Query 019233
Match_columns 344
No_of_seqs 195 out of 1457
Neff 4.0
Searched_HMMs 29240
Date Mon Mar 25 12:56:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019233.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/019233hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3ugo_A RNA polymerase sigma fa 99.8 3.9E-18 1.3E-22 157.3 12.3 116 218-336 6-151 (245)
2 1l9z_H Sigma factor SIGA; heli 99.7 5.2E-18 1.8E-22 169.2 11.7 116 218-336 93-238 (438)
3 2a6h_F RNA polymerase sigma fa 99.7 5.5E-18 1.9E-22 167.1 7.1 117 217-336 77-223 (423)
4 1sig_A Sigma70, RNA polymerase 98.3 1.7E-06 5.8E-11 81.9 8.7 53 284-336 250-306 (339)
5 3iyd_F RNA polymerase sigma fa 97.8 9.2E-06 3.2E-10 83.4 4.4 54 283-336 358-415 (613)
6 1l0o_C Sigma factor; bergerat 97.0 0.0001 3.5E-09 63.3 0.0 44 293-336 26-69 (243)
7 1rp3_A RNA polymerase sigma fa 97.0 0.00069 2.4E-08 58.2 4.9 43 294-336 11-56 (239)
8 1or7_A Sigma-24, RNA polymeras 95.6 0.011 3.8E-07 49.4 4.6 52 284-336 11-63 (194)
9 2q1z_A RPOE, ECF SIGE; ECF sig 95.4 0.017 5.9E-07 48.0 5.1 55 281-335 11-67 (184)
10 3iyd_F RNA polymerase sigma fa 94.4 0.0041 1.4E-07 63.9 -1.7 35 217-254 94-128 (613)
11 2o7g_A Probable RNA polymerase 91.0 0.25 8.4E-06 38.4 4.4 49 286-335 14-63 (112)
12 1h3l_A RNA polymerase sigma fa 87.9 0.34 1.2E-05 35.9 2.9 43 293-335 10-52 (87)
13 2jt1_A PEFI protein; solution 75.2 3.9 0.00013 31.5 4.7 34 258-291 13-46 (77)
14 2k9s_A Arabinose operon regula 73.5 12 0.0004 28.8 7.2 37 256-292 6-43 (107)
15 1bl0_A Protein (multiple antib 67.1 13 0.00045 29.6 6.3 58 256-314 14-85 (129)
16 3oou_A LIN2118 protein; protei 66.2 14 0.00049 28.3 6.2 37 256-292 8-44 (108)
17 3lsg_A Two-component response 64.7 18 0.0006 27.5 6.4 36 257-292 6-42 (103)
18 3oio_A Transcriptional regulat 62.9 12 0.00041 29.0 5.2 37 256-292 10-46 (113)
19 3mn2_A Probable ARAC family tr 57.7 17 0.00057 27.8 5.2 37 256-292 5-41 (108)
20 2zc2_A DNAD-like replication p 50.3 18 0.00061 26.9 4.1 61 260-324 8-75 (78)
21 3k2z_A LEXA repressor; winged 48.6 36 0.0012 29.1 6.3 27 265-291 20-46 (196)
22 3gbg_A TCP pilus virulence reg 46.6 56 0.0019 28.5 7.4 56 258-314 174-242 (276)
23 3ugo_A RNA polymerase sigma fa 42.5 5.2 0.00018 36.4 0.0 40 254-293 198-239 (245)
24 3mkl_A HTH-type transcriptiona 41.6 30 0.001 27.1 4.3 36 257-292 11-46 (120)
25 1d5y_A ROB transcription facto 40.3 43 0.0015 29.4 5.7 38 255-292 5-42 (292)
26 4abx_A DNA repair protein RECN 37.7 1.3E+02 0.0045 25.5 8.2 89 237-328 29-151 (175)
27 3g5g_A Regulatory protein; tra 37.2 1.2E+02 0.0043 23.0 7.3 56 270-335 42-97 (99)
28 1sig_A Sigma70, RNA polymerase 36.0 11 0.00038 35.2 1.1 19 236-254 1-19 (339)
29 2lnb_A Z-DNA-binding protein 1 32.9 54 0.0019 26.0 4.4 27 266-292 31-57 (80)
30 3ppb_A Putative TETR family tr 28.1 2.1E+02 0.0072 22.2 10.7 71 264-334 23-94 (195)
31 3n0r_A Response regulator; sig 25.9 27 0.00092 31.7 1.9 42 294-335 20-61 (286)
32 3nxc_A HTH-type protein SLMA; 25.6 1.5E+02 0.0051 23.6 6.1 31 266-296 41-72 (212)
33 3kz9_A SMCR; transcriptional r 25.1 2.5E+02 0.0085 22.0 10.1 69 263-331 30-99 (206)
34 3f2g_A Alkylmercury lyase; MER 24.9 67 0.0023 29.4 4.3 28 266-293 33-60 (220)
35 2a6h_F RNA polymerase sigma fa 24.6 1.3E+02 0.0043 29.4 6.5 35 254-288 270-306 (423)
36 3knw_A Putative transcriptiona 24.2 2.7E+02 0.0091 22.0 9.4 70 264-333 28-98 (212)
37 2v57_A TETR family transcripti 23.8 2.6E+02 0.009 21.8 8.3 39 268-306 31-69 (190)
38 2heo_A Z-DNA binding protein 1 23.7 1E+02 0.0035 22.1 4.3 26 266-291 22-47 (67)
39 4fe7_A Xylose operon regulator 23.7 1.3E+02 0.0045 27.9 6.2 31 262-292 314-344 (412)
40 3loc_A HTH-type transcriptiona 22.4 1.9E+02 0.0066 22.8 6.2 54 266-319 34-88 (212)
41 3s8q_A R-M controller protein; 22.4 2.1E+02 0.0071 20.1 7.7 56 270-335 25-80 (82)
42 3f1b_A TETR-like transcription 21.9 2.9E+02 0.0099 21.6 10.5 69 264-332 28-97 (203)
43 1jko_C HIN recombinase, DNA-in 21.4 1.6E+02 0.0054 18.5 4.6 23 270-292 22-44 (52)
44 3t72_q RNA polymerase sigma fa 21.2 3E+02 0.01 21.5 8.4 54 268-327 38-92 (99)
45 2zcm_A Biofilm operon icaabcd 20.9 3.1E+02 0.011 21.6 7.8 40 264-303 21-61 (192)
46 2fjr_A Repressor protein CI; g 20.8 2.2E+02 0.0076 23.3 6.5 54 261-326 13-66 (189)
47 3col_A Putative transcription 20.6 3E+02 0.01 21.3 7.4 40 265-304 25-65 (196)
48 3f6w_A XRE-family like protein 20.4 2.3E+02 0.0079 19.9 6.0 48 270-327 28-75 (83)
49 1y7y_A C.AHDI; helix-turn-heli 20.3 2.1E+02 0.0071 19.4 5.5 47 270-326 27-73 (74)
50 3rh2_A Hypothetical TETR-like 20.0 3.4E+02 0.012 21.7 8.0 45 264-308 17-62 (212)
No 1
>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=99.75 E-value=3.9e-18 Score=157.26 Aligned_cols=116 Identities=19% Similarity=0.184 Sum_probs=97.9
Q ss_pred CchHHHHHHHhhcCCCCCCCChHHHHHHHHHHHHHHHH-HHHHHH------H--HHH-----------------hCCCCc
Q 019233 218 KQPTIFSAERALNSRGRRLTIARNEAEMSKGVQVVANL-ERIKTT------L--EKE-----------------SGKAAS 271 (344)
Q Consensus 218 ~dpl~~YLk~~~ei~~~~LLTaEEE~eLs~~Iq~l~~L-E~ir~~------L--ee~-----------------lGrePT 271 (344)
.||+..||+ +|+++||||++||++|+++|+.++.. +.+... + +.. .+.+|+
T Consensus 6 ~d~~~~yl~---~i~~~~llt~~~e~~la~~i~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~g~~~~~~~~ 82 (245)
T 3ugo_A 6 SDPVRQYLH---EIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPK 82 (245)
T ss_dssp CHHHHHHHH---HHTTSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHTTGGGCSCCCCTTCCCCCCHH
T ss_pred CCcHHHHHH---HcccccCCCHHHHHHHHHHHHHHHHHHHHHHhccCCcHHHHHHhhhhhhhccchhcccccccccccch
Confidence 689999999 99999999999999999999998863 333221 1 000 146899
Q ss_pred hHHHHHHcCCCH----HHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhhh
Q 019233 272 LNCWAQAAGVSE----RVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAFI 336 (344)
Q Consensus 272 ~~eWA~aaGld~----~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmka 336 (344)
..+||.+.|++. +.|.+....+..|+++||..|+++|.++|++|.+.+.+.+||+|||++||+++
T Consensus 83 ~~~~~~~~~~~~~~~~~~L~~~~~~d~~A~~~L~~~y~~lV~~ia~r~~~~~~~aeDLvQegfi~L~~a 151 (245)
T 3ugo_A 83 TVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRA 151 (245)
T ss_dssp HHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHGGGTTSSSCHHHHHHHHHHHHHHH
T ss_pred hHHHHHHhhccchHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHH
Confidence 999999998853 45666677889999999999999999999999999999999999999999994
No 2
>1l9z_H Sigma factor SIGA; helix-turn-helix, coiled-coil, transcription/DNA complex; 6.50A {Thermus aquaticus} SCOP: i.8.1.1
Probab=99.74 E-value=5.2e-18 Score=169.19 Aligned_cols=116 Identities=18% Similarity=0.158 Sum_probs=97.8
Q ss_pred CchHHHHHHHhhcCCCCCCCChHHHHHHHHHHHHHHHHHHHHH------------------HHHHHhCCCCchHHHHHH-
Q 019233 218 KQPTIFSAERALNSRGRRLTIARNEAEMSKGVQVVANLERIKT------------------TLEKESGKAASLNCWAQA- 278 (344)
Q Consensus 218 ~dpl~~YLk~~~ei~~~~LLTaEEE~eLs~~Iq~l~~LE~ir~------------------~Lee~lGrePT~~eWA~a- 278 (344)
.|++..||+ +|+++||||++||++|+++|+.+..++.... +.....++.|+..+|+..
T Consensus 93 ~d~~~~Yl~---ei~~~pLLt~eEE~~La~~i~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 169 (438)
T 1l9z_H 93 SDPVRQYLH---EIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPK 169 (438)
T ss_pred CChHHHHHH---HhccCCCCCHHHHHHHHHHHHHhhhHHHHHHhhhccchhhhhhhhhhhhhhcccccccccccccccch
Confidence 578999999 9999999999999999999999865443221 112235678888887532
Q ss_pred -----------cCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhhh
Q 019233 279 -----------AGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAFI 336 (344)
Q Consensus 279 -----------aGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmka 336 (344)
.+++..+|...+..+..|+++||.+|+|+|++||++|.++|++++||||||+||||+|
T Consensus 170 ~~~~~~~~~~~~~~~~~eLi~~~~~d~~A~~~Li~~nlrlVv~iA~ry~~~g~~aeDLIQEg~IgL~kA 238 (438)
T 1l9z_H 170 TVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRA 238 (438)
T ss_pred hhhhhhhhhhcccchHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 3556788888888889999999999999999999999999999999999999999995
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=99.71 E-value=5.5e-18 Score=167.12 Aligned_cols=117 Identities=19% Similarity=0.190 Sum_probs=95.0
Q ss_pred CCchHHHHHHHhhcCCCCCCCChHHHHHHHHHHHHHHHHHHHHHHH------------------HHHhCCCCchHHHH--
Q 019233 217 LKQPTIFSAERALNSRGRRLTIARNEAEMSKGVQVVANLERIKTTL------------------EKESGKAASLNCWA-- 276 (344)
Q Consensus 217 ~~dpl~~YLk~~~ei~~~~LLTaEEE~eLs~~Iq~l~~LE~ir~~L------------------ee~lGrePT~~eWA-- 276 (344)
..|++..||+ ++++.||||++||++|+++|+.+..+....... ....++.|+..+|+
T Consensus 77 ~~d~~~~Yl~---ei~~~plLt~eEE~~La~ri~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 153 (423)
T 2a6h_F 77 TSDPVRQYLH---EIGQVPLLTLEEEVELARKVEEGMEAIKKLSEITGLDPDLIREVVRAKILGSARVRHIPGLKETLDP 153 (423)
T ss_dssp THHHHHHHHH---HHHHCCCCTTHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCHHHHHTTSCSSSCTT
T ss_pred CCcHHHHHHH---HhcccCCCCHHHHHHHHHHHHhchhHHHHHHHhhccchhhhhhhHhhhhhhhhhcccccchhhhhhh
Confidence 3579999999 999999999999999999999986543321110 11234567655543
Q ss_pred -------H---HcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhhh
Q 019233 277 -------Q---AAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAFI 336 (344)
Q Consensus 277 -------~---aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmka 336 (344)
. +++++..+|...+..+..|+++||.+|+|+|++||++|.++|++++||||||++|||+|
T Consensus 154 ~~~~~~~~~~~~~~~~~~~L~~~~~~d~~A~~~Li~~~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~ka 223 (423)
T 2a6h_F 154 KTVEEIDQKLKSLPKEHKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRA 223 (423)
T ss_dssp HHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTTCTTTSCHHHHHHHHHHHHHHH
T ss_pred hhhhhhhhhhhcccccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 2 34667788888888889999999999999999999999999999999999999999995
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=98.29 E-value=1.7e-06 Score=81.91 Aligned_cols=53 Identities=23% Similarity=0.452 Sum_probs=46.6
Q ss_pred HHHHHHhhhh-H---HHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhhh
Q 019233 284 RVLKQHLAFG-W---YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAFI 336 (344)
Q Consensus 284 ~eL~~~l~~g-~---~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmka 336 (344)
..|..++..| . .|.+.|+..|+++|.++|++|.+++...+||+|+|++||+++
T Consensus 250 ~~l~~~~~~gd~~~~~A~~~L~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a 306 (339)
T 1sig_A 250 KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 306 (339)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTSTTSSSCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhccccchhhhHHHHHHHHHHHHHHHHHHhcCCCCHhHHHHHHHHHHHHH
Confidence 3455555555 4 799999999999999999999999999999999999999994
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=97.83 E-value=9.2e-06 Score=83.38 Aligned_cols=54 Identities=22% Similarity=0.430 Sum_probs=47.1
Q ss_pred HHHHHHHhhhh-HHH---HHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhhh
Q 019233 283 ERVLKQHLAFG-WYC---REELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAFI 336 (344)
Q Consensus 283 ~~eL~~~l~~g-~~A---RdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmka 336 (344)
...|..++..| ..| .++||..|+++|.++|++|.+++..++||+|+|++||+++
T Consensus 358 ~~~Li~~~~~Gd~~A~~A~~~L~~~y~~~v~~ia~r~~~~~~~aeDlvQE~fi~l~~a 415 (613)
T 3iyd_F 358 VKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 415 (613)
T ss_dssp HHHHHHTHHHHHHHHHHHHTTTTTTTTHHHHHGGGSSSTTSSCSTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHH
Confidence 35566666666 344 9999999999999999999999999999999999999994
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=97.01 E-value=0.0001 Score=63.27 Aligned_cols=44 Identities=23% Similarity=0.268 Sum_probs=0.0
Q ss_pred hHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhhh
Q 019233 293 GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAFI 336 (344)
Q Consensus 293 g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmka 336 (344)
+..+.+.|+..|.++|..+|.+|.+.....+||+|+|.++|+++
T Consensus 26 d~~a~~~l~~~~~~~v~~~~~~~~~~~~~aeDl~Qe~~l~l~~~ 69 (243)
T 1l0o_C 26 DQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLKS 69 (243)
T ss_dssp --------------------------------------------
T ss_pred CHHHHHHHHHHhHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence 36789999999999999999999999999999999999999984
No 7
>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=96.98 E-value=0.00069 Score=58.23 Aligned_cols=43 Identities=30% Similarity=0.266 Sum_probs=39.5
Q ss_pred HHHHHHHHHhchHHHHHHHHhcC---CCCCChhhHHHHHHHHHhhh
Q 019233 294 WYCREELIKSTRPLVLFLARNYR---GLGIPFSDLLQVSRHALAFI 336 (344)
Q Consensus 294 ~~ARdrLI~sNLRLVvsIAKrY~---grGls~eDLIQEG~iGLmka 336 (344)
..+.++|+..|.++|..+|++|. +.+...+||+|+|.+||+++
T Consensus 11 ~~a~~~l~~~~~~~v~~~a~~~~~~~~~~~~aeDl~Qe~~l~l~~~ 56 (239)
T 1rp3_A 11 QIEREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKA 56 (239)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTSCTTSCHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHhHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHH
Confidence 45799999999999999999998 67889999999999999984
No 8
>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=95.62 E-value=0.011 Score=49.43 Aligned_cols=52 Identities=17% Similarity=0.048 Sum_probs=44.8
Q ss_pred HHHHHHhhhh-HHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhhh
Q 019233 284 RVLKQHLAFG-WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAFI 336 (344)
Q Consensus 284 ~eL~~~l~~g-~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmka 336 (344)
.+|...+..| ..+-+.|+..+.+.|..+|.+|.+ ....+|++|++.+.+++.
T Consensus 11 ~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~-~~~aeDl~Qe~~l~~~~~ 63 (194)
T 1or7_A 11 QVLVERVQKGDQKAFNLLVVRYQHKVASLVSRYVP-SGDVPDVVQEAFIKAYRA 63 (194)
T ss_dssp HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTSC-GGGHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHcC-HHhHHHHHHHHHHHHHHh
Confidence 3455555444 789999999999999999999999 889999999999999983
No 9
>2q1z_A RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc bindin transcription factor; 2.40A {Rhodobacter sphaeroides} PDB: 2z2s_A
Probab=95.42 E-value=0.017 Score=47.97 Aligned_cols=55 Identities=11% Similarity=-0.102 Sum_probs=47.1
Q ss_pred CCHHHHHHH-hhh-hHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhh
Q 019233 281 VSERVLKQH-LAF-GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAF 335 (344)
Q Consensus 281 ld~~eL~~~-l~~-g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmk 335 (344)
++..+|... +.. +..+-+.|+..+.+.|..+|.+|.+.....+|++|++.+.+++
T Consensus 11 ~~~~~li~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~l~~~~ 67 (184)
T 2q1z_A 11 TDWVALMRAIRDHRDEAAFAELFQHFAPKVKGFLMKSGSVASQAEECAQDVMATVWQ 67 (184)
T ss_dssp TCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHH
Confidence 345556555 554 4789999999999999999999998888999999999999998
No 10
>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=94.42 E-value=0.0041 Score=63.89 Aligned_cols=35 Identities=14% Similarity=0.148 Sum_probs=14.7
Q ss_pred CCchHHHHHHHhhcCCCCCCCChHHHHHHHHHHHHHHH
Q 019233 217 LKQPTIFSAERALNSRGRRLTIARNEAEMSKGVQVVAN 254 (344)
Q Consensus 217 ~~dpl~~YLk~~~ei~~~~LLTaEEE~eLs~~Iq~l~~ 254 (344)
.+||+.+||| +|++.||||+++|++||++|..|.+
T Consensus 94 ~~dpvrmyl~---emg~~~ll~~~~e~~~ak~ie~g~~ 128 (613)
T 3iyd_F 94 TTDPVRMYMR---EMGTVELLTREGEIDIAKRIEDGIN 128 (613)
T ss_dssp --------------C--------CSSSTTTHHHHHHHH
T ss_pred CCCcHHHHHH---HhcccccCCchhHHHHHHHHHHhHH
Confidence 5899999999 9999999999999999999998864
No 11
>2o7g_A Probable RNA polymerase sigma-C factor; sigma factor, transcription regulation, -10 element recognit domain, transcription; 2.70A {Mycobacterium tuberculosis}
Probab=90.98 E-value=0.25 Score=38.42 Aligned_cols=49 Identities=20% Similarity=-0.066 Sum_probs=41.4
Q ss_pred HHHHhhh-hHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhh
Q 019233 286 LKQHLAF-GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAF 335 (344)
Q Consensus 286 L~~~l~~-g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmk 335 (344)
|...+.. ...+-+.|+..+.+.+..+|.++ +....-+|++|+..+.+.+
T Consensus 14 l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~-~~~~~aeD~vQe~fl~~~~ 63 (112)
T 2o7g_A 14 LALSAAKGNGRALEAFIKATQQDVWRFVAYL-SDVGSADDLTQETFLRAIG 63 (112)
T ss_dssp HHHHHHTTCHHHHHHHHHHHHHHHHHHHHHH-SCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHH
Confidence 3334443 46788999999999999999999 8778899999999999987
No 12
>1h3l_A RNA polymerase sigma factor; transcription, DNA-binding, transcription regulation; 2.37A {Streptomyces coelicolor A3} SCOP: a.177.1.1
Probab=87.87 E-value=0.34 Score=35.93 Aligned_cols=43 Identities=12% Similarity=-0.219 Sum_probs=39.7
Q ss_pred hHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhh
Q 019233 293 GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAF 335 (344)
Q Consensus 293 g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmk 335 (344)
...+-+.|+..+.+.+..+|.++.+....-+|++||..+.+.+
T Consensus 10 ~~~af~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~fl~~~~ 52 (87)
T 1h3l_A 10 RSARFERDALEFLDQMYSAALRMTRNPADAEDLVQETYAKAYA 52 (87)
T ss_dssp HHHHHHHHHHHTHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH
Confidence 4678889999999999999999998888899999999999987
No 13
>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}
Probab=75.23 E-value=3.9 Score=31.47 Aligned_cols=34 Identities=21% Similarity=0.232 Sum_probs=24.8
Q ss_pred HHHHHHHHhCCCCchHHHHHHcCCCHHHHHHHhh
Q 019233 258 IKTTLEKESGKAASLNCWAQAAGVSERVLKQHLA 291 (344)
Q Consensus 258 ir~~Lee~lGrePT~~eWA~aaGld~~eL~~~l~ 291 (344)
++..+++..|.+||..|+|+++|++....++.+.
T Consensus 13 I~~~i~~~~g~~psv~EIa~~lgvS~~TVrr~L~ 46 (77)
T 2jt1_A 13 VQERQNMDDGAPVKTRDIADAAGLSIYQVRLYLE 46 (77)
T ss_dssp HHHHHHHHTTSCEEHHHHHHHHTCCHHHHHHHHH
T ss_pred HHHHHhhccCCCcCHHHHHHHHCCCHHHHHHHHH
Confidence 3444444458999999999999998766555443
No 14
>2k9s_A Arabinose operon regulatory protein; activator, arabinose catabolism, carbohydrate metabolism, cytoplasm, DNA-binding, repressor, transcription; NMR {Escherichia coli}
Probab=73.54 E-value=12 Score=28.76 Aligned_cols=37 Identities=11% Similarity=0.016 Sum_probs=29.8
Q ss_pred HHHHHHHHHHhC-CCCchHHHHHHcCCCHHHHHHHhhh
Q 019233 256 ERIKTTLEKESG-KAASLNCWAQAAGVSERVLKQHLAF 292 (344)
Q Consensus 256 E~ir~~Lee~lG-rePT~~eWA~aaGld~~eL~~~l~~ 292 (344)
.++..-+.+... .+++.+++|+.+|++...|.+....
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 445555666677 7899999999999999988888765
No 15
>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=67.06 E-value=13 Score=29.62 Aligned_cols=58 Identities=22% Similarity=0.256 Sum_probs=39.3
Q ss_pred HHHHHHHHHHhCCCCchHHHHHHcCCCHHHHHHHhhhh--------------HHHHHHHHHhchHHHHHHHHh
Q 019233 256 ERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFG--------------WYCREELIKSTRPLVLFLARN 314 (344)
Q Consensus 256 E~ir~~Lee~lGrePT~~eWA~aaGld~~eL~~~l~~g--------------~~ARdrLI~sNLRLVvsIAKr 314 (344)
.++..-+......+++.+++|+.+|++...|.+..... ..|+..|...++. |..||..
T Consensus 14 ~~~~~~i~~~~~~~~sl~~lA~~~~~S~~~l~r~fk~~~G~s~~~~l~~~Rl~~A~~lL~~~~~s-i~~IA~~ 85 (129)
T 1bl0_A 14 HSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEP-ILYLAER 85 (129)
T ss_dssp HHHHHHHHTTTTSCCCCHHHHHHSSSCHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHHHCCCC-HHHHHHH
T ss_pred HHHHHHHHHccCCCCCHHHHHHHHCcCHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHcCCCC-HHHHHHH
Confidence 34445566666778999999999999998888877642 3455555544443 4455554
No 16
>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=66.19 E-value=14 Score=28.29 Aligned_cols=37 Identities=11% Similarity=0.107 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhCCCCchHHHHHHcCCCHHHHHHHhhh
Q 019233 256 ERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (344)
Q Consensus 256 E~ir~~Lee~lGrePT~~eWA~aaGld~~eL~~~l~~ 292 (344)
.++..-+.+....+++.+++|+.+|++...|.+....
T Consensus 8 ~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 44 (108)
T 3oou_A 8 QNVLSYITEHFSEGMSLKTLGNDFHINAVYLGQLFQK 44 (108)
T ss_dssp HHHHHHHHHHTTSCCCHHHHHHHHTSCHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 3444556666778899999999999999888887764
No 17
>3lsg_A Two-component response regulator YESN; structural genomics, PSI-2, protein structure initiative, MCSG; 2.05A {Fusobacterium nucleatum}
Probab=64.69 E-value=18 Score=27.48 Aligned_cols=36 Identities=14% Similarity=0.134 Sum_probs=28.4
Q ss_pred HHHHHHHHHhCC-CCchHHHHHHcCCCHHHHHHHhhh
Q 019233 257 RIKTTLEKESGK-AASLNCWAQAAGVSERVLKQHLAF 292 (344)
Q Consensus 257 ~ir~~Lee~lGr-ePT~~eWA~aaGld~~eL~~~l~~ 292 (344)
++..-+++.... +++..++|+.+|++...|.+....
T Consensus 6 ~i~~~i~~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 42 (103)
T 3lsg_A 6 LIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSIMFKK 42 (103)
T ss_dssp HHHHHHHHHTTCTTCCHHHHHHHTTCCHHHHHHHHHH
T ss_pred HHHHHHHHHccCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 444455666666 789999999999999998888765
No 18
>3oio_A Transcriptional regulator (ARAC-type DNA-binding containing proteins); PSI-2, midwest center for structural genomics; 1.65A {Chromobacterium violaceum}
Probab=62.86 E-value=12 Score=28.97 Aligned_cols=37 Identities=22% Similarity=0.172 Sum_probs=29.1
Q ss_pred HHHHHHHHHHhCCCCchHHHHHHcCCCHHHHHHHhhh
Q 019233 256 ERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (344)
Q Consensus 256 E~ir~~Lee~lGrePT~~eWA~aaGld~~eL~~~l~~ 292 (344)
.++..-+.+....+++.+++|+.+|++...|.+....
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 3444455666677899999999999999888888775
No 19
>3mn2_A Probable ARAC family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.80A {Rhodopseudomonas palustris}
Probab=57.72 E-value=17 Score=27.85 Aligned_cols=37 Identities=11% Similarity=0.185 Sum_probs=30.2
Q ss_pred HHHHHHHHHHhCCCCchHHHHHHcCCCHHHHHHHhhh
Q 019233 256 ERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (344)
Q Consensus 256 E~ir~~Lee~lGrePT~~eWA~aaGld~~eL~~~l~~ 292 (344)
+++..-+.+....+++.+++|+.+|++...|.+....
T Consensus 5 ~~~~~~i~~~~~~~~~~~~lA~~~~~s~~~l~r~fk~ 41 (108)
T 3mn2_A 5 RQVEEYIEANWMRPITIEKLTALTGISSRGIFKAFQR 41 (108)
T ss_dssp HHHHHHHHHHTTSCCCHHHHHHHHTCCHHHHHHHHHH
T ss_pred HHHHHHHHHcccCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 4455566677788899999999999999988888775
No 20
>2zc2_A DNAD-like replication protein; GI 24377835, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Streptococcus mutans UA159}
Probab=50.28 E-value=18 Score=26.93 Aligned_cols=61 Identities=18% Similarity=0.192 Sum_probs=42.0
Q ss_pred HHHHHHhCCCCch------HHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCC-hhh
Q 019233 260 TTLEKESGKAASL------NCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIP-FSD 324 (344)
Q Consensus 260 ~~Lee~lGrePT~------~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls-~eD 324 (344)
...+...||+||. .+|....|++.+.+...++..- . -=+.|.+.|..|++++...|+. .+|
T Consensus 8 ~~~e~~~gr~ls~~e~~~i~~w~~~~~~~~elI~~A~~~a~-~---~~~~s~~Yi~~Il~~W~~~gi~T~e~ 75 (78)
T 2zc2_A 8 EDFERELGRMLSPFELEDLQKTVSDDKTDPDLVRSALREAV-F---NGKTNWNYIQAILRNWRHEGISTLRQ 75 (78)
T ss_dssp HHHHHHHTSCCCHHHHHHHHHHHTTTCCCHHHHHHHHHHHH-H---HTCCCHHHHHHHHHHHHHTTCCSHHH
T ss_pred HHHHHHhCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHH-H---cCCCCHHHHHHHHHHHHHcCCCCHHH
Confidence 3455667888875 4566677788777666555542 1 1246899999999999999975 443
No 21
>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=48.61 E-value=36 Score=29.12 Aligned_cols=27 Identities=22% Similarity=0.206 Sum_probs=21.5
Q ss_pred HhCCCCchHHHHHHcCCCHHHHHHHhh
Q 019233 265 ESGKAASLNCWAQAAGVSERVLKQHLA 291 (344)
Q Consensus 265 ~lGrePT~~eWA~aaGld~~eL~~~l~ 291 (344)
+.|.+||..|+|+++|++...+.+++.
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 359999999999999998665555444
No 22
>3gbg_A TCP pilus virulence regulatory protein; cupin, helix-turn-helix, ARAC family, activator, DNA-binding transcription, transcription regulation; HET: PAM; 1.90A {Vibrio cholerae}
Probab=46.56 E-value=56 Score=28.54 Aligned_cols=56 Identities=13% Similarity=0.086 Sum_probs=38.6
Q ss_pred HHHHHHHHhCCCCchHHHHHHcCCCHHHHHHHhhh-h------------HHHHHHHHHhchHHHHHHHHh
Q 019233 258 IKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF-G------------WYCREELIKSTRPLVLFLARN 314 (344)
Q Consensus 258 ir~~Lee~lGrePT~~eWA~aaGld~~eL~~~l~~-g------------~~ARdrLI~sNLRLVvsIAKr 314 (344)
+..-+.+....++|.+++|+.+|++...|.+.... | ..|+..|...++. |..||..
T Consensus 174 ~~~~i~~~~~~~~sl~~lA~~~~~S~~~l~r~fk~~G~t~~~~l~~~Rl~~A~~lL~~~~~s-i~eIA~~ 242 (276)
T 3gbg_A 174 ISCLVKSDITRNWRWADICGELRTNRMILKKELESRGVKFRELINSIRISYSISLMKTGEFK-IKQIAYQ 242 (276)
T ss_dssp HHHHHHHTTTSCCCHHHHHHHHTCCHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHHTCCC-HHHHHHH
T ss_pred HHHHHHHhhcCCCCHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhCCCCC-HHHHHHH
Confidence 34445566777899999999999999888777653 1 4566666655554 5556654
No 23
>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=42.48 E-value=5.2 Score=36.36 Aligned_cols=40 Identities=25% Similarity=0.381 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhCCCCchHHHHHHcC--CCHHHHHHHhhhh
Q 019233 254 NLERIKTTLEKESGKAASLNCWAQAAG--VSERVLKQHLAFG 293 (344)
Q Consensus 254 ~LE~ir~~Lee~lGrePT~~eWA~aaG--ld~~eL~~~l~~g 293 (344)
++.+....|...+|+.||.+|+|+.+| +++..+..++..+
T Consensus 198 ~l~~~~~~L~~~~~~~ps~~EIAe~Lg~~is~~tVk~~l~~a 239 (245)
T 3ugo_A 198 KLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIA 239 (245)
T ss_dssp ------------------------------------------
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHCCCCCHHHHHHHHHHH
Confidence 344555667788899999999999999 9988887776543
No 24
>3mkl_A HTH-type transcriptional regulator GADX; PSI2, MCSG, structural genomics, protein structure initiativ midwest center for structural genomics; 2.15A {Escherichia coli}
Probab=41.64 E-value=30 Score=27.06 Aligned_cols=36 Identities=22% Similarity=0.192 Sum_probs=27.8
Q ss_pred HHHHHHHHHhCCCCchHHHHHHcCCCHHHHHHHhhh
Q 019233 257 RIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (344)
Q Consensus 257 ~ir~~Lee~lGrePT~~eWA~aaGld~~eL~~~l~~ 292 (344)
++..-+.+....+++.+++|+.+|++...|.+....
T Consensus 11 ~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 46 (120)
T 3mkl_A 11 RVCTVINNNIAHEWTLARIASELLMSPSLLKKKLRE 46 (120)
T ss_dssp HHHHHHHTSTTSCCCHHHHHHHTTCCHHHHHHHHHH
T ss_pred HHHHHHHHhccCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 344455566677899999999999999888877654
No 25
>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=40.25 E-value=43 Score=29.44 Aligned_cols=38 Identities=24% Similarity=0.189 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHhCCCCchHHHHHHcCCCHHHHHHHhhh
Q 019233 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (344)
Q Consensus 255 LE~ir~~Lee~lGrePT~~eWA~aaGld~~eL~~~l~~ 292 (344)
+.++..-+++.+..++|.+++|+.+|++...|.+....
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 34455566666788899999999999999999888764
No 26
>4abx_A DNA repair protein RECN; DNA binding protein, ATP binding protein, double break repair, coiled-coil; HET: DNA; 2.04A {Deinococcus radiodurans}
Probab=37.75 E-value=1.3e+02 Score=25.55 Aligned_cols=89 Identities=12% Similarity=0.097 Sum_probs=50.3
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHHh----CCCCch-HHHHH-------HcCCCH--HHHHHHhhh----------
Q 019233 237 TIARNEAEMSKGVQVVANLERIKTTLEKES----GKAASL-NCWAQ-------AAGVSE--RVLKQHLAF---------- 292 (344)
Q Consensus 237 LTaEEE~eLs~~Iq~l~~LE~ir~~Lee~l----GrePT~-~eWA~-------aaGld~--~eL~~~l~~---------- 292 (344)
|.+.|+.+|....+.+.+.++++..+.... |.+++. ..... .+.++. ..+..++..
T Consensus 29 l~~gE~eeLe~e~~rL~nae~l~~~~~~a~~~L~~~e~~~~~~L~~a~~~L~~l~~~d~~l~~~~e~l~~a~~~l~d~~~ 108 (175)
T 4abx_A 29 PDPGEEEGLNTELSRLSNLHTIAQAAAGGVELLSDGDLNAAGLIGEAVRALNAGAKYDETVMQLQNELRAALESVQAIAG 108 (175)
T ss_dssp CCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCChHHHHHHHHHHHHCHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHHHHHHHhChhHHHHHHHHHHHHHHHHHHHH
Confidence 456788888888888888888887665432 222221 11111 122321 111111111
Q ss_pred ----------hHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHH
Q 019233 293 ----------GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQV 328 (344)
Q Consensus 293 ----------g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQE 328 (344)
....|=.-|..=+-.+..++|||. .+.+||+.-
T Consensus 109 ~L~~y~~~le~DP~rL~~ie~RL~~l~~L~RKyg---~~~eell~~ 151 (175)
T 4abx_A 109 ELRDVAEGSAADPEALDRVEARLSALSKLKNKYG---PTLEDVVEF 151 (175)
T ss_dssp HHHHHHHTCCCCHHHHHHHHHHHHHHHHHHHHHC---SSHHHHHHH
T ss_pred HHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHcC---CCHHHHHHH
Confidence 123344456777788899999994 788888754
No 27
>3g5g_A Regulatory protein; transcriptional regulator, helix-turn-helix, restriction- modification, transcription regulator; 2.80A {Enterobacter SP} PDB: 3fya_A
Probab=37.22 E-value=1.2e+02 Score=23.03 Aligned_cols=56 Identities=4% Similarity=-0.059 Sum_probs=38.3
Q ss_pred CchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhh
Q 019233 270 ASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAF 335 (344)
Q Consensus 270 PT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmk 335 (344)
-|-.+.|+.+|++...+.+...... ...+..+..||+-| |++.++|+..-.--+.+
T Consensus 42 ltq~elA~~~gis~~~is~iE~G~~-------~ps~~~l~~ia~~l---~v~~~~l~~~~~~e~~k 97 (99)
T 3g5g_A 42 MTQEDLAYKSNLDRTYISGIERNSR-------NLTIKSLELIMKGL---EVSDVVFFEMLIKEILK 97 (99)
T ss_dssp CCHHHHHHHHTCCHHHHHHHHTTCS-------CCBHHHHHHHHHHT---TCCHHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHCcCHHHHHHHHCCCC-------CCCHHHHHHHHHHH---CcCHHHHhccCHHHHhc
Confidence 5778889999998877765444321 24667778888866 68888888765444443
No 28
>1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma factor, transcription regulation; 2.60A {Escherichia coli} SCOP: a.177.1.1
Probab=36.01 E-value=11 Score=35.17 Aligned_cols=19 Identities=16% Similarity=0.141 Sum_probs=14.9
Q ss_pred CCChHHHHHHHHHHHHHHH
Q 019233 236 LTIARNEAEMSKGVQVVAN 254 (344)
Q Consensus 236 LLTaEEE~eLs~~Iq~l~~ 254 (344)
|||+|.|+++|++|..|.+
T Consensus 1 LLTREgEI~IAKRIE~G~~ 19 (339)
T 1sig_A 1 GSHMEGEIDIAKRIEDGIN 19 (339)
T ss_dssp ---CCTHHHHHHHHHHHHH
T ss_pred CCChHHHHHHHHHHHHHHH
Confidence 7999999999999999875
No 29
>2lnb_A Z-DNA-binding protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, immune system; NMR {Homo sapiens}
Probab=32.90 E-value=54 Score=25.96 Aligned_cols=27 Identities=22% Similarity=0.231 Sum_probs=23.5
Q ss_pred hCCCCchHHHHHHcCCCHHHHHHHhhh
Q 019233 266 SGKAASLNCWAQAAGVSERVLKQHLAF 292 (344)
Q Consensus 266 lGrePT~~eWA~aaGld~~eL~~~l~~ 292 (344)
.|.+.+..++|+.+|++.+++.+.+..
T Consensus 31 aG~PlkageIae~~GvdKKeVdKaik~ 57 (80)
T 2lnb_A 31 AGSPVKLAQLVKECQAPKRELNQVLYR 57 (80)
T ss_dssp HTSCEEHHHHHHHHTSCHHHHHHHHHH
T ss_pred cCCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 599999999999999999988877653
No 30
>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=28.05 E-value=2.1e+02 Score=22.17 Aligned_cols=71 Identities=15% Similarity=0.014 Sum_probs=46.6
Q ss_pred HHhC-CCCchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHh
Q 019233 264 KESG-KAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALA 334 (344)
Q Consensus 264 e~lG-rePT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLm 334 (344)
.+.| ...|..++|+++|++...+-.....-...-..++.....-+..........+.+..+-+......++
T Consensus 23 ~~~G~~~~tv~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 94 (195)
T 3ppb_A 23 VSQGFHGTSTATIAREAGVATGTLFHHFPSKEQLLEQLFLGVKQEFADAIQASVSSRGDLKQDAEQLWFAAL 94 (195)
T ss_dssp HHTCSTTSCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHTCCCCSCHHHHHHHHHHHHH
T ss_pred HhcCcccCCHHHHHHHhCCChhHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHHHHHHH
Confidence 3457 4689999999999999888887776666666666655555555444444555566655555444433
No 31
>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A
Probab=25.95 E-value=27 Score=31.66 Aligned_cols=42 Identities=19% Similarity=0.068 Sum_probs=38.0
Q ss_pred HHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhh
Q 019233 294 WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAF 335 (344)
Q Consensus 294 ~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmk 335 (344)
..+-++|+..+.+.+..+|.+|.+.-..-+|++||-.+-+.+
T Consensus 20 ~~~f~~l~~~~~~~l~~~a~~~~~~~~~AeD~vQe~fl~~~~ 61 (286)
T 3n0r_A 20 EMHLLARLAPHLPYIRRYARALTGDQATGDHYVRVALEALAA 61 (286)
T ss_dssp CCCHHHHHGGGHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHT
T ss_pred cCCHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHh
Confidence 456788999999999999999998888899999999999987
No 32
>3nxc_A HTH-type protein SLMA; nucleoid occlusion, cell division, TETR family member, DNA B protein; 2.50A {Escherichia coli}
Probab=25.57 E-value=1.5e+02 Score=23.56 Aligned_cols=31 Identities=26% Similarity=0.259 Sum_probs=19.7
Q ss_pred hC-CCCchHHHHHHcCCCHHHHHHHhhhhHHH
Q 019233 266 SG-KAASLNCWAQAAGVSERVLKQHLAFGWYC 296 (344)
Q Consensus 266 lG-rePT~~eWA~aaGld~~eL~~~l~~g~~A 296 (344)
.| ...|..++|+++|++...+-.....-...
T Consensus 41 ~G~~~~t~~~Ia~~agvs~~t~Y~~F~sK~~L 72 (212)
T 3nxc_A 41 DGSQRITTAKLAASVGVSEAALYRHFPSKTRM 72 (212)
T ss_dssp -----CCHHHHHHHTTSCHHHHHTTCSSHHHH
T ss_pred CChhhcCHHHHHHHhCCChhHHHHHCCCHHHH
Confidence 36 46899999999999876665555443333
No 33
>3kz9_A SMCR; transcriptional regulator, quorum S DNA-binding, transcription regulation, transcription regula; HET: MSE; 2.10A {Vibrio vulnificus} PDB: 2pbx_A
Probab=25.07 E-value=2.5e+02 Score=21.97 Aligned_cols=69 Identities=10% Similarity=-0.037 Sum_probs=43.1
Q ss_pred HHHhCCC-CchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHH
Q 019233 263 EKESGKA-ASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRH 331 (344)
Q Consensus 263 ee~lGre-PT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~i 331 (344)
-.+.|-. .|..++|+++|++...+-.....-...-..++.....-+..........+.+..|-+.....
T Consensus 30 ~~~~G~~~~s~~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 99 (206)
T 3kz9_A 30 FARRGIGRGGHADIAEIAQVSVATVFNYFPTREDLVDEVLNHVVRQFSNFLSDNIDLDLHAKENIANITN 99 (206)
T ss_dssp HHHSCCSSCCHHHHHHHHTSCHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHHHCCTTSCHHHHHHHHHH
T ss_pred HHhcCcccccHHHHHHHhCCCHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHH
Confidence 3445854 89999999999998888777776555555555555444444444433444455444444333
No 34
>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=24.92 E-value=67 Score=29.39 Aligned_cols=28 Identities=14% Similarity=0.073 Sum_probs=24.8
Q ss_pred hCCCCchHHHHHHcCCCHHHHHHHhhhh
Q 019233 266 SGKAASLNCWAQAAGVSERVLKQHLAFG 293 (344)
Q Consensus 266 lGrePT~~eWA~aaGld~~eL~~~l~~g 293 (344)
.|++|+..+.|+++|++.++..+.++.-
T Consensus 33 ~Grpv~~~~LA~~~g~~~~~v~~~L~~l 60 (220)
T 3f2g_A 33 KGRPVSRTTLAGILDWPAERVAAVLEQA 60 (220)
T ss_dssp TTSCBCHHHHHHHHTCCHHHHHHHHHHC
T ss_pred cCCCCCHHHHHHHhCcCHHHHHHHHHhC
Confidence 5999999999999999998888877653
No 35
>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=24.60 E-value=1.3e+02 Score=29.37 Aligned_cols=35 Identities=23% Similarity=0.383 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHhCCCCchHHHHHHcC--CCHHHHHH
Q 019233 254 NLERIKTTLEKESGKAASLNCWAQAAG--VSERVLKQ 288 (344)
Q Consensus 254 ~LE~ir~~Lee~lGrePT~~eWA~aaG--ld~~eL~~ 288 (344)
++.+.+.++...+|++|+.+++|..+| ++++.+..
T Consensus 270 ~lrr~~~~l~~~~~r~p~~~eiA~~l~~~~~~~~v~~ 306 (423)
T 2a6h_F 270 KLSRTARQLQQELGREPTYEEIAEAMGPGWDAKRVEE 306 (423)
T ss_dssp HHHHHHHHHHHHHSSCCCHHHHHHHHCTTCCHHHHHH
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHhCCCCCHHHHHH
Confidence 344555677778899999999999999 88776654
No 36
>3knw_A Putative transcriptional regulator (TETR/ACRR FAM; TETR-like protein, MCSG, PSI, structural genomics, protein S initiative; 2.45A {Acinetobacter SP}
Probab=24.17 E-value=2.7e+02 Score=22.04 Aligned_cols=70 Identities=13% Similarity=-0.025 Sum_probs=42.7
Q ss_pred HHhCC-CCchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHH
Q 019233 264 KESGK-AASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHAL 333 (344)
Q Consensus 264 e~lGr-ePT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGL 333 (344)
.+.|- ..|..++|+++|++...+-.....-...-..++.....-+..........+.+..+-+..-...+
T Consensus 28 ~~~G~~~~ti~~IA~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 98 (212)
T 3knw_A 28 LRKGFVGVGLQEILKTSGVPKGSFYHYFESKEAFGCELLKHYISDYQIRLNQLWTTETSARDKLMNYLQCW 98 (212)
T ss_dssp HHHCSTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHHHSSSSCHHHHHHHHHHHH
T ss_pred HHcCCccCCHHHHHHHhCCChHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHH
Confidence 33574 68999999999999988888777665555555554444333333333222555555554444333
No 37
>2v57_A TETR family transcriptional repressor LFRR; DNA-binding, transcription regulation; HET: PRL; 1.90A {Mycobacterium smegmatis} PDB: 2wgb_A
Probab=23.76 E-value=2.6e+02 Score=21.80 Aligned_cols=39 Identities=21% Similarity=0.118 Sum_probs=28.4
Q ss_pred CCCchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchH
Q 019233 268 KAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRP 306 (344)
Q Consensus 268 rePT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLR 306 (344)
...|..++|+++|++...+-.....-...-..++.....
T Consensus 31 ~~~t~~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~ 69 (190)
T 2v57_A 31 PTAALGDIAAAAGVGRSTVHRYYPERTDLLRALARHVHD 69 (190)
T ss_dssp TTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHhCCCHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 678999999999999888877776655555555544443
No 38
>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A
Probab=23.70 E-value=1e+02 Score=22.14 Aligned_cols=26 Identities=19% Similarity=0.256 Sum_probs=21.1
Q ss_pred hCCCCchHHHHHHcCCCHHHHHHHhh
Q 019233 266 SGKAASLNCWAQAAGVSERVLKQHLA 291 (344)
Q Consensus 266 lGrePT~~eWA~aaGld~~eL~~~l~ 291 (344)
.+.+.+..++|+.+|++...+.+.+.
T Consensus 22 ~~~~~s~~eLA~~lglsr~tv~~~l~ 47 (67)
T 2heo_A 22 DGGPVAIFQLVKKCQVPKKTLNQVLY 47 (67)
T ss_dssp HCSCEEHHHHHHHHCSCHHHHHHHHH
T ss_pred cCCCcCHHHHHHHHCcCHHHHHHHHH
Confidence 46778999999999999877766554
No 39
>4fe7_A Xylose operon regulatory protein; HTH_ARAC, helix-turn-helix, PBP, periplasmic binding protein binding transcription regulator, DNA xylose; HET: XYS; 2.90A {Escherichia coli} PDB: 4fe4_A
Probab=23.66 E-value=1.3e+02 Score=27.86 Aligned_cols=31 Identities=16% Similarity=0.245 Sum_probs=25.3
Q ss_pred HHHHhCCCCchHHHHHHcCCCHHHHHHHhhh
Q 019233 262 LEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (344)
Q Consensus 262 Lee~lGrePT~~eWA~aaGld~~eL~~~l~~ 292 (344)
+........+.++||+.+|++...|.+....
T Consensus 314 i~~~~~~~~~~~~~a~~~~~s~~~l~r~f~~ 344 (412)
T 4fe7_A 314 IRNHACKGIKVDQVLDAVGISRSNLEKRFKE 344 (412)
T ss_dssp HHHHGGGTCCHHHHHHHTTCCHHHHHHHHHH
T ss_pred HHhhccCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 3444567889999999999999988888775
No 40
>3loc_A HTH-type transcriptional regulator RUTR; helix-turn-helix, putative transcriptional regulator, dimer, structural genomics, PSI; HET: MSE; 2.50A {Escherichia coli}
Probab=22.37 E-value=1.9e+02 Score=22.81 Aligned_cols=54 Identities=19% Similarity=0.045 Sum_probs=33.7
Q ss_pred hCC-CCchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCC
Q 019233 266 SGK-AASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLG 319 (344)
Q Consensus 266 lGr-ePT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grG 319 (344)
.|- ..|..++|+++|++...+-.....-+..-..++...+.............+
T Consensus 34 ~G~~~~s~~~IA~~aGvs~~tlY~~F~sKe~L~~~~~~~~~~~~~~~~~~~~~~~ 88 (212)
T 3loc_A 34 FGFHGTRLEQIAELAGVSKTNLLYYFPSKEALYIAVLRQILDIWLAPLKAFREDF 88 (212)
T ss_dssp HHHHHCCHHHHHHHHTSCHHHHHHHSSSHHHHHHHHHHHHHHHHHHHHHHCCTTS
T ss_pred hCcccCCHHHHHHHHCcCHHHHhhhCCCHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 353 478999999999998888777765555555555444444444444444333
No 41
>3s8q_A R-M controller protein; protein-DNA complex, helix-turn-helix; HET: DNA; 2.10A {Enterobacter SP} SCOP: a.35.1.0 PDB: 3clc_A* 3ufd_A*
Probab=22.36 E-value=2.1e+02 Score=20.13 Aligned_cols=56 Identities=4% Similarity=-0.059 Sum_probs=37.6
Q ss_pred CchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHHHhh
Q 019233 270 ASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHALAF 335 (344)
Q Consensus 270 PT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iGLmk 335 (344)
-|..+.|..+|++...+.+...... ...+..+..||+-| |++.++|+-.-.--+++
T Consensus 25 lsq~~lA~~~gis~~~i~~~e~g~~-------~~~~~~l~~ia~~l---~v~~~~l~~~~~~~~~~ 80 (82)
T 3s8q_A 25 MTQEDLAYKSNLDRTYISGIERNSR-------NLTIKSLELIMKGL---EVSDVVFFEMLIKEILK 80 (82)
T ss_dssp CCHHHHHHHHTCCHHHHHHHHTTCC-------CCBHHHHHHHHHHT---TCCHHHHHHHHHHHHHC
T ss_pred CCHHHHHHHhCcCHHHHHHHHCCCC-------CCCHHHHHHHHHHH---CcCHHHHhcCChHhhcC
Confidence 5778899999998877765443321 23666777888765 67888888655444443
No 42
>3f1b_A TETR-like transcriptional regulator; APC5888, rhodococcus SP. RHA1, structural genomics, PS protein structure initiative; 2.40A {Rhodococcus}
Probab=21.87 E-value=2.9e+02 Score=21.59 Aligned_cols=69 Identities=13% Similarity=0.013 Sum_probs=42.5
Q ss_pred HHhCC-CCchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHHHHHHH
Q 019233 264 KESGK-AASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQVSRHA 332 (344)
Q Consensus 264 e~lGr-ePT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQEG~iG 332 (344)
.+.|- ..|..++|+++|++...+-.....-...-..++.....-...........+.+..|-+......
T Consensus 28 ~~~G~~~~ti~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 97 (203)
T 3f1b_A 28 SDRGFHETSMDAIAAKAEISKPMLYLYYGSKDELFAACIQREGLRFVEALAPAGDPGLSPREQLRRALEG 97 (203)
T ss_dssp HHHCTTTCCHHHHHHHTTSCHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHGGGGCTTCCHHHHHHHHHHH
T ss_pred HHcCcccccHHHHHHHhCCchHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHH
Confidence 34574 6899999999999988888777665555555555544444333333334444554444443333
No 43
>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=21.39 E-value=1.6e+02 Score=18.47 Aligned_cols=23 Identities=13% Similarity=0.026 Sum_probs=19.0
Q ss_pred CchHHHHHHcCCCHHHHHHHhhh
Q 019233 270 ASLNCWAQAAGVSERVLKQHLAF 292 (344)
Q Consensus 270 PT~~eWA~aaGld~~eL~~~l~~ 292 (344)
-|..++|..+|++...+.+.+..
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 57889999999998888777654
No 44
>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=21.18 E-value=3e+02 Score=21.49 Aligned_cols=54 Identities=19% Similarity=0.120 Sum_probs=37.2
Q ss_pred CCCchHHHHHHcCCCHHHHHHHhhhh-HHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHH
Q 019233 268 KAASLNCWAQAAGVSERVLKQHLAFG-WYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQ 327 (344)
Q Consensus 268 rePT~~eWA~aaGld~~eL~~~l~~g-~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQ 327 (344)
..-|..|+|+..|++....+.++..+ ...|..+-...++ .-..+.|++-+.|+.
T Consensus 38 e~~s~~EIA~~lgiS~~tVr~~~~rAlkkLR~~~~~~~l~------~~~~~~~~~~~~~~~ 92 (99)
T 3t72_q 38 TDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLR------SGSSGSGTPEEKLLR 92 (99)
T ss_pred CCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHhcCCCHHHHHH
Confidence 56799999999999999888888766 4455555543332 122456777776654
No 45
>2zcm_A Biofilm operon icaabcd HTH-type negative transcri regulator ICAR; helix-turn-helix, TETR family, repressor; 1.33A {Staphylococcus epidermidis} PDB: 2zcn_A
Probab=20.94 E-value=3.1e+02 Score=21.56 Aligned_cols=40 Identities=13% Similarity=0.132 Sum_probs=27.2
Q ss_pred HHhCC-CCchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHh
Q 019233 264 KESGK-AASLNCWAQAAGVSERVLKQHLAFGWYCREELIKS 303 (344)
Q Consensus 264 e~lGr-ePT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~s 303 (344)
.+.|- ..|..++|+++|++...+-.....-...-..++..
T Consensus 21 ~~~G~~~~t~~~IA~~agvs~~tlY~~F~sK~~L~~av~~~ 61 (192)
T 2zcm_A 21 SEKGYDGTTLDDISKSVNIKKASLYYHYDNKEEIYRKSVEN 61 (192)
T ss_dssp HHHCTTTCCHHHHHHHTTCCHHHHHHHTCCHHHHHHHHHHH
T ss_pred HHcCcccCCHHHHHHHhCCChHHHHHHCCCHHHHHHHHHHH
Confidence 34575 57999999999998877776665544444444433
No 46
>2fjr_A Repressor protein CI; genetic switch, regulation, cooperativity, transcription regulator; 1.95A {Enterobacteria phage 186} PDB: 2fkd_A
Probab=20.82 E-value=2.2e+02 Score=23.33 Aligned_cols=54 Identities=17% Similarity=0.076 Sum_probs=31.7
Q ss_pred HHHHHhCCCCchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHH
Q 019233 261 TLEKESGKAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLL 326 (344)
Q Consensus 261 ~Lee~lGrePT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLI 326 (344)
.|.+..+.. |..++|+++|++...+.+....... . ...+..||+.| |++.+.|+
T Consensus 13 rl~~~r~~~-tq~elA~~~Gis~~~i~~~e~g~~~-------p-~~~l~~ia~~~---~v~~~~l~ 66 (189)
T 2fjr_A 13 RICEAYGFS-QKIQLANHFDIASSSLSNRYTRGAI-------S-YDFAAHCALET---GANLQWLL 66 (189)
T ss_dssp HHHHHHTCS-SHHHHHHHTTCCHHHHHHHHHSSSC-------C-HHHHHHHHHHH---CCCHHHHH
T ss_pred HHHHHHhhc-CHHHHHHHhCcCHHHHHHHHhCCCC-------C-HHHHHHHHHHH---CCCHHHHh
Confidence 333344555 8999999999988777655543221 1 22345566654 45555554
No 47
>3col_A Putative transcription regulator; structural genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; HET: MSE; 2.10A {Lactobacillus plantarum WCFS1}
Probab=20.58 E-value=3e+02 Score=21.27 Aligned_cols=40 Identities=10% Similarity=0.037 Sum_probs=27.3
Q ss_pred HhCC-CCchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhc
Q 019233 265 ESGK-AASLNCWAQAAGVSERVLKQHLAFGWYCREELIKST 304 (344)
Q Consensus 265 ~lGr-ePT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sN 304 (344)
+.|- ..|..++|+++|++...+-.....-...-..++...
T Consensus 25 ~~G~~~~ti~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~ 65 (196)
T 3col_A 25 AEGPAGVSTTKVAKRVGIAQSNVYLYFKNKQALIDSVYARE 65 (196)
T ss_dssp HHCGGGCCHHHHHHHHTSCHHHHHTTCSSHHHHHHHHHHHH
T ss_pred hcCcccCCHHHHHHHhCCcHHHHHHHhCCHHHHHHHHHHHH
Confidence 3475 689999999999988777666655444444444443
No 48
>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=20.39 E-value=2.3e+02 Score=19.88 Aligned_cols=48 Identities=13% Similarity=0.034 Sum_probs=33.1
Q ss_pred CchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHHH
Q 019233 270 ASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQ 327 (344)
Q Consensus 270 PT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLIQ 327 (344)
-|..+.|+.+|++...+.+...... ..++..+..||+-| |++.++|+.
T Consensus 28 ltq~elA~~~gis~~~is~~e~g~~-------~~~~~~l~~l~~~l---~~~~~~l~~ 75 (83)
T 3f6w_A 28 ITQKELAARLGRPQSFVSKTENAER-------RLDVIEFMDFCRGI---GTDPYALLS 75 (83)
T ss_dssp CCHHHHHHHHTSCHHHHHHHHTTSS-------CCCHHHHHHHHHHH---TCCHHHHHH
T ss_pred CCHHHHHHHHCcCHHHHHHHHCCCC-------CCCHHHHHHHHHHc---CCCHHHHHH
Confidence 5778889999998777655544321 23566777788766 678888764
No 49
>1y7y_A C.AHDI; helix-turn-helix, DNA-binding protein, transcriptional regulator, transcription regulator; 1.69A {Aeromonas hydrophila} SCOP: a.35.1.3
Probab=20.31 E-value=2.1e+02 Score=19.35 Aligned_cols=47 Identities=17% Similarity=0.042 Sum_probs=30.1
Q ss_pred CchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHHHHHHHhcCCCCCChhhHH
Q 019233 270 ASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLL 326 (344)
Q Consensus 270 PT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLVvsIAKrY~grGls~eDLI 326 (344)
-|..+.|..+|++...+.+...... ..+...+..||+-| |++.++|+
T Consensus 27 ~s~~~lA~~~gis~~~i~~~e~g~~-------~~~~~~l~~l~~~l---~~~~~~l~ 73 (74)
T 1y7y_A 27 LSQETLAFLSGLDRSYVGGVERGQR-------NVSLVNILKLATAL---DIEPRELF 73 (74)
T ss_dssp CCHHHHHHHHTCCHHHHHHHHTTCS-------CCBHHHHHHHHHHT---TSCGGGGC
T ss_pred CCHHHHHHHHCcCHHHHHHHHCCCC-------CCCHHHHHHHHHHh---CcCHHHHc
Confidence 5778899999998777765444321 13445566777765 55666653
No 50
>3rh2_A Hypothetical TETR-like transcriptional regulator; DNA/RNA-binding 3-helical bundle, structural genomics, joint for structural genomics; 2.42A {Shewanella amazonensis}
Probab=20.04 E-value=3.4e+02 Score=21.70 Aligned_cols=45 Identities=16% Similarity=0.049 Sum_probs=31.4
Q ss_pred HHhCCC-CchHHHHHHcCCCHHHHHHHhhhhHHHHHHHHHhchHHH
Q 019233 264 KESGKA-ASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLV 308 (344)
Q Consensus 264 e~lGre-PT~~eWA~aaGld~~eL~~~l~~g~~ARdrLI~sNLRLV 308 (344)
.+.|-. .|..++|+++|++...+-.....-...-..++.....-+
T Consensus 17 ~~~G~~~~s~~~IA~~Agvs~~t~Y~~F~sK~~L~~a~~~~~~~~~ 62 (212)
T 3rh2_A 17 NEHGERTITTNHIAAHLDISPGNLYYHFRNKEDIIRCIFDQYEQHL 62 (212)
T ss_dssp HHHCGGGCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHH
T ss_pred HHcCcccCCHHHHHHHhCCCHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 345754 899999999999988887777665555555555444333
Done!