Query psy9877
Match_columns 1447
No_of_seqs 498 out of 2246
Neff 7.9
Searched_HMMs 29240
Date Fri Aug 16 21:56:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9877.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/9877hhsearch_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 2E-47 6.7E-52 470.8 10.3 399 588-1058 48-454 (455)
2 2zd1_B P51 RT; P51/P66, hetero 100.0 3.6E-39 1.2E-43 391.7 23.5 364 588-1031 27-405 (428)
3 1mu2_A HIV-2 RT; HIV-2 reverse 100.0 2.9E-38 1E-42 397.6 23.1 302 588-955 27-343 (555)
4 2zd1_A Reverse transcriptase/r 100.0 6.4E-37 2.2E-41 385.6 29.4 360 588-1029 29-405 (557)
5 3fsi_A RT, reverse transcripta 100.0 5.9E-32 2E-36 307.0 11.5 207 588-835 44-253 (255)
6 2ehg_A Ribonuclease HI; RNAse 98.4 4.3E-07 1.5E-11 93.6 7.0 117 938-1071 2-130 (149)
7 3hst_B Protein RV2228C/MT2287; 98.4 4.2E-07 1.5E-11 92.6 6.8 114 937-1070 3-128 (141)
8 3u3g_D Ribonuclease H, RNAse H 98.2 7.5E-07 2.6E-11 90.5 5.8 118 937-1070 3-132 (140)
9 3s8i_A Protein DDI1 homolog 1; 98.1 3.8E-06 1.3E-10 85.7 6.7 94 325-460 24-119 (148)
10 2kq2_A Ribonuclease H-related 97.9 1.5E-05 5.1E-10 81.6 7.6 117 935-1070 4-132 (147)
11 2i1a_A DNA damage-inducible pr 97.9 1.2E-05 4.3E-10 82.4 6.3 93 325-460 26-120 (148)
12 2bl6_A Nucleocapsid protein P1 97.5 4.3E-05 1.5E-09 58.1 2.9 35 237-284 2-37 (37)
13 3p1g_A Xenotropic murine leuke 97.5 0.00045 1.6E-08 71.8 11.1 101 934-1062 20-133 (165)
14 2qkb_A Ribonuclease H1, HS-RNA 97.4 5.8E-05 2E-09 78.0 3.7 81 984-1070 47-146 (154)
15 2cqf_A RNA-binding protein LIN 97.4 9.3E-05 3.2E-09 63.6 4.3 51 235-295 7-58 (63)
16 3qio_A GAG-POL polyprotein; RN 97.4 0.00014 4.8E-09 74.6 6.3 106 936-1070 11-142 (150)
17 3h08_A RNH (ribonuclease H); R 97.4 0.00033 1.1E-08 71.5 8.2 111 936-1070 3-139 (146)
18 2e4l_A Ribonuclease HI, RNAse 97.4 0.00029 9.8E-09 73.0 7.8 110 937-1070 6-140 (158)
19 2ec7_A GAG polyprotein (PR55GA 97.4 8.9E-05 3.1E-09 60.2 3.1 41 235-286 6-47 (49)
20 2a51_A Nucleocapsid protein; s 97.4 8.9E-05 3.1E-09 57.1 2.8 37 237-284 2-39 (39)
21 1fmb_A EIAV protease; hydrolas 97.3 0.00037 1.3E-08 66.0 6.9 75 326-413 9-84 (104)
22 1jl1_A Ribonuclease HI; RNAse 97.3 0.00039 1.3E-08 71.8 7.3 110 937-1070 4-138 (155)
23 2lsn_A Reverse transcriptase; 97.2 0.00043 1.5E-08 71.9 7.1 110 934-1062 4-139 (165)
24 3nyb_B Protein AIR2; polya RNA 97.2 0.00025 8.7E-09 64.1 4.4 58 234-304 4-64 (83)
25 1a1t_A Nucleocapsid protein; s 97.2 0.00019 6.5E-09 60.0 3.2 41 235-286 12-53 (55)
26 2zd1_A Reverse transcriptase/r 97.1 0.00075 2.6E-08 84.6 9.5 105 936-1070 438-555 (557)
27 2ihx_A Nucleocapsid (NC) prote 97.1 0.00025 8.6E-09 60.5 3.4 46 235-286 4-50 (61)
28 2bl6_A Nucleocapsid protein P1 97.1 0.00022 7.5E-09 54.2 2.7 33 268-302 2-35 (37)
29 1ril_A Ribonuclease H; hydrola 97.1 6.9E-05 2.4E-09 78.3 -0.8 110 937-1070 8-143 (166)
30 2li8_A Protein LIN-28 homolog 97.0 0.00011 3.7E-09 65.1 0.5 42 235-286 24-66 (74)
31 1cl4_A Protein (GAG polyprotei 97.0 0.00022 7.4E-09 60.8 1.6 48 236-286 2-50 (60)
32 2a51_A Nucleocapsid protein; s 96.9 0.00047 1.6E-08 53.0 3.2 32 268-299 2-33 (39)
33 4htu_A Ribonuclease H, RNAse H 96.9 0.00082 2.8E-08 66.6 5.1 72 938-1032 6-83 (134)
34 2li8_A Protein LIN-28 homolog 96.9 0.00053 1.8E-08 60.6 3.3 58 243-304 2-64 (74)
35 2lli_A Protein AIR2; RNA surve 96.8 0.00066 2.3E-08 67.1 4.2 55 236-303 23-81 (124)
36 2ec7_A GAG polyprotein (PR55GA 96.8 0.0005 1.7E-08 55.8 2.5 40 265-304 5-45 (49)
37 1zbf_A Ribonuclease H-related 96.7 0.0015 5.1E-08 65.9 5.5 73 937-1032 11-89 (142)
38 1dsq_A Nucleic acid binding pr 96.6 0.00058 2E-08 47.4 1.5 21 266-286 2-22 (26)
39 1a1t_A Nucleocapsid protein; s 96.6 0.0011 3.7E-08 55.3 3.4 40 265-304 11-51 (55)
40 3ts2_A Protein LIN-28 homolog 96.5 0.0011 3.7E-08 67.4 3.3 42 235-286 97-139 (148)
41 1nc8_A Nucleocapsid protein; H 96.5 0.00074 2.5E-08 48.2 1.2 22 265-286 5-26 (29)
42 2lli_A Protein AIR2; RNA surve 96.5 0.0018 6.1E-08 64.0 4.3 53 236-304 5-60 (124)
43 2ihx_A Nucleocapsid (NC) prote 96.3 0.0015 5.2E-08 55.6 2.2 40 265-304 3-48 (61)
44 2cqf_A RNA-binding protein LIN 96.1 0.0026 8.8E-08 54.5 2.8 37 266-304 7-47 (63)
45 3nyb_B Protein AIR2; polya RNA 96.0 0.0022 7.6E-08 57.9 1.9 41 236-286 25-66 (83)
46 1cl4_A Protein (GAG polyprotei 96.0 0.002 6.8E-08 54.8 1.4 38 267-304 2-48 (60)
47 1a6b_B Momulv, zinc finger pro 95.9 0.0024 8.4E-08 48.9 1.5 21 266-286 10-30 (40)
48 3ts2_A Protein LIN-28 homolog 95.6 0.0053 1.8E-07 62.3 2.9 37 266-304 97-137 (148)
49 1u6p_A GAG polyprotein; MLV, A 95.4 0.0079 2.7E-07 49.8 2.8 21 266-286 23-43 (56)
50 3ec0_A Protease; HIV-2, inhibi 95.4 0.03 1E-06 52.1 6.9 57 327-396 10-66 (99)
51 3slz_A GAG-Pro-POL polyprotein 94.6 0.02 6.8E-07 56.4 3.7 47 326-384 23-69 (132)
52 2hs1_A HIV-1 protease; ultra-h 94.6 0.087 3E-06 49.1 7.7 70 327-413 10-79 (99)
53 2hah_A Protease, retropepsin; 94.3 0.068 2.3E-06 51.4 6.6 75 330-413 18-93 (116)
54 3ka2_A [L-Ala51;Gly51']HIV-1 p 93.8 0.11 3.8E-06 54.8 7.6 58 326-396 9-66 (203)
55 2ysa_A Retinoblastoma-binding 93.3 0.025 8.6E-07 46.6 1.3 20 266-285 7-26 (55)
56 2rsp_A RSV protease; hydrolase 90.0 0.35 1.2E-05 46.9 5.4 52 342-399 31-87 (124)
57 3liy_A Protease; hydrolase, hy 85.3 0.98 3.3E-05 42.7 5.2 51 327-384 12-65 (116)
58 3ka2_A [L-Ala51;Gly51']HIV-1 p 85.0 1.8 6.2E-05 45.6 7.7 57 327-396 114-170 (203)
59 3kyl_A Telomerase reverse tran 84.1 0.9 3.1E-05 53.9 5.4 97 731-843 304-405 (596)
60 3sqf_A Protease; folded monome 82.5 0.43 1.5E-05 45.5 1.5 50 326-387 10-63 (114)
61 3oym_A PFV integrase, P42IN; p 80.6 0.54 1.8E-05 55.8 1.9 58 1224-1292 32-89 (395)
62 1a6b_B Momulv, zinc finger pro 78.4 0.92 3.1E-05 34.7 1.9 19 234-252 9-28 (40)
63 1u6p_A GAG polyprotein; MLV, A 70.5 1.8 6E-05 35.8 1.8 19 234-252 22-41 (56)
64 2jys_A Protease/reverse transc 61.0 26 0.00088 31.6 7.3 62 325-398 7-68 (107)
65 1dsq_A Nucleic acid binding pr 59.9 4 0.00014 28.0 1.6 17 236-252 3-20 (26)
66 2ysa_A Retinoblastoma-binding 49.0 7.7 0.00026 31.9 1.9 19 234-252 6-25 (55)
67 1nc8_A Nucleocapsid protein; H 47.0 9 0.00031 26.9 1.8 18 235-252 6-24 (29)
68 2eqk_A Tudor domain-containing 35.5 18 0.00062 32.4 2.3 55 1339-1400 19-75 (85)
69 3nnq_A Integrase P46, N-termin 32.6 19 0.00067 34.0 2.1 49 1228-1291 33-84 (114)
70 3alr_A Nanos protein; zinc-fin 27.4 20 0.00069 32.9 1.2 42 234-286 35-94 (106)
71 1w4s_A Polybromo, polybromo 1 25.0 48 0.0017 34.0 3.8 38 1339-1377 24-61 (174)
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=2e-47 Score=470.78 Aligned_cols=399 Identities=16% Similarity=0.138 Sum_probs=317.4
Q ss_pred ChhH-HHHHHHHHHHHHcCcEEecCCCCCCCCeeeecCceeccCCCCCCeEEEEcCCCCCCCcccCccccCCCCcccchh
Q psy9877 588 DQYY-ADYKRVLDTWEMDKIIERVPQEELDNPGYYMPHHHVVKPGSTTPVRPVFDASAKDNGVSLNDCLEKGPNLIETIP 666 (1447)
Q Consensus 588 ~~~~-~~y~~~i~~~l~~G~i~~~~~~~~~~~~~~~P~~~V~k~~~t~k~R~v~D~~~~~~~~slN~~~~~g~~~~~~l~ 666 (1447)
+++. ++++++|++|++.|+|+++.++ |++|+++|.|++ +|++|+|+|||. ||+.+.++++++|.+.
T Consensus 48 ~~~~~~~~~~~i~~ll~~G~I~~~~sp------~~spv~~V~Kk~-~g~~R~~~D~r~------LN~~~~~~~~~lp~~~ 114 (455)
T 1rw3_A 48 SQEARLGIKPHIQRLLDQGILVPCQSP------WNTPLLPVKKPG-TNDYRPVQDLRE------VNKRVEDIHPTVPNPY 114 (455)
T ss_dssp CTTHHHHSHHHHHHHHHTTSEEEECCS------CBBCEECCCCSS-SSCCCCEECTHH------HHHTBCCCCCCCCCHH
T ss_pred CHHHHHHHHHHHHHHHhCCCEEecCCc------ccCceEEEeccC-CCcEEEchhHHH------HHhhccCCCCCCCCHH
Confidence 3556 8999999999999999998654 999999998863 599999999998 9999999999999999
Q ss_pred HHHhhcc-cccceeecccccceeeeEeCCCCCCcccccccccccccceeEEEEecC-CCCcEEEEEEeeecCccCChHHH
Q psy9877 667 TSLAKFR-INKIGISGDIAKAFLQISVSPQDRDCLSMRQPRIMVSRDCLRFLWQDE-NGRVITYRHCRVVFGVSSSPFLL 744 (1447)
Q Consensus 667 ~~l~~~r-~~~~~~~~Di~~af~qi~l~~~dr~~~~~~~~~~~~~~~~~~f~w~~~-~~~~~~y~~~~~pfGl~~sP~~~ 744 (1447)
++|.+++ ++++++++|+++|||||+|+|+|++ +++|.|+.. .++.+.|+|+|||||+++||++|
T Consensus 115 ~ll~~l~~~~~~~s~lDl~~~y~qi~l~~~d~~--------------~taF~~~~p~~~~~g~y~~~~mpfGl~naP~~f 180 (455)
T 1rw3_A 115 NLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQP--------------LFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLF 180 (455)
T ss_dssp HHHTTCCTTCCEEEEEEBTTGGGGSBBCSTTSG--------------GGCEEECTTSSSCCEEEEESBCCSSCTTHHHHH
T ss_pred HHhhhhccCCceEEecchhhhheeEeccccccc--------------eeEEeecCCCCCCCceEEEEecCCCCCCcHHHH
Confidence 9999997 8999999999999999999999999 999999744 45679999999999999999999
Q ss_pred HHHHHHHHHHhhcccCCCCCCCchhHHHhhhccccccccccccCcHHHHHHHHHHHHHHHHhcCCccccccccCCCCCCC
Q psy9877 745 ESCLKLHLELTLTDCREGKSSWPIHLVELLKDSFYVDNCLVSTDSQAEAEQFIQVASSIMKEKGFDLRGWELTGDKDDKP 824 (1447)
Q Consensus 745 ~~~l~~~l~~~~~~~~~~~~~~p~~~~~~~~~~~YvDDil~~~~s~~e~~~~~~~~~~~l~~~g~~l~k~~snp~~~~~~ 824 (1447)
|++|+.++.++...++. ..+.+|||||+|++++.++|.++++.+.+.|+++||.++..+|. .....
T Consensus 181 q~~m~~~l~~~~~~~~~------------~~v~~YvDDili~s~~~~e~~~~l~~v~~~l~~~gl~l~~~K~~--f~~~~ 246 (455)
T 1rw3_A 181 DEALHRDLADFRIQHPD------------LILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRASAKKAQ--ICQKQ 246 (455)
T ss_dssp HHHHHHHHHHHHHTCTT------------CEEEEETTEEEEEESSHHHHHHHHHHHHHHHHHHTCCBCGGGCC--CSBSS
T ss_pred HHHHHHHHHHhhhhCCC------------ceEEEEcCCEEEecCCHHHHHHHHHHHHHHHHHcCCccCccchh--hhccc
Confidence 99999999987644433 23458999999999999999999999999999999999866665 23457
Q ss_pred cceeceeeecCCCeEEEeecccccc--CcCCchHHHHHhhhhhhcCccccccceeehhHHHHHHHHh-cCCCCCccCChh
Q psy9877 825 TNVLGLLWDKSSDTLAINIDRLTSM--HIEKITKKVMLSAAHRIFDPIGVICAFALIPKLLIQKTWE-TGLAWNDEVDEN 901 (1447)
Q Consensus 825 ~k~LG~~w~~~~d~~~~~~~~~~~~--~~~~~TkR~~~s~~~~~~dplg~~~p~~~~~k~llq~l~~-~~~~Wd~~l~~~ 901 (1447)
.++||+.|+..+ +.+...+...+ -+.+.|++++.+++|.+-.+..++..+...++.+.+.+.+ ..+.|++ +
T Consensus 247 ~~fLG~~i~~~g--i~~~~~kv~~i~~~~~p~t~k~l~~flG~~~y~r~fi~~~~~~~~pL~~llkk~~~~~W~~----~ 320 (455)
T 1rw3_A 247 VKYLGYLLKEGQ--RWLTEARKETVMGQPTPKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFNWGP----D 320 (455)
T ss_dssp CEETTEEESSSE--ECCCTTCCCCCCCCCTTTHHHHHHHTTTTTCCCSSCCCCCGGGCCTTCC--------CCCC----C
T ss_pred eeEeeeeccCCe--eEEChhHhhhhccCCCCCCHHHhhhhcccchHHHHHHhhhhhhcccHHHHhcCCCCcCchH----H
Confidence 899999988543 44333211111 1457899999999987555555554444444444333333 2577877 6
Q ss_pred hHHHHHHHHhhcCccceeecceeeeCCCCCCCCcceEEEEecccccceeeEEEEEEEecCCceEEEEEeeecccccCCCC
Q psy9877 902 TKTKFVQWMAEVPDIAEIRVPRWISEPNVESRESWSLHVFSDASKLAYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKS 981 (1447)
Q Consensus 902 ~~~~~~~~~~~l~~l~~~~ipR~~~~~~~~~~~~~~L~vftDAS~~g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~ 981 (1447)
+..+|+.+++.|.+.+.+..|+. ..++++|||||..|+|||+++. .+|..++..++||+...+.+
T Consensus 321 ~~~af~~lK~~l~~~pvL~~p~~----------~~~~~l~~DAS~~~~gavL~q~---~~~~~~~i~y~Sk~l~~~e~-- 385 (455)
T 1rw3_A 321 QQKAYQEIKQALLTAPALGLPDL----------TKPFELFVDEKQGYAKGVLTQK---LGPWRRPVAYLSKKLDPVAA-- 385 (455)
T ss_dssp CSSSCCHHHHHTCSSCCSCCSSS----------CCTTSCEEEEEECSSSBEECCB---CTTTTCCCCCCCBCSCSSCS--
T ss_pred HHHHHHHHHHHhhcCcccccCCC----------CCcEEEEEeccCCcceeEEEEe---cCCcEEEEEEEcccCCcccc--
Confidence 77889999999998777777663 3467889999999999999875 46667788889998888887
Q ss_pred CCcccchhHhHHHHHHHHHHHHHHHHhccccccceEEEechHHHHHHHhcC-CCcchhhhhhHHHhhhcCC-CceEEEc
Q psy9877 982 KSTLTIPRLELLAASIATRLCQTVVKDYKLQDVRTTFWTDATTVLAWIRRN-EPWNVFVMNRITEIRNLSQ-EHEWRHV 1058 (1447)
Q Consensus 982 ~~~~siprlEL~A~~~a~~~~~~l~~~l~~~~~~~~~~tDs~~~l~~i~~~-~~~~~~v~nrv~~I~~~~~-~~~~~hv 1058 (1447)
+|+++++||+|++.|++.+..++ ....++++|||. +++|+.+. .+| +..+|+.++...+. .+.+.++
T Consensus 386 --~ys~~ekEllAi~~a~~~~~~yl-----~g~~~~v~tDh~-~~~~l~~~~~~~--~~~~Rl~rW~~~L~e~~~i~~~ 454 (455)
T 1rw3_A 386 --GWPPCLRMVAAIAVLTKDAGKLT-----MGQPLVIKAPHA-VEALVKQPPDRW--LSNARMTHYQALLLDTDRVQFG 454 (455)
T ss_dssp --SSCCSSHHHHHHHHHHHHHHGGG-----CSSCEEEECSSC-TTTTSSSTTTTT--CCCCCCSCCCCCCCCCCSSSSC
T ss_pred --ccchHHHHHHHHHHHHHHHHHHc-----CCCcEEEEecCh-HHHHhCCCcccc--ccchHHHHHHHHhCcCCCeEee
Confidence 99999999999999999777666 346899999998 99999987 444 33455555555544 3444443
No 2
>2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B* 3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B* 3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B* 1n5y_B* 1bqm_B* 1n6q_B* ...
Probab=100.00 E-value=3.6e-39 Score=391.70 Aligned_cols=364 Identities=12% Similarity=0.058 Sum_probs=278.5
Q ss_pred ChhH-HHHHHHHHHHHHcCcEEecCCCCCCCCeeeecCceeccCCCCCCeEEEEcCCCCCCCcccCccccC---CCCccc
Q psy9877 588 DQYY-ADYKRVLDTWEMDKIIERVPQEELDNPGYYMPHHHVVKPGSTTPVRPVFDASAKDNGVSLNDCLEK---GPNLIE 663 (1447)
Q Consensus 588 ~~~~-~~y~~~i~~~l~~G~i~~~~~~~~~~~~~~~P~~~V~k~~~t~k~R~v~D~~~~~~~~slN~~~~~---g~~~~~ 663 (1447)
+++. ++++++|++|++.|+|+++++. ..|.+|+++|.|++ .||+|+|+|||. ||+.+.+ +.+++|
T Consensus 27 ~~~~~~~~~~~i~~ll~~G~I~~v~s~----s~~~sPv~~V~Kk~-g~k~R~~vD~r~------LN~~t~~~~~~~~plP 95 (428)
T 2zd1_B 27 TEEKIKALVEICTEMEKEGKISKIGPE----NPYNTPVFAIKKKD-STKWRKLVDFRE------LNKRTQDFWEVQLGIP 95 (428)
T ss_dssp CHHHHHHHHHHHHHHHHTTSEEECCTT----CCCBBCEEEECCTT-CSSCEEEECTHH------HHHHBCCCCCTTSCCC
T ss_pred CHHHHHHHHHHHHHHHHCCCceECCCC----CCccCceeeccCCC-CCceEEEEechH------hcCcccccccccCCCC
Confidence 3556 9999999999999999998543 35999999999987 359999999999 9999998 788888
Q ss_pred chhHHHhhcccccceeecccccceeeeEeCCCCCCcccccccccccccceeEEEEecC--CCCcEEEEEEeeecCccCCh
Q psy9877 664 TIPTSLAKFRINKIGISGDIAKAFLQISVSPQDRDCLSMRQPRIMVSRDCLRFLWQDE--NGRVITYRHCRVVFGVSSSP 741 (1447)
Q Consensus 664 ~l~~~l~~~r~~~~~~~~Di~~af~qi~l~~~dr~~~~~~~~~~~~~~~~~~f~w~~~--~~~~~~y~~~~~pfGl~~sP 741 (1447)
.+.+ ++++++++++|+++|||||+|+|+|++ +++|.|... .++.+.|+|+|||||+++||
T Consensus 96 ~i~~----l~~~~~~s~lDl~~gy~qI~l~~~d~~--------------~taF~~p~~~~~t~~g~y~~~vmPfGl~nsP 157 (428)
T 2zd1_B 96 HPAG----LKKKKSVTVLDVGDAYFSVPLDEDFRK--------------YTAFTIPSINNETPGIRYQYNVLPQGWKGSP 157 (428)
T ss_dssp CCTT----GGGSSEEEEEECGGGGGGSBCCTTTGG--------------GGCEEECCGGGCSCCEEEEESBCCTTCTHHH
T ss_pred Cchh----ccccceEEEeeccCceeeEEcCccccc--------------eeEEEeecCCCCCCCceEEEEeeCCCCcchH
Confidence 8865 588999999999999999999999999 999999643 46789999999999999999
Q ss_pred HHHHHHHHHHHHHhhcccCCCCCCCchhHHHhhhccccccccccccCc-HHHHHHHHHHHHHHHHhcCCccccccccCCC
Q psy9877 742 FLLESCLKLHLELTLTDCREGKSSWPIHLVELLKDSFYVDNCLVSTDS-QAEAEQFIQVASSIMKEKGFDLRGWELTGDK 820 (1447)
Q Consensus 742 ~~~~~~l~~~l~~~~~~~~~~~~~~p~~~~~~~~~~~YvDDil~~~~s-~~e~~~~~~~~~~~l~~~g~~l~k~~snp~~ 820 (1447)
++||++|+.++.++...++. +.+.+|||||+|++++ .+||...++.+++.|.++||.++.-+|.
T Consensus 158 a~fq~~m~~il~~~~~~~~~------------~~v~vY~DDIlI~s~~~~~eh~~~l~~v~~~l~~~gL~l~~~Kc~--- 222 (428)
T 2zd1_B 158 AIFQSSMTKILEPFKKQNPD------------IVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQ--- 222 (428)
T ss_dssp HHHHHHHHHHHHHHHHHCTT------------CEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHHHC-----------
T ss_pred HHHHHHHHHHHHHHhhcCCC------------ceEEEEecceEEecCCcHHHHHHHHHHHHHHHHHhCCccChhHcc---
Confidence 99999999999988776654 3345899999999995 7999999999999999999999865654
Q ss_pred CCCCcceeceeeecCCCeEEEeeccccccC-cCCchHHHHHhhhhhhcCccccccceeehhHHHHHHHHhc-----CCCC
Q psy9877 821 DDKPTNVLGLLWDKSSDTLAINIDRLTSMH-IEKITKKVMLSAAHRIFDPIGVICAFALIPKLLIQKTWET-----GLAW 894 (1447)
Q Consensus 821 ~~~~~k~LG~~w~~~~d~~~~~~~~~~~~~-~~~~TkR~~~s~~~~~~dplg~~~p~~~~~k~llq~l~~~-----~~~W 894 (1447)
.....++||+.++..+- .+.. .+++ ..+.|++++.+++|.+--+..++..+. ++.|...|-.. .+.|
T Consensus 223 ~~~~~~fLG~~i~~~~i--~~~~---~ki~~~~~~t~k~lr~flG~~~yyrrFi~~~s--~~pL~~llkk~~~~~~~~~W 295 (428)
T 2zd1_B 223 KEPPFLWMGYELHPDKW--TVQP---IVLPEKDSWTVNDIQKLVGKLNWASQIYPGIK--VRQLSKLLRGTKALTEVIPL 295 (428)
T ss_dssp ----CTTCCEEECGGGC--CCCC---CCCCCCSSEEHHHHHHHHHHHHHHTTTCTTCC--CHHHHHTTCSCCCTTCEECC
T ss_pred ccceEEEeccEecCCce--Eecc---cccccccccCHHHHHHHhhhHHHHHHhcCCcc--HHHHHHHHccCCCCCCeecC
Confidence 13458999999886543 3332 2222 345699999999886544444444444 45444433332 2567
Q ss_pred CccCChhhHHHHHHHHhhcCccceeecceeeeCCCCCCCCcceEEEEeccccc-ceeeEEEEEEEecCCceEEEEEeeec
Q psy9877 895 NDEVDENTKTKFVQWMAEVPDIAEIRVPRWISEPNVESRESWSLHVFSDASKL-AYAAAVFLRVEHSKTKVSLHLLAARA 973 (1447)
Q Consensus 895 d~~l~~~~~~~~~~~~~~l~~l~~~~ipR~~~~~~~~~~~~~~L~vftDAS~~-g~gavly~r~~~~~g~~~~~~~~sks 973 (1447)
++ +++.+|+++++.|.+.+.+..|. ...++.++||||.. +||+|+++ .+|. .+++++
T Consensus 296 t~----~~~~af~~lK~~L~~~p~l~~pd----------~~~~~~l~~das~~g~~g~vl~q----~~~~----~~~s~~ 353 (428)
T 2zd1_B 296 TE----EAELELAENREILKEPVHGVYYD----------PSKDLIAEIQKQGQGQWTYQIYQ----EPFK----NLKTGK 353 (428)
T ss_dssp CH----HHHHHHHHHHHHTTSCCTTCCCC----------TTSCCEEEEEEEETTEEEEEEES----STTC----EEEEEE
T ss_pred CH----HHHHHHHHHHHHHhcchhccccC----------CCCCEEEEEecCCCCcEEEEEec----CCCc----eeeecc
Confidence 66 99999999999998865555554 45679999999996 66999874 2342 345554
Q ss_pred ccccCCCCCCcccchhHhHHH-HHHHHHHHHHHHHhccccccceEEEechHHHHHHHhc
Q psy9877 974 RVAPSSKSKSTLTIPRLELLA-ASIATRLCQTVVKDYKLQDVRTTFWTDATTVLAWIRR 1031 (1447)
Q Consensus 974 r~~p~k~~~~~~siprlEL~A-~~~a~~~~~~l~~~l~~~~~~~~~~tDs~~~l~~i~~ 1031 (1447)
.. +.+ +|+++++|++| ++.|++.++.++ +|-....++++||++...+|...
T Consensus 354 ~~-~~~----~y~~~~~e~la~vv~al~~~r~yl--~G~~~~~~i~~td~~~~~~~~~~ 405 (428)
T 2zd1_B 354 YA-RMR----GAHTNDVKQLTEAVQKITTESIVI--WGKTPKFKLPIQKETWETWWTEY 405 (428)
T ss_dssp EE-CCS----SCTTCHHHHHHHHHHHHHHHHHHH--HSSCCEEEESSCHHHHHHHHHHH
T ss_pred cc-hhh----hcccchHHHHHHHHHHhhccceEE--ECCCCcEECCccHHHHHHHHHhc
Confidence 44 666 99999999999 999998766655 34345567889999966555543
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=2.9e-38 Score=397.60 Aligned_cols=302 Identities=14% Similarity=0.131 Sum_probs=236.4
Q ss_pred ChhH-HHHHHHHHHHHHcCcEEecCCCCCCCCeeeecCceeccCCCCCCeEEEEcCCCCCCCcccCccccCC---CCccc
Q psy9877 588 DQYY-ADYKRVLDTWEMDKIIERVPQEELDNPGYYMPHHHVVKPGSTTPVRPVFDASAKDNGVSLNDCLEKG---PNLIE 663 (1447)
Q Consensus 588 ~~~~-~~y~~~i~~~l~~G~i~~~~~~~~~~~~~~~P~~~V~k~~~t~k~R~v~D~~~~~~~~slN~~~~~g---~~~~~ 663 (1447)
+|+. ++++++|++|++.|+|+++++. ..|.+|+++|.|++ .+|+|+|+|||. ||+.+.+. .+++|
T Consensus 27 ~~~~~~~~~~~i~~ll~~G~I~~~~~~----s~~~spv~~V~Kk~-g~k~R~~vD~r~------LN~~t~~~~~~~~~lP 95 (555)
T 1mu2_A 27 TKEKIEALKEICEKMEKEGQLEEAPPT----NPYNTPTFAIKKKD-KNKWRMLIDFRE------LNKVTQDFTEIQLGIP 95 (555)
T ss_dssp CHHHHHHHHHHHHHHHHHTSEEECCTT----CCCBBCEEECCCCC-----CEEECTHH------HHHHBCCCCCCCCSCC
T ss_pred CHHHHHHHHHHHHHHHHCCCeEECCCC----CCCCCceEEecCCC-CCceEEEEehHH------hhhhCcccccccCCCC
Confidence 4566 9999999999999999998432 25999999999887 358999999999 99999987 67788
Q ss_pred chhHHHhhcccccceeecccccceeeeEeCCCCCCcccccccccccccceeEEEEecC--CCCcEEEEEEeeecCccCCh
Q psy9877 664 TIPTSLAKFRINKIGISGDIAKAFLQISVSPQDRDCLSMRQPRIMVSRDCLRFLWQDE--NGRVITYRHCRVVFGVSSSP 741 (1447)
Q Consensus 664 ~l~~~l~~~r~~~~~~~~Di~~af~qi~l~~~dr~~~~~~~~~~~~~~~~~~f~w~~~--~~~~~~y~~~~~pfGl~~sP 741 (1447)
.+.+ +++.++|+++|+++|||||+|+|+|++ +++|.|... .++.+.|+|+|||||+++||
T Consensus 96 ~~~~----l~~~~~~s~lDl~~~y~qI~l~~~d~~--------------~taF~~p~~~~~~~~g~y~~~~mPfGl~nap 157 (555)
T 1mu2_A 96 HPAG----LAKKRRITVLDVGDAYFSIPLHEDFRP--------------YTAFTLPSVNNAEPGKRYIYKVLPQGWKGSP 157 (555)
T ss_dssp CGGG----SBCCSEEEEEECBSSGGGSBCCTTTGG--------------GGCEEC---------CEEEESBCCTTCTTHH
T ss_pred chhh----cCCCceEEEehhHhcceEEEeccCcee--------------eeEEEeecCCCCCCceEEEEEEeCCCCCCcH
Confidence 7765 589999999999999999999999999 999999533 34568999999999999999
Q ss_pred HHHHHHHHHHHHHhhcccCCCCCCCchhHHHhhhccccccccccccC-cHHHHHHHHHHHHHHHHhcCCccccccccCCC
Q psy9877 742 FLLESCLKLHLELTLTDCREGKSSWPIHLVELLKDSFYVDNCLVSTD-SQAEAEQFIQVASSIMKEKGFDLRGWELTGDK 820 (1447)
Q Consensus 742 ~~~~~~l~~~l~~~~~~~~~~~~~~p~~~~~~~~~~~YvDDil~~~~-s~~e~~~~~~~~~~~l~~~g~~l~k~~snp~~ 820 (1447)
++||++|+.++.++...++. +.+.+|||||+|+++ +.+||...++.+++.|.++||.++.-+|.
T Consensus 158 a~fq~~m~~il~~~~~~~~~------------~~v~~Y~DDIli~s~~~~~eh~~~l~~v~~~l~~~gl~l~~~K~~--- 222 (555)
T 1mu2_A 158 AIFQHTMRQVLEPFRKANKD------------VIIIQYMDDILIASDRTDLEHDRVVLQLKELLNGLGFSTPDEKFQ--- 222 (555)
T ss_dssp HHHHHHHHHHHHHHHHHCTT------------SEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHTTCBCCSTTEE---
T ss_pred HHHHHHHHHHHHHHHhhCCC------------cEEEEEecceEEecCCCHHHHHHHHHHHHHHHHHcCCccCHHHhc---
Confidence 99999999999998876643 345689999999999 79999999999999999999999866653
Q ss_pred CCCCcceeceeeecCCCeEEEeeccccccC-cCCchHHHHHhhhhhhcCccccccceeehhHHHHHHHHh------cCCC
Q psy9877 821 DDKPTNVLGLLWDKSSDTLAINIDRLTSMH-IEKITKKVMLSAAHRIFDPIGVICAFALIPKLLIQKTWE------TGLA 893 (1447)
Q Consensus 821 ~~~~~k~LG~~w~~~~d~~~~~~~~~~~~~-~~~~TkR~~~s~~~~~~dplg~~~p~~~~~k~llq~l~~------~~~~ 893 (1447)
....++|||+.++. +.+.+.. .+++ ..+.|++++.+++|.+--+..++..+. ++.|. .|.+ ..+.
T Consensus 223 ~~~~~~fLG~~i~~--~gi~~~~---~ki~~i~~~t~k~lr~flG~~~~~rrfi~~~~--~~pL~-~llk~~~~~~~~~~ 294 (555)
T 1mu2_A 223 KDPPYHWMGYELWP--TKWKLQK---IQLPQKEIWTVNDIQKLVGVLNWAAQLYPGIK--TKHLC-RLISGKMTLTEEVQ 294 (555)
T ss_dssp CSSSEEETTEEECS--SEEEECC---CCCCCCSSCBHHHHHHHHHHHHHHHHHSTTCC--CHHHH-TTSCSSSCTTCBCC
T ss_pred cCCceeEEeEEEeC--Cceeccc---cccCcCCCCCHHHHHhHhhhhhhhhhccCccc--hHHHH-HHhccCCCCCCccc
Confidence 35679999999875 4556555 2233 346699999999876422222222222 33333 3333 2467
Q ss_pred CCccCChhhHHHHHHHHhhcCccceeecceeeeCCCCCCCCcceEEEEecccccc-eeeEEEE
Q psy9877 894 WNDEVDENTKTKFVQWMAEVPDIAEIRVPRWISEPNVESRESWSLHVFSDASKLA-YAAAVFL 955 (1447)
Q Consensus 894 Wd~~l~~~~~~~~~~~~~~l~~l~~~~ipR~~~~~~~~~~~~~~L~vftDAS~~g-~gavly~ 955 (1447)
|++ +++.+|+++++.|.+.+.+..|. ...++.++||||..| +|||+++
T Consensus 295 wt~----~~~~af~~lK~~L~~~p~L~~p~----------~~~~~~l~~das~~ga~g~vl~Q 343 (555)
T 1mu2_A 295 WTE----LAEAELEENRIILSQEQEGHYYQ----------EEKELEATVQKDQDNQWTYKIHQ 343 (555)
T ss_dssp CCH----HHHHHHHHHHHHHSCCEEEECBC----------TTSCCEEEEEECSSSCEEEEEEE
T ss_pred CCH----HHHHHHHHHHHHHhhCccccccC----------CCCCEEEEEecCCCCcEEEEEee
Confidence 765 89999999999999976666665 345789999999996 9999984
No 4
>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=6.4e-37 Score=385.64 Aligned_cols=360 Identities=12% Similarity=0.060 Sum_probs=278.9
Q ss_pred ChhH-HHHHHHHHHHHHcCcEEecCCCCCCCCeeeecCceeccCCCCC-CeEEEEcCCCCCCCcccCccccC---CCCcc
Q psy9877 588 DQYY-ADYKRVLDTWEMDKIIERVPQEELDNPGYYMPHHHVVKPGSTT-PVRPVFDASAKDNGVSLNDCLEK---GPNLI 662 (1447)
Q Consensus 588 ~~~~-~~y~~~i~~~l~~G~i~~~~~~~~~~~~~~~P~~~V~k~~~t~-k~R~v~D~~~~~~~~slN~~~~~---g~~~~ 662 (1447)
+|+. ++++++|++|++.|+|+++++. ..|.+|+++|.|++ | ++|+|+|||. ||+.+.+ +.+++
T Consensus 29 ~~~~~~~~~~~i~~ll~~G~I~~v~s~----s~~~spv~~V~Kk~--g~k~R~~vD~r~------LN~~t~~~~~~~~pl 96 (557)
T 2zd1_A 29 TEEKIKALVEICTEMEKEGKISKIGPE----NPYNTPVFAIKKKD--STKWRKLVDFRE------LNKRTQDFWEVQLGI 96 (557)
T ss_dssp CHHHHHHHHHHHHHHHHTTSEEECCSC----CCCBBCEEEEECSS--CSCEEEEECCHH------HHHHBCCCCCTTSSC
T ss_pred CHHHHHHHHHHHHHHHHCCCEEECCCC----CCCcCCeEEEECCC--CCceEEEEEhHH------HhhhccccccccCCC
Confidence 3556 9999999999999999998532 35999999999987 5 9999999999 9999999 88899
Q ss_pred cchhHHHhhcccccceeecccccceeeeEeCCCCCCcccccccccccccceeEEEEecC--CCCcEEEEEEeeecCccCC
Q psy9877 663 ETIPTSLAKFRINKIGISGDIAKAFLQISVSPQDRDCLSMRQPRIMVSRDCLRFLWQDE--NGRVITYRHCRVVFGVSSS 740 (1447)
Q Consensus 663 ~~l~~~l~~~r~~~~~~~~Di~~af~qi~l~~~dr~~~~~~~~~~~~~~~~~~f~w~~~--~~~~~~y~~~~~pfGl~~s 740 (1447)
|.+.+ +++.++|+++|+++|||||+|+|+|++ +++|.|... .++.+.|+|+|||||+++|
T Consensus 97 P~i~~----l~~~~~~s~lDl~~~y~qi~l~~~d~~--------------~taF~~p~~~~~t~~g~y~~~~mPfGl~na 158 (557)
T 2zd1_A 97 PHPAG----LKKKKSVTVLDVGDAYFSVPLDEDFRK--------------YTAFTIPSINNETPGIRYQYNVLPQGWKGS 158 (557)
T ss_dssp CCGGG----SCCCSEEEEEECTTGGGGSBCCTTTGG--------------GGCEEECCGGGCSCCEEEEESBCCTTCTTH
T ss_pred CCchh----hcCCCeeEEehhhhhhheeEcCccccc--------------eeEEEeecCCCCCCceEEEEEeeCCCCCCH
Confidence 98876 489999999999999999999999999 999999644 4678999999999999999
Q ss_pred hHHHHHHHHHHHHHhhcccCCCCCCCchhHHHhhhccccccccccccC-cHHHHHHHHHHHHHHHHhcCCccccccccCC
Q psy9877 741 PFLLESCLKLHLELTLTDCREGKSSWPIHLVELLKDSFYVDNCLVSTD-SQAEAEQFIQVASSIMKEKGFDLRGWELTGD 819 (1447)
Q Consensus 741 P~~~~~~l~~~l~~~~~~~~~~~~~~p~~~~~~~~~~~YvDDil~~~~-s~~e~~~~~~~~~~~l~~~g~~l~k~~snp~ 819 (1447)
|++||++|+.++.++...++. +.+.+|||||+|+++ +.+||...++.+++.|.++||.++.-+|.-
T Consensus 159 p~~fq~~m~~il~~~~~~~~~------------~~v~~Y~DDIli~s~~~~~eh~~~l~~v~~~l~~~gl~l~~~Kc~f- 225 (557)
T 2zd1_A 159 PAIFQSSMTKILEPFAAQNPD------------IVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQK- 225 (557)
T ss_dssp HHHHHHHHHHHHHHHHHTCTT------------EEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHTTTCCCCCSCCSC-
T ss_pred HHHHHHHHHHHHHHhhhcCCC------------ceEEEEecCEEEecCchHHHHHHHHHHHHHHHHHcCCccChhhcCC-
Confidence 999999999999998877654 345689999999999 699999999999999999999998666542
Q ss_pred CCCCCcceeceeeecCCCeEEEeeccccccC-cCCchHHHHHhhhhhhcCccccccceeehhHHHHHHHHhc-----CCC
Q psy9877 820 KDDKPTNVLGLLWDKSSDTLAINIDRLTSMH-IEKITKKVMLSAAHRIFDPIGVICAFALIPKLLIQKTWET-----GLA 893 (1447)
Q Consensus 820 ~~~~~~k~LG~~w~~~~d~~~~~~~~~~~~~-~~~~TkR~~~s~~~~~~dplg~~~p~~~~~k~llq~l~~~-----~~~ 893 (1447)
....+|||+.++..+ +.+.. .+++ ..+.|++++.+++|.+--+..++..+. .+.+.+.|... .+.
T Consensus 226 --~~~~~fLG~~i~~~g--i~~~~---~k~~~~~~~t~k~lr~flG~~~~yrrfi~~~~--~~pl~~ll~~~~~~~~~~~ 296 (557)
T 2zd1_A 226 --EPPFLWMGYELHPDK--WTVQP---IVLPEKDSWTVNDIQKLVGKLNWASQIYPGIK--VRQLSKLLRGTKALTEVIP 296 (557)
T ss_dssp --CSSEEETTEEECSSC--EEESC---CCCCCCSCEEHHHHHHHHHHHHHHTTTSTTCC--CHHHHGGGTTCCCTTCEEC
T ss_pred --CCceEEeeEEEccCc--EEEcc---eecccccCCCHHHHHHHhhHHHhhhhhccchh--HHHHHHHhcccCCCCCcee
Confidence 346889999987654 45444 2232 334599999999986433333333333 24444433332 366
Q ss_pred CCccCChhhHHHHHHHHhhcCccceeecceeeeCCCCCCCCcceEEEEecccccc-eeeEEEEEEEecCCceEEEEEeee
Q psy9877 894 WNDEVDENTKTKFVQWMAEVPDIAEIRVPRWISEPNVESRESWSLHVFSDASKLA-YAAAVFLRVEHSKTKVSLHLLAAR 972 (1447)
Q Consensus 894 Wd~~l~~~~~~~~~~~~~~l~~l~~~~ipR~~~~~~~~~~~~~~L~vftDAS~~g-~gavly~r~~~~~g~~~~~~~~sk 972 (1447)
|++ +++.+|+++++.|.+.+.+..|. ...++.++||||..| ||+|+++. ++.......
T Consensus 297 Wt~----~~~~af~~lK~~L~~~p~L~~pd----------~~~~~~l~~das~~g~~g~vl~q~----~~~~~~~~~--- 355 (557)
T 2zd1_A 297 LTE----EAELELAENREILKEPVHGVYYD----------PSKDLIAEIQKQGQGQWTYQIYQE----PFKNLKTGK--- 355 (557)
T ss_dssp CCH----HHHHHHHHHHHHTSSCCCBCCCC----------TTSCCEEEEEEEETTEEEEEEEEE----TTEEEEEEE---
T ss_pred cCH----HHHHHHHHHHHHHhCccceeecC----------CCCCEEEEEecCCCCcEEEEEecC----CCceeeeee---
Confidence 766 89999999999999876666664 356789999999986 69999863 332221111
Q ss_pred cccccCCCCCCcccchhHhHHH-HHHHHHHHHHHHHhccccccceEE-EechHHHHHHH
Q psy9877 973 ARVAPSSKSKSTLTIPRLELLA-ASIATRLCQTVVKDYKLQDVRTTF-WTDATTVLAWI 1029 (1447)
Q Consensus 973 sr~~p~k~~~~~~siprlEL~A-~~~a~~~~~~l~~~l~~~~~~~~~-~tDs~~~l~~i 1029 (1447)
.+..+ +|+++++|++| ++.+++.+..++. +..+ .+.+ +||++...+|.
T Consensus 356 --~~~~~----~y~~~e~e~la~vv~~l~~~~~~l~--g~~p-~~~vp~~~~~~~~~~~ 405 (557)
T 2zd1_A 356 --YARMR----GAHTNDVKQLTEAVQKITTESIVIW--GKTP-KFKLPIQKETWETWWT 405 (557)
T ss_dssp --EECCS----CSEECHHHHHHHHHHHHHHHHHHHH--SSCC-EEEESBCHHHHHHHHH
T ss_pred --ccccc----ccCCChHHHHHHHHHHhhhhheEEe--CCCC-CEECCCcHHHHHHHhh
Confidence 22355 99999999999 9998886555542 2112 3555 89998555443
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=5.9e-32 Score=307.00 Aligned_cols=207 Identities=21% Similarity=0.238 Sum_probs=179.8
Q ss_pred ChhH-HHHHHHHHHHHHcCcEEecCCCCCCCCeeeecCceeccCCCCCCeEEEEcCCCCCCCcccCccccCCCCcccchh
Q psy9877 588 DQYY-ADYKRVLDTWEMDKIIERVPQEELDNPGYYMPHHHVVKPGSTTPVRPVFDASAKDNGVSLNDCLEKGPNLIETIP 666 (1447)
Q Consensus 588 ~~~~-~~y~~~i~~~l~~G~i~~~~~~~~~~~~~~~P~~~V~k~~~t~k~R~v~D~~~~~~~~slN~~~~~g~~~~~~l~ 666 (1447)
.++. ++++++|++|++.|+|+++.++ |.+|+++|.|++ +|++|+|+|||+ ||+.+.++++++|.+.
T Consensus 44 ~~~~~~~~~~~i~~ll~~G~I~~~~sp------~~sp~~~V~Kk~-~g~~R~~~D~r~------LN~~t~~~~~~lp~~~ 110 (255)
T 3fsi_A 44 SQEARLGIKPHIQRLLDQGILVPCQSP------WNTPLLPVKKPG-TNDYRPVQDLRE------VNKRVEDIHPTVPNPY 110 (255)
T ss_dssp CHHHHHHHHHHHHHHHHTTSEEEECCS------CBCCBCCC--------CCCCBCCHH------HHTTBCCCCCCSCCHH
T ss_pred CHHHHHHHHHHHHHHHhCCeEEecCCC------eECceeEeecCC-CCceeEEeEhhh------hccccccCCCCCCcHH
Confidence 3555 8999999999999999998654 999999999875 589999999999 9999999999999999
Q ss_pred HHHhhcc-cccceeecccccceeeeEeCCCCCCcccccccccccccceeEEEEecC-CCCcEEEEEEeeecCccCChHHH
Q psy9877 667 TSLAKFR-INKIGISGDIAKAFLQISVSPQDRDCLSMRQPRIMVSRDCLRFLWQDE-NGRVITYRHCRVVFGVSSSPFLL 744 (1447)
Q Consensus 667 ~~l~~~r-~~~~~~~~Di~~af~qi~l~~~dr~~~~~~~~~~~~~~~~~~f~w~~~-~~~~~~y~~~~~pfGl~~sP~~~ 744 (1447)
+++.+++ ++++++++|+++|||||+|+++|++ +++|.|... .++.+.|+|+|||||+++||++|
T Consensus 111 ~ll~~l~~~~~~~s~lDl~~~y~qI~l~~~d~~--------------~taF~~~~~~~t~~g~y~~~~mPfGl~~sP~~f 176 (255)
T 3fsi_A 111 NLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQP--------------LFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLF 176 (255)
T ss_dssp HHHTTCCTTCCEEEEEEBTTCGGGSBBCTTTGG--------------GGCEECCCSSSCCSSEEEESBCCTTCTTHHHHH
T ss_pred HHHHHhhcCCcEEEEccccceeEeeecCccccC--------------ceEEEecCCCCCccceEEEEEeCCCCCCcHHHH
Confidence 9999999 8999999999999999999999999 999999765 67789999999999999999999
Q ss_pred HHHHHHHHHHhhcccCCCCCCCchhHHHhhhccccccccccccCcHHHHHHHHHHHHHHHHhcCCccccccccCCCCCCC
Q psy9877 745 ESCLKLHLELTLTDCREGKSSWPIHLVELLKDSFYVDNCLVSTDSQAEAEQFIQVASSIMKEKGFDLRGWELTGDKDDKP 824 (1447)
Q Consensus 745 ~~~l~~~l~~~~~~~~~~~~~~p~~~~~~~~~~~YvDDil~~~~s~~e~~~~~~~~~~~l~~~g~~l~k~~snp~~~~~~ 824 (1447)
|++|+.++.++...++. +.+.+|||||+|++++.++|.+.++.+.+.|+++||.++.-+|. .....
T Consensus 177 q~~m~~il~~~~~~~~~------------~~v~~Y~DDili~s~~~eeh~~~l~~v~~~L~~~gl~l~~~Kc~--f~~~~ 242 (255)
T 3fsi_A 177 DEALHRDLADFRIQHPD------------LILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRASAKKAQ--ICQKQ 242 (255)
T ss_dssp HHHHHHHTHHHHHHCTT------------CEEEEETTEEEEEESSHHHHHHHHHHHHHHHHHHTCCBCTTTCE--EEESE
T ss_pred HHHHHHHHHHHHHhCcC------------cEEEEEcCCeEEEeCCHHHHHHHHHHHHHHHHHCCeEECHHHhc--ccCCc
Confidence 99999999887665443 34568999999999999999999999999999999999855554 12357
Q ss_pred cceeceeeecC
Q psy9877 825 TNVLGLLWDKS 835 (1447)
Q Consensus 825 ~k~LG~~w~~~ 835 (1447)
.+|||+.++.+
T Consensus 243 ~~fLG~~i~~~ 253 (255)
T 3fsi_A 243 VKYLGYLLKEG 253 (255)
T ss_dssp EEETTEEEETT
T ss_pred eEEEEEEEeCC
Confidence 89999998764
No 6
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A
Probab=98.36 E-value=4.3e-07 Score=93.58 Aligned_cols=117 Identities=15% Similarity=0.020 Sum_probs=77.4
Q ss_pred EEEEeccccc-------c-eeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhc
Q psy9877 938 LHVFSDASKL-------A-YAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDY 1009 (1447)
Q Consensus 938 L~vftDAS~~-------g-~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l 1009 (1447)
+.+|+|+|-. | ||++++ .+|.... .+++. ..|.. ...|-++.||.|++.|++++...
T Consensus 2 ~~iy~DGs~~~~n~g~~G~~G~vi~-----~~g~~~~--~~~~~-~~~~~---~~~tnn~aEl~A~~~aL~~a~~~---- 66 (149)
T 2ehg_A 2 IIGYFDGLCEPKNPGGIATFGFVIY-----LDNRKIE--GYGLA-EKPFS---INSTNNVAEYSGLICLMETMLRL---- 66 (149)
T ss_dssp CEEEEEEEEESSSSSSEEEEEEEEE-----CSSCEEE--EEEEC-SCTTC---TTCCHHHHHHHHHHHHHHHHHHH----
T ss_pred EEEEEeeccCCCCCChheEEEEEEE-----ECCEEEE--Eeccc-cCCCC---CCccHHHHHHHHHHHHHHHHHHc----
Confidence 4689999876 4 588775 3554421 12211 22221 15578999999999999876543
Q ss_pred cccccceEEEechHHHHHHHhcC-CCcchhhhhhHHHhhhcCC--CceEEEccCCCC-CCCCCCCc
Q psy9877 1010 KLQDVRTTFWTDATTVLAWIRRN-EPWNVFVMNRITEIRNLSQ--EHEWRHVPGEMN-PADLPSRG 1071 (1447)
Q Consensus 1010 ~~~~~~~~~~tDs~~~l~~i~~~-~~~~~~v~nrv~~I~~~~~--~~~~~hvp~~~N-pAD~~SRg 1071 (1447)
...++.|+|||+.++.++++. +.-..-....+..|+++.. .+.|.|||++.| .||.|.|-
T Consensus 67 --g~~~v~i~tDS~~vi~~i~~~w~~~~~~~~~l~~~i~~l~~~~~v~~~~V~~~~N~~AD~LA~~ 130 (149)
T 2ehg_A 67 --GISSPIIKGDSQLVIKQMNGEYKVKAKRIIPLYEKAIELKKKLNATLIWVPREENKEADRLSRV 130 (149)
T ss_dssp --TCCSCEEEESCHHHHHHHTTSSCCCCTTHHHHHHHHHHHHHHHTCEEEECCGGGCHHHHHHHHH
T ss_pred --CCCEEEEEeChHHHHHHHhCccccCCHHHHHHHHHHHHHHhcCCEEEEEcCCcccHHHHHHHHH
Confidence 256899999999999999986 2111222233333333222 599999999999 69988773
No 7
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain, fusion protein, maltose binding protein, HYDR; HET: MLR TAR; 2.25A {Mycobacterium tuberculosis}
Probab=98.35 E-value=4.2e-07 Score=92.58 Aligned_cols=114 Identities=13% Similarity=0.103 Sum_probs=78.0
Q ss_pred eEEEEeccccc------ceeeEEEEEEEecC-CceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhc
Q psy9877 937 SLHVFSDASKL------AYAAAVFLRVEHSK-TKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDY 1009 (1447)
Q Consensus 937 ~L~vftDAS~~------g~gavly~r~~~~~-g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l 1009 (1447)
++.+|||+|-. |||++++. .+ |..... +.. +.. ..|-++.||.|++.|++++..+
T Consensus 3 ~~~iy~DGs~~~~~g~~g~G~v~~~----~~~~~~~~~-~~~-----~~~----~~tn~~aEl~A~~~aL~~a~~~---- 64 (141)
T 3hst_B 3 KVVIEADGGSRGNPGPAGYGAVVWT----ADHSTVLAE-SKQ-----AIG----RATNNVAEYRGLIAGLDDAVKL---- 64 (141)
T ss_dssp EEEEEEEEEESSSSEEEEEEEEEEE----TTSCSEEEE-EEE-----EEE----EECHHHHHHHHHHHHHHHHHHH----
T ss_pred EEEEEEecCCCCCCCCcEEEEEEEe----CCCCcEEEe-eec-----cCC----CCchHHHHHHHHHHHHHHHHHC----
Confidence 58899999854 77777652 33 432111 111 112 4567999999999999876542
Q ss_pred cccccceEEEechHHHHHHHhcC-CCcchhhhhhHHHhhhcC---CCceEEEccCCCC-CCCCCCC
Q psy9877 1010 KLQDVRTTFWTDATTVLAWIRRN-EPWNVFVMNRITEIRNLS---QEHEWRHVPGEMN-PADLPSR 1070 (1447)
Q Consensus 1010 ~~~~~~~~~~tDs~~~l~~i~~~-~~~~~~v~nrv~~I~~~~---~~~~~~hvp~~~N-pAD~~SR 1070 (1447)
...++.|+|||+.++.++++. +.-..-+...+.+|+++. ..++|.|||++.| .||.|.|
T Consensus 65 --~~~~v~i~tDS~~vv~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~v~~~~V~~~~N~~AD~LA~ 128 (141)
T 3hst_B 65 --GATEAAVLMDSKLVVEQMSGRWKVKHPDLLKLYVQAQALASQFRRINYEWVPRARNTYADRLAN 128 (141)
T ss_dssp --TCSEEEEEESCHHHHHHHTTSSCCCSHHHHHHHHHHHHHHTTSSEEEEEECCGGGCHHHHHHHH
T ss_pred --CCceEEEEeChHHHHHHHhCCcccCCHHHHHHHHHHHHHHhcCCeEEEEEcCCcccHHHHHHHH
Confidence 257899999999999999986 222333444444554443 4799999999999 6998765
No 8
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}
Probab=98.25 E-value=7.5e-07 Score=90.50 Aligned_cols=118 Identities=15% Similarity=0.102 Sum_probs=75.5
Q ss_pred eEEEEecccc------cceeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhcc
Q psy9877 937 SLHVFSDASK------LAYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDYK 1010 (1447)
Q Consensus 937 ~L~vftDAS~------~g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l~ 1010 (1447)
.+.+|||+|- .|||+++. ..+|..... .+. +.. ..|.++.||.|++.|++++...- ..
T Consensus 3 ~~~iy~DGs~~~n~g~~G~G~v~~----~~~g~~~~~--~~~----~~~----~~tn~~aEl~A~~~aL~~a~~~~--~~ 66 (140)
T 3u3g_D 3 KIIIYTDGGARGNPGPAGIGVVIT----DEKGNTLHE--SSA----YIG----ETTNNVAEYEALIRALEDLQMFG--DK 66 (140)
T ss_dssp EEEEEEEEEESSTTEEEEEEEEEE----CTTSCEEEE--EEE----EEE----EECHHHHHHHHHHHHHHHHGGGG--GG
T ss_pred eEEEEEecCCCCCCCCcEEEEEEE----eCCCCEEEE--EEe----eCC----CCchHHHHHHHHHHHHHHHHHcC--CC
Confidence 5789999986 47777764 135543211 111 112 34788999999999998654321 00
Q ss_pred ccccceEEEechHHHHHHHhcC-CCcchhhhhhHHHhh----hcCCCceEEEccCCCC-CCCCCCC
Q psy9877 1011 LQDVRTTFWTDATTVLAWIRRN-EPWNVFVMNRITEIR----NLSQEHEWRHVPGEMN-PADLPSR 1070 (1447)
Q Consensus 1011 ~~~~~~~~~tDs~~~l~~i~~~-~~~~~~v~nrv~~I~----~~~~~~~~~hvp~~~N-pAD~~SR 1070 (1447)
....++.|+|||+.++.++++. +.-..-+...+.+|+ +....++|.|||...| .||.|.+
T Consensus 67 ~~~~~v~i~tDS~~vi~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~~v~~~~V~~~~N~~AD~LA~ 132 (140)
T 3u3g_D 67 LVDMEVEVRMDSELIVRQMQGVYKVKEPTLKEKFAKIAHIKMERVPNLVFVHIPREKNARADELVN 132 (140)
T ss_dssp GTTCEEEEEESCHHHHHHHTTSSCCCCGGGHHHHHHHHHHHHHHCTTCEEEECCGGGGHHHHHHHH
T ss_pred CCCceEEEEeChHHHHHHhCCCcccCCHHHHHHHHHHHHHhhcCCCcEEEEEcCchhhHHHHHHHH
Confidence 0122899999999999999986 211222222333333 3335899999999999 6997654
No 9
>3s8i_A Protein DDI1 homolog 1; protease, structural genomics, structural genomics consortiu retropepsin-like domain, protein turnover, hydrolase; 1.70A {Homo sapiens}
Probab=98.08 E-value=3.8e-06 Score=85.73 Aligned_cols=94 Identities=14% Similarity=0.163 Sum_probs=59.4
Q ss_pred EeeEEEEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCC--CeeEEEEEeeeCccccccceeEEEEEEEecCCC
Q psy9877 325 LQTLVVKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPI--TKQSMRHALFGGSITDAMDHNLFKIVISNLDNT 402 (1447)
Q Consensus 325 l~tv~v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~--~~~~l~i~~~gg~~~~~~~~~~v~l~I~~~~~~ 402 (1447)
..++++.+ +|.. +.||+||||+.|+|+.++|++|||+.. ......+.+.|+...... ...+.++| ++
T Consensus 24 ~l~v~~~I---ng~~---v~~LVDTGAs~s~Is~~~A~rlGL~~~~~~~~~~~a~g~G~~~~~g~-v~~~~I~I----g~ 92 (148)
T 3s8i_A 24 MLYINCKV---NGHP---LKAFVDSGAQMTIMSQACAERCNIMRLVDRRWAGVAKGVGTQRIIGR-VHLAQIQI----EG 92 (148)
T ss_dssp CCEEEEEE---TTEE---EEEEECTTCSSCEEEHHHHHHTTCGGGEEGGGCEECCC---CEEEEE-EEEEEEEE----TT
T ss_pred EEEEEEEE---CCEE---EEEEEeCCCCcEeeCHHHHHHcCCccccCcceeEEEEcCCccEEEEE-EEEEEEEE----CC
Confidence 34555655 5555 999999999999999999999999763 112344455554322211 11234444 34
Q ss_pred ceEEEEEeeecCccccCCCCCCCCccccccccCcccccCCCCCcceeEEecccccccc
Q psy9877 403 FACDFDVFGQSKICSTIPSIPSGPWIDELKQHNIELTDLQHPSTTVDILVGADIAGKF 460 (1447)
Q Consensus 403 ~~~~v~~lvvp~i~~~lp~~~~~~~~~~L~~~~i~L~d~~~~~~~iDlLIG~D~~~~i 460 (1447)
..+.+.+.+++ ...+|+|||+|++..+
T Consensus 93 ~~~~~~~~Vle-------------------------------~~~~d~LLGmD~L~~~ 119 (148)
T 3s8i_A 93 DFLQCSFSILE-------------------------------DQPMDMLLGLDMLRRH 119 (148)
T ss_dssp EEEEEEEEEET-------------------------------TCSSSEEECHHHHHHT
T ss_pred EEEEEEEEEeC-------------------------------CCCcCeeccHHHHHhC
Confidence 44556666665 1346899999999876
No 10
>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=97.91 E-value=1.5e-05 Score=81.63 Aligned_cols=117 Identities=18% Similarity=0.202 Sum_probs=75.5
Q ss_pred cceEEEEecccc----cceeeEEEEEEEecCCceEEEEEeee-cccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhc
Q psy9877 935 SWSLHVFSDASK----LAYAAAVFLRVEHSKTKVSLHLLAAR-ARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDY 1009 (1447)
Q Consensus 935 ~~~L~vftDAS~----~g~gavly~r~~~~~g~~~~~~~~sk-sr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l 1009 (1447)
...+.+|||+|- .|||++++ .+|.. . ..+. ....|.. ...|-++.||.|+..|++++...
T Consensus 4 ~~~i~iytDGs~~~g~~G~G~vi~-----~~g~~--~-~~~~~~~~~~~~---~~~tNn~aEl~A~~~AL~~a~~~---- 68 (147)
T 2kq2_A 4 RTEYDVYTDGSYVNGQYAWAYAFV-----KDGKV--H-YEDADVGKNPAA---ATMRNVAGEIAAALYAVKKASQL---- 68 (147)
T ss_dssp TSCCEEECCCCCBTTBCEEEEEEE-----ETTEE--E-EEEEEECCCGGG---GGTCTTHHHHHHHHHHHHHHHHH----
T ss_pred CCeEEEEECCCCCCCCcEEEEEEE-----ECCEE--E-EEEecccccccc---ccccHHHHHHHHHHHHHHHHHHC----
Confidence 345889999986 67888876 35543 1 1121 1111210 13578999999999999865332
Q ss_pred cccccceEEEechHHHHHHHhcC-CCcc-hhhhhhHHHhhhcCCCceEEEccCCC----C-CCCCCCC
Q psy9877 1010 KLQDVRTTFWTDATTVLAWIRRN-EPWN-VFVMNRITEIRNLSQEHEWRHVPGEM----N-PADLPSR 1070 (1447)
Q Consensus 1010 ~~~~~~~~~~tDs~~~l~~i~~~-~~~~-~~v~nrv~~I~~~~~~~~~~hvp~~~----N-pAD~~SR 1070 (1447)
+ . ++.|+|||+.+..|+.+. +.-. ..+.+ ...++++...+.|.||||.. | -||.|.|
T Consensus 69 ~--~-~v~I~tDS~~i~~w~~~~w~~~~~~~~~~-~~l~~~l~~~v~~~wV~gH~g~~~Ne~AD~LA~ 132 (147)
T 2kq2_A 69 G--V-KIRILHDYAGIAFWATGEWKAKNEFTQAY-AKLMNQYRGIYSFEKVKAHSGNEFNDYVDMKAK 132 (147)
T ss_dssp T--C-CCCBSSCCSTHHHHTTSSSSCCHHHHHHH-HCGGGGGSTTCCBCCCCCCCCCHHHHHHHHHHH
T ss_pred C--C-eEEEEECcHHHHHHHhCCCccCCcchHHH-HHHHHHhcCCeeEEEecCcCCCcchHHHHHHHH
Confidence 2 3 789999999999999876 2222 22222 23445554589999999865 5 5887766
No 11
>2i1a_A DNA damage-inducible protein DDI1; acid protease fold, dimer, retroviral protease domain, protein turnover; HET: DNA; 2.30A {Saccharomyces cerevisiae}
Probab=97.87 E-value=1.2e-05 Score=82.42 Aligned_cols=93 Identities=14% Similarity=0.204 Sum_probs=55.1
Q ss_pred EeeEEEEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCCCeeEE--EEEeeeCccccccceeEEEEEEEecCCC
Q psy9877 325 LQTLVVKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPITKQSM--RHALFGGSITDAMDHNLFKIVISNLDNT 402 (1447)
Q Consensus 325 l~tv~v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~~~~~l--~i~~~gg~~~~~~~~~~v~l~I~~~~~~ 402 (1447)
..++++.+ +|.. +.+||||||+.|+|++++|++||++......+ ...|.|+...... .....+.| ++
T Consensus 26 ~~~v~v~I---nG~~---~~~LvDTGAs~s~is~~~a~~lgl~~~~~~~~~~~a~g~g~~~~~~~-~~~~~i~i----g~ 94 (148)
T 2i1a_A 26 MLYINIEI---NNYP---VKAFVDTGAQTTIMSTRLAKKTGLSRMIDKRFIGEARGVGTGKIIGR-IHQAQVKI----ET 94 (148)
T ss_dssp CCEEEEEE---TTEE---EEEEECTTCSSCEEEHHHHHHHTGGGGCBCCCC-----------CEE-EEEEEEEE----TT
T ss_pred eEEEEEEE---CCEE---EEEEEECCCCccccCHHHHHHcCCCccCCcceEEEEecCCCcccccE-EEEEEEEE----CC
Confidence 34566766 5554 99999999999999999999999975333333 3566666432211 11233444 33
Q ss_pred ceEEEEEeeecCccccCCCCCCCCccccccccCcccccCCCCCcceeEEecccccccc
Q psy9877 403 FACDFDVFGQSKICSTIPSIPSGPWIDELKQHNIELTDLQHPSTTVDILVGADIAGKF 460 (1447)
Q Consensus 403 ~~~~v~~lvvp~i~~~lp~~~~~~~~~~L~~~~i~L~d~~~~~~~iDlLIG~D~~~~i 460 (1447)
..+.+.+.+++ ..+|+|||+|++..+
T Consensus 95 ~~~~~~~~vl~--------------------------------~~~d~iLG~d~L~~~ 120 (148)
T 2i1a_A 95 QYIPCSFTVLD--------------------------------TDIDVLIGLDMLKRH 120 (148)
T ss_dssp EEEEEEEEEEC--------------------------------SSCSEEECHHHHHHT
T ss_pred EEeceeEEEec--------------------------------CCCCeEecHHHHhhC
Confidence 33445555544 136799999999876
No 12
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=97.52 E-value=4.3e-05 Score=58.14 Aligned_cols=35 Identities=37% Similarity=0.998 Sum_probs=27.2
Q ss_pred cccccc-cccccccCCCCCCHHHHHHHHHhccccccccccccccccccc
Q psy9877 237 SCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRT 284 (1447)
Q Consensus 237 ~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s 284 (1447)
.|+.|+ .+|.+.+|+. ...||+|++.||++++|++
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 478888 6788888874 3678888888888888864
No 13
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV, RNAse H, reverse transcriptase, transcription; 1.50A {Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A 3v1r_A* 2hb5_A 4e89_A
Probab=97.48 E-value=0.00045 Score=71.77 Aligned_cols=101 Identities=23% Similarity=0.340 Sum_probs=64.4
Q ss_pred CcceEEEEeccccc------ceeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHH
Q psy9877 934 ESWSLHVFSDASKL------AYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVK 1007 (1447)
Q Consensus 934 ~~~~L~vftDAS~~------g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~ 1007 (1447)
+...+.+|||+|-. |||++++ .+|... ..+ .. + . ..|.++.||.|++.|++++
T Consensus 20 ~~~~i~iytDGs~~~npG~~g~G~vi~-----~~~~~~---~~~--~~-~-~----~~Tnn~aEl~Ai~~AL~~~----- 78 (165)
T 3p1g_A 20 PDADYTWYTDGSSFLQEGQRRAGAAVT-----TETEVI---WAR--AL-P-A----GTSAQRAELIALTQALKMA----- 78 (165)
T ss_dssp TTCSEEEEEEEEEEEETTEEEEEEEEE-----CSSCEE---EEE--EE-C-T----TCCHHHHHHHHHHHHHHHT-----
T ss_pred CCCCEEEEEEcccCCCCCceEEEEEEE-----ECCEEE---EEe--cC-C-C----CCcHHHHHHHHHHHHHHHc-----
Confidence 34469999999975 5777765 345431 111 12 2 2 4588999999999999875
Q ss_pred hccccccceEEEechHHHHH--HHhcCCCcchhhhhh--HHHh-hhc--CCCceEEEccCCC
Q psy9877 1008 DYKLQDVRTTFWTDATTVLA--WIRRNEPWNVFVMNR--ITEI-RNL--SQEHEWRHVPGEM 1062 (1447)
Q Consensus 1008 ~l~~~~~~~~~~tDs~~~l~--~i~~~~~~~~~v~nr--v~~I-~~~--~~~~~~~hvp~~~ 1062 (1447)
....+.|+|||+.++. |+++.+ ..|.|+ +.++ .++ ...+.|.||||..
T Consensus 79 ----~~~~v~I~tDS~~vi~~iw~~~~g---~~v~n~dl~~~l~~~l~~~~~v~~~wVkgH~ 133 (165)
T 3p1g_A 79 ----EGKKLNVYTDSRYAFATAHVHSEG---REIKNKNEILALLKALFLPKRLSIIHCPGHQ 133 (165)
T ss_dssp ----BTSEEEEEECCHHHHHHHHSCCCS---CCCSSHHHHHHHHHHTTSBSEEEEEECCSSC
T ss_pred ----cCceEEEEEchHHHHhhhhcccCC---CcccCHHHHHHHHHHHhcCCceEEEEecCCC
Confidence 1578999999997775 443331 122232 2222 221 2379999999987
No 14
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=97.45 E-value=5.8e-05 Score=77.95 Aligned_cols=81 Identities=28% Similarity=0.409 Sum_probs=54.0
Q ss_pred cccchhHhHHHHHHHHHHHHHHHHhccccccceEEEechHHHHHHHhcC------CCcc----hhhhhh--HHHhhhcCC
Q psy9877 984 TLTIPRLELLAASIATRLCQTVVKDYKLQDVRTTFWTDATTVLAWIRRN------EPWN----VFVMNR--ITEIRNLSQ 1051 (1447)
Q Consensus 984 ~~siprlEL~A~~~a~~~~~~l~~~l~~~~~~~~~~tDs~~~l~~i~~~------~~~~----~~v~nr--v~~I~~~~~ 1051 (1447)
..|..+.||.|++.|++++.. ....++.|+|||+.++.-|+.- +.|+ .-+.|+ +.+|.++..
T Consensus 47 ~~tn~~aEl~A~~~aL~~~~~------~~~~~v~i~tDS~~vi~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~ 120 (154)
T 2qkb_A 47 RQTNQRAEIHAACKAIEQAKT------QNINKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQ 120 (154)
T ss_dssp SCCHHHHHHHHHHHHHHHHHH------TTCCEEEEEESCHHHHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHT
T ss_pred CCchHHHHHHHHHHHHHHHHh------CCCceEEEEECcHHHHhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHc
Confidence 357899999999999987643 2357899999999888666542 2222 112222 334433332
Q ss_pred --CceEEEccCCC----C-CCCCCCC
Q psy9877 1052 --EHEWRHVPGEM----N-PADLPSR 1070 (1447)
Q Consensus 1052 --~~~~~hvp~~~----N-pAD~~SR 1070 (1447)
.+.|.|||+.. | .||.|.|
T Consensus 121 ~~~v~~~~V~~H~g~~~N~~AD~LA~ 146 (154)
T 2qkb_A 121 GMDIQWMHVPGHSGFIGNEEADRLAR 146 (154)
T ss_dssp TCEEEEEECCTTSSCHHHHHHHHHHH
T ss_pred CCceEEEEccCCCCCHhHHHHHHHHH
Confidence 58999999965 6 5886654
No 15
>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=97.44 E-value=9.3e-05 Score=63.58 Aligned_cols=51 Identities=25% Similarity=0.549 Sum_probs=39.1
Q ss_pred Cccccccc-cccccccCCCCCCHHHHHHHHHhccccccccccccccccccccccccccccCC
Q psy9877 235 GESCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRTKSRLKCEKCGS 295 (1447)
Q Consensus 235 ~~~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s~~~~~C~~C~~ 295 (1447)
...|+.|+ .+|.+.+|+... ....||+|++.||++++|+.+....+..|++
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~~~----------~~~~C~~Cg~~GH~ar~Cp~~~~~~~~~~g~ 58 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKLPP----------QPKKCHFCQSISHMVASCPLKAQQGPSAQGS 58 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCSCC----------CSSCCTTTCCSSSCTTTCTGGGCSCCCCSCC
T ss_pred CCcccccCCCCcChhhCCCCC----------CCCccCCcCCcCCccCcCCCccccCCccCCC
Confidence 35699999 789999999611 3578999999999999999874224444444
No 16
>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=97.43 E-value=0.00014 Score=74.56 Aligned_cols=106 Identities=17% Similarity=0.148 Sum_probs=66.4
Q ss_pred ceEEEEecccc------cceeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhc
Q psy9877 936 WSLHVFSDASK------LAYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDY 1009 (1447)
Q Consensus 936 ~~L~vftDAS~------~g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l 1009 (1447)
..+.+|||+|- .|||++++ ++.... + +.. ..|-++.||.|++.|++..
T Consensus 11 ~~~~iytDGs~~~n~g~~g~G~v~~------~~~~~~--~-------~~~----~~Tnn~aEl~A~i~AL~~~------- 64 (150)
T 3qio_A 11 GAETFYVDGAANRETKLGKAGYVTN------RGRQKV--V-------TLT----DTTNQKTELQAIYLALQDS------- 64 (150)
T ss_dssp TCEEEEEEEEECTTTCCEEEEEEET------TSCEEE--E-------EES----SCCHHHHHHHHHHHHHHHS-------
T ss_pred CCEEEEEccCCCCCCCCeEEEEEEE------cCCEEE--E-------eCC----CCCHHHHHHHHHHHHHHhC-------
Confidence 46899999995 46776653 333211 1 123 5688999999999999752
Q ss_pred cccccceEEEechHHHHHHHhcC------CCcch----hhhhh--HHHhhh---cCCCceEEEccCCC----C-CCCCCC
Q psy9877 1010 KLQDVRTTFWTDATTVLAWIRRN------EPWNV----FVMNR--ITEIRN---LSQEHEWRHVPGEM----N-PADLPS 1069 (1447)
Q Consensus 1010 ~~~~~~~~~~tDs~~~l~~i~~~------~~~~~----~v~nr--v~~I~~---~~~~~~~~hvp~~~----N-pAD~~S 1069 (1447)
..++.|+|||+.++.-|+.- +.|++ -|.|+ +.+|.+ ....+.|.||||.. | .||.+.
T Consensus 65 ---~~~v~i~tDS~~v~~~i~~w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LA 141 (150)
T 3qio_A 65 ---GLEVNIVTDSQYALGIITQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLV 141 (150)
T ss_dssp ---CSEEEEEESCHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHTTCSEEEEEECCTTSCCHHHHHHHHHH
T ss_pred ---CCcEEEEeCcHHHHHHHHHHHHHHhhcCcCcCcCcccccHHHHHHHHHHHhhcCceEEEEccCcCCChhHHHHHHHH
Confidence 37899999999888755542 22222 23332 222222 12369999999997 6 588665
Q ss_pred C
Q psy9877 1070 R 1070 (1447)
Q Consensus 1070 R 1070 (1447)
|
T Consensus 142 ~ 142 (150)
T 3qio_A 142 S 142 (150)
T ss_dssp H
T ss_pred H
Confidence 5
No 17
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}
Probab=97.36 E-value=0.00033 Score=71.51 Aligned_cols=111 Identities=20% Similarity=0.296 Sum_probs=65.2
Q ss_pred ceEEEEecccc------cceeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhc
Q psy9877 936 WSLHVFSDASK------LAYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDY 1009 (1447)
Q Consensus 936 ~~L~vftDAS~------~g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l 1009 (1447)
.++.+|||+|- .|||+++. .++.. ..+.. +.. ..|-++.||.|++.|++.+..
T Consensus 3 ~~i~iytDGs~~~n~g~~g~G~v~~-----~~~~~--~~~~~-----~~~----~~Tnn~aEl~A~~~AL~~~~~----- 61 (146)
T 3h08_A 3 KTITIYTDGAASGNPGKGGWGALLM-----YGSSR--KEISG-----YDP----ATTNNRMELMAAIKGLEALKE----- 61 (146)
T ss_dssp CEEEEEEEEEESSTTEEEEEEEEEE-----ETTEE--EEEEE-----EEE----EECHHHHHHHHHHHHHHTCSS-----
T ss_pred ceEEEEEecCCCCCCCceEEEEEEE-----ECCee--EEeec-----CCC----CCcHHHHHHHHHHHHHHhcCc-----
Confidence 36899999993 46666664 23321 11111 122 457889999999999976431
Q ss_pred cccccceEEEechHHHHHHHhcC-------CCcch----hhhhh--HHHhhhcCC--CceEEEccCCC----C-CCCCCC
Q psy9877 1010 KLQDVRTTFWTDATTVLAWIRRN-------EPWNV----FVMNR--ITEIRNLSQ--EHEWRHVPGEM----N-PADLPS 1069 (1447)
Q Consensus 1010 ~~~~~~~~~~tDs~~~l~~i~~~-------~~~~~----~v~nr--v~~I~~~~~--~~~~~hvp~~~----N-pAD~~S 1069 (1447)
..++.|+|||+.++.-|+.. +.|++ -+.|+ +..|.++.. .+.|.||||.. | .||.|.
T Consensus 62 ---~~~v~I~tDS~~vi~~i~~~w~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~~~~~v~~~~V~gH~g~~~N~~AD~LA 138 (146)
T 3h08_A 62 ---PARVQLYSDSAYLVNAMNEGWLKRWVKNGWKTAAKKPVENIDLWQEILKLTTLHRVTFHKVKGHSDNPYNSRADELA 138 (146)
T ss_dssp ---CCEEEEEESCHHHHHHHHSSHHHHHHHTTCC----CCCTTHHHHHHHHHHHHHSEEEEEECCC-CCSHHHHHHHHHH
T ss_pred ---cCcEEEEeChHHHHHHHHHHHHHHHHHCCCccCCCCCcCCHHHHHHHHHHHhhCceEEEEcCCcCCcHhHHHHHHHH
Confidence 47899999999888866551 22221 11111 222222211 68999999653 4 467554
Q ss_pred C
Q psy9877 1070 R 1070 (1447)
Q Consensus 1070 R 1070 (1447)
|
T Consensus 139 ~ 139 (146)
T 3h08_A 139 R 139 (146)
T ss_dssp H
T ss_pred H
Confidence 3
No 18
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A
Probab=97.36 E-value=0.00029 Score=72.98 Aligned_cols=110 Identities=25% Similarity=0.334 Sum_probs=68.3
Q ss_pred eEEEEeccccc------ceeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhcc
Q psy9877 937 SLHVFSDASKL------AYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDYK 1010 (1447)
Q Consensus 937 ~L~vftDAS~~------g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l~ 1010 (1447)
.+.+|||+|-. |||+++. .+|.. ..+.. . .. ..|-++.||.|+..|++++.
T Consensus 6 ~i~iytDGs~~~n~g~~G~G~v~~-----~~~~~--~~~~~-~----~~----~~tn~~aEl~A~~~AL~~~~------- 62 (158)
T 2e4l_A 6 LIHIFTDGSCLGNPGPGGYGIVMN-----YKGHT--KEMSD-G----FS----LTTNNRMELLAPIVALEALK------- 62 (158)
T ss_dssp EEEEEEEEEESSSSEEEEEEEEEE-----ETTEE--EEEEE-E----EE----EECHHHHHHHHHHHHHHTCS-------
T ss_pred eEEEEEcccccCCCCcEEEEEEEE-----ECCEE--EEEec-C----cC----CCccHHHHHHHHHHHHHHhc-------
Confidence 58899999875 6776664 23422 11111 1 12 34688999999999997532
Q ss_pred ccccceEEEechHHHHHHHhcC------CCcc----hhhhhh--HHHhhhcCC--CceEEEccCC----CC-CCCCCCC
Q psy9877 1011 LQDVRTTFWTDATTVLAWIRRN------EPWN----VFVMNR--ITEIRNLSQ--EHEWRHVPGE----MN-PADLPSR 1070 (1447)
Q Consensus 1011 ~~~~~~~~~tDs~~~l~~i~~~------~~~~----~~v~nr--v~~I~~~~~--~~~~~hvp~~----~N-pAD~~SR 1070 (1447)
...++.|+|||+.++.-|+.- +.|+ ..+.|+ +..|.++.. .+.|.||||. .| .||.|.|
T Consensus 63 -~~~~v~I~tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LAk 140 (158)
T 2e4l_A 63 -EPCKIILTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQLHQIDWRWVKGHAGHAENERCDQLAR 140 (158)
T ss_dssp -SCCEEEEEECCHHHHHHHHTHHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHTTSEEEEEECCTTCCCHHHHHHHHHHH
T ss_pred -cCCeEEEEeCHHHHHHHHHHHHHHHHHccccccCCCcccCHHHHHHHHHHHccCcEEEEEccCCCCchhHHHHHHHHH
Confidence 127899999999988855541 1221 123332 223333322 6899999976 45 5887766
No 19
>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=97.36 E-value=8.9e-05 Score=60.23 Aligned_cols=41 Identities=29% Similarity=0.754 Sum_probs=34.7
Q ss_pred Cccccccc-cccccccCCCCCCHHHHHHHHHhccccccccccccccccccccc
Q psy9877 235 GESCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRTKS 286 (1447)
Q Consensus 235 ~~~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s~~ 286 (1447)
...|+.|+ .+|...+|+.. ....||+|++.||++++|+.+.
T Consensus 6 ~~~C~~Cg~~GH~a~~C~~~-----------~~~~C~~Cg~~GH~~~~C~~~~ 47 (49)
T 2ec7_A 6 VIRCWNCGKEGHSARQCRAP-----------RRQGCWKCGKTGHVMAKCPERQ 47 (49)
T ss_dssp CCBCTTTCCBTCCTTTCCCS-----------SCCSCSSSCCSSCCGGGCCSSC
T ss_pred cCeeeecCCCCcChhhCcCC-----------CCCeeCcCCCcCCccCCCcCCC
Confidence 45799999 89999999961 2468999999999999998864
No 20
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=97.35 E-value=8.9e-05 Score=57.10 Aligned_cols=37 Identities=27% Similarity=0.783 Sum_probs=29.5
Q ss_pred cccccc-cccccccCCCCCCHHHHHHHHHhccccccccccccccccccc
Q psy9877 237 SCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRT 284 (1447)
Q Consensus 237 ~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s 284 (1447)
.|+.|+ .+|.+.+|+.. +...||+|++.||++++|+.
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 588888 78999999851 24689999999999998873
No 21
>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=97.29 E-value=0.00037 Score=66.03 Aligned_cols=75 Identities=19% Similarity=0.212 Sum_probs=53.1
Q ss_pred eeEEEEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCCC-eeEEEEEeeeCccccccceeEEEEEEEecCCCce
Q psy9877 326 QTLVVKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPIT-KQSMRHALFGGSITDAMDHNLFKIVISNLDNTFA 404 (1447)
Q Consensus 326 ~tv~v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~~-~~~l~i~~~gg~~~~~~~~~~v~l~I~~~~~~~~ 404 (1447)
+++.+.+ +|+. +.|||||||+.|+|++..+.+++|++ . -.+..+.|+||..... ...+.+++. ...
T Consensus 9 P~v~v~I---~Gq~---~e~LLDTGAD~TVl~~~~w~~i~lp~-~~w~p~~i~GiGG~i~v~--~~~i~i~i~----g~~ 75 (104)
T 1fmb_A 9 PTTIVLI---NDTP---LNVLLDTGADTSVLTTAHYNRLKYRG-RKYQGTGIGGVGGNVETF--STPVTIKKK----GRH 75 (104)
T ss_dssp CEEEEEE---TTEE---EEEEECTTCSSCEEEHHHHHHCSSCC-CCEECCCEEETTEEECCE--EEEEEEEET----TEE
T ss_pred CEEEEEE---CCEE---EEEEeccCCCcEEEccccCcccCCCC-ccCCccEEEeCCCeEEee--EeeeEEEEC----CeE
Confidence 3455655 4554 89999999999999999999999999 5 4667788998865444 335666663 233
Q ss_pred EEEEEeeec
Q psy9877 405 CDFDVFGQS 413 (1447)
Q Consensus 405 ~~v~~lvvp 413 (1447)
....+++-|
T Consensus 76 ~~gtvlv~~ 84 (104)
T 1fmb_A 76 IKTRMLVAD 84 (104)
T ss_dssp EEEEEEEES
T ss_pred EEEEEEECC
Confidence 444555544
No 22
>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=97.25 E-value=0.00039 Score=71.78 Aligned_cols=110 Identities=25% Similarity=0.309 Sum_probs=69.3
Q ss_pred eEEEEeccccc------ceeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhcc
Q psy9877 937 SLHVFSDASKL------AYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDYK 1010 (1447)
Q Consensus 937 ~L~vftDAS~~------g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l~ 1010 (1447)
.+.+|||+|-. |||+++. .++.. ..+.. . .. ..|.++.||.|+..|++++..
T Consensus 4 ~~~iytDGs~~~n~~~~G~G~v~~-----~~~~~--~~~~~-~----~~----~~tn~~aEl~A~~~aL~~~~~------ 61 (155)
T 1jl1_A 4 QVEIFTAGSALGNPGPGGYGAILR-----YRGRE--KTFSA-G----YT----RTTNNRMELMAAIVALEALKE------ 61 (155)
T ss_dssp CEEEEEEEEESSTTEEEEEEEEEE-----ETTEE--EEEEE-E----EE----EECHHHHHHHHHHHHHHTCCS------
T ss_pred eEEEEEccccCCCCCceEEEEEEE-----ECCeE--EEEec-C----CC----CCcHHHHHHHHHHHHHHHhCc------
Confidence 47899999874 5676664 23321 11111 1 12 446889999999999975421
Q ss_pred ccccceEEEechHHHHHHHhcC------CCcc----hhhhhh--HHHhhhcCC--CceEEEccCC----CC-CCCCCCC
Q psy9877 1011 LQDVRTTFWTDATTVLAWIRRN------EPWN----VFVMNR--ITEIRNLSQ--EHEWRHVPGE----MN-PADLPSR 1070 (1447)
Q Consensus 1011 ~~~~~~~~~tDs~~~l~~i~~~------~~~~----~~v~nr--v~~I~~~~~--~~~~~hvp~~----~N-pAD~~SR 1070 (1447)
..++.|+|||+.++.-|+.- +.|+ ..|.|+ +..|.++.. .+.|.||||. .| .||.|.|
T Consensus 62 --~~~v~I~tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LA~ 138 (155)
T 1jl1_A 62 --HAEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERADELAR 138 (155)
T ss_dssp --CCEEEEEECCHHHHHHHHTTHHHHHHTTTBCTTSCBCTTHHHHHHHHHHTTTCEEEEEECCSSTTCHHHHHHHHHHH
T ss_pred --CCcEEEEeCHHHHHHHHHHHHHHHhhcccccccCCccCCHHHHHHHHHHHccCceEEEEcCCCCCCHHHHHHHHHHH
Confidence 26899999999999777751 1221 233332 334444433 6899999976 45 5887776
No 23
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}
Probab=97.21 E-value=0.00043 Score=71.87 Aligned_cols=110 Identities=12% Similarity=0.043 Sum_probs=57.6
Q ss_pred CcceEEEEecccc-----------cceeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHH
Q psy9877 934 ESWSLHVFSDASK-----------LAYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLC 1002 (1447)
Q Consensus 934 ~~~~L~vftDAS~-----------~g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~ 1002 (1447)
...++++|||+|- .|||+++. . .+...... .+ .-.+ +=++.|+.|.+.|+..+
T Consensus 4 ~~~evviYTDGsc~gNpgp~~~~~aG~Gv~~~--~--~~~~~~~~--~~--~~~~--------tnn~te~~Aei~Al~~a 67 (165)
T 2lsn_A 4 GQYEGVFYTDGSAIKSPDPTKSNNAGMGIVHA--T--YKPEYQVL--NQ--WSIP--------LGNHTAQMAEIAAVEFA 67 (165)
T ss_dssp CCCSEEEEEEEEEEECSSCTTCEEEEEEEEEE--C--CSSSCCEE--EE--EEEE--------ESSCCHHHHHHHHHHHH
T ss_pred CCceEEEEEcCCCCCCCCCCCCCcEEEEEEEE--E--CCCccEEe--cc--ccCC--------chHHHHHHHHHHHHHHH
Confidence 5678999999993 56776653 1 11111111 11 0111 22355666666666533
Q ss_pred HHHHHhccccccceEEEechHHHHHHHhcC------CCc----chhhhhh--HHHhhhc---CCCceEEEccCCC
Q psy9877 1003 QTVVKDYKLQDVRTTFWTDATTVLAWIRRN------EPW----NVFVMNR--ITEIRNL---SQEHEWRHVPGEM 1062 (1447)
Q Consensus 1003 ~~l~~~l~~~~~~~~~~tDs~~~l~~i~~~------~~~----~~~v~nr--v~~I~~~---~~~~~~~hvp~~~ 1062 (1447)
... .+. ...++.|+|||+-++.-|+.- +.| +.-|.|+ +.+|.+. ...++|.||+|..
T Consensus 68 l~~--al~-~~~~v~I~TDS~Yvi~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~~v~~~~VkgH~ 139 (165)
T 2lsn_A 68 CKK--ALK-IPGPVLVITDSFYVAESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKPDITIQHEKGHQ 139 (165)
T ss_dssp HHH--HHH-SSSCEEEEESCHHHHHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCTTCEEEECCSSS
T ss_pred HHH--Hhc-CCCeEEEEeChHHHHhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCCCEEEEEEeCCC
Confidence 221 111 235799999999887533321 222 2224443 2233222 2379999999875
No 24
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=97.19 E-value=0.00025 Score=64.09 Aligned_cols=58 Identities=19% Similarity=0.429 Sum_probs=32.9
Q ss_pred CCccccccc-cccccccCCCCCCHHHHHHHHHhcccccccccccccccccccc-ccccccccCCC-CcccccCC
Q psy9877 234 KGESCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRTK-SRLKCEKCGSR-HLTILCPR 304 (1447)
Q Consensus 234 ~~~~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s~-~~~~C~~C~~~-Hht~l~~~ 304 (1447)
+...|..|+ .+|...+||. ..+||+|+..||.+++|+.. ....|..|++. |...-|++
T Consensus 4 k~~~C~~Cg~~GH~~~~Cp~-------------~~rcY~c~~~gh~~~~c~~p~~~~~CYnCG~~GH~~rdC~~ 64 (83)
T 3nyb_B 4 KKVQCTLCKSKKHSKERCPS-------------IWRAYILVDDNEKAKPKVLPFHTIYCYNCGGKGHFGDDCKE 64 (83)
T ss_dssp ---CCSSSCCSSSCGGGCGG-------------GTCCCCBC-------------CCCBCSSSSCBSSCGGGCSS
T ss_pred ccCCCCCCCCCCCccccCCC-------------cccccccccCCcccccccCCCCCCeecccCCCCcCcccCCc
Confidence 346799999 7899999995 34799999999999999654 11279999985 55556765
No 25
>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=97.18 E-value=0.00019 Score=59.95 Aligned_cols=41 Identities=29% Similarity=0.805 Sum_probs=34.8
Q ss_pred Cccccccc-cccccccCCCCCCHHHHHHHHHhccccccccccccccccccccc
Q psy9877 235 GESCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRTKS 286 (1447)
Q Consensus 235 ~~~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s~~ 286 (1447)
...|+.|+ .+|.+.+|+.. ....||+|++.||++++|+.+.
T Consensus 12 ~~~C~~Cg~~GH~a~~C~~~-----------~~~~C~~Cg~~GH~~~~C~~~~ 53 (55)
T 1a1t_A 12 TVKCFNCGKEGHIAKNCRAP-----------RKKGCWKCGKEGHQMKDCTERQ 53 (55)
T ss_dssp TCBCTTTCCBSSCGGGCSSC-----------SCCBCTTTCCBSSCGGGCSSSC
T ss_pred CcceeeeCCCCcChhhcCCC-----------CCCEeCCCCCcCCccCCCcCcC
Confidence 35799999 78999999861 2478999999999999999764
No 26
>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=97.13 E-value=0.00075 Score=84.62 Aligned_cols=105 Identities=17% Similarity=0.117 Sum_probs=70.6
Q ss_pred ceEEEEecccc------cceeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhc
Q psy9877 936 WSLHVFSDASK------LAYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDY 1009 (1447)
Q Consensus 936 ~~L~vftDAS~------~g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l 1009 (1447)
..+.+|||+|- .|||++++ +|..... ... ..|-++.||.|++.|++++
T Consensus 438 ~~~~iytDGs~~~n~g~~g~g~v~~------~~~~~~~---------~~~----~~TNn~aEl~Ai~~aL~~~------- 491 (557)
T 2zd1_A 438 GAETFYVDGAANRETKLGKAGYVTN------KGRQKVV---------PLT----NTTNQKTELQAIYLALQDS------- 491 (557)
T ss_dssp TSCEEEEEEEECTTTCCEEEEEEET------TSCEEEE---------EEC----SCCHHHHHHHHHHHHHHHS-------
T ss_pred CCEEEEEccCCCCCCCceEEEEEEE------CCcEEEe---------cCC----CCCHHHHHHHHHHHHHHhC-------
Confidence 35899999985 45665553 3332111 122 5678999999999999865
Q ss_pred cccccceEEEechHHHHHHHhcC-CC-cchhhhhhHHHhhhcCCCceEEEccCC----CC-CCCCCCC
Q psy9877 1010 KLQDVRTTFWTDATTVLAWIRRN-EP-WNVFVMNRITEIRNLSQEHEWRHVPGE----MN-PADLPSR 1070 (1447)
Q Consensus 1010 ~~~~~~~~~~tDs~~~l~~i~~~-~~-~~~~v~nrv~~I~~~~~~~~~~hvp~~----~N-pAD~~SR 1070 (1447)
..++.|+|||+.|+..+++. .. -......-+..+.+. ..+.|.||||. .| -||.+.+
T Consensus 492 ---~~~v~I~tDS~~vi~~i~~~~~~~~~~l~~~~~~~l~~~-~~v~~~wV~~H~g~~~Ne~AD~LA~ 555 (557)
T 2zd1_A 492 ---GLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKK-EKVYLAWVPAHKGIGGNEQVDKLVS 555 (557)
T ss_dssp ---CSEEEEEECCHHHHHHHTTCCSEESSHHHHHHHHHHHHC-SEEEEEECCSSSCCTTCCGGGGCC-
T ss_pred ---CCcEEEEeChHHHHHHHhcCCccCCHHHHHHHHHHHhcC-CCEEEEEcCCCCCChhHHHHHHHHh
Confidence 46899999999999999876 22 223222222244332 37999999995 47 5998765
No 27
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=97.12 E-value=0.00025 Score=60.50 Aligned_cols=46 Identities=28% Similarity=0.764 Sum_probs=35.1
Q ss_pred Cccccccc-cccccccCCCCCCHHHHHHHHHhccccccccccccccccccccc
Q psy9877 235 GESCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRTKS 286 (1447)
Q Consensus 235 ~~~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s~~ 286 (1447)
...|+.|+ .+|.+.+|+...... .....||+|++.||++++|+.+.
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~~~~~------~~~~~C~~Cg~~GH~ar~C~~~~ 50 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKKRKSG------NSRERCQLCNGMGHNAKQCRKRD 50 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTTTSSS------CCCSBCTTTCCBSSCGGGCCCCC
T ss_pred CCcccccCCCCeehhhCcCCcCCC------CCCCeeCCCCCCCCCcCCCcCCC
Confidence 35799999 789999999711000 12367999999999999999875
No 28
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=97.11 E-value=0.00022 Score=54.23 Aligned_cols=33 Identities=39% Similarity=0.805 Sum_probs=28.2
Q ss_pred ccccccccccccccccccccccccccCCCCc-cccc
Q psy9877 268 VCYACLKFGHRVSRCRTKSRLKCEKCGSRHL-TILC 302 (1447)
Q Consensus 268 lCf~Cl~~GH~~~~C~s~~~~~C~~C~~~Hh-t~l~ 302 (1447)
.||+|++.||++++|+... .|..|++..| ..-|
T Consensus 2 ~C~~Cg~~GH~~~~C~~~~--~C~~Cg~~GH~a~~C 35 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRAPK--VCFKCKQPGHFSKQC 35 (37)
T ss_dssp CBSSSCCSSCCTTTSSCBT--TCSSCCCTTGGGGTT
T ss_pred cccccCCCCcchhhCcCcC--eEccCCCcCCccCcC
Confidence 6999999999999999988 9999998654 3434
No 29
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Probab=97.06 E-value=6.9e-05 Score=78.29 Aligned_cols=110 Identities=21% Similarity=0.240 Sum_probs=67.7
Q ss_pred eEEEEeccccc------ceeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhcc
Q psy9877 937 SLHVFSDASKL------AYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDYK 1010 (1447)
Q Consensus 937 ~L~vftDAS~~------g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l~ 1010 (1447)
.+.+|||+|-. |||+++. .++.. ..+ +. +.. ..|.++.||.|++.|++++.
T Consensus 8 ~i~iytDGs~~~n~g~~G~G~v~~-----~~~~~--~~~-~~----~~~----~~Tnn~aEl~Ai~~AL~~~~------- 64 (166)
T 1ril_A 8 RVALFTDGACLGNPGPGGWAALLR-----FHAHE--KLL-SG----GEA----CTTNNRMELKAAIEGLKALK------- 64 (166)
T ss_dssp CCCEEEEEEESSTTEEEEEEEEEC-----BTTBC--CEE-CC----EEE----EECHHHHHHHHHHHHHHSCC-------
T ss_pred cEEEEECccccCCCCCEEEEEEEE-----ECCEE--EEE-ec----CCC----CCcHHHHHHHHHHHHHHHhc-------
Confidence 57799999874 5666653 22321 111 11 112 45788999999999997432
Q ss_pred ccccceEEEechHHHHHHHhcC-------CCcc----hhhhh--hHHHhhhcCC--CceEEEccCC----CC-CCCCCCC
Q psy9877 1011 LQDVRTTFWTDATTVLAWIRRN-------EPWN----VFVMN--RITEIRNLSQ--EHEWRHVPGE----MN-PADLPSR 1070 (1447)
Q Consensus 1011 ~~~~~~~~~tDs~~~l~~i~~~-------~~~~----~~v~n--rv~~I~~~~~--~~~~~hvp~~----~N-pAD~~SR 1070 (1447)
...++.|+|||+.++.-|+.. +.|+ ..|.| -+..|.++.. .+.|.||||. .| .||.|.|
T Consensus 65 -~~~~v~I~tDS~~vi~~i~~~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LAk 143 (166)
T 1ril_A 65 -EPCEVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTGHPENERVDREAR 143 (166)
T ss_dssp -SCCEEEEECCCHHHHHHHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTTSEEECCCCCGGGSCTHHHHHHHHHH
T ss_pred -cCCeEEEEeChHHHHHHHhhhHHHHHHhcccccccCCccCcHHHHHHHHHHHhcCeEEEEEeeCCCCchhHHHHHHHHH
Confidence 124899999999998766651 2232 22333 2333433333 6889999964 56 5888776
No 30
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=97.04 E-value=0.00011 Score=65.07 Aligned_cols=42 Identities=26% Similarity=0.651 Sum_probs=28.0
Q ss_pred Cccccccc-cccccccCCCCCCHHHHHHHHHhccccccccccccccccccccc
Q psy9877 235 GESCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRTKS 286 (1447)
Q Consensus 235 ~~~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s~~ 286 (1447)
...|+.|+ .+|.+.+|+... ....||+|++.||++++|+.+.
T Consensus 24 ~~~C~~Cg~~GH~a~~C~~~~----------~~~~C~~Cg~~GH~ar~Cp~~~ 66 (74)
T 2li8_A 24 GDRCYNCGGLDHHAKECKLPP----------QPKKCHFCQSISHMVASCPLKA 66 (74)
T ss_dssp TSCCTTTCCSSSCTTTCSSCC----------CCCCCTTTCCTTSCGGGCTTGG
T ss_pred CCcccccCCcCcCcccCCCCC----------CCCccCCcCCcCCccCcCcCCc
Confidence 45677777 677777777410 2357777777777777777653
No 31
>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=96.96 E-value=0.00022 Score=60.76 Aligned_cols=48 Identities=23% Similarity=0.625 Sum_probs=19.5
Q ss_pred ccccccc-cccccccCCCCCCHHHHHHHHHhccccccccccccccccccccc
Q psy9877 236 ESCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRTKS 286 (1447)
Q Consensus 236 ~~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s~~ 286 (1447)
..|+.|+ .+|.+.+|+...... ........||+|++.||++++|+.+.
T Consensus 2 ~~Cf~Cg~~GH~a~~C~~~~~~~---~~~~~~~~C~~Cg~~GH~ar~C~~~~ 50 (60)
T 1cl4_A 2 GSCFKCGKKGHFAKNCHEHAHNN---AEPKVPGLCPRCKRGKHWANECKSKT 50 (60)
T ss_dssp ------------------------------CCCSCSSCSSCSSCSTTCCCTT
T ss_pred CccccCCCCCcCHhhCcCCCCCc---cccCCCcceeECCCCCCccCcCCCcc
Confidence 3599999 889999999611100 01124578999999999999999875
No 32
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=96.95 E-value=0.00047 Score=53.02 Aligned_cols=32 Identities=34% Similarity=0.788 Sum_probs=26.4
Q ss_pred ccccccccccccccccccccccccccCCCCcc
Q psy9877 268 VCYACLKFGHRVSRCRTKSRLKCEKCGSRHLT 299 (1447)
Q Consensus 268 lCf~Cl~~GH~~~~C~s~~~~~C~~C~~~Hht 299 (1447)
.||+|++.||++++|+.++...|..|++..|.
T Consensus 2 ~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~ 33 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQPRQEGCWNCGSKEHR 33 (39)
T ss_dssp BCTTTCCBSSCTTTCCSCCCSSCTTTCCSSSC
T ss_pred eeeccCCCCcccccCCCCCCCccccCCCCCCc
Confidence 59999999999999997532389999986543
No 33
>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=96.88 E-value=0.00082 Score=66.58 Aligned_cols=72 Identities=17% Similarity=0.244 Sum_probs=50.8
Q ss_pred EEEEecccc------cceeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhccc
Q psy9877 938 LHVFSDASK------LAYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDYKL 1011 (1447)
Q Consensus 938 L~vftDAS~------~g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l~~ 1011 (1447)
..+|||+|- .|||+|++ .+|..... .. +.. .-|-+|.||+|++.|++++.. .+
T Consensus 6 ~~iytDGac~GNPGp~G~ggV~~-----~~g~~~~~--~g-----~~~----~tTNN~aEl~A~i~aL~~l~~----~~- 64 (134)
T 4htu_A 6 ESLSVDVGSQGNPGIVEYKGVDT-----KTGEVLFE--RE-----PIP----IGTNNMGEFLAIVHGLRYLKE----RN- 64 (134)
T ss_dssp SSEEEEEEEETTTEEEEEEEEET-----TTCCEEEE--EE-----EEE----EECHHHHHHHHHHHHHHHHHH----TT-
T ss_pred eEEEEeeccCCCCCCeEEEEEEE-----ECCEEEEE--ec-----CCC----CCchHHHHHHHHHHHHHHHHh----CC-
Confidence 458999985 56877764 35543211 11 222 557899999999999987644 22
Q ss_pred cccceEEEechHHHHHHHhcC
Q psy9877 1012 QDVRTTFWTDATTVLAWIRRN 1032 (1447)
Q Consensus 1012 ~~~~~~~~tDs~~~l~~i~~~ 1032 (1447)
..+.|+|||+.++.|+++.
T Consensus 65 --~~v~i~tDSqyVi~wi~~~ 83 (134)
T 4htu_A 65 --SRKPIYSNSQTAIKWVKDK 83 (134)
T ss_dssp --CCCCEEESCHHHHHHHHHT
T ss_pred --CCEEEEcchHHHHHHHHcC
Confidence 2378999999999999975
No 34
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=96.86 E-value=0.00053 Score=60.65 Aligned_cols=58 Identities=24% Similarity=0.525 Sum_probs=32.0
Q ss_pred cccccccCCC-CCCHHHHHHHHHhccccccccccccccccccc---cccccccccCCC-CcccccCC
Q psy9877 243 QGHYSGDCQK-DMTLSQRQDIIRNKQVCYACLKFGHRVSRCRT---KSRLKCEKCGSR-HLTILCPR 304 (1447)
Q Consensus 243 ~~H~~~~C~~-~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s---~~~~~C~~C~~~-Hht~l~~~ 304 (1447)
.+|.+.+|+. .....++. -.....||+|++.||++++|+. .. .|..|++. |...-|+.
T Consensus 2 ~gh~~rdc~~~~~~~~~~~--~~r~~~C~~Cg~~GH~a~~C~~~~~~~--~C~~Cg~~GH~ar~Cp~ 64 (74)
T 2li8_A 2 SGLVPRGSHMPKGKSMQKR--RSKGDRCYNCGGLDHHAKECKLPPQPK--KCHFCQSISHMVASCPL 64 (74)
T ss_dssp ----------CCCCCCCSC--CSTTSCCTTTCCSSSCTTTCSSCCCCC--CCTTTCCTTSCGGGCTT
T ss_pred CccccCcCCCCCcCccccc--cCCCCcccccCCcCcCcccCCCCCCCC--ccCCcCCcCCccCcCcC
Confidence 3688999987 11111111 1234689999999999999995 45 89999986 54456754
No 35
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=96.84 E-value=0.00066 Score=67.12 Aligned_cols=55 Identities=36% Similarity=0.835 Sum_probs=32.0
Q ss_pred ccccccc-c-ccccccCCCCCCHHHHHHHHHhccccccccccccccccccccc-cccccccCCC-CcccccC
Q psy9877 236 ESCIFCS-Q-GHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRTKS-RLKCEKCGSR-HLTILCP 303 (1447)
Q Consensus 236 ~~C~~C~-~-~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s~~-~~~C~~C~~~-Hht~l~~ 303 (1447)
..|..|+ . +|...+||. ...||+|++.||.+++|+... ...|..|++. |...-|+
T Consensus 23 ~~C~~Cg~~~gH~~~~C~~-------------~~~C~~Cg~~GH~~~~C~~~~~~~~C~~Cg~~GH~~~~Cp 81 (124)
T 2lli_A 23 IICSYCGATDDHYSRHCPK-------------AIQCSKCDEVGHYRSQCPHKWKKVQCTLCKSKKHSKERCP 81 (124)
T ss_dssp CCCTTTCCTTTCCTTTGGG-------------SSCSSSSSCSSSSTTTSCCCCCCCSSSSSCSSCCCTTTCC
T ss_pred CcCcCCCCcCCccCcccCC-------------cccccccCCCCCccccCcCcccCccCCCCCcCCcchhhCC
Confidence 3566666 3 566666663 246777777777777776541 0166777664 3334444
No 36
>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=96.81 E-value=0.0005 Score=55.79 Aligned_cols=40 Identities=38% Similarity=0.841 Sum_probs=30.8
Q ss_pred hccccccccccccccccccccccccccccCCC-CcccccCC
Q psy9877 265 NKQVCYACLKFGHRVSRCRTKSRLKCEKCGSR-HLTILCPR 304 (1447)
Q Consensus 265 ~~~lCf~Cl~~GH~~~~C~s~~~~~C~~C~~~-Hht~l~~~ 304 (1447)
+...||+|++.||++++|+......|..|++. |...-|+.
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 35689999999999999997532379999986 44455643
No 37
>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=96.69 E-value=0.0015 Score=65.95 Aligned_cols=73 Identities=16% Similarity=0.230 Sum_probs=52.7
Q ss_pred eEEEEecccc------cceeeEEEEEEEecCCceEEEEEeeecccccCCCCCCcccchhHhHHHHHHHHHHHHHHHHhcc
Q psy9877 937 SLHVFSDASK------LAYAAAVFLRVEHSKTKVSLHLLAARARVAPSSKSKSTLTIPRLELLAASIATRLCQTVVKDYK 1010 (1447)
Q Consensus 937 ~L~vftDAS~------~g~gavly~r~~~~~g~~~~~~~~sksr~~p~k~~~~~~siprlEL~A~~~a~~~~~~l~~~l~ 1010 (1447)
.+.+|+|+|- .|||+++. .+|.... .+ .+.. ..|-++.||+|++.|++++... +
T Consensus 11 ~~~iy~DGa~~gNpG~~G~G~vl~-----~~g~~~~---~~----~~~~----~~TNN~aEl~A~i~aL~~~~~~----~ 70 (142)
T 1zbf_A 11 WESLSVDVGSQGNPGIVEYKGVDT-----KTGEVLF---ER----EPIP----IGTNNMGEFLAIVHGLRYLKER----N 70 (142)
T ss_dssp SSSEEEEEEECSSSEEEEEEEEET-----TTCCEEE---EC----CCEE----EECHHHHHHHHHHHHHHHHHHT----T
T ss_pred eEEEEEeeccCCCCCCeEEEEEEE-----eCCEEEE---Ee----cccC----CcCcHHHHHHHHHHHHHHHHhC----C
Confidence 4668999975 36777774 3554321 11 1232 4578999999999999876542 2
Q ss_pred ccccceEEEechHHHHHHHhcC
Q psy9877 1011 LQDVRTTFWTDATTVLAWIRRN 1032 (1447)
Q Consensus 1011 ~~~~~~~~~tDs~~~l~~i~~~ 1032 (1447)
. ++.|+|||+.++.|+++.
T Consensus 71 --~-~v~i~tDS~~vi~w~~~~ 89 (142)
T 1zbf_A 71 --S-RKPIYSNSQTAIKWVKDK 89 (142)
T ss_dssp --C-CCCEEESCHHHHHHHHHT
T ss_pred --C-eEEEEEehHHHHHHHHcC
Confidence 2 789999999999999987
No 38
>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=96.64 E-value=0.00058 Score=47.36 Aligned_cols=21 Identities=33% Similarity=0.822 Sum_probs=18.1
Q ss_pred ccccccccccccccccccccc
Q psy9877 266 KQVCYACLKFGHRVSRCRTKS 286 (1447)
Q Consensus 266 ~~lCf~Cl~~GH~~~~C~s~~ 286 (1447)
...||+|++.||++++|+.+.
T Consensus 2 ~~~Cf~CG~~GH~ardC~~~~ 22 (26)
T 1dsq_A 2 GPVCFSCGKTGHIKRDCKEEX 22 (26)
T ss_dssp CCBCTTTCCBSSCTTTTTCC-
T ss_pred CCeeEeCCCCCcccccCCCcc
Confidence 467999999999999999864
No 39
>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=96.64 E-value=0.0011 Score=55.30 Aligned_cols=40 Identities=33% Similarity=0.711 Sum_probs=31.2
Q ss_pred hccccccccccccccccccccccccccccCCC-CcccccCC
Q psy9877 265 NKQVCYACLKFGHRVSRCRTKSRLKCEKCGSR-HLTILCPR 304 (1447)
Q Consensus 265 ~~~lCf~Cl~~GH~~~~C~s~~~~~C~~C~~~-Hht~l~~~ 304 (1447)
+...||+|++.||++++|+......|..|++. |...-|+.
T Consensus 11 ~~~~C~~Cg~~GH~a~~C~~~~~~~C~~Cg~~GH~~~~C~~ 51 (55)
T 1a1t_A 11 KTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEGHQMKDCTE 51 (55)
T ss_dssp GTCBCTTTCCBSSCGGGCSSCSCCBCTTTCCBSSCGGGCSS
T ss_pred CCcceeeeCCCCcChhhcCCCCCCEeCCCCCcCCccCCCcC
Confidence 45789999999999999997632389999985 55555653
No 40
>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=96.54 E-value=0.0011 Score=67.38 Aligned_cols=42 Identities=26% Similarity=0.651 Sum_probs=33.9
Q ss_pred Cccccccc-cccccccCCCCCCHHHHHHHHHhccccccccccccccccccccc
Q psy9877 235 GESCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRTKS 286 (1447)
Q Consensus 235 ~~~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s~~ 286 (1447)
...|+.|+ .+|.+.+|+... ..+.||+|++.||++++||.+.
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~----------~~~~C~~Cg~~GH~~r~Cp~~~ 139 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPP----------QPKKCHFCQSINHMVASCPLKA 139 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCC----------CCCCCTTTCCSSCCGGGCTTTT
T ss_pred CCcccEeCCccchhhhCCCCC----------CCCcccccCCcCCEeccCcCCC
Confidence 35699999 789999998611 1568999999999999998764
No 41
>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=96.48 E-value=0.00074 Score=48.17 Aligned_cols=22 Identities=32% Similarity=0.708 Sum_probs=19.0
Q ss_pred hccccccccccccccccccccc
Q psy9877 265 NKQVCYACLKFGHRVSRCRTKS 286 (1447)
Q Consensus 265 ~~~lCf~Cl~~GH~~~~C~s~~ 286 (1447)
+...||||++.||++++|+.++
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 3467999999999999998765
No 42
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=96.46 E-value=0.0018 Score=63.98 Aligned_cols=53 Identities=30% Similarity=0.710 Sum_probs=43.7
Q ss_pred ccccccc-cccccccCCCCCCHHHHHHHHHhcccccccccc-ccccccccccccccccccCCCCc-ccccCC
Q psy9877 236 ESCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKF-GHRVSRCRTKSRLKCEKCGSRHL-TILCPR 304 (1447)
Q Consensus 236 ~~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~-GH~~~~C~s~~~~~C~~C~~~Hh-t~l~~~ 304 (1447)
..|..|+ .+|.+.+||. ..||+|++. ||++++|+... .|..|++..| ..-|+.
T Consensus 5 ~~C~~C~~~GH~~~~Cp~--------------~~C~~Cg~~~gH~~~~C~~~~--~C~~Cg~~GH~~~~C~~ 60 (124)
T 2lli_A 5 PKCNNCSQRGHLKKDCPH--------------IICSYCGATDDHYSRHCPKAI--QCSKCDEVGHYRSQCPH 60 (124)
T ss_dssp SCCSSCSSSSCCTTTTTS--------------CCCTTTCCTTTCCTTTGGGSS--CSSSSSCSSSSTTTSCC
T ss_pred CcccCCCCCCcCcccCcC--------------CcCcCCCCcCCccCcccCCcc--cccccCCCCCccccCcC
Confidence 5699999 7899999985 389999998 99999999987 8999998644 444543
No 43
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=96.28 E-value=0.0015 Score=55.64 Aligned_cols=40 Identities=28% Similarity=0.747 Sum_probs=31.0
Q ss_pred hcccccccccccccccccccccc-----ccccccCCC-CcccccCC
Q psy9877 265 NKQVCYACLKFGHRVSRCRTKSR-----LKCEKCGSR-HLTILCPR 304 (1447)
Q Consensus 265 ~~~lCf~Cl~~GH~~~~C~s~~~-----~~C~~C~~~-Hht~l~~~ 304 (1447)
....||+|++.||++++|+.... ..|..|++. |...-|+.
T Consensus 3 ~~~~C~~Cg~~GH~a~~C~~~~~~~~~~~~C~~Cg~~GH~ar~C~~ 48 (61)
T 2ihx_A 3 ARGLCYTCGSPGHYQAQCPKKRKSGNSRERCQLCNGMGHNAKQCRK 48 (61)
T ss_dssp CTTBCSSSCCBTCCGGGCTTTTSSSCCCSBCTTTCCBSSCGGGCCC
T ss_pred CCCcccccCCCCeehhhCcCCcCCCCCCCeeCCCCCCCCCcCCCcC
Confidence 35689999999999999998531 269999996 54556765
No 44
>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=96.10 E-value=0.0026 Score=54.55 Aligned_cols=37 Identities=32% Similarity=0.805 Sum_probs=29.9
Q ss_pred ccccccccccccccccccc---cccccccccCCC-CcccccCC
Q psy9877 266 KQVCYACLKFGHRVSRCRT---KSRLKCEKCGSR-HLTILCPR 304 (1447)
Q Consensus 266 ~~lCf~Cl~~GH~~~~C~s---~~~~~C~~C~~~-Hht~l~~~ 304 (1447)
...||+|++.||++++|+. .. .|..|++. |...-|+.
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~~~~~~--~C~~Cg~~GH~ar~Cp~ 47 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKLPPQPK--KCHFCQSISHMVASCPL 47 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCSCCCSS--CCTTTCCSSSCTTTCTG
T ss_pred CCcccccCCCCcChhhCCCCCCCC--ccCCcCCcCCccCcCCC
Confidence 4679999999999999995 45 89999986 54555654
No 45
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=95.98 E-value=0.0022 Score=57.95 Aligned_cols=41 Identities=17% Similarity=0.196 Sum_probs=25.7
Q ss_pred ccccccc-cccccccCCCCCCHHHHHHHHHhccccccccccccccccccccc
Q psy9877 236 ESCIFCS-QGHYSGDCQKDMTLSQRQDIIRNKQVCYACLKFGHRVSRCRTKS 286 (1447)
Q Consensus 236 ~~C~~C~-~~H~~~~C~~~~~~~eR~~~~k~~~lCf~Cl~~GH~~~~C~s~~ 286 (1447)
..|+.|+ .+|...+|+. ......||||++.||++++|+.++
T Consensus 25 ~rcY~c~~~gh~~~~c~~----------p~~~~~CYnCG~~GH~~rdC~~~r 66 (83)
T 3nyb_B 25 WRAYILVDDNEKAKPKVL----------PFHTIYCYNCGGKGHFGDDCKEKR 66 (83)
T ss_dssp TCCCCBC-----------------------CCCBCSSSSCBSSCGGGCSSCC
T ss_pred ccccccccCCcccccccC----------CCCCCeecccCCCCcCcccCCccc
Confidence 4699999 7799889974 124678999999999999999875
No 46
>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=95.97 E-value=0.002 Score=54.77 Aligned_cols=38 Identities=26% Similarity=0.626 Sum_probs=12.4
Q ss_pred cccccccccccccccccccc--------cccccccCCC-CcccccCC
Q psy9877 267 QVCYACLKFGHRVSRCRTKS--------RLKCEKCGSR-HLTILCPR 304 (1447)
Q Consensus 267 ~lCf~Cl~~GH~~~~C~s~~--------~~~C~~C~~~-Hht~l~~~ 304 (1447)
+.||+|++.||++++|+... ...|..|++. |...-|..
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 46999999999999998752 1379999986 55566765
No 47
>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=95.92 E-value=0.0024 Score=48.87 Aligned_cols=21 Identities=29% Similarity=0.662 Sum_probs=18.7
Q ss_pred ccccccccccccccccccccc
Q psy9877 266 KQVCYACLKFGHRVSRCRTKS 286 (1447)
Q Consensus 266 ~~lCf~Cl~~GH~~~~C~s~~ 286 (1447)
...||+|++.||++++||.+.
T Consensus 10 ~~~C~~Cgk~GH~ardCP~~~ 30 (40)
T 1a6b_B 10 RDQCAYCKEKGHWAKDCPKKP 30 (40)
T ss_dssp SSSCSSSCCTTCCTTSCSSSC
T ss_pred CCeeeECCCCCcchhhCcCCc
Confidence 467999999999999999875
No 48
>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=95.56 E-value=0.0053 Score=62.29 Aligned_cols=37 Identities=32% Similarity=0.805 Sum_probs=30.9
Q ss_pred ccccccccccccccccccc---cccccccccCCC-CcccccCC
Q psy9877 266 KQVCYACLKFGHRVSRCRT---KSRLKCEKCGSR-HLTILCPR 304 (1447)
Q Consensus 266 ~~lCf~Cl~~GH~~~~C~s---~~~~~C~~C~~~-Hht~l~~~ 304 (1447)
...||||++.||++++|+. .. .|..|++. |...-|+.
T Consensus 97 ~~~C~~Cg~~GH~a~~C~~~~~~~--~C~~Cg~~GH~~r~Cp~ 137 (148)
T 3ts2_A 97 GDRCYNCGGLDHHAKECKLPPQPK--KCHFCQSINHMVASCPL 137 (148)
T ss_dssp SCCCTTTCCSSCCGGGCCSCCCCC--CCTTTCCSSCCGGGCTT
T ss_pred CCcccEeCCccchhhhCCCCCCCC--cccccCCcCCEeccCcC
Confidence 4579999999999999987 45 89999985 55567875
No 49
>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=95.41 E-value=0.0079 Score=49.76 Aligned_cols=21 Identities=29% Similarity=0.662 Sum_probs=17.1
Q ss_pred ccccccccccccccccccccc
Q psy9877 266 KQVCYACLKFGHRVSRCRTKS 286 (1447)
Q Consensus 266 ~~lCf~Cl~~GH~~~~C~s~~ 286 (1447)
...||+|++.||++++||.+.
T Consensus 23 ~~~C~~Cge~GH~ardCp~~~ 43 (56)
T 1u6p_A 23 RDQCAYCKEKGHWAKDCPKKP 43 (56)
T ss_dssp TTBCSSSCCBSSCGGGCTTCC
T ss_pred CCcceeCCCCCcccccCcCCc
Confidence 456888888899999998875
No 50
>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=95.36 E-value=0.03 Score=52.11 Aligned_cols=57 Identities=19% Similarity=0.288 Sum_probs=38.1
Q ss_pred eEEEEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCCCeeEEEEEeeeCccccccceeEEEEEE
Q psy9877 327 TLVVKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPITKQSMRHALFGGSITDAMDHNLFKIVI 396 (1447)
Q Consensus 327 tv~v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~~~~~l~i~~~gg~~~~~~~~~~v~l~I 396 (1447)
.+.+.+ +|.. +.||||||||.|+|+ ..++++ .-.+-.+.|+||...... ...+.+++
T Consensus 10 ~vti~I---~Gq~---~e~LLDTGAD~TVl~-----~~~~Pg-~w~pk~igGiGG~i~v~q-y~~i~iei 66 (99)
T 3ec0_A 10 VVTAYI---EGQP---VEVLLDTGADDSIVA-----GIELGN-NYSPKIVGGIGGFINTKE-YKNVEIEV 66 (99)
T ss_dssp EEEEEE---TTEE---EEEEECTTCSSCEES-----SCCCCS-CCEEEEEEETTEEEEEEE-EEEEEEEE
T ss_pred eEEEEE---CCEE---EEEEEecCCCceEEc-----CcccCC-CCCceEEEecCCcEeeeE-EeeEEEEE
Confidence 444555 5655 999999999999995 466777 444447888887654433 22455555
No 51
>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=94.59 E-value=0.02 Score=56.42 Aligned_cols=47 Identities=19% Similarity=0.290 Sum_probs=35.3
Q ss_pred eeEEEEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCCCeeEEEEEeeeCccc
Q psy9877 326 QTLVVKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPITKQSMRHALFGGSIT 384 (1447)
Q Consensus 326 ~tv~v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~~~~~l~i~~~gg~~~ 384 (1447)
+++.+.+ +|.. +.+||||||+.++|++..+. . ...+..+.|+||...
T Consensus 23 P~v~i~I---~G~~---~~~LlDTGAd~tVl~~~~~p-----~-~~~p~~I~GiGG~i~ 69 (132)
T 3slz_A 23 PRITLKV---GGQP---VTFLVDTGAQHSVLTQNPGP-----L-SDKSAWVQGATGGKR 69 (132)
T ss_dssp SEEEEEE---TTEE---EEEEECTTCSSCEECSCCCS-----E-EEEEEEEECSSCEEE
T ss_pred CEEEEEE---CCEE---EEEEEeCCCCeEEEccccCC-----C-CCCceEEEccCCEEE
Confidence 4555666 5655 99999999999999976543 3 556678999998754
No 52
>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=94.58 E-value=0.087 Score=49.15 Aligned_cols=70 Identities=20% Similarity=0.205 Sum_probs=43.9
Q ss_pred eEEEEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCCCeeEEEEEeeeCccccccceeEEEEEEEecCCCceEE
Q psy9877 327 TLVVKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPITKQSMRHALFGGSITDAMDHNLFKIVISNLDNTFACD 406 (1447)
Q Consensus 327 tv~v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~~~~~l~i~~~gg~~~~~~~~~~v~l~I~~~~~~~~~~ 406 (1447)
.+.+.+ +|.. +.|||||||+.|+|++ .++++ .-.+-.+.|+||...... +..+.+++. .....
T Consensus 10 ~vtvkI---~Gq~---~eaLLDTGAD~TVl~~-----~~~p~-~wkpk~igGiGG~i~v~q-y~qi~iei~----g~~~~ 72 (99)
T 2hs1_A 10 LVTIKI---GGQL---KEALLDTGADDTIIEE-----MSLPG-RWKPKMIGGIGGFIKVRQ-YDQIIIEIA----GHKAI 72 (99)
T ss_dssp EEEEEE---TTEE---EEEEECTTCSSEEESC-----CSSCC-CCEEEEEEETTEEEEEEE-EEEEEEEET----TEEEE
T ss_pred EEEEEE---CCEE---EEEEeccCCCcEEEec-----ccCCC-CCCCcEEEeCCCcEeeeE-eccEEEEEe----CCEEE
Confidence 444555 4554 9999999999999985 46776 555668888887643332 324555553 23344
Q ss_pred EEEeeec
Q psy9877 407 FDVFGQS 413 (1447)
Q Consensus 407 v~~lvvp 413 (1447)
-.+++-|
T Consensus 73 gtvlV~~ 79 (99)
T 2hs1_A 73 GTVLVGP 79 (99)
T ss_dssp EEEEESC
T ss_pred EEEEeCC
Confidence 4455533
No 53
>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=94.30 E-value=0.068 Score=51.38 Aligned_cols=75 Identities=13% Similarity=0.123 Sum_probs=44.3
Q ss_pred EEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCCCeeEEEEEeeeCccccccceeEEEEEEEecCCC-ceEEEE
Q psy9877 330 VKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPITKQSMRHALFGGSITDAMDHNLFKIVISNLDNT-FACDFD 408 (1447)
Q Consensus 330 v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~~~~~l~i~~~gg~~~~~~~~~~v~l~I~~~~~~-~~~~v~ 408 (1447)
+.+ +|.. +.|||||||+.|+|++.-+..+ ++.-+..+.+.|+||...... ...+.+++...... ....-.
T Consensus 18 ikI---~Gq~---~eaLLDTGAD~TVi~~~~~~~~--p~~wkpk~~igGiGG~i~v~q-y~qv~iei~g~~~~~~~~~gt 88 (116)
T 2hah_A 18 IFV---NGYP---IKFLLDTGADITVLNRRDFQVK--NSIENGRQMIGGIGGFIRGTN-YINVHLEIRDENYKTQCIFGN 88 (116)
T ss_dssp EEE---TTEE---EEEEECTTCSSCEEEGGGCCCT--TCEEEEEEEEEETTEEEEEEE-EEEEEEEECCTTSCCEEEEEE
T ss_pred EEE---CCEE---EEEEecCCCCcEEEcccccccC--CCCCCCceEEecCCCceeeeE-EccEEEEEeCCCCCcceeEEE
Confidence 555 4554 9999999999999997444221 442234455889988644433 22556666543211 114445
Q ss_pred Eeeec
Q psy9877 409 VFGQS 413 (1447)
Q Consensus 409 ~lvvp 413 (1447)
+++.|
T Consensus 89 vlV~p 93 (116)
T 2hah_A 89 VCVLE 93 (116)
T ss_dssp EEEET
T ss_pred EEECC
Confidence 56666
No 54
>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=93.80 E-value=0.11 Score=54.80 Aligned_cols=58 Identities=16% Similarity=0.196 Sum_probs=41.1
Q ss_pred eeEEEEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCCCeeEEEEEeeeCccccccceeEEEEEE
Q psy9877 326 QTLVVKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPITKQSMRHALFGGSITDAMDHNLFKIVI 396 (1447)
Q Consensus 326 ~tv~v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~~~~~l~i~~~gg~~~~~~~~~~v~l~I 396 (1447)
+++.+.+ +|+. ..||||||||.|+|. .++|++ .-.+..+.|+||........ .+.+++
T Consensus 9 P~vtv~I---~Gq~---~e~LLDTGAD~TVl~-----~~~lpg-~w~pk~igGIGG~i~vrqy~-~i~iei 66 (203)
T 3ka2_A 9 PLVTIRI---GGQL---KEALLDTGADDTVIE-----ELNLPG-XWKPKLIGGIAGFIKVRQYD-QIPVEI 66 (203)
T ss_dssp CEEEEEE---TTEE---EEEEECTTCSSCEEC-----SCCCSS-CEEEEEEEETTEEEEEEEEE-EEEEEE
T ss_pred CeEEEEE---CCEE---EEEEEecCCCceEEe-----cccCCC-CCCceEEEEccCcEEEEEEc-ceeEEE
Confidence 3455555 5554 999999999999998 488888 65566788998755443322 556665
No 55
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=93.32 E-value=0.025 Score=46.59 Aligned_cols=20 Identities=35% Similarity=0.798 Sum_probs=17.6
Q ss_pred cccccccccccccccccccc
Q psy9877 266 KQVCYACLKFGHRVSRCRTK 285 (1447)
Q Consensus 266 ~~lCf~Cl~~GH~~~~C~s~ 285 (1447)
...||+|+++||++++|+..
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 46799999999999999954
No 56
>2rsp_A RSV protease; hydrolase(aspartyl proteinase); 2.00A {Rous sarcoma virus} SCOP: b.50.1.1 PDB: 1mvp_A 1bai_A*
Probab=90.01 E-value=0.35 Score=46.92 Aligned_cols=52 Identities=15% Similarity=0.270 Sum_probs=27.1
Q ss_pred eEeEEEeCCCCcccccHHhHhhcCCCCCCeeEE-----EEEeeeCccccccceeEEEEEEEec
Q psy9877 342 LARLMIDTGSQQSYVLEQTMNSLSYTPITKQSM-----RHALFGGSITDAMDHNLFKIVISNL 399 (1447)
Q Consensus 342 ~v~aLLDSGS~~S~Ise~la~~L~L~~~~~~~l-----~i~~~gg~~~~~~~~~~v~l~I~~~ 399 (1447)
.+.|||||||+.|+|.+ ..+++ .-..+ .|.|+||..........+.+++.+.
T Consensus 31 ~~eaLLDTGAD~TVl~~-----~~lP~-~W~k~~~~~~~igGIGG~i~v~qy~~~i~iei~g~ 87 (124)
T 2rsp_A 31 YITALLDSGADITIISE-----EDWPT-DWPVMEAANPQIHGIGGGIPMRKSRDMIELGVINR 87 (124)
T ss_dssp EEEEEECTTCSSCEEET-----TTSCT-TSCEEECC---------CCCEEEESSCEEEEEECT
T ss_pred EEEEEecCCCCcEEEec-----ccCCC-cceeeccccceeeecCceEeeEEeCCceEEEEeCC
Confidence 47999999999999985 44444 32223 5899988644333211455556543
No 57
>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=85.32 E-value=0.98 Score=42.71 Aligned_cols=51 Identities=10% Similarity=0.145 Sum_probs=31.4
Q ss_pred eEEEEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCCCeeE---EEEEeeeCccc
Q psy9877 327 TLVVKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPITKQS---MRHALFGGSIT 384 (1447)
Q Consensus 327 tv~v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~~~~~---l~i~~~gg~~~ 384 (1447)
.+.+.+...+..- ..+.|||||||+.|+|.+ .++++ .-.. -.+.|+||...
T Consensus 12 lvtikI~~~~~~G-q~~eaLLDTGADdTVl~~-----~~lPg-~Wkp~~tkiiGGiGg~~~ 65 (116)
T 3liy_A 12 VIKAQVDTQTSHP-KTIEALLDTGADMTVIPI-----ALFSS-NTPLKNTSVLGAGGQTQD 65 (116)
T ss_dssp EEEEEEECSSSCC-EEEEEEECTTBSSCEEEG-----GGSCT-TCCEEECCEEETTEEESS
T ss_pred eEEEEEccccCCC-eEeEEEeccCCCccEEec-----ccCCC-CCcccccceEeeccccee
Confidence 4455554333222 349999999999999974 45565 3333 35666666543
No 58
>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=85.01 E-value=1.8 Score=45.62 Aligned_cols=57 Identities=18% Similarity=0.236 Sum_probs=38.9
Q ss_pred eEEEEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCCCeeEEEEEeeeCccccccceeEEEEEE
Q psy9877 327 TLVVKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPITKQSMRHALFGGSITDAMDHNLFKIVI 396 (1447)
Q Consensus 327 tv~v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~~~~~l~i~~~gg~~~~~~~~~~v~l~I 396 (1447)
.+.+.+ +|.. +.+|||||||.|+|+ ..++++ .-.+-.+.|+||........ .+.+++
T Consensus 114 ~~~iki---~Gq~---~e~LlDTGAD~TVl~-----~~~lpg-~w~pk~igGiGg~i~v~qy~-~i~iei 170 (203)
T 3ka2_A 114 LVTIRI---GGQL---KEALLDTGADDTVIE-----ELNLPG-XWKPKLIGGIGGFIKVRQYD-QIPVEI 170 (203)
T ss_dssp EEEEEE---TTEE---EEEEECTTCSSCEEC-----SCCCCS-CCEEEEEEETTEEEEEEEEE-EEEEEE
T ss_pred cEEEEE---CCEE---EeeeecccCCceeee-----cccCCC-CCCceEEeeccceEEEEEec-cEEEEE
Confidence 344544 4544 999999999999995 577887 55555788998854443322 455555
No 59
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A {Tribolium castaneum} PDB: 3du5_A 3du6_A
Probab=84.06 E-value=0.9 Score=53.94 Aligned_cols=97 Identities=9% Similarity=0.042 Sum_probs=68.2
Q ss_pred EeeecCccCChHHHHHHHHHHHHHhhcccCCCCCCCchhHHHhhhccccccccccccCcHHHHHHHHHHHHHHHHhcCCc
Q psy9877 731 CRVVFGVSSSPFLLESCLKLHLELTLTDCREGKSSWPIHLVELLKDSFYVDNCLVSTDSQAEAEQFIQVASSIMKEKGFD 810 (1447)
Q Consensus 731 ~~~pfGl~~sP~~~~~~l~~~l~~~~~~~~~~~~~~p~~~~~~~~~~~YvDDil~~~~s~~e~~~~~~~~~~~l~~~g~~ 810 (1447)
.-+|.|...||-+++-.|..+-........ ......-|+||+++.+.+.++|.+.++.+... + .
T Consensus 304 kGTPQGGVISPLLANIYLheLDkel~~~l~-----------kd~~LVRYADDFVIi~~Ske~Aerfl~~Lkg~----l-e 367 (596)
T 3kyl_A 304 HGLLQGDPLSGCLCELYMAFMDRLYFSNLD-----------KDAFIHRTVDDYFFCSPHPHKVYDFELLIKGV----Y-Q 367 (596)
T ss_dssp SSSCBTCTTHHHHHHHHHHHHHHHHSTTSC-----------TTSEEEECSSEEEEEESCHHHHHHHHHHHHHH----S-C
T ss_pred CcccCCcchhHHHHHHHHHHHHHHHHHhhc-----------cCceEEEEcCcEEEEECCHHHHHHHHHHhhCc----c-e
Confidence 568999999999999999998665422211 11234579999999999999999888854433 3 4
Q ss_pred cccccc--c-CC--CCCCCcceeceeeecCCCeEEEee
Q psy9877 811 LRGWEL--T-GD--KDDKPTNVLGLLWDKSSDTLAINI 843 (1447)
Q Consensus 811 l~k~~s--n-p~--~~~~~~k~LG~~w~~~~d~~~~~~ 843 (1447)
++.-++ | |. .......|+|+.+|..+-.+..+.
T Consensus 368 LNpEKTrInF~~~~lp~~~fpwCGLLIDtkTLEI~kDy 405 (596)
T 3kyl_A 368 VNPTKTRTNLPTHRHPQDEIPYCGKIFNLTTRQVRTLY 405 (596)
T ss_dssp EEEEEEEECCTTSSSCCSEEEETTEEEETTTCCEEECC
T ss_pred ECchhceeecccccCCCceeeeeeEEEECCEEEEEeCh
Confidence 443322 2 21 233679999999999887777655
No 60
>3sqf_A Protease; folded monomer, retropepsin, D-type retrovirus; 1.63A {Mason-pfizer monkey virus} SCOP: b.50.1.1 PDB: 1nso_A
Probab=82.53 E-value=0.43 Score=45.48 Aligned_cols=50 Identities=18% Similarity=0.174 Sum_probs=33.0
Q ss_pred eeEEEEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCCCeeE----EEEEeeeCcccccc
Q psy9877 326 QTLVVKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPITKQS----MRHALFGGSITDAM 387 (1447)
Q Consensus 326 ~tv~v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~~~~~----l~i~~~gg~~~~~~ 387 (1447)
+.+.+.+ +|.. +.|||||||+.|+|.+ .++++ .-.+ -.+.|+||......
T Consensus 10 P~vti~I---~Gq~---~eaLLDTGADdTVi~~-----~~lpg-~W~p~~~~k~igGIGG~i~v~q 63 (114)
T 3sqf_A 10 PSLTLWL---DDKM---FTGLINTGADVTIIKL-----EDWPP-NWPITDTLTNLRGIGQSNNPKQ 63 (114)
T ss_dssp CEEEEEE---TTEE---EEEEECTTCSSCEEEG-----GGSCT-TSCEEECCCCCTTCCGGGCCEE
T ss_pred CeEEEEE---CCEE---EEEEEccCCCceEEec-----ccCCC-CcccCcCceEEEeccceEEEEE
Confidence 3444555 5554 9999999999999985 44555 2222 56778887654433
No 61
>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=80.65 E-value=0.54 Score=55.79 Aligned_cols=58 Identities=22% Similarity=0.368 Sum_probs=45.0
Q ss_pred ceecCCCcEEeccccccCCCCCCCCCCcccCCCcccchhhhhhhcccCCCchhHHHHHHHheEeecCCC
Q psy9877 1224 TFLDEDGLIRVKTKISNRQDLEDSCCPVVLPRHPVVLKLVMFHHLNNCHAGTQILMSILRQKYWILGET 1292 (1447)
Q Consensus 1224 p~~d~~Gllr~~gRl~~~~l~~~~k~Piilp~~~l~~lii~~~H~~~~H~g~~~t~~~iR~~yWi~~~r 1292 (1447)
.|..++|+|.+.+.- ...++|+..+...|+..+|. .+|.|...|...|+++|||++++
T Consensus 32 ~y~~~~g~ly~~~~~----------g~~~~~~~~~~~~il~~~H~-~gH~g~~~~~~~l~~~~~~~~~~ 89 (395)
T 3oym_A 32 TYFLEDGKVKVSRPE----------GVKIIPPQSDRQKIVLQAHN-LAHTGREATLLKIANLYWWPNMR 89 (395)
T ss_dssp CEEEETTEEEEEETT----------EEEECCCHHHHHHHHHHHHH-TTTCCHHHHHHHHHTTBCCTTHH
T ss_pred cEEEECCEEEEEcCC----------CcEEECCHHHHHHHHHHHHh-cCCCCHHHHHHHHhCCeECCCHH
Confidence 355568998875311 12356665568899999999 89999999999999999999765
No 62
>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=78.43 E-value=0.92 Score=34.72 Aligned_cols=19 Identities=37% Similarity=1.177 Sum_probs=16.8
Q ss_pred CCccccccc-cccccccCCC
Q psy9877 234 KGESCIFCS-QGHYSGDCQK 252 (1447)
Q Consensus 234 ~~~~C~~C~-~~H~~~~C~~ 252 (1447)
....|++|+ .+|++.+||+
T Consensus 9 ~~~~C~~Cgk~GH~ardCP~ 28 (40)
T 1a6b_B 9 DRDQCAYCKEKGHWAKDCPK 28 (40)
T ss_dssp CSSSCSSSCCTTCCTTSCSS
T ss_pred CCCeeeECCCCCcchhhCcC
Confidence 356899999 7999999997
No 63
>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=70.45 E-value=1.8 Score=35.81 Aligned_cols=19 Identities=37% Similarity=1.177 Sum_probs=16.9
Q ss_pred CCccccccc-cccccccCCC
Q psy9877 234 KGESCIFCS-QGHYSGDCQK 252 (1447)
Q Consensus 234 ~~~~C~~C~-~~H~~~~C~~ 252 (1447)
....|++|+ .+|++.+||+
T Consensus 22 ~~~~C~~Cge~GH~ardCp~ 41 (56)
T 1u6p_A 22 DRDQCAYCKEKGHWAKDCPK 41 (56)
T ss_dssp CTTBCSSSCCBSSCGGGCTT
T ss_pred CCCcceeCCCCCcccccCcC
Confidence 457899999 7999999997
No 64
>2jys_A Protease/reverse transcriptase; retroviral protease, hydrolase; NMR {Simian foamy virus type 1}
Probab=60.96 E-value=26 Score=31.60 Aligned_cols=62 Identities=19% Similarity=0.259 Sum_probs=42.6
Q ss_pred EeeEEEEEecCCCCcceeEeEEEeCCCCcccccHHhHhhcCCCCCCeeEEEEEeeeCccccccceeEEEEEEEe
Q psy9877 325 LQTLVVKIRGKDGKQDKLARLMIDTGSQQSYVLEQTMNSLSYTPITKQSMRHALFGGSITDAMDHNLFKIVISN 398 (1447)
Q Consensus 325 l~tv~v~v~~~~g~~~~~v~aLLDSGS~~S~Ise~la~~L~L~~~~~~~l~i~~~gg~~~~~~~~~~v~l~I~~ 398 (1447)
++-.+|.+ .|+. +.+.-||||+++.|.+.+.+. .. .-....|.++.|....... .+.+.|.+
T Consensus 7 lqPL~vEi---Kg~k---Lkg~WDsGA~ITCiP~~fL~~---E~-PI~~~~I~TIHG~k~q~vY--Yl~fKv~G 68 (107)
T 2jys_A 7 LQPLEAEI---KGTK---LKAHWDSGATITCVPEAFLED---ER-PIQTMLIKTIHGEKQQDVY--YLTFKVQG 68 (107)
T ss_dssp -CCEEEEE---TTEE---EEEEECTTCSSEEEEGGGTTT---CC-CSEEEEEECSSCEEEEEEE--EEEEEESS
T ss_pred CCceeEEE---eCcE---EEEEecCCCeEEEcchHHhcc---cc-cccceEEEEecCceeceEE--EEEEEEcC
Confidence 44466666 3444 899999999999999988754 11 3456788999987655443 45666643
No 65
>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=59.88 E-value=4 Score=27.99 Aligned_cols=17 Identities=35% Similarity=0.980 Sum_probs=15.4
Q ss_pred ccccccc-cccccccCCC
Q psy9877 236 ESCIFCS-QGHYSGDCQK 252 (1447)
Q Consensus 236 ~~C~~C~-~~H~~~~C~~ 252 (1447)
..|+.|+ .+|++.+|+.
T Consensus 3 ~~Cf~CG~~GH~ardC~~ 20 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKE 20 (26)
T ss_dssp CBCTTTCCBSSCTTTTTC
T ss_pred CeeEeCCCCCcccccCCC
Confidence 5699999 8999999997
No 66
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=48.99 E-value=7.7 Score=31.89 Aligned_cols=19 Identities=37% Similarity=1.010 Sum_probs=16.4
Q ss_pred CCccccccc-cccccccCCC
Q psy9877 234 KGESCIFCS-QGHYSGDCQK 252 (1447)
Q Consensus 234 ~~~~C~~C~-~~H~~~~C~~ 252 (1447)
....|..|+ .+|++.+||.
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 456799999 8899999995
No 67
>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=46.99 E-value=9 Score=26.92 Aligned_cols=18 Identities=28% Similarity=0.709 Sum_probs=15.7
Q ss_pred Cccccccc-cccccccCCC
Q psy9877 235 GESCIFCS-QGHYSGDCQK 252 (1447)
Q Consensus 235 ~~~C~~C~-~~H~~~~C~~ 252 (1447)
...|+.|+ .+|.+.+|+.
T Consensus 6 ~~~C~nCgk~GH~ar~C~~ 24 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRA 24 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCS
T ss_pred CCEEEECCccccCHhHCcc
Confidence 35799999 8999999986
No 68
>2eqk_A Tudor domain-containing protein 4; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=35.51 E-value=18 Score=32.39 Aligned_cols=55 Identities=20% Similarity=0.254 Sum_probs=39.7
Q ss_pred cCccccCcEEEee--ccCCCCCCccccceeeeecCCCCCeEEEEEEeCCceeecccceeEeccc
Q psy9877 1339 EHIIKVGDVVLIG--DDNVKRLDWPMGRVINLCPGADGHVRVVKLRTSSGVLTRPIQRIYPLEF 1400 (1447)
Q Consensus 1339 ~~~~~~gd~Vlv~--~~~~~~~~W~lgri~~~~~~~Dg~vR~v~v~~~~~~~~r~i~~l~~l~~ 1400 (1447)
.-.+++|++|.++ ++| .|.-|+|.++. +||.+.|.-+--++ +.+=|+.+|-||+.
T Consensus 19 ~~~~k~g~~vaak~~d~n----~WyRakV~~v~--~~~~veVl~~DyGn-~~~V~~~~LR~L~~ 75 (85)
T 2eqk_A 19 PVKWENDMHCAVKIQDKN----QWRRGQIIRMV--TDTLVEVLLYDVGV-ELVVNVDCLRKLEE 75 (85)
T ss_dssp CCCCCSSCEEEEECSSSC----CEEEEEEEEEC--SSSEEEEECTTTCC-EEEEETTTEEECCH
T ss_pred ccCccCCCEEEEEeCCCC----eEEEEEEEEec--CCCeEEEEEEccCC-EEEEEccccccCCH
Confidence 5678999998877 444 99999999985 46765555444333 34445889999974
No 69
>3nnq_A Integrase P46, N-terminal domain of moloney murine leukemia VIRU integrase; retroviral integrase, Zn finger; 2.69A {Moloney murine leukemia virus}
Probab=32.59 E-value=19 Score=33.98 Aligned_cols=49 Identities=20% Similarity=0.369 Sum_probs=39.0
Q ss_pred CCCcEEeccccccCCCCCCCCCCcccCCCcccchhhhhhhcccCCCchhHHHHHHHhe---EeecCC
Q psy9877 1228 EDGLIRVKTKISNRQDLEDSCCPVVLPRHPVVLKLVMFHHLNNCHAGTQILMSILRQK---YWILGE 1291 (1447)
Q Consensus 1228 ~~Gllr~~gRl~~~~l~~~~k~Piilp~~~l~~lii~~~H~~~~H~g~~~t~~~iR~~---yWi~~~ 1291 (1447)
+++-|...||+ ++| ..++..+|+..|.-. |.|.+.|...|++. |||++.
T Consensus 33 ~~~~w~~~Gk~-------------vlP-~~~~~eli~~lH~lT-HLg~~kl~~Ll~r~e~~~~i~~~ 84 (114)
T 3nnq_A 33 TKKYWVYQGKP-------------VMP-DQFTFELLDFLHQLT-HLSFSKMKALLERSHSPYYMLNR 84 (114)
T ss_dssp TTTEEEETTEE-------------EEC-HHHHHHHHHHHHHHH-CCCHHHHHHHHHHHCCSSEETTH
T ss_pred CCceeccCCCC-------------cCC-HHHHHHHHHHHHHHh-ccCHHHHHHHHHhhccceeeeCH
Confidence 34677778887 444 567889999999965 99999999999885 999854
No 70
>3alr_A Nanos protein; zinc-finger, translational repression, RNA, 3'-UTR, metal BI protein; 2.10A {Danio rerio}
Probab=27.41 E-value=20 Score=32.93 Aligned_cols=42 Identities=26% Similarity=0.614 Sum_probs=29.3
Q ss_pred CCccccccc--c-------cccccc------CCCCCCHHHHHHHHHhccccccccccc---cccccccccc
Q psy9877 234 KGESCIFCS--Q-------GHYSGD------CQKDMTLSQRQDIIRNKQVCYACLKFG---HRVSRCRTKS 286 (1447)
Q Consensus 234 ~~~~C~~C~--~-------~H~~~~------C~~~~~~~eR~~~~k~~~lCf~Cl~~G---H~~~~C~s~~ 286 (1447)
....|.||. + +|.+.+ ||. + +.-.|-.|+..| |..+-||...
T Consensus 35 ~~~~C~FCrnNGE~~~vy~SH~LKd~~G~V~CPv----------L-R~Y~CpiCGATGd~AHT~kYCP~~~ 94 (106)
T 3alr_A 35 ERKFCSFCKHNGETEAVYTSHYLKNRDGDVMCPY----------L-RQYKCPLCGATGAKAHTKRFCPMVD 94 (106)
T ss_dssp ---CCHHHHHTTCCHHHHTSBCSBCTTSCBCCTT----------G-GGCCCTTTCCCGGGCCCGGGCTTCG
T ss_pred CCCEeECCCCCCcccCccccceeECCCCCCcCCC----------c-ccccCCCCCCcCCcccceecCCCCC
Confidence 457799997 3 388887 885 2 236788888776 8888888653
No 71
>1w4s_A Polybromo, polybromo 1 protein; BAH, bromo-associated homology domain, chromatin remodelling, PBAF, SWI/SNF-B, RSC, nuclear protein; 1.55A {Gallus gallus}
Probab=24.96 E-value=48 Score=34.04 Aligned_cols=38 Identities=16% Similarity=0.201 Sum_probs=29.2
Q ss_pred cCccccCcEEEeeccCCCCCCccccceeeeecCCCCCeE
Q psy9877 1339 EHIIKVGDVVLIGDDNVKRLDWPMGRVINLCPGADGHVR 1377 (1447)
Q Consensus 1339 ~~~~~~gd~Vlv~~~~~~~~~W~lgri~~~~~~~Dg~vR 1377 (1447)
+..+++||-|+|..++.+-..| +|+|.++..+.||...
T Consensus 24 g~~~~vGD~V~v~~~~~~~~p~-I~rI~~i~~~~~g~~~ 61 (174)
T 1w4s_A 24 NSMYHVGDYVYVEPAEANLQPH-IVCIERLWEDSAGEKW 61 (174)
T ss_dssp --CCCTTCEEEECCSSTTSCCE-EEEEEEEEECTTCCEE
T ss_pred CEEEECCCEEEEeCCCCCCCCE-EEEEEEEEEcCCCCEE
Confidence 6689999999999876433344 9999999999999653
Done!