cols=45 Identities=29% Similarity=0.641 Sum_probs=34.7
Q ss_pred CccccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCCC
Q psy15380 688 GNMCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPSK 740 (1738)
Q Consensus 688 ~~~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s~ 740 (1738)
...|+.|+ .+|...+|+.-.... .....||+|.+.||++++|+.+
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~~~~~--------~~~~~C~~Cg~~GH~ar~C~~~ 49 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKKRKSG--------NSRERCQLCNGMGHNAKQCRKR 49 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTTTSSS--------CCCSBCTTTCCBSSCGGGCCCC
T ss_pred CCcccccCCCCeehhhCcCCcCCC--------CCCCeeCCCCCCCCCcCCCcCC
Confidence 45799999 789999998533110 1236799999999999999876
No 16
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=96.46 E-value=0.0014 Score=51.52 Aligned_cols=30 Identities=27% Similarity=0.607 Sum_probs=27.1
Q ss_pred cccccccCCCCCCCCCCCCCCCcccccccc
Q psy15380 723 LCVNCLGTGHKANNCPSKSNCNICQFRHNT 752 (1738)
Q Consensus 723 lCf~Clk~GH~a~~C~s~~~C~~C~~~Hht 752 (1738)
.||+|++.||.+++|+.+..|..|++.-|.
T Consensus 2 ~C~~Cg~~GH~~~~C~~~~~C~~Cg~~GH~ 31 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRAPKVCFKCKQPGHF 31 (37)
T ss_dssp CBSSSCCSSCCTTTSSCBTTCSSCCCTTGG
T ss_pred cccccCCCCcchhhCcCcCeEccCCCcCCc
Confidence 699999999999999998899999986554
No 17
>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=96.40 E-value=0.0077 Score=62.32 Aligned_cols=76 Identities=11% Similarity=0.147 Sum_probs=52.8
Q ss_pred eeeeeecccccc------cceeEEEEEEecCC-CcEEEEEEeeccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCC
Q psy15380 1622 FQLIGFSDASEK------GYGALIFSRVSLPN-GSIVIQLICAKSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPR 1694 (1738)
Q Consensus 1622 ~~L~~F~DAS~~------ayga~vy~r~~~~~-g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~ 1694 (1738)
.++.+|+|||-. |||++++ . .+ |.....+ .. +....|--+.||.|++.|++++.. +.
T Consensus 2 ~~~~iy~DGs~~~~~g~~g~G~v~~--~--~~~~~~~~~~-~~-----~~~~~tn~~aEl~A~~~aL~~a~~----~~-- 65 (141)
T 3hst_B 2 VKVVIEADGGSRGNPGPAGYGAVVW--T--ADHSTVLAES-KQ-----AIGRATNNVAEYRGLIAGLDDAVK----LG-- 65 (141)
T ss_dssp CEEEEEEEEEESSSSEEEEEEEEEE--E--TTSCSEEEEE-EE-----EEEEECHHHHHHHHHHHHHHHHHH----HT--
T ss_pred cEEEEEEecCCCCCCCCcEEEEEEE--e--CCCCcEEEee-ec-----cCCCCchHHHHHHHHHHHHHHHHH----CC--
Confidence 368899999865 5665544 2 33 4332111 11 112458899999999999988743 33
Q ss_pred CCcccEEEEechhhhHHhhcC
Q psy15380 1695 YPIDSIYCFTDSSVALCWAHS 1715 (1738)
Q Consensus 1695 ~~~~~~~~~tDS~i~l~~i~~ 1715 (1738)
+..+.++|||+.++.+|++
T Consensus 66 --~~~v~i~tDS~~vv~~i~~ 84 (141)
T 3hst_B 66 --ATEAAVLMDSKLVVEQMSG 84 (141)
T ss_dssp --CSEEEEEESCHHHHHHHTT
T ss_pred --CceEEEEeChHHHHHHHhC
Confidence 5789999999999999997
No 18
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Probab=96.28 E-value=0.0013 Score=57.67 Aligned_cols=47 Identities=30% Similarity=0.526 Sum_probs=18.9
Q ss_pred ccccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCCC
Q psy15380 689 NMCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPSK 740 (1738)
Q Consensus 689 ~~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s~ 740 (1738)
..|+.|+ .+|...+|+.-..-. ..-.....||+|.+.||++++|+.+
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~~~-----~~~~~~~~C~~Cg~~GH~ar~C~~~ 49 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAHNN-----AEPKVPGLCPRCKRGKHWANECKSK 49 (60)
T ss_dssp --------------------------------CCCSCSSCSSCSSCSTTCCCT
T ss_pred CccccCCCCCcCHhhCcCCCCCc-----cccCCCcceeECCCCCCccCcCCCc
Confidence 3699999 789999998532100 0012457899999999999999986
No 19
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=96.16 E-value=0.0031 Score=64.06 Aligned_cols=26 Identities=35% Similarity=0.957 Sum_probs=13.2
Q ss_pred cccccccCCCCCCCCCCC---CCCCcccc
Q psy15380 723 LCVNCLGTGHKANNCPSK---SNCNICQF 748 (1738)
Q Consensus 723 lCf~Clk~GH~a~~C~s~---~~C~~C~~ 748 (1738)
.||+|...||.+++|+.. ..|..|++
T Consensus 44 ~C~~Cg~~GH~~~~C~~~~~~~~C~~Cg~ 72 (124)
T 2lli_A 44 QCSKCDEVGHYRSQCPHKWKKVQCTLCKS 72 (124)
T ss_dssp CSSSSSCSSSSTTTSCCCCCCCSSSSSCS
T ss_pred cccccCCCCCccccCcCcccCccCCCCCc
Confidence 455555555555555542 34555554
No 20
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=96.08 E-value=0.003 Score=58.99 Aligned_cols=56 Identities=16% Similarity=0.183 Sum_probs=31.5
Q ss_pred cCccccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCCC---CCCCccccccc-cCCCCC
Q psy15380 687 RGNMCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPSK---SNCNICQFRHN-TLLHFN 757 (1738)
Q Consensus 687 ~~~~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s~---~~C~~C~~~Hh-t~lh~~ 757 (1738)
....|..|+ .+|...+||.. ..||+|...||.+++|..+ ..|..|++.-| .--|+.
T Consensus 4 k~~~C~~Cg~~GH~~~~Cp~~---------------~rcY~c~~~gh~~~~c~~p~~~~~CYnCG~~GH~~rdC~~ 64 (83)
T 3nyb_B 4 KKVQCTLCKSKKHSKERCPSI---------------WRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKE 64 (83)
T ss_dssp ---CCSSSCCSSSCGGGCGGG---------------TCCCCBC-------------CCCBCSSSSCBSSCGGGCSS
T ss_pred ccCCCCCCCCCCCccccCCCc---------------ccccccccCCcccccccCCCCCCeecccCCCCcCcccCCc
Confidence 346899999 78999999953 2599999999999988654 57999988544 444544
No 21
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=96.00 E-value=0.0096 Score=61.36 Aligned_cols=76 Identities=14% Similarity=0.150 Sum_probs=52.4
Q ss_pred eeeeeccccc------ccceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCCCC
Q psy15380 1623 QLIGFSDASE------KGYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPRYP 1696 (1738)
Q Consensus 1623 ~L~~F~DAS~------~ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~~~ 1696 (1738)
.+.+|+|||- .|||++++ +.+|.....+.. .+ ...|.-+.||.|++.|++++.. ..
T Consensus 3 ~~~iy~DGs~~~n~g~~G~G~v~~----~~~g~~~~~~~~---~~---~~~tn~~aEl~A~~~aL~~a~~--------~~ 64 (140)
T 3u3g_D 3 KIIIYTDGGARGNPGPAGIGVVIT----DEKGNTLHESSA---YI---GETTNNVAEYEALIRALEDLQM--------FG 64 (140)
T ss_dssp EEEEEEEEEESSTTEEEEEEEEEE----CTTSCEEEEEEE---EE---EEECHHHHHHHHHHHHHHHHGG--------GG
T ss_pred eEEEEEecCCCCCCCCcEEEEEEE----eCCCCEEEEEEe---eC---CCCchHHHHHHHHHHHHHHHHH--------cC
Confidence 5789999986 35665543 345654322111 11 1358899999999999887643 23
Q ss_pred cc----cEEEEechhhhHHhhcCC
Q psy15380 1697 ID----SIYCFTDSSVALCWAHSP 1716 (1738)
Q Consensus 1697 ~~----~~~~~tDS~i~l~~i~~~ 1716 (1738)
+. .+.++|||+.++.+|++.
T Consensus 65 ~~~~~~~v~i~tDS~~vi~~i~~~ 88 (140)
T 3u3g_D 65 DKLVDMEVEVRMDSELIVRQMQGV 88 (140)
T ss_dssp GGGTTCEEEEEESCHHHHHHHTTS
T ss_pred CCCCCceEEEEeChHHHHHHhCCC
Confidence 44 899999999999999973
No 22
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=95.99 E-value=0.0029 Score=57.78 Aligned_cols=59 Identities=24% Similarity=0.285 Sum_probs=33.3
Q ss_pred CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCC---CCCCCccccccccC-CCCC
Q psy15380 696 EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPS---KSNCNICQFRHNTL-LHFN 757 (1738)
Q Consensus 696 ~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s---~~~C~~C~~~Hht~-lh~~ 757 (1738)
.+|.+++|++-..-..+.| -.....||+|++.||++++|+. ...|..|++.-|.. -|+.
T Consensus 2 ~gh~~rdc~~~~~~~~~~~---~~r~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~ 64 (74)
T 2li8_A 2 SGLVPRGSHMPKGKSMQKR---RSKGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPL 64 (74)
T ss_dssp ----------CCCCCCCSC---CSTTSCCTTTCCSSSCTTTCSSCCCCCCCTTTCCTTSCGGGCTT
T ss_pred CccccCcCCCCCcCccccc---cCCCCcccccCCcCcCcccCCCCCCCCccCCcCCcCCccCcCcC
Confidence 4689999986543222211 1245689999999999999994 56899999866654 4544
No 23
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=95.96 E-value=0.0041 Score=49.48 Aligned_cols=31 Identities=29% Similarity=0.679 Sum_probs=26.5
Q ss_pred cccccccCCCCCCCCCCC--CCCCccccccccC
Q psy15380 723 LCVNCLGTGHKANNCPSK--SNCNICQFRHNTL 753 (1738)
Q Consensus 723 lCf~Clk~GH~a~~C~s~--~~C~~C~~~Hht~ 753 (1738)
.||+|++.||.+++|+.+ ..|..|++.-|.+
T Consensus 2 ~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~ 34 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQPRQEGCWNCGSKEHRF 34 (39)
T ss_dssp BCTTTCCBSSCTTTCCSCCCSSCTTTCCSSSCT
T ss_pred eeeccCCCCcccccCCCCCCCccccCCCCCCcc
Confidence 599999999999999975 6799999876543
No 24
>2hs1_A HIV-1 protease; ultra-high resolution active site surface binding site, HYDR; HET: 017; 0.84A {Human immunodeficiency virus 1} PDB: 3nu4_A* 3tl9_A* 3tkw_A* 3tkg_A* 3ndu_A* 3ndt_A* 3k4v_A* 3a2o_A* 1fgc_C* 2a1e_A* 2aod_A* 2aoi_A* 2aoj_A* 2hb3_A* 2ien_A* 1sdt_A* 2z4o_A* 2zye_A* 2nmw_A* 3b7v_A* ...
Probab=95.82 E-value=0.016 Score=55.86 Aligned_cols=61 Identities=16% Similarity=0.091 Sum_probs=45.1
Q ss_pred eeeEEeeCCCCccccCHhhHhhhCCCcceeeeEEeeccCCCcceeceEEEEEecccCCcceEEEEEEeec
Q psy15380 889 EMRFLLDCASMSNILSLSACKQLGLKTLFVATDLKGVGSISSPVQGQVTMRFGSRFDKRYNYTIKALVVN 958 (1738)
Q Consensus 889 ~v~aLLDSGS~vS~Is~~la~~LgL~~~~~~i~I~g~g~~~~~~~~~v~v~i~~~~~~~~~~~i~a~Vvp 958 (1738)
.+.||||||||.|+|++ ..++..-.+..+.|+||. +++..+.++.+...+ +.....++|-|
T Consensus 19 ~~eaLLDTGAD~TVl~~-----~~~p~~wkpk~igGiGG~-i~v~qy~qi~iei~g---~~~~gtvlV~~ 79 (99)
T 2hs1_A 19 LKEALLDTGADDTIIEE-----MSLPGRWKPKMIGGIGGF-IKVRQYDQIIIEIAG---HKAIGTVLVGP 79 (99)
T ss_dssp EEEEEECTTCSSEEESC-----CSSCCCCEEEEEEETTEE-EEEEEEEEEEEEETT---EEEEEEEEESC
T ss_pred EEEEEeccCCCcEEEec-----ccCCCCCCCcEEEeCCCc-EeeeEeccEEEEEeC---CEEEEEEEeCC
Confidence 67999999999999985 466766667788899885 555567777777766 45566666533
No 25
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1
Probab=95.54 E-value=0.0066 Score=50.88 Aligned_cols=38 Identities=24% Similarity=0.431 Sum_probs=29.7
Q ss_pred hcccccccccCCCCCCCCCCC--CCCCccccccccC-CCCC
Q psy15380 720 QHDLCVNCLGTGHKANNCPSK--SNCNICQFRHNTL-LHFN 757 (1738)
Q Consensus 720 ~~~lCf~Clk~GH~a~~C~s~--~~C~~C~~~Hht~-lh~~ 757 (1738)
+...||+|++.||.+++|+.+ ..|..|++.-|.. -|+.
T Consensus 5 r~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 45 (49)
T 2ec7_A 5 KVIRCWNCGKEGHSARQCRAPRRQGCWKCGKTGHVMAKCPE 45 (49)
T ss_dssp CCCBCTTTCCBTCCTTTCCCSSCCSCSSSCCSSCCGGGCCS
T ss_pred CcCeeeecCCCCcChhhCcCCCCCeeCcCCCcCCccCCCcC
Confidence 356899999999999999975 4699999865543 3433
No 26
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=95.39 E-value=0.013 Score=59.38 Aligned_cols=54 Identities=24% Similarity=0.478 Sum_probs=44.9
Q ss_pred CccccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccC-CCCCCCCCCCCCCCccccccccC-CCCC
Q psy15380 688 GNMCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGT-GHKANNCPSKSNCNICQFRHNTL-LHFN 757 (1738)
Q Consensus 688 ~~~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~-GH~a~~C~s~~~C~~C~~~Hht~-lh~~ 757 (1738)
...|..|+ .+|...+||. ..||+|.+. ||.+++|+....|..|+..-|.. -|+.
T Consensus 4 ~~~C~~C~~~GH~~~~Cp~----------------~~C~~Cg~~~gH~~~~C~~~~~C~~Cg~~GH~~~~C~~ 60 (124)
T 2lli_A 4 APKCNNCSQRGHLKKDCPH----------------IICSYCGATDDHYSRHCPKAIQCSKCDEVGHYRSQCPH 60 (124)
T ss_dssp SSCCSSCSSSSCCTTTTTS----------------CCCTTTCCTTTCCTTTGGGSSCSSSSSCSSSSTTTSCC
T ss_pred CCcccCCCCCCcCcccCcC----------------CcCcCCCCcCCccCcccCCcccccccCCCCCccccCcC
Confidence 45799999 7899999984 379999999 99999999988999999865544 3443
No 27
>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=95.37 E-value=0.0096 Score=60.78 Aligned_cols=81 Identities=15% Similarity=0.124 Sum_probs=54.4
Q ss_pred eeeeccccc------ccceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCCCCc
Q psy15380 1624 LIGFSDASE------KGYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPRYPI 1697 (1738)
Q Consensus 1624 L~~F~DAS~------~ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~~~~ 1697 (1738)
..+|+|||- .|||+|++ .+|...... + +....|-.|.||.|++.|++++.. .. ..
T Consensus 6 ~~iytDGac~GNPGp~G~ggV~~-----~~g~~~~~~--g-----~~~~tTNN~aEl~A~i~aL~~l~~----~~--~~- 66 (134)
T 4htu_A 6 ESLSVDVGSQGNPGIVEYKGVDT-----KTGEVLFER--E-----PIPIGTNNMGEFLAIVHGLRYLKE----RN--SR- 66 (134)
T ss_dssp SSEEEEEEEETTTEEEEEEEEET-----TTCCEEEEE--E-----EEEEECHHHHHHHHHHHHHHHHHH----TT--CC-
T ss_pred eEEEEeeccCCCCCCeEEEEEEE-----ECCEEEEEe--c-----CCCCCchHHHHHHHHHHHHHHHHh----CC--CC-
Confidence 467999885 46777653 355433221 1 123569999999999999987643 22 22
Q ss_pred ccEEEEechhhhHHhhcCCCccccc----hhhch
Q psy15380 1698 DSIYCFTDSSVALCWAHSPSHLFNT----FVANR 1727 (1738)
Q Consensus 1698 ~~~~~~tDS~i~l~~i~~~~~~~~~----fv~nR 1727 (1738)
+.++|||+.|+.||++. .|++ -|.|+
T Consensus 67 --v~i~tDSqyVi~wi~~~--~~kt~~~~~vkN~ 96 (134)
T 4htu_A 67 --KPIYSNSQTAIKWVKDK--KAKSTLVRNEETA 96 (134)
T ss_dssp --CCEEESCHHHHHHHHHT--CCCCCCCCSSTTH
T ss_pred --EEEEcchHHHHHHHHcC--CcccCCCCCccCH
Confidence 58899999999999963 4544 35554
No 28
>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A
Probab=95.32 E-value=0.0074 Score=51.92 Aligned_cols=39 Identities=26% Similarity=0.456 Sum_probs=30.3
Q ss_pred HhcccccccccCCCCCCCCCCC--CCCCccccccc-cCCCCC
Q psy15380 719 KQHDLCVNCLGTGHKANNCPSK--SNCNICQFRHN-TLLHFN 757 (1738)
Q Consensus 719 k~~~lCf~Clk~GH~a~~C~s~--~~C~~C~~~Hh-t~lh~~ 757 (1738)
++...||+|++.||.+++|+.. ..|..|++.-| ..-|+.
T Consensus 10 ~~~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 51 (55)
T 1a1t_A 10 RKTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTE 51 (55)
T ss_dssp GGTCBCTTTCCBSSCGGGCSSCSCCBCTTTCCBSSCGGGCSS
T ss_pred CCCcceeeeCCCCcChhhcCCCCCCEeCCCCCcCCccCCCcC
Confidence 3457899999999999999875 57999998554 444543
No 29
>3slz_A GAG-Pro-POL polyprotein; beta sheet and dimer, protease, peptide inhibitor, TL-3 PEPS virus, hydrolase-hydrolase inhibitor complex; HET: 3TL; 1.40A {Dg-75 murine leukemia virus} PDB: 3nr6_A* 3sm1_A* 3sm2_A* 4exh_A*
Probab=95.29 E-value=0.0086 Score=60.86 Aligned_cols=50 Identities=10% Similarity=0.053 Sum_probs=34.3
Q ss_pred eeeEEeeCCCCccccCHhhHhhhCCCcceeeeEEeeccCCCcceeceEEEEEeccc
Q psy15380 889 EMRFLLDCASMSNILSLSACKQLGLKTLFVATDLKGVGSISSPVQGQVTMRFGSRF 944 (1738)
Q Consensus 889 ~v~aLLDSGS~vS~Is~~la~~LgL~~~~~~i~I~g~g~~~~~~~~~v~v~i~~~~ 944 (1738)
.+.+||||||+.|+|++..|. ....+..|.|+||... +.....+.|.+.+
T Consensus 33 ~~~~LlDTGAd~tVl~~~~~p-----~~~~p~~I~GiGG~i~-vr~~~~i~IeI~g 82 (132)
T 3slz_A 33 PVTFLVDTGAQHSVLTQNPGP-----LSDKSAWVQGATGGKR-YRWTTDRKVHLAT 82 (132)
T ss_dssp EEEEEECTTCSSCEECSCCCS-----EEEEEEEEECSSCEEE-EEEECCEEEEETT
T ss_pred EEEEEEeCCCCeEEEccccCC-----CCCCceEEEccCCEEE-EEEEeeeEEEECC
Confidence 789999999999999976554 3336788999999654 3222233444443
No 30
>3ec0_A Protease; HIV-2, inhibitor, hydrolase; HET: GRL; 1.18A {Human immunodeficiency virus type 2} SCOP: b.50.1.1 PDB: 1hii_A* 1hsi_A 1hsh_A* 1idb_A* 1jld_A* 2mip_A 1ida_A* 3ebz_A* 3ecg_A* 3s45_A* 4upj_A* 1ivq_A* 1ivp_A 2hpf_A 3upj_A* 2hpe_A* 5upj_A* 6upj_A* 1sip_A 1tcw_A* ...
Probab=95.24 E-value=0.034 Score=53.42 Aligned_cols=60 Identities=12% Similarity=0.155 Sum_probs=41.5
Q ss_pred eeeEEeeCCCCccccCHhhHhhhCCCcceeeeEEeeccCCCcceeceEEEEEecccCCcceEEEEEEee
Q psy15380 889 EMRFLLDCASMSNILSLSACKQLGLKTLFVATDLKGVGSISSPVQGQVTMRFGSRFDKRYNYTIKALVV 957 (1738)
Q Consensus 889 ~v~aLLDSGS~vS~Is~~la~~LgL~~~~~~i~I~g~g~~~~~~~~~v~v~i~~~~~~~~~~~i~a~Vv 957 (1738)
.+.+|||||||.|+|+ ..++|+.-.+..+.|+||. +++..+.++.+...+ +.....++|-
T Consensus 19 ~~e~LLDTGAD~TVl~-----~~~~Pg~w~pk~igGiGG~-i~v~qy~~i~iei~g---~~~~gtvlV~ 78 (99)
T 3ec0_A 19 PVEVLLDTGADDSIVA-----GIELGNNYSPKIVGGIGGF-INTKEYKNVEIEVLN---KKVRATIMTG 78 (99)
T ss_dssp EEEEEECTTCSSCEES-----SCCCCSCCEEEEEEETTEE-EEEEEEEEEEEEETT---EEEEEEEEEE
T ss_pred EEEEEEecCCCceEEc-----CcccCCCCCceEEEecCCc-EeeeEEeeEEEEECC---eEEEEEEEeC
Confidence 6799999999999996 4566766555578888873 334456667777765 3445555553
No 31
>1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1
Probab=95.24 E-value=0.0072 Score=43.48 Aligned_cols=20 Identities=30% Similarity=0.760 Sum_probs=17.9
Q ss_pred cccccccccCCCCCCCCCCC
Q psy15380 721 HDLCVNCLGTGHKANNCPSK 740 (1738)
Q Consensus 721 ~~lCf~Clk~GH~a~~C~s~ 740 (1738)
...||+|++.||++++|+.+
T Consensus 2 ~~~Cf~CG~~GH~ardC~~~ 21 (26)
T 1dsq_A 2 GPVCFSCGKTGHIKRDCKEE 21 (26)
T ss_dssp CCBCTTTCCBSSCTTTTTCC
T ss_pred CCeeEeCCCCCcccccCCCc
Confidence 35799999999999999976
No 32
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*
Probab=95.20 E-value=0.0094 Score=62.23 Aligned_cols=41 Identities=29% Similarity=0.602 Sum_probs=32.5
Q ss_pred CccccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCCC
Q psy15380 688 GNMCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPSK 740 (1738)
Q Consensus 688 ~~~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s~ 740 (1738)
...|+.|+ .+|...+|+.-. ..+.||+|.+.||++++|+.+
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~------------~~~~C~~Cg~~GH~~r~Cp~~ 138 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPP------------QPKKCHFCQSINHMVASCPLK 138 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCC------------CCCCCTTTCCSSCCGGGCTTT
T ss_pred CCcccEeCCccchhhhCCCCC------------CCCcccccCCcCCEeccCcCC
Confidence 35699998 789999998422 146899999999999999875
No 33
>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=95.14 E-value=0.014 Score=61.12 Aligned_cols=77 Identities=16% Similarity=0.132 Sum_probs=51.2
Q ss_pred eeeeeccccc----ccceeEEEEEEecCCCcEEEEEEeeccccccC-CCCccchhhHHHHHHHHHHHHHHHHhcCCCCCc
Q psy15380 1623 QLIGFSDASE----KGYGALIFSRVSLPNGSIVIQLICAKSRVSPL-KVESIPRLELCAILLMSSLLKVVIDSYTPRYPI 1697 (1738)
Q Consensus 1623 ~L~~F~DAS~----~ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~-k~~tIprlEL~a~~~~~~l~~~~~~~l~~~~~~ 1697 (1738)
.+.+|+|+|- .|||++++ .+|... -+.+-+...|. ...|-.|.||.|++.|++++.. .. .
T Consensus 6 ~i~iytDGs~~~g~~G~G~vi~-----~~g~~~--~~~~~~~~~~~~~~~tNn~aEl~A~~~AL~~a~~----~~----~ 70 (147)
T 2kq2_A 6 EYDVYTDGSYVNGQYAWAYAFV-----KDGKVH--YEDADVGKNPAAATMRNVAGEIAAALYAVKKASQ----LG----V 70 (147)
T ss_dssp CCEEECCCCCBTTBCEEEEEEE-----ETTEEE--EEEEEECCCGGGGGTCTTHHHHHHHHHHHHHHHH----HT----C
T ss_pred eEEEEECCCCCCCCcEEEEEEE-----ECCEEE--EEEeccccccccccccHHHHHHHHHHHHHHHHHH----CC----C
Confidence 5789999987 56776655 245431 11110111121 2358999999999999987532 23 3
Q ss_pred ccEEEEechhhhHHhhcC
Q psy15380 1698 DSIYCFTDSSVALCWAHS 1715 (1738)
Q Consensus 1698 ~~~~~~tDS~i~l~~i~~ 1715 (1738)
.+.++|||+.+..|+.+
T Consensus 71 -~v~I~tDS~~i~~w~~~ 87 (147)
T 2kq2_A 71 -KIRILHDYAGIAFWATG 87 (147)
T ss_dssp -CCCBSSCCSTHHHHTTS
T ss_pred -eEEEEECcHHHHHHHhC
Confidence 78899999999999986
No 34
>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=95.10 E-value=0.012 Score=60.97 Aligned_cols=83 Identities=14% Similarity=0.113 Sum_probs=56.0
Q ss_pred eeeeecccccc------cceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCCCC
Q psy15380 1623 QLIGFSDASEK------GYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPRYP 1696 (1738)
Q Consensus 1623 ~L~~F~DAS~~------ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~~~ 1696 (1738)
.+.+|+|+|-. |||++++ .+|.... .. . +....|-.|.||.|++.|++++.. ..
T Consensus 11 ~~~iy~DGa~~gNpG~~G~G~vl~-----~~g~~~~--~~--~---~~~~~TNN~aEl~A~i~aL~~~~~----~~---- 70 (142)
T 1zbf_A 11 WESLSVDVGSQGNPGIVEYKGVDT-----KTGEVLF--ER--E---PIPIGTNNMGEFLAIVHGLRYLKE----RN---- 70 (142)
T ss_dssp SSSEEEEEEECSSSEEEEEEEEET-----TTCCEEE--EC--C---CEEEECHHHHHHHHHHHHHHHHHH----TT----
T ss_pred eEEEEEeeccCCCCCCeEEEEEEE-----eCCEEEE--Ee--c---ccCCcCcHHHHHHHHHHHHHHHHh----CC----
Confidence 46789999763 5666644 3554422 11 1 222468999999999999988753 23
Q ss_pred cccEEEEechhhhHHhhcCCC--ccccchhhc
Q psy15380 1697 IDSIYCFTDSSVALCWAHSPS--HLFNTFVAN 1726 (1738)
Q Consensus 1697 ~~~~~~~tDS~i~l~~i~~~~--~~~~~fv~n 1726 (1738)
+ .+.++|||+.++.|+++.- ...+..|.|
T Consensus 71 ~-~v~i~tDS~~vi~w~~~~~~k~~~~~~v~n 101 (142)
T 1zbf_A 71 S-RKPIYSNSQTAIKWVKDKKAKSTLVRNEET 101 (142)
T ss_dssp C-CCCEEESCHHHHHHHHHTCCCCCCCCSTTT
T ss_pred C-eEEEEEehHHHHHHHHcCCccCCCCCCccc
Confidence 3 7889999999999999753 122344555
No 35
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=95.09 E-value=0.012 Score=52.10 Aligned_cols=37 Identities=30% Similarity=0.562 Sum_probs=29.5
Q ss_pred cccccccccCCCCCCCCCC---CCCCCccccccccC-CCCC
Q psy15380 721 HDLCVNCLGTGHKANNCPS---KSNCNICQFRHNTL-LHFN 757 (1738)
Q Consensus 721 ~~lCf~Clk~GH~a~~C~s---~~~C~~C~~~Hht~-lh~~ 757 (1738)
...||+|++.||.+++|+. ...|..|++.-|.. -|+.
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~ar~Cp~ 47 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPL 47 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCSCCCSSCCTTTCCSSSCTTTCTG
T ss_pred CCcccccCCCCcChhhCCCCCCCCccCCcCCcCCccCcCCC
Confidence 4679999999999999995 56899999866544 4543
No 36
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=95.08 E-value=0.052 Score=56.75 Aligned_cols=77 Identities=14% Similarity=0.189 Sum_probs=53.5
Q ss_pred eeeecccccc-------c-ceeEEEEEEecCCCcEEEEEEeeccccccC-CCCccchhhHHHHHHHHHHHHHHHHhcCCC
Q psy15380 1624 LIGFSDASEK-------G-YGALIFSRVSLPNGSIVIQLICAKSRVSPL-KVESIPRLELCAILLMSSLLKVVIDSYTPR 1694 (1738)
Q Consensus 1624 L~~F~DAS~~-------a-yga~vy~r~~~~~g~~~~~l~~aKsrv~p~-k~~tIprlEL~a~~~~~~l~~~~~~~l~~~ 1694 (1738)
+.+|+|+|-. | ||++++ .+|..... .++. +.|. ...|--+.||.|++.|++++.. +.
T Consensus 2 ~~iy~DGs~~~~n~g~~G~~G~vi~-----~~g~~~~~--~~~~-~~~~~~~~tnn~aEl~A~~~aL~~a~~----~g-- 67 (149)
T 2ehg_A 2 IIGYFDGLCEPKNPGGIATFGFVIY-----LDNRKIEG--YGLA-EKPFSINSTNNVAEYSGLICLMETMLR----LG-- 67 (149)
T ss_dssp CEEEEEEEEESSSSSSEEEEEEEEE-----CSSCEEEE--EEEC-SCTTCTTCCHHHHHHHHHHHHHHHHHH----HT--
T ss_pred EEEEEeeccCCCCCChheEEEEEEE-----ECCEEEEE--eccc-cCCCCCCccHHHHHHHHHHHHHHHHHH----cC--
Confidence 4689999876 3 577765 25654321 2221 2222 2458899999999999987753 23
Q ss_pred CCcccEEEEechhhhHHhhcCC
Q psy15380 1695 YPIDSIYCFTDSSVALCWAHSP 1716 (1738)
Q Consensus 1695 ~~~~~~~~~tDS~i~l~~i~~~ 1716 (1738)
+..+.++|||+.++.||++.
T Consensus 68 --~~~v~i~tDS~~vi~~i~~~ 87 (149)
T 2ehg_A 68 --ISSPIIKGDSQLVIKQMNGE 87 (149)
T ss_dssp --CCSCEEEESCHHHHHHHTTS
T ss_pred --CCEEEEEeChHHHHHHHhCc
Confidence 56889999999999999874
No 37
>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A
Probab=95.03 E-value=0.0063 Score=44.98 Aligned_cols=22 Identities=32% Similarity=0.593 Sum_probs=18.8
Q ss_pred hcccccccccCCCCCCCCCCCC
Q psy15380 720 QHDLCVNCLGTGHKANNCPSKS 741 (1738)
Q Consensus 720 ~~~lCf~Clk~GH~a~~C~s~~ 741 (1738)
+...||||.+.||++++|+.++
T Consensus 5 ~~~~C~nCgk~GH~ar~C~~pr 26 (29)
T 1nc8_A 5 KVIRCWNCGKEGHSARQCRAPR 26 (29)
T ss_dssp CCCBCTTTSCBSSCGGGCCSSS
T ss_pred CCCEEEECCccccCHhHCcccc
Confidence 3467999999999999998763
No 38
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=94.91 E-value=0.0092 Score=52.50 Aligned_cols=37 Identities=27% Similarity=0.639 Sum_probs=29.5
Q ss_pred cccccccccCCCCCCCCCCC-------CCCCccccccccC-CCCC
Q psy15380 721 HDLCVNCLGTGHKANNCPSK-------SNCNICQFRHNTL-LHFN 757 (1738)
Q Consensus 721 ~~lCf~Clk~GH~a~~C~s~-------~~C~~C~~~Hht~-lh~~ 757 (1738)
...||+|.+.||++++|+.. ..|..|++.-|.+ -|+.
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~~~~~~~~~~C~~Cg~~GH~ar~C~~ 48 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKKRKSGNSRERCQLCNGMGHNAKQCRK 48 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTTTSSSCCCSBCTTTCCBSSCGGGCCC
T ss_pred CCcccccCCCCeehhhCcCCcCCCCCCCeeCCCCCCCCCcCCCcC
Confidence 46799999999999999985 4599999866644 4544
No 39
>2hah_A Protease, retropepsin; retroviral, aspartyl, hydrolase-hydrolase complex; HET: 3TL; 1.70A {Feline immunodeficiency virus} PDB: 3ogp_A* 3ogq_A* 2fiv_A* 6fiv_A* 3fiv_A* 5fiv_A* 4fiv_A* 1fiv_A* 1b11_A*
Probab=94.49 E-value=0.052 Score=53.83 Aligned_cols=67 Identities=13% Similarity=0.171 Sum_probs=42.1
Q ss_pred eeeEEeeCCCCccccCHhhHhhhCCCcceee-eEEeeccCCCcceeceEEEEEecccCCc--ceEEEEEEeec
Q psy15380 889 EMRFLLDCASMSNILSLSACKQLGLKTLFVA-TDLKGVGSISSPVQGQVTMRFGSRFDKR--YNYTIKALVVN 958 (1738)
Q Consensus 889 ~v~aLLDSGS~vS~Is~~la~~LgL~~~~~~-i~I~g~g~~~~~~~~~v~v~i~~~~~~~--~~~~i~a~Vvp 958 (1738)
.+.||||||||.|+|++.-+..+ +....+ +.+.|+||. +++..+.++.+...+.+. ......++|.|
T Consensus 24 ~~eaLLDTGAD~TVi~~~~~~~~--p~~wkpk~~igGiGG~-i~v~qy~qv~iei~g~~~~~~~~~gtvlV~p 93 (116)
T 2hah_A 24 PIKFLLDTGADITVLNRRDFQVK--NSIENGRQMIGGIGGF-IRGTNYINVHLEIRDENYKTQCIFGNVCVLE 93 (116)
T ss_dssp EEEEEECTTCSSCEEEGGGCCCT--TCEEEEEEEEEETTEE-EEEEEEEEEEEEECCTTSCCEEEEEEEEEET
T ss_pred EEEEEecCCCCcEEEcccccccC--CCCCCCceEEecCCCc-eeeeEEccEEEEEeCCCCCcceeEEEEEECC
Confidence 67999999999999987444221 443333 448888884 334455566666666431 11455666666
No 40
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Probab=94.48 E-value=0.012 Score=51.61 Aligned_cols=36 Identities=25% Similarity=0.476 Sum_probs=11.1
Q ss_pred ccccccccCCCCCCCCCCC----------CCCCccccccc-cCCCCC
Q psy15380 722 DLCVNCLGTGHKANNCPSK----------SNCNICQFRHN-TLLHFN 757 (1738)
Q Consensus 722 ~lCf~Clk~GH~a~~C~s~----------~~C~~C~~~Hh-t~lh~~ 757 (1738)
+.||+|++.||++++|+.. ..|..|++.-| ..-|..
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~~~~~~~~~~~C~~Cg~~GH~ar~C~~ 48 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAHNNAEPKVPGLCPRCKRGKHWANECKS 48 (60)
T ss_dssp ---------------------------CCCSCSSCSSCSSCSTTCCC
T ss_pred CccccCCCCCcCHhhCcCCCCCccccCCCcceeECCCCCCccCcCCC
Confidence 4699999999999999874 56999998655 444543
No 41
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*
Probab=93.54 E-value=0.032 Score=58.21 Aligned_cols=39 Identities=28% Similarity=0.545 Sum_probs=31.2
Q ss_pred cccccccccCCCCCCCCCC---CCCCCccccccc-cCCCCCCC
Q psy15380 721 HDLCVNCLGTGHKANNCPS---KSNCNICQFRHN-TLLHFNRN 759 (1738)
Q Consensus 721 ~~lCf~Clk~GH~a~~C~s---~~~C~~C~~~Hh-t~lh~~~~ 759 (1738)
...||+|++.||.+++|+. ...|..|++.-| ..-|+.+.
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH~~r~Cp~~~ 139 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPPQPKKCHFCQSINHMVASCPLKA 139 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCCCCCCCTTTCCSSCCGGGCTTTT
T ss_pred CCcccEeCCccchhhhCCCCCCCCcccccCCcCCEeccCcCCC
Confidence 4579999999999999997 568999998555 45576543
No 42
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1
Probab=93.48 E-value=0.031 Score=44.43 Aligned_cols=22 Identities=41% Similarity=0.921 Sum_probs=18.9
Q ss_pred hcccccccccCCCCCCCCCCCC
Q psy15380 720 QHDLCVNCLGTGHKANNCPSKS 741 (1738)
Q Consensus 720 ~~~lCf~Clk~GH~a~~C~s~~ 741 (1738)
....||+|.+.||.+++|+.+.
T Consensus 9 ~~~~C~~Cgk~GH~ardCP~~~ 30 (40)
T 1a6b_B 9 DRDQCAYCKEKGHWAKDCPKKP 30 (40)
T ss_dssp CSSSCSSSCCTTCCTTSCSSSC
T ss_pred CCCeeeECCCCCcchhhCcCCc
Confidence 3568999999999999999863
No 43
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=93.40 E-value=0.026 Score=52.65 Aligned_cols=41 Identities=20% Similarity=0.261 Sum_probs=25.3
Q ss_pred ccccccC-CCCCcccccccccCCHHHHHHHHHhcccccccccCCCCCCCCCCCC
Q psy15380 689 NMCVLCS-EEHPLFKCNKFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPSKS 741 (1738)
Q Consensus 689 ~~C~~C~-~~H~~~~C~~f~~~s~~eR~~~vk~~~lCf~Clk~GH~a~~C~s~~ 741 (1738)
..|+.|+ .+|...+|+.. .....||+|++.||++++|+.++
T Consensus 25 ~rcY~c~~~gh~~~~c~~p------------~~~~~CYnCG~~GH~~rdC~~~r 66 (83)
T 3nyb_B 25 WRAYILVDDNEKAKPKVLP------------FHTIYCYNCGGKGHFGDDCKEKR 66 (83)
T ss_dssp TCCCCBC-------------------------CCCBCSSSSCBSSCGGGCSSCC
T ss_pred ccccccccCCcccccccCC------------CCCCeecccCCCCcCcccCCccc
Confidence 3699999 67998899631 24578999999999999999864
No 44
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=93.14 E-value=0.15 Score=53.99 Aligned_cols=71 Identities=24% Similarity=0.259 Sum_probs=46.2
Q ss_pred eeeeecccccc------cceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCCCC
Q psy15380 1623 QLIGFSDASEK------GYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPRYP 1696 (1738)
Q Consensus 1623 ~L~~F~DAS~~------ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~~~ 1696 (1738)
.+.+|+|+|-. |||++++ . +|.. ..+.+. + ...|--+.||.|++.|++++. . +
T Consensus 6 ~i~iytDGs~~~n~g~~G~G~v~~--~---~~~~--~~~~~~--~---~~~tn~~aEl~A~~~AL~~~~------~---~ 64 (158)
T 2e4l_A 6 LIHIFTDGSCLGNPGPGGYGIVMN--Y---KGHT--KEMSDG--F---SLTTNNRMELLAPIVALEALK------E---P 64 (158)
T ss_dssp EEEEEEEEEESSSSEEEEEEEEEE--E---TTEE--EEEEEE--E---EEECHHHHHHHHHHHHHHTCS------S---C
T ss_pred eEEEEEcccccCCCCcEEEEEEEE--E---CCEE--EEEecC--c---CCCccHHHHHHHHHHHHHHhc------c---C
Confidence 57899999875 4554443 2 3321 111111 1 235888999999999987642 1 2
Q ss_pred cccEEEEechhhhHHhhcC
Q psy15380 1697 IDSIYCFTDSSVALCWAHS 1715 (1738)
Q Consensus 1697 ~~~~~~~tDS~i~l~~i~~ 1715 (1738)
..+.++|||+.++.-|.+
T Consensus 65 -~~v~I~tDS~~vi~~i~~ 82 (158)
T 2e4l_A 65 -CKIILTSDSQYMRQGIMT 82 (158)
T ss_dssp -CEEEEEECCHHHHHHHHT
T ss_pred -CeEEEEeCHHHHHHHHHH
Confidence 789999999998874443
No 45
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=93.08 E-value=0.055 Score=56.35 Aligned_cols=71 Identities=21% Similarity=0.242 Sum_probs=46.8
Q ss_pred eeeeecccccc------cceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCCCC
Q psy15380 1623 QLIGFSDASEK------GYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPRYP 1696 (1738)
Q Consensus 1623 ~L~~F~DAS~~------ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~~~ 1696 (1738)
.+.+|+|+|-. |||+++ +. ++.. .-+.+ +....|-.+.||.|++.|++++. .
T Consensus 4 ~i~iytDGs~~~n~g~~g~G~v~--~~---~~~~--~~~~~-----~~~~~Tnn~aEl~A~~~AL~~~~----------~ 61 (146)
T 3h08_A 4 TITIYTDGAASGNPGKGGWGALL--MY---GSSR--KEISG-----YDPATTNNRMELMAAIKGLEALK----------E 61 (146)
T ss_dssp EEEEEEEEEESSTTEEEEEEEEE--EE---TTEE--EEEEE-----EEEEECHHHHHHHHHHHHHHTCS----------S
T ss_pred eEEEEEecCCCCCCCceEEEEEE--EE---CCee--EEeec-----CCCCCcHHHHHHHHHHHHHHhcC----------c
Confidence 68899999943 455443 32 2211 11111 11245888999999999988653 1
Q ss_pred cccEEEEechhhhHHhhcC
Q psy15380 1697 IDSIYCFTDSSVALCWAHS 1715 (1738)
Q Consensus 1697 ~~~~~~~tDS~i~l~~i~~ 1715 (1738)
...+.++|||+.++.-|.+
T Consensus 62 ~~~v~I~tDS~~vi~~i~~ 80 (146)
T 3h08_A 62 PARVQLYSDSAYLVNAMNE 80 (146)
T ss_dssp CCEEEEEESCHHHHHHHHS
T ss_pred cCcEEEEeChHHHHHHHHH
Confidence 4689999999988875554
No 46
>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=92.77 E-value=0.24 Score=52.67 Aligned_cols=80 Identities=21% Similarity=0.251 Sum_probs=52.8
Q ss_pred ceeeeeecccccc------cceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCC
Q psy15380 1621 KFQLIGFSDASEK------GYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPR 1694 (1738)
Q Consensus 1621 ~~~L~~F~DAS~~------ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~ 1694 (1738)
..++.+|+|+|-. |||+++| .+|... . .+ .. + ...|..|.||.|++.|++++ .
T Consensus 21 ~~~i~iytDGs~~~npG~~g~G~vi~-----~~~~~~-~--~~--~~-~-~~~Tnn~aEl~Ai~~AL~~~-------~-- 79 (165)
T 3p1g_A 21 DADYTWYTDGSSFLQEGQRRAGAAVT-----TETEVI-W--AR--AL-P-AGTSAQRAELIALTQALKMA-------E-- 79 (165)
T ss_dssp TCSEEEEEEEEEEEETTEEEEEEEEE-----CSSCEE-E--EE--EE-C-TTCCHHHHHHHHHHHHHHHT-------B--
T ss_pred CCCEEEEEEcccCCCCCceEEEEEEE-----ECCEEE-E--Ee--cC-C-CCCcHHHHHHHHHHHHHHHc-------c--
Confidence 4468999999985 4666655 234431 1 11 11 1 24589999999999999876 1
Q ss_pred CCcccEEEEechhhhHH--hhcCCCccccchhhch
Q psy15380 1695 YPIDSIYCFTDSSVALC--WAHSPSHLFNTFVANR 1727 (1738)
Q Consensus 1695 ~~~~~~~~~tDS~i~l~--~i~~~~~~~~~fv~nR 1727 (1738)
...+.++|||+.++. |+.+. +..|.|+
T Consensus 80 --~~~v~I~tDS~~vi~~iw~~~~----g~~v~n~ 108 (165)
T 3p1g_A 80 --GKKLNVYTDSRYAFATAHVHSE----GREIKNK 108 (165)
T ss_dssp --TSEEEEEECCHHHHHHHHSCCC----SCCCSSH
T ss_pred --CceEEEEEchHHHHhhhhcccC----CCcccCH
Confidence 468999999987764 65432 2345664
No 47
>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=92.32 E-value=0.066 Score=56.45 Aligned_cols=71 Identities=27% Similarity=0.237 Sum_probs=46.3
Q ss_pred eeeeecccccc------cceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCCCC
Q psy15380 1623 QLIGFSDASEK------GYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPRYP 1696 (1738)
Q Consensus 1623 ~L~~F~DAS~~------ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~~~ 1696 (1738)
.+.+|+|+|-. |||++ ++. ++.. . .+.+ .+ ...|--+.||.|++.|++++. .
T Consensus 4 ~~~iytDGs~~~n~~~~G~G~v--~~~---~~~~-~-~~~~--~~---~~~tn~~aEl~A~~~aL~~~~------~---- 61 (155)
T 1jl1_A 4 QVEIFTAGSALGNPGPGGYGAI--LRY---RGRE-K-TFSA--GY---TRTTNNRMELMAAIVALEALK------E---- 61 (155)
T ss_dssp CEEEEEEEEESSTTEEEEEEEE--EEE---TTEE-E-EEEE--EE---EEECHHHHHHHHHHHHHHTCC------S----
T ss_pred eEEEEEccccCCCCCceEEEEE--EEE---CCeE-E-EEec--CC---CCCcHHHHHHHHHHHHHHHhC------c----
Confidence 47889999875 35544 332 2321 1 1111 11 235788999999999987642 1
Q ss_pred cccEEEEechhhhHHhhcC
Q psy15380 1697 IDSIYCFTDSSVALCWAHS 1715 (1738)
Q Consensus 1697 ~~~~~~~tDS~i~l~~i~~ 1715 (1738)
...+.++|||+.++.-|.+
T Consensus 62 ~~~v~I~tDS~~vi~~i~~ 80 (155)
T 1jl1_A 62 HAEVILSTDSQYVRQGITQ 80 (155)
T ss_dssp CCEEEEEECCHHHHHHHHT
T ss_pred CCcEEEEeCHHHHHHHHHH
Confidence 2689999999999866664
No 48
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=92.23 E-value=0.18 Score=53.04 Aligned_cols=42 Identities=17% Similarity=0.120 Sum_probs=33.8
Q ss_pred CCccchhhHHHHHHHHHHHHHHHHhcCCCCCcccEEEEechhhhHHhhcC
Q psy15380 1666 VESIPRLELCAILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHS 1715 (1738)
Q Consensus 1666 ~~tIprlEL~a~~~~~~l~~~~~~~l~~~~~~~~~~~~tDS~i~l~~i~~ 1715 (1738)
..|.-+.||.|++.|++++.. ..+..+.++|||+.++.-|.+
T Consensus 47 ~~tn~~aEl~A~~~aL~~~~~--------~~~~~v~i~tDS~~vi~~i~~ 88 (154)
T 2qkb_A 47 RQTNQRAEIHAACKAIEQAKT--------QNINKLVLYTNSMFTINGITN 88 (154)
T ss_dssp SCCHHHHHHHHHHHHHHHHHH--------TTCCEEEEEESCHHHHHHHHT
T ss_pred CCchHHHHHHHHHHHHHHHHh--------CCCceEEEEECcHHHHhhhhh
Confidence 368999999999999988742 236789999999988865554
No 49
>2rsp_A RSV protease; hydrolase(aspartyl proteinase); 2.00A {Rous sarcoma virus} SCOP: b.50.1.1 PDB: 1mvp_A 1bai_A*
Probab=92.16 E-value=0.074 Score=53.28 Aligned_cols=52 Identities=17% Similarity=0.151 Sum_probs=25.7
Q ss_pred eeeeEEeeCCCCccccCHhhHhhhCCCccee-----eeEEeeccCCCcceeceEEEEEeccc
Q psy15380 888 HEMRFLLDCASMSNILSLSACKQLGLKTLFV-----ATDLKGVGSISSPVQGQVTMRFGSRF 944 (1738)
Q Consensus 888 ~~v~aLLDSGS~vS~Is~~la~~LgL~~~~~-----~i~I~g~g~~~~~~~~~v~v~i~~~~ 944 (1738)
+.+.||||||||.|+|++ ..++..-. +..|-|+||..........+.+...+
T Consensus 30 q~~eaLLDTGAD~TVl~~-----~~lP~~W~k~~~~~~~igGIGG~i~v~qy~~~i~iei~g 86 (124)
T 2rsp_A 30 VYITALLDSGADITIISE-----EDWPTDWPVMEAANPQIHGIGGGIPMRKSRDMIELGVIN 86 (124)
T ss_dssp EEEEEEECTTCSSCEEET-----TTSCTTSCEEECC---------CCCEEEESSCEEEEEEC
T ss_pred EEEEEEecCCCCcEEEec-----ccCCCcceeeccccceeeecCceEeeEEeCCceEEEEeC
Confidence 367899999999999985 44444322 22488998853332222255555544
No 50
>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A
Probab=91.25 E-value=0.11 Score=44.52 Aligned_cols=20 Identities=45% Similarity=0.991 Sum_probs=16.4
Q ss_pred cccccccccCCCCCCCCCCC
Q psy15380 721 HDLCVNCLGTGHKANNCPSK 740 (1738)
Q Consensus 721 ~~lCf~Clk~GH~a~~C~s~ 740 (1738)
...||+|++.||.+++|+.+
T Consensus 23 ~~~C~~Cge~GH~ardCp~~ 42 (56)
T 1u6p_A 23 RDQCAYCKEKGHWAKDCPKK 42 (56)
T ss_dssp TTBCSSSCCBSSCGGGCTTC
T ss_pred CCcceeCCCCCcccccCcCC
Confidence 46688888888888888876
No 51
>3ka2_A [L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydrolase-hydrolase inhibitor complex; HET: YCM 2NC; 1.40A {Synthetic} PDB: 3fsm_A* 3gi0_A* 2o40_A* 3hzc_A* 3hlo_A* 3iaw_A* 3nxe_A* 3nxn_A* 4epj_A 4ep2_A 4ep3_A 4eq0_A 4eqj_A 1hvc_A* 1g6l_A 2whh_A* 1lv1_A* 3dox_A 3kt5_A 3kt2_A ...
Probab=91.13 E-value=0.34 Score=52.68 Aligned_cols=68 Identities=16% Similarity=0.110 Sum_probs=45.1
Q ss_pred EEEEEEEecCCCceeeeEEeeCCCCccccCHhhHhhhCCCcceeeeEEeeccCCCcceeceEEEEEecccCCcceEEEEE
Q psy15380 875 TVKILVLDVYGKPHEMRFLLDCASMSNILSLSACKQLGLKTLFVATDLKGVGSISSPVQGQVTMRFGSRFDKRYNYTIKA 954 (1738)
Q Consensus 875 t~~V~v~~~~g~~~~v~aLLDSGS~vS~Is~~la~~LgL~~~~~~i~I~g~g~~~~~~~~~v~v~i~~~~~~~~~~~i~a 954 (1738)
++.|.+.+. ...+|||||||.|+|. .+++++.-.+..+.|+||. ..+..+..+.+...+ +.....+
T Consensus 10 ~vtv~I~Gq-----~~e~LLDTGAD~TVl~-----~~~lpg~w~pk~igGIGG~-i~vrqy~~i~iei~g---~~~~gtv 75 (203)
T 3ka2_A 10 LVTIRIGGQ-----LKEALLDTGADDTVIE-----ELNLPGXWKPKLIGGIAGF-IKVRQYDQIPVEIXG---HKAIGTV 75 (203)
T ss_dssp EEEEEETTE-----EEEEEECTTCSSCEEC-----SCCCSSCEEEEEEEETTEE-EEEEEEEEEEEEETT---EEEEEEE
T ss_pred eEEEEECCE-----EEEEEEecCCCceEEe-----cccCCCCCCceEEEEccCc-EEEEEEcceeEEEcC---eEEEEEE
Confidence 344555433 6899999999999997 4888886567788888863 333344456666554 3444445
Q ss_pred Ee
Q psy15380 955 LV 956 (1738)
Q Consensus 955 ~V 956 (1738)
+|
T Consensus 76 lV 77 (203)
T 3ka2_A 76 LV 77 (203)
T ss_dssp EE
T ss_pred ee
Confidence 44
No 52
>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=90.87 E-value=0.17 Score=51.97 Aligned_cols=73 Identities=10% Similarity=-0.111 Sum_probs=46.9
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCccccccEEEEechHHHHHHhcCCCCCcchhhhhhHHHHhhcc---cCcceeccCCCCC
Q psy15380 1 MFSTVILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHSPSHLFNTFVANRISKIQQNM---KVDSLYHVSGTEN 77 (1738)
Q Consensus 1 ~~~~~~ll~a~l~~~~~~~~~~~~~i~~~~~wtDS~ivL~wI~~~~~~~~~fVaNRv~~I~~~~---~~~~w~hVpt~~N 77 (1738)
||+++++.+-+++.. ..+..+.++|||..|+.||...-+.-..-....+.+|+++. ....|.|||.+.|
T Consensus 49 aEl~A~~~aL~~a~~--------~~~~~v~i~tDS~~vv~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~v~~~~V~~~~N 120 (141)
T 3hst_B 49 AEYRGLIAGLDDAVK--------LGATEAAVLMDSKLVVEQMSGRWKVKHPDLLKLYVQAQALASQFRRINYEWVPRARN 120 (141)
T ss_dssp HHHHHHHHHHHHHHH--------HTCSEEEEEESCHHHHHHHTTSSCCCSHHHHHHHHHHHHHHTTSSEEEEEECCGGGC
T ss_pred HHHHHHHHHHHHHHH--------CCCceEEEEeChHHHHHHHhCCcccCCHHHHHHHHHHHHHHhcCCeEEEEEcCCccc
Confidence 466777666665522 24678999999999999998732111122233444555444 4589999998777
Q ss_pred -CCcc
Q psy15380 78 -PADG 81 (1738)
Q Consensus 78 -PAD~ 81 (1738)
-||-
T Consensus 121 ~~AD~ 125 (141)
T 3hst_B 121 TYADR 125 (141)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 3553
No 53
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=90.63 E-value=0.16 Score=54.05 Aligned_cols=71 Identities=21% Similarity=0.163 Sum_probs=45.4
Q ss_pred eeeeecccccc------cceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCCCC
Q psy15380 1623 QLIGFSDASEK------GYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPRYP 1696 (1738)
Q Consensus 1623 ~L~~F~DAS~~------ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~~~ 1696 (1738)
.+.+|+|+|-. |||+++ +. .++... + +. +....|--+.||.|++.|++++. .
T Consensus 8 ~i~iytDGs~~~n~g~~G~G~v~--~~--~~~~~~---~-~~----~~~~~Tnn~aEl~Ai~~AL~~~~------~---- 65 (166)
T 1ril_A 8 RVALFTDGACLGNPGPGGWAALL--RF--HAHEKL---L-SG----GEACTTNNRMELKAAIEGLKALK------E---- 65 (166)
T ss_dssp CCCEEEEEEESSTTEEEEEEEEE--CB--TTBCCE---E-CC----EEEEECHHHHHHHHHHHHHHSCC------S----
T ss_pred cEEEEECccccCCCCCEEEEEEE--EE--CCEEEE---E-ec----CCCCCcHHHHHHHHHHHHHHHhc------c----
Confidence 57899999875 344443 32 222211 1 11 11235888999999999987542 1
Q ss_pred cccEEEEechhhhHHhhcC
Q psy15380 1697 IDSIYCFTDSSVALCWAHS 1715 (1738)
Q Consensus 1697 ~~~~~~~tDS~i~l~~i~~ 1715 (1738)
...+.++|||+.++.-|.+
T Consensus 66 ~~~v~I~tDS~~vi~~i~~ 84 (166)
T 1ril_A 66 PCEVDLYTDSHYLKKAFTE 84 (166)
T ss_dssp CCEEEEECCCHHHHHHHHS
T ss_pred CCeEEEEeChHHHHHHHhh
Confidence 2489999999999875554
No 54
>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=90.56 E-value=0.11 Score=54.45 Aligned_cols=67 Identities=21% Similarity=0.074 Sum_probs=46.0
Q ss_pred eeeeeeccccc------ccceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHHHHHHHHHHHHhcCCCC
Q psy15380 1622 FQLIGFSDASE------KGYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILLMSSLLKVVIDSYTPRY 1695 (1738)
Q Consensus 1622 ~~L~~F~DAS~------~ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~~~l~~~~ 1695 (1738)
-.+.+|+|+|- .+||++++ +|.... + +....|-.|.||.|++.|++.+
T Consensus 11 ~~~~iytDGs~~~n~g~~g~G~v~~------~~~~~~--~-------~~~~~Tnn~aEl~A~i~AL~~~----------- 64 (150)
T 3qio_A 11 GAETFYVDGAANRETKLGKAGYVTN------RGRQKV--V-------TLTDTTNQKTELQAIYLALQDS----------- 64 (150)
T ss_dssp TCEEEEEEEEECTTTCCEEEEEEET------TSCEEE--E-------EESSCCHHHHHHHHHHHHHHHS-----------
T ss_pred CCEEEEEccCCCCCCCCeEEEEEEE------cCCEEE--E-------eCCCCCHHHHHHHHHHHHHHhC-----------
Confidence 35889999995 35555432 232211 1 1245699999999999998752
Q ss_pred CcccEEEEechhhhHHhhcC
Q psy15380 1696 PIDSIYCFTDSSVALCWAHS 1715 (1738)
Q Consensus 1696 ~~~~~~~~tDS~i~l~~i~~ 1715 (1738)
...+.++|||+.++.-|.+
T Consensus 65 -~~~v~i~tDS~~v~~~i~~ 83 (150)
T 3qio_A 65 -GLEVNIVTDSQYALGIITQ 83 (150)
T ss_dssp -CSEEEEEESCHHHHHHHHH
T ss_pred -CCcEEEEeCcHHHHHHHHH
Confidence 2678999999998775543
No 55
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=89.87 E-value=0.33 Score=49.57 Aligned_cols=69 Identities=10% Similarity=0.069 Sum_probs=43.0
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCccccc----cEEEEechHHHHHHhcCCCCCcchhhh---hhHHHH-hhcccCcceecc
Q psy15380 1 MFSTVILLMSSLLKVVIDSYTPRYPID----SIYCFTDSSVALCWAHSPSHLFNTFVA---NRISKI-QQNMKVDSLYHV 72 (1738)
Q Consensus 1 ~~~~~~ll~a~l~~~~~~~~~~~~~i~----~~~~wtDS~ivL~wI~~~~~~~~~fVa---NRv~~I-~~~~~~~~w~hV 72 (1738)
||++|++.+-+++. ...+. .+.++|||..|+.||...-..-..-.. .++.++ .+.....+|.||
T Consensus 48 aEl~A~~~aL~~a~--------~~~~~~~~~~v~i~tDS~~vi~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~~v~~~~V 119 (140)
T 3u3g_D 48 AEYEALIRALEDLQ--------MFGDKLVDMEVEVRMDSELIVRQMQGVYKVKEPTLKEKFAKIAHIKMERVPNLVFVHI 119 (140)
T ss_dssp HHHHHHHHHHHHHG--------GGGGGGTTCEEEEEESCHHHHHHHTTSSCCCCGGGHHHHHHHHHHHHHHCTTCEEEEC
T ss_pred HHHHHHHHHHHHHH--------HcCCCCCCceEEEEeChHHHHHHhCCCcccCCHHHHHHHHHHHHHhhcCCCcEEEEEc
Confidence 35666666555542 23566 999999999999999874221111112 334333 333457899999
Q ss_pred CCCCC
Q psy15380 73 SGTEN 77 (1738)
Q Consensus 73 pt~~N 77 (1738)
|...|
T Consensus 120 ~~~~N 124 (140)
T 3u3g_D 120 PREKN 124 (140)
T ss_dssp CGGGG
T ss_pred Cchhh
Confidence 97766
No 56
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=88.44 E-value=0.24 Score=51.62 Aligned_cols=76 Identities=20% Similarity=0.087 Sum_probs=46.4
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCccccccEEEEechHHHHHHhcCCCCCcchhhhhhHHHHhhccc--CcceeccCCCCC-
Q psy15380 1 MFSTVILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHSPSHLFNTFVANRISKIQQNMK--VDSLYHVSGTEN- 77 (1738)
Q Consensus 1 ~~~~~~ll~a~l~~~~~~~~~~~~~i~~~~~wtDS~ivL~wI~~~~~~~~~fVaNRv~~I~~~~~--~~~w~hVpt~~N- 77 (1738)
||+++++.+.+++.. ..+.++.++|||+.|..||.+.-+.-..-...-+.+|+++.. ..+|.|||.+.|
T Consensus 51 aEl~A~~~aL~~a~~--------~g~~~v~i~tDS~~vi~~i~~~w~~~~~~~~~l~~~i~~l~~~~~v~~~~V~~~~N~ 122 (149)
T 2ehg_A 51 AEYSGLICLMETMLR--------LGISSPIIKGDSQLVIKQMNGEYKVKAKRIIPLYEKAIELKKKLNATLIWVPREENK 122 (149)
T ss_dssp HHHHHHHHHHHHHHH--------HTCCSCEEEESCHHHHHHHTTSSCCCCTTHHHHHHHHHHHHHHHTCEEEECCGGGCH
T ss_pred HHHHHHHHHHHHHHH--------cCCCEEEEEeChHHHHHHHhCccccCCHHHHHHHHHHHHHHhcCCEEEEEcCCcccH
Confidence 466666666555531 246789999999999999987521100111122333333222 489999999888
Q ss_pred CCccCcC
Q psy15380 78 PADGLSR 84 (1738)
Q Consensus 78 PAD~aSR 84 (1738)
-||-+.|
T Consensus 123 ~AD~LA~ 129 (149)
T 2ehg_A 123 EADRLSR 129 (149)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 5665443
No 57
>3ka2_A [L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydrolase-hydrolase inhibitor complex; HET: YCM 2NC; 1.40A {Synthetic} PDB: 3fsm_A* 3gi0_A* 2o40_A* 3hzc_A* 3hlo_A* 3iaw_A* 3nxe_A* 3nxn_A* 4epj_A 4ep2_A 4ep3_A 4eq0_A 4eqj_A 1hvc_A* 1g6l_A 2whh_A* 1lv1_A* 3dox_A 3kt5_A 3kt2_A ...
Probab=87.45 E-value=0.83 Score=49.66 Aligned_cols=61 Identities=16% Similarity=0.126 Sum_probs=41.2
Q ss_pred eeeEEeeCCCCccccCHhhHhhhCCCcceeeeEEeeccCCCcceeceEEEEEecccCCcceEEEEEEeec
Q psy15380 889 EMRFLLDCASMSNILSLSACKQLGLKTLFVATDLKGVGSISSPVQGQVTMRFGSRFDKRYNYTIKALVVN 958 (1738)
Q Consensus 889 ~v~aLLDSGS~vS~Is~~la~~LgL~~~~~~i~I~g~g~~~~~~~~~v~v~i~~~~~~~~~~~i~a~Vvp 958 (1738)
.+.+|||||||.|+|+ ..++++.-.+..+.|+|+.. ++..+.++.+...+ +.....++|-|
T Consensus 123 ~~e~LlDTGAD~TVl~-----~~~lpg~w~pk~igGiGg~i-~v~qy~~i~iei~g---~~~~~tvlVgp 183 (203)
T 3ka2_A 123 LKEALLDTGADDTVIE-----ELNLPGXWKPKLIGGIGGFI-KVRQYDQIPVEIXG---HKAIGTVLVGP 183 (203)
T ss_dssp EEEEEECTTCSSCEEC-----SCCCCSCCEEEEEEETTEEE-EEEEEEEEEEEETT---EEEEEEEEESC
T ss_pred EEeeeecccCCceeee-----cccCCCCCCceEEeeccceE-EEEEeccEEEEECC---eEEEEEEEECC
Confidence 6899999999999995 57777766666788998732 33334455565555 34444555544
No 58
>3sqf_A Protease; folded monomer, retropepsin, D-type retrovirus; 1.63A {Mason-pfizer monkey virus} SCOP: b.50.1.1 PDB: 1nso_A
Probab=87.03 E-value=0.35 Score=47.58 Aligned_cols=37 Identities=19% Similarity=0.305 Sum_probs=27.0
Q ss_pred eeeEEeeCCCCccccCHhhHhhhCCCcceee----eEEeeccCCCc
Q psy15380 889 EMRFLLDCASMSNILSLSACKQLGLKTLFVA----TDLKGVGSISS 930 (1738)
Q Consensus 889 ~v~aLLDSGS~vS~Is~~la~~LgL~~~~~~----i~I~g~g~~~~ 930 (1738)
.+.+|||||||.|+|.+ .++++.-.+ ..|.|+||...
T Consensus 20 ~~eaLLDTGADdTVi~~-----~~lpg~W~p~~~~k~igGIGG~i~ 60 (114)
T 3sqf_A 20 MFTGLINTGADVTIIKL-----EDWPPNWPITDTLTNLRGIGQSNN 60 (114)
T ss_dssp EEEEEECTTCSSCEEEG-----GGSCTTSCEEECCCCCTTCCGGGC
T ss_pred EEEEEEccCCCceEEec-----ccCCCCcccCcCceEEEeccceEE
Confidence 67999999999999974 455554333 67788887543
No 59
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=85.39 E-value=0.23 Score=42.34 Aligned_cols=20 Identities=35% Similarity=0.803 Sum_probs=17.5
Q ss_pred cccccccccCCCCCCCCCCC
Q psy15380 721 HDLCVNCLGTGHKANNCPSK 740 (1738)
Q Consensus 721 ~~lCf~Clk~GH~a~~C~s~ 740 (1738)
...||+|+++||.+++|+..
T Consensus 7 ~~~C~kCGk~GH~~k~Cp~~ 26 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCPTN 26 (55)
T ss_dssp SCCCTTTCCTTSCGGGCSGG
T ss_pred CCccccCCCcCcccccCCCC
Confidence 46799999999999999853
No 60
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=82.49 E-value=2.5 Score=44.82 Aligned_cols=75 Identities=13% Similarity=0.108 Sum_probs=43.2
Q ss_pred Cceeeeeeccccc-----------ccceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHHHHHHHHHHH
Q psy15380 1620 CKFQLIGFSDASE-----------KGYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILLMSSLLKVVI 1688 (1738)
Q Consensus 1620 ~~~~L~~F~DAS~-----------~ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~~~~l~~~~~ 1688 (1738)
.+.++++|+|+|- .|||++ ++...++....... ...|=.|.|+.|.+.|+..+..
T Consensus 4 ~~~evviYTDGsc~gNpgp~~~~~aG~Gv~--~~~~~~~~~~~~~~----------~~~tnn~te~~Aei~Al~~al~-- 69 (165)
T 2lsn_A 4 GQYEGVFYTDGSAIKSPDPTKSNNAGMGIV--HATYKPEYQVLNQW----------SIPLGNHTAQMAEIAAVEFACK-- 69 (165)
T ss_dssp CCCSEEEEEEEEEEECSSCTTCEEEEEEEE--EECCSSSCCEEEEE----------EEEESSCCHHHHHHHHHHHHHH--
T ss_pred CCceEEEEEcCCCCCCCCCCCCCcEEEEEE--EEECCCccEEeccc----------cCCchHHHHHHHHHHHHHHHHH--
Confidence 3678999999993 456544 44322222211110 0113357788888888765432
Q ss_pred HhcCCCCCcccEEEEechhhhHH
Q psy15380 1689 DSYTPRYPIDSIYCFTDSSVALC 1711 (1738)
Q Consensus 1689 ~~l~~~~~~~~~~~~tDS~i~l~ 1711 (1738)
..+. . ...+.++|||+-++.
T Consensus 70 ~al~--~-~~~v~I~TDS~Yvi~ 89 (165)
T 2lsn_A 70 KALK--I-PGPVLVITDSFYVAE 89 (165)
T ss_dssp HHHH--S-SSCEEEEESCHHHHH
T ss_pred HHhc--C-CCeEEEEeChHHHHh
Confidence 3333 2 246899999998864
No 61
>3liy_A Protease; hydrolase, hydrolase-hydrolase inhibitor complex; HET: STA; 1.86A {Human t-lymphotropic virus 1} PDB: 2b7f_A* 3liq_A* 3lit_A* 3liv_A* 3lix_A* 3lin_A*
Probab=78.45 E-value=1.9 Score=42.16 Aligned_cols=49 Identities=16% Similarity=0.162 Sum_probs=30.8
Q ss_pred EEEEEEecCCCceeeeEEeeCCCCccccCHhhHhhhCCCcceee---eEEeeccCCC
Q psy15380 876 VKILVLDVYGKPHEMRFLLDCASMSNILSLSACKQLGLKTLFVA---TDLKGVGSIS 929 (1738)
Q Consensus 876 ~~V~v~~~~g~~~~v~aLLDSGS~vS~Is~~la~~LgL~~~~~~---i~I~g~g~~~ 929 (1738)
+.|.+...+-..+.+.||||||||.|+|.+ .++++.-.. -.|.|+|+..
T Consensus 13 vtikI~~~~~~Gq~~eaLLDTGADdTVl~~-----~~lPg~Wkp~~tkiiGGiGg~~ 64 (116)
T 3liy_A 13 IKAQVDTQTSHPKTIEALLDTGADMTVIPI-----ALFSSNTPLKNTSVLGAGGQTQ 64 (116)
T ss_dssp EEEEEECSSSCCEEEEEEECTTBSSCEEEG-----GGSCTTCCEEECCEEETTEEES
T ss_pred EEEEEccccCCCeEeEEEeccCCCccEEec-----ccCCCCCcccccceEeecccce
Confidence 445555333233367899999999999964 556665433 3566666643
No 62
>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=76.32 E-value=0.9 Score=47.24 Aligned_cols=66 Identities=14% Similarity=0.009 Sum_probs=41.9
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCccccccEEEEechHHHHHHhcCCCCC-cchhhhhhHHHHhhcccCcceeccCCCC
Q psy15380 1 MFSTVILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHSPSHL-FNTFVANRISKIQQNMKVDSLYHVSGTE 76 (1738)
Q Consensus 1 ~~~~~~ll~a~l~~~~~~~~~~~~~i~~~~~wtDS~ivL~wI~~~~~~-~~~fVaNRv~~I~~~~~~~~w~hVpt~~ 76 (1738)
||++|++.+.+++.. ..+ ++.++|||..+..|+.+.=+. -+..+.|+ ..|+++.....|.|||+..
T Consensus 53 aEl~A~~~AL~~a~~--------~~~-~v~I~tDS~~i~~w~~~~w~~~~~~~~~~~-~l~~~l~~~v~~~wV~gH~ 119 (147)
T 2kq2_A 53 GEIAAALYAVKKASQ--------LGV-KIRILHDYAGIAFWATGEWKAKNEFTQAYA-KLMNQYRGIYSFEKVKAHS 119 (147)
T ss_dssp HHHHHHHHHHHHHHH--------HTC-CCCBSSCCSTHHHHTTSSSSCCHHHHHHHH-CGGGGGSTTCCBCCCCCCC
T ss_pred HHHHHHHHHHHHHHH--------CCC-eEEEEECcHHHHHHHhCCCccCCcchHHHH-HHHHHhcCCeeEEEecCcC
Confidence 577777776665321 134 788999999999999863221 12234443 3345555578999999754
No 63
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=75.86 E-value=1 Score=47.18 Aligned_cols=68 Identities=13% Similarity=0.066 Sum_probs=41.6
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCccccccEEEEechHHHHHHhcCC-----CCCcc----hhhhhh--HHHHhhccc--Cc
Q psy15380 1 MFSTVILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHSP-----SHLFN----TFVANR--ISKIQQNMK--VD 67 (1738)
Q Consensus 1 ~~~~~~ll~a~l~~~~~~~~~~~~~i~~~~~wtDS~ivL~wI~~~-----~~~~~----~fVaNR--v~~I~~~~~--~~ 67 (1738)
||+++++.+.+++.. ..+..+.++|||+.|+.-|... .+.|+ .-|.|+ +.+|.++.. ..
T Consensus 53 aEl~A~~~aL~~~~~--------~~~~~v~i~tDS~~vi~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~~~~v 124 (154)
T 2qkb_A 53 AEIHAACKAIEQAKT--------QNINKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDI 124 (154)
T ss_dssp HHHHHHHHHHHHHHH--------TTCCEEEEEESCHHHHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHTTCEE
T ss_pred HHHHHHHHHHHHHHh--------CCCceEEEEECcHHHHhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHcCCce
Confidence 467777766666531 2568999999999888655431 01122 224443 455554443 38
Q ss_pred ceeccCCCC
Q psy15380 68 SLYHVSGTE 76 (1738)
Q Consensus 68 ~w~hVpt~~ 76 (1738)
.|.|||...
T Consensus 125 ~~~~V~~H~ 133 (154)
T 2qkb_A 125 QWMHVPGHS 133 (154)
T ss_dssp EEEECCTTS
T ss_pred EEEEccCCC
Confidence 899999864
No 64
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1
Probab=72.65 E-value=1.5 Score=34.86 Aligned_cols=21 Identities=24% Similarity=0.456 Sum_probs=17.6
Q ss_pred cCccccccC-CCCCcccccccc
Q psy15380 687 RGNMCVLCS-EEHPLFKCNKFL 707 (1738)
Q Consensus 687 ~~~~C~~C~-~~H~~~~C~~f~ 707 (1738)
....|++|+ .+||..+||+-.
T Consensus 9 ~~~~C~~Cgk~GH~ardCP~~~ 30 (40)
T 1a6b_B 9 DRDQCAYCKEKGHWAKDCPKKP 30 (40)
T ss_dssp CSSSCSSSCCTTCCTTSCSSSC
T ss_pred CCCeeeECCCCCcchhhCcCCc
Confidence 357899999 799999999643
No 65
>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=72.02 E-value=1.3 Score=45.04 Aligned_cols=35 Identities=17% Similarity=0.096 Sum_probs=26.3
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCccccccEEEEechHHHHHHhcC
Q psy15380 1 MFSTVILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHS 44 (1738)
Q Consensus 1 ~~~~~~ll~a~l~~~~~~~~~~~~~i~~~~~wtDS~ivL~wI~~ 44 (1738)
||++|++.+-+++.. . .+. +.++|||+.|+.||++
T Consensus 48 aEl~A~i~aL~~l~~----~----~~~-v~i~tDSqyVi~wi~~ 82 (134)
T 4htu_A 48 GEFLAIVHGLRYLKE----R----NSR-KPIYSNSQTAIKWVKD 82 (134)
T ss_dssp HHHHHHHHHHHHHHH----T----TCC-CCEEESCHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHh----C----CCC-EEEEcchHHHHHHHHc
Confidence 788888877776632 2 222 6899999999999985
No 66
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A {Tribolium castaneum} PDB: 3du5_A 3du6_A
Probab=70.88 E-value=8.6 Score=47.08 Aligned_cols=146 Identities=14% Similarity=0.041 Sum_probs=89.1
Q ss_pred hcccCcceeecccccceeeeEecc-------c-----CcceEEE---------EeccCCcccceEE-EEEEeeeccccch
Q psy15380 1216 KFRLFPYALNGDITKMFLQIKLLS-------D-----YWKFQKI---------LWRFSNKEKIDVY-ELRVVIFGTKASP 1273 (1738)
Q Consensus 1216 r~r~~~~~~~~Dl~kaf~qv~l~~-------~-----dr~~~~f---------~w~~~~~~~~~~y-~f~r~pFGl~~SP 1273 (1738)
...+..|++-+||++-|-.|.-+. . |+...++ +..++ ..| +=...|.|-..||
T Consensus 240 ~s~G~~yVVDaDIkkFFDnINHdkLLk~L~~~i~~IlDk~Il~LIkk~Lka~LV~igG-----k~y~qekGTPQGGVISP 314 (596)
T 3kyl_A 240 KTQGQIYGIKVDIRDAYGNVKIPVLCKLIQSIPTHLLDSEKKNFIVDHISNQFVAFRR-----KIYKWNHGLLQGDPLSG 314 (596)
T ss_dssp HCCSCCEEEEEEESSTTTTCCHHHHHHHHTTSCTTTSCHHHHHHHHHHHHCEEEESSS-----SEEEECSSSCBTCTTHH
T ss_pred hcCCCeEEEeeEHHhhCCCCCHHHHHHHHHhhccccccHHHHHHHHHHHhhCeEEECC-----EEEecCCcccCCcchhH
Confidence 446788999999999998876511 1 2111111 11111 122 2356899999999
Q ss_pred HHHHHHHHHHHHhhhhcCcccccccccceeccceeeecCCHHHHHHHHHHHHHHHHhCCceEeeeccCChHhhhcCCCcc
Q psy15380 1274 YLAQRTVKQLIDDESKNFPLACQYIGESLYMDDCVISFPSQKEAIEFFNQTVKLFASGGFRFTKWSSNSPEILEQIPIHD 1353 (1738)
Q Consensus 1274 ~~~~~~l~~~l~~~~~~~p~~~~~i~~~~YvDDili~~~s~ee~~~~~~~v~~~l~~~Gf~l~k~~SN~~~vl~~i~~~~ 1353 (1738)
-+++-.|+.+....... +.......-|+||+++.+.+.++|.+.++.+...+ -++-.|=..|.+. ..
T Consensus 315 LLANIYLheLDkel~~~---l~kd~~LVRYADDFVIi~~Ske~Aerfl~~Lkg~l---eLNpEKTrInF~~-------~~ 381 (596)
T 3kyl_A 315 CLCELYMAFMDRLYFSN---LDKDAFIHRTVDDYFFCSPHPHKVYDFELLIKGVY---QVNPTKTRTNLPT-------HR 381 (596)
T ss_dssp HHHHHHHHHHHHHHSTT---SCTTSEEEECSSEEEEEESCHHHHHHHHHHHHHHS---CEEEEEEEECCTT-------SS
T ss_pred HHHHHHHHHHHHHHHHh---hccCceEEEEcCcEEEEECCHHHHHHHHHHhhCcc---eECchhceeeccc-------cc
Confidence 99999999986665321 11112234499999999999999999888654331 2222222222111 00
Q ss_pred chhhccccCCCCCCceEeeeEEeccCCeEEEEecC
Q psy15380 1354 RLAEMVSWHTDDFSHKILGMLWNTSSDSLFFKING 1388 (1738)
Q Consensus 1354 ~~~~~~~~~~~~~~~k~LGi~W~~~~D~l~~~~~~ 1388 (1738)
.......++|+.+|+.+-.+.-+...
T Consensus 382 ---------lp~~~fpwCGLLIDtkTLEI~kDySr 407 (596)
T 3kyl_A 382 ---------HPQDEIPYCGKIFNLTTRQVRTLYKL 407 (596)
T ss_dssp ---------SCCSEEEETTEEEETTTCCEEECCCC
T ss_pred ---------CCCceeeeeeEEEECCEEEEEeChhh
Confidence 01244889999999988877765543
No 67
>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A
Probab=68.18 E-value=3.5 Score=35.32 Aligned_cols=22 Identities=23% Similarity=0.478 Sum_probs=18.4
Q ss_pred ccCccccccC-CCCCcccccccc
Q psy15380 686 MRGNMCVLCS-EEHPLFKCNKFL 707 (1738)
Q Consensus 686 ~~~~~C~~C~-~~H~~~~C~~f~ 707 (1738)
.....|++|+ .+||..+||+..
T Consensus 21 ~~~~~C~~Cge~GH~ardCp~~~ 43 (56)
T 1u6p_A 21 LDRDQCAYCKEKGHWAKDCPKKP 43 (56)
T ss_dssp CCTTBCSSSCCBSSCGGGCTTCC
T ss_pred CCCCcceeCCCCCcccccCcCCc
Confidence 4467899999 799999999654
No 68
>2jys_A Protease/reverse transcriptase; retroviral protease, hydrolase; NMR {Simian foamy virus type 1}
Probab=66.14 E-value=9.5 Score=35.52 Aligned_cols=61 Identities=7% Similarity=-0.015 Sum_probs=42.8
Q ss_pred EEEEEEEEEecCCCceeeeEEeeCCCCccccCHhhHhhhCCCcce-eeeEEeeccCCCcceeceEEEEEeccc
Q psy15380 873 LGTVKILVLDVYGKPHEMRFLLDCASMSNILSLSACKQLGLKTLF-VATDLKGVGSISSPVQGQVTMRFGSRF 944 (1738)
Q Consensus 873 l~t~~V~v~~~~g~~~~v~aLLDSGS~vS~Is~~la~~LgL~~~~-~~i~I~g~g~~~~~~~~~v~v~i~~~~ 944 (1738)
+...+|.+.+. ...+..||||+++.|.+.+.+. ..+ ....|+++.|..... .+-++|++.+
T Consensus 7 lqPL~vEiKg~-----kLkg~WDsGA~ITCiP~~fL~~----E~PI~~~~I~TIHG~k~q~--vYYl~fKv~G 68 (107)
T 2jys_A 7 LQPLEAEIKGT-----KLKAHWDSGATITCVPEAFLED----ERPIQTMLIKTIHGEKQQD--VYYLTFKVQG 68 (107)
T ss_dssp -CCEEEEETTE-----EEEEEECTTCSSEEEEGGGTTT----CCCSEEEEEECSSCEEEEE--EEEEEEEESS
T ss_pred CCceeEEEeCc-----EEEEEecCCCeEEEcchHHhcc----cccccceEEEEecCceece--EEEEEEEEcC
Confidence 44467777765 7899999999999999877643 222 567788998865543 4555666655
No 69
>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=65.27 E-value=2.7 Score=43.96 Aligned_cols=50 Identities=16% Similarity=0.028 Sum_probs=32.0
Q ss_pred ccEEEEechHHHHHHhcCCCC-----Cc----chhhhhh--HHHHhhccc--CcceeccCCCC
Q psy15380 27 DSIYCFTDSSVALCWAHSPSH-----LF----NTFVANR--ISKIQQNMK--VDSLYHVSGTE 76 (1738)
Q Consensus 27 ~~~~~wtDS~ivL~wI~~~~~-----~~----~~fVaNR--v~~I~~~~~--~~~w~hVpt~~ 76 (1738)
..+.++|||..|+.-|..--. .| ...|.|+ +.+|.++.. ...|.|||+..
T Consensus 63 ~~v~I~tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~ 125 (155)
T 1jl1_A 63 AEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHA 125 (155)
T ss_dssp CEEEEEECCHHHHHHHHTTHHHHHHTTTBCTTSCBCTTHHHHHHHHHHTTTCEEEEEECCSST
T ss_pred CcEEEEeCHHHHHHHHHHHHHHHhhcccccccCCccCCHHHHHHHHHHHccCceEEEEcCCCC
Confidence 789999999999976654100 12 1245553 455555554 37899999753
No 70
>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=60.72 E-value=3.1 Score=42.93 Aligned_cols=37 Identities=16% Similarity=0.088 Sum_probs=28.1
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCccccccEEEEechHHHHHHhcCCC
Q psy15380 1 MFSTVILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHSPS 46 (1738)
Q Consensus 1 ~~~~~~ll~a~l~~~~~~~~~~~~~i~~~~~wtDS~ivL~wI~~~~ 46 (1738)
||++|++.+-+++.. . .+ .+.++|||+.|..|+++.-
T Consensus 54 aEl~A~i~aL~~~~~----~----~~-~v~i~tDS~~vi~w~~~~~ 90 (142)
T 1zbf_A 54 GEFLAIVHGLRYLKE----R----NS-RKPIYSNSQTAIKWVKDKK 90 (142)
T ss_dssp HHHHHHHHHHHHHHH----T----TC-CCCEEESCHHHHHHHHHTC
T ss_pred HHHHHHHHHHHHHHh----C----CC-eEEEEEehHHHHHHHHcCC
Confidence 678888777776632 2 23 7899999999999998754
No 71
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=59.07 E-value=6.6 Score=41.12 Aligned_cols=50 Identities=16% Similarity=-0.031 Sum_probs=30.2
Q ss_pred ccEEEEechHHHHHHhcC--------CCC-Ccchhhhhh--HHHHhhccc--CcceeccCCCC
Q psy15380 27 DSIYCFTDSSVALCWAHS--------PSH-LFNTFVANR--ISKIQQNMK--VDSLYHVSGTE 76 (1738)
Q Consensus 27 ~~~~~wtDS~ivL~wI~~--------~~~-~~~~fVaNR--v~~I~~~~~--~~~w~hVpt~~ 76 (1738)
..+.++|||..|+.-|.. .-+ .-..-|.|+ +.+|.++.. ...|.|||+..
T Consensus 65 ~~v~I~tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~ 127 (158)
T 2e4l_A 65 CKIILTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQLHQIDWRWVKGHA 127 (158)
T ss_dssp CEEEEEECCHHHHHHHHTHHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHTTSEEEEEECCTTC
T ss_pred CeEEEEeCHHHHHHHHHHHHHHHHHccccccCCCcccCHHHHHHHHHHHccCcEEEEEccCCC
Confidence 789999999998874433 110 001234453 244544444 47899999753
No 72
>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=57.02 E-value=6.5 Score=40.85 Aligned_cols=64 Identities=20% Similarity=0.039 Sum_probs=34.9
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCccccccEEEEechHHHHHHhcCC-----CCCcch----hhhhh--HHHHhh---cccC
Q psy15380 1 MFSTVILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHSP-----SHLFNT----FVANR--ISKIQQ---NMKV 66 (1738)
Q Consensus 1 ~~~~~~ll~a~l~~~~~~~~~~~~~i~~~~~wtDS~ivL~wI~~~-----~~~~~~----fVaNR--v~~I~~---~~~~ 66 (1738)
||+++++.+-+.+ . ..+.++|||..|+.-|..- .+.|++ -|.|+ +.+|.+ ....
T Consensus 52 aEl~A~i~AL~~~-----------~-~~v~i~tDS~~v~~~i~~w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~~~~~ 119 (150)
T 3qio_A 52 TELQAIYLALQDS-----------G-LEVNIVTDSQYALGIITQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKKEK 119 (150)
T ss_dssp HHHHHHHHHHHHS-----------C-SEEEEEESCHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHTTCSE
T ss_pred HHHHHHHHHHHhC-----------C-CcEEEEeCcHHHHHHHHHHHHHHhhcCcCcCcCcccccHHHHHHHHHHHhhcCc
Confidence 4666666554431 2 6899999999988755331 111222 45554 233332 1234
Q ss_pred cceeccCCCC
Q psy15380 67 DSLYHVSGTE 76 (1738)
Q Consensus 67 ~~w~hVpt~~ 76 (1738)
..|.|||+..
T Consensus 120 v~~~wV~gH~ 129 (150)
T 3qio_A 120 VYLAWVPAHK 129 (150)
T ss_dssp EEEEECCTTS
T ss_pred eEEEEccCcC
Confidence 8899999985
No 73
>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=56.64 E-value=13 Score=39.21 Aligned_cols=62 Identities=19% Similarity=0.188 Sum_probs=39.5
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCccccccEEEEechHHHHH--HhcCCCCCcchhhhhh--HHHHhh-c--ccCcceeccC
Q psy15380 1 MFSTVILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALC--WAHSPSHLFNTFVANR--ISKIQQ-N--MKVDSLYHVS 73 (1738)
Q Consensus 1 ~~~~~~ll~a~l~~~~~~~~~~~~~i~~~~~wtDS~ivL~--wI~~~~~~~~~fVaNR--v~~I~~-~--~~~~~w~hVp 73 (1738)
||+++++.+-+++ ....+.++|||..|+. |+.+.. ..|.|+ +.+|.. + -....|.||+
T Consensus 66 aEl~Ai~~AL~~~-----------~~~~v~I~tDS~~vi~~iw~~~~g----~~v~n~dl~~~l~~~l~~~~~v~~~wVk 130 (165)
T 3p1g_A 66 AELIALTQALKMA-----------EGKKLNVYTDSRYAFATAHVHSEG----REIKNKNEILALLKALFLPKRLSIIHCP 130 (165)
T ss_dssp HHHHHHHHHHHHT-----------BTSEEEEEECCHHHHHHHHSCCCS----CCCSSHHHHHHHHHHTTSBSEEEEEECC
T ss_pred HHHHHHHHHHHHc-----------cCceEEEEEchHHHHhhhhcccCC----CcccCHHHHHHHHHHHhcCCceEEEEec
Confidence 4666666666554 2568999999987775 765432 345564 233422 1 2348899999
Q ss_pred CCCC
Q psy15380 74 GTEN 77 (1738)
Q Consensus 74 t~~N 77 (1738)
+..+
T Consensus 131 gH~g 134 (165)
T 3p1g_A 131 GHQK 134 (165)
T ss_dssp SSCC
T ss_pred CCCC
Confidence 9874
No 74
>3oym_A PFV integrase, P42IN; protein-DNA complex; HET: DNA; 2.02A {Human spumaretrovirus} PDB: 3oyn_A* 3s3o_A* 4be2_A* 3l2q_A 3l2s_A 3l2r_A* 3l2u_A* 3l2v_A* 3l2w_A* 3l2t_A* 3os1_A* 3os2_A* 3os0_A* 3oya_A* 3oy9_A* 3oyc_A* 3oyd_A* 3oye_A* 3oyb_A* 3oyg_A* ...
Probab=54.08 E-value=2 Score=52.04 Aligned_cols=64 Identities=8% Similarity=-0.065 Sum_probs=41.6
Q ss_pred cCCchhhHHHHHH-hhhhccccchhhhhccccccccccccccceeeeccccCCccccccccccccccccCCcccccccc
Q psy15380 312 GQPLVVNSFIAIR-ATFILQYFKQNRVLGENCLISFGKRKFGTVLAARYHSSSSTMVVAQEKKYRLAISSPISGFSSSS 389 (1738)
Q Consensus 312 ~~~~~~~~~~~~r-~~~~i~~r~~~r~~~~~C~~c~r~~~~~c~~c~r~~~~~~~~~m~~lp~~Rv~~~~pf~~~g~~~ 389 (1738)
.|.+...+...++ .+||++.++.++.+++.|..|++...... .+ ...++. ..++.||..++.|-
T Consensus 68 gH~g~~~~~~~l~~~~~~~~~~~~v~~~~~~C~~C~~~k~~~~-----------~~-~~~~~~--~~~~~p~~~~~~D~ 132 (395)
T 3oym_A 68 AHTGREATLLKIANLYWWPNMRKDVVKQLGRCQQCLITNASNK-----------AS-GPILRP--DRPQKPFDKFFIDY 132 (395)
T ss_dssp TTCCHHHHHHHHHTTBCCTTHHHHHHHHHTTCHHHHHHSCCCS-----------EE-CCCCCC--CCCSSTTSEEEEEE
T ss_pred CCCCHHHHHHHHhCCeECCCHHHHHHHhCccChhhcccCCCCC-----------CC-CCCcCC--CCCCCCceEEEEEE
Confidence 4555555555555 56677999999999999888886554321 11 111111 35678999999995
No 75
>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=52.54 E-value=11 Score=47.87 Aligned_cols=63 Identities=17% Similarity=0.039 Sum_probs=42.1
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCccccccEEEEechHHHHHHhcCCCCCcchhhhhhHH-HHhhcccCcceeccCCCC
Q psy15380 1 MFSTVILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHSPSHLFNTFVANRIS-KIQQNMKVDSLYHVSGTE 76 (1738)
Q Consensus 1 ~~~~~~ll~a~l~~~~~~~~~~~~~i~~~~~wtDS~ivL~wI~~~~~~~~~fVaNRv~-~I~~~~~~~~w~hVpt~~ 76 (1738)
||++|++.+-+++ ...+.++|||..|+..|......-..-+.+++- ++.+. ....|.|||+..
T Consensus 479 aEl~Ai~~aL~~~------------~~~v~I~tDS~~vi~~i~~~~~~~~~~l~~~~~~~l~~~-~~v~~~wV~~H~ 542 (557)
T 2zd1_A 479 TELQAIYLALQDS------------GLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKK-EKVYLAWVPAHK 542 (557)
T ss_dssp HHHHHHHHHHHHS------------CSEEEEEECCHHHHHHHTTCCSEESSHHHHHHHHHHHHC-SEEEEEECCSSS
T ss_pred HHHHHHHHHHHhC------------CCcEEEEeChHHHHHHHhcCCccCCHHHHHHHHHHHhcC-CCEEEEEcCCCC
Confidence 4667776666654 468999999999999998754431233334433 44433 358999999853
No 76
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=48.30 E-value=18 Score=36.99 Aligned_cols=19 Identities=11% Similarity=0.111 Sum_probs=15.3
Q ss_pred cccEEEEechHHHHHHhcC
Q psy15380 26 IDSIYCFTDSSVALCWAHS 44 (1738)
Q Consensus 26 i~~~~~wtDS~ivL~wI~~ 44 (1738)
...+.++|||..|+.-|..
T Consensus 62 ~~~v~I~tDS~~vi~~i~~ 80 (146)
T 3h08_A 62 PARVQLYSDSAYLVNAMNE 80 (146)
T ss_dssp CCEEEEEESCHHHHHHHHS
T ss_pred cCcEEEEeChHHHHHHHHH
Confidence 5789999999988875543
No 77
>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=47.69 E-value=24 Score=44.67 Aligned_cols=81 Identities=14% Similarity=0.071 Sum_probs=51.3
Q ss_pred CCCCCCCCChhhHHHHHHHHHhcCCCCcEEEeeeeeccCCCceeeeeecccccc-cceeEEEEEEecCCCcEEEEEEeec
Q psy15380 1580 KLDWDSIPPHHLVQLWQTFQAQLPLLESLAFPRHIGVYKDCKFQLIGFSDASEK-GYGALIFSRVSLPNGSIVIQLICAK 1658 (1738)
Q Consensus 1580 ~~~WD~~l~~~~~~~w~~~~~~l~~l~~~~ipR~~~~~~~~~~~L~~F~DAS~~-ayga~vy~r~~~~~g~~~~~l~~aK 1658 (1738)
+..|+ ++....+..+.+.|.+...+. +.+...++.+++|||.. |+|||++ .+|.+.....+++
T Consensus 292 ~~~wt----~~~~~af~~lK~~L~~~p~L~-------~p~~~~~~~l~~das~~ga~g~vl~-----Q~~~~~~~~~~s~ 355 (555)
T 1mu2_A 292 EVQWT----ELAEAELEENRIILSQEQEGH-------YYQEEKELEATVQKDQDNQWTYKIH-----QEEKILKVGKYAK 355 (555)
T ss_dssp BCCCC----HHHHHHHHHHHHHHSCCEEEE-------CBCTTSCCEEEEEECSSSCEEEEEE-----ETTEEEEEEEECC
T ss_pred cccCC----HHHHHHHHHHHHHHhhCcccc-------ccCCCCCEEEEEecCCCCcEEEEEe-----eCCcceeeeeccc
Confidence 45665 677888999999988731111 23346789999999999 5999987 4666544334443
Q ss_pred cccccCCCCccchhhHHH-HHHHH
Q psy15380 1659 SRVSPLKVESIPRLELCA-ILLMS 1681 (1738)
Q Consensus 1659 srv~p~k~~tIprlEL~a-~~~~~ 1681 (1738)
. .......+|++| ++.++
T Consensus 356 ~-----~~~~~~~~~~la~~v~~l 374 (555)
T 1mu2_A 356 V-----KNTHTNGIRLLAQVVQKI 374 (555)
T ss_dssp C-------CEECHHHHHHHHHHHH
T ss_pred c-----ccccCCHHHHHHHHHHHh
Confidence 2 233444567776 55443
No 78
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=46.98 E-value=7.4 Score=41.13 Aligned_cols=49 Identities=18% Similarity=0.063 Sum_probs=29.9
Q ss_pred ccEEEEechHHHHHHhcCC------CCCcc----hhhhhh--HHHHhhccc--CcceeccCCC
Q psy15380 27 DSIYCFTDSSVALCWAHSP------SHLFN----TFVANR--ISKIQQNMK--VDSLYHVSGT 75 (1738)
Q Consensus 27 ~~~~~wtDS~ivL~wI~~~------~~~~~----~fVaNR--v~~I~~~~~--~~~w~hVpt~ 75 (1738)
.++.++|||..|+.-|... .+.|+ ..|.|+ +.+|.++.. ...|.|||+.
T Consensus 67 ~~v~I~tDS~~vi~~i~~~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH 129 (166)
T 1ril_A 67 CEVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGH 129 (166)
T ss_dssp CEEEEECCCHHHHHHHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTTSEEECCCCCGG
T ss_pred CeEEEEeChHHHHHHHhhhHHHHHHhcccccccCCccCcHHHHHHHHHHHhcCeEEEEEeeCC
Confidence 5899999999998754431 01122 245553 444544444 4789999854
No 79
>1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1
Probab=44.66 E-value=9.5 Score=27.19 Aligned_cols=18 Identities=22% Similarity=0.545 Sum_probs=15.7
Q ss_pred ccccccC-CCCCccccccc
Q psy15380 689 NMCVLCS-EEHPLFKCNKF 706 (1738)
Q Consensus 689 ~~C~~C~-~~H~~~~C~~f 706 (1738)
..|+.|+ .+|+..+|+.-
T Consensus 3 ~~Cf~CG~~GH~ardC~~~ 21 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKEE 21 (26)
T ss_dssp CBCTTTCCBSSCTTTTTCC
T ss_pred CeeEeCCCCCcccccCCCc
Confidence 5799999 79999999864
No 80
>3f9k_A Integrase; protein-protein complex, AIDS, DNA integration, endonuclease magnesium, metal-binding, multifunctional enzyme; 3.20A {Human immunodeficiency virus type 2} PDB: 1e0e_A
Probab=39.82 E-value=5.9 Score=43.27 Aligned_cols=23 Identities=17% Similarity=0.112 Sum_probs=17.0
Q ss_pred Hhhhhccccchhhhhcccccccccc
Q psy15380 324 RATFILQYFKQNRVLGENCLISFGK 348 (1738)
Q Consensus 324 r~~~~i~~r~~~r~~~~~C~~c~r~ 348 (1738)
++|||++.. ++.+++.|..|++.
T Consensus 25 ~~~~wp~~~--~~~~v~~C~~Cq~~ 47 (210)
T 3f9k_A 25 HKFGIPNLV--ARQIVNSCAQCQQK 47 (210)
T ss_dssp HHHCCCHHH--HHHHHHTCTTTTTC
T ss_pred HhCCCChHH--HHHHHhcCHHHHcc
Confidence 567777765 78888887777765
No 81
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=39.04 E-value=13 Score=31.79 Aligned_cols=19 Identities=26% Similarity=0.672 Sum_probs=16.4
Q ss_pred cCccccccC-CCCCcccccc
Q psy15380 687 RGNMCVLCS-EEHPLFKCNK 705 (1738)
Q Consensus 687 ~~~~C~~C~-~~H~~~~C~~ 705 (1738)
....|+.|+ .+|++.+||.
T Consensus 6 ~~~~C~kCGk~GH~~k~Cp~ 25 (55)
T 2ysa_A 6 SGYTCFRCGKPGHYIKNCPT 25 (55)
T ss_dssp SSCCCTTTCCTTSCGGGCSG
T ss_pred CCCccccCCCcCcccccCCC
Confidence 356899999 8899999994
No 82
>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A
Probab=39.00 E-value=13 Score=27.14 Aligned_cols=19 Identities=26% Similarity=0.420 Sum_probs=16.1
Q ss_pred CccccccC-CCCCccccccc
Q psy15380 688 GNMCVLCS-EEHPLFKCNKF 706 (1738)
Q Consensus 688 ~~~C~~C~-~~H~~~~C~~f 706 (1738)
...|+.|+ .+|...+|+.-
T Consensus 6 ~~~C~nCgk~GH~ar~C~~p 25 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRAP 25 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCSS
T ss_pred CCEEEECCccccCHhHCccc
Confidence 46799999 89999999853
No 83
>2pma_A Uncharacterized protein; APC86035.2, protein LPG0085, DUF785, legionella pneumophila pneumophila STR. philadelphia 1; 1.89A {Legionella pneumophila subsp} SCOP: b.50.1.3
Probab=32.51 E-value=45 Score=34.30 Aligned_cols=24 Identities=17% Similarity=0.149 Sum_probs=18.1
Q ss_pred eeeEEeeCCCCccccCHhhHhhhC
Q psy15380 889 EMRFLLDCASMSNILSLSACKQLG 912 (1738)
Q Consensus 889 ~v~aLLDSGS~vS~Is~~la~~Lg 912 (1738)
.+.|=+||||.+|-|+..-.+...
T Consensus 19 ~~~AKiDTGA~TSSLhA~dI~~Fe 42 (146)
T 2pma_A 19 TLSAKLDTGAKSASLHAVNITEIE 42 (146)
T ss_dssp EEEEEECTTCSSEEEECEEEEEEE
T ss_pred EEEEEecCCcCcceecceeEEEee
Confidence 378889999999988765555443
No 84
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=27.37 E-value=53 Score=34.50 Aligned_cols=71 Identities=11% Similarity=0.072 Sum_probs=37.5
Q ss_pred ChhHHHHHHHHHHHHHHHhcCCccccccEEEEechHHHHH--------HhcCCCC-Ccchhhhhh--HHHHhhc---ccC
Q psy15380 1 MFSTVILLMSSLLKVVIDSYTPRYPIDSIYCFTDSSVALC--------WAHSPSH-LFNTFVANR--ISKIQQN---MKV 66 (1738)
Q Consensus 1 ~~~~~~ll~a~l~~~~~~~~~~~~~i~~~~~wtDS~ivL~--------wI~~~~~-~~~~fVaNR--v~~I~~~---~~~ 66 (1738)
|+.++++.+...+ +...+. .+ .+|.++|||.-|.. |.++.=+ .-+.-|.|+ ..+|.++ -..
T Consensus 55 te~~Aei~Al~~a--l~~al~--~~-~~v~I~TDS~Yvi~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~~ 129 (165)
T 2lsn_A 55 TAQMAEIAAVEFA--CKKALK--IP-GPVLVITDSFYVAESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKPD 129 (165)
T ss_dssp CHHHHHHHHHHHH--HHHHHH--SS-SCEEEEESCHHHHHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCTT
T ss_pred HHHHHHHHHHHHH--HHHHhc--CC-CeEEEEeChHHHHhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCCC
Confidence 5666655544322 222222 12 36899999998874 3332111 012235665 2334332 235
Q ss_pred cceeccCCCC
Q psy15380 67 DSLYHVSGTE 76 (1738)
Q Consensus 67 ~~w~hVpt~~ 76 (1738)
..|.||++..
T Consensus 130 v~~~~VkgH~ 139 (165)
T 2lsn_A 130 ITIQHEKGHQ 139 (165)
T ss_dssp CEEEECCSSS
T ss_pred EEEEEEeCCC
Confidence 8899999875
No 85
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=25.83 E-value=21 Score=34.02 Aligned_cols=42 Identities=29% Similarity=0.603 Sum_probs=29.4
Q ss_pred ccCccccccC--C-------CCCccc------ccccccCCHHHHHHHHHhcccccccccCC---CCCCCCCCC
Q psy15380 686 MRGNMCVLCS--E-------EHPLFK------CNKFLKLSPQERYGVVKQHDLCVNCLGTG---HKANNCPSK 740 (1738)
Q Consensus 686 ~~~~~C~~C~--~-------~H~~~~------C~~f~~~s~~eR~~~vk~~~lCf~Clk~G---H~a~~C~s~ 740 (1738)
.....|.||. + +|.+.+ ||... .-.|-.|+..| |..+-|+..
T Consensus 34 ~~~~~C~FCrnNGE~~~vy~SH~LKd~~G~V~CPvLR-------------~Y~CpiCGATGd~AHT~kYCP~~ 93 (106)
T 3alr_A 34 AERKFCSFCKHNGETEAVYTSHYLKNRDGDVMCPYLR-------------QYKCPLCGATGAKAHTKRFCPMV 93 (106)
T ss_dssp ----CCHHHHHTTCCHHHHTSBCSBCTTSCBCCTTGG-------------GCCCTTTCCCGGGCCCGGGCTTC
T ss_pred CCCCEeECCCCCCcccCccccceeECCCCCCcCCCcc-------------cccCCCCCCcCCcccceecCCCC
Confidence 4567899997 3 488888 98543 46899998888 878888754
No 86
>3g21_A GAG polyprotein, capsid protein; alpha-helical bundle, virion, viral protein, retrovirus; 0.90A {Rous sarcoma virus} PDB: 3g1i_A 3g28_A 3g29_A 3g26_A 3g0v_A
Probab=20.59 E-value=2.5e+02 Score=25.48 Aligned_cols=60 Identities=12% Similarity=0.131 Sum_probs=45.8
Q ss_pred cCChHHHHHHHHHHhccCCCCChHHHHHHHHHhccccH----HHhhcCCCCCCCcHHHHHHHHHh
Q psy15380 446 IGNWPLFIEMYRINIHNRTDLTNAHKLQYLLSKLSGGA----LAVAAGIPPTEHNYQVIYDALLE 506 (1738)
Q Consensus 446 ~~~~~~f~~~F~~~v~~~~~l~d~~K~~~L~s~L~G~A----~~~i~~~~~t~~nY~~a~~~L~~ 506 (1738)
-+-|..|-++|...+.. .+.++..|--.+..+|...| +..+++++-+..--+++++-+.+
T Consensus 12 kEPF~dfVdRl~kal~~-e~~~~~vk~~m~~tLl~QNANpdCk~ilk~l~~~~~~~~e~ik~~~~ 75 (77)
T 3g21_A 12 SESFVDFANRLIKAVEG-SDLPPSARAPVIIDCFRQKSQPDIQQLIRTAPSTLTTPGEIIKYVLD 75 (77)
T ss_dssp TCCHHHHHHHHHHHHHT-SSSCHHHHHHHHHHHHHHHSCHHHHHHHTTSCTTCCSHHHHHHHHHT
T ss_pred CccHHHHHHHHHHHHHH-hhChHHHHHHHHHHHHHHhcCHHHHHHHHhCCCCCCCHHHHHHHHHc
Confidence 34599999999999985 45788888887777777777 88899987766554666665544
No 87
>3hph_A Integrase, IN; protein-protein complex, tetramer, DNA integration, endonucl magnesium, metal-binding, multifunctional enzyme; 2.64A {Maedi visna virus} PDB: 3hpg_A
Probab=20.11 E-value=15 Score=40.11 Aligned_cols=24 Identities=8% Similarity=0.022 Sum_probs=15.5
Q ss_pred Hhhhhccccchhhhhccccccccccc
Q psy15380 324 RATFILQYFKQNRVLGENCLISFGKR 349 (1738)
Q Consensus 324 r~~~~i~~r~~~r~~~~~C~~c~r~~ 349 (1738)
++|||++. .|+.+++.|..|++..
T Consensus 24 ~~~~~p~~--~~~~~v~~C~~Cq~~k 47 (219)
T 3hph_A 24 LEFGIPRT--AAEDIVQQCDVCQENK 47 (219)
T ss_dssp HHSCCCHH--HHHHHHTTCTTC----
T ss_pred HhCCCCHH--HHHHHHHcCHHHHcCC
Confidence 56777776 7888888877766554
Done!