Query 020252
Match_columns 328
No_of_seqs 218 out of 1330
Neff 4.3
Searched_HMMs 29240
Date Mon Mar 25 14:05:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020252.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/020252hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1l9z_H Sigma factor SIGA; heli 99.8 3.2E-19 1.1E-23 177.3 12.8 119 209-328 91-240 (438)
2 3ugo_A RNA polymerase sigma fa 99.8 5.4E-19 1.8E-23 162.6 12.4 118 210-328 5-153 (245)
3 2a6h_F RNA polymerase sigma fa 99.8 5E-19 1.7E-23 174.2 8.3 119 209-328 76-225 (423)
4 1sig_A Sigma70, RNA polymerase 98.5 1.4E-07 5E-12 89.1 8.0 54 275-328 251-308 (339)
5 3iyd_F RNA polymerase sigma fa 98.1 1.3E-06 4.5E-11 89.4 3.8 56 273-328 358-417 (613)
6 1l0o_C Sigma factor; bergerat 97.6 1.1E-05 3.6E-10 69.5 0.0 45 284-328 27-71 (243)
7 1or7_A Sigma-24, RNA polymeras 96.6 0.0028 9.6E-08 53.0 5.8 52 275-327 12-64 (194)
8 2q1z_A RPOE, ECF SIGE; ECF sig 96.4 0.0046 1.6E-07 51.4 5.6 55 273-327 13-69 (184)
9 3iyd_F RNA polymerase sigma fa 94.5 0.01 3.4E-07 60.8 1.3 35 208-243 92-127 (613)
10 2o7g_A Probable RNA polymerase 94.0 0.069 2.3E-06 41.5 5.0 44 283-327 22-65 (112)
11 1h3l_A RNA polymerase sigma fa 92.9 0.084 2.9E-06 39.1 3.7 45 283-327 10-54 (87)
12 2jt1_A PEFI protein; solution 77.3 2.8 9.5E-05 32.0 4.4 33 249-281 14-46 (77)
13 2k9s_A Arabinose operon regula 61.2 51 0.0017 24.9 8.6 37 246-282 6-43 (107)
14 3mn2_A Probable ARAC family tr 61.1 51 0.0017 24.9 8.6 36 247-282 6-41 (108)
15 3oio_A Transcriptional regulat 59.9 49 0.0017 25.3 8.3 37 246-282 10-46 (113)
16 3lsg_A Two-component response 54.1 66 0.0023 24.0 8.6 35 248-282 7-42 (103)
17 3oou_A LIN2118 protein; protei 52.4 23 0.00077 27.0 5.1 34 248-281 10-43 (108)
18 1bl0_A Protein (multiple antib 51.3 66 0.0023 25.2 7.9 36 247-282 15-50 (129)
19 3ugo_A RNA polymerase sigma fa 50.1 3.4 0.00012 37.4 0.0 40 245-284 199-240 (245)
20 1jko_C HIN recombinase, DNA-in 46.0 33 0.0011 21.8 4.5 23 260-282 22-44 (52)
21 3mkl_A HTH-type transcriptiona 45.6 27 0.00093 27.1 4.7 34 248-281 12-45 (120)
22 3k2z_A LEXA repressor; winged 43.3 33 0.0011 29.2 5.3 27 255-281 20-46 (196)
23 1tc3_C Protein (TC3 transposas 42.4 58 0.002 20.0 5.8 22 260-281 22-43 (51)
24 3n0r_A Response regulator; sig 41.3 10 0.00035 34.4 1.7 44 284-327 20-63 (286)
25 2zc2_A DNAD-like replication p 41.1 30 0.001 25.5 4.0 56 252-311 10-71 (78)
26 2ofy_A Putative XRE-family tra 34.2 1.2E+02 0.0043 21.4 6.6 48 261-317 29-76 (86)
27 3nxc_A HTH-type protein SLMA; 34.0 1.5E+02 0.0052 23.5 7.6 28 254-281 39-67 (212)
28 3kz9_A SMCR; transcriptional r 31.9 1.8E+02 0.0063 22.7 10.9 70 252-321 29-99 (206)
29 3ppb_A Putative TETR family tr 31.8 1.8E+02 0.0061 22.5 11.2 73 252-324 21-94 (195)
30 3kz3_A Repressor protein CI; f 30.3 1.1E+02 0.0037 21.6 5.6 47 260-316 26-72 (80)
31 3mnl_A KSTR, transcriptional r 27.6 2.2E+02 0.0076 22.3 7.5 66 255-320 35-101 (203)
32 3f2g_A Alkylmercury lyase; MER 26.6 63 0.0022 29.4 4.4 27 256-282 33-59 (220)
33 3t72_q RNA polymerase sigma fa 26.6 1.7E+02 0.0059 22.7 6.5 54 258-317 38-92 (99)
34 2o8x_A Probable RNA polymerase 24.8 1.4E+02 0.0048 20.2 5.1 26 260-285 32-57 (70)
35 3f1b_A TETR-like transcription 24.2 2.5E+02 0.0087 21.8 11.2 72 252-323 26-98 (203)
36 3pas_A TETR family transcripti 24.1 2.5E+02 0.0085 21.6 7.7 43 253-295 21-64 (195)
37 1d5y_A ROB transcription facto 24.0 1.8E+02 0.006 25.3 6.8 38 245-282 5-42 (292)
38 3mzy_A RNA polymerase sigma-H 23.8 2.5E+02 0.0085 21.5 7.7 34 258-291 123-156 (164)
39 2a6h_F RNA polymerase sigma fa 23.4 1.3E+02 0.0044 29.2 6.2 35 245-279 271-307 (423)
40 2fjr_A Repressor protein CI; g 23.1 1.2E+02 0.0041 24.9 5.3 51 254-316 16-66 (189)
41 3knw_A Putative transcriptiona 22.8 2.8E+02 0.0096 21.8 10.4 73 252-324 26-99 (212)
42 1rp3_A RNA polymerase sigma fa 21.9 1.6E+02 0.0054 24.4 5.8 34 257-290 201-234 (239)
43 2kpj_A SOS-response transcript 21.7 2E+02 0.0067 21.0 5.7 47 260-316 23-69 (94)
44 3f6w_A XRE-family like protein 21.7 2.1E+02 0.0072 19.9 6.5 48 260-317 28-75 (83)
45 1rp3_A RNA polymerase sigma fa 21.5 1.2E+02 0.0042 25.0 5.1 36 244-279 100-135 (239)
46 1xn7_A Hypothetical protein YH 21.4 1.3E+02 0.0045 22.6 4.7 36 245-282 4-39 (78)
47 1qgp_A Protein (double strande 21.3 90 0.0031 23.1 3.7 26 257-282 29-54 (77)
48 3qkx_A Uncharacterized HTH-typ 21.2 2.8E+02 0.0097 21.2 11.2 74 250-323 18-92 (188)
49 3him_A Probable transcriptiona 21.1 3E+02 0.01 21.5 7.5 29 252-280 28-57 (211)
50 3dcf_A Transcriptional regulat 21.1 3.1E+02 0.011 21.6 10.6 43 253-295 44-87 (218)
51 3he0_A Transcriptional regulat 20.9 3E+02 0.01 21.4 10.5 73 252-324 23-96 (196)
52 3b7h_A Prophage LP1 protein 11 20.8 1.9E+02 0.0063 19.8 5.2 48 260-316 21-68 (78)
53 1y7y_A C.AHDI; helix-turn-heli 20.7 2E+02 0.0068 19.3 5.3 47 260-316 27-73 (74)
No 1
>1l9z_H Sigma factor SIGA; helix-turn-helix, coiled-coil, transcription/DNA complex; 6.50A {Thermus aquaticus} SCOP: i.8.1.1
Probab=99.79 E-value=3.2e-19 Score=177.33 Aligned_cols=119 Identities=25% Similarity=0.378 Sum_probs=100.1
Q ss_pred CCCChhH-HHHHhccCCCCCCHHHHHHHHHHHHHHHHHHHHHH------------------HHHhhcCCCCchHHHHHH-
Q 020252 209 DYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLRE------------------VLSERCGGSPTFAQWAAA- 268 (328)
Q Consensus 209 ~~~d~l~-YL~ei~~~~~LLT~eEE~eL~~~Iq~~~~Le~~r~------------------~L~~~~GrePT~~eWA~a- 268 (328)
...|+++ ||++| +++||||++||++|+++|+.+..++.... +.....++.|+..+|+..
T Consensus 91 ~~~d~~~~Yl~ei-~~~pLLt~eEE~~La~~i~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 169 (438)
T 1l9z_H 91 STSDPVRQYLHEI-GQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPK 169 (438)
T ss_pred CCCChHHHHHHHh-ccCCCCCHHHHHHHHHHHHHhhhHHHHHHhhhccchhhhhhhhhhhhhhcccccccccccccccch
Confidence 4568999 99999 99999999999999999999865543321 122345678888887532
Q ss_pred -----------hcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHHhhhC
Q 020252 269 -----------AGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYLNMAH 328 (328)
Q Consensus 269 -----------~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLmrAve 328 (328)
++++..+|..++..|..|+++||.+|+|+|++||++|.|+|++++||||||+||||+|++
T Consensus 170 ~~~~~~~~~~~~~~~~~eLi~~~~~d~~A~~~Li~~nlrlVv~iA~ry~~~g~~aeDLIQEg~IgL~kAve 240 (438)
T 1l9z_H 170 TVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVE 240 (438)
T ss_pred hhhhhhhhhhcccchHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 355667888888889999999999999999999999999999999999999999999974
No 2
>3ugo_A RNA polymerase sigma factor; protein-DNA complex, bacterial promoter opening, G-quartet, quadruplex, DNA binding; 2.10A {Thermus aquaticus} PDB: 3ugp_A 4gor_A 1ku2_A 3lev_A* 3les_A*
Probab=99.79 E-value=5.4e-19 Score=162.61 Aligned_cols=118 Identities=26% Similarity=0.390 Sum_probs=98.7
Q ss_pred CCChhH-HHHHhccCCCCCCHHHHHHHHHHHHHHHHHH-HHHHHHH--h-----------------------hcCCCCch
Q 020252 210 YSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLE-GLREVLS--E-----------------------RCGGSPTF 262 (328)
Q Consensus 210 ~~d~l~-YL~ei~~~~~LLT~eEE~eL~~~Iq~~~~Le-~~r~~L~--~-----------------------~~GrePT~ 262 (328)
.+||++ ||++| |+.||||++||++|+++|+.++... .+..... . ..+.+|+.
T Consensus 5 ~~d~~~~yl~~i-~~~~llt~~~e~~la~~i~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~g~~~~~~~~~ 83 (245)
T 3ugo_A 5 TSDPVRQYLHEI-GQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKT 83 (245)
T ss_dssp CCHHHHHHHHHH-TTSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHTTGGGCSCCCCTTCCCCCCHHH
T ss_pred CCCcHHHHHHHc-ccccCCCHHHHHHHHHHHHHHHHHHHHHHhccCCcHHHHHHhhhhhhhccchhcccccccccccchh
Confidence 589999 99999 9999999999999999999987633 2222110 0 01468899
Q ss_pred HHHHHHhcCcH----HHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHHhhhC
Q 020252 263 AQWAAAAGVDQ----RELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYLNMAH 328 (328)
Q Consensus 263 ~eWA~a~g~d~----~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLmrAve 328 (328)
.+||.+.|++. ..|.+....|..|+++||..|+++|.++|++|.+.+.+.+||+|||++||+++++
T Consensus 84 ~~~~~~~~~~~~~~~~~L~~~~~~d~~A~~~L~~~y~~lV~~ia~r~~~~~~~aeDLvQegfi~L~~a~~ 153 (245)
T 3ugo_A 84 VEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVE 153 (245)
T ss_dssp HHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHGGGTTSSSCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhhccchHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHH
Confidence 99999999864 3455566788999999999999999999999999999999999999999999873
No 3
>2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F* 2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H
Probab=99.76 E-value=5e-19 Score=174.17 Aligned_cols=119 Identities=26% Similarity=0.397 Sum_probs=96.5
Q ss_pred CCCChhH-HHHHhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH------------------HhhcCCCCchHHHHH--
Q 020252 209 DYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVL------------------SERCGGSPTFAQWAA-- 267 (328)
Q Consensus 209 ~~~d~l~-YL~ei~~~~~LLT~eEE~eL~~~Iq~~~~Le~~r~~L------------------~~~~GrePT~~eWA~-- 267 (328)
...|+++ ||++| ++.|+||++||++|+++|+.+..+....... ....++.|+..+|+.
T Consensus 76 ~~~d~~~~Yl~ei-~~~plLt~eEE~~La~ri~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (423)
T 2a6h_F 76 STSDPVRQYLHEI-GQVPLLTLEEEVELARKVEEGMEAIKKLSEITGLDPDLIREVVRAKILGSARVRHIPGLKETLDPK 154 (423)
T ss_dssp TTHHHHHHHHHHH-HHCCCCTTHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCHHHHHTTSCSSSCTTH
T ss_pred CCCcHHHHHHHHh-cccCCCCHHHHHHHHHHHHhchhHHHHHHHhhccchhhhhhhHhhhhhhhhhcccccchhhhhhhh
Confidence 3467999 99999 9999999999999999999986544322111 112345677555432
Q ss_pred ----------HhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHHhhhC
Q 020252 268 ----------AAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYLNMAH 328 (328)
Q Consensus 268 ----------a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLmrAve 328 (328)
+++++..+|..++..|..|+++||.+|+|+|++||++|.|+|++++||||||+||||+|++
T Consensus 155 ~~~~~~~~~~~~~~~~~~L~~~~~~d~~A~~~Li~~~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~kav~ 225 (423)
T 2a6h_F 155 TVEEIDQKLKSLPKEHKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVE 225 (423)
T ss_dssp HHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTTCTTTSCHHHHHHHHHHHHHHHHH
T ss_pred hhhhhhhhhhcccccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 2456777888888889999999999999999999999999999999999999999999973
No 4
>1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma factor, transcription regulation; 2.60A {Escherichia coli} SCOP: a.177.1.1
Probab=98.53 E-value=1.4e-07 Score=89.07 Aligned_cols=54 Identities=35% Similarity=0.634 Sum_probs=47.9
Q ss_pred HHHHhhhhhH----HHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHHhhhC
Q 020252 275 ELRRRLNYGI----LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYLNMAH 328 (328)
Q Consensus 275 ~L~~~L~~G~----~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLmrAve 328 (328)
.|-.++..|. .|++.|+..|+++|+++|++|.+.|.+++||+|||+|||+++++
T Consensus 251 ~l~~~~~~gd~~~~~A~~~L~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~ 308 (339)
T 1sig_A 251 DINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD 308 (339)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTSTTSSSCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhccccchhhhHHHHHHHHHHHHHHHHHHhcCCCCHhHHHHHHHHHHHHHHH
Confidence 3455566664 69999999999999999999999999999999999999999873
No 5
>3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class I, activator, RNA polymeras holoenzyme, sigma70, open complex, CAP, CRP; HET: DNA CMP; 19.80A {Escherichia coli k-12}
Probab=98.10 E-value=1.3e-06 Score=89.36 Aligned_cols=56 Identities=34% Similarity=0.625 Sum_probs=48.8
Q ss_pred HHHHHHhhhhhHH-H---HHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHHhhhC
Q 020252 273 QRELRRRLNYGIL-C---KDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYLNMAH 328 (328)
Q Consensus 273 ~~~L~~~L~~G~~-A---re~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLmrAve 328 (328)
...|-.++..|.. | ++.|+..|+++|+++|++|.++|.+++||+|||+|||+++++
T Consensus 358 ~~~Li~~~~~Gd~~A~~A~~~L~~~y~~~v~~ia~r~~~~~~~aeDlvQE~fi~l~~a~~ 417 (613)
T 3iyd_F 358 VKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD 417 (613)
T ss_dssp HHHHHHTHHHHHHHHHHHHTTTTTTTTHHHHHGGGSSSTTSSCSTTTTHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 3456666676743 4 999999999999999999999999999999999999999974
No 6
>1l0o_C Sigma factor; bergerat fold, helix-turn-helix, protein binding; HET: ADP; 2.90A {Geobacillus stearothermophilus} SCOP: a.4.13.2
Probab=97.56 E-value=1.1e-05 Score=69.46 Aligned_cols=45 Identities=27% Similarity=0.479 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHHhhhC
Q 020252 284 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYLNMAH 328 (328)
Q Consensus 284 ~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLmrAve 328 (328)
..+.+.|+..|.++|..+|++|.+.+.+.+||+|||.++|+++++
T Consensus 27 ~~a~~~l~~~~~~~v~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~ 71 (243)
T 1l0o_C 27 QEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSVD 71 (243)
T ss_dssp ---------------------------------------------
T ss_pred HHHHHHHHHHhHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHH
Confidence 678899999999999999999999999999999999999998863
No 7
>1or7_A Sigma-24, RNA polymerase sigma-E factor; regulation, DNA-binding, transmembrane, transcription; 2.00A {Escherichia coli} SCOP: a.4.13.2 a.177.1.1 PDB: 2h27_A
Probab=96.61 E-value=0.0028 Score=53.04 Aligned_cols=52 Identities=17% Similarity=0.187 Sum_probs=45.0
Q ss_pred HHHHhhhhh-HHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHHhhh
Q 020252 275 ELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYLNMA 327 (328)
Q Consensus 275 ~L~~~L~~G-~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLmrAv 327 (328)
+|-..+..| ..+.+.|+..+.+.|..++.+|.+ ..+.+|++||+.+.+++++
T Consensus 12 ~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~-~~~aeDl~Qe~~l~~~~~~ 64 (194)
T 1or7_A 12 VLVERVQKGDQKAFNLLVVRYQHKVASLVSRYVP-SGDVPDVVQEAFIKAYRAL 64 (194)
T ss_dssp HHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTSC-GGGHHHHHHHHHHHHHHHG
T ss_pred HHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHcC-HHhHHHHHHHHHHHHHHhH
Confidence 344444444 779999999999999999999999 9999999999999999875
No 8
>2q1z_A RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc bindin transcription factor; 2.40A {Rhodobacter sphaeroides} PDB: 2z2s_A
Probab=96.37 E-value=0.0046 Score=51.44 Aligned_cols=55 Identities=9% Similarity=-0.091 Sum_probs=46.6
Q ss_pred HHHHHHh-hhhh-HHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHHhhh
Q 020252 273 QRELRRR-LNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYLNMA 327 (328)
Q Consensus 273 ~~~L~~~-L~~G-~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLmrAv 327 (328)
..+|-.. +..| ..+.+.|+..|.+.|..++.+|.+...+.+|++||+.+.+++++
T Consensus 13 ~~~li~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~l~~~~~~ 69 (184)
T 2q1z_A 13 WVALMRAIRDHRDEAAFAELFQHFAPKVKGFLMKSGSVASQAEECAQDVMATVWQKA 69 (184)
T ss_dssp HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHSG
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHhh
Confidence 3444444 4444 77999999999999999999999988999999999999999875
No 9
>3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class I, activator, RNA polymeras holoenzyme, sigma70, open complex, CAP, CRP; HET: DNA CMP; 19.80A {Escherichia coli k-12}
Probab=94.48 E-value=0.01 Score=60.78 Aligned_cols=35 Identities=31% Similarity=0.564 Sum_probs=13.9
Q ss_pred CCCCChhH-HHHHhccCCCCCCHHHHHHHHHHHHHHH
Q 020252 208 VDYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLL 243 (328)
Q Consensus 208 ~~~~d~l~-YL~ei~~~~~LLT~eEE~eL~~~Iq~~~ 243 (328)
...+||++ ||++| |+.+|||+++|++|+++|..+.
T Consensus 92 ~~~~dpvrmyl~em-g~~~ll~~~~e~~~ak~ie~g~ 127 (613)
T 3iyd_F 92 GRTTDPVRMYMREM-GTVELLTREGEIDIAKRIEDGI 127 (613)
T ss_dssp -------------C---------CSSSTTTHHHHHHH
T ss_pred cCCCCcHHHHHHHh-cccccCCchhHHHHHHHHHHhH
Confidence 34699999 99999 9999999999999999999874
No 10
>2o7g_A Probable RNA polymerase sigma-C factor; sigma factor, transcription regulation, -10 element recognit domain, transcription; 2.70A {Mycobacterium tuberculosis}
Probab=94.03 E-value=0.069 Score=41.50 Aligned_cols=44 Identities=16% Similarity=0.051 Sum_probs=39.9
Q ss_pred hHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHHhhh
Q 020252 283 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYLNMA 327 (328)
Q Consensus 283 G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLmrAv 327 (328)
...+.+.|+..+.+.+..+|.+| +..-+-+|++||..+.+++..
T Consensus 22 d~~a~~~l~~~~~~~l~~~~~~~-~~~~~aeD~vQe~fl~~~~~~ 65 (112)
T 2o7g_A 22 NGRALEAFIKATQQDVWRFVAYL-SDVGSADDLTQETFLRAIGAI 65 (112)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHH-SCHHHHHHHHHHHHHHHHHHG
T ss_pred CHHHHHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHHH
Confidence 36789999999999999999999 888889999999999998764
No 11
>1h3l_A RNA polymerase sigma factor; transcription, DNA-binding, transcription regulation; 2.37A {Streptomyces coelicolor A3} SCOP: a.177.1.1
Probab=92.92 E-value=0.084 Score=39.14 Aligned_cols=45 Identities=13% Similarity=-0.029 Sum_probs=41.0
Q ss_pred hHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHHhhh
Q 020252 283 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYLNMA 327 (328)
Q Consensus 283 G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLmrAv 327 (328)
...+.+.|+..+.+.+..++.+|.+...+-+|++||..+.+++..
T Consensus 10 ~~~af~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~fl~~~~~~ 54 (87)
T 1h3l_A 10 RSARFERDALEFLDQMYSAALRMTRNPADAEDLVQETYAKAYASF 54 (87)
T ss_dssp HHHHHHHHHHHTHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHG
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH
Confidence 367889999999999999999999988999999999999998754
No 12
>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}
Probab=77.34 E-value=2.8 Score=32.05 Aligned_cols=33 Identities=24% Similarity=0.206 Sum_probs=25.4
Q ss_pred HHHHHhhcCCCCchHHHHHHhcCcHHHHHHhhh
Q 020252 249 REVLSERCGGSPTFAQWAAAAGVDQRELRRRLN 281 (328)
Q Consensus 249 r~~L~~~~GrePT~~eWA~a~g~d~~~L~~~L~ 281 (328)
+..+.+..|.+||..|.|+++|++....++-|.
T Consensus 14 ~~~i~~~~g~~psv~EIa~~lgvS~~TVrr~L~ 46 (77)
T 2jt1_A 14 QERQNMDDGAPVKTRDIADAAGLSIYQVRLYLE 46 (77)
T ss_dssp HHHHHHHTTSCEEHHHHHHHHTCCHHHHHHHHH
T ss_pred HHHHhhccCCCcCHHHHHHHHCCCHHHHHHHHH
Confidence 334444458999999999999999877776654
No 13
>2k9s_A Arabinose operon regulatory protein; activator, arabinose catabolism, carbohydrate metabolism, cytoplasm, DNA-binding, repressor, transcription; NMR {Escherichia coli}
Probab=61.19 E-value=51 Score=24.92 Aligned_cols=37 Identities=11% Similarity=0.067 Sum_probs=29.3
Q ss_pred HHHHHHHHhhcC-CCCchHHHHHHhcCcHHHHHHhhhh
Q 020252 246 EGLREVLSERCG-GSPTFAQWAAAAGVDQRELRRRLNY 282 (328)
Q Consensus 246 e~~r~~L~~~~G-rePT~~eWA~a~g~d~~~L~~~L~~ 282 (328)
.++..-+.+... ..++.+++|+.+|++...|.+....
T Consensus 6 ~~~~~~i~~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 43 (107)
T 2k9s_A 6 REACQYISDHLADSNFDIASVAQHVCLSPSRLSHLFRQ 43 (107)
T ss_dssp HHHHHHHHHTSSCSSCCHHHHHHHTTSCHHHHHHHHHH
T ss_pred HHHHHHHHHHhccCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 344455666677 7899999999999999999988764
No 14
>3mn2_A Probable ARAC family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.80A {Rhodopseudomonas palustris}
Probab=61.14 E-value=51 Score=24.90 Aligned_cols=36 Identities=14% Similarity=0.214 Sum_probs=28.8
Q ss_pred HHHHHHHhhcCCCCchHHHHHHhcCcHHHHHHhhhh
Q 020252 247 GLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 282 (328)
Q Consensus 247 ~~r~~L~~~~GrePT~~eWA~a~g~d~~~L~~~L~~ 282 (328)
++..-+.......+|.+++|+.+|++...|.+....
T Consensus 6 ~~~~~i~~~~~~~~~~~~lA~~~~~s~~~l~r~fk~ 41 (108)
T 3mn2_A 6 QVEEYIEANWMRPITIEKLTALTGISSRGIFKAFQR 41 (108)
T ss_dssp HHHHHHHHHTTSCCCHHHHHHHHTCCHHHHHHHHHH
T ss_pred HHHHHHHHcccCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 344455666777899999999999999999987764
No 15
>3oio_A Transcriptional regulator (ARAC-type DNA-binding containing proteins); PSI-2, midwest center for structural genomics; 1.65A {Chromobacterium violaceum}
Probab=59.88 E-value=49 Score=25.26 Aligned_cols=37 Identities=16% Similarity=0.175 Sum_probs=29.1
Q ss_pred HHHHHHHHhhcCCCCchHHHHHHhcCcHHHHHHhhhh
Q 020252 246 EGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 282 (328)
Q Consensus 246 e~~r~~L~~~~GrePT~~eWA~a~g~d~~~L~~~L~~ 282 (328)
.++..-+.+.....++.+++|+.+|++...|.+....
T Consensus 10 ~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 46 (113)
T 3oio_A 10 TEAVSLMEANIEEPLSTDDIAYYVGVSRRQLERLFKQ 46 (113)
T ss_dssp HHHHHHHHTCSSSCCCHHHHHHHHTSCHHHHHHHHHH
T ss_pred HHHHHHHHhhhcCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 3344455666777899999999999999999887764
No 16
>3lsg_A Two-component response regulator YESN; structural genomics, PSI-2, protein structure initiative, MCSG; 2.05A {Fusobacterium nucleatum}
Probab=54.08 E-value=66 Score=24.02 Aligned_cols=35 Identities=9% Similarity=0.115 Sum_probs=27.1
Q ss_pred HHHHHHhhcCC-CCchHHHHHHhcCcHHHHHHhhhh
Q 020252 248 LREVLSERCGG-SPTFAQWAAAAGVDQRELRRRLNY 282 (328)
Q Consensus 248 ~r~~L~~~~Gr-ePT~~eWA~a~g~d~~~L~~~L~~ 282 (328)
+..-+.+.... .++..++|+.+|++...|.+....
T Consensus 7 i~~~i~~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 42 (103)
T 3lsg_A 7 IQNIIEESYTDSQFTLSVLSEKLDLSSGYLSIMFKK 42 (103)
T ss_dssp HHHHHHHHTTCTTCCHHHHHHHTTCCHHHHHHHHHH
T ss_pred HHHHHHHHccCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 33344555665 789999999999999999887754
No 17
>3oou_A LIN2118 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; HET: BTB; 1.57A {Listeria innocua}
Probab=52.40 E-value=23 Score=27.01 Aligned_cols=34 Identities=6% Similarity=0.081 Sum_probs=27.2
Q ss_pred HHHHHHhhcCCCCchHHHHHHhcCcHHHHHHhhh
Q 020252 248 LREVLSERCGGSPTFAQWAAAAGVDQRELRRRLN 281 (328)
Q Consensus 248 ~r~~L~~~~GrePT~~eWA~a~g~d~~~L~~~L~ 281 (328)
+..-+....+..++.+++|+.+|++...|.+...
T Consensus 10 ~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~fk 43 (108)
T 3oou_A 10 VLSYITEHFSEGMSLKTLGNDFHINAVYLGQLFQ 43 (108)
T ss_dssp HHHHHHHHTTSCCCHHHHHHHHTSCHHHHHHHHH
T ss_pred HHHHHHHHhcCCCCHHHHHHHHCcCHHHHHHHHH
Confidence 3444555667789999999999999999988775
No 18
>1bl0_A Protein (multiple antibiotic resistance protein), DNA (5'- D(*CP*CP*GP*AP*TP*GP*CP*CP*AP*CP*GP*TP*TP*TP*TP*GP*CP*TP*AP *AP*AP*TP* CP*C)-3')...; transcriptional activator; HET: DNA; 2.30A {Escherichia coli} SCOP: a.4.1.8 a.4.1.8 PDB: 1xs9_A
Probab=51.27 E-value=66 Score=25.24 Aligned_cols=36 Identities=8% Similarity=0.213 Sum_probs=28.7
Q ss_pred HHHHHHHhhcCCCCchHHHHHHhcCcHHHHHHhhhh
Q 020252 247 GLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 282 (328)
Q Consensus 247 ~~r~~L~~~~GrePT~~eWA~a~g~d~~~L~~~L~~ 282 (328)
++..-+.......++.+++|+.+|++...|.+....
T Consensus 15 ~~~~~i~~~~~~~~sl~~lA~~~~~S~~~l~r~fk~ 50 (129)
T 1bl0_A 15 SILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKK 50 (129)
T ss_dssp HHHHHHHTTTTSCCCCHHHHHHSSSCHHHHHHHHHH
T ss_pred HHHHHHHHccCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 344455666777899999999999999999887764
No 19
>3ugo_A RNA polymerase sigma factor; protein-DNA complex, bacterial promoter opening, G-quartet, quadruplex, DNA binding; 2.10A {Thermus aquaticus} PDB: 3ugp_A 4gor_A 1ku2_A 3lev_A* 3les_A*
Probab=50.07 E-value=3.4 Score=37.43 Aligned_cols=40 Identities=23% Similarity=0.382 Sum_probs=0.0
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhc--CcHHHHHHhhhhhH
Q 020252 245 LEGLREVLSERCGGSPTFAQWAAAAG--VDQRELRRRLNYGI 284 (328)
Q Consensus 245 Le~~r~~L~~~~GrePT~~eWA~a~g--~d~~~L~~~L~~G~ 284 (328)
+.+...+|...+|+.||.+|.|+.+| ++..+++..+..+.
T Consensus 199 l~~~~~~L~~~~~~~ps~~EIAe~Lg~~is~~tVk~~l~~ar 240 (245)
T 3ugo_A 199 LSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIAQ 240 (245)
T ss_dssp ------------------------------------------
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHCCCCCHHHHHHHHHHHh
Confidence 44555667778899999999999999 99999998887653
No 20
>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=46.00 E-value=33 Score=21.78 Aligned_cols=23 Identities=22% Similarity=0.119 Sum_probs=19.8
Q ss_pred CchHHHHHHhcCcHHHHHHhhhh
Q 020252 260 PTFAQWAAAAGVDQRELRRRLNY 282 (328)
Q Consensus 260 PT~~eWA~a~g~d~~~L~~~L~~ 282 (328)
-|..+.|..+|++...+.+.+..
T Consensus 22 ~s~~~ia~~lgvs~~Tv~r~l~~ 44 (52)
T 1jko_C 22 HPRQQLAIIFGIGVSTLYRYFPA 44 (52)
T ss_dssp CCHHHHHHTTSCCHHHHHHHSCT
T ss_pred CCHHHHHHHHCCCHHHHHHHHHH
Confidence 57899999999999999887764
No 21
>3mkl_A HTH-type transcriptional regulator GADX; PSI2, MCSG, structural genomics, protein structure initiativ midwest center for structural genomics; 2.15A {Escherichia coli}
Probab=45.65 E-value=27 Score=27.12 Aligned_cols=34 Identities=18% Similarity=0.206 Sum_probs=27.1
Q ss_pred HHHHHHhhcCCCCchHHHHHHhcCcHHHHHHhhh
Q 020252 248 LREVLSERCGGSPTFAQWAAAAGVDQRELRRRLN 281 (328)
Q Consensus 248 ~r~~L~~~~GrePT~~eWA~a~g~d~~~L~~~L~ 281 (328)
+..-+.......++..++|+.+|++...|.+...
T Consensus 12 ~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~fk 45 (120)
T 3mkl_A 12 VCTVINNNIAHEWTLARIASELLMSPSLLKKKLR 45 (120)
T ss_dssp HHHHHHTSTTSCCCHHHHHHHTTCCHHHHHHHHH
T ss_pred HHHHHHHhccCCCCHHHHHHHHCcCHHHHHHHHH
Confidence 3444556667789999999999999999988764
No 22
>3k2z_A LEXA repressor; winged helix-turn-helix, SOS system, autoca cleavage, DNA damage, DNA repair, DNA replication, DNA-BIND hydrolase; 1.37A {Thermotoga maritima}
Probab=43.32 E-value=33 Score=29.17 Aligned_cols=27 Identities=19% Similarity=0.166 Sum_probs=22.6
Q ss_pred hcCCCCchHHHHHHhcCcHHHHHHhhh
Q 020252 255 RCGGSPTFAQWAAAAGVDQRELRRRLN 281 (328)
Q Consensus 255 ~~GrePT~~eWA~a~g~d~~~L~~~L~ 281 (328)
+.|.+||..|+|+++|++...+.+.|.
T Consensus 20 ~~g~~~s~~eia~~lgl~~~tv~~~l~ 46 (196)
T 3k2z_A 20 KNGYPPSVREIARRFRITPRGALLHLI 46 (196)
T ss_dssp HHSSCCCHHHHHHHHTSCHHHHHHHHH
T ss_pred HhCCCCCHHHHHHHcCCCcHHHHHHHH
Confidence 458999999999999999777766654
No 23
>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=42.41 E-value=58 Score=20.05 Aligned_cols=22 Identities=9% Similarity=0.114 Sum_probs=17.4
Q ss_pred CchHHHHHHhcCcHHHHHHhhh
Q 020252 260 PTFAQWAAAAGVDQRELRRRLN 281 (328)
Q Consensus 260 PT~~eWA~a~g~d~~~L~~~L~ 281 (328)
-|..+.|+.+|++...+.+.+.
T Consensus 22 ~s~~~IA~~lgis~~Tv~~~~~ 43 (51)
T 1tc3_C 22 VSLHEMSRKISRSRHCIRVYLK 43 (51)
T ss_dssp CCHHHHHHHHTCCHHHHHHHHH
T ss_pred CCHHHHHHHHCcCHHHHHHHHh
Confidence 3688999999998887776654
No 24
>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A
Probab=41.27 E-value=10 Score=34.37 Aligned_cols=44 Identities=7% Similarity=0.010 Sum_probs=39.1
Q ss_pred HHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHHhhh
Q 020252 284 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYLNMA 327 (328)
Q Consensus 284 ~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLmrAv 327 (328)
..+.+.|+..+.+.+..+|.+|.+..-.-+|++||-.+-+++..
T Consensus 20 ~~~f~~l~~~~~~~l~~~a~~~~~~~~~AeD~vQe~fl~~~~~~ 63 (286)
T 3n0r_A 20 EMHLLARLAPHLPYIRRYARALTGDQATGDHYVRVALEALAAGE 63 (286)
T ss_dssp CCCHHHHHGGGHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHTTS
T ss_pred cCCHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHhCc
Confidence 34678899999999999999999988889999999999988753
No 25
>2zc2_A DNAD-like replication protein; GI 24377835, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Streptococcus mutans UA159}
Probab=41.09 E-value=30 Score=25.49 Aligned_cols=56 Identities=14% Similarity=0.216 Sum_probs=38.2
Q ss_pred HHhhcCCCCch------HHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCC
Q 020252 252 LSERCGGSPTF------AQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMN 311 (328)
Q Consensus 252 L~~~~GrePT~------~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~ 311 (328)
++..+|+.||. .+|....|++.+.+...++... .. =..|++.|-.|++++...|+.
T Consensus 10 ~e~~~gr~ls~~e~~~i~~w~~~~~~~~elI~~A~~~a~-~~---~~~s~~Yi~~Il~~W~~~gi~ 71 (78)
T 2zc2_A 10 FERELGRMLSPFELEDLQKTVSDDKTDPDLVRSALREAV-FN---GKTNWNYIQAILRNWRHEGIS 71 (78)
T ss_dssp HHHHHTSCCCHHHHHHHHHHHTTTCCCHHHHHHHHHHHH-HH---TCCCHHHHHHHHHHHHHTTCC
T ss_pred HHHHhCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHH-Hc---CCCCHHHHHHHHHHHHHcCCC
Confidence 33445776663 3566667777777776665542 11 246899999999999999875
No 26
>2ofy_A Putative XRE-family transcriptional regulator; transcription regulator, structural genomics, PS protein structure initiative; 1.70A {Rhodococcus SP} SCOP: a.35.1.3
Probab=34.19 E-value=1.2e+02 Score=21.44 Aligned_cols=48 Identities=21% Similarity=0.337 Sum_probs=33.3
Q ss_pred chHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHH
Q 020252 261 TFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQ 317 (328)
Q Consensus 261 T~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQ 317 (328)
|..++|+.+|++...+.+..+ |.. -.-++..+..||+-| |++..+|+.
T Consensus 29 sq~~lA~~~gis~~~is~~E~-g~~-----~~p~~~~l~~ia~~l---~v~~~~l~~ 76 (86)
T 2ofy_A 29 SMVTVAFDAGISVETLRKIET-GRI-----ATPAFFTIAAVARVL---DLSLDDVAA 76 (86)
T ss_dssp CHHHHHHHHTCCHHHHHHHHT-TCC-----SSCBHHHHHHHHHHT---TCCHHHHHT
T ss_pred CHHHHHHHhCCCHHHHHHHHc-CCC-----CCCCHHHHHHHHHHh---CCCHHHHhc
Confidence 788999999999888876554 321 012455667788766 778888764
No 27
>3nxc_A HTH-type protein SLMA; nucleoid occlusion, cell division, TETR family member, DNA B protein; 2.50A {Escherichia coli}
Probab=34.05 E-value=1.5e+02 Score=23.47 Aligned_cols=28 Identities=32% Similarity=0.350 Sum_probs=18.2
Q ss_pred hhcC-CCCchHHHHHHhcCcHHHHHHhhh
Q 020252 254 ERCG-GSPTFAQWAAAAGVDQRELRRRLN 281 (328)
Q Consensus 254 ~~~G-rePT~~eWA~a~g~d~~~L~~~L~ 281 (328)
.+.| ...|..+.|+++|++...|-.--.
T Consensus 39 ~~~G~~~~t~~~Ia~~agvs~~t~Y~~F~ 67 (212)
T 3nxc_A 39 SSDGSQRITTAKLAASVGVSEAALYRHFP 67 (212)
T ss_dssp C------CCHHHHHHHTTSCHHHHHTTCS
T ss_pred hcCChhhcCHHHHHHHhCCChhHHHHHCC
Confidence 3446 568899999999998877754433
No 28
>3kz9_A SMCR; transcriptional regulator, quorum S DNA-binding, transcription regulation, transcription regula; HET: MSE; 2.10A {Vibrio vulnificus} PDB: 2pbx_A
Probab=31.92 E-value=1.8e+02 Score=22.68 Aligned_cols=70 Identities=11% Similarity=0.019 Sum_probs=44.2
Q ss_pred HHhhcCC-CCchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHH
Q 020252 252 LSERCGG-SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQAL 321 (328)
Q Consensus 252 L~~~~Gr-ePT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~i 321 (328)
|-.+.|- ..|..+.|+++|++...|-.-...-......++...+.-+..........+.+..+-+..-..
T Consensus 29 l~~~~G~~~~s~~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 99 (206)
T 3kz9_A 29 VFARRGIGRGGHADIAEIAQVSVATVFNYFPTREDLVDEVLNHVVRQFSNFLSDNIDLDLHAKENIANITN 99 (206)
T ss_dssp HHHHSCCSSCCHHHHHHHHTSCHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHHHCCTTSCHHHHHHHHHH
T ss_pred HHHhcCcccccHHHHHHHhCCCHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHH
Confidence 3445685 488999999999999888776665555555555555554444444444455555555544433
No 29
>3ppb_A Putative TETR family transcription regulator; DNA-binding, helix-turn-helix motif, HTH motif, DNA/RNA-BIND helical bundle fold; HET: MSE PG4; 2.10A {Shewanella loihica}
Probab=31.77 E-value=1.8e+02 Score=22.51 Aligned_cols=73 Identities=14% Similarity=0.023 Sum_probs=48.2
Q ss_pred HHhhcC-CCCchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHH
Q 020252 252 LSERCG-GSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYL 324 (328)
Q Consensus 252 L~~~~G-rePT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLm 324 (328)
+-.+.| ...|..+.|+++|++...+-.-...-......++.....-+..........+.+..+-+......++
T Consensus 21 l~~~~G~~~~tv~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 94 (195)
T 3ppb_A 21 LFVSQGFHGTSTATIAREAGVATGTLFHHFPSKEQLLEQLFLGVKQEFADAIQASVSSRGDLKQDAEQLWFAAL 94 (195)
T ss_dssp HHHHTCSTTSCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHTCCCCSCHHHHHHHHHHHHH
T ss_pred HHHhcCcccCCHHHHHHHhCCChhHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHHHHHHH
Confidence 334557 4678999999999999998877666556666666665555555554444555666666555444433
No 30
>3kz3_A Repressor protein CI; five helix bundle, DNA-binding, transcription, transcription regulation; 1.64A {Enterobacteria phage lambda}
Probab=30.34 E-value=1.1e+02 Score=21.65 Aligned_cols=47 Identities=15% Similarity=0.106 Sum_probs=31.9
Q ss_pred CchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHH
Q 020252 260 PTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLV 316 (328)
Q Consensus 260 PT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLI 316 (328)
-|-.+.|+.+|++...+.+..+... .-+...+..||+-| |++.+||.
T Consensus 26 ltq~~lA~~~gvs~~~is~~e~g~~-------~~~~~~~~~ia~~l---~v~~~~l~ 72 (80)
T 3kz3_A 26 LSYESVADKMGMGQSAVAALFNGIN-------ALNAYNAALLAKIL---KVSVEEFS 72 (80)
T ss_dssp CCHHHHHHHTTSCHHHHHHHHTTSS-------CCCHHHHHHHHHHH---TSCGGGTC
T ss_pred CCHHHHHHHhCcCHHHHHHHHcCCC-------CCCHHHHHHHHHHh---CCCHHHHh
Confidence 4778999999999888876665331 23456777788776 45655544
No 31
>3mnl_A KSTR, transcriptional regulatory protein (probably TETR; TETR family of transcriptional regulator, all-helical; 1.80A {Mycobacterium tuberculosis}
Probab=27.57 E-value=2.2e+02 Score=22.26 Aligned_cols=66 Identities=12% Similarity=0.023 Sum_probs=39.4
Q ss_pred hcCC-CCchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHH
Q 020252 255 RCGG-SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQA 320 (328)
Q Consensus 255 ~~Gr-ePT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~ 320 (328)
+.|- ..|..+.|+++|++...|-.-...-......++...+.-+..........+.+..+-+..-.
T Consensus 35 ~~G~~~~t~~~Ia~~agvs~~t~Y~~F~~K~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 101 (203)
T 3mnl_A 35 KGGYEAVQMRAVADRADVAVGTLYRYFPSKVHLLVSALGREFSRIDAKTDRSAVAGATPFQRLNFMV 101 (203)
T ss_dssp HHHHHHCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHCCCGGGTTCCHHHHHHHHH
T ss_pred HcCCccCCHHHHHHHcCCChhHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHH
Confidence 3353 47899999999999988887666555555555555444443333322334455555444433
No 32
>3f2g_A Alkylmercury lyase; MERB, organomercurial lyase, mercury resistance, mercuric resistance, plasmid; 1.78A {Escherichia coli} PDB: 3f2h_A 3fn8_A 1s6l_A 3f0o_A 3f0p_A 3f2f_A
Probab=26.60 E-value=63 Score=29.35 Aligned_cols=27 Identities=11% Similarity=-0.001 Sum_probs=24.6
Q ss_pred cCCCCchHHHHHHhcCcHHHHHHhhhh
Q 020252 256 CGGSPTFAQWAAAAGVDQRELRRRLNY 282 (328)
Q Consensus 256 ~GrePT~~eWA~a~g~d~~~L~~~L~~ 282 (328)
.|++|+..+.|..+|++.++.++.|+.
T Consensus 33 ~Grpv~~~~LA~~~g~~~~~v~~~L~~ 59 (220)
T 3f2g_A 33 KGRPVSRTTLAGILDWPAERVAAVLEQ 59 (220)
T ss_dssp TTSCBCHHHHHHHHTCCHHHHHHHHHH
T ss_pred cCCCCCHHHHHHHhCcCHHHHHHHHHh
Confidence 599999999999999999999888865
No 33
>3t72_q RNA polymerase sigma factor RPOD, DNA-directed RN polymerase subunit beta; winged-helix motif, transcription activation, DNA-binding; 4.33A {Escherichia coli} PDB: 1tlh_B
Probab=26.60 E-value=1.7e+02 Score=22.72 Aligned_cols=54 Identities=13% Similarity=0.163 Sum_probs=37.4
Q ss_pred CCCchHHHHHHhcCcHHHHHHhhhhhHH-HHHHHHHHhHHHHHHHHhhccCCCCChHHHHH
Q 020252 258 GSPTFAQWAAAAGVDQRELRRRLNYGIL-CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQ 317 (328)
Q Consensus 258 rePT~~eWA~a~g~d~~~L~~~L~~G~~-Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQ 317 (328)
..-|..|+|+..|++....+..++.+.. .|..+-..+++- -..+.|++-+.|+.
T Consensus 38 e~~s~~EIA~~lgiS~~tVr~~~~rAlkkLR~~~~~~~l~~------~~~~~~~~~~~~~~ 92 (99)
T 3t72_q 38 TDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRS------GSSGSGTPEEKLLR 92 (99)
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHhcCCCHHHHHH
Confidence 4678999999999999999999887743 444444333321 23467888777754
No 34
>2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis}
Probab=24.79 E-value=1.4e+02 Score=20.20 Aligned_cols=26 Identities=23% Similarity=0.239 Sum_probs=22.5
Q ss_pred CchHHHHHHhcCcHHHHHHhhhhhHH
Q 020252 260 PTFAQWAAAAGVDQRELRRRLNYGIL 285 (328)
Q Consensus 260 PT~~eWA~a~g~d~~~L~~~L~~G~~ 285 (328)
-|..|+|+..|++...++..++.+..
T Consensus 32 ~s~~eIA~~lgis~~tv~~~~~ra~~ 57 (70)
T 2o8x_A 32 LSYADAAAVCGCPVGTIRSRVARARD 57 (70)
T ss_dssp CCHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 58899999999999999988887644
No 35
>3f1b_A TETR-like transcriptional regulator; APC5888, rhodococcus SP. RHA1, structural genomics, PS protein structure initiative; 2.40A {Rhodococcus}
Probab=24.21 E-value=2.5e+02 Score=21.82 Aligned_cols=72 Identities=10% Similarity=-0.022 Sum_probs=44.8
Q ss_pred HHhhcCC-CCchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHH
Q 020252 252 LSERCGG-SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRY 323 (328)
Q Consensus 252 L~~~~Gr-ePT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGL 323 (328)
|-.+.|- ..|..+.|+++|++...+-.-...-......++...+.-...........+.+..+-+......+
T Consensus 26 l~~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 98 (203)
T 3f1b_A 26 VFSDRGFHETSMDAIAAKAEISKPMLYLYYGSKDELFAACIQREGLRFVEALAPAGDPGLSPREQLRRALEGF 98 (203)
T ss_dssp HHHHHCTTTCCHHHHHHHTTSCHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHGGGGCTTCCHHHHHHHHHHHH
T ss_pred HHHHcCcccccHHHHHHHhCCchHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHH
Confidence 3344574 68899999999999998887665555555555555555444444444445555555554443333
No 36
>3pas_A TETR family transcription regulator; structural genomics, joint center for structural genomics, J protein structure initiative; HET: MSE; 1.90A {Marinobacter aquaeolei}
Probab=24.06 E-value=2.5e+02 Score=21.65 Aligned_cols=43 Identities=14% Similarity=-0.017 Sum_probs=28.3
Q ss_pred HhhcC-CCCchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhH
Q 020252 253 SERCG-GSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNI 295 (328)
Q Consensus 253 ~~~~G-rePT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNL 295 (328)
-.+.| ...|..+.|+++|++...+-.--..-......++...+
T Consensus 21 ~~~~G~~~~t~~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~ 64 (195)
T 3pas_A 21 VADHGFSATSVGKIAKAAGLSPATLYIYYEDKEQLLLATFYYVS 64 (195)
T ss_dssp HHHHHHHHCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHHHH
T ss_pred HHHcChHhcCHHHHHHHhCCCchHHHHHcCCHHHHHHHHHHHHH
Confidence 33446 35789999999999988887665544444444444433
No 37
>1d5y_A ROB transcription factor; protein-DNA complex, DNA, transcription/DNA complex; HET: DNA; 2.70A {Escherichia coli} SCOP: a.4.1.8 a.4.1.8 d.60.1.2
Probab=24.02 E-value=1.8e+02 Score=25.32 Aligned_cols=38 Identities=21% Similarity=0.198 Sum_probs=30.3
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhcCcHHHHHHhhhh
Q 020252 245 LEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 282 (328)
Q Consensus 245 Le~~r~~L~~~~GrePT~~eWA~a~g~d~~~L~~~L~~ 282 (328)
+.++..-+.+.+...+|..++|+.+|+|...|.+....
T Consensus 5 ~~~~~~~i~~~~~~~~~~~~la~~~~~s~~~l~r~f~~ 42 (292)
T 1d5y_A 5 IRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKD 42 (292)
T ss_dssp HHHHHHHHHTTSSSSCCCHHHHTTTSSCHHHHHHHHHH
T ss_pred HHHHHHHHHhCCCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 34445556677788899999999999999999987753
No 38
>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=23.84 E-value=2.5e+02 Score=21.54 Aligned_cols=34 Identities=6% Similarity=0.050 Sum_probs=26.6
Q ss_pred CCCchHHHHHHhcCcHHHHHHhhhhhHHHHHHHH
Q 020252 258 GSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMI 291 (328)
Q Consensus 258 rePT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI 291 (328)
..-|..|.|+.+|++...++.+++.+..--.+.+
T Consensus 123 ~g~s~~EIA~~lgis~~tV~~~~~ra~~~Lr~~l 156 (164)
T 3mzy_A 123 RGYSYREIATILSKNLKSIDNTIQRIRKKSEEWI 156 (164)
T ss_dssp TTCCHHHHHHHHTCCHHHHHHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Confidence 3458999999999999999999988755433333
No 39
>2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F* 2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H
Probab=23.40 E-value=1.3e+02 Score=29.16 Aligned_cols=35 Identities=26% Similarity=0.420 Sum_probs=28.1
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhc--CcHHHHHHh
Q 020252 245 LEGLREVLSERCGGSPTFAQWAAAAG--VDQRELRRR 279 (328)
Q Consensus 245 Le~~r~~L~~~~GrePT~~eWA~a~g--~d~~~L~~~ 279 (328)
+.+.+.++...+|+.|+..+.|..+| ++.+.+...
T Consensus 271 lrr~~~~l~~~~~r~p~~~eiA~~l~~~~~~~~v~~~ 307 (423)
T 2a6h_F 271 LSRTARQLQQELGREPTYEEIAEAMGPGWDAKRVEET 307 (423)
T ss_dssp HHHHHHHHHHHHSSCCCHHHHHHHHCTTCCHHHHHHH
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHhCCCCCHHHHHHH
Confidence 44455677778899999999999999 888777654
No 40
>2fjr_A Repressor protein CI; genetic switch, regulation, cooperativity, transcription regulator; 1.95A {Enterobacteria phage 186} PDB: 2fkd_A
Probab=23.10 E-value=1.2e+02 Score=24.88 Aligned_cols=51 Identities=29% Similarity=0.261 Sum_probs=32.4
Q ss_pred hhcCCCCchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHH
Q 020252 254 ERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLV 316 (328)
Q Consensus 254 ~~~GrePT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLI 316 (328)
+..+.. |..++|+.+|++...+.+..+.+.. . ...+..||+.| |++.+.|+
T Consensus 16 ~~r~~~-tq~elA~~~Gis~~~i~~~e~g~~~-------p-~~~l~~ia~~~---~v~~~~l~ 66 (189)
T 2fjr_A 16 EAYGFS-QKIQLANHFDIASSSLSNRYTRGAI-------S-YDFAAHCALET---GANLQWLL 66 (189)
T ss_dssp HHHTCS-SHHHHHHHTTCCHHHHHHHHHSSSC-------C-HHHHHHHHHHH---CCCHHHHH
T ss_pred HHHhhc-CHHHHHHHhCcCHHHHHHHHhCCCC-------C-HHHHHHHHHHH---CCCHHHHh
Confidence 333544 8999999999998888776653321 1 23455566654 56666665
No 41
>3knw_A Putative transcriptional regulator (TETR/ACRR FAM; TETR-like protein, MCSG, PSI, structural genomics, protein S initiative; 2.45A {Acinetobacter SP}
Probab=22.84 E-value=2.8e+02 Score=21.82 Aligned_cols=73 Identities=10% Similarity=-0.002 Sum_probs=44.9
Q ss_pred HHhhcC-CCCchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHH
Q 020252 252 LSERCG-GSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYL 324 (328)
Q Consensus 252 L~~~~G-rePT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLm 324 (328)
+-.+.| ...|..+.|+++|++...|-.--..-......++...+.-+..........+.+..+-+..-...++
T Consensus 26 l~~~~G~~~~ti~~IA~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 99 (212)
T 3knw_A 26 LVLRKGFVGVGLQEILKTSGVPKGSFYHYFESKEAFGCELLKHYISDYQIRLNQLWTTETSARDKLMNYLQCWV 99 (212)
T ss_dssp HHHHHCSTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHH
T ss_pred HHHHcCCccCCHHHHHHHhCCChHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHH
Confidence 334457 4688999999999999998877665555555555555444444333333335566665555444433
No 42
>1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1sc5_A
Probab=21.88 E-value=1.6e+02 Score=24.37 Aligned_cols=34 Identities=6% Similarity=-0.136 Sum_probs=26.7
Q ss_pred CCCCchHHHHHHhcCcHHHHHHhhhhhHHHHHHH
Q 020252 257 GGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKM 290 (328)
Q Consensus 257 GrePT~~eWA~a~g~d~~~L~~~L~~G~~Are~L 290 (328)
...-|..|+|+.+|++...++.+++.+...-.+.
T Consensus 201 ~~g~s~~EIA~~lgis~~~V~~~~~ra~~~Lr~~ 234 (239)
T 1rp3_A 201 YEELPAKEVAKILETSVSRVSQLKAKALERLREM 234 (239)
T ss_dssp TSCCCHHHHHHHTTSCHHHHHHHHHHHHHHHHHH
T ss_pred hcCCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 4456899999999999999999988775543333
No 43
>2kpj_A SOS-response transcriptional repressor, LEXA; NESG, GFT, structural genomics, PSI-2, protein structure initiative; NMR {Eubacterium rectale atcc 33656}
Probab=21.72 E-value=2e+02 Score=20.96 Aligned_cols=47 Identities=23% Similarity=0.351 Sum_probs=31.9
Q ss_pred CchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHH
Q 020252 260 PTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLV 316 (328)
Q Consensus 260 PT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLI 316 (328)
-|..+.|+.+|++...+.+... |.. .-++..+..||+.| |+++++|+
T Consensus 23 lsq~~lA~~~gis~~~is~~e~-G~~------~p~~~~l~~ia~~l---~v~~~~l~ 69 (94)
T 2kpj_A 23 KTQLEIAKSIGVSPQTFNTWCK-GIA------IPRMGKVQALADYF---NINKSDLI 69 (94)
T ss_dssp SCHHHHHHHHTCCHHHHHHHHT-TSC------CCCHHHHHHHHHHH---TCCTHHHH
T ss_pred CCHHHHHHHHCcCHHHHHHHHh-CCC------CCCHHHHHHHHHHH---CcCHHHHh
Confidence 5788999999999888876554 321 12455667777765 57777775
No 44
>3f6w_A XRE-family like protein; helix-turn-helix, DNA binding protein, xenobiotic response E family of transcriptional regulators; HET: MSE BTB; 1.85A {Pseudomonas syringae PV}
Probab=21.69 E-value=2.1e+02 Score=19.95 Aligned_cols=48 Identities=17% Similarity=0.133 Sum_probs=34.7
Q ss_pred CchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHH
Q 020252 260 PTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQ 317 (328)
Q Consensus 260 PT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQ 317 (328)
-|..+.|+.+|++...+.+..+ |.. .-++..+..||+-| |++..+|+.
T Consensus 28 ltq~elA~~~gis~~~is~~e~-g~~------~~~~~~l~~l~~~l---~~~~~~l~~ 75 (83)
T 3f6w_A 28 ITQKELAARLGRPQSFVSKTEN-AER------RLDVIEFMDFCRGI---GTDPYALLS 75 (83)
T ss_dssp CCHHHHHHHHTSCHHHHHHHHT-TSS------CCCHHHHHHHHHHH---TCCHHHHHH
T ss_pred CCHHHHHHHHCcCHHHHHHHHC-CCC------CCCHHHHHHHHHHc---CCCHHHHHH
Confidence 4788999999999888776654 321 23566777888766 788888875
No 45
>1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1sc5_A
Probab=21.49 E-value=1.2e+02 Score=25.04 Aligned_cols=36 Identities=28% Similarity=0.421 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhcCcHHHHHHh
Q 020252 244 KLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRR 279 (328)
Q Consensus 244 ~Le~~r~~L~~~~GrePT~~eWA~a~g~d~~~L~~~ 279 (328)
.+.+....+....|+.|+..+.|+..|++.+.+...
T Consensus 100 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~ 135 (239)
T 1rp3_A 100 RIKEVVEKLKEKLGREPTDEEVAKELGISTEELFKT 135 (239)
T ss_dssp HHHHHHHHHHHHHSSCCCHHHHHHHHTSCHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHH
Confidence 345566677778899999999999999988776543
No 46
>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62
Probab=21.36 E-value=1.3e+02 Score=22.56 Aligned_cols=36 Identities=22% Similarity=0.197 Sum_probs=26.4
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhcCcHHHHHHhhhh
Q 020252 245 LEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 282 (328)
Q Consensus 245 Le~~r~~L~~~~GrePT~~eWA~a~g~d~~~L~~~L~~ 282 (328)
|+++.+.|.+ ....+..|.|+.++++...+++.|..
T Consensus 4 L~~Il~~L~~--~g~vsv~eLa~~l~VS~~TIRrdL~~ 39 (78)
T 1xn7_A 4 LIQVRDLLAL--RGRMEAAQISQTLNTPQPMINAMLQQ 39 (78)
T ss_dssp HHHHHHHHHH--SCSBCHHHHHHHTTCCHHHHHHHHHH
T ss_pred HHHHHHHHHH--cCCCcHHHHHHHHCcCHHHHHHHHHH
Confidence 3444444433 34688999999999999999987764
No 47
>1qgp_A Protein (double stranded RNA adenosine deaminase); Z-alpha-Z-DNA binding domain, RNA-editing, Z-DNA recognition, ADAR1, helix- turn-helix; NMR {Homo sapiens} SCOP: a.4.5.19
Probab=21.31 E-value=90 Score=23.12 Aligned_cols=26 Identities=23% Similarity=0.341 Sum_probs=21.4
Q ss_pred CCCCchHHHHHHhcCcHHHHHHhhhh
Q 020252 257 GGSPTFAQWAAAAGVDQRELRRRLNY 282 (328)
Q Consensus 257 GrePT~~eWA~a~g~d~~~L~~~L~~ 282 (328)
|..-|..|.|+.+|++...+++.|..
T Consensus 29 ~~~~t~~eLA~~Lgvs~~tV~~~L~~ 54 (77)
T 1qgp_A 29 GKATTAHDLSGKLGTPKKEINRVLYS 54 (77)
T ss_dssp SSCEEHHHHHHHHCCCHHHHHHHHHH
T ss_pred CCCcCHHHHHHHHCcCHHHHHHHHHH
Confidence 34668999999999999888877754
No 48
>3qkx_A Uncharacterized HTH-type transcriptional regulato; structural genomics, joint center for structural genomics; HET: MSE; 2.35A {Haemophilus influenzae}
Probab=21.23 E-value=2.8e+02 Score=21.24 Aligned_cols=74 Identities=8% Similarity=-0.021 Sum_probs=47.0
Q ss_pred HHHHhhcCC-CCchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHH
Q 020252 250 EVLSERCGG-SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRY 323 (328)
Q Consensus 250 ~~L~~~~Gr-ePT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGL 323 (328)
.+|-.+.|- ..|..+.|+++|++...|-+--..-......++...+.-+..........+.+..|-+..-...+
T Consensus 18 ~~l~~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 92 (188)
T 3qkx_A 18 DRLMAREGLNQLSMLKLAKEANVAAGTIYLYFKNKDELLEQFAHRVFSMFMATLEKDFDETKPFFEQYRQMWKNI 92 (188)
T ss_dssp HHHHHHSCSTTCCHHHHHHHHTCCHHHHHHHSSSHHHHHHHHHHHHHHHHHHHHHTTCCTTSCHHHHHHHHHHHH
T ss_pred HHHHHhcCcccCCHHHHHHHhCCCcchHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHH
Confidence 344455675 58899999999999999887766555555555555555444444444444556665555444333
No 49
>3him_A Probable transcriptional regulator; TETR, bacterial, RHA1, PSI-2, MCSG, structural midwest center for structural genomics; 2.20A {Rhodococcus jostii}
Probab=21.15 E-value=3e+02 Score=21.49 Aligned_cols=29 Identities=14% Similarity=0.053 Sum_probs=19.8
Q ss_pred HHhhcCC-CCchHHHHHHhcCcHHHHHHhh
Q 020252 252 LSERCGG-SPTFAQWAAAAGVDQRELRRRL 280 (328)
Q Consensus 252 L~~~~Gr-ePT~~eWA~a~g~d~~~L~~~L 280 (328)
|-.+.|- ..|..+.|+++|++...|-+-.
T Consensus 28 l~~~~G~~~~t~~~Ia~~agvs~~t~Y~~F 57 (211)
T 3him_A 28 VFAAKGYGATTTREIAASLDMSPGAVYPHY 57 (211)
T ss_dssp HHHHHCSTTCCHHHHHHHTTCCTTSSTTTC
T ss_pred HHHHcCCCcCCHHHHHHHhCCCcChhhhcC
Confidence 3344574 5789999999998665554333
No 50
>3dcf_A Transcriptional regulator of the TETR/ACRR family; YP_290855.1, structural genomics, joint center for structural genomics, JCSG; 2.50A {Thermobifida fusca YX}
Probab=21.06 E-value=3.1e+02 Score=21.61 Aligned_cols=43 Identities=9% Similarity=0.013 Sum_probs=28.7
Q ss_pred HhhcCC-CCchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhH
Q 020252 253 SERCGG-SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNI 295 (328)
Q Consensus 253 ~~~~Gr-ePT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNL 295 (328)
-.+.|- ..|..+.|+++|++...|-.-...-......++...+
T Consensus 44 ~~~~G~~~~tv~~Ia~~agvs~~t~Y~~F~sK~~Ll~~~~~~~~ 87 (218)
T 3dcf_A 44 FREKGYYATSLDDIADRIGFTKPAIYYYFKSKEDVLFAIVNSIV 87 (218)
T ss_dssp HHHTCTTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHH
T ss_pred HHHcCcccCcHHHHHHHhCCCHHHHHHHcCCHHHHHHHHHHHHH
Confidence 344574 6889999999999988887665544444444444433
No 51
>3he0_A Transcriptional regulator, TETR family; ACRR, vibrio parahaemolytic structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.20A {Vibrio parahaemolyticus}
Probab=20.90 E-value=3e+02 Score=21.36 Aligned_cols=73 Identities=15% Similarity=0.094 Sum_probs=43.0
Q ss_pred HHhhcCC-CCchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHHHHHHHHHH
Q 020252 252 LSERCGG-SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQLQALRYL 324 (328)
Q Consensus 252 L~~~~Gr-ePT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLm 324 (328)
+-.+.|- ..|..+.|+++|++...|-.--..-......++...+.-+..........+.+..+.+..-...++
T Consensus 23 lf~~~G~~~~tv~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 96 (196)
T 3he0_A 23 LIAESGFQGLSMQKLANEAGVAAGTIYRYFSDKEHLLEEVRLNVAKRIASAVQAGVNDDMPLKERYRTMWLNIW 96 (196)
T ss_dssp HHHHHCTTTCCHHHHHHHHTSCHHHHHTTCSSHHHHHHHHHHHHHHHHHHHHTTTCCTTSCHHHHHHHHHHHHH
T ss_pred HHHHhCcccCCHHHHHHHhCCCcchHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHH
Confidence 3344574 588999999999999888765554444444444444444433333333445555555554444433
No 52
>3b7h_A Prophage LP1 protein 11; structural genomics, PSI2, MCSG, protein structure initiative, midwest center for structural genomics; 2.00A {Lactobacillus plantarum WCFS1}
Probab=20.84 E-value=1.9e+02 Score=19.79 Aligned_cols=48 Identities=17% Similarity=0.263 Sum_probs=31.4
Q ss_pred CchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHH
Q 020252 260 PTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLV 316 (328)
Q Consensus 260 PT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLI 316 (328)
-|..+.|..+|++...+.+..+... -.-+...+..||+-| |+++++|+
T Consensus 21 ~sq~~lA~~~gis~~~i~~~e~g~~------~~~~~~~l~~ia~~l---~~~~~~l~ 68 (78)
T 3b7h_A 21 LTINRVATLAGLNQSTVNAMFEGRS------KRPTITTIRKVCGTL---GISVHDFF 68 (78)
T ss_dssp CCHHHHHHHHTCCHHHHHHHHCTTC------CCCCHHHHHHHHHHH---TCCHHHHT
T ss_pred CCHHHHHHHHCcCHHHHHHHHcCCC------CCCCHHHHHHHHHHc---CCCHHHHh
Confidence 5778899999999888876554321 012345566677655 66777765
No 53
>1y7y_A C.AHDI; helix-turn-helix, DNA-binding protein, transcriptional regulator, transcription regulator; 1.69A {Aeromonas hydrophila} SCOP: a.35.1.3
Probab=20.71 E-value=2e+02 Score=19.31 Aligned_cols=47 Identities=13% Similarity=0.173 Sum_probs=30.9
Q ss_pred CchHHHHHHhcCcHHHHHHhhhhhHHHHHHHHHHhHHHHHHHHhhccCCCCChHHHH
Q 020252 260 PTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLV 316 (328)
Q Consensus 260 PT~~eWA~a~g~d~~~L~~~L~~G~~Are~LI~sNLRLVvsIAkrY~g~Gl~~~DLI 316 (328)
-|..+.|..+|++...+.+..+ |.. .-+...+..||+-| |++.++|+
T Consensus 27 ~s~~~lA~~~gis~~~i~~~e~-g~~------~~~~~~l~~l~~~l---~~~~~~l~ 73 (74)
T 1y7y_A 27 LSQETLAFLSGLDRSYVGGVER-GQR------NVSLVNILKLATAL---DIEPRELF 73 (74)
T ss_dssp CCHHHHHHHHTCCHHHHHHHHT-TCS------CCBHHHHHHHHHHT---TSCGGGGC
T ss_pred CCHHHHHHHHCcCHHHHHHHHC-CCC------CCCHHHHHHHHHHh---CcCHHHHc
Confidence 5788999999999888876554 321 12455567777665 56666654
Done!