Query 040570
Match_columns 210
No_of_seqs 130 out of 765
Neff 9.2
Searched_HMMs 29240
Date Mon Mar 25 15:32:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040570.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/040570hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2xzm_O RPS13E; ribosome, trans 91.8 0.86 2.9E-05 32.3 7.4 35 29-63 26-61 (153)
2 3kks_A Integrase, IN; beta-str 89.2 1.7 5.7E-05 30.0 7.3 62 134-206 3-64 (152)
3 3u5c_N S27A, YS15, 40S ribosom 87.7 1.7 5.9E-05 30.7 6.3 35 29-63 24-59 (151)
4 3j20_Q 30S ribosomal protein S 84.4 2.4 8.4E-05 30.3 5.7 35 29-63 24-59 (158)
5 3l3u_A POL polyprotein; DNA in 82.7 4.9 0.00017 28.1 7.0 63 134-207 10-72 (163)
6 1je8_A Nitrate/nitrite respons 81.7 7.3 0.00025 24.2 7.4 60 14-81 3-62 (82)
7 3hph_A Integrase, IN; protein- 80.0 7.9 0.00027 28.6 7.7 62 134-206 61-122 (219)
8 1cxq_A Avian sarcoma virus int 77.8 13 0.00046 25.8 8.0 67 134-206 12-78 (162)
9 2xv9_A ABA-1A1 repeat UNIT; li 75.6 5.4 0.00019 27.8 5.0 47 15-63 5-51 (134)
10 1c0m_A Protein (integrase); HI 73.8 17 0.00058 27.3 8.1 67 134-206 11-77 (238)
11 3f9k_A Integrase; protein-prot 73.7 11 0.00037 27.7 6.8 64 134-208 60-123 (210)
12 2kw0_A CCMH protein; oxidoredu 73.2 3.9 0.00013 26.4 3.5 34 32-65 40-73 (90)
13 1tc3_C Protein (TC3 transposas 71.1 7 0.00024 20.8 4.1 42 31-79 4-45 (51)
14 1bco_A MUA domain II, bacterio 70.7 26 0.00089 27.8 8.8 71 133-207 16-94 (327)
15 2hl7_A Cytochrome C-type bioge 70.5 4.6 0.00016 25.7 3.4 34 32-65 43-76 (84)
16 2x78_A Integrase; viral protei 65.3 30 0.001 24.8 7.6 66 134-206 14-80 (200)
17 1c6v_A Protein (SIV integrase) 64.1 24 0.00083 24.1 6.7 64 134-208 10-73 (164)
18 3av9_A Integrase, IN; protein- 62.6 26 0.0009 24.9 6.8 62 134-206 30-91 (183)
19 1k6y_A Integrase; HIV-1, domai 60.0 40 0.0014 24.4 7.5 64 134-208 59-122 (212)
20 3deu_A Transcriptional regulat 53.3 29 0.001 24.3 5.6 77 44-131 46-124 (166)
21 1pdn_C Protein (PRD paired); p 53.3 34 0.0011 22.3 5.6 44 30-80 15-58 (128)
22 1ex4_A Integrase; SH3-like dom 52.0 36 0.0012 25.4 6.2 62 134-206 10-71 (239)
23 1u78_A TC3 transposase, transp 50.2 34 0.0011 22.9 5.3 43 31-80 5-47 (141)
24 1k78_A Paired box protein PAX5 50.0 39 0.0013 23.1 5.7 44 30-80 30-73 (149)
25 3beg_B Splicing factor, argini 49.4 20 0.00068 23.6 3.8 44 122-188 30-73 (115)
26 2j8a_A Histone-lysine N-methyl 44.4 51 0.0017 22.9 5.3 50 123-188 21-75 (136)
27 2elh_A CG11849-PA, LD40883P; s 44.4 54 0.0019 20.2 5.5 44 30-80 20-63 (87)
28 1jko_C HIN recombinase, DNA-in 44.1 19 0.00065 19.2 2.7 39 31-76 4-42 (52)
29 3s8s_A Histone-lysine N-methyl 44.0 63 0.0022 20.9 5.8 49 123-187 21-69 (110)
30 2k27_A Paired box protein PAX- 43.0 57 0.002 22.5 5.7 53 30-82 81-138 (159)
31 2glo_A Brinker CG9653-PA; prot 42.9 28 0.00097 19.8 3.4 47 30-79 3-49 (59)
32 2bnk_A Early protein GP16.7; D 42.1 50 0.0017 19.2 4.8 45 32-79 4-49 (67)
33 1mus_A TN5 transposase; hairpi 41.6 1.4E+02 0.0047 25.4 8.6 62 145-207 120-193 (477)
34 4fxv_A ELAV-like protein 1; RN 41.0 66 0.0023 20.3 6.1 48 123-186 34-81 (99)
35 2kvc_A Putative uncharacterize 37.8 62 0.0021 21.3 4.6 49 30-79 36-86 (103)
36 1k78_A Paired box protein PAX5 36.4 67 0.0023 21.8 5.1 50 30-79 88-142 (149)
37 1mzb_A Ferric uptake regulatio 36.3 98 0.0034 20.9 6.1 11 156-166 93-103 (136)
38 2lky_A Uncharacterized protein 35.9 62 0.0021 21.6 4.4 49 30-79 38-88 (112)
39 3hot_A Transposable element ma 35.5 79 0.0027 24.8 6.0 46 36-81 10-55 (345)
40 3hot_A Transposable element ma 35.5 1.3E+02 0.0046 23.4 7.4 59 145-206 185-253 (345)
41 1g2y_A Hepatocyte nuclear fact 35.0 20 0.0007 18.0 1.5 27 32-58 4-30 (32)
42 2rpr_A Flywch-type zinc finger 34.9 17 0.00059 22.8 1.6 10 12-21 65-74 (87)
43 1x4c_A Splicing factor, argini 34.6 31 0.0011 22.1 2.9 41 123-186 30-70 (108)
44 2guk_A Hypothetical protein PG 31.9 88 0.003 21.1 4.7 43 89-132 39-81 (120)
45 1wgn_A UBAP1, ubiquitin associ 30.4 51 0.0018 19.5 2.9 35 30-64 12-46 (63)
46 3ns6_A Eukaryotic translation 29.6 77 0.0026 19.9 4.2 48 124-187 28-75 (100)
47 4f25_A Polyadenylate-binding p 29.2 1E+02 0.0035 19.8 4.9 48 123-188 20-67 (115)
48 1iuf_A Centromere ABP1 protein 28.7 1.2E+02 0.0041 20.7 5.4 51 30-80 9-64 (144)
49 1p4w_A RCSB; solution structur 26.9 1.3E+02 0.0043 19.2 7.7 44 30-81 32-75 (99)
50 2jrs_A RNA-binding protein 39; 26.7 1.3E+02 0.0043 19.2 5.9 50 123-188 41-90 (108)
51 3oym_A PFV integrase, P42IN; p 26.6 2.4E+02 0.0083 22.4 8.6 67 134-206 126-192 (395)
52 1b0n_B Protein (SINI protein); 26.4 1E+02 0.0034 17.9 4.3 32 31-62 9-40 (57)
53 4ae4_A Ubiquitin-associated pr 25.9 1.1E+02 0.0037 20.5 4.5 32 32-63 3-34 (118)
54 2jn6_A Protein CGL2762, transp 25.6 1.2E+02 0.0042 18.7 5.0 44 31-81 4-49 (97)
55 3ulq_B Transcriptional regulat 25.6 1.3E+02 0.0043 18.8 7.3 44 30-81 27-70 (90)
56 2w57_A Ferric uptake regulatio 25.6 1.1E+02 0.0038 21.0 4.7 14 90-103 55-68 (150)
57 3p5t_L Cleavage and polyadenyl 25.2 1.2E+02 0.0041 18.4 4.6 25 164-188 43-67 (90)
58 3n9u_C Cleavage and polyadenyl 24.6 1.7E+02 0.0058 20.2 5.6 48 123-186 70-119 (156)
59 2jml_A DNA binding domain/tran 24.0 75 0.0026 19.3 3.2 35 29-63 41-79 (81)
60 2qkb_A Ribonuclease H1, HS-RNA 23.6 1.8E+02 0.0061 19.9 6.4 69 135-205 9-81 (154)
61 2krb_A Eukaryotic translation 23.4 94 0.0032 18.3 3.6 43 124-184 23-65 (81)
62 2dnz_A Probable RNA-binding pr 23.3 1E+02 0.0035 18.7 3.9 50 123-188 20-69 (95)
63 1p27_B RNA-binding protein 8A; 23.3 1.4E+02 0.0048 18.5 5.5 50 123-188 38-87 (106)
64 2k27_A Paired box protein PAX- 22.9 80 0.0027 21.7 3.6 43 30-79 23-65 (159)
65 2m0n_A Putative uncharacterize 22.7 1.8E+02 0.006 19.4 6.4 49 30-79 38-95 (112)
66 2div_A TRNA selenocysteine ass 22.6 1.4E+02 0.0048 18.3 4.5 49 123-187 24-73 (99)
67 1qbj_A Protein (double-strande 22.5 1.4E+02 0.0049 18.3 4.8 46 52-104 13-58 (81)
68 1z96_A DNA-damage, UBA-domain 22.5 89 0.003 15.9 3.8 28 37-64 4-31 (40)
69 3bs9_A Nucleolysin TIA-1 isofo 22.1 1.3E+02 0.0045 17.8 5.9 49 123-187 21-69 (87)
70 1rk8_A CG8781-PA, CG8781-PA pr 21.7 2E+02 0.0068 19.8 5.5 49 123-187 87-135 (165)
71 2cpz_A CUG triplet repeat RNA- 21.5 1.6E+02 0.0056 18.6 4.8 49 123-187 40-88 (115)
72 2nlw_A Eukaryotic translation 21.5 1.3E+02 0.0043 19.0 4.1 44 125-186 38-81 (105)
73 1u6f_A Tcubp1, RNA-binding pro 21.0 1.8E+02 0.0062 19.1 5.0 49 123-187 57-105 (139)
74 2fe3_A Peroxide operon regulat 20.8 2E+02 0.007 19.5 6.3 57 43-103 12-72 (145)
75 4f02_A Polyadenylate-binding p 20.8 2.1E+02 0.0073 20.5 5.7 49 123-187 30-78 (213)
76 2dgo_A Cytotoxic granule-assoc 20.7 1.7E+02 0.0058 18.5 5.4 49 123-187 30-78 (115)
77 2fu4_A Ferric uptake regulatio 20.6 1.5E+02 0.005 17.7 6.0 16 88-103 53-68 (83)
78 1p1t_A Cleavage stimulation fa 20.4 1.6E+02 0.0055 18.1 4.4 48 123-186 23-70 (104)
79 2cqc_A Arginine/serine-rich sp 20.3 1.5E+02 0.0052 17.8 6.1 48 123-186 30-77 (95)
No 1
>2xzm_O RPS13E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_O 1ysh_E 3jyv_O* 1s1h_O
Probab=91.82 E-value=0.86 Score=32.34 Aligned_cols=35 Identities=14% Similarity=0.187 Sum_probs=28.8
Q ss_pred ccCCCCHH-HHHHHHHHHhCCCChHHHHHHHHHhCC
Q 040570 29 FAGILNKE-KSNLLVDMSKNNVRPKDVLHVLKKRNM 63 (210)
Q Consensus 29 ~~R~lt~~-~k~~i~~l~~~g~~p~~I~~~l~~~~~ 63 (210)
..-+++++ ..+.|..|.+.|++|++|--.|++++|
T Consensus 26 ~W~~~~~eeVe~~I~klakkG~tpSqIG~iLRD~~G 61 (153)
T 2xzm_O 26 KWLHMTPSTVVDLSVKLAKKGLTPSQIGVILRDQHG 61 (153)
T ss_dssp SSCCCCHHHHHHHHHHHHHTTCCHHHHHHHHHHSSC
T ss_pred ccccCCHHHHHHHHHHHHHCCCCHHHhhhHHhhcCC
Confidence 34457765 556688999999999999999999997
No 2
>3kks_A Integrase, IN; beta-strands flanked by alpha-helices, DNA binding protein; 2.20A {Bovine immunodeficiency virus} PDB: 3kkr_A
Probab=89.23 E-value=1.7 Score=30.02 Aligned_cols=62 Identities=11% Similarity=-0.042 Sum_probs=40.6
Q ss_pred cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCccc
Q 040570 134 RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELA 206 (210)
Q Consensus 134 ~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~a 206 (210)
+++.+|.|+..++ +.++.+|...+-. +++.+ .+++.+...-++..+...+ | |++|.||+...
T Consensus 3 ~~w~~D~t~~~~~-----y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~--g--p~~i~sDnG~~ 64 (152)
T 3kks_A 3 HLWQMDNTHWNKT-----IIWVAVETNSGLV-EAQVI-PEETALQVALCILQLIQRY--T--VLHLHSDNGPC 64 (152)
T ss_dssp CEEEEEEEEETTE-----EEEEEEETTTCCE-EEEEE-SSSCHHHHHHHHHHHHHHS--C--CSEEEECSCHH
T ss_pred cEEEEeeeeeCCE-----EEEEEEEcCCCcE-EEEEe-CCcCHHHHHHHHHHHHHHh--C--CcEEecCCchH
Confidence 5888999987433 4566677776655 45544 5677666665555443332 3 99999998654
No 3
>3u5c_N S27A, YS15, 40S ribosomal protein S13; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_O 3o30_G 3o2z_G 3u5g_N 3iz6_O 3jyv_O* 1ysh_E 1s1h_O
Probab=87.70 E-value=1.7 Score=30.74 Aligned_cols=35 Identities=14% Similarity=0.152 Sum_probs=28.7
Q ss_pred ccCCCCHH-HHHHHHHHHhCCCChHHHHHHHHHhCC
Q 040570 29 FAGILNKE-KSNLLVDMSKNNVRPKDVLHVLKKRNM 63 (210)
Q Consensus 29 ~~R~lt~~-~k~~i~~l~~~g~~p~~I~~~l~~~~~ 63 (210)
..-+++++ ..+.|..|.+.|++|++|--.|++++|
T Consensus 24 ~W~~~~~eeVe~~I~klakkG~tpSqIG~iLRD~~G 59 (151)
T 3u5c_N 24 AWFKLSSESVIEQIVKYARKGLTPSQIGVLLRDAHG 59 (151)
T ss_dssp SSCCSCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred CCcCCCHHHHHHHHHHHHHCCCCHHHhhhHHhccCC
Confidence 34457765 555688999999999999999999997
No 4
>3j20_Q 30S ribosomal protein S15P/S13E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=84.37 E-value=2.4 Score=30.29 Aligned_cols=35 Identities=17% Similarity=0.128 Sum_probs=28.7
Q ss_pred ccCCCCHH-HHHHHHHHHhCCCChHHHHHHHHHhCC
Q 040570 29 FAGILNKE-KSNLLVDMSKNNVRPKDVLHVLKKRNM 63 (210)
Q Consensus 29 ~~R~lt~~-~k~~i~~l~~~g~~p~~I~~~l~~~~~ 63 (210)
..-+++++ ..+.|..|.+.|++|++|-..|++++|
T Consensus 24 ~W~~~~~eev~~~i~klakkG~~pSqIG~~LRD~~g 59 (158)
T 3j20_Q 24 IWVEYTVEEIENLVVKLRKEGYSTAMIGTILRDQYG 59 (158)
T ss_dssp SSSCCCHHHHHHHHHHHHHHTCCHHHHHHHHHHTTC
T ss_pred CCcCCCHHHHHHHHHHHHHCCCCHHHhhHHHhccCC
Confidence 34457765 555688999999999999999999997
No 5
>3l3u_A POL polyprotein; DNA integration, AIDS, integrase, endonuclease, polynucleotidyl transferase, DNA binding, viral protein; 1.40A {Human immunodeficiency virus 1} PDB: 3ao1_A 3l3v_A* 3ovn_A* 3ao2_A* 3ao3_A* 3ao4_A* 3ao5_A* 2itg_A 1biz_A 1biu_A 1b9d_A 4dmn_A* 2b4j_A 1itg_A 1b92_A 1bl3_A 1bi4_A 1bis_A 1b9f_A 1bi4_B ...
Probab=82.68 E-value=4.9 Score=28.08 Aligned_cols=63 Identities=14% Similarity=0.140 Sum_probs=42.5
Q ss_pred cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCcccC
Q 040570 134 RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELAW 207 (210)
Q Consensus 134 ~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~al 207 (210)
+++.+|.||..++ +.++.+|...+-. +++.+ .+++.+...-++..+...++ +++|.||+....
T Consensus 10 ~~w~~D~t~~~g~-----y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~~----~~~i~sD~G~~f 72 (163)
T 3l3u_A 10 GIWQLDCTHLEGK-----VILVAVHVASGYI-EAEVI-PAETGQETAYFLLKLAGRWP----VKTVHTDNGSNF 72 (163)
T ss_dssp TEEEEEEEEETTE-----EEEEEEETTTCCE-EEEEE-SSCCHHHHHHHHHHHHHHSC----CCEEEECCCGGG
T ss_pred CEEEEEecccCCc-----EEEEEEecCCCcE-EEEEe-CCCcHHHHHHHHHHHHHHcC----CcEEeecChHhh
Confidence 5899999997653 4566777777654 45544 56677776666665444432 489999997654
No 6
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A
Probab=81.73 E-value=7.3 Score=24.21 Aligned_cols=60 Identities=13% Similarity=0.055 Sum_probs=30.9
Q ss_pred CCCCCCCCCCCccccccCCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHHHHHhh
Q 040570 14 GFHNHLATQYLEGHSFAGILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNARQKYKV 81 (210)
Q Consensus 14 ~~HNH~~~~~~~~h~~~R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~~~ 81 (210)
+.++|++..+......-..|++.+++.+.. ...|.+.++|-+.|. ++...|++...+.++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~Lt~~e~~vl~l-~~~g~s~~eIA~~l~-------is~~tV~~~l~r~~~ 62 (82)
T 1je8_A 3 GSHHHHHHGSATTERDVNQLTPRERDILKL-IAQGLPNKMIARRLD-------ITESTVKVHVKHMLK 62 (82)
T ss_dssp --------------CCGGGSCHHHHHHHHH-HTTTCCHHHHHHHHT-------SCHHHHHHHHHHHHH
T ss_pred CccCCCCCCchHHHHHHccCCHHHHHHHHH-HHcCCCHHHHHHHHC-------cCHHHHHHHHHHHHH
Confidence 356666655433333456799988876655 578999999987762 344556555555543
No 7
>3hph_A Integrase, IN; protein-protein complex, tetramer, DNA integration, endonucl magnesium, metal-binding, multifunctional enzyme; 2.64A {Maedi visna virus} PDB: 3hpg_A
Probab=79.95 E-value=7.9 Score=28.60 Aligned_cols=62 Identities=10% Similarity=0.014 Sum_probs=40.0
Q ss_pred cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCccc
Q 040570 134 RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELA 206 (210)
Q Consensus 134 ~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~a 206 (210)
+++.+|.|+..++ +.++.+|...+-. .++. +.+++.+...-++..+...+ | |++|.||+...
T Consensus 61 ~~w~~D~t~~~~~-----y~~~~iD~~Sr~~-~~~~-~~~~~~~~~~~~l~~~~~~~--g--p~~i~sDnG~~ 122 (219)
T 3hph_A 61 DHWQVDYTHYEDK-----IILVWVETNSGLI-YAER-VKGETGQEFRVQTMKWYAMF--A--PKSLQSDNGPA 122 (219)
T ss_dssp CEEEEEEEEETTE-----EEEEEEETTTCCE-EEEE-ESCCCHHHHHHHHHHHHHHH--C--CCEEEECCCHH
T ss_pred ceEEEEEecCCCE-----EEEEEEeCCCCcE-EEEE-eCCCCHHHHHHHHHHHHHHh--C--CcEEEeCCCch
Confidence 5677888865443 4566777777655 4444 56666666665555444433 3 99999998754
No 8
>1cxq_A Avian sarcoma virus integrase; mixed beta-sheet surrounded by alpha-helices, transferase; HET: EPE; 1.02A {Avian sarcoma virus} SCOP: c.55.3.2 PDB: 1cxu_A* 1czb_A* 1cz9_A* 1asu_A* 1asw_A* 1asv_A 1a5v_A* 1a5w_A* 1a5x_A* 1vsf_A* 1vse_A* 3o4n_A* 1vsm_A 3o4q_A* 1vsd_A* 1vsh_A* 1vsi_A* 1vsj_A* 1vsk_A 1vsl_A
Probab=77.79 E-value=13 Score=25.79 Aligned_cols=67 Identities=10% Similarity=-0.059 Sum_probs=42.5
Q ss_pred cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCccc
Q 040570 134 RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELA 206 (210)
Q Consensus 134 ~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~a 206 (210)
+++.+|.||-...-+. .+.++.+|...+-. +++.+ .+++.+...-+|+...... ..|++|.+|+...
T Consensus 12 ~~~~~D~~~~~~~~g~-~yl~~~iD~~Sr~i-~~~~~-~~~~~~~v~~~l~~~~~~~---g~p~~i~sDnG~~ 78 (162)
T 1cxq_A 12 QIWQTDFTLEPRMAPR-SWLAVTVDTASSAI-VVTQH-GRVTSVAAQHHWATAIAVL---GRPKAIKTDNGSC 78 (162)
T ss_dssp CEEEEEEEECGGGTTS-CEEEEEEETTTCCE-EEEEE-SSCCHHHHHHHHHHHHHHH---CCCSEEECCSCHH
T ss_pred CEEEeeeeecccCCCC-EEEEEEEEcCCCeE-EEEEC-CCccHHHHHHHHHHHHHHH---CCCeEEEeCCchh
Confidence 5889999876544343 44567777776655 45554 4666666555555444443 3588999998754
No 9
>2xv9_A ABA-1A1 repeat UNIT; lipid binding protein, fatty acid binding, retinol binding,; NMR {Ascaris suum}
Probab=75.64 E-value=5.4 Score=27.78 Aligned_cols=47 Identities=21% Similarity=0.275 Sum_probs=36.0
Q ss_pred CCCCCCCCCCccccccCCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCC
Q 040570 15 FHNHLATQYLEGHSFAGILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNM 63 (210)
Q Consensus 15 ~HNH~~~~~~~~h~~~R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~ 63 (210)
.|.|.+.....-|. .=||++|+.+|..|.+.|-+...|+.-+-+.+.
T Consensus 5 ~~~~~le~~~~~~L--sWLt~eQk~EI~kMk~~gksk~~v~~KI~efye 51 (134)
T 2xv9_A 5 FHHFTLESSLDTHL--KWLSQEQKDELLKMKKDGKAKKELEAKILHYYD 51 (134)
T ss_dssp TSSSCSGGGTTTTT--TTSCHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred cccCCHHHHHHHHH--HHCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 45566654433333 358999999999999999999999999988774
No 10
>1c0m_A Protein (integrase); HIV, X-RAY crystallography, protein structure, transferase; 2.53A {Rous sarcoma virus} SCOP: b.34.7.1 c.55.3.2 PDB: 1c1a_A
Probab=73.79 E-value=17 Score=27.32 Aligned_cols=67 Identities=10% Similarity=-0.057 Sum_probs=43.7
Q ss_pred cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCccc
Q 040570 134 RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELA 206 (210)
Q Consensus 134 ~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~a 206 (210)
+++.+|.||.....+. .+.++.+|...+-. +++.+- +++.+...-+|.......+ .|++|.||+...
T Consensus 11 ~~w~~D~~~~~~~~g~-~yl~~~iD~~Sr~i-~~~~~~-~~~~~~v~~~l~~~~~~~g---~p~~i~sDnG~~ 77 (238)
T 1c0m_A 11 QIWQTDFTLEPRMAPR-SWLAVTVDTASSAI-VVTQHG-RVTSVAVQHHWATAIAVLG---RPKAIKTDNGSC 77 (238)
T ss_dssp SEEEEEEEECGGGCSS-CEEEEEEETTTCCE-EEEEES-SCCHHHHHHHHHHHHHHHC---CCSEEEECSCHH
T ss_pred CEEEEeeccccccCCC-EEEEEEEECCCCCE-EEEEcc-CCCHHHHHHHHHHHHHHhC---CCcEEEECCCCc
Confidence 5889999986544343 44566677766544 456554 7777766666655555443 489999998754
No 11
>3f9k_A Integrase; protein-protein complex, AIDS, DNA integration, endonuclease magnesium, metal-binding, multifunctional enzyme; 3.20A {Human immunodeficiency virus type 2} PDB: 1e0e_A
Probab=73.65 E-value=11 Score=27.69 Aligned_cols=64 Identities=19% Similarity=0.131 Sum_probs=39.6
Q ss_pred cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCcccCC
Q 040570 134 RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELAWH 208 (210)
Q Consensus 134 ~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~al~ 208 (210)
.++.+|.|+..++ +.++.+|...+ +..++ .+.+++.+...-++..+...+ . +++|.||+.....
T Consensus 60 ~~w~~D~~~~~~~-----y~l~~vD~~sr-~~~~~-~~~~~~~~~~~~~l~~~~~~~---g-~~~i~sDnG~~F~ 123 (210)
T 3f9k_A 60 GTWQMDCTHLEGK-----IIIVAVHVASG-FIEAE-VIPQESGRQTALFLLKLASRW---P-ITHLHTDNGANFT 123 (210)
T ss_dssp TEEEEEEEEETTE-----EEEEEEETTTT-EEEEE-EESSCCHHHHHHHHHHHHTTS---C-CSEEEECCCTTTS
T ss_pred CeEeEeecccCCe-----EEEEEEEcCCC-cEEEE-EeCCcchHHHHHHHHHHHHHc---C-CCEEEeCCCchhh
Confidence 4778888877554 34666777776 44454 445677777665555433322 2 3569999987653
No 12
>2kw0_A CCMH protein; oxidoreductase, cytochrome C maturation; NMR {Escherichia coli}
Probab=73.22 E-value=3.9 Score=26.42 Aligned_cols=34 Identities=6% Similarity=0.177 Sum_probs=29.3
Q ss_pred CCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCC
Q 040570 32 ILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHN 65 (210)
Q Consensus 32 ~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~ 65 (210)
.+..+++.+|..+...|-+..+|+.+|.+++|+.
T Consensus 40 ~iA~dlR~~Vre~l~~G~Sd~eI~~~mv~RYGdf 73 (90)
T 2kw0_A 40 MIATDLRQKVYELMQEGKSKKEIVDYMVARYGNF 73 (90)
T ss_dssp HHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCCe
Confidence 4555788889999999999999999999999875
No 13
>1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2
Probab=71.11 E-value=7 Score=20.81 Aligned_cols=42 Identities=14% Similarity=0.033 Sum_probs=30.0
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHHHHH
Q 040570 31 GILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNARQKY 79 (210)
Q Consensus 31 R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~ 79 (210)
+.++++++..|..+...|.+.++|...+ + +....|++...+.
T Consensus 4 ~~l~~~~~~~i~~~~~~g~s~~~IA~~l----g---is~~Tv~~~~~~~ 45 (51)
T 1tc3_C 4 SALSDTERAQLDVMKLLNVSLHEMSRKI----S---RSRHCIRVYLKDP 45 (51)
T ss_dssp CCCCHHHHHHHHHHHHTTCCHHHHHHHH----T---CCHHHHHHHHHCS
T ss_pred CCCCHHHHHHHHHHHHcCCCHHHHHHHH----C---cCHHHHHHHHhhH
Confidence 4688888888888888999988886665 2 3445566665443
No 14
>1bco_A MUA domain II, bacteriophage MU transposase; polynucleotidyl transferase, DNA binding, endonuclease, integrase; 2.40A {Enterobacteria phage MU} SCOP: b.48.1.1 c.55.3.3 PDB: 1bcm_A
Probab=70.72 E-value=26 Score=27.79 Aligned_cols=71 Identities=4% Similarity=-0.264 Sum_probs=46.3
Q ss_pred CcEEEEecccccCc----CCC--ceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCe--EEEecCc
Q 040570 133 PRVLIMDCTYKTNR----YDM--PLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLAS--VIVTDRE 204 (210)
Q Consensus 133 ~~vl~~D~Ty~tn~----~~~--pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~--~iitD~d 204 (210)
.+++.+|.|+..-. -+- -....+.+|...+ .++|+.+...|+.++..-+|....... ..|. .|.+|+-
T Consensus 16 ~~~w~~D~t~~d~~~~~~~g~~~r~~l~~~iD~~SR-~ivg~~~~~~~~~~~v~~aL~~a~~~~---G~P~~~~i~sDnG 91 (327)
T 1bco_A 16 MQWINGDGYLHNVFVRWFNGDVIRPKTWFWQDVKTR-KILGWRCDVSENIDSIRLSFMDVVTRY---GIPEDFHITIDNT 91 (327)
T ss_dssp TTEEEEEEEECSBCEECTTSCEECCEEEEEEETTTC-CEEEEEEESSCCHHHHHHHHHHHHHHH---CEESSCEEECCCT
T ss_pred CcEEEecCCEEEEEEECCCCccceeEEEEEEECCCC-cEEEEEEECCCCHHHHHHHHHHHHHhc---CCCCCcEEEeeCc
Confidence 36999999864322 121 2334566676665 457888888888887776666655444 3578 9999986
Q ss_pred ccC
Q 040570 205 LAW 207 (210)
Q Consensus 205 ~al 207 (210)
...
T Consensus 92 ~~f 94 (327)
T 1bco_A 92 RGA 94 (327)
T ss_dssp TST
T ss_pred hhh
Confidence 544
No 15
>2hl7_A Cytochrome C-type biogenesis protein CCMH; three-helices bundle, oxidoreductase; HET: PG4; 1.70A {Pseudomonas aeruginosa}
Probab=70.53 E-value=4.6 Score=25.70 Aligned_cols=34 Identities=3% Similarity=0.016 Sum_probs=29.2
Q ss_pred CCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCC
Q 040570 32 ILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHN 65 (210)
Q Consensus 32 ~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~ 65 (210)
.+..+++.+|..+...|-+..+|+.+|.+++|+.
T Consensus 43 ~iA~dlR~~V~~~l~~G~sd~eI~~~~v~RYG~f 76 (84)
T 2hl7_A 43 PIAADLRKQIYGQLQQGKSDGEIVDYMVARYGDF 76 (84)
T ss_dssp HHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCCe
Confidence 4455788889999999999999999999999875
No 16
>2x78_A Integrase; viral protein, DNA-directed DNA polyme nucleotidyltransferase, DNA integration, aspartyl protease, recombination, transferase; 2.00A {Human spumaretrovirus} PDB: 2x6n_A 2x6s_A 2x74_A 3dlr_A
Probab=65.28 E-value=30 Score=24.78 Aligned_cols=66 Identities=14% Similarity=0.030 Sum_probs=41.0
Q ss_pred cEEEEec-ccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCccc
Q 040570 134 RVLIMDC-TYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELA 206 (210)
Q Consensus 134 ~vl~~D~-Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~a 206 (210)
+++.+|- ++.... +...+.++.+|...+-. +++.+ .+.+.+... +.|..+.. ...|++|.||+...
T Consensus 14 ~~~~~D~~~~~~~~-~g~~y~~~~iD~~Sr~~-~~~~~-~~~~~~~~~---~~l~~~~~-~g~p~~i~sDnG~~ 80 (200)
T 2x78_A 14 DKFFIDYIGPLPPS-QGYLYVLVVVDGMTGFT-WLYPT-KAPSTSATV---KSLNVLTS-IAIPRVIHSDQGAA 80 (200)
T ss_dssp SEEEEEEECCCSCB-TTBCEEEEEEETTTCCE-EEEEE-SSSCHHHHH---HHHHHHTT-TCCCSEEEECSCHH
T ss_pred cEEEEEEeCCCccC-CCCeEEEEEEeCCCCcE-EEEEC-CCCCHHHHH---HHHHHHHH-hCCCcEEEecCCcc
Confidence 5888897 554433 33455677777776654 45555 666665544 44444443 36789999998754
No 17
>1c6v_A Protein (SIV integrase); DNA integration, DNA binding protein; 3.00A {Simian immunodeficiency virus} SCOP: c.55.3.2
Probab=64.14 E-value=24 Score=24.10 Aligned_cols=64 Identities=16% Similarity=0.089 Sum_probs=37.4
Q ss_pred cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCcccCC
Q 040570 134 RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELAWH 208 (210)
Q Consensus 134 ~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~al~ 208 (210)
+++.+|.++..++ +.++.+|...+- ++++. +.+++.+...-++ .+.... ..|++|.+|+.....
T Consensus 10 ~~w~~D~~~~~g~-----~~l~~iD~~Sr~-~~~~~-~~~~~~~~~~~~~---~~~~~~-~~~~~i~sDnG~~f~ 73 (164)
T 1c6v_A 10 GTWQMDCTHLEGK-----IVIVAVHVASGF-IEAEV-IPQETGRQTALFL---LKLAGR-WPITHLHTDNGANFA 73 (164)
T ss_dssp TEEEEEEEEETTE-----EEEEEECTTSCC-EEEEE-CSSCSHHHHHHHH---HHHHTT-SCCCEEECCCCSSTT
T ss_pred CEEEEeecccCCE-----EEEEEEEccCCE-EEEEE-cCCCchHHHHHHH---HHHHHh-cCCCEEEeCCchhhh
Confidence 4788898887222 233347777664 44554 4555555544333 333332 237999999987654
No 18
>3av9_A Integrase, IN; protein-protein interactions, HIV, recombination-inhibitor C; 1.70A {Human immunodeficiency virus type 1} PDB: 3ava_A 3avb_A 3avc_A 3avg_A 3avh_A 3avi_A 3avj_A 3avk_A 3avl_A 3avm_A 3avn_A 3nf6_A* 3nf7_A* 3nf8_A* 3nf9_A* 3nfa_A* 3avf_A
Probab=62.59 E-value=26 Score=24.88 Aligned_cols=62 Identities=15% Similarity=0.116 Sum_probs=36.2
Q ss_pred cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCccc
Q 040570 134 RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELA 206 (210)
Q Consensus 134 ~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~a 206 (210)
+++.+|.++..++| .++.+|...+-. +++. +.+++.+...-++..+...+ .+++|.+|+...
T Consensus 30 ~~w~~D~~~~~g~~-----~l~~vD~~Sr~~-~~~~-~~~~~~~~~~~~~~~~~~~~----~~~~i~sDnG~e 91 (183)
T 3av9_A 30 GIWQLDCTHLEGKV-----ILVAVHVASGYI-EAEV-IPAETGQETAYFLLKLAGRW----PVKTVHTDNGSN 91 (183)
T ss_dssp TEEEEEEEEETTEE-----EEEEEETTTTEE-EEEE-ESSCCHHHHHHHHHHHHHHS----CCCEEECSSHHH
T ss_pred CEEEEeccccCCcE-----EEEEEECCCCCE-EEEE-eCCccchHHHHHHHHHHHHc----CCcEEEecCchh
Confidence 58888988873332 244457666655 5554 45565555544443333322 248999998653
No 19
>1k6y_A Integrase; HIV-1, domain organization, transferase; 2.40A {Human immunodeficiency virus 1} SCOP: a.4.10.1 c.55.3.2 PDB: 1wjb_A 1wjd_A 1wjf_A 1wja_A 1wjc_A 1wje_A
Probab=60.00 E-value=40 Score=24.44 Aligned_cols=64 Identities=13% Similarity=0.117 Sum_probs=36.6
Q ss_pred cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCcccCC
Q 040570 134 RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELAWH 208 (210)
Q Consensus 134 ~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~al~ 208 (210)
+++.+|.++..++| .++.+|...+-.. ++ .+.+.+.+...-++..+...+ .+++|.||+.....
T Consensus 59 ~~w~~D~~~~~~~~-----~l~~vD~~Sr~~~-~~-~~~~~~~~~~~~~~~~~~~~~----~~~~i~sDnG~~f~ 122 (212)
T 1k6y_A 59 GIWQLDCTHLEGKV-----ILVAVHVASGYIE-AE-VIPAETGQETAYFLLKLAGRW----PVKTVHTDNGSNFT 122 (212)
T ss_dssp TEEEEEEEEETTEE-----EEEEEETTTTEEE-EE-EESSCCHHHHHHHHHHHHHHS----CCCEEECCCSTTTT
T ss_pred CeeeEEEecCCCeE-----EEEEEEccCCcEE-EE-EecCcchHHHHHHHHHHHHhc----CCeEEEcCCCcccc
Confidence 57888888763322 3444466665544 44 445566555554443333222 24999999987653
No 20
>3deu_A Transcriptional regulator SLYA; MARR, WING-helix, transcription regulator, activator, DNA-binding, repressor; HET: SAL; 2.30A {Salmonella typhimurium} SCOP: a.4.5.28
Probab=53.32 E-value=29 Score=24.28 Aligned_cols=77 Identities=13% Similarity=0.151 Sum_probs=42.1
Q ss_pred HHhCCCChHH--HHHHHHHhCCCCcchHhHHhHHHHHHhhhhcccchHHHHHHHHhhccceeEEEeeecCCCceEEEEEe
Q 040570 44 MSKNNVRPKD--VLHVLKKRNMHNATTIRAIYNARQKYKVREQVGHSQMQLLMSKLIEQKYIERHKSDVDTNCVKALFLA 121 (210)
Q Consensus 44 l~~~g~~p~~--I~~~l~~~~~~~~~t~~di~N~~~k~~~~~~~g~~~~~~L~~~l~~~~~~~~~~~~d~~~~~~~lf~a 121 (210)
+...|+++.+ |+..|.+..+ .++..+|-.... -..+.+..+++.|++.|++.... ..+|++...+..
T Consensus 46 l~~~glt~~q~~vL~~L~~~~~--~~t~~eLa~~l~-------i~~~tvs~~l~~Le~~GlV~r~~-~~~DrR~~~l~L- 114 (166)
T 3deu_A 46 LKPLELTQTHWVTLHNIHQLPP--DQSQIQLAKAIG-------IEQPSLVRTLDQLEDKGLISRQT-CASDRRAKRIKL- 114 (166)
T ss_dssp TTTTTCCHHHHHHHHHHHHSCS--SEEHHHHHHHHT-------SCHHHHHHHHHHHHHTTSEEEC---------CEEEE-
T ss_pred HhhcCCCHHHHHHHHHHHHcCC--CCCHHHHHHHHC-------CCHhhHHHHHHHHHHCCCEEeeC-CCCCCCeeEEEE-
Confidence 4567998886 4445544333 367777754332 12345778899999999875322 234666655554
Q ss_pred ChhhHHHHHh
Q 040570 122 HPSAIELLQA 131 (210)
Q Consensus 122 ~~~~~~~~~~ 131 (210)
+++.++++..
T Consensus 115 T~~G~~~~~~ 124 (166)
T 3deu_A 115 TEKAEPLIAE 124 (166)
T ss_dssp CGGGHHHHHH
T ss_pred CHHHHHHHHH
Confidence 4556655543
No 21
>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP: a.4.1.5
Probab=53.28 E-value=34 Score=22.27 Aligned_cols=44 Identities=16% Similarity=0.255 Sum_probs=33.2
Q ss_pred cCCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHHHHHh
Q 040570 30 AGILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNARQKYK 80 (210)
Q Consensus 30 ~R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~~ 80 (210)
.++++.+.+..|..+...|.+.++|...+ + +....|++...+++
T Consensus 15 ~~~~s~~~r~~i~~~~~~g~s~~~ia~~l----g---is~~Tv~~w~~~~~ 58 (128)
T 1pdn_C 15 GRPLPNNIRLKIVEMAADGIRPCVISRQL----R---VSHGCVSKILNRYQ 58 (128)
T ss_dssp TSCCCHHHHHHHHHHHHTTCCHHHHHHHH----T---CCHHHHHHHHHHHH
T ss_pred CCcCCHHHHHHHHHHHHcCCCHHHHHHHH----C---cCHHHHHHHHHHHH
Confidence 36789999999998888999988886655 2 34566777776654
No 22
>1ex4_A Integrase; SH3-like domain, nonspecific DNA binding beta sheet, CIS-Pro viral protein; HET: CPS; 2.80A {Human immunodeficiency virus 1} SCOP: b.34.7.1 c.55.3.2 PDB: 1qmc_A 1ihv_A 1ihw_A
Probab=52.04 E-value=36 Score=25.40 Aligned_cols=62 Identities=15% Similarity=0.119 Sum_probs=35.9
Q ss_pred cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCccc
Q 040570 134 RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELA 206 (210)
Q Consensus 134 ~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~a 206 (210)
.++.+|.|+..++| .++.+|...+ +++++ .+.+++.+...-++..+... ..|++|.||+-..
T Consensus 10 ~~w~~D~t~~~g~~-----~l~~vD~~Sr-~i~~~-~~~~~~~~~~~~~~~~~~~~----~~~~~i~sDnG~e 71 (239)
T 1ex4_A 10 GIWQLDCTHLEGKV-----ILVAVHVASG-YIEAE-VIPAETGQETAYFLLKLAGR----WPVKTIHTDNGSN 71 (239)
T ss_dssp GEEEEEEEEETTEE-----EEEEECTTTC-CEEEE-CCSSSSTTHHHHHHHHHHHH----SCCCEEEECCCHH
T ss_pred CEEEEeccccCCeE-----EEEEEECCCC-eEEEE-EeCCCCHHHHHHHHHHHHHh----cCCcEEEecCcHH
Confidence 48899999883332 3444466555 44555 44556555554443333222 2369999998654
No 23
>1u78_A TC3 transposase, transposable element TC3 transposase; transposon DNA, bipartite DNA-binding, HTH- motif, DNA binding protein/DNA complex; 2.69A {Caenorhabditis elegans} SCOP: a.4.1.2 a.4.1.2
Probab=50.16 E-value=34 Score=22.90 Aligned_cols=43 Identities=14% Similarity=0.019 Sum_probs=32.5
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHHHHHh
Q 040570 31 GILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNARQKYK 80 (210)
Q Consensus 31 R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~~ 80 (210)
+.++.+++..|..+.+.|.+.++|...+ | +....|++...+..
T Consensus 5 ~~~s~~~r~~i~~~~~~G~s~~~ia~~l----g---is~~Tv~r~~~~~~ 47 (141)
T 1u78_A 5 SALSDTERAQLDVMKLLNVSLHEMSRKI----S---RSRHCIRVYLKDPV 47 (141)
T ss_dssp CCCCHHHHHHHHHHHHTTCCHHHHHHHH----T---CCHHHHHHHHHSGG
T ss_pred ccCCHHHHHHHHHHHHcCCCHHHHHHHH----C---cCHHHHHHHHHccc
Confidence 5789999999999989999998887766 1 44556777666543
No 24
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Probab=50.04 E-value=39 Score=23.07 Aligned_cols=44 Identities=18% Similarity=0.266 Sum_probs=34.1
Q ss_pred cCCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHHHHHh
Q 040570 30 AGILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNARQKYK 80 (210)
Q Consensus 30 ~R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~~ 80 (210)
.++++.+.+..|..+...|.+.++|...+ + +....|++...+.+
T Consensus 30 ~~~~s~e~r~~iv~~~~~G~s~~~iA~~l----g---is~~TV~rw~~~~~ 73 (149)
T 1k78_A 30 GRPLPDVVRQRIVELAHQGVRPCDISRQL----R---VSHGCVSKILGRYY 73 (149)
T ss_dssp TSCCCHHHHHHHHHHHHTTCCHHHHHHHH----T---CCHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHcCCCHHHHHHHH----C---cCHHHHHHHHHHHH
Confidence 46799999999999888999988886665 2 45667777777654
No 25
>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A
Probab=49.36 E-value=20 Score=23.55 Aligned_cols=44 Identities=9% Similarity=0.110 Sum_probs=30.9
Q ss_pred ChhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHH
Q 040570 122 HPSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKS 188 (210)
Q Consensus 122 ~~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~ 188 (210)
..+..++|..|++|..+.-... +||||.=++.+.-.-+++.+-.
T Consensus 30 ~~~l~~~F~~~G~v~~~~i~~~-----------------------g~afV~f~~~~~a~~Ai~~l~g 73 (115)
T 3beg_B 30 WQDLKDHMREAGDVCYADVYRD-----------------------GTGVVEFVRKEDMTYAVRKLDN 73 (115)
T ss_dssp TTHHHHHHGGGSCEEEEEECTT-----------------------SEEEEEESSHHHHHHHHHHHTT
T ss_pred HHHHHHHHHhcCCeEEEEEecC-----------------------CEEEEEECCHHHHHHHHHHhCC
Confidence 3456678999999877553221 6889988888887777766543
No 26
>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}
Probab=44.41 E-value=51 Score=22.86 Aligned_cols=50 Identities=6% Similarity=0.080 Sum_probs=36.7
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCcc-----chhHHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKW-----ENNYIWALERLKS 188 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~-----~e~~~w~l~~~~~ 188 (210)
..-+++|..||+|.. +.-++.-....+.|||||.=.+ .+..+.+.+++.+
T Consensus 21 ~~Lk~~Fs~fGeV~~----------------~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~ 75 (136)
T 2j8a_A 21 ISIKNYFKKYGEISH----------------FEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRK 75 (136)
T ss_dssp HHHHHHHHTTSCCSE----------------EEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCeEE----------------EEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHH
Confidence 445678999998765 6667777788889999998764 5666667777664
No 27
>2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster}
Probab=44.38 E-value=54 Score=20.24 Aligned_cols=44 Identities=5% Similarity=-0.124 Sum_probs=30.9
Q ss_pred cCCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHHHHHh
Q 040570 30 AGILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNARQKYK 80 (210)
Q Consensus 30 ~R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~~ 80 (210)
.++.+++.+..+..+...|.+.++|... ++ +....||+++.++.
T Consensus 20 ~~~ys~e~k~~~v~~~~~g~s~~~iA~~----~g---Is~sTl~rW~k~~~ 63 (87)
T 2elh_A 20 LRSLTPRDKIHAIQRIHDGESKASVARD----IG---VPESTLRGWCKNED 63 (87)
T ss_dssp CSSCCHHHHHHHHHHHHHTCCHHHHHHH----HT---CCHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHCCCCHHHHHHH----HC---cCHHHHHHHHHHHH
Confidence 3578999988888777788887776443 33 35566888776654
No 28
>1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} SCOP: a.4.1.2 PDB: 1ijw_C* 1jj6_C* 1jj8_C* 1hcr_A 1jkp_C 1jkq_C 1jkr_C
Probab=44.07 E-value=19 Score=19.23 Aligned_cols=39 Identities=8% Similarity=0.126 Sum_probs=25.2
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHH
Q 040570 31 GILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNAR 76 (210)
Q Consensus 31 R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~ 76 (210)
+.++++++..|..+...|.+..+|... .| +....||+..
T Consensus 4 ~~~~~~~~~~i~~l~~~g~s~~~ia~~----lg---vs~~Tv~r~l 42 (52)
T 1jko_C 4 RAINKHEQEQISRLLEKGHPRQQLAII----FG---IGVSTLYRYF 42 (52)
T ss_dssp CSSCTTHHHHHHHHHHTTCCHHHHHHT----TS---CCHHHHHHHS
T ss_pred CCCCHHHHHHHHHHHHcCCCHHHHHHH----HC---CCHHHHHHHH
Confidence 457777778888888888877766443 33 3445565543
No 29
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}
Probab=44.02 E-value=63 Score=20.91 Aligned_cols=49 Identities=4% Similarity=-0.072 Sum_probs=30.9
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLK 187 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~ 187 (210)
.+-.++|..|++|..+.-. .......+-+||||.=++.++-..+++.+-
T Consensus 21 ~~L~~~F~~~G~i~~v~i~----------------~d~~tg~~rG~aFV~f~~~~~A~~Ai~~ln 69 (110)
T 3s8s_A 21 TFLKDMCRKYGEVEEVEIL----------------LHPRTRKHLGLARVLFTSTRGAKETVKNLH 69 (110)
T ss_dssp HHHHHHHTTTSCEEEEEEE----------------ECTTTCCEEEEEEEEESSHHHHHHHHHHHT
T ss_pred HHHHHHHHhcCCeeEEEEE----------------ECCCCCceeeEEEEEECCHHHHHHHHHHhC
Confidence 3455788999988763321 112223456788888888887776666543
No 30
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens}
Probab=42.96 E-value=57 Score=22.53 Aligned_cols=53 Identities=6% Similarity=0.065 Sum_probs=37.1
Q ss_pred cCCCCHHHHHHHHHHHh--CCCChHHHHHHHHHhCC---CCcchHhHHhHHHHHHhhh
Q 040570 30 AGILNKEKSNLLVDMSK--NNVRPKDVLHVLKKRNM---HNATTIRAIYNARQKYKVR 82 (210)
Q Consensus 30 ~R~lt~~~k~~i~~l~~--~g~~p~~I~~~l~~~~~---~~~~t~~di~N~~~k~~~~ 82 (210)
.+++++++++.|..+.. .+.++.+|...+.+... +..+....|+++..+.+..
T Consensus 81 ~~~~~~~~~~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~~~~~S~sTV~r~L~~~~~~ 138 (159)
T 2k27_A 81 PKVATPKVVEKIGDYKRQNPTMFAWEIRDRLLAEGVCDNDTVPSVSSINRIIRTKVQQ 138 (159)
T ss_dssp CCCCCTTHHHHHHHHHHHCSSSCHHHHHHHHHHHTCSCTTTSCCHHHHHHHHHHHSCC
T ss_pred CCCCCHHHHHHHHHHHHHCccchHHHHHHHHHHhcccccCCccCHHHHHHHHHHHhCC
Confidence 35688888888877653 56889999998876641 2346667788877766543
No 31
>2glo_A Brinker CG9653-PA; protein-DNA complex, helix-turn-helix motif, transcription/DNA complex; NMR {Drosophila melanogaster}
Probab=42.93 E-value=28 Score=19.75 Aligned_cols=47 Identities=13% Similarity=-0.005 Sum_probs=29.0
Q ss_pred cCCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHHHHH
Q 040570 30 AGILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNARQKY 79 (210)
Q Consensus 30 ~R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~ 79 (210)
.|+.+++.|..+..+.+.|.++..-+..+.+.+| +....|++.+...
T Consensus 3 r~~ys~efK~~~~~~~~~g~s~~~~~~~vA~~~g---Is~~tl~~W~~~~ 49 (59)
T 2glo_A 3 RRIFTPHFKLQVLESYRNDNDCKGNQRATARKYN---IHRRQIQKWLQCE 49 (59)
T ss_dssp CCCCCHHHHHHHHHHHHHCTTTTTCHHHHHHHTT---SCHHHHHHHHTTH
T ss_pred CCcCCHHHHHHHHHHHHcCCCcchHHHHHHHHHC---cCHHHHHHHHHHH
Confidence 3578899999887677777762222233455554 3456677776544
No 32
>2bnk_A Early protein GP16.7; DNA-binding protein; 2.9A {Bacillus phage PHI29} SCOP: a.251.1.1 PDB: 2c5r_A 1zae_A
Probab=42.15 E-value=50 Score=19.20 Aligned_cols=45 Identities=18% Similarity=0.251 Sum_probs=29.8
Q ss_pred CCCHHHHHHHHHHHhCCCC-hHHHHHHHHHhCCCCcchHhHHhHHHHHH
Q 040570 32 ILNKEKSNLLVDMSKNNVR-PKDVLHVLKKRNMHNATTIRAIYNARQKY 79 (210)
Q Consensus 32 ~lt~~~k~~i~~l~~~g~~-p~~I~~~l~~~~~~~~~t~~di~N~~~k~ 79 (210)
+|+..+.+.++..-++|++ |..|++.|..+. +-|.+.+-|+....
T Consensus 4 ~ls~~e~~vLDlYe~SnIrIP~DIIEdl~~~~---L~te~EVmnYiEnq 49 (67)
T 2bnk_A 4 NLSACEVAVLDLYEQSNIRIPSDIIEDLVNQR---LQSEQEVLNYIETQ 49 (67)
T ss_dssp CCCSSHHHHHHHHHHTTCCCCHHHHHHHHTTC---CCCSHHHHHHHHHH
T ss_pred chhHHHHHHHHHHHHcCCcCcHHHHHHHHHHh---hhhHHHHHHHHHhh
Confidence 3455556666667789998 889999887333 34556666665543
No 33
>1mus_A TN5 transposase; hairpin, DNA binding, transcription/DNA complex; HET: DNA; 1.90A {Escherichia coli} SCOP: c.55.3.4 PDB: 1mur_A* 4dm0_A* 1mm8_A 1muh_A* 3ecp_A* 1b7e_A*
Probab=41.63 E-value=1.4e+02 Score=25.36 Aligned_cols=62 Identities=13% Similarity=0.041 Sum_probs=35.7
Q ss_pred CcCCCceeeEEeeec-CCceEEEEEEee--------cCccchhHHHHHH--HHHHHHhcCCC-CeEEEecCcccC
Q 040570 145 NRYDMPLLEIAGVTS-IDLTFSVCCVYL--------KLKWENNYIWALE--RLKSIMEENML-ASVIVTDRELAW 207 (210)
Q Consensus 145 n~~~~pl~~~~g~~~-~~~~~~~~~~~~--------~~E~~e~~~w~l~--~~~~~~~~~~~-p~~iitD~d~al 207 (210)
...|+.|...+.++. .|...-+.-.-+ .-|..|||+|+=. ...+... ... ..+.|.||+..+
T Consensus 120 ~~~G~~lHstLavtp~~g~pLGl~~~~~W~R~~~~~pieeKES~rWle~~~~~~~~~~-~~~~rvV~V~DRE~Di 193 (477)
T 1mus_A 120 ASRGWWVHSVLLLEATTFRTVGLLHQEWWMRPDDPADADEKESGKWLAAAATSRLRMG-SMMSNVIAVCDREADI 193 (477)
T ss_dssp SCEEEEEEEEEEEETTTCCEEEEEEEEEECCCSSGGGCSSCGGGHHHHHHHHHHHHHG-GGGGGEEEEECGGGCC
T ss_pred cccceEEEEEEEEcCCCCceeeeeeeeEeecccccCCcccchhHHHHHHHHHHHHhcC-CCcceEEEEechhhhH
Confidence 446777888888887 554332222222 1466899998643 2222233 122 457899998654
No 34
>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}
Probab=40.95 E-value=66 Score=20.27 Aligned_cols=48 Identities=10% Similarity=0.001 Sum_probs=30.4
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERL 186 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~ 186 (210)
.+-+++|..|++|..+.-. -......+-+||||.=++.++-.-+++.+
T Consensus 34 ~~L~~~F~~~G~I~~v~i~----------------~d~~tg~~kG~afV~f~~~~~A~~Ai~~l 81 (99)
T 4fxv_A 34 DELRSLFSSIGEVESAKLI----------------RDKVAGHSLGYGFVNYVTAKDAERAINTL 81 (99)
T ss_dssp HHHHHHHHTTSCEEEEEEE----------------ECSSSCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCEEEeEee----------------ecCCCCcccccEEEEECCHHHHHHHHHHh
Confidence 4456789999988764321 11122334578888888878777666654
No 35
>2kvc_A Putative uncharacterized protein; structural genomics, seattle structural genomi for infectious disease, ssgcid, unknown function; NMR {Mycobacterium tuberculosis}
Probab=37.81 E-value=62 Score=21.28 Aligned_cols=49 Identities=8% Similarity=0.154 Sum_probs=28.9
Q ss_pred cCCCCHHHHHHHHH-HHh-CCCChHHHHHHHHHhCCCCcchHhHHhHHHHHH
Q 040570 30 AGILNKEKSNLLVD-MSK-NNVRPKDVLHVLKKRNMHNATTIRAIYNARQKY 79 (210)
Q Consensus 30 ~R~lt~~~k~~i~~-l~~-~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~ 79 (210)
.|+||+++..+|.. |.. ..+.+-.|...+.+-... ..+..||...+.++
T Consensus 36 ~r~Ltdeev~~Va~~L~~~~~i~~~dI~~~I~~vt~~-~Ps~eDI~RV~arL 86 (103)
T 2kvc_A 36 CRRLSHDEVKAVANELMRLGDFDQIDIGVVITHFTDE-LPSPEDVERVRARL 86 (103)
T ss_dssp TTTSCHHHHHHHHHHHHHHTSSCSSCHHHHHHSCCSS-CSCHHHHHHHHHHH
T ss_pred hccCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhcc-CCCHHHHHHHHHHH
Confidence 68999988887664 443 346666666666655432 34445554444443
No 36
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Probab=36.43 E-value=67 Score=21.82 Aligned_cols=50 Identities=4% Similarity=0.088 Sum_probs=34.9
Q ss_pred cCCCCHHHHHHHHHHHh--CCCChHHHHHHHHHhCC---CCcchHhHHhHHHHHH
Q 040570 30 AGILNKEKSNLLVDMSK--NNVRPKDVLHVLKKRNM---HNATTIRAIYNARQKY 79 (210)
Q Consensus 30 ~R~lt~~~k~~i~~l~~--~g~~p~~I~~~l~~~~~---~~~~t~~di~N~~~k~ 79 (210)
.++++++.++.|..+.. .+..+.+|...|.+.+. +..+....|+++..+.
T Consensus 88 ~~~~~~~~~~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~g~~~S~sTV~r~L~~~ 142 (149)
T 1k78_A 88 PKVATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTK 142 (149)
T ss_dssp CSSSCHHHHHHHHHHHHHCTTCCHHHHHHHHHHTTSSCTTTSCCHHHHHHHHHCC
T ss_pred CCCCCHHHHHHHHHHHHhCcchhHHHHHHHHHHhcccccCCCcCHHHHHHHHHHH
Confidence 45688888888887653 46889999998876652 3345667777766543
No 37
>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42
Probab=36.31 E-value=98 Score=20.87 Aligned_cols=11 Identities=0% Similarity=-0.142 Sum_probs=6.4
Q ss_pred eeecCCceEEE
Q 040570 156 GVTSIDLTFSV 166 (210)
Q Consensus 156 g~~~~~~~~~~ 166 (210)
.+..+|+.+.+
T Consensus 93 iC~~Cg~v~~~ 103 (136)
T 1mzb_A 93 VCVDTGEVIEF 103 (136)
T ss_dssp EETTTCCEEEE
T ss_pred EECCCCCEEEe
Confidence 35666666653
No 38
>2lky_A Uncharacterized protein; infectious disease, tuberculosis, DUF proteins, ssgcid, STRU genomics; NMR {Mycobacterium smegmatis str}
Probab=35.86 E-value=62 Score=21.63 Aligned_cols=49 Identities=10% Similarity=0.154 Sum_probs=27.5
Q ss_pred cCCCCHHHHHHHHH-HHh-CCCChHHHHHHHHHhCCCCcchHhHHhHHHHHH
Q 040570 30 AGILNKEKSNLLVD-MSK-NNVRPKDVLHVLKKRNMHNATTIRAIYNARQKY 79 (210)
Q Consensus 30 ~R~lt~~~k~~i~~-l~~-~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~ 79 (210)
.|+||+++..+|.. |.. ..+.+..|...+.+-... ..+..||...+.++
T Consensus 38 ~r~Ltdeev~~Va~~L~~~~~i~~~dI~~~I~~vt~~-~Ps~eDI~RV~arL 88 (112)
T 2lky_A 38 TRRLTNDEIKAIAEDLEKRAHFDHIDIGVLITQMTDE-MPREEDIERVRRHL 88 (112)
T ss_dssp TTTCCHHHHHHHHHHHHHHCCCSCCCSHHHHHHHTTC-CCCHHHHHHHHHHH
T ss_pred cccCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHhcc-CCCHHHHHHHHHHH
Confidence 69999988887664 443 335555555555554432 34444554444443
No 39
>3hot_A Transposable element mariner, complete CDS; protein-DNA complex, synaptic complex, transposase, inverted DNA, DNA binding protein-DNA complex; HET: 5IU; 3.25A {Drosophila mauritiana} PDB: 3hos_A*
Probab=35.53 E-value=79 Score=24.78 Aligned_cols=46 Identities=11% Similarity=0.075 Sum_probs=38.4
Q ss_pred HHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHHHHHhh
Q 040570 36 EKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNARQKYKV 81 (210)
Q Consensus 36 ~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~~~ 81 (210)
+.++.|..+...|.+..+|...|.+.+|+..+....+++..++.+.
T Consensus 10 ~~R~~i~~~~~~G~s~~~~~~~l~~~~g~~~vs~~tv~~w~~r~~~ 55 (345)
T 3hot_A 10 QTRTVLIFCFHLKKTAAESHRMLVEAFGEQVPTVKTCERWFQRFKS 55 (345)
T ss_dssp HHHHHHHHHHHTTCCHHHHHHHHHHHTCSCSCCHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHhCCCCCcHHHHHHHHHHHhC
Confidence 4566777888999999999999999998667788889998888654
No 40
>3hot_A Transposable element mariner, complete CDS; protein-DNA complex, synaptic complex, transposase, inverted DNA, DNA binding protein-DNA complex; HET: 5IU; 3.25A {Drosophila mauritiana} PDB: 3hos_A*
Probab=35.49 E-value=1.3e+02 Score=23.39 Aligned_cols=59 Identities=14% Similarity=0.113 Sum_probs=37.1
Q ss_pred CcCCCceeeEEeeecCCceEEEEEEeec---CccchhHHHHHHHHHHHHhc-C------CCCeEEEecCccc
Q 040570 145 NRYDMPLLEIAGVTSIDLTFSVCCVYLK---LKWENNYIWALERLKSIMEE-N------MLASVIVTDRELA 206 (210)
Q Consensus 145 n~~~~pl~~~~g~~~~~~~~~~~~~~~~---~E~~e~~~w~l~~~~~~~~~-~------~~p~~iitD~d~a 206 (210)
++++..+..+.+++..| .+++.++. .-+.+.|.-+|+.++..+.. . ..+.+++.|....
T Consensus 185 ~~~~~~~~v~~~~~~~g---~~~~~~~~~~~~~~~~~y~~~L~~~~~~~~~~~p~~~~~~~~~~~~~Dna~~ 253 (345)
T 3hot_A 185 NRFGKKTMLCVWWDQSG---VIYYELLKPGETVNAARYQQQLINLNRALQRKRPEYQKRQHRVIFLHDNAPS 253 (345)
T ss_dssp CTTCCEEEEEEEEESSS---EEEEEEECSSCCCCHHHHHHHHHHHHHHHHHHSTTCC---CCCEEECCCCTT
T ss_pred cCcCCcEEEEEEEcccC---ceeeEecCCCCcccHHHHHHHHHHHHHHHHHhchhhhcCCCceEEEECCCCc
Confidence 34555555566666666 56677776 45788888888877666531 1 2245888998653
No 41
>1g2y_A Hepatocyte nuclear factor 1-alpha; dimerization domain, four-helix bundle, transcription factor, selenomethionine; 1.00A {Synthetic} SCOP: a.34.2.1 PDB: 1g39_A 1f93_E 1g2z_A 1jb6_A 2gyp_A
Probab=34.99 E-value=20 Score=18.03 Aligned_cols=27 Identities=11% Similarity=0.335 Sum_probs=21.0
Q ss_pred CCCHHHHHHHHHHHhCCCChHHHHHHH
Q 040570 32 ILNKEKSNLLVDMSKNNVRPKDVLHVL 58 (210)
Q Consensus 32 ~lt~~~k~~i~~l~~~g~~p~~I~~~l 58 (210)
+||+-|++.+..|..+|++....+..|
T Consensus 4 kLs~LQ~eLL~aLL~SGlsKe~LiqaL 30 (32)
T 1g2y_A 4 KLSQLQTEMLAALLESGLSKEALIQAL 30 (32)
T ss_dssp HHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHcCCcHHHHHHHh
Confidence 567778888888999999877666554
No 42
>2rpr_A Flywch-type zinc finger-containing protein 1; flywch domain, alternative splicing, DNA-binding, metal- binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=34.92 E-value=17 Score=22.85 Aligned_cols=10 Identities=20% Similarity=0.109 Sum_probs=7.7
Q ss_pred ecCCCCCCCC
Q 040570 12 KYGFHNHLAT 21 (210)
Q Consensus 12 ~~~~HNH~~~ 21 (210)
....||||+.
T Consensus 65 ~~~~HnH~p~ 74 (87)
T 2rpr_A 65 VMRSHCHQPD 74 (87)
T ss_dssp ECSCCSSCCC
T ss_pred CCCCcCCCCc
Confidence 5678999864
No 43
>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1
Probab=34.62 E-value=31 Score=22.13 Aligned_cols=41 Identities=10% Similarity=0.113 Sum_probs=27.6
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERL 186 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~ 186 (210)
.+-.++|..|++|..+.-... +||||.=++.+.-.-+++.+
T Consensus 30 ~~l~~~F~~~G~i~~~~i~~~-----------------------g~afV~f~~~~~a~~Ai~~l 70 (108)
T 1x4c_A 30 QDLKDHMREAGDVCYADVYRD-----------------------GTGVVEFVRKEDMTYAVRKL 70 (108)
T ss_dssp HHHHHHHGGGSCEEEEEEETT-----------------------TEEEEEESSHHHHHHHHHHS
T ss_pred HHHHHHHHhcCCEeEEEEecC-----------------------CEEEEEECCHHHHHHHHHHH
Confidence 445568889998876543221 68888888878777666544
No 44
>2guk_A Hypothetical protein PG1857; alpha-beta, alpha-helical bundle, structural genomics, PSI, structure initiative; 1.91A {Porphyromonas gingivalis} SCOP: d.360.1.1
Probab=31.87 E-value=88 Score=21.07 Aligned_cols=43 Identities=14% Similarity=0.223 Sum_probs=29.7
Q ss_pred HHHHHHHHhhccceeEEEeeecCCCceEEEEEeChhhHHHHHhC
Q 040570 89 QMQLLMSKLIEQKYIERHKSDVDTNCVKALFLAHPSAIELLQAF 132 (210)
Q Consensus 89 ~~~~L~~~l~~~~~~~~~~~~d~~~~~~~lf~a~~~~~~~~~~f 132 (210)
......+.|+..+.-|....+..++ =.+|||..++|++..+.|
T Consensus 39 ~~~~~~~rL~~~~I~Y~iq~v~~~~-kiNlFFG~~~Ci~vir~~ 81 (120)
T 2guk_A 39 DIPYAEERLRSRQIPYFAQPTPNTE-RTNLFFGCKECMEAIRLF 81 (120)
T ss_dssp GHHHHHHHHHHTTCCEEEECCTTSS-EEEEEEECHHHHHHHHHH
T ss_pred hHHHHHHHHHhCCCCEEEEEcCCCC-eEEEEeCCHHHHHHHHHH
Confidence 4566677888777655444442344 458999999999988765
No 45
>1wgn_A UBAP1, ubiquitin associated protein; ubiquitin associated protein 1 (UBAP1), UBA domain, structural genomics; NMR {Homo sapiens} SCOP: a.5.2.1
Probab=30.37 E-value=51 Score=19.49 Aligned_cols=35 Identities=14% Similarity=0.171 Sum_probs=30.6
Q ss_pred cCCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCC
Q 040570 30 AGILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMH 64 (210)
Q Consensus 30 ~R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~ 64 (210)
-+.|++.+.+-|..|..-|.+..+....|++..+.
T Consensus 12 l~~ls~se~e~V~~LvsMGFs~~qA~kALKat~~N 46 (63)
T 1wgn_A 12 LQMLSPSERQCVETVVNMGYSYECVLRAMKKKGEN 46 (63)
T ss_dssp HHTCCHHHHHHHHHHHHHHCCHHHHHHHHHHHCSC
T ss_pred HHhhCcchHHHHHHHHHcCCCHHHHHHHHHHcCCC
Confidence 36789988888999999999999999999988864
No 46
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A
Probab=29.58 E-value=77 Score=19.86 Aligned_cols=48 Identities=8% Similarity=0.045 Sum_probs=30.1
Q ss_pred hhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHH
Q 040570 124 SAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLK 187 (210)
Q Consensus 124 ~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~ 187 (210)
+-.++|..|++|..+.-.+ + .....+-+||||.=++.++-.-+++.+-
T Consensus 28 ~L~~~F~~~G~i~~v~i~~---------------d-~~tg~~kG~afV~f~~~~~A~~Ai~~ln 75 (100)
T 3ns6_A 28 ALTSLFSKAGKVVNMEFPI---------------D-EATGKTKGFLFVECGSMNDAKKIIKSFH 75 (100)
T ss_dssp HHHHHHHTTSCEEEEECCE---------------E-TTTTEECSEEEEEESSHHHHHHHHHHHT
T ss_pred HHHHHHHhcCCEeEEEEEE---------------c-CCCCccceEEEEEECCHHHHHHHHHHhC
Confidence 3457889999887543221 1 1122344688888888888777776544
No 47
>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A
Probab=29.19 E-value=1e+02 Score=19.82 Aligned_cols=48 Identities=13% Similarity=0.165 Sum_probs=31.9
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKS 188 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~ 188 (210)
.+-+++|..|++|..+.-. .+ .++ .-+||||.=++.++-.-+++.+..
T Consensus 20 ~~L~~~F~~~G~v~~v~i~---------------~d-~~~--~kg~afV~f~~~~~A~~Ai~~l~~ 67 (115)
T 4f25_A 20 KALYDTFSAFGNILSCKVV---------------CD-ENG--SKGYGFVHFETQEAAERAIEKMNG 67 (115)
T ss_dssp HHHHHHHGGGSCEEEEEEE---------------EE-TTE--EEEEEEEEESCHHHHHHHHHHHTT
T ss_pred HHHHHHHhccCCEEEEEEe---------------ec-CCC--CCceEEEEECCHHHHHHHHHHcCC
Confidence 4556789999988753211 12 222 357899998888888877776543
No 48
>1iuf_A Centromere ABP1 protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Schizosaccharomyces pombe} SCOP: a.4.1.7 a.4.1.7
Probab=28.71 E-value=1.2e+02 Score=20.69 Aligned_cols=51 Identities=10% Similarity=0.214 Sum_probs=36.9
Q ss_pred cCCCCHHHHHHHHHHH-h--CCCChHHHHHHHHHhC--CCCcchHhHHhHHHHHHh
Q 040570 30 AGILNKEKSNLLVDMS-K--NNVRPKDVLHVLKKRN--MHNATTIRAIYNARQKYK 80 (210)
Q Consensus 30 ~R~lt~~~k~~i~~l~-~--~g~~p~~I~~~l~~~~--~~~~~t~~di~N~~~k~~ 80 (210)
.++||.++|..|.... + .+++..++..-..+.| |-...|..+|.+.+.++.
T Consensus 9 R~~lT~~qK~~i~~~~~~~~~~~~q~~la~wa~~~f~~~is~stis~ilk~k~~~l 64 (144)
T 1iuf_A 9 RRAITEHEKRALRHYFFQLQNRSGQQDLIEWFREKFGKDISQPSVSQILSSKYSYL 64 (144)
T ss_dssp SSCCCSHHHHHHHHHHHSSSSCCCHHHHHHHHHHHHSSCCSSSSTTHHHHHHHHHT
T ss_pred CccCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHCCCCcHHHHHHHHhhHHHHh
Confidence 3569999999998877 4 5677778888777788 423467777777666643
No 49
>1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein; NMR {Erwinia amylovora} SCOP: a.4.6.2
Probab=26.85 E-value=1.3e+02 Score=19.22 Aligned_cols=44 Identities=14% Similarity=0.225 Sum_probs=30.5
Q ss_pred cCCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHHHHHhh
Q 040570 30 AGILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNARQKYKV 81 (210)
Q Consensus 30 ~R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~~~ 81 (210)
..+|++.+++.+ .|...|.+.++|-..| .++.+.|++.+.+..+
T Consensus 32 ~~~Lt~re~~Vl-~l~~~G~s~~EIA~~L-------~iS~~TV~~~l~ri~~ 75 (99)
T 1p4w_A 32 DKRLSPKESEVL-RLFAEGFLVTEIAKKL-------NRSIKTISSQKKSAMM 75 (99)
T ss_dssp SSSCCHHHHHHH-HHHHHTCCHHHHHHHH-------TSCHHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHH-HHHHcCCCHHHHHHHH-------CcCHHHHHHHHHHHHH
Confidence 456999888765 4456899999998776 2455666666666544
No 50
>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}
Probab=26.74 E-value=1.3e+02 Score=19.17 Aligned_cols=50 Identities=14% Similarity=0.090 Sum_probs=30.4
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKS 188 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~ 188 (210)
.+-+++|..|++|..+.-. .......+-+||||.=++.+.-.-+++.+-.
T Consensus 41 ~~l~~~F~~~G~i~~v~i~----------------~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g 90 (108)
T 2jrs_A 41 DMLRGIFEPFGRIESIQLM----------------MDSETGRSKGYGFITFSDSECAKKALEQLNG 90 (108)
T ss_dssp HHHHHHHTTTSCEEEEEEE----------------EETTTTEEEEEEEEEESCHHHHHHHHHHHTT
T ss_pred HHHHHHHHhcCCeEEEEEE----------------EcCCCCccceEEEEEECCHHHHHHHHHHcCC
Confidence 3445788888887653211 1112234567888888888877766665443
No 51
>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=26.55 E-value=2.4e+02 Score=22.36 Aligned_cols=67 Identities=13% Similarity=0.023 Sum_probs=38.5
Q ss_pred cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHHHHhcCCCCeEEEecCccc
Q 040570 134 RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELA 206 (210)
Q Consensus 134 ~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~a 206 (210)
+++.+|-+.-.-..+.-.+.++.+|...+-. .++.+ .+.+.+....++ .++.....|++|+||+...
T Consensus 126 ~~~~~D~~~~~~~~~g~~y~l~~vD~~sr~~-~~~~~-~~~~~~~~~~~l----~~~~~~g~p~~i~sDnG~~ 192 (395)
T 3oym_A 126 DKFFIDYIGPLPPSQGYLYVLVVVDGMTGFT-WLYPT-KAPSTSATVKSL----NVLTSIAIPKVIHSDQGAA 192 (395)
T ss_dssp SEEEEEEECCCSCBTTBCEEEEEEETTTCCE-EEEEE-SSSCHHHHHHHH----HHHTTTCCCSEEEECSCHH
T ss_pred eEEEEEEecccCCCCCccEEEEEEecCCceE-EEEEe-cCCcHHHHHHHh----hHhhccCCceEEEeCCCCc
Confidence 4778886542222234455566777776653 44444 455555555444 2232245689999999754
No 52
>1b0n_B Protein (SINI protein); transcription regulator, antagonist, sporulation; 1.90A {Bacillus subtilis} SCOP: a.34.1.1
Probab=26.35 E-value=1e+02 Score=17.85 Aligned_cols=32 Identities=22% Similarity=0.340 Sum_probs=26.1
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHHHHhC
Q 040570 31 GILNKEKSNLLVDMSKNNVRPKDVLHVLKKRN 62 (210)
Q Consensus 31 R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~ 62 (210)
+.+..+-...|....+.|++..+|.++|.-..
T Consensus 9 ~~~d~ewl~LI~~Ak~lGlsleEIrefL~l~~ 40 (57)
T 1b0n_B 9 FELDQEWVELMVEAKEANISPEEIRKYLLLNK 40 (57)
T ss_dssp CCCCHHHHHHHHHHHHTTCCHHHHHHHHHHC-
T ss_pred hHHHHHHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 45677778888899999999999999997443
No 53
>4ae4_A Ubiquitin-associated protein 1; protein transport, endosomal sorting, tetherin, VPU, HIV-1, monoubiquitin; HET: NHE; 1.65A {Homo sapiens} PDB: 4ae4_B*
Probab=25.91 E-value=1.1e+02 Score=20.52 Aligned_cols=32 Identities=9% Similarity=0.077 Sum_probs=28.6
Q ss_pred CCCHHHHHHHHHHHhCCCChHHHHHHHHHhCC
Q 040570 32 ILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNM 63 (210)
Q Consensus 32 ~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~ 63 (210)
.|++++++.+..|..-|.+..++...|++...
T Consensus 3 ~l~~~e~~~v~~l~~MGFp~~~~~kAl~~~g~ 34 (118)
T 4ae4_A 3 HMSPSERQCVETVVNMGYSYECVLRAMKAAGA 34 (118)
T ss_dssp CSCHHHHHHHHHHHHTTCCHHHHHHHHHHHCS
T ss_pred CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHCc
Confidence 47889999999999999999999999988765
No 54
>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure, structural genomics, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: a.4.1.19
Probab=25.64 E-value=1.2e+02 Score=18.72 Aligned_cols=44 Identities=14% Similarity=0.035 Sum_probs=31.4
Q ss_pred CCCCHHHHHHHHHHH-hC-CCChHHHHHHHHHhCCCCcchHhHHhHHHHHHhh
Q 040570 31 GILNKEKSNLLVDMS-KN-NVRPKDVLHVLKKRNMHNATTIRAIYNARQKYKV 81 (210)
Q Consensus 31 R~lt~~~k~~i~~l~-~~-g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~~~ 81 (210)
|+.|++.+..+..+. .. |.+..+|...+ | +....||+++.++..
T Consensus 4 ~~ys~e~k~~~v~~~~~~~g~s~~~ia~~~----g---Is~~tl~rW~~~~~~ 49 (97)
T 2jn6_A 4 KTYSEEFKRDAVALYENSDGASLQQIANDL----G---INRVTLKNWIIKYGS 49 (97)
T ss_dssp CCCCHHHHHHHHHHHTTGGGSCHHHHHHHH----T---SCHHHHHHHHHHHCC
T ss_pred CCCCHHHHHHHHHHHHHcCCChHHHHHHHH----C---cCHHHHHHHHHHHhh
Confidence 578899998888765 45 88877775543 3 356778888877754
No 55
>3ulq_B Transcriptional regulatory protein COMA; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} PDB: 2krf_A
Probab=25.59 E-value=1.3e+02 Score=18.76 Aligned_cols=44 Identities=11% Similarity=0.132 Sum_probs=30.0
Q ss_pred cCCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHHHHHhh
Q 040570 30 AGILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNARQKYKV 81 (210)
Q Consensus 30 ~R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~~~ 81 (210)
.-.||+.+++.+. |...|.+.++|-..|. ++.+.|.+.+.+..+
T Consensus 27 ~~~Lt~rE~~Vl~-l~~~G~s~~eIA~~L~-------iS~~TV~~~~~~i~~ 70 (90)
T 3ulq_B 27 QDVLTPRECLILQ-EVEKGFTNQEIADALH-------LSKRSIEYSLTSIFN 70 (90)
T ss_dssp --CCCHHHHHHHH-HHHTTCCHHHHHHHHT-------CCHHHHHHHHHHHHH
T ss_pred ccCCCHHHHHHHH-HHHcCCCHHHHHHHHC-------cCHHHHHHHHHHHHH
Confidence 4568988777554 4459999999987762 455667777666654
No 56
>2w57_A Ferric uptake regulation protein; gene regulation, transcription regulation, transport, iron, repressor, DNA-binding, transcription; 2.60A {Vibrio cholerae}
Probab=25.57 E-value=1.1e+02 Score=21.05 Aligned_cols=14 Identities=0% Similarity=0.161 Sum_probs=6.7
Q ss_pred HHHHHHHhhcccee
Q 040570 90 MQLLMSKLIEQKYI 103 (210)
Q Consensus 90 ~~~L~~~l~~~~~~ 103 (210)
+-.-++.|.+.|..
T Consensus 55 VYR~L~~L~e~Glv 68 (150)
T 2w57_A 55 VYRVLNQFDDAGIV 68 (150)
T ss_dssp HHHHHHHHHHTTSE
T ss_pred HHHHHHHHHHCCcE
Confidence 33344455555543
No 57
>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C
Probab=25.25 E-value=1.2e+02 Score=18.35 Aligned_cols=25 Identities=12% Similarity=-0.056 Sum_probs=17.1
Q ss_pred EEEEEEeecCccchhHHHHHHHHHH
Q 040570 164 FSVCCVYLKLKWENNYIWALERLKS 188 (210)
Q Consensus 164 ~~~~~~~~~~E~~e~~~w~l~~~~~ 188 (210)
..-||||+.=++.++-.-+++.+-.
T Consensus 43 ~~kG~afV~f~~~~~a~~Ai~~l~g 67 (90)
T 3p5t_L 43 QSKGFALVGVGSEASSKKLMDLLPK 67 (90)
T ss_dssp CEEEEEEECC-CHHHHHHHHHHGGG
T ss_pred ccCcEEEEEECCHHHHHHHHHHcCC
Confidence 3457899988888887777665543
No 58
>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}
Probab=24.56 E-value=1.7e+02 Score=20.18 Aligned_cols=48 Identities=17% Similarity=0.076 Sum_probs=30.2
Q ss_pred hhhHHHHHhCC--cEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHH
Q 040570 123 PSAIELLQAFP--RVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERL 186 (210)
Q Consensus 123 ~~~~~~~~~f~--~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~ 186 (210)
.+-+++|..|+ +|..+.- +........-|||||.=++.++-.-+++.+
T Consensus 70 ~~L~~~F~~~G~i~v~~v~i----------------~~d~~tg~skGfaFV~f~~~~~A~~Ai~~l 119 (156)
T 3n9u_C 70 QQLIQVIRSIGVYDVVELKF----------------AENRANGQSKGYAEVVVASENSVHKLLELL 119 (156)
T ss_dssp HHHHHHHHHTTCCCEEEEEE----------------EECTTTCCEEEEEEEEESCHHHHHHHHHHS
T ss_pred HHHHHHHHHHCCccEEEEEE----------------EecCCCCccceEEEEEECCHHHHHHHHHHc
Confidence 44567899999 7665321 111122334678888888888877777654
No 59
>2jml_A DNA binding domain/transcriptional regulator; anti-repressor, MERR, carotenogenesis; HET: DNA; NMR {Myxococcus xanthus}
Probab=24.05 E-value=75 Score=19.26 Aligned_cols=35 Identities=6% Similarity=0.139 Sum_probs=26.3
Q ss_pred ccCCCCHHHHHH---HHHHH-hCCCChHHHHHHHHHhCC
Q 040570 29 FAGILNKEKSNL---LVDMS-KNNVRPKDVLHVLKKRNM 63 (210)
Q Consensus 29 ~~R~lt~~~k~~---i~~l~-~~g~~p~~I~~~l~~~~~ 63 (210)
.+|.-++++... |..|. +.|++..+|...|....+
T Consensus 41 g~R~Y~~~dl~~l~~I~~l~~~~G~sl~ei~~~l~~~~~ 79 (81)
T 2jml_A 41 NYRVYSREEVEAVRRVARLIQEEGLSVSEAIAQVKTEPP 79 (81)
T ss_dssp SSCEECHHHHHHHHHHHHHHHHTSTHHHHHHHHHHHSCC
T ss_pred CeeecCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHccCC
Confidence 367777766654 56788 899999999998876654
No 60
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*
Probab=23.62 E-value=1.8e+02 Score=19.86 Aligned_cols=69 Identities=14% Similarity=0.037 Sum_probs=31.8
Q ss_pred EEEEecccccCcCCCceeeE--EeeecCCceEEEEEEee--cCccchhHHHHHHHHHHHHhcCCCCeEEEecCcc
Q 040570 135 VLIMDCTYKTNRYDMPLLEI--AGVTSIDLTFSVCCVYL--KLKWENNYIWALERLKSIMEENMLASVIVTDREL 205 (210)
Q Consensus 135 vl~~D~Ty~tn~~~~pl~~~--~g~~~~~~~~~~~~~~~--~~E~~e~~~w~l~~~~~~~~~~~~p~~iitD~d~ 205 (210)
++.+|+.+..|.-...-.-+ +-.++....+ ...+- ..-...-+.-++..|..+...+..+..|.||...
T Consensus 9 ~iytDGs~~~n~~~~~~aG~Gvv~~~~~~~~~--~~~l~~~~tn~~aEl~A~~~aL~~~~~~~~~~v~i~tDS~~ 81 (154)
T 2qkb_A 9 VVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNV--GIRLPGRQTNQRAEIHAACKAIEQAKTQNINKLVLYTNSMF 81 (154)
T ss_dssp EEEEEEEEETTTSSSCEEEEEEECSTTCTTCE--EEECCSSCCHHHHHHHHHHHHHHHHHHTTCCEEEEEESCHH
T ss_pred EEEEccCcCCCCCCCCcEEEEEEEECCCceeE--EeecCCCCchHHHHHHHHHHHHHHHHhCCCceEEEEECcHH
Confidence 67899998876422111111 1112222222 22221 1112223444555555554334566789999753
No 61
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens}
Probab=23.44 E-value=94 Score=18.35 Aligned_cols=43 Identities=7% Similarity=0.032 Sum_probs=25.3
Q ss_pred hhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHH
Q 040570 124 SAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALE 184 (210)
Q Consensus 124 ~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~ 184 (210)
+-.++|..|++|..+.-. ...|+ +-+|||+.=++.++-.-+++
T Consensus 23 ~l~~~F~~~G~i~~v~i~----------------~~~g~--~~g~afV~f~~~~~A~~Ai~ 65 (81)
T 2krb_A 23 VIHKIFSKFGKITNDFYP----------------EEDGK--TKGYIFLEYASPAHAVDAVK 65 (81)
T ss_dssp HHHHHHHTTCCEEEEECC----------------CBTTB--CCCEEEEEESSHHHHHHHHT
T ss_pred HHHHHHhhcCCeEEEEec----------------CCCCc--EeEEEEEEECCHHHHHHHHH
Confidence 346788999988775322 11122 23577887776666554444
No 62
>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=23.34 E-value=1e+02 Score=18.72 Aligned_cols=50 Identities=14% Similarity=0.073 Sum_probs=29.6
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKS 188 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~ 188 (210)
.+-+++|..|++|..+.-.... ....+-+||||.=++.++-.-+++.+-.
T Consensus 20 ~~l~~~f~~~G~v~~v~i~~~~----------------~~~~~~g~afV~f~~~~~a~~A~~~l~g 69 (95)
T 2dnz_A 20 DMLRGIFEPFGKIDNIVLMKDS----------------DTGRSKGYGFITFSDSECARRALEQLNG 69 (95)
T ss_dssp HHHHHHHTTTSCEEEEEEECCS----------------SSCCCCSEEEEEESCHHHHHHHHHHHTT
T ss_pred HHHHHHHHhcCCEeEEEEeecC----------------CCCceeeEEEEEECCHHHHHHHHHHhCC
Confidence 4456788889887664332111 1112335788887777777766665543
No 63
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1
Probab=23.31 E-value=1.4e+02 Score=18.53 Aligned_cols=50 Identities=6% Similarity=-0.007 Sum_probs=30.1
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKS 188 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~~ 188 (210)
.+-.++|..|++|..+.- .........-+||||.=++.+.-.-+++.+..
T Consensus 38 ~~l~~~f~~~G~i~~v~i----------------~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g 87 (106)
T 1p27_B 38 EDIHDKFAEYGEIKNIHL----------------NLDRRTGYLKGYTLVEYETYKEAQAAMEGLNG 87 (106)
T ss_dssp HHHHHHHGGGSCEEEEEE----------------EECTTTSSEEEEEEEEESCHHHHHHHHHHHTT
T ss_pred HHHHHHHhccCCeEEEEE----------------EecCCCCceeeEEEEEECCHHHHHHHHHHhcC
Confidence 344568888988765332 11112233457888887777777766665543
No 64
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens}
Probab=22.91 E-value=80 Score=21.75 Aligned_cols=43 Identities=21% Similarity=0.343 Sum_probs=30.9
Q ss_pred cCCCCHHHHHHHHHHHhCCCChHHHHHHHHHhCCCCcchHhHHhHHHHHH
Q 040570 30 AGILNKEKSNLLVDMSKNNVRPKDVLHVLKKRNMHNATTIRAIYNARQKY 79 (210)
Q Consensus 30 ~R~lt~~~k~~i~~l~~~g~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~ 79 (210)
.++++.+++..|..+...|.+.++|...+. +....|+++..++
T Consensus 23 ~~~~s~e~r~~ii~l~~~G~s~~~IA~~lg-------is~~TV~rwl~r~ 65 (159)
T 2k27_A 23 GRPLPEVVRQRIVDLAHQGVRPCDISRQLR-------VSHGCVSKILGRY 65 (159)
T ss_dssp SCSSCHHHHHHHHHHHHHTCCHHHHHHHHT-------CCSHHHHHHHCCS
T ss_pred CCCCCHHHHHHHHHHHHcCCCHHHHHHHHC-------cCHHHHHHHHHHH
Confidence 467999999999988888998888866652 3344566655543
No 65
>2m0n_A Putative uncharacterized protein; tuberculosis, structural genomics, seattle structural genomi for infectious disease, ssgcid; NMR {Mycobacterium abscessus}
Probab=22.69 E-value=1.8e+02 Score=19.40 Aligned_cols=49 Identities=12% Similarity=0.213 Sum_probs=27.1
Q ss_pred cCCCCHHHHHHHH-HHHhCC--------CChHHHHHHHHHhCCCCcchHhHHhHHHHHH
Q 040570 30 AGILNKEKSNLLV-DMSKNN--------VRPKDVLHVLKKRNMHNATTIRAIYNARQKY 79 (210)
Q Consensus 30 ~R~lt~~~k~~i~-~l~~~g--------~~p~~I~~~l~~~~~~~~~t~~di~N~~~k~ 79 (210)
.|+||+++..+|. .|.+.| +...+|...+.+-... ..+..||...+.++
T Consensus 38 ~R~LtdeEV~~Va~~L~~~~~~~~~~~~i~~~dI~v~It~VT~e-~P~peDI~RV~arL 95 (112)
T 2m0n_A 38 RRTLTEEQVQEVVAKLTDPESSAQIDGVVSKDEIEKFIADVTKD-EPTAQDISRVASRL 95 (112)
T ss_dssp CSSCCHHHHHHHHHHHTCTTTHHHHTSCCCTTHHHHHHHHTTTC-CCCHHHHHHHHHHH
T ss_pred hccCCHHHHHHHHHHHHhccCcccCCCCCCHHHHHHHHHHHhcc-CcCHHHHHHHHHHH
Confidence 6889998877765 454433 3345555555544432 34445554444443
No 66
>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=22.62 E-value=1.4e+02 Score=18.25 Aligned_cols=49 Identities=2% Similarity=-0.054 Sum_probs=29.8
Q ss_pred hhhHHHHHhCCcEE-EEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVL-IMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLK 187 (210)
Q Consensus 123 ~~~~~~~~~f~~vl-~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~ 187 (210)
.+-+++|..|++|. .+.-. ........-+||||.=++.+.-.-+++.+-
T Consensus 24 ~~l~~~F~~~G~i~~~v~i~----------------~~~~~g~~~g~afV~f~~~~~a~~A~~~l~ 73 (99)
T 2div_A 24 NFISRAFATMGETVMSVKII----------------RNRLTGIPAGYCFVEFADLATAEKCLHKIN 73 (99)
T ss_dssp HHHHHHHHHTTCCCCEEEEE----------------ECSSSCCEEEEEEEECSCHHHHHHHHHTTT
T ss_pred HHHHHHHHHhCCcceEEEEe----------------ecCCCCCcCCEEEEEeCCHHHHHHHHHHHc
Confidence 44567889998875 43321 111222345788888888887776665443
No 67
>1qbj_A Protein (double-stranded RNA specific adenosine D (ADAR1)); protein-Z-DNA complex, hydrolase-DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A 2l54_A
Probab=22.49 E-value=1.4e+02 Score=18.30 Aligned_cols=46 Identities=13% Similarity=0.201 Sum_probs=30.1
Q ss_pred HHHHHHHHHhCCCCcchHhHHhHHHHHHhhhhcccchHHHHHHHHhhccceeE
Q 040570 52 KDVLHVLKKRNMHNATTIRAIYNARQKYKVREQVGHSQMQLLMSKLIEQKYIE 104 (210)
Q Consensus 52 ~~I~~~l~~~~~~~~~t~~di~N~~~k~~~~~~~g~~~~~~L~~~l~~~~~~~ 104 (210)
.+|+.+|++..||..++..+|-....- .+..+..-+..|++.|.+.
T Consensus 13 ~~IL~~L~~~~pg~~~t~~eLA~~Lgv-------sr~tV~~~L~~Le~~G~I~ 58 (81)
T 1qbj_A 13 QRILKFLEELGEGKATTAHDLSGKLGT-------PKKEINRVLYSLAKKGKLQ 58 (81)
T ss_dssp HHHHHHHHHHCTTCCBCHHHHHHHHTC-------CHHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHcCCCCCcCHHHHHHHHCc-------CHHHHHHHHHHHHHCCCEE
Confidence 468888887776666777766443221 2345777788888887753
No 68
>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1
Probab=22.45 E-value=89 Score=15.89 Aligned_cols=28 Identities=11% Similarity=0.168 Sum_probs=21.2
Q ss_pred HHHHHHHHHhCCCChHHHHHHHHHhCCC
Q 040570 37 KSNLLVDMSKNNVRPKDVLHVLKKRNMH 64 (210)
Q Consensus 37 ~k~~i~~l~~~g~~p~~I~~~l~~~~~~ 64 (210)
..+.|..|.+-|.+..+....|+..+++
T Consensus 4 ~~~~i~~L~~mGf~~~~a~~AL~~~~~n 31 (40)
T 1z96_A 4 LNSKIAQLVSMGFDPLEAAQALDAANGD 31 (40)
T ss_dssp HHHHHHHHHHTTCCHHHHHHHHHHTTTC
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHcCCC
Confidence 3456777777899999998888876653
No 69
>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}
Probab=22.11 E-value=1.3e+02 Score=17.75 Aligned_cols=49 Identities=8% Similarity=0.018 Sum_probs=29.9
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLK 187 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~ 187 (210)
.+-+++|..|++|..+.-. ........-+||||.=++.+.-.-+++.+.
T Consensus 21 ~~l~~~F~~~G~i~~v~i~----------------~~~~~~~~~g~afV~f~~~~~A~~A~~~l~ 69 (87)
T 3bs9_A 21 AAIAAAFAPFGRISDARVV----------------KDMATGKSKGYGFVSFFNKWDAENAIQQMG 69 (87)
T ss_dssp HHHHHHHGGGSCEEEEEEE----------------ECTTTCCEEEEEEEEESSHHHHHHHHHHHT
T ss_pred HHHHHHHHhcCCEeEEEEE----------------ecCCCCccceEEEEEECCHHHHHHHHHHcC
Confidence 3456688888887654321 111223355788888787777776666554
No 70
>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A
Probab=21.69 E-value=2e+02 Score=19.77 Aligned_cols=49 Identities=12% Similarity=0.060 Sum_probs=29.6
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLK 187 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~ 187 (210)
.+-.++|..|++|..+.-. .......+-+||||.=++.+.-.-+++.+-
T Consensus 87 ~~L~~~F~~~G~i~~v~i~----------------~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~ 135 (165)
T 1rk8_A 87 DEIQEKFCDYGEIKNIHLN----------------LDRRTGFSKGYALVEYETHKQALAAKEALN 135 (165)
T ss_dssp HHHHHHHGGGSCEEEEEEE----------------ECTTTSSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred HHHHHHhhcCCCEEEEEEE----------------ecCCCCcEeeEEEEEECCHHHHHHHHHHhC
Confidence 3445688899988653321 111222345788888777777776666543
No 71
>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A
Probab=21.55 E-value=1.6e+02 Score=18.62 Aligned_cols=49 Identities=10% Similarity=0.185 Sum_probs=29.6
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLK 187 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~ 187 (210)
.+-+++|..|++|..+.-. ........-+||||.=++.+.-.-+++.+-
T Consensus 40 ~~l~~~F~~~G~i~~v~i~----------------~~~~~g~~~g~afV~f~~~~~a~~A~~~l~ 88 (115)
T 2cpz_A 40 QDLLQMFMPFGNVVSAKVF----------------IDKQTNLSKCFGFVSYDNPVSAQAAIQSMN 88 (115)
T ss_dssp HHHHHHHGGGSCCSEEEEE----------------ECSSSCSEEEEEEEECSSHHHHHHHHHHHT
T ss_pred HHHHHHHHhcCCeEEEEEE----------------ECCCCCCcCccEEEEECCHHHHHHHHHHcC
Confidence 4455688888876543211 111123345788888888888777766553
No 72
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens}
Probab=21.48 E-value=1.3e+02 Score=18.97 Aligned_cols=44 Identities=7% Similarity=0.032 Sum_probs=26.8
Q ss_pred hHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHH
Q 040570 125 AIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERL 186 (210)
Q Consensus 125 ~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~ 186 (210)
-.++|..|+.|..+.-. ...|+ +-+||||.=++.++-.-+++.+
T Consensus 38 l~~~F~~~G~v~~v~i~----------------~~~g~--~~G~afV~f~~~~~A~~Ai~~l 81 (105)
T 2nlw_A 38 IHKIFSKFGKITNDFYP----------------EEDGK--TKGYIFLEYASPAHAVDAVKNA 81 (105)
T ss_dssp HHHHHGGGSCEEEEECC----------------CBTTB--SCCEEEEEECSSSHHHHHHHHC
T ss_pred HHHHHhcCCCEEEEEee----------------CCCCC--eeeEEEEEECCHHHHHHHHHHh
Confidence 56788999998775322 11222 2257777777777766555543
No 73
>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1
Probab=20.97 E-value=1.8e+02 Score=19.12 Aligned_cols=49 Identities=12% Similarity=0.092 Sum_probs=29.7
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLK 187 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~ 187 (210)
.+-.++|..|++|..+.- +........-+||||.=++.++-.-+++.+.
T Consensus 57 ~~l~~~F~~~G~i~~v~i----------------~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~ 105 (139)
T 1u6f_A 57 VQLRQLFERYGPIESVKI----------------VCDRETRQSRGYGFVKFQSGSSAQQAIAGLN 105 (139)
T ss_dssp HHHHHHHHHHSCEEEEEE----------------EEETTTTEEEEEEEEEESSHHHHHHHHHHTT
T ss_pred HHHHHHHHhcCCeEEEEE----------------EEcCCCCCcceEEEEEECCHHHHHHHHHHhC
Confidence 345568888888765331 1111223445788888787777776666543
No 74
>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*
Probab=20.77 E-value=2e+02 Score=19.45 Aligned_cols=57 Identities=16% Similarity=0.163 Sum_probs=29.4
Q ss_pred HHHhCCCCh----HHHHHHHHHhCCCCcchHhHHhHHHHHHhhhhcccchHHHHHHHHhhcccee
Q 040570 43 DMSKNNVRP----KDVLHVLKKRNMHNATTIRAIYNARQKYKVREQVGHSQMQLLMSKLIEQKYI 103 (210)
Q Consensus 43 ~l~~~g~~p----~~I~~~l~~~~~~~~~t~~di~N~~~k~~~~~~~g~~~~~~L~~~l~~~~~~ 103 (210)
.|.+.|++. ..|++.|.+.. ..++..+|+....+.. ..-+.+.+-.-++.|.+.|..
T Consensus 12 ~l~~~g~r~T~qR~~Il~~L~~~~--~~~sa~ei~~~l~~~~--~~is~aTVYR~L~~L~e~Glv 72 (145)
T 2fe3_A 12 TLKETGVRITPQRHAILEYLVNSM--AHPTADDIYKALEGKF--PNMSVATVYNNLRVFRESGLV 72 (145)
T ss_dssp HHHHTTCCCCHHHHHHHHHHHHCS--SCCCHHHHHHHHGGGC--TTCCHHHHHHHHHHHHHTTSE
T ss_pred HHHHcCCCCCHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhC--CCCChhhHHHHHHHHHHCCCE
Confidence 355666542 24566665432 2466777766543211 111333455556667777764
No 75
>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*
Probab=20.76 E-value=2.1e+02 Score=20.48 Aligned_cols=49 Identities=12% Similarity=0.123 Sum_probs=31.3
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLK 187 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~ 187 (210)
.+-+++|..|++|..+.-. ........-+||||.=++.++-..+++.+.
T Consensus 30 ~~L~~~F~~~G~I~~v~i~----------------~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~ 78 (213)
T 4f02_A 30 AMLYEKFSPAGPILSIRVC----------------RDMITRRSLGYAYVNFQQPADAERALDTMN 78 (213)
T ss_dssp HHHHHHHGGGSCEEEEEEE----------------ECTTTCCEEEEEEEEESSHHHHHHHHHHHT
T ss_pred HHHHHHHHhhCCEEEEEEe----------------cccCCCCccccccceeCCHHHHHHHHHHhh
Confidence 4455788999988764321 111223356788888888888877776553
No 76
>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A
Probab=20.66 E-value=1.7e+02 Score=18.49 Aligned_cols=49 Identities=8% Similarity=-0.015 Sum_probs=30.0
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLK 187 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~~ 187 (210)
.+-+++|..|+.|..+.-.. .......-+||||.=++.+.-.-+++.+.
T Consensus 30 ~~l~~~F~~~G~i~~v~i~~----------------~~~~~~~~g~afV~f~~~~~a~~A~~~l~ 78 (115)
T 2dgo_A 30 EDIKAAFAPFGRISDARVVK----------------DMATGKSKGYGFVSFFNKWDAENAIQQMG 78 (115)
T ss_dssp HHHHHHHGGGSCEEEEEEEE----------------CTTTCCEEEEEEEEESSHHHHHHHHHHTT
T ss_pred HHHHHHHHhcCCeEEEEEEE----------------cCCCCCcceEEEEEECCHHHHHHHHHHhC
Confidence 34567888998876533211 11122345788888788787776666544
No 77
>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli}
Probab=20.60 E-value=1.5e+02 Score=17.68 Aligned_cols=16 Identities=0% Similarity=0.164 Sum_probs=10.0
Q ss_pred hHHHHHHHHhhcccee
Q 040570 88 SQMQLLMSKLIEQKYI 103 (210)
Q Consensus 88 ~~~~~L~~~l~~~~~~ 103 (210)
+.+-..++.|.+.|..
T Consensus 53 ~TVyR~L~~L~~~Glv 68 (83)
T 2fu4_A 53 ATVYRVLNQFDDAGIV 68 (83)
T ss_dssp HHHHHHHHHHHHHTSE
T ss_pred hhHHHHHHHHHHCCCe
Confidence 3455566677777765
No 78
>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=20.36 E-value=1.6e+02 Score=18.11 Aligned_cols=48 Identities=8% Similarity=0.043 Sum_probs=28.5
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERL 186 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~ 186 (210)
.+-.++|..|++|..+.- ........+-+||||.=++.++-.-+++.+
T Consensus 23 ~~l~~~f~~~G~i~~~~i----------------~~~~~~g~~~g~afV~f~~~~~a~~A~~~l 70 (104)
T 1p1t_A 23 EQLKDIFSEVGPVVSFRL----------------VYDRETGKPKGYGFCEYQDQETALSAMRNL 70 (104)
T ss_dssp HHHHHHHHTTSCCSEEEE----------------EEETTTTEEEEEEEEECSCHHHHHHHHHHS
T ss_pred HHHHHHHHhcCCeeEEEE----------------EeCCCCCccceEEEEEECCHHHHHHHHHHh
Confidence 344568888887654221 111112345578888888888777666554
No 79
>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=20.25 E-value=1.5e+02 Score=17.80 Aligned_cols=48 Identities=13% Similarity=0.071 Sum_probs=29.4
Q ss_pred hhhHHHHHhCCcEEEEecccccCcCCCceeeEEeeecCCceEEEEEEeecCccchhHHHHHHHH
Q 040570 123 PSAIELLQAFPRVLIMDCTYKTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERL 186 (210)
Q Consensus 123 ~~~~~~~~~f~~vl~~D~Ty~tn~~~~pl~~~~g~~~~~~~~~~~~~~~~~E~~e~~~w~l~~~ 186 (210)
.+-.++|..|++|..+.-.. ......+-+||||.=++.+.-.-+++.+
T Consensus 30 ~~l~~~f~~~G~v~~v~i~~----------------~~~~~~~~g~afV~f~~~~~A~~A~~~l 77 (95)
T 2cqc_A 30 RDLREVFSKYGPIADVSIVY----------------DQQSRRSRGFAFVYFENVDDAKEAKERA 77 (95)
T ss_dssp HHHHHHHHTTSCEEEEEEEE----------------CSSSSSEEEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCeeEEEEEE----------------cCCCCCcccEEEEEECCHHHHHHHHHHh
Confidence 45567889999876543211 1111234578888877777777666655
Done!