Query 039425
Match_columns 413
No_of_seqs 260 out of 1570
Neff 8.8
Searched_HMMs 29240
Date Mon Mar 25 16:16:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039425.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/039425hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3hot_A Transposable element ma 91.9 4.1 0.00014 38.0 15.0 47 22-68 9-55 (345)
2 2xzm_O RPS13E; ribosome, trans 77.5 3.9 0.00013 33.3 5.4 37 14-50 24-61 (153)
3 3kks_A Integrase, IN; beta-str 77.3 6.9 0.00024 31.1 7.2 66 120-196 2-67 (152)
4 3u5c_N S27A, YS15, 40S ribosom 76.3 4 0.00014 33.2 5.1 37 14-50 22-59 (151)
5 1tc3_C Protein (TC3 transposas 72.0 5.4 0.00019 24.8 4.3 43 18-67 4-46 (51)
6 3j20_Q 30S ribosomal protein S 71.6 5 0.00017 32.9 4.7 38 13-50 21-59 (158)
7 3hph_A Integrase, IN; protein- 63.7 19 0.00066 30.7 7.4 66 121-197 61-126 (219)
8 1cxq_A Avian sarcoma virus int 63.6 29 0.001 27.9 8.2 70 121-196 12-81 (162)
9 1pdn_C Protein (PRD paired); p 62.7 15 0.00053 28.0 6.0 45 17-68 15-59 (128)
10 2nrr_A Uvrabc system protein C 62.0 13 0.00045 30.7 5.4 63 122-203 38-100 (159)
11 1c0m_A Protein (integrase); HI 61.0 30 0.001 30.2 8.3 70 121-196 11-80 (238)
12 1u78_A TC3 transposase, transp 60.4 16 0.00056 28.6 5.9 44 17-67 4-47 (141)
13 1k78_A Paired box protein PAX5 58.4 19 0.00066 28.8 6.0 45 17-68 30-74 (149)
14 2kw0_A CCMH protein; oxidoredu 57.9 5.4 0.00018 29.6 2.2 35 19-53 40-74 (90)
15 2nrt_A Uvrabc system protein C 57.2 21 0.0007 31.2 6.2 63 122-203 43-105 (220)
16 1bco_A MUA domain II, bacterio 55.5 36 0.0012 31.4 8.1 71 120-194 16-94 (327)
17 3ulq_B Transcriptional regulat 54.4 38 0.0013 24.7 6.6 47 16-70 26-72 (90)
18 2hl7_A Cytochrome C-type bioge 54.3 9.5 0.00033 27.9 3.0 35 19-53 43-77 (84)
19 1g2y_A Hepatocyte nuclear fact 53.1 7.6 0.00026 22.4 1.8 28 18-45 3-30 (32)
20 3f2k_A Histone-lysine N-methyl 50.1 1E+02 0.0035 26.4 9.9 63 129-194 64-135 (226)
21 2m0n_A Putative uncharacterize 49.6 41 0.0014 25.8 6.0 51 16-67 37-96 (112)
22 1mzb_A Ferric uptake regulatio 49.4 37 0.0013 26.9 6.2 46 18-65 14-62 (136)
23 3l3u_A POL polyprotein; DNA in 48.1 51 0.0018 26.3 7.2 65 120-195 9-73 (163)
24 2fu4_A Ferric uptake regulatio 47.2 47 0.0016 23.4 6.0 31 19-49 14-47 (83)
25 2k27_A Paired box protein PAX- 46.9 25 0.00084 28.5 4.9 54 17-70 81-139 (159)
26 1k78_A Paired box protein PAX5 46.1 38 0.0013 26.9 5.9 52 17-68 88-144 (149)
27 2elh_A CG11849-PA, LD40883P; s 46.1 37 0.0013 24.4 5.3 45 17-68 20-64 (87)
28 1jko_C HIN recombinase, DNA-in 43.8 16 0.00056 22.7 2.7 41 18-65 4-44 (52)
29 2k27_A Paired box protein PAX- 43.6 19 0.00064 29.3 3.7 44 17-67 23-66 (159)
30 1je8_A Nitrate/nitrite respons 43.3 80 0.0027 22.2 6.7 46 17-70 19-64 (82)
31 2kvc_A Putative uncharacterize 42.0 36 0.0012 25.7 4.6 49 17-66 36-86 (103)
32 2x78_A Integrase; viral protei 41.7 72 0.0025 26.4 7.3 69 121-196 14-83 (200)
33 2fe3_A Peroxide operon regulat 41.5 67 0.0023 25.6 6.7 15 75-89 57-71 (145)
34 2o8x_A Probable RNA polymerase 41.1 70 0.0024 21.2 5.9 46 17-69 13-58 (70)
35 3c65_A Uvrabc system protein C 39.9 43 0.0015 29.3 5.5 63 122-202 35-102 (226)
36 3c57_A Two component transcrip 39.7 69 0.0024 23.4 6.0 45 17-69 25-69 (95)
37 1pdn_C Protein (PRD paired); p 39.2 30 0.001 26.3 4.1 48 16-65 72-126 (128)
38 2lky_A Uncharacterized protein 37.9 37 0.0013 26.1 4.1 48 17-65 38-87 (112)
39 2w57_A Ferric uptake regulatio 37.4 39 0.0013 27.3 4.6 44 19-64 14-60 (150)
40 1fse_A GERE; helix-turn-helix 37.0 94 0.0032 20.8 6.3 48 15-70 7-54 (74)
41 2xv9_A ABA-1A1 repeat UNIT; li 36.3 32 0.0011 27.4 3.7 33 17-49 18-50 (134)
42 2glo_A Brinker CG9653-PA; prot 36.0 33 0.0011 22.6 3.3 48 17-67 3-50 (59)
43 1p4w_A RCSB; solution structur 35.9 1.1E+02 0.0037 22.7 6.6 46 17-70 32-77 (99)
44 1q08_A Zn(II)-responsive regul 35.1 1.1E+02 0.0036 22.4 6.5 24 25-48 6-29 (99)
45 1q1v_A DEK protein; winged-hel 35.1 8.8 0.0003 27.0 0.2 45 7-55 4-52 (70)
46 1q06_A Transcriptional regulat 33.1 1.3E+02 0.0044 23.6 7.0 33 17-49 36-71 (135)
47 3ol3_A Putative uncharacterize 30.8 65 0.0022 24.5 4.4 48 17-65 41-94 (107)
48 3mzy_A RNA polymerase sigma-H 30.6 78 0.0027 24.9 5.5 42 19-68 109-150 (164)
49 3hug_A RNA polymerase sigma fa 30.5 1.2E+02 0.0042 21.6 6.0 29 18-46 36-64 (92)
50 2xig_A Ferric uptake regulatio 30.3 85 0.0029 25.2 5.6 61 26-90 13-77 (150)
51 2qh9_A UPF0215 protein AF_1433 29.1 1.5E+02 0.0052 24.8 7.0 68 121-193 8-75 (184)
52 2o03_A Probable zinc uptake re 27.3 52 0.0018 25.7 3.6 44 19-64 8-53 (131)
53 1z96_A DNA-damage, UBA-domain 27.1 87 0.003 18.5 3.9 29 22-50 2-30 (40)
54 1irz_A ARR10-B; helix-turn-hel 27.1 1.3E+02 0.0044 20.6 5.0 44 22-69 13-59 (64)
55 3av9_A Integrase, IN; protein- 26.7 1.1E+02 0.0037 25.0 5.8 66 120-196 29-94 (183)
56 2rnj_A Response regulator prot 26.1 94 0.0032 22.3 4.7 46 17-70 27-72 (91)
57 3eyy_A Putative iron uptake re 26.1 1.5E+02 0.005 23.5 6.3 14 76-89 54-67 (145)
58 1u78_A TC3 transposase, transp 26.0 89 0.0031 24.1 4.9 46 17-67 58-104 (141)
59 3gp4_A Transcriptional regulat 25.7 1.7E+02 0.0057 23.2 6.5 32 17-48 38-72 (142)
60 2x48_A CAG38821; archeal virus 25.3 73 0.0025 20.2 3.5 38 19-63 13-52 (55)
61 1wgn_A UBAP1, ubiquitin associ 24.6 71 0.0024 21.7 3.2 34 18-51 13-46 (63)
62 2jn6_A Protein CGL2762, transp 24.4 1.2E+02 0.0042 21.8 5.1 44 18-68 4-49 (97)
63 1x3u_A Transcriptional regulat 24.0 1.1E+02 0.0037 20.9 4.6 44 19-70 16-59 (79)
64 4ets_A Ferric uptake regulatio 24.0 1.4E+02 0.0046 24.4 5.7 59 28-90 21-85 (162)
65 2guk_A Hypothetical protein PG 23.8 1.1E+02 0.0039 23.6 4.7 61 58-119 19-81 (120)
66 2zhg_A Redox-sensitive transcr 23.5 1.6E+02 0.0055 23.7 6.0 32 17-48 46-80 (154)
67 1pzx_A Hypothetical protein AP 23.3 4E+02 0.014 23.8 9.6 39 26-64 133-173 (289)
68 3fdj_A DEGV family protein; GU 23.0 4E+02 0.014 23.7 9.6 40 25-64 126-167 (278)
69 3c3w_A Two component transcrip 22.8 1.4E+02 0.0048 25.1 5.9 45 18-70 148-192 (225)
70 2jpc_A SSRB; DNA binding prote 22.6 1.4E+02 0.0047 19.1 4.6 37 27-70 5-41 (61)
71 3mwm_A ZUR, putative metal upt 22.2 65 0.0022 25.5 3.3 44 19-64 11-56 (139)
72 2bw3_A Transposase; DNA recomb 21.5 2E+02 0.0067 28.2 7.5 67 150-221 131-201 (534)
73 1s7o_A Hypothetical UPF0122 pr 21.2 1.9E+02 0.0064 21.9 5.7 29 18-46 21-49 (113)
74 1mus_A TN5 transposase; hairpi 21.1 4.7E+02 0.016 25.4 9.8 65 132-199 120-198 (477)
75 1a04_A Nitrate/nitrite respons 20.6 1.6E+02 0.0054 24.4 5.8 45 18-70 153-197 (215)
76 1c6v_A Protein (SIV integrase) 20.3 1.5E+02 0.0053 23.0 5.4 64 120-194 9-72 (164)
No 1
>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=91.85 E-value=4.1 Score=37.99 Aligned_cols=47 Identities=9% Similarity=0.068 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhh
Q 039425 22 KEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKV 68 (413)
Q Consensus 22 ~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~ 68 (413)
.+.+..|..+...|.+.++|...|.+.+|...++.+.|++..++.+.
T Consensus 9 ~~~R~~i~~~~~~G~s~~~~~~~l~~~~g~~~vs~~tv~~w~~r~~~ 55 (345)
T 3hot_A 9 EQTRTVLIFCFHLKKTAAESHRMLVEAFGEQVPTVKTCERWFQRFKS 55 (345)
T ss_dssp HHHHHHHHHHHHTTCCHHHHHHHHHHHTCSCSCCHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHhCCCCCcHHHHHHHHHHHhC
Confidence 35677888899999999999999999998666889999999888664
No 2
>2xzm_O RPS13E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_O 1ysh_E 3jyv_O* 1s1h_O
Probab=77.48 E-value=3.9 Score=33.26 Aligned_cols=37 Identities=16% Similarity=0.187 Sum_probs=30.5
Q ss_pred cccCCCCCHH-HHHHHHHHHhCCCChHHHHHHHHhcCC
Q 039425 14 HSFAGILNKE-KSNLLVDMSKNNVRPKDILHVLKKRNM 50 (413)
Q Consensus 14 hp~~rrlt~~-~~~~i~~L~~~g~~~~~I~~~l~~~~~ 50 (413)
.|..-.++++ ..+.|..|...|++|++|--+|++++|
T Consensus 24 ~P~W~~~~~eeVe~~I~klakkG~tpSqIG~iLRD~~G 61 (153)
T 2xzm_O 24 SPKWLHMTPSTVVDLSVKLAKKGLTPSQIGVILRDQHG 61 (153)
T ss_dssp CCSSCCCCHHHHHHHHHHHHHTTCCHHHHHHHHHHSSC
T ss_pred CCccccCCHHHHHHHHHHHHHCCCCHHHhhhHHhhcCC
Confidence 3455556655 578899999999999999999999985
No 3
>3kks_A Integrase, IN; beta-strands flanked by alpha-helices, DNA binding protein; 2.20A {Bovine immunodeficiency virus} PDB: 3kkr_A
Probab=77.28 E-value=6.9 Score=31.13 Aligned_cols=66 Identities=11% Similarity=-0.034 Sum_probs=43.8
Q ss_pred CCEEEeeccccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccceEEEeccchHHHH
Q 039425 120 PRVLIMDCTYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELALMT 196 (413)
Q Consensus 120 ~~vl~iD~Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~~iitD~~~al~~ 196 (413)
.+++.+|.|+..+ .+.++.+|...+.. +++.+ .+++.+....+|..+.... + |+.|.||......+
T Consensus 2 n~~w~~D~t~~~~-----~y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~---g-p~~i~sDnG~~f~s 67 (152)
T 3kks_A 2 SHLWQMDNTHWNK-----TIIWVAVETNSGLV-EAQVI-PEETALQVALCILQLIQRY---T-VLHLHSDNGPCFTA 67 (152)
T ss_dssp CCEEEEEEEEETT-----EEEEEEEETTTCCE-EEEEE-SSSCHHHHHHHHHHHHHHS---C-CSEEEECSCHHHHS
T ss_pred CcEEEEeeeeeCC-----EEEEEEEEcCCCcE-EEEEe-CCcCHHHHHHHHHHHHHHh---C-CcEEecCCchHhhH
Confidence 4688899998733 25666677666554 55544 4666666655555444442 3 99999999988764
No 4
>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=76.26 E-value=4 Score=33.16 Aligned_cols=37 Identities=16% Similarity=0.148 Sum_probs=30.7
Q ss_pred cccCCCCCHH-HHHHHHHHHhCCCChHHHHHHHHhcCC
Q 039425 14 HSFAGILNKE-KSNLLVDMSKNNVRPKDILHVLKKRNM 50 (413)
Q Consensus 14 hp~~rrlt~~-~~~~i~~L~~~g~~~~~I~~~l~~~~~ 50 (413)
.|..-.++++ ..+.|..|...|++|++|--+|++++|
T Consensus 22 ~P~W~~~~~eeVe~~I~klakkG~tpSqIG~iLRD~~G 59 (151)
T 3u5c_N 22 APAWFKLSSESVIEQIVKYARKGLTPSQIGVLLRDAHG 59 (151)
T ss_dssp CCSSCCSCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred CCCCcCCCHHHHHHHHHHHHHCCCCHHHhhhHHhccCC
Confidence 4555566655 578899999999999999999999985
No 5
>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=72.03 E-value=5.4 Score=24.79 Aligned_cols=43 Identities=14% Similarity=0.047 Sum_probs=33.4
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhh
Q 039425 18 GILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYK 67 (413)
Q Consensus 18 rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~ 67 (413)
+.++++++..|..+...|++.++|...+. ++...|++...+.+
T Consensus 4 ~~l~~~~~~~i~~~~~~g~s~~~IA~~lg-------is~~Tv~~~~~~~~ 46 (51)
T 1tc3_C 4 SALSDTERAQLDVMKLLNVSLHEMSRKIS-------RSRHCIRVYLKDPV 46 (51)
T ss_dssp CCCCHHHHHHHHHHHHTTCCHHHHHHHHT-------CCHHHHHHHHHCST
T ss_pred CCCCHHHHHHHHHHHHcCCCHHHHHHHHC-------cCHHHHHHHHhhHH
Confidence 46889999999999999999999887652 45667777766543
No 6
>3j20_Q 30S ribosomal protein S15P/S13E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=71.62 E-value=5 Score=32.95 Aligned_cols=38 Identities=18% Similarity=0.124 Sum_probs=31.1
Q ss_pred ccccCCCCCHH-HHHHHHHHHhCCCChHHHHHHHHhcCC
Q 039425 13 GHSFAGILNKE-KSNLLVDMSKNNVRPKDILHVLKKRNM 50 (413)
Q Consensus 13 ~hp~~rrlt~~-~~~~i~~L~~~g~~~~~I~~~l~~~~~ 50 (413)
..|..-.++++ ..+.|..|...|++|++|-.+|++++|
T Consensus 21 ~~P~W~~~~~eev~~~i~klakkG~~pSqIG~~LRD~~g 59 (158)
T 3j20_Q 21 APPIWVEYTVEEIENLVVKLRKEGYSTAMIGTILRDQYG 59 (158)
T ss_dssp SCCSSSCCCHHHHHHHHHHHHHHTCCHHHHHHHHHHTTC
T ss_pred CCCCCcCCCHHHHHHHHHHHHHCCCCHHHhhHHHhccCC
Confidence 34555666655 577899999999999999999999984
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=63.66 E-value=19 Score=30.75 Aligned_cols=66 Identities=9% Similarity=0.025 Sum_probs=43.1
Q ss_pred CEEEeeccccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccceEEEeccchHHHHH
Q 039425 121 RVLIMDCTYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELALMTV 197 (413)
Q Consensus 121 ~vl~iD~Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~~iitD~~~al~~A 197 (413)
+++.+|-|+..++ +.++.+|...+.. .++. +.+++.+....++..+.... + |..|.||......+.
T Consensus 61 ~~w~~D~t~~~~~-----y~~~~iD~~Sr~~-~~~~-~~~~~~~~~~~~l~~~~~~~---g-p~~i~sDnG~~F~s~ 126 (219)
T 3hph_A 61 DHWQVDYTHYEDK-----IILVWVETNSGLI-YAER-VKGETGQEFRVQTMKWYAMF---A-PKSLQSDNGPAFVAE 126 (219)
T ss_dssp CEEEEEEEEETTE-----EEEEEEETTTCCE-EEEE-ESCCCHHHHHHHHHHHHHHH---C-CCEEEECCCHHHHSH
T ss_pred ceEEEEEecCCCE-----EEEEEEeCCCCcE-EEEE-eCCCCHHHHHHHHHHHHHHh---C-CcEEEeCCCchhhhH
Confidence 6788898865432 5666677776655 4444 45666666555555444443 3 999999999887643
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=63.65 E-value=29 Score=27.91 Aligned_cols=70 Identities=10% Similarity=-0.066 Sum_probs=45.4
Q ss_pred CEEEeeccccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccceEEEeccchHHHH
Q 039425 121 RVLIMDCTYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELALMT 196 (413)
Q Consensus 121 ~vl~iD~Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~~iitD~~~al~~ 196 (413)
+++.+|-|+.....+ ..+.++.+|...+. ++++.+- +.+.+....+|+.+.... ..|..|.||......+
T Consensus 12 ~~~~~D~~~~~~~~g-~~yl~~~iD~~Sr~-i~~~~~~-~~~~~~v~~~l~~~~~~~---g~p~~i~sDnG~~f~s 81 (162)
T 1cxq_A 12 QIWQTDFTLEPRMAP-RSWLAVTVDTASSA-IVVTQHG-RVTSVAAQHHWATAIAVL---GRPKAIKTDNGSCFTS 81 (162)
T ss_dssp CEEEEEEEECGGGTT-SCEEEEEEETTTCC-EEEEEES-SCCHHHHHHHHHHHHHHH---CCCSEEECCSCHHHHS
T ss_pred CEEEeeeeecccCCC-CEEEEEEEEcCCCe-EEEEECC-CccHHHHHHHHHHHHHHH---CCCeEEEeCCchhhhh
Confidence 588999988654333 35666667766554 4566554 566665555555444443 4588999999988764
No 9
>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=62.73 E-value=15 Score=28.03 Aligned_cols=45 Identities=18% Similarity=0.271 Sum_probs=36.3
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhh
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKV 68 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~ 68 (413)
.++++.+++..|..|...|.+.++|...+. ++...|++..++.+.
T Consensus 15 ~~~~s~~~r~~i~~~~~~g~s~~~ia~~lg-------is~~Tv~~w~~~~~~ 59 (128)
T 1pdn_C 15 GRPLPNNIRLKIVEMAADGIRPCVISRQLR-------VSHGCVSKILNRYQE 59 (128)
T ss_dssp TSCCCHHHHHHHHHHHHTTCCHHHHHHHHT-------CCHHHHHHHHHHHHH
T ss_pred CCcCCHHHHHHHHHHHHcCCCHHHHHHHHC-------cCHHHHHHHHHHHHh
Confidence 357899999999999999999999887663 467788888776543
No 10
>2nrr_A Uvrabc system protein C; UVRC, endonuclase, NER, hydrolase; 1.20A {Thermotoga maritima}
Probab=62.02 E-value=13 Score=30.66 Aligned_cols=63 Identities=11% Similarity=0.126 Sum_probs=44.6
Q ss_pred EEEeeccccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccceEEEeccchHHHHHHHHh
Q 039425 122 VLIMDCTYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELALMTVIQKH 201 (413)
Q Consensus 122 vl~iD~Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~~iitD~~~al~~Ai~~v 201 (413)
|++.|+...++.|+- |-+-. +..+.|.-+-+.+.+.+.....|..|+.|+-++..+|..++
T Consensus 38 VVf~~g~p~K~~YRr------------------f~I~~-~g~DDya~M~Evl~RR~~r~~~PDLilIDGGkgQl~aA~~v 98 (159)
T 2nrr_A 38 VVFEDGFPKKGDYRR------------------YKIEQ-DHPDDYESIRTVVKRRYSKHPLPNLLFVDGGIGQVNAAIEA 98 (159)
T ss_dssp EEEETTEECGGGCEE------------------EEC------CHHHHHHHHHHHHHTTSCCCSEEEESSCHHHHHHHHHH
T ss_pred EEEeCCccChhhCce------------------eecCC-CCCCHHHHHHHHHHHHhccCCCCCEEEEeCCHHHHHHHHHH
Confidence 677788877777653 11111 22478887777777777434679999999999999999998
Q ss_pred CC
Q 039425 202 FP 203 (413)
Q Consensus 202 fP 203 (413)
+-
T Consensus 99 l~ 100 (159)
T 2nrr_A 99 LK 100 (159)
T ss_dssp HH
T ss_pred HH
Confidence 74
No 11
>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=60.98 E-value=30 Score=30.16 Aligned_cols=70 Identities=10% Similarity=-0.074 Sum_probs=46.7
Q ss_pred CEEEeeccccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccceEEEeccchHHHH
Q 039425 121 RVLIMDCTYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELALMT 196 (413)
Q Consensus 121 ~vl~iD~Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~~iitD~~~al~~ 196 (413)
+++.+|.|+.....+ ..+.++.+|...+ .++++.+- +++.+....+|....... ..|.+|.||......+
T Consensus 11 ~~w~~D~~~~~~~~g-~~yl~~~iD~~Sr-~i~~~~~~-~~~~~~v~~~l~~~~~~~---g~p~~i~sDnG~~f~s 80 (238)
T 1c0m_A 11 QIWQTDFTLEPRMAP-RSWLAVTVDTASS-AIVVTQHG-RVTSVAVQHHWATAIAVL---GRPKAIKTDNGSCFTS 80 (238)
T ss_dssp SEEEEEEEECGGGCS-SCEEEEEEETTTC-CEEEEEES-SCCHHHHHHHHHHHHHHH---CCCSEEEECSCHHHHS
T ss_pred CEEEEeeccccccCC-CEEEEEEEECCCC-CEEEEEcc-CCCHHHHHHHHHHHHHHh---CCCcEEEECCCCcccc
Confidence 589999998654333 3556666676554 44566654 677666666665555543 3589999999988754
No 12
>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=60.43 E-value=16 Score=28.60 Aligned_cols=44 Identities=14% Similarity=0.049 Sum_probs=36.3
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhh
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYK 67 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~ 67 (413)
.+.++.+++..|..|.+.|.+.++|...+. ++...|++..++..
T Consensus 4 ~~~~s~~~r~~i~~~~~~G~s~~~ia~~lg-------is~~Tv~r~~~~~~ 47 (141)
T 1u78_A 4 GSALSDTERAQLDVMKLLNVSLHEMSRKIS-------RSRHCIRVYLKDPV 47 (141)
T ss_dssp SCCCCHHHHHHHHHHHHTTCCHHHHHHHHT-------CCHHHHHHHHHSGG
T ss_pred cccCCHHHHHHHHHHHHcCCCHHHHHHHHC-------cCHHHHHHHHHccc
Confidence 467899999999999999999999988772 56788888877543
No 13
>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=58.40 E-value=19 Score=28.77 Aligned_cols=45 Identities=20% Similarity=0.285 Sum_probs=36.9
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhh
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKV 68 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~ 68 (413)
.++++.+++..|..+...|.+.++|...+. ++...|++..++.+.
T Consensus 30 ~~~~s~e~r~~iv~~~~~G~s~~~iA~~lg-------is~~TV~rw~~~~~~ 74 (149)
T 1k78_A 30 GRPLPDVVRQRIVELAHQGVRPCDISRQLR-------VSHGCVSKILGRYYE 74 (149)
T ss_dssp TSCCCHHHHHHHHHHHHTTCCHHHHHHHHT-------CCHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHcCCCHHHHHHHHC-------cCHHHHHHHHHHHHH
Confidence 467999999999999999999999988762 567888888777643
No 14
>2kw0_A CCMH protein; oxidoreductase, cytochrome C maturation; NMR {Escherichia coli}
Probab=57.93 E-value=5.4 Score=29.58 Aligned_cols=35 Identities=9% Similarity=0.182 Sum_probs=30.6
Q ss_pred CCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCC
Q 039425 19 ILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNA 53 (413)
Q Consensus 19 rlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~ 53 (413)
.+..+.+..|.++...|-+..+|++++...||..+
T Consensus 40 ~iA~dlR~~Vre~l~~G~Sd~eI~~~mv~RYGdfV 74 (90)
T 2kw0_A 40 MIATDLRQKVYELMQEGKSKKEIVDYMVARYGNFV 74 (90)
T ss_dssp HHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHTTTC
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCCeE
Confidence 34567899999999999999999999999998754
No 15
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A
Probab=57.16 E-value=21 Score=31.23 Aligned_cols=63 Identities=11% Similarity=0.126 Sum_probs=46.7
Q ss_pred EEEeeccccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccceEEEeccchHHHHHHHHh
Q 039425 122 VLIMDCTYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELALMTVIQKH 201 (413)
Q Consensus 122 vl~iD~Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~~iitD~~~al~~Ai~~v 201 (413)
|++-|+-..++.|+- |-+-. +..+.|.-+-+.+.+.+.....|..|+.|+-++..+|..++
T Consensus 43 Vvf~~g~p~k~~YRr------------------f~i~~-~g~DDya~m~Evl~RR~~r~~~PDLiliDGGkgQl~~a~~v 103 (220)
T 2nrt_A 43 VVFEDGFPKKGDYRR------------------YKIEQ-DHPDDYESIRTVVKRRYSKHPLPNLLFVDGGIGQVNAAIEA 103 (220)
T ss_dssp EEEETTEECGGGCEE------------------EEEEC-SSCCHHHHHHHHHHHHHTTSCCCSEEEESSSHHHHHHHHHH
T ss_pred EEEeCCccChhhCce------------------eeCCC-CCCCHHHHHHHHHHHHhccCCCCCEEEEeCCHHHHHHHHHH
Confidence 677888887777763 11212 23478888888888877434689999999999999999998
Q ss_pred CC
Q 039425 202 FP 203 (413)
Q Consensus 202 fP 203 (413)
+-
T Consensus 104 l~ 105 (220)
T 2nrt_A 104 LK 105 (220)
T ss_dssp HH
T ss_pred HH
Confidence 74
No 16
>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=55.53 E-value=36 Score=31.37 Aligned_cols=71 Identities=4% Similarity=-0.250 Sum_probs=47.3
Q ss_pred CCEEEeeccccccC----CCC--ceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccce--EEEeccc
Q 039425 120 PRVLIMDCTYQTNR----YDM--PLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLAS--VIVTDRE 191 (413)
Q Consensus 120 ~~vl~iD~Ty~tn~----~~~--~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~--~iitD~~ 191 (413)
.+++.+|.|+.... .+. ..+..+.+|...+ .++|+.+..+++.++...+|....... ..|. .|.+|.-
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 36899999864322 221 2455566666554 458999888887777766665554443 4788 9999998
Q ss_pred hHH
Q 039425 192 LAL 194 (413)
Q Consensus 192 ~al 194 (413)
...
T Consensus 92 ~~f 94 (327)
T 1bco_A 92 RGA 94 (327)
T ss_dssp TST
T ss_pred hhh
Confidence 654
No 17
>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=54.41 E-value=38 Score=24.69 Aligned_cols=47 Identities=13% Similarity=0.100 Sum_probs=32.6
Q ss_pred cCCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhhh
Q 039425 16 FAGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKVRE 70 (413)
Q Consensus 16 ~~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~~ 70 (413)
....||+.+++.+. |...|.+.++|.+.|. ++.+.|++.++++.++.
T Consensus 26 ~~~~Lt~rE~~Vl~-l~~~G~s~~eIA~~L~-------iS~~TV~~~~~~i~~Kl 72 (90)
T 3ulq_B 26 EQDVLTPRECLILQ-EVEKGFTNQEIADALH-------LSKRSIEYSLTSIFNKL 72 (90)
T ss_dssp ---CCCHHHHHHHH-HHHTTCCHHHHHHHHT-------CCHHHHHHHHHHHHHHT
T ss_pred cccCCCHHHHHHHH-HHHcCCCHHHHHHHHC-------cCHHHHHHHHHHHHHHH
Confidence 45678888876555 4559999999998874 45677777777766553
No 18
>2hl7_A Cytochrome C-type biogenesis protein CCMH; three-helices bundle, oxidoreductase; HET: PG4; 1.70A {Pseudomonas aeruginosa}
Probab=54.27 E-value=9.5 Score=27.88 Aligned_cols=35 Identities=6% Similarity=0.025 Sum_probs=30.6
Q ss_pred CCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCC
Q 039425 19 ILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNA 53 (413)
Q Consensus 19 rlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~ 53 (413)
.+..+.+..|.++...|-+..+|++.+...||..+
T Consensus 43 ~iA~dlR~~V~~~l~~G~sd~eI~~~~v~RYG~fV 77 (84)
T 2hl7_A 43 PIAADLRKQIYGQLQQGKSDGEIVDYMVARYGDFV 77 (84)
T ss_dssp HHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHTTTC
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCCee
Confidence 34567899999999999999999999999998754
No 19
>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=53.05 E-value=7.6 Score=22.41 Aligned_cols=28 Identities=11% Similarity=0.339 Sum_probs=23.9
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHH
Q 039425 18 GILNKEKSNLLVDMSKNNVRPKDILHVL 45 (413)
Q Consensus 18 rrlt~~~~~~i~~L~~~g~~~~~I~~~l 45 (413)
.+||+-|++.+..|..+|++....+..|
T Consensus 3 skLs~LQ~eLL~aLL~SGlsKe~LiqaL 30 (32)
T 1g2y_A 3 SKLSQLQTEMLAALLESGLSKEALIQAL 30 (32)
T ss_dssp CHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHcCCcHHHHHHHh
Confidence 4678889999999999999988777665
No 20
>3f2k_A Histone-lysine N-methyltransferase setmar; histone-lysine N-methyltransferase setmar, SET domain and mariner transposase fusion; 1.85A {Homo sapiens} PDB: 3k9k_A 3k9j_A
Probab=50.09 E-value=1e+02 Score=26.45 Aligned_cols=63 Identities=8% Similarity=0.090 Sum_probs=38.3
Q ss_pred ccccCCCCceeeEEEeeccCcEEEEEEEeec---ccccchHHHHHHHHHHHHh----c--cccceEEEeccchHH
Q 039425 129 YQTNRYDMPLLEIAGVTSIDLTFSVCCVYLK---LKWENNYIWALERLKSIME----E--NMLASVIVTDRELAL 194 (413)
Q Consensus 129 y~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~---~E~~~~~~~~l~~l~~~~~----~--~~~p~~iitD~~~al 194 (413)
-++++++..+.+.++++..|.. ++.+++ .=+.+.|...|+.+...+. . .....+++-|.+..-
T Consensus 64 ~~~~~~~~~vmv~~~~s~~G~~---~~~~l~~~~tinse~Y~~~l~~l~~~l~~~~~~~~~~~~~i~~~Dna~~H 135 (226)
T 3f2k_A 64 PKPILHPKKVMVTIWWSAAGLI---HYSFLNPGETITSEKYAQEIDEMNQKLQRLQLALVNRKGPILLHDNARPH 135 (226)
T ss_dssp -----CCCEEEEEEEEETTEEE---EEEECCTTCCCSHHHHHHHHHHHHHHHHHHTC----CCCCEEECCCCHHH
T ss_pred cccccCCcceEEEEEeecCCcE---EEEEecCCcccCHHHHHHHHHHHHHHHhhhhhHhhccCCcEEEeCCCccc
Confidence 4566677778888899888864 455664 3466788888877654431 1 134567888987654
No 21
>2m0n_A Putative uncharacterized protein; tuberculosis, structural genomics, seattle structural genomi for infectious disease, ssgcid; NMR {Mycobacterium abscessus}
Probab=49.62 E-value=41 Score=25.83 Aligned_cols=51 Identities=14% Similarity=0.243 Sum_probs=29.7
Q ss_pred cCCCCCHHHHHHHH-HHHhCC--------CChHHHHHHHHhcCCCCCcchhhHHHHHHHhh
Q 039425 16 FAGILNKEKSNLLV-DMSKNN--------VRPKDILHVLKKRNMHNATTIRAIYNARRKYK 67 (413)
Q Consensus 16 ~~rrlt~~~~~~i~-~L~~~g--------~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~ 67 (413)
..|+||+++...|. .|...| ++.-+|...|.+-. +...+..||.+.+.++.
T Consensus 37 L~R~LtdeEV~~Va~~L~~~~~~~~~~~~i~~~dI~v~It~VT-~e~P~peDI~RV~arLa 96 (112)
T 2m0n_A 37 LRRTLTEEQVQEVVAKLTDPESSAQIDGVVSKDEIEKFIADVT-KDEPTAQDISRVASRLA 96 (112)
T ss_dssp CCSSCCHHHHHHHHHHHTCTTTHHHHTSCCCTTHHHHHHHHTT-TCCCCHHHHHHHHHHHH
T ss_pred hhccCCHHHHHHHHHHHHhccCcccCCCCCCHHHHHHHHHHHh-ccCcCHHHHHHHHHHHH
Confidence 35899998865554 444433 44456666666653 34456666666555543
No 22
>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42
Probab=49.44 E-value=37 Score=26.86 Aligned_cols=46 Identities=9% Similarity=0.203 Sum_probs=25.5
Q ss_pred CCCCHHHHHHHHHHHhC---CCChHHHHHHHHhcCCCCCcchhhHHHHHHH
Q 039425 18 GILNKEKSNLLVDMSKN---NVRPKDILHVLKKRNMHNATTIRAIYNARRK 65 (413)
Q Consensus 18 rrlt~~~~~~i~~L~~~---g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~ 65 (413)
.|+|+.-+..+..|.++ .++..+|.+.|++..|+ +.+.+||+....
T Consensus 14 ~r~T~qR~~Il~~L~~~~~~~~sa~ei~~~l~~~~~~--is~aTVYR~L~~ 62 (136)
T 1mzb_A 14 LKVTLPRVKILQMLDSAEQRHMSAEDVYKALMEAGED--VGLATVYRVLTQ 62 (136)
T ss_dssp CCCCHHHHHHHHHHHCC-CCSBCHHHHHHHHHHTTCC--CCHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHhCCCCCCCHHHHHHHHHhhCCC--CCHHHHHHHHHH
Confidence 35665555555555442 36667777777666543 455556654443
No 23
>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=48.14 E-value=51 Score=26.27 Aligned_cols=65 Identities=15% Similarity=0.132 Sum_probs=43.2
Q ss_pred CCEEEeeccccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccceEEEeccchHHH
Q 039425 120 PRVLIMDCTYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELALM 195 (413)
Q Consensus 120 ~~vl~iD~Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~~iitD~~~al~ 195 (413)
.+++.+|-|+..+ .+.++.+|...+.. .++.+ .+++.+....++..+...+ .+..|.||+.....
T Consensus 9 ~~~w~~D~t~~~g-----~y~~~~iD~~sr~~-~~~~~-~~~~~~~~~~~l~~~~~~~----~~~~i~sD~G~~f~ 73 (163)
T 3l3u_A 9 PGIWQLDCTHLEG-----KVILVAVHVASGYI-EAEVI-PAETGQETAYFLLKLAGRW----PVKTVHTDNGSNFT 73 (163)
T ss_dssp TTEEEEEEEEETT-----EEEEEEEETTTCCE-EEEEE-SSCCHHHHHHHHHHHHHHS----CCCEEEECCCGGGG
T ss_pred CCEEEEEecccCC-----cEEEEEEecCCCcE-EEEEe-CCCcHHHHHHHHHHHHHHc----CCcEEeecChHhhh
Confidence 4689999998753 25667777776654 55554 5666666666655544443 25899999987764
No 24
>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli}
Probab=47.16 E-value=47 Score=23.36 Aligned_cols=31 Identities=13% Similarity=0.189 Sum_probs=14.7
Q ss_pred CCCHHHHHHHHHHHhC---CCChHHHHHHHHhcC
Q 039425 19 ILNKEKSNLLVDMSKN---NVRPKDILHVLKKRN 49 (413)
Q Consensus 19 rlt~~~~~~i~~L~~~---g~~~~~I~~~l~~~~ 49 (413)
++|+.....+..|.+. .++..+|.+.+++..
T Consensus 14 ~~t~~r~~IL~~l~~~~~~~~s~~el~~~l~~~~ 47 (83)
T 2fu4_A 14 KVTLPRLKILEVLQEPDNHHVSAEDLYKRLIDMG 47 (83)
T ss_dssp CCCHHHHHHHHHHTSGGGSSBCHHHHHHHHHHTT
T ss_pred CcCHHHHHHHHHHHhCCCCCCCHHHHHHHHHHhC
Confidence 4454444444444332 355555555555554
No 25
>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=46.88 E-value=25 Score=28.53 Aligned_cols=54 Identities=9% Similarity=0.086 Sum_probs=40.8
Q ss_pred CCCCCHHHHHHHHHHHh--CCCChHHHHHHHHhcCC---CCCcchhhHHHHHHHhhhhh
Q 039425 17 AGILNKEKSNLLVDMSK--NNVRPKDILHVLKKRNM---HNATTIRAIYNARRKYKVRE 70 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~--~g~~~~~I~~~l~~~~~---~~~~t~~di~n~~~~~~~~~ 70 (413)
.+++++++++.|..+.. .+.++.+|...+.+... +..++...|++...+.+...
T Consensus 81 ~~~~~~~~~~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~~~~~S~sTV~r~L~~~~~~~ 139 (159)
T 2k27_A 81 PKVATPKVVEKIGDYKRQNPTMFAWEIRDRLLAEGVCDNDTVPSVSSINRIIRTKVQQP 139 (159)
T ss_dssp CCCCCTTHHHHHHHHHHHCSSSCHHHHHHHHHHHTCSCTTTSCCHHHHHHHHHHHSCCC
T ss_pred CCCCCHHHHHHHHHHHHHCccchHHHHHHHHHHhcccccCCccCHHHHHHHHHHHhCCC
Confidence 45688888888887765 57999999999987641 33578889999888766553
No 26
>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=46.10 E-value=38 Score=26.92 Aligned_cols=52 Identities=8% Similarity=0.091 Sum_probs=38.9
Q ss_pred CCCCCHHHHHHHHHHHh--CCCChHHHHHHHHhcCC---CCCcchhhHHHHHHHhhh
Q 039425 17 AGILNKEKSNLLVDMSK--NNVRPKDILHVLKKRNM---HNATTIRAIYNARRKYKV 68 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~--~g~~~~~I~~~l~~~~~---~~~~t~~di~n~~~~~~~ 68 (413)
.+.+++++++.|..+.. .+.++.+|...+.+... +..++...|+++..+...
T Consensus 88 ~~~~~~~~~~~I~~~~~~~~~~s~~~i~~~l~~~~~~~~g~~~S~sTV~r~L~~~~~ 144 (149)
T 1k78_A 88 PKVATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVPSVSSINRIIRTKVQ 144 (149)
T ss_dssp CSSSCHHHHHHHHHHHHHCTTCCHHHHHHHHHHTTSSCTTTSCCHHHHHHHHHCC--
T ss_pred CCCCCHHHHHHHHHHHHhCcchhHHHHHHHHHHhcccccCCCcCHHHHHHHHHHHhc
Confidence 45688888888888865 46999999999987642 445788899988876544
No 27
>2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster}
Probab=46.09 E-value=37 Score=24.43 Aligned_cols=45 Identities=2% Similarity=-0.071 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhh
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKV 68 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~ 68 (413)
.++.+++++..+..++..|.+.++|...+ | ++...||+++.+...
T Consensus 20 ~~~ys~e~k~~~v~~~~~g~s~~~iA~~~-----g--Is~sTl~rW~k~~~~ 64 (87)
T 2elh_A 20 LRSLTPRDKIHAIQRIHDGESKASVARDI-----G--VPESTLRGWCKNEDK 64 (87)
T ss_dssp CSSCCHHHHHHHHHHHHHTCCHHHHHHHH-----T--CCHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHCCCCHHHHHHHH-----C--cCHHHHHHHHHHHHh
Confidence 35789999888888888899888775433 2 467788888765543
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=43.81 E-value=16 Score=22.73 Aligned_cols=41 Identities=7% Similarity=0.176 Sum_probs=30.0
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHH
Q 039425 18 GILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRK 65 (413)
Q Consensus 18 rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~ 65 (413)
+.++++++..|..|...|.+.++|...+ | ++...||+...+
T Consensus 4 ~~~~~~~~~~i~~l~~~g~s~~~ia~~l-----g--vs~~Tv~r~l~~ 44 (52)
T 1jko_C 4 RAINKHEQEQISRLLEKGHPRQQLAIIF-----G--IGVSTLYRYFPA 44 (52)
T ss_dssp CSSCTTHHHHHHHHHHTTCCHHHHHHTT-----S--CCHHHHHHHSCT
T ss_pred CCCCHHHHHHHHHHHHcCCCHHHHHHHH-----C--CCHHHHHHHHHH
Confidence 3577788888889999999988876543 2 567777776544
No 29
>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=43.61 E-value=19 Score=29.28 Aligned_cols=44 Identities=23% Similarity=0.326 Sum_probs=35.7
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhh
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYK 67 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~ 67 (413)
.++++.+++..|..|...|.+.++|...+. ++...|++..++.+
T Consensus 23 ~~~~s~e~r~~ii~l~~~G~s~~~IA~~lg-------is~~TV~rwl~r~~ 66 (159)
T 2k27_A 23 GRPLPEVVRQRIVDLAHQGVRPCDISRQLR-------VSHGCVSKILGRYY 66 (159)
T ss_dssp SCSSCHHHHHHHHHHHHHTCCHHHHHHHHT-------CCSHHHHHHHCCSS
T ss_pred CCCCCHHHHHHHHHHHHcCCCHHHHHHHHC-------cCHHHHHHHHHHHH
Confidence 467899999999999999999999988763 46777888776553
No 30
>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=43.27 E-value=80 Score=22.24 Aligned_cols=46 Identities=13% Similarity=0.059 Sum_probs=32.0
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhhh
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKVRE 70 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~~ 70 (413)
...|++.+++.+.- ...|++.++|.+.+. ++...|++...+++++.
T Consensus 19 ~~~Lt~~e~~vl~l-~~~g~s~~eIA~~l~-------is~~tV~~~l~r~~~kL 64 (82)
T 1je8_A 19 VNQLTPRERDILKL-IAQGLPNKMIARRLD-------ITESTVKVHVKHMLKKM 64 (82)
T ss_dssp GGGSCHHHHHHHHH-HTTTCCHHHHHHHHT-------SCHHHHHHHHHHHHHHT
T ss_pred HccCCHHHHHHHHH-HHcCCCHHHHHHHHC-------cCHHHHHHHHHHHHHHH
Confidence 35788888766555 688999999998873 34556666665555443
No 31
>2kvc_A Putative uncharacterized protein; structural genomics, seattle structural genomi for infectious disease, ssgcid, unknown function; NMR {Mycobacterium tuberculosis}
Probab=42.01 E-value=36 Score=25.73 Aligned_cols=49 Identities=10% Similarity=0.164 Sum_probs=26.7
Q ss_pred CCCCCHHHHHHHH-HHHhC-CCChHHHHHHHHhcCCCCCcchhhHHHHHHHh
Q 039425 17 AGILNKEKSNLLV-DMSKN-NVRPKDILHVLKKRNMHNATTIRAIYNARRKY 66 (413)
Q Consensus 17 ~rrlt~~~~~~i~-~L~~~-g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~ 66 (413)
.|+||+++...|. .|... .++.-+|...|.+.. +...+..||.+.+.++
T Consensus 36 ~r~Ltdeev~~Va~~L~~~~~i~~~dI~~~I~~vt-~~~Ps~eDI~RV~arL 86 (103)
T 2kvc_A 36 CRRLSHDEVKAVANELMRLGDFDQIDIGVVITHFT-DELPSPEDVERVRARL 86 (103)
T ss_dssp TTTSCHHHHHHHHHHHHHHTSSCSSCHHHHHHSCC-SSCSCHHHHHHHHHHH
T ss_pred hccCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHh-ccCCCHHHHHHHHHHH
Confidence 4788888755544 44443 355555555555553 3344555555555444
No 32
>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=41.66 E-value=72 Score=26.39 Aligned_cols=69 Identities=13% Similarity=0.047 Sum_probs=43.3
Q ss_pred CEEEeec-cccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccceEEEeccchHHHH
Q 039425 121 RVLIMDC-TYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELALMT 196 (413)
Q Consensus 121 ~vl~iD~-Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~~iitD~~~al~~ 196 (413)
+++.+|- ++.... +...+.++.+|...+. .+++.+ .+.+.+....+ +...+ ....|..|.||......+
T Consensus 14 ~~~~~D~~~~~~~~-~g~~y~~~~iD~~Sr~-~~~~~~-~~~~~~~~~~~---l~~~~-~~g~p~~i~sDnG~~f~s 83 (200)
T 2x78_A 14 DKFFIDYIGPLPPS-QGYLYVLVVVDGMTGF-TWLYPT-KAPSTSATVKS---LNVLT-SIAIPRVIHSDQGAAFTS 83 (200)
T ss_dssp SEEEEEEECCCSCB-TTBCEEEEEEETTTCC-EEEEEE-SSSCHHHHHHH---HHHHT-TTCCCSEEEECSCHHHHS
T ss_pred cEEEEEEeCCCccC-CCCeEEEEEEeCCCCc-EEEEEC-CCCCHHHHHHH---HHHHH-HhCCCcEEEecCCcceeh
Confidence 5888996 554333 3356677777766554 456655 66665554444 43333 246799999999987653
No 33
>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*
Probab=41.46 E-value=67 Score=25.60 Aligned_cols=15 Identities=7% Similarity=-0.046 Sum_probs=8.2
Q ss_pred HHHHHHHHHHhhcCc
Q 039425 75 SQMQLLMSKLIEHKY 89 (413)
Q Consensus 75 ~~~~~l~~~l~~~~~ 89 (413)
..+...++.|.+.|.
T Consensus 57 aTVYR~L~~L~e~Gl 71 (145)
T 2fe3_A 57 ATVYNNLRVFRESGL 71 (145)
T ss_dssp HHHHHHHHHHHHTTS
T ss_pred hhHHHHHHHHHHCCC
Confidence 344555566666554
No 34
>2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis}
Probab=41.05 E-value=70 Score=21.24 Aligned_cols=46 Identities=11% Similarity=0.028 Sum_probs=32.4
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhh
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKVR 69 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~ 69 (413)
-..|++.++..+.-.+..|.+..+|...+. ++...|++...+.+++
T Consensus 13 l~~L~~~~r~il~l~~~~g~s~~eIA~~lg-------is~~tv~~~~~ra~~~ 58 (70)
T 2o8x_A 13 IADLTTDQREALLLTQLLGLSYADAAAVCG-------CPVGTIRSRVARARDA 58 (70)
T ss_dssp TTSSCHHHHHHHHHHHTSCCCHHHHHHHHT-------SCHHHHHHHHHHHHHH
T ss_pred HHhCCHHHHHHHHHHHHcCCCHHHHHHHHC-------cCHHHHHHHHHHHHHH
Confidence 356888888877776789999999998873 3455555555554443
No 35
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus}
Probab=39.90 E-value=43 Score=29.30 Aligned_cols=63 Identities=16% Similarity=0.218 Sum_probs=41.3
Q ss_pred EEEeeccccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHh-----ccccceEEEeccchHHHH
Q 039425 122 VLIMDCTYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIME-----ENMLASVIVTDRELALMT 196 (413)
Q Consensus 122 vl~iD~Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~-----~~~~p~~iitD~~~al~~ 196 (413)
|+|.|+...++.|+- |.+-++ +..+.|.-+-+.+.+.+. +...|..|+.|+-++..+
T Consensus 35 Vvf~~g~p~k~~YR~--f~i~~~----------------~g~DDya~m~Evl~RR~~r~~~e~~~~PDLiliDGGkgQl~ 96 (226)
T 3c65_A 35 VVFLDGKPAKKEYRK--YKVKTV----------------AGPNDYETMREVVRRRYTRVLKEGLPLPDLIIIDGGKGHLS 96 (226)
T ss_dssp EEEETTEECGGGCEE--EECCCC----------------CTTCHHHHHHHHHHHHHHHHHHHTCCCCSEEEESSCHHHHH
T ss_pred EEEeCCccChhhCce--eecCCC----------------CCCcHHHHHHHHHHHHHhhhhcccCCCCCEEEEeCCHHHHH
Confidence 577788887777763 111111 123556555555554441 125799999999999999
Q ss_pred HHHHhC
Q 039425 197 VIQKHF 202 (413)
Q Consensus 197 Ai~~vf 202 (413)
|..+++
T Consensus 97 ~a~~vl 102 (226)
T 3c65_A 97 AVRDVL 102 (226)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 999998
No 36
>3c57_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A 1zlj_A
Probab=39.66 E-value=69 Score=23.37 Aligned_cols=45 Identities=13% Similarity=0.128 Sum_probs=30.3
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhh
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKVR 69 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~ 69 (413)
...|++.+++.+.-+ ..|++.++|.+.+. ++...|++.+.+++++
T Consensus 25 l~~Lt~~e~~vl~l~-~~g~s~~eIA~~l~-------is~~tV~~~l~r~~~k 69 (95)
T 3c57_A 25 LSGLTDQERTLLGLL-SEGLTNKQIADRMF-------LAEKTVKNYVSRLLAK 69 (95)
T ss_dssp --CCCHHHHHHHHHH-HTTCCHHHHHHHHT-------CCHHHHHHHHHHHHHH
T ss_pred HhcCCHHHHHHHHHH-HcCCCHHHHHHHHC-------cCHHHHHHHHHHHHHH
Confidence 357888887766654 89999999998873 3455566555555444
No 37
>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=39.23 E-value=30 Score=26.26 Aligned_cols=48 Identities=19% Similarity=0.139 Sum_probs=35.4
Q ss_pred cCCCCCHHHHHHHHHHHh--CCCChHHHHHHHHhcCCCC-----CcchhhHHHHHHH
Q 039425 16 FAGILNKEKSNLLVDMSK--NNVRPKDILHVLKKRNMHN-----ATTIRAIYNARRK 65 (413)
Q Consensus 16 ~~rrlt~~~~~~i~~L~~--~g~~~~~I~~~l~~~~~~~-----~~t~~di~n~~~~ 65 (413)
..++++++++..|..+.. ...++.+|...|.+. |. .++...|+++..+
T Consensus 72 ~~~~l~~~~~~~i~~~~~~~~~~s~~~i~~~l~~~--g~~~~~~~~s~~tv~r~l~~ 126 (128)
T 1pdn_C 72 KPRIATPEIENRIEEYKRSSPGMFSWEIREKLIRE--GVCDRSTAPSVSAISRLVRG 126 (128)
T ss_dssp CCCSSCSTHHHHHHHTTTTCTTCCHHHHHHHHHHT--SSSCSTTCCCHHHHHHHC--
T ss_pred CCCcCCHHHHHHHHHHHHhCcchHHHHHHHHHHHc--CCccccCCcCHHHHHHHHHh
Confidence 446788888888888874 469999999999876 32 3677888877553
No 38
>2lky_A Uncharacterized protein; infectious disease, tuberculosis, DUF proteins, ssgcid, STRU genomics; NMR {Mycobacterium smegmatis str}
Probab=37.85 E-value=37 Score=26.07 Aligned_cols=48 Identities=17% Similarity=0.231 Sum_probs=22.8
Q ss_pred CCCCCHHHHHHHH-HHHhC-CCChHHHHHHHHhcCCCCCcchhhHHHHHHH
Q 039425 17 AGILNKEKSNLLV-DMSKN-NVRPKDILHVLKKRNMHNATTIRAIYNARRK 65 (413)
Q Consensus 17 ~rrlt~~~~~~i~-~L~~~-g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~ 65 (413)
.|+||+++...|. .|... .++.-+|...|.+.. +...+..||.+.+.+
T Consensus 38 ~r~Ltdeev~~Va~~L~~~~~i~~~dI~~~I~~vt-~~~Ps~eDI~RV~ar 87 (112)
T 2lky_A 38 TRRLTNDEIKAIAEDLEKRAHFDHIDIGVLITQMT-DEMPREEDIERVRRH 87 (112)
T ss_dssp TTTCCHHHHHHHHHHHHHHCCCSCCCSHHHHHHHT-TCCCCHHHHHHHHHH
T ss_pred cccCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHh-ccCCCHHHHHHHHHH
Confidence 3888888755544 34333 244444444444443 223344444444443
No 39
>2w57_A Ferric uptake regulation protein; gene regulation, transcription regulation, transport, iron, repressor, DNA-binding, transcription; 2.60A {Vibrio cholerae}
Probab=37.39 E-value=39 Score=27.29 Aligned_cols=44 Identities=7% Similarity=0.184 Sum_probs=22.0
Q ss_pred CCCHHHHHHHHHHHhC---CCChHHHHHHHHhcCCCCCcchhhHHHHHH
Q 039425 19 ILNKEKSNLLVDMSKN---NVRPKDILHVLKKRNMHNATTIRAIYNARR 64 (413)
Q Consensus 19 rlt~~~~~~i~~L~~~---g~~~~~I~~~l~~~~~~~~~t~~di~n~~~ 64 (413)
|+|+.-...+..|.++ .++..+|.+.|++..|+ +.+.+||+...
T Consensus 14 r~T~qR~~Il~~L~~~~~~h~sa~ei~~~l~~~~~~--is~aTVYR~L~ 60 (150)
T 2w57_A 14 KVTLPRLKILEVLQQPECQHISAEELYKKLIDLGEE--IGLATVYRVLN 60 (150)
T ss_dssp CCCHHHHHHHHHHTSGGGSSEEHHHHHHHHHHTTCC--CCHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhCCCCCCCHHHHHHHHHHhCCC--CCHHHHHHHHH
Confidence 5554444444444332 35566666666665433 34455554433
No 40
>1fse_A GERE; helix-turn-helix DNA-binding protein transcriptional regulat transcription; 2.05A {Bacillus subtilis} SCOP: a.4.6.2
Probab=36.98 E-value=94 Score=20.85 Aligned_cols=48 Identities=13% Similarity=0.068 Sum_probs=33.5
Q ss_pred ccCCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhhh
Q 039425 15 SFAGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKVRE 70 (413)
Q Consensus 15 p~~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~~ 70 (413)
.....|++.+++.+.- ...|.+.++|.+.+. ++...|++...+++++.
T Consensus 7 ~~~~~L~~~e~~il~~-~~~g~s~~eIA~~l~-------is~~tV~~~~~~~~~kl 54 (74)
T 1fse_A 7 QSKPLLTKREREVFEL-LVQDKTTKEIASELF-------ISEKTVRNHISNAMQKL 54 (74)
T ss_dssp -CCCCCCHHHHHHHHH-HTTTCCHHHHHHHHT-------SCHHHHHHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHH-HHcCCCHHHHHHHHC-------CCHHHHHHHHHHHHHHH
Confidence 3457799988876655 588999999998773 35566666666655443
No 41
>2xv9_A ABA-1A1 repeat UNIT; lipid binding protein, fatty acid binding, retinol binding,; NMR {Ascaris suum}
Probab=36.34 E-value=32 Score=27.41 Aligned_cols=33 Identities=18% Similarity=0.224 Sum_probs=30.3
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcC
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRN 49 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~ 49 (413)
-.=||++|+..|..|...|-+..+|+..|-..|
T Consensus 18 LsWLt~eQk~EI~kMk~~gksk~~v~~KI~efy 50 (134)
T 2xv9_A 18 LKWLSQEQKDELLKMKKDGKAKKELEAKILHYY 50 (134)
T ss_dssp TTTSCHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred HHHCCHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 356899999999999999999999999999887
No 42
>2glo_A Brinker CG9653-PA; protein-DNA complex, helix-turn-helix motif, transcription/DNA complex; NMR {Drosophila melanogaster}
Probab=36.04 E-value=33 Score=22.56 Aligned_cols=48 Identities=10% Similarity=0.007 Sum_probs=30.9
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhh
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYK 67 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~ 67 (413)
.++.|++.|..+..+.+.|.+...-...+.+.+ | ++...|++.+...+
T Consensus 3 r~~ys~efK~~~~~~~~~g~s~~~~~~~vA~~~-g--Is~~tl~~W~~~~~ 50 (59)
T 2glo_A 3 RRIFTPHFKLQVLESYRNDNDCKGNQRATARKY-N--IHRRQIQKWLQCES 50 (59)
T ss_dssp CCCCCHHHHHHHHHHHHHCTTTTTCHHHHHHHT-T--SCHHHHHHHHTTHH
T ss_pred CCcCCHHHHHHHHHHHHcCCCcchHHHHHHHHH-C--cCHHHHHHHHHHHH
Confidence 467899999988777778887222223344444 3 36778888876543
No 43
>1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein; NMR {Erwinia amylovora} SCOP: a.4.6.2
Probab=35.86 E-value=1.1e+02 Score=22.66 Aligned_cols=46 Identities=15% Similarity=0.238 Sum_probs=33.9
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhhh
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKVRE 70 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~~ 70 (413)
...||+.+++.+ .|...|++.++|.+.|. ++.+.|++.+.+++++.
T Consensus 32 ~~~Lt~re~~Vl-~l~~~G~s~~EIA~~L~-------iS~~TV~~~l~ri~~KL 77 (99)
T 1p4w_A 32 DKRLSPKESEVL-RLFAEGFLVTEIAKKLN-------RSIKTISSQKKSAMMKL 77 (99)
T ss_dssp SSSCCHHHHHHH-HHHHHTCCHHHHHHHHT-------SCHHHHHHHHHHHHHHH
T ss_pred cCCCCHHHHHHH-HHHHcCCCHHHHHHHHC-------cCHHHHHHHHHHHHHHH
Confidence 578999998766 45668999999998873 45667777776666553
No 44
>1q08_A Zn(II)-responsive regulator of ZNTA; MERR family transcriptional regulator; 1.90A {Escherichia coli} SCOP: a.6.1.3 PDB: 1q09_A 1q0a_A
Probab=35.15 E-value=1.1e+02 Score=22.36 Aligned_cols=24 Identities=13% Similarity=0.140 Sum_probs=21.1
Q ss_pred HHHHHHHHhCCCChHHHHHHHHhc
Q 039425 25 SNLLVDMSKNNVRPKDILHVLKKR 48 (413)
Q Consensus 25 ~~~i~~L~~~g~~~~~I~~~l~~~ 48 (413)
...|..|...|++-.+|...|...
T Consensus 6 L~~I~~lr~lGfsL~eIk~~l~~~ 29 (99)
T 1q08_A 6 LKFIRHARQLGFSLESIRELLSIR 29 (99)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHH
Confidence 467889999999999999999754
No 45
>1q1v_A DEK protein; winged-helix motif, DNA binding protein; NMR {Homo sapiens} SCOP: a.159.4.1
Probab=35.11 E-value=8.8 Score=26.99 Aligned_cols=45 Identities=16% Similarity=0.155 Sum_probs=29.2
Q ss_pred eeccccccccCCCCCHHHHHHHHHHHh----CCCChHHHHHHHHhcCCCCCcc
Q 039425 7 LLHNLEGHSFAGILNKEKSNLLVDMSK----NNVRPKDILHVLKKRNMHNATT 55 (413)
Q Consensus 7 ~~~~~~~hp~~rrlt~~~~~~i~~L~~----~g~~~~~I~~~l~~~~~~~~~t 55 (413)
|+|.+.+-|+ .++....|..+.. ..++.++|...|.+.+||..++
T Consensus 4 l~~k~~~~Ps----d~ei~~~I~~IL~~aDL~tvT~K~VR~~Le~~~pg~dLs 52 (70)
T 1q1v_A 4 LIKKLKKPPT----DEELKETIKKLLASANLEEVTMKQICKKVYENYPTYDLT 52 (70)
T ss_dssp CCCCCCCCCC----HHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHCSSSCCS
T ss_pred hhhcccCCcC----HHHHHHHHHHHHHhCCHHHHhHHHHHHHHHHHccCCCCh
Confidence 3455555444 2334555555554 4699999999999999776554
No 46
>1q06_A Transcriptional regulator CUER; MERR family transcriptional regulator, copper efflux regulator; 2.07A {Escherichia coli} SCOP: a.6.1.3 PDB: 1q05_A 1q07_A
Probab=33.05 E-value=1.3e+02 Score=23.63 Aligned_cols=33 Identities=12% Similarity=0.073 Sum_probs=25.7
Q ss_pred CCCCCHHHHH---HHHHHHhCCCChHHHHHHHHhcC
Q 039425 17 AGILNKEKSN---LLVDMSKNNVRPKDILHVLKKRN 49 (413)
Q Consensus 17 ~rrlt~~~~~---~i~~L~~~g~~~~~I~~~l~~~~ 49 (413)
+|.-++++.. .|..|.+.|++..+|...|....
T Consensus 36 ~R~Y~~~dl~~l~~I~~lr~~G~sl~eI~~~l~~~~ 71 (135)
T 1q06_A 36 YRTYTQQHLNELTLLRQARQVGFNLEESGELVNLFN 71 (135)
T ss_dssp CEECCHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred CeeeCHHHHHHHHHHHHHHHCCCCHHHHHHHHHhhh
Confidence 5667777644 56778889999999999997643
No 47
>3ol3_A Putative uncharacterized protein; tuberculosis, RV0543C, ortholog, iodide ION S phasing, structural genomics; HET: PG4 PGE; 1.95A {Mycobacterium smegmatis} PDB: 3ol4_A
Probab=30.78 E-value=65 Score=24.51 Aligned_cols=48 Identities=13% Similarity=0.143 Sum_probs=22.0
Q ss_pred CCCCCHHHHHHH-HHHHhCC-----CChHHHHHHHHhcCCCCCcchhhHHHHHHH
Q 039425 17 AGILNKEKSNLL-VDMSKNN-----VRPKDILHVLKKRNMHNATTIRAIYNARRK 65 (413)
Q Consensus 17 ~rrlt~~~~~~i-~~L~~~g-----~~~~~I~~~l~~~~~~~~~t~~di~n~~~~ 65 (413)
.|+||+++...| ..|...| ++.-+|...|.+-. +...+..||.+.+.+
T Consensus 41 ~R~Ltddev~~Va~~L~~~~~~~~pi~~~dI~~~It~vT-~~~P~~eDi~RV~ar 94 (107)
T 3ol3_A 41 KRSLTEDEVVRAAQAILRSTDGQSPVTDDDIRNAVHQII-EKEPTAEEINQVAAR 94 (107)
T ss_dssp TCCCCHHHHHHHHHHHHHHCCSSSCBCHHHHHHHHHHHH-SSCCCHHHHHHHHHH
T ss_pred cccCCHHHHHHHHHHHHhccCCCCCCCHHHHHHHHHHHh-cCCcCHHHHHHHHHH
Confidence 478888775443 3443322 33344444444432 223344444444433
No 48
>3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative; 2.50A {Fusobacterium nucleatum subsp}
Probab=30.56 E-value=78 Score=24.90 Aligned_cols=42 Identities=14% Similarity=0.234 Sum_probs=30.7
Q ss_pred CCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhh
Q 039425 19 ILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKV 68 (413)
Q Consensus 19 rlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~ 68 (413)
.|++.++..+. ++-.|++.++|...+. ++...|++...+.++
T Consensus 109 ~L~~~~r~v~~-~~~~g~s~~EIA~~lg-------is~~tV~~~~~ra~~ 150 (164)
T 3mzy_A 109 NFSKFEKEVLT-YLIRGYSYREIATILS-------KNLKSIDNTIQRIRK 150 (164)
T ss_dssp HSCHHHHHHHH-HHTTTCCHHHHHHHHT-------CCHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHH-HHHcCCCHHHHHHHHC-------CCHHHHHHHHHHHHH
Confidence 78888888888 8888999999988873 355566655555443
No 49
>3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis}
Probab=30.54 E-value=1.2e+02 Score=21.64 Aligned_cols=29 Identities=14% Similarity=0.062 Sum_probs=22.7
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHHH
Q 039425 18 GILNKEKSNLLVDMSKNNVRPKDILHVLK 46 (413)
Q Consensus 18 rrlt~~~~~~i~~L~~~g~~~~~I~~~l~ 46 (413)
.+|++.++..+.-.+-.|++.++|...+.
T Consensus 36 ~~L~~~~r~vl~l~~~~g~s~~eIA~~lg 64 (92)
T 3hug_A 36 AQLSAEHRAVIQRSYYRGWSTAQIATDLG 64 (92)
T ss_dssp HTSCHHHHHHHHHHHTSCCCHHHHHHHHT
T ss_pred HcCCHHHHHHHHHHHHcCCCHHHHHHHHC
Confidence 46788887777666778999999998874
No 50
>2xig_A Ferric uptake regulation protein; hpfur, transcription, homeostasis; HET: CIT; 1.85A {Helicobacter pylori}
Probab=30.26 E-value=85 Score=25.16 Aligned_cols=61 Identities=16% Similarity=0.280 Sum_probs=34.0
Q ss_pred HHHHHHHhCCCChH----HHHHHHHhcCCCCCcchhhHHHHHHHhhhhhhcCcHHHHHHHHHHhhcCcE
Q 039425 26 NLLVDMSKNNVRPK----DILHVLKKRNMHNATTIRAIYNARRKYKVREQAGHSQMQLLMSKLIEHKYI 90 (413)
Q Consensus 26 ~~i~~L~~~g~~~~----~I~~~l~~~~~~~~~t~~di~n~~~~~~~~~~~~~~~~~~l~~~l~~~~~~ 90 (413)
.....|.+.|++.. .|++.|.+.. + .+|..+|+...++-.. .-+...+-..++.|.+.|..
T Consensus 13 ~~~~~l~~~g~r~T~qR~~IL~~l~~~~-~-~~sa~ei~~~l~~~~~--~is~aTVYR~L~~L~e~Glv 77 (150)
T 2xig_A 13 RLRMSIKKNGLKNSKQREEVVSVLYRSG-T-HLSPEEITHSIRQKDK--NTSISSVYRILNFLEKENFI 77 (150)
T ss_dssp HHHHHHHHCC--CHHHHHHHHHHHHHCS-S-CBCHHHHHHHHHHHST--TCCHHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHcCCCCCHHHHHHHHHHHhCC-C-CCCHHHHHHHHHHhCC--CCCHhhHHHHHHHHHHCCcE
Confidence 34445666776653 4566665542 2 4677788776543211 11445677777778777764
No 51
>2qh9_A UPF0215 protein AF_1433; structural genomics, PSI-2, MCSG, PR structure initiative; 1.80A {Archaeoglobus fulgidus}
Probab=29.15 E-value=1.5e+02 Score=24.82 Aligned_cols=68 Identities=6% Similarity=-0.142 Sum_probs=44.4
Q ss_pred CEEEeeccccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccceEEEeccchH
Q 039425 121 RVLIMDCTYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELA 193 (413)
Q Consensus 121 ~vl~iD~Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~~iitD~~~a 193 (413)
.|+.+|-.|. . +-..+..+..+ +....-+.|+.+.-.-.+++..+++.+.+.- ....|.+|+.|+.-=
T Consensus 8 rv~GiDds~~--~-~~~~l~gvv~~-~~~v~g~~~~~~~vdG~dat~~i~~~~~~l~-~~p~~~vvllDG~g~ 75 (184)
T 2qh9_A 8 RFLGIDDSFD--D-RKCCVVGCVTC-GGYVEGFLYTEIDIDGLDATDKLISMVRRSK-FREQIKCIFLPGITL 75 (184)
T ss_dssp EEEEEEEEEC--S-SCEEEEEEEEE-TTEEEEEEEEEECTTCSCHHHHHHHHHTTCT-TTTTEEEEEESSSEE
T ss_pred EEEEEEcccC--C-CceEEEEEEEE-CCEEEEEEEEEEEECChhHHHHHHHHHHhcC-CCCCCcEEEECCEee
Confidence 5888998886 2 33344444444 6667777888888777788876665554431 112269999999753
No 52
>2o03_A Probable zinc uptake regulation protein FURB; DNA-binding, helix-turn-helix, zinc binding, GE regulation; 2.70A {Mycobacterium tuberculosis}
Probab=27.33 E-value=52 Score=25.74 Aligned_cols=44 Identities=7% Similarity=0.196 Sum_probs=24.6
Q ss_pred CCCHHHHHHHHHHHhC--CCChHHHHHHHHhcCCCCCcchhhHHHHHH
Q 039425 19 ILNKEKSNLLVDMSKN--NVRPKDILHVLKKRNMHNATTIRAIYNARR 64 (413)
Q Consensus 19 rlt~~~~~~i~~L~~~--g~~~~~I~~~l~~~~~~~~~t~~di~n~~~ 64 (413)
|+|+.-+..+..|.++ .++..+|.+.+++..|+ +.+.+||+...
T Consensus 8 r~T~qR~~Il~~l~~~~~~~sa~ei~~~l~~~~~~--is~~TVYR~L~ 53 (131)
T 2o03_A 8 RSTRQRAAISTLLETLDDFRSAQELHDELRRRGEN--IGLTTVYRTLQ 53 (131)
T ss_dssp HHHHHHHHHHHHHHHCCSCEEHHHHHHHHHHTTCC--CCHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhCCCCCCHHHHHHHHHHhCCC--CCHhhHHHHHH
Confidence 3444444444444443 46777777777776544 45556665544
No 53
>1z96_A DNA-damage, UBA-domain protein MUD1; ubiquitin, three-helix bundle, protein transport; 1.80A {Schizosaccharomyces pombe} SCOP: a.5.2.1
Probab=27.13 E-value=87 Score=18.51 Aligned_cols=29 Identities=10% Similarity=0.131 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHhCCCChHHHHHHHHhcCC
Q 039425 22 KEKSNLLVDMSKNNVRPKDILHVLKKRNM 50 (413)
Q Consensus 22 ~~~~~~i~~L~~~g~~~~~I~~~l~~~~~ 50 (413)
++..+.|..|.+-|++..+....|+..++
T Consensus 2 ~~~~~~i~~L~~mGf~~~~a~~AL~~~~~ 30 (40)
T 1z96_A 2 PGLNSKIAQLVSMGFDPLEAAQALDAANG 30 (40)
T ss_dssp -CHHHHHHHHHHTTCCHHHHHHHHHHTTT
T ss_pred chHHHHHHHHHHcCCCHHHHHHHHHHcCC
Confidence 34556788999999999999998888753
No 54
>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11
Probab=27.13 E-value=1.3e+02 Score=20.58 Aligned_cols=44 Identities=18% Similarity=0.315 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhCC---CChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhh
Q 039425 22 KEKSNLLVDMSKNN---VRPKDILHVLKKRNMHNATTIRAIYNARRKYKVR 69 (413)
Q Consensus 22 ~~~~~~i~~L~~~g---~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~ 69 (413)
+..+.++..+...| ..|+.|++.+... | +|..+|....|++|..
T Consensus 13 elH~~Fv~Av~~LG~~~AtPk~Il~~M~v~--g--LT~~~VkSHLQKYR~~ 59 (64)
T 1irz_A 13 ELHNKFLAAVDHLGVERAVPKKILDLMNVD--K--LTRENVASHLQKFRVA 59 (64)
T ss_dssp HHHHHHHHHHHHHCTTTCCHHHHHHHHCCT--T--CCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCCCCcHHHHHHcCCC--C--CCHHHHHHHHHHHHHH
Confidence 44566666666655 4599999887642 3 7999999988888764
No 55
>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=26.74 E-value=1.1e+02 Score=25.01 Aligned_cols=66 Identities=15% Similarity=0.162 Sum_probs=37.9
Q ss_pred CCEEEeeccccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccceEEEeccchHHHH
Q 039425 120 PRVLIMDCTYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELALMT 196 (413)
Q Consensus 120 ~~vl~iD~Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~~iitD~~~al~~ 196 (413)
.+++.+|.|+..++ +.++.+|...+.. +++.+ .+++......++..+...+ .+.+|.+|......+
T Consensus 29 ~~~w~~D~~~~~g~-----~~l~~vD~~Sr~~-~~~~~-~~~~~~~~~~~~~~~~~~~----~~~~i~sDnG~ef~s 94 (183)
T 3av9_A 29 PGIWQLDCTHLEGK-----VILVAVHVASGYI-EAEVI-PAETGQETAYFLLKLAGRW----PVKTVHTDNGSNFTS 94 (183)
T ss_dssp TTEEEEEEEEETTE-----EEEEEEETTTTEE-EEEEE-SSCCHHHHHHHHHHHHHHS----CCCEEECSSHHHHHC
T ss_pred CCEEEEeccccCCc-----EEEEEEECCCCCE-EEEEe-CCccchHHHHHHHHHHHHc----CCcEEEecCchhcch
Confidence 46889999987221 2334446555544 66654 4555544443333333322 349999999887753
No 56
>2rnj_A Response regulator protein VRAR; HTH LUXR-type domain, DNA binding domain, activator, antibiotic resistance, cytoplasm, DNA-binding; NMR {Staphylococcus aureus}
Probab=26.13 E-value=94 Score=22.27 Aligned_cols=46 Identities=11% Similarity=0.130 Sum_probs=32.2
Q ss_pred CCCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhhh
Q 039425 17 AGILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKVRE 70 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~~ 70 (413)
...|++.++..+.- ...|++.++|.+.+. ++...|++...+++++.
T Consensus 27 l~~Lt~~e~~vl~l-~~~g~s~~eIA~~l~-------is~~tV~~~l~r~~~kL 72 (91)
T 2rnj_A 27 YEMLTEREMEILLL-IAKGYSNQEIASASH-------ITIKTVKTHVSNILSKL 72 (91)
T ss_dssp GGGCCSHHHHHHHH-HHTTCCTTHHHHHHT-------CCHHHHHHHHHHHHHHT
T ss_pred HhcCCHHHHHHHHH-HHcCCCHHHHHHHHC-------cCHHHHHHHHHHHHHHH
Confidence 35688888766654 678999999999883 35566666666555543
No 57
>3eyy_A Putative iron uptake regulatory protein; NUR, nickel-uptake regulator, D-domain, dimerization domain, DB-domain, DNA-binding domain; 2.40A {Streptomyces coelicolor}
Probab=26.11 E-value=1.5e+02 Score=23.55 Aligned_cols=14 Identities=14% Similarity=-0.017 Sum_probs=7.0
Q ss_pred HHHHHHHHHhhcCc
Q 039425 76 QMQLLMSKLIEHKY 89 (413)
Q Consensus 76 ~~~~l~~~l~~~~~ 89 (413)
.+-..++.|.+.|.
T Consensus 54 TVYR~L~~L~e~Gl 67 (145)
T 3eyy_A 54 TVYRTLELLEELGL 67 (145)
T ss_dssp HHHHHHHHHHHHTS
T ss_pred HHHHHHHHHHHCCc
Confidence 44444555555554
No 58
>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=26.01 E-value=89 Score=24.07 Aligned_cols=46 Identities=15% Similarity=0.195 Sum_probs=33.9
Q ss_pred CCCCCHHHHHHHHHHHh-CCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhh
Q 039425 17 AGILNKEKSNLLVDMSK-NNVRPKDILHVLKKRNMHNATTIRAIYNARRKYK 67 (413)
Q Consensus 17 ~rrlt~~~~~~i~~L~~-~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~ 67 (413)
.+.+++++...|..+.. .+.++++|...+ |..++...|+++..+..
T Consensus 58 ~~~l~~~~~~~i~~~~~~~~~s~~~i~~~l-----g~~~s~~tV~r~l~~~g 104 (141)
T 1u78_A 58 RKALSVRDERNVIRAASNSCKTARDIRNEL-----QLSASKRTILNVIKRSG 104 (141)
T ss_dssp CCSSCHHHHHHHHHHHHHCCCCHHHHHHHT-----TCCSCHHHHHHHHHHTC
T ss_pred CCcCCHHHHHHHHHHHhCCCCCHHHHHHHH-----CCCccHHHHHHHHHHCC
Confidence 35688888877777644 569999998876 33467889998887643
No 59
>3gp4_A Transcriptional regulator, MERR family; structural genomics, DNA-BI transcription regulator, PSI-2; 1.85A {Listeria monocytogenes str}
Probab=25.74 E-value=1.7e+02 Score=23.24 Aligned_cols=32 Identities=9% Similarity=0.116 Sum_probs=25.3
Q ss_pred CCCCCHHHHH---HHHHHHhCCCChHHHHHHHHhc
Q 039425 17 AGILNKEKSN---LLVDMSKNNVRPKDILHVLKKR 48 (413)
Q Consensus 17 ~rrlt~~~~~---~i~~L~~~g~~~~~I~~~l~~~ 48 (413)
+|.-++++.. .|..|.+.|++..+|...+...
T Consensus 38 ~R~Y~~~dl~~l~~I~~lr~~G~sL~eIk~~l~~~ 72 (142)
T 3gp4_A 38 VRKFGAEDLRWILFTRQMRRAGLSIEALIDYLALF 72 (142)
T ss_dssp CBCBCHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred CeeeCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 5666776644 5788999999999999998753
No 60
>2x48_A CAG38821; archeal virus, viral protein; 2.60A {Sulfolobus islandicus rod-shaped virusorganism_taxid}
Probab=25.30 E-value=73 Score=20.18 Aligned_cols=38 Identities=11% Similarity=0.144 Sum_probs=27.1
Q ss_pred CCC--HHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHH
Q 039425 19 ILN--KEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNAR 63 (413)
Q Consensus 19 rlt--~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~ 63 (413)
-++ ++....|..|...|.+.++|...+. ++...|++..
T Consensus 13 ~l~~~~~~~~~i~~l~~~g~s~~eIA~~lg-------is~~TV~~~l 52 (55)
T 2x48_A 13 YVESEDDLVSVAHELAKMGYTVQQIANALG-------VSERKVRRYL 52 (55)
T ss_dssp EECSHHHHHHHHHHHHHTTCCHHHHHHHHT-------SCHHHHHHHH
T ss_pred HHhcCHHHHHHHHHHHHcCCCHHHHHHHHC-------cCHHHHHHHH
Confidence 356 7777888888889999999887653 3455555543
No 61
>1wgn_A UBAP1, ubiquitin associated protein; ubiquitin associated protein 1 (UBAP1), UBA domain, structural genomics; NMR {Homo sapiens} SCOP: a.5.2.1
Probab=24.64 E-value=71 Score=21.67 Aligned_cols=34 Identities=12% Similarity=0.184 Sum_probs=30.1
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCC
Q 039425 18 GILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMH 51 (413)
Q Consensus 18 rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~ 51 (413)
+-|++.+.+.|..|..-|.+..+....|+...++
T Consensus 13 ~~ls~se~e~V~~LvsMGFs~~qA~kALKat~~N 46 (63)
T 1wgn_A 13 QMLSPSERQCVETVVNMGYSYECVLRAMKKKGEN 46 (63)
T ss_dssp HTCCHHHHHHHHHHHHHHCCHHHHHHHHHHHCSC
T ss_pred HhhCcchHHHHHHHHHcCCCHHHHHHHHHHcCCC
Confidence 6688999999999999999999999999998643
No 62
>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure, structural genomics, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: a.4.1.19
Probab=24.37 E-value=1.2e+02 Score=21.83 Aligned_cols=44 Identities=16% Similarity=0.057 Sum_probs=33.6
Q ss_pred CCCCHHHHHHHHHHHh-C-CCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhh
Q 039425 18 GILNKEKSNLLVDMSK-N-NVRPKDILHVLKKRNMHNATTIRAIYNARRKYKV 68 (413)
Q Consensus 18 rrlt~~~~~~i~~L~~-~-g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~ 68 (413)
++.|++++..+..++. . |.+.++|...+ | ++...||+.+++.+.
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 6789999988888875 5 89888777554 3 467889998877665
No 63
>1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR {Sinorhizobium meliloti}
Probab=24.03 E-value=1.1e+02 Score=20.90 Aligned_cols=44 Identities=16% Similarity=0.151 Sum_probs=30.6
Q ss_pred CCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhhh
Q 039425 19 ILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKVRE 70 (413)
Q Consensus 19 rlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~~ 70 (413)
.|++.++..+.- ...|++.++|.+.+. ++...|++...+++++.
T Consensus 16 ~L~~~e~~vl~l-~~~g~s~~eIA~~l~-------is~~tV~~~~~r~~~kl 59 (79)
T 1x3u_A 16 TLSERERQVLSA-VVAGLPNKSIAYDLD-------ISPRTVEVHRANVMAKM 59 (79)
T ss_dssp HHCHHHHHHHHH-HTTTCCHHHHHHHTT-------SCHHHHHHHHHHHHHHT
T ss_pred hCCHHHHHHHHH-HHcCCCHHHHHHHHC-------cCHHHHHHHHHHHHHHH
Confidence 477777666655 578999999988762 45666666666665554
No 64
>4ets_A Ferric uptake regulation protein; metal binding protein, transcription factor; 2.10A {Campylobacter jejuni subsp}
Probab=23.96 E-value=1.4e+02 Score=24.36 Aligned_cols=59 Identities=12% Similarity=0.177 Sum_probs=31.6
Q ss_pred HHHHHhCCCCh----HHHHHHHHhcCCCCCcchhhHHHHHHHh--hhhhhcCcHHHHHHHHHHhhcCcE
Q 039425 28 LVDMSKNNVRP----KDILHVLKKRNMHNATTIRAIYNARRKY--KVREQAGHSQMQLLMSKLIEHKYI 90 (413)
Q Consensus 28 i~~L~~~g~~~----~~I~~~l~~~~~~~~~t~~di~n~~~~~--~~~~~~~~~~~~~l~~~l~~~~~~ 90 (413)
...|.+.|++. ..|++.|.+.. ..+|..+|+...++. .. .-+...+-..++.|.+.|..
T Consensus 21 ~~~L~~~g~r~T~qR~~IL~~L~~~~--~h~sA~eI~~~l~~~~~~~--~is~aTVYRtL~~L~e~Glv 85 (162)
T 4ets_A 21 KKILRQGGLKYTKQREVLLKTLYHSD--THYTPESLYMEIKQAEPDL--NVGIATVYRTLNLLEEAEMV 85 (162)
T ss_dssp HHHHHHHTCCCCHHHHHHHHHHHSCC--SCBCHHHHHHHHHHHCGGG--CCCHHHHHHHHHHHHHTTSE
T ss_pred HHHHHHcCCCCCHHHHHHHHHHHhCC--CCCCHHHHHHHHHhhcCCC--CCCHHHHHHHHHHHHHCCCE
Confidence 33455556543 33555555442 346777777665432 11 11445666677777777653
No 65
>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=23.78 E-value=1.1e+02 Score=23.55 Aligned_cols=61 Identities=15% Similarity=0.227 Sum_probs=38.7
Q ss_pred hHHHHHHHhhhhhhc--CcHHHHHHHHHHhhcCcEEEEeecCCCCceeeEEeeChhhHHHHhhC
Q 039425 58 AIYNARRKYKVREQA--GHSQMQLLMSKLIEHKYIERHKSDVDTNCVEALFLAHPSAIESLQAF 119 (413)
Q Consensus 58 di~n~~~~~~~~~~~--~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 119 (413)
.||...+-+|+-.+. .........+.|+..+..|+...+.+++++ ++||..+++++..+.+
T Consensus 19 hIYEy~KGvR~LvL~T~~~~~~~~~~~rL~~~~I~Y~iq~v~~~~ki-NlFFG~~~Ci~vir~~ 81 (120)
T 2guk_A 19 HIYEFEKGVRSMVLATLANDDIPYAEERLRSRQIPYFAQPTPNTERT-NLFFGCKECMEAIRLF 81 (120)
T ss_dssp HHHHHHHTSCSEEEEEEEGGGHHHHHHHHHHTTCCEEEECCTTSSEE-EEEEECHHHHHHHHHH
T ss_pred HHHHHhhhhHHHHHHhcCHhhHHHHHHHHHhCCCCEEEEEcCCCCeE-EEEeCCHHHHHHHHHH
Confidence 345554444444332 123456667778777765555555456666 8999999999988764
No 66
>2zhg_A Redox-sensitive transcriptional activator SOXR; oxidative stress, MERR family, activator; HET: DNA; 2.80A {Escherichia coli} PDB: 2zhh_A
Probab=23.49 E-value=1.6e+02 Score=23.72 Aligned_cols=32 Identities=3% Similarity=-0.038 Sum_probs=23.7
Q ss_pred CCCCCHHH---HHHHHHHHhCCCChHHHHHHHHhc
Q 039425 17 AGILNKEK---SNLLVDMSKNNVRPKDILHVLKKR 48 (413)
Q Consensus 17 ~rrlt~~~---~~~i~~L~~~g~~~~~I~~~l~~~ 48 (413)
+|.-++++ ...|..|.+.|++..+|...|...
T Consensus 46 ~R~Y~~~dl~~l~~I~~lr~~G~sl~eI~~~l~~~ 80 (154)
T 2zhg_A 46 QRRYKRDVLRYVAIIKIAQRIGIPLATIGEAFGVL 80 (154)
T ss_dssp CEEBCTTHHHHHHHHHHHHHHTCCHHHHHHHHCC-
T ss_pred CEEeCHHHHHHHHHHHHHHHCCCCHHHHHHHHHhc
Confidence 45555554 446778888999999999999753
No 67
>1pzx_A Hypothetical protein APC36103; structural genomics, two domains containing mixed alpha/beta structures, PSI; HET: PLM; 2.00A {Geobacillus stearothermophilus} SCOP: c.119.1.1
Probab=23.33 E-value=4e+02 Score=23.79 Aligned_cols=39 Identities=13% Similarity=0.093 Sum_probs=26.6
Q ss_pred HHHHHHHhCCCChHHHHHHHHhcCC--CCCcchhhHHHHHH
Q 039425 26 NLLVDMSKNNVRPKDILHVLKKRNM--HNATTIRAIYNARR 64 (413)
Q Consensus 26 ~~i~~L~~~g~~~~~I~~~l~~~~~--~~~~t~~di~n~~~ 64 (413)
.....|.+.|.+..+|.+.+.+... ...++..++.++++
T Consensus 133 ~~A~~l~~~G~s~eeI~~~l~~~~~~~~~~f~v~~L~~L~k 173 (289)
T 1pzx_A 133 MKAVELAKQNTPYNLLCETIESYCRHMEHIFTVDNLDYLAR 173 (289)
T ss_dssp HHHHHHHHTTCCHHHHHHHHHHHHHTEEEEEECSCHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHhcCEEEEEeCCHHHHHH
Confidence 3456777788888888888877432 23466777776665
No 68
>3fdj_A DEGV family protein; GUT microbiome, structural genomics, PSI-2, protein ST initiative, midwest center for structural genomics, MCSG; HET: MSE P6G PG4; 1.80A {Eubacterium eligens} SCOP: c.119.1.0
Probab=23.03 E-value=4e+02 Score=23.66 Aligned_cols=40 Identities=10% Similarity=0.088 Sum_probs=29.0
Q ss_pred HHHHHHHHhCCCChHHHHHHHHhcCCC--CCcchhhHHHHHH
Q 039425 25 SNLLVDMSKNNVRPKDILHVLKKRNMH--NATTIRAIYNARR 64 (413)
Q Consensus 25 ~~~i~~L~~~g~~~~~I~~~l~~~~~~--~~~t~~di~n~~~ 64 (413)
-.....|.+.|.+..+|.+.|.+.... ..++..++.++++
T Consensus 126 v~~A~~~~~~G~s~~eI~~~l~~~~~~~~~~f~v~~L~~L~k 167 (278)
T 3fdj_A 126 LEQLQQMIEEGKKFEEIDGAIDAYMQKTRLFCSLKSLHNLAQ 167 (278)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHHHHHTTEEEEEEESCCHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHhcceEEEEECChHHHHH
Confidence 344667788899999999998886433 2467777777766
No 69
>3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis}
Probab=22.80 E-value=1.4e+02 Score=25.14 Aligned_cols=45 Identities=11% Similarity=0.141 Sum_probs=33.5
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhhh
Q 039425 18 GILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKVRE 70 (413)
Q Consensus 18 rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~~ 70 (413)
..||+.+.+ |..+...|++.++|.+.| + ++.+.|.+.+++++++.
T Consensus 148 ~~LT~rE~~-vL~~l~~g~s~~eIa~~l---~----is~~TV~~hi~~l~~KL 192 (225)
T 3c3w_A 148 SGLTDQERT-LLGLLSEGLTNKQIADRM---F----LAEKTVKNYVSRLLAKL 192 (225)
T ss_dssp TTSCHHHHH-HHHHHHTTCCHHHHHHHH---T----CCHHHHHHHHHHHHHHT
T ss_pred CCCCHHHHH-HHHHHHCCCCHHHHHHHh---C----CCHHHHHHHHHHHHHHh
Confidence 468888865 555667899999999887 1 56778888888777654
No 70
>2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium}
Probab=22.62 E-value=1.4e+02 Score=19.15 Aligned_cols=37 Identities=11% Similarity=0.159 Sum_probs=25.9
Q ss_pred HHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhhh
Q 039425 27 LLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKVRE 70 (413)
Q Consensus 27 ~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~~ 70 (413)
.|..|...|.+.++|.+.+. ++...|++...+++++.
T Consensus 5 ~vl~l~~~g~s~~eIA~~l~-------is~~tV~~~~~~~~~kl 41 (61)
T 2jpc_A 5 QVLKLIDEGYTNHGISEKLH-------ISIKTVETHRMNMMRKL 41 (61)
T ss_dssp HHHHHHHTSCCSHHHHHHTC-------SCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCCHHHHHHHhC-------CCHHHHHHHHHHHHHHH
Confidence 45556788999999988762 45667777766666553
No 71
>3mwm_A ZUR, putative metal uptake regulation protein; FUR, regulatory metal, graded transcription regulation, transcription; 2.40A {Streptomyces coelicolor}
Probab=22.21 E-value=65 Score=25.53 Aligned_cols=44 Identities=7% Similarity=0.219 Sum_probs=22.9
Q ss_pred CCCHHHHHHHHHHHhC--CCChHHHHHHHHhcCCCCCcchhhHHHHHH
Q 039425 19 ILNKEKSNLLVDMSKN--NVRPKDILHVLKKRNMHNATTIRAIYNARR 64 (413)
Q Consensus 19 rlt~~~~~~i~~L~~~--g~~~~~I~~~l~~~~~~~~~t~~di~n~~~ 64 (413)
|+|+.-+..+..|.++ .++..+|.+.|++.+++ +.+.+||+...
T Consensus 11 r~T~qR~~Il~~L~~~~~h~sa~eI~~~l~~~~~~--is~aTVYR~L~ 56 (139)
T 3mwm_A 11 RATRQRAAVSAALQEVEEFRSAQELHDMLKHKGDA--VGLTTVYRTLQ 56 (139)
T ss_dssp HHHHHHHHHHHHHTTCSSCEEHHHHHHHHHHTTCC--CCHHHHHHHHH
T ss_pred ccCHHHHHHHHHHHhCCCCCCHHHHHHHHHHhCCC--CCHHHHHHHHH
Confidence 4454443444444442 36666677766666543 44555555443
No 72
>2bw3_A Transposase; DNA recombination, transposition; 2.0A {Musca domestica} SCOP: a.270.1.1 c.55.3.12 PDB: 2bw3_B
Probab=21.54 E-value=2e+02 Score=28.15 Aligned_cols=67 Identities=19% Similarity=0.151 Sum_probs=43.1
Q ss_pred EEEEEEEeecc--cccchHHHHHHHHHHHHhcccc--ceEEEeccchHHHHHHHHhCCccccccccchhHHHHHHh
Q 039425 150 TFSVCCVYLKL--KWENNYIWALERLKSIMEENML--ASVIVTDRELALMTVIQKHFPSATTFLCRWYISRNVLVN 221 (413)
Q Consensus 150 ~~~~~~~~~~~--E~~~~~~~~l~~l~~~~~~~~~--p~~iitD~~~al~~Ai~~vfP~a~~~lC~~Hi~kn~~~~ 221 (413)
...+++.-+.. .+.++....+....+.. +... ...++||....+..|++. ..+..|.-|+..-+.+.
T Consensus 131 ~~~L~~~~~~~~~~t~~~i~~~i~~~l~~~-~l~~~~~v~~vtDnasn~~~~~~~----~~~i~C~~H~lnLi~~~ 201 (534)
T 2bw3_A 131 DLILGLKSLDFERSTAENIYKKLKAIFSQF-NVEDLSSIKFVTDRGANVVKSLAN----NIRINCSSHLLSNVLEN 201 (534)
T ss_dssp EEEEEEEEECGGGCSHHHHHHHHHHHHHTT-TCCCCTTCEEEECCCHHHHHHTTT----SEEEECHHHHHHHHHHH
T ss_pred EEEEeEeecCCCCCCHHHHHHHHHHHHHHc-CCCcccceeEECCCHHHHHHHHhc----CcccccHHHHHHHHHHH
Confidence 34667766664 45555554444444433 2322 456899999988877764 35789999999877654
No 73
>1s7o_A Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SPS1042/SPYM18_1152; putative DNA binding protein, structural genomics; 2.31A {Streptococcus pyogenes serotype M3} SCOP: a.4.13.3
Probab=21.21 E-value=1.9e+02 Score=21.90 Aligned_cols=29 Identities=10% Similarity=0.153 Sum_probs=24.5
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHHH
Q 039425 18 GILNKEKSNLLVDMSKNNVRPKDILHVLK 46 (413)
Q Consensus 18 rrlt~~~~~~i~~L~~~g~~~~~I~~~l~ 46 (413)
..|++.++..+.-.+..|.+.++|.+.+.
T Consensus 21 ~~L~~~~r~vl~l~y~~g~s~~EIA~~lg 49 (113)
T 1s7o_A 21 ALLTDKQMNYIELYYADDYSLAEIADEFG 49 (113)
T ss_dssp GGSCHHHHHHHHHHHHTCCCHHHHHHHHT
T ss_pred hcCCHHHHHHHHHHHHcCCCHHHHHHHHC
Confidence 46899998887777789999999998875
No 74
>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=21.06 E-value=4.7e+02 Score=25.42 Aligned_cols=65 Identities=14% Similarity=0.094 Sum_probs=39.3
Q ss_pred cCCCCceeeEEEeec-cCcEEEEEEEe--e--------cccccchHHHHHHHHHHHHh--cccc-ceEEEeccchHHHHH
Q 039425 132 NRYDMPLLEIAGVTS-IDLTFSVCCVY--L--------KLKWENNYIWALERLKSIME--ENML-ASVIVTDRELALMTV 197 (413)
Q Consensus 132 n~~~~~l~~~~g~~~-~g~~~~~~~~~--~--------~~E~~~~~~~~l~~l~~~~~--~~~~-p~~iitD~~~al~~A 197 (413)
...|+.+...+.++. .|. |+|..- + +-|.+|+|.| ++.+.+... +... ..+.|.|++.....-
T Consensus 120 ~~~G~~lHstLavtp~~g~--pLGl~~~~~W~R~~~~~pieeKES~rW-le~~~~~~~~~~~~~~rvV~V~DRE~Di~el 196 (477)
T 1mus_A 120 ASRGWWVHSVLLLEATTFR--TVGLLHQEWWMRPDDPADADEKESGKW-LAAAATSRLRMGSMMSNVIAVCDREADIHAY 196 (477)
T ss_dssp SCEEEEEEEEEEEETTTCC--EEEEEEEEEECCCSSGGGCSSCGGGHH-HHHHHHHHHHHGGGGGGEEEEECGGGCCHHH
T ss_pred cccceEEEEEEEEcCCCCc--eeeeeeeeEeecccccCCcccchhHHH-HHHHHHHHHhcCCCcceEEEEechhhhHHHH
Confidence 346788889999998 554 555432 1 1356788876 344443321 2233 567999999765544
Q ss_pred HH
Q 039425 198 IQ 199 (413)
Q Consensus 198 i~ 199 (413)
+.
T Consensus 197 f~ 198 (477)
T 1mus_A 197 LQ 198 (477)
T ss_dssp HH
T ss_pred HH
Confidence 43
No 75
>1a04_A Nitrate/nitrite response regulator protein NARL; signal transduction protein, response regulators, two- component systems; 2.20A {Escherichia coli} SCOP: a.4.6.2 c.23.1.1 PDB: 1rnl_A
Probab=20.57 E-value=1.6e+02 Score=24.37 Aligned_cols=45 Identities=11% Similarity=0.104 Sum_probs=33.0
Q ss_pred CCCCHHHHHHHHHHHhCCCChHHHHHHHHhcCCCCCcchhhHHHHHHHhhhhh
Q 039425 18 GILNKEKSNLLVDMSKNNVRPKDILHVLKKRNMHNATTIRAIYNARRKYKVRE 70 (413)
Q Consensus 18 rrlt~~~~~~i~~L~~~g~~~~~I~~~l~~~~~~~~~t~~di~n~~~~~~~~~ 70 (413)
..||+.+.+ |..+...|.+.++|.+.+ .++.+.|.+.+++++++.
T Consensus 153 ~~Lt~rE~~-vl~~l~~g~s~~~Ia~~l-------~is~~TV~~hi~~i~~Kl 197 (215)
T 1a04_A 153 NQLTPRERD-ILKLIAQGLPNKMIARRL-------DITESTVKVHVKHMLKKM 197 (215)
T ss_dssp GGSCHHHHH-HHHHHHTTCCHHHHHHHH-------TCCHHHHHHHHHHHHHHH
T ss_pred cCCCHHHHH-HHHHHHcCCCHHHHHHHH-------CCCHHHHHHHHHHHHHHc
Confidence 357877754 566667899999999877 256777887777777664
No 76
>1c6v_A Protein (SIV integrase); DNA integration, DNA binding protein; 3.00A {Simian immunodeficiency virus} SCOP: c.55.3.2
Probab=20.27 E-value=1.5e+02 Score=23.04 Aligned_cols=64 Identities=17% Similarity=0.067 Sum_probs=36.1
Q ss_pred CCEEEeeccccccCCCCceeeEEEeeccCcEEEEEEEeecccccchHHHHHHHHHHHHhccccceEEEeccchHH
Q 039425 120 PRVLIMDCTYQTNRYDMPLLEIAGVTSIDLTFSVCCVYLKLKWENNYIWALERLKSIMEENMLASVIVTDRELAL 194 (413)
Q Consensus 120 ~~vl~iD~Ty~tn~~~~~l~~~~g~~~~g~~~~~~~~~~~~E~~~~~~~~l~~l~~~~~~~~~p~~iitD~~~al 194 (413)
.+++.+|.|+.. .. +.++.+|...+ +.+++.+ .+++.+....++ .+.+. ...|.+|.+|.....
T Consensus 9 ~~~w~~D~~~~~----g~-~~l~~iD~~Sr-~~~~~~~-~~~~~~~~~~~~---~~~~~-~~~~~~i~sDnG~~f 72 (164)
T 1c6v_A 9 LGTWQMDCTHLE----GK-IVIVAVHVASG-FIEAEVI-PQETGRQTALFL---LKLAG-RWPITHLHTDNGANF 72 (164)
T ss_dssp TTEEEEEEEEET----TE-EEEEEECTTSC-CEEEEEC-SSCSHHHHHHHH---HHHHT-TSCCCEEECCCCSST
T ss_pred CCEEEEeecccC----CE-EEEEEEEccCC-EEEEEEc-CCCchHHHHHHH---HHHHH-hcCCCEEEeCCchhh
Confidence 358889988872 22 33333666555 4455544 445554444333 33332 123799999997654
Done!