Query 017616
Match_columns 368
No_of_seqs 242 out of 1490
Neff 4.4
Searched_HMMs 29240
Date Mon Mar 25 17:19:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017616.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/017616hhsearch_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 99.9 2.9E-26 9.9E-31 214.6 13.6 146 222-367 6-182 (245)
2 1l9z_H Sigma factor SIGA; heli 99.9 3.4E-26 1.2E-30 230.9 14.5 143 225-367 96-269 (438)
3 2a6h_F RNA polymerase sigma fa 99.9 5.6E-26 1.9E-30 227.3 11.8 145 223-367 79-254 (423)
4 1sig_A Sigma70, RNA polymerase 99.6 5.3E-16 1.8E-20 149.5 11.7 85 284-368 250-338 (339)
5 3iyd_F RNA polymerase sigma fa 99.6 1.6E-15 5.3E-20 157.8 5.8 85 283-367 358-446 (613)
6 1rp3_A RNA polymerase sigma fa 99.3 3.9E-12 1.3E-16 112.3 9.0 73 295-367 12-87 (239)
7 1l0o_C Sigma factor; bergerat 99.2 7.6E-13 2.6E-17 116.6 0.2 85 283-367 15-100 (243)
8 1or7_A Sigma-24, RNA polymeras 98.9 3.3E-09 1.1E-13 91.4 7.0 82 283-367 10-92 (194)
9 2q1z_A RPOE, ECF SIGE; ECF sig 98.8 1.9E-09 6.6E-14 92.3 2.9 86 281-367 11-98 (184)
10 2o7g_A Probable RNA polymerase 98.3 9.1E-07 3.1E-11 71.0 6.7 80 285-367 13-93 (112)
11 1h3l_A RNA polymerase sigma fa 98.2 1.3E-06 4.3E-11 67.2 4.4 71 295-367 12-82 (87)
12 2lfw_A PHYR sigma-like domain; 97.1 3.1E-05 1.1E-09 66.0 -2.8 68 298-367 4-71 (157)
13 3n0r_A Response regulator; sig 95.7 0.0017 5.7E-08 60.8 -0.2 69 296-366 22-90 (286)
14 3iyd_F RNA polymerase sigma fa 57.9 3.2 0.00011 43.1 1.4 35 217-254 94-128 (613)
15 2jt1_A PEFI protein; solution 48.7 25 0.00086 27.1 4.8 36 255-290 10-45 (77)
16 3mn2_A Probable ARAC family tr 43.4 40 0.0014 26.0 5.3 38 255-292 4-41 (108)
17 3lsg_A Two-component response 39.3 55 0.0019 24.9 5.5 37 256-292 5-42 (103)
18 3oou_A LIN2118 protein; protei 36.7 57 0.002 25.1 5.3 38 255-292 7-44 (108)
19 2k9s_A Arabinose operon regula 35.6 58 0.002 25.0 5.2 38 255-292 5-43 (107)
20 3oio_A Transcriptional regulat 34.3 44 0.0015 26.0 4.3 38 255-292 9-46 (113)
21 3mkl_A HTH-type transcriptiona 28.8 66 0.0023 25.3 4.5 38 255-292 9-46 (120)
22 1bl0_A Protein (multiple antib 28.2 65 0.0022 25.8 4.4 39 254-292 12-50 (129)
23 1vc3_B L-aspartate-alpha-decar 26.6 2.5 8.4E-05 34.8 -4.4 30 324-353 7-36 (96)
24 3plx_B Aspartate 1-decarboxyla 25.1 2.8 9.4E-05 34.9 -4.4 29 324-352 7-35 (102)
25 1uhe_A Aspartate 1-decarboxyla 24.1 2.4 8.2E-05 35.0 -5.0 30 324-353 6-35 (97)
26 3knw_A Putative transcriptiona 23.8 2.8E+02 0.0097 22.2 10.5 79 265-343 29-109 (212)
27 1sig_A Sigma70, RNA polymerase 22.7 25 0.00085 33.2 1.0 19 236-254 1-19 (339)
28 3k2z_A LEXA repressor; winged 22.3 1.5E+02 0.0052 25.4 5.9 33 257-290 13-45 (196)
29 3ugo_A RNA polymerase sigma fa 22.0 19 0.00065 33.0 0.0 40 254-293 198-239 (245)
30 2zc2_A DNAD-like replication p 21.1 1.4E+02 0.0047 22.1 4.7 60 261-324 9-75 (78)
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=99.93 E-value=2.9e-26 Score=214.55 Aligned_cols=146 Identities=25% Similarity=0.415 Sum_probs=122.8
Q ss_pred HHHHHHHhhccCC-CCCCcHHHHHHHhhchHHHHHH-HHHHHH--HHH-----------------------hCCCCchhH
Q 017616 222 IFSAERALNSRGR-RLTIARNEAEMSKGVQVVANLE-RIKTTL--EKE-----------------------SGKAASLNC 274 (368)
Q Consensus 222 ~~~v~~~~~~~~~-~LLtaeEE~eL~~~Iq~~~~Le-~ir~~L--~~~-----------------------~gr~pt~~e 274 (368)
.|.|+-|++..++ ||||++||++|+++|+.++.+. .+.... +.. .+.+|+..+
T Consensus 6 ~d~~~~yl~~i~~~~llt~~~e~~la~~i~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~g~~~~~~~~~~~ 85 (245)
T 3ugo_A 6 SDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKTVE 85 (245)
T ss_dssp CHHHHHHHHHHTTSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHTTGGGCSCCCCTTCCCCCCHHHHH
T ss_pred CCcHHHHHHHcccccCCCHHHHHHHHHHHHHHHHHHHHHHhccCCcHHHHHHhhhhhhhccchhcccccccccccchhHH
Confidence 3456777777775 9999999999999999987733 332210 000 146888999
Q ss_pred HHHHcCCC----HHHHHHHHHhcHHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCcccc
Q 017616 275 WAQAAGVS----ERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFST 350 (368)
Q Consensus 275 wA~a~g~~----~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFST 350 (368)
||.+.|++ ..+|.+.++.|+.|+++|+..|.|+|.++|++|.+.+.+.+||+|||++||++|+++|||++|++|+|
T Consensus 86 ~~~~~~~~~~~~~~~L~~~~~~d~~A~~~L~~~y~~lV~~ia~r~~~~~~~aeDLvQegfi~L~~a~~~fd~~~g~~F~t 165 (245)
T 3ugo_A 86 EVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFST 165 (245)
T ss_dssp HHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHGGGTTSSSCHHHHHHHHHHHHHHHHHHCCGGGCCCHHH
T ss_pred HHHHhhccchHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHcCcccCCcHHH
Confidence 99998875 34566677788889999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhc
Q 017616 351 YVQYWIRKSISKMVASA 367 (368)
Q Consensus 351 YA~~wIRqaI~r~Lrr~ 367 (368)
|++||||++|.++++++
T Consensus 166 ya~~~ir~~i~~~ir~~ 182 (245)
T 3ugo_A 166 YATWWIRQAINRAIADQ 182 (245)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 99999999999999864
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=99.93 E-value=3.4e-26 Score=230.94 Aligned_cols=143 Identities=26% Similarity=0.424 Sum_probs=120.7
Q ss_pred HHHHhhccCC-CCCCcHHHHHHHhhchHHHHHHHHHHH------------------HHHHhCCCCchhHHHH--------
Q 017616 225 AERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTT------------------LEKESGKAASLNCWAQ-------- 277 (368)
Q Consensus 225 v~~~~~~~~~-~LLtaeEE~eL~~~Iq~~~~Le~ir~~------------------L~~~~gr~pt~~ewA~-------- 277 (368)
++.|++..++ ||||++||++|+++|+.+..++..... ....+++.|+..+|+.
T Consensus 96 ~~~Yl~ei~~~pLLt~eEE~~La~~i~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 175 (438)
T 1l9z_H 96 VRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKTVEEVD 175 (438)
T ss_pred HHHHHHHhccCCCCCHHHHHHHHHHHHHhhhHHHHHHhhhccchhhhhhhhhhhhhhcccccccccccccccchhhhhhh
Confidence 4556666664 999999999999999998665443221 1223567888888743
Q ss_pred ----HcCCCHHHHHHHHHhcHHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHH
Q 017616 278 ----AAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQ 353 (368)
Q Consensus 278 ----a~g~~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~ 353 (368)
+.+++..+|...++.|..|+++||..|+++|+++|++|.+.|.+.+||||||+||||+|+++|||.+|++|+|||+
T Consensus 176 ~~~~~~~~~~~eLi~~~~~d~~A~~~Li~~nlrlVv~iA~ry~~~g~~aeDLIQEg~IgL~kAvekFDp~kG~rFsTYA~ 255 (438)
T 1l9z_H 176 GKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYAT 255 (438)
T ss_pred hhhhcccchHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCcccCCChHHHHH
Confidence 2355668888999888889999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhc
Q 017616 354 YWIRKSISKMVASA 367 (368)
Q Consensus 354 ~wIRqaI~r~Lrr~ 367 (368)
||||++|.++|+++
T Consensus 256 ~wIR~~I~~~i~~~ 269 (438)
T 1l9z_H 256 WWIRQAINRAIADQ 269 (438)
T ss_pred HHHHHHHHHHHHHh
Confidence 99999999999764
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=99.93 E-value=5.6e-26 Score=227.34 Aligned_cols=145 Identities=26% Similarity=0.424 Sum_probs=118.7
Q ss_pred HHHHHHhhccC-CCCCCcHHHHHHHhhchHHHHHHHHHHHH------------------HHHhCCCCchhHHH-------
Q 017616 223 FSAERALNSRG-RRLTIARNEAEMSKGVQVVANLERIKTTL------------------EKESGKAASLNCWA------- 276 (368)
Q Consensus 223 ~~v~~~~~~~~-~~LLtaeEE~eL~~~Iq~~~~Le~ir~~L------------------~~~~gr~pt~~ewA------- 276 (368)
+.++.|++..+ .||||++||++|+++|+.+..+....... ....++.|+..+|+
T Consensus 79 d~~~~Yl~ei~~~plLt~eEE~~La~ri~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 (423)
T 2a6h_F 79 DPVRQYLHEIGQVPLLTLEEEVELARKVEEGMEAIKKLSEITGLDPDLIREVVRAKILGSARVRHIPGLKETLDPKTVEE 158 (423)
T ss_dssp HHHHHHHHHHHHCCCCTTHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCHHHHHTTSCSSSCTTHHHHH
T ss_pred cHHHHHHHHhcccCCCCHHHHHHHHHHHHhchhHHHHHHHhhccchhhhhhhHhhhhhhhhhcccccchhhhhhhhhhhh
Confidence 44566666666 59999999999999999986544322111 11234566655432
Q ss_pred -----HHcCCCHHHHHHHHHhcHHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccH
Q 017616 277 -----QAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTY 351 (368)
Q Consensus 277 -----~a~g~~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTY 351 (368)
.+.+++..+|...++.|..|+++||..|+++|+++|++|.+.|.+++||+|||++|||+|+++|||.+|++|+||
T Consensus 159 ~~~~~~~~~~~~~~L~~~~~~d~~A~~~Li~~~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~kav~kFd~~~g~~FstY 238 (423)
T 2a6h_F 159 IDQKLKSLPKEHKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTY 238 (423)
T ss_dssp HHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTTCTTTSCHHHHHHHHHHHHHHHHHHCCTTSCCCHHHH
T ss_pred hhhhhhcccccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCcccCCCHHHH
Confidence 134567788999999888899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhc
Q 017616 352 VQYWIRKSISKMVASA 367 (368)
Q Consensus 352 A~~wIRqaI~r~Lrr~ 367 (368)
|+||||++|.++|+++
T Consensus 239 a~~wIr~~i~~~i~~~ 254 (423)
T 2a6h_F 239 ATWWIRQAINRAIADQ 254 (423)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHc
Confidence 9999999999999764
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=99.65 E-value=5.3e-16 Score=149.48 Aligned_cols=85 Identities=33% Similarity=0.776 Sum_probs=79.3
Q ss_pred HHHHHHHHhcH----HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHH
Q 017616 284 RVLKQHLAFGW----YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKS 359 (368)
Q Consensus 284 eeL~~~l~~G~----~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqa 359 (368)
..|..+++.|+ .|+++|+..|.|+|.++|++|.+.+.+.+||+|+|++|||+|+++|||.+|++|+||++|||+++
T Consensus 250 ~~l~~~~~~gd~~~~~A~~~L~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~f~~~~g~~f~twl~~iirn~ 329 (339)
T 1sig_A 250 KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 329 (339)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTSTTSSSCHHHHHHHHHHHHHHHHHHCCGGGCCCHHHHHHHHHHHH
T ss_pred HHHHHHHHhccccchhhhHHHHHHHHHHHHHHHHHHhcCCCCHhHHHHHHHHHHHHHHHHhCCccCCCHHHHHHHHHHHH
Confidence 45777888886 58999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcC
Q 017616 360 ISKMVASAN 368 (368)
Q Consensus 360 I~r~Lrr~n 368 (368)
|.+++|++.
T Consensus 330 ~~~~lr~~~ 338 (339)
T 1sig_A 330 ITRSIADQA 338 (339)
T ss_dssp HHHHHHHC-
T ss_pred HHHHHHHhc
Confidence 999999863
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=99.56 E-value=1.6e-15 Score=157.84 Aligned_cols=85 Identities=33% Similarity=0.769 Sum_probs=80.2
Q ss_pred HHHHHHHHHhcHH-H---HHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-C---REELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (368)
Q Consensus 283 ~eeL~~~l~~G~~-A---re~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRq 358 (368)
..+|..+++.|+. | +++|+..|.++|.++|++|.+.+.+.+||+|+|++|||+|+++||+.+|++|+||++||||+
T Consensus 358 ~~~Li~~~~~Gd~~A~~A~~~L~~~y~~~v~~ia~r~~~~~~~aeDlvQE~fi~l~~a~~~fd~~~g~~Fstyl~~~irn 437 (613)
T 3iyd_F 358 VKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 437 (613)
T ss_dssp HHHHHHTHHHHHHHHHHHHTTTTTTTTHHHHHGGGSSSTTSSCSTTTTHHHHHHHHHHTTSCCTTSSSCSTTTHHHHHHH
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCccccCcHHHHHHHHHHH
Confidence 5678888888875 5 99999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhc
Q 017616 359 SISKMVASA 367 (368)
Q Consensus 359 aI~r~Lrr~ 367 (368)
+|.++++++
T Consensus 438 ~i~~~lr~~ 446 (613)
T 3iyd_F 438 AITRSIADQ 446 (613)
T ss_dssp HHHHHTTTS
T ss_pred HHHHHHHhc
Confidence 999999875
No 6
>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=99.31 E-value=3.9e-12 Score=112.32 Aligned_cols=73 Identities=25% Similarity=0.392 Sum_probs=69.6
Q ss_pred HHHHHHHHHchHHHHHHHHHcc---CCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYR---GLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~---~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.++|+..|.|+|..+|.+|. +.+.+.+|++|+|+++|++++++|||.+|.+|.||+.+||++.+.+++|++
T Consensus 12 ~a~~~l~~~~~~~v~~~a~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~f~~~l~~~~~~~~~d~~r~~ 87 (239)
T 1rp3_A 12 IEREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAYIKLRIKGAIYDYLRSL 87 (239)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTSCTTSCHHHHHHHHHHHHHHHHHTCCCCCTHHHHHHHHHHHHHHHHHHHHTS
T ss_pred hHHHHHHHHhHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhc
Confidence 4899999999999999999998 568899999999999999999999999999999999999999999999975
No 7
>1l0o_C Sigma factor; bergerat fold, helix-turn-helix, protein binding; HET: ADP; 2.90A {Geobacillus stearothermophilus} SCOP: a.4.13.2
Probab=99.24 E-value=7.6e-13 Score=116.57 Aligned_cols=85 Identities=27% Similarity=0.404 Sum_probs=0.5
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
..+|...++.|+. +.+.|+..|.++|..+|.+|.+...+.+|++|+|+++|++++++|||.+|..|.||+..+|++.+.
T Consensus 15 ~~~l~~~~~~gd~~a~~~l~~~~~~~v~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~f~~~l~~i~~~~~~ 94 (243)
T 1l0o_C 15 MKELIRRSQEGDQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQ 94 (243)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHcCCHHHHHHHHHHhHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHH
Confidence 5667888888875 999999999999999999999888999999999999999999999999999999999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
+++|++
T Consensus 95 d~~r~~ 100 (243)
T 1l0o_C 95 RFLRDD 100 (243)
T ss_dssp -----C
T ss_pred HHHHhc
Confidence 999865
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=98.86 E-value=3.3e-09 Score=91.36 Aligned_cols=82 Identities=15% Similarity=0.163 Sum_probs=75.7
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHH
Q 017616 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (368)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~ 361 (368)
+.+|...++.|+. +.+.|+..|.+.|..++.+|.+ ..+.+|++|++.+.+++++.+|++.. .|.+|+...+++.+.
T Consensus 10 ~~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~-~~~aeDl~Qe~~l~~~~~~~~~~~~~--~~~~~l~~i~~n~~~ 86 (194)
T 1or7_A 10 DQVLVERVQKGDQKAFNLLVVRYQHKVASLVSRYVP-SGDVPDVVQEAFIKAYRALDSFRGDS--AFYTWLYRIAVNTAK 86 (194)
T ss_dssp HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTSC-GGGHHHHHHHHHHHHHHHGGGCCSSS--CHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHcC-HHhHHHHHHHHHHHHHHhHHhcCCcc--chHHHHHHHHHHHHH
Confidence 5678888888865 9999999999999999999999 89999999999999999999999974 599999999999999
Q ss_pred HHHHhc
Q 017616 362 KMVASA 367 (368)
Q Consensus 362 r~Lrr~ 367 (368)
+.+|++
T Consensus 87 d~~R~~ 92 (194)
T 1or7_A 87 NYLVAQ 92 (194)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 999875
No 9
>2q1z_A RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc bindin transcription factor; 2.40A {Rhodobacter sphaeroides} PDB: 2z2s_A
Probab=98.78 E-value=1.9e-09 Score=92.28 Aligned_cols=86 Identities=16% Similarity=0.037 Sum_probs=77.9
Q ss_pred CCHHHHHHH-HHhcHH-HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHH
Q 017616 281 VSERVLKQH-LAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (368)
Q Consensus 281 ~~~eeL~~~-l~~G~~-Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRq 358 (368)
++.++|... ++.|+. +.+.|+..|.+.|..++.+|.+...+.+|++|++.+.+++++.+|++..| .|.+|+...+++
T Consensus 11 ~~~~~li~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~l~~~~~~~~~~~~~~-~~~~wl~~i~~n 89 (184)
T 2q1z_A 11 TDWVALMRAIRDHRDEAAFAELFQHFAPKVKGFLMKSGSVASQAEECAQDVMATVWQKAHLFDPSRA-SVATWIFTIARN 89 (184)
T ss_dssp TCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHSGGGCCTTTC-CHHHHHHHHHHT
T ss_pred ccHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHhhhhcCcccC-cHHHHHHHHHHH
Confidence 567788888 888865 99999999999999999999887889999999999999999999999887 799999999999
Q ss_pred HHHHHHHhc
Q 017616 359 SISKMVASA 367 (368)
Q Consensus 359 aI~r~Lrr~ 367 (368)
.+.+.+|+.
T Consensus 90 ~~~d~~R~~ 98 (184)
T 2q1z_A 90 RRIDGLRKD 98 (184)
T ss_dssp SCCTTTCSS
T ss_pred HHHHHHHhh
Confidence 988887764
No 10
>2o7g_A Probable RNA polymerase sigma-C factor; sigma factor, transcription regulation, -10 element recognit domain, transcription; 2.70A {Mycobacterium tuberculosis}
Probab=98.32 E-value=9.1e-07 Score=71.03 Aligned_cols=80 Identities=19% Similarity=0.113 Sum_probs=70.3
Q ss_pred HHHHHHHhcH-HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHH
Q 017616 285 VLKQHLAFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKM 363 (368)
Q Consensus 285 eL~~~l~~G~-~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~ 363 (368)
+|...++.|+ .+.+.|+..|.+.|..+|.++ +...+-+|++|+..+.+++.+.+|++. ..|.+|....+++.+.+.
T Consensus 13 ~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~-~~~~~aeD~vQe~fl~~~~~~~~~~~~--~~~~~wl~~i~~n~~~d~ 89 (112)
T 2o7g_A 13 ALALSAAKGNGRALEAFIKATQQDVWRFVAYL-SDVGSADDLTQETFLRAIGAIPRFSAR--SSARTWLLAIARHVVADH 89 (112)
T ss_dssp HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHH-SCHHHHHHHHHHHHHHHHHHGGGCCCS--SCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHHHHHH
Confidence 5777777775 499999999999999999999 777889999999999999999999974 369999999999999999
Q ss_pred HHhc
Q 017616 364 VASA 367 (368)
Q Consensus 364 Lrr~ 367 (368)
+|+.
T Consensus 90 ~R~~ 93 (112)
T 2o7g_A 90 IRHV 93 (112)
T ss_dssp TC--
T ss_pred HHHh
Confidence 8864
No 11
>1h3l_A RNA polymerase sigma factor; transcription, DNA-binding, transcription regulation; 2.37A {Streptomyces coelicolor A3} SCOP: a.177.1.1
Probab=98.18 E-value=1.3e-06 Score=67.20 Aligned_cols=71 Identities=8% Similarity=-0.041 Sum_probs=64.3
Q ss_pred HHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 295 YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
.+.++|+..|.+.+..++.++.+...+-+|++||..+.+++.+..|++. ..|.+|+...+++.+.+.+|+.
T Consensus 12 ~af~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~fl~~~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~R~~ 82 (87)
T 1h3l_A 12 ARFERDALEFLDQMYSAALRMTRNPADAEDLVQETYAKAYASFHQFREG--TNLKAWLYRILTNTFINSYRKK 82 (87)
T ss_dssp HHHHHHHHHTHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHGGGCCSS--SCHHHHHHHHHHHHHHHTCC--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC--ccHHHHHHHHHHHHHHHHHHHh
Confidence 4899999999999999999998877899999999999999999999985 4799999999999999988764
No 12
>2lfw_A PHYR sigma-like domain; signal transduction, response regulator, sigma factor mimicr sigma factor, general stress response, signaling protein; NMR {Sphingomonas SP}
Probab=97.06 E-value=3.1e-05 Score=65.98 Aligned_cols=68 Identities=9% Similarity=0.053 Sum_probs=61.1
Q ss_pred HHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHhc
Q 017616 298 EELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVASA 367 (368)
Q Consensus 298 e~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr~ 367 (368)
+.|+..|.+.|..+|.++.+...+-+|++||+.+.+++++.+|++. ..|.+|+...+++.+.+.+|+.
T Consensus 4 ~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~--~~~~~wl~~ia~n~~~d~~R~~ 71 (157)
T 2lfw_A 4 GQQLAPHLPFLRRYGRALTGSQNQGDKYVRATLEAIVAAPDQFPRD--VDPRLGLYRMFQGIWASANADG 71 (157)
T ss_dssp GGGTGGGGGGGTTTGGGTTSCHHHHHHHHHHHHHTTTTCGGGCCCS--SCTTHHHHHHHHHHHHHHTTTT
T ss_pred HHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCC--CcHHHHHHHHHHHHHHHHhhcc
Confidence 4678889999999999998777889999999999999999999986 3699999999999999998864
No 13
>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A
Probab=95.70 E-value=0.0017 Score=60.81 Aligned_cols=69 Identities=10% Similarity=-0.038 Sum_probs=61.7
Q ss_pred HHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHhcCCCCCCccccHHHHHHHHHHHHHHHh
Q 017616 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVAS 366 (368)
Q Consensus 296 Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirAVekFDpskG~rFSTYA~~wIRqaI~r~Lrr 366 (368)
+.++|+..|.+.+..+|.+|.+...+-+|++||..+-+|+...+|++. ..|.+|.+.-.++...+.+|+
T Consensus 22 ~f~~l~~~~~~~l~~~a~~~~~~~~~AeD~vQe~fl~~~~~~~~~~~~--~~~~~wL~~ia~n~~~d~~r~ 90 (286)
T 3n0r_A 22 HLLARLAPHLPYIRRYARALTGDQATGDHYVRVALEALAAGELVLDAN--LSPRVALYRVFHAIWLSSGAQ 90 (286)
T ss_dssp CHHHHHGGGHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHTTSSCCCSS--SCHHHHHHHHHHHHHSCTTC-
T ss_pred CHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHhCchhcCCC--cChHHHHHHHHHHHHHhhccc
Confidence 789999999999999999998877889999999999999999999975 469999999999988776654
No 14
>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=57.92 E-value=3.2 Score=43.08 Aligned_cols=35 Identities=14% Similarity=0.143 Sum_probs=14.0
Q ss_pred CCCchHHHHHHHhhccCCCCCCcHHHHHHHhhchHHHH
Q 017616 217 LKQPTIFSAERALNSRGRRLTIARNEAEMSKGVQVVAN 254 (368)
Q Consensus 217 ~~~~~~~~v~~~~~~~~~~LLtaeEE~eL~~~Iq~~~~ 254 (368)
..||++-|+|+ ++..||||.++|++|+++|+.+..
T Consensus 94 ~~dpvrmyl~e---mg~~~ll~~~~e~~~ak~ie~g~~ 128 (613)
T 3iyd_F 94 TTDPVRMYMRE---MGTVELLTREGEIDIAKRIEDGIN 128 (613)
T ss_dssp --------------C--------CSSSTTTHHHHHHHH
T ss_pred CCCcHHHHHHH---hcccccCCchhHHHHHHHHHHhHH
Confidence 47887666653 555799999999999999998854
No 15
>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}
Probab=48.74 E-value=25 Score=27.08 Aligned_cols=36 Identities=19% Similarity=0.225 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHH
Q 017616 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (368)
Q Consensus 255 Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l 290 (368)
|+-++..+++..|.+||..+.|++.|++...+.+-+
T Consensus 10 L~~I~~~i~~~~g~~psv~EIa~~lgvS~~TVrr~L 45 (77)
T 2jt1_A 10 ISIVQERQNMDDGAPVKTRDIADAAGLSIYQVRLYL 45 (77)
T ss_dssp HHHHHHHHHHHTTSCEEHHHHHHHHTCCHHHHHHHH
T ss_pred HHHHHHHHhhccCCCcCHHHHHHHHCCCHHHHHHHH
Confidence 344555555555899999999999999876655433
No 16
>3mn2_A Probable ARAC family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.80A {Rhodopseudomonas palustris}
Probab=43.39 E-value=40 Score=25.98 Aligned_cols=38 Identities=11% Similarity=0.196 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHh
Q 017616 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (368)
Q Consensus 255 Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~ 292 (368)
++++...++..+...++.+++|+.+|++...|.+..+.
T Consensus 4 i~~~~~~i~~~~~~~~~~~~lA~~~~~s~~~l~r~fk~ 41 (108)
T 3mn2_A 4 VRQVEEYIEANWMRPITIEKLTALTGISSRGIFKAFQR 41 (108)
T ss_dssp HHHHHHHHHHHTTSCCCHHHHHHHHTCCHHHHHHHHHH
T ss_pred HHHHHHHHHHcccCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 44566667777888899999999999999999887775
No 17
>3lsg_A Two-component response regulator YESN; structural genomics, PSI-2, protein structure initiative, MCSG; 2.05A {Fusobacterium nucleatum}
Probab=39.34 E-value=55 Score=24.93 Aligned_cols=37 Identities=16% Similarity=0.163 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhCC-CCchhHHHHHcCCCHHHHHHHHHh
Q 017616 256 ERIKTTLEKESGK-AASLNCWAQAAGVSERVLKQHLAF 292 (368)
Q Consensus 256 e~ir~~L~~~~gr-~pt~~ewA~a~g~~~eeL~~~l~~ 292 (368)
+++..-+++.+.. .++..++|+.+|++...|.+..+.
T Consensus 5 ~~i~~~i~~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 42 (103)
T 3lsg_A 5 ELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSIMFKK 42 (103)
T ss_dssp HHHHHHHHHHTTCTTCCHHHHHHHTTCCHHHHHHHHHH
T ss_pred HHHHHHHHHHccCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 4555666677776 889999999999999999888765
No 18
>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=36.66 E-value=57 Score=25.12 Aligned_cols=38 Identities=11% Similarity=0.128 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHh
Q 017616 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (368)
Q Consensus 255 Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~ 292 (368)
+.++...+...+...++.+++|+.+|++...|.+..+.
T Consensus 7 i~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 44 (108)
T 3oou_A 7 IQNVLSYITEHFSEGMSLKTLGNDFHINAVYLGQLFQK 44 (108)
T ss_dssp HHHHHHHHHHHTTSCCCHHHHHHHHTSCHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 34556667777788899999999999999999887765
No 19
>2k9s_A Arabinose operon regulatory protein; activator, arabinose catabolism, carbohydrate metabolism, cytoplasm, DNA-binding, repressor, transcription; NMR {Escherichia coli}
Probab=35.60 E-value=58 Score=25.02 Aligned_cols=38 Identities=11% Similarity=0.031 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhC-CCCchhHHHHHcCCCHHHHHHHHHh
Q 017616 255 LERIKTTLEKESG-KAASLNCWAQAAGVSERVLKQHLAF 292 (368)
Q Consensus 255 Le~ir~~L~~~~g-r~pt~~ewA~a~g~~~eeL~~~l~~ 292 (368)
+.++...+.+.+. ..++.+++|+.+|++...|.+..+.
T Consensus 5 i~~~~~~i~~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 43 (107)
T 2k9s_A 5 VREACQYISDHLADSNFDIASVAQHVCLSPSRLSHLFRQ 43 (107)
T ss_dssp HHHHHHHHHHTSSCSSCCHHHHHHHTTSCHHHHHHHHHH
T ss_pred HHHHHHHHHHHhccCCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 4456666777777 7899999999999999999888775
No 20
>3oio_A Transcriptional regulator (ARAC-type DNA-binding containing proteins); PSI-2, midwest center for structural genomics; 1.65A {Chromobacterium violaceum}
Probab=34.25 E-value=44 Score=26.01 Aligned_cols=38 Identities=24% Similarity=0.203 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHh
Q 017616 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (368)
Q Consensus 255 Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~ 292 (368)
+.++...+++.+...++.+++|+.+|++...|.+..+.
T Consensus 9 i~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 46 (113)
T 3oio_A 9 LTEAVSLMEANIEEPLSTDDIAYYVGVSRRQLERLFKQ 46 (113)
T ss_dssp HHHHHHHHHTCSSSCCCHHHHHHHHTSCHHHHHHHHHH
T ss_pred HHHHHHHHHhhhcCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 44556667777788899999999999999999888766
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=28.80 E-value=66 Score=25.30 Aligned_cols=38 Identities=21% Similarity=0.162 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHh
Q 017616 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (368)
Q Consensus 255 Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~ 292 (368)
+.++...+.+.+...++.+++|+.+|++...|.+..+.
T Consensus 9 ~~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 46 (120)
T 3mkl_A 9 RTRVCTVINNNIAHEWTLARIASELLMSPSLLKKKLRE 46 (120)
T ss_dssp HHHHHHHHHTSTTSCCCHHHHHHHTTCCHHHHHHHHHH
T ss_pred HHHHHHHHHHhccCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 34455666667778899999999999999988887754
No 22
>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=28.16 E-value=65 Score=25.75 Aligned_cols=39 Identities=18% Similarity=0.176 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHHHh
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l~~ 292 (368)
.+.++...++..+...++.+++|+.+|++...|.+..+.
T Consensus 12 ~i~~~~~~i~~~~~~~~sl~~lA~~~~~S~~~l~r~fk~ 50 (129)
T 1bl0_A 12 TIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKK 50 (129)
T ss_dssp HHHHHHHHHHTTTTSCCCCHHHHHHSSSCHHHHHHHHHH
T ss_pred HHHHHHHHHHHccCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 345566667777788899999999999999999888775
No 23
>1vc3_B L-aspartate-alpha-decarboxylase heavy chain; tetramer, pyruvoyl group, riken structural genomics/proteomi initiative, RSGI; 1.50A {Thermus thermophilus} PDB: 2eeo_B
Probab=26.60 E-value=2.5 Score=34.85 Aligned_cols=30 Identities=30% Similarity=0.520 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCccccHHH
Q 017616 324 DLLQAGNVGVLQGAERFDHTRGYKFSTYVQ 353 (368)
Q Consensus 324 DLiQEG~iGLirAVekFDpskG~rFSTYA~ 353 (368)
||+-.+-|-=.+-|+-+|-+.|.||+||+.
T Consensus 7 dLl~aa~i~~~E~V~IvNvnNG~Rf~TYvI 36 (96)
T 1vc3_B 7 DLLDAAGILPFEQVDIYDITNGARLTTYAL 36 (96)
T ss_dssp HHHHHHTCCTTCEEEEEETTTCCEEEEECE
T ss_pred HHHHHcCCCCCCEEEEEECCCCceEEEEEE
Confidence 444444444445566788899999999973
No 24
>3plx_B Aspartate 1-decarboxylase; structural genomics, center for structural genomics of infec diseases, csgid, double-PSI beta-barrel; 1.75A {Campylobacter jejuni subsp}
Probab=25.10 E-value=2.8 Score=34.90 Aligned_cols=29 Identities=28% Similarity=0.430 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCccccHH
Q 017616 324 DLLQAGNVGVLQGAERFDHTRGYKFSTYV 352 (368)
Q Consensus 324 DLiQEG~iGLirAVekFDpskG~rFSTYA 352 (368)
||+..+-|-=.+-|+-+|-+.|.||+||+
T Consensus 7 dLl~aA~i~~~E~V~I~NvnNG~Rf~TYv 35 (102)
T 3plx_B 7 KLLQASGILEYEKVQVVNVNNGARFETYT 35 (102)
T ss_dssp HHHHHHTCCTTCEEEEEETTTCCEEEEEC
T ss_pred HHHHHcCCCCCCEEEEEECCCCcEEEEEE
Confidence 45554444445556678889999999997
No 25
>1uhe_A Aspartate 1-decarboxylase alpha chain; double-PSI beta barrel, lyase; HET: NSN; 1.55A {Helicobacter pylori} SCOP: b.52.2.1 PDB: 1uhd_A
Probab=24.13 E-value=2.4 Score=34.98 Aligned_cols=30 Identities=33% Similarity=0.379 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCccccHHH
Q 017616 324 DLLQAGNVGVLQGAERFDHTRGYKFSTYVQ 353 (368)
Q Consensus 324 DLiQEG~iGLirAVekFDpskG~rFSTYA~ 353 (368)
||+-.+-|-=.+-|+-+|-+.|.||+||+.
T Consensus 6 dLldaA~il~~E~V~IvNvnNG~RfeTYvI 35 (97)
T 1uhe_A 6 DLAKLAKLREGMKVEIVDVNNGERFSTYVI 35 (97)
T ss_dssp HHHHHTTCCTTCEEEEEETTTCCEEEEECE
T ss_pred HHHHhcCCCCCCEEEEEECCCCceEEEEEE
Confidence 444444333444466788899999999973
No 26
>3knw_A Putative transcriptional regulator (TETR/ACRR FAM; TETR-like protein, MCSG, PSI, structural genomics, protein S initiative; 2.45A {Acinetobacter SP}
Probab=23.84 E-value=2.8e+02 Score=22.23 Aligned_cols=79 Identities=13% Similarity=-0.025 Sum_probs=46.5
Q ss_pred HhC-CCCchhHHHHHcCCCHHHHHHHHHhcHHHHHHHHHHchHHHHHHHHHccCCCCChhHHHHHHHHHHHHH-HHhcCC
Q 017616 265 ESG-KAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQG-AERFDH 342 (368)
Q Consensus 265 ~~g-r~pt~~ewA~a~g~~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkrY~~rg~d~eDLiQEG~iGLirA-VekFDp 342 (368)
+.| ...|..+.|+++|++...+-.-...-+.....++.....-+..........+.+..+.+......++.. +...++
T Consensus 29 ~~G~~~~ti~~IA~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 108 (212)
T 3knw_A 29 RKGFVGVGLQEILKTSGVPKGSFYHYFESKEAFGCELLKHYISDYQIRLNQLWTTETSARDKLMNYLQCWVKDPATEQSW 108 (212)
T ss_dssp HHCSTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHC-------
T ss_pred HcCCccCCHHHHHHHhCCChHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHHhhccc
Confidence 346 578999999999999888876655444455555555554444444444334667777666665555555 443344
Q ss_pred C
Q 017616 343 T 343 (368)
Q Consensus 343 s 343 (368)
.
T Consensus 109 ~ 109 (212)
T 3knw_A 109 A 109 (212)
T ss_dssp -
T ss_pred c
Confidence 3
No 27
>1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma factor, transcription regulation; 2.60A {Escherichia coli} SCOP: a.177.1.1
Probab=22.67 E-value=25 Score=33.22 Aligned_cols=19 Identities=16% Similarity=0.141 Sum_probs=14.5
Q ss_pred CCCcHHHHHHHhhchHHHH
Q 017616 236 LTIARNEAEMSKGVQVVAN 254 (368)
Q Consensus 236 LLtaeEE~eL~~~Iq~~~~ 254 (368)
|||.|.|++++++|+.+..
T Consensus 1 LLTREgEI~IAKRIE~G~~ 19 (339)
T 1sig_A 1 GSHMEGEIDIAKRIEDGIN 19 (339)
T ss_dssp ---CCTHHHHHHHHHHHHH
T ss_pred CCChHHHHHHHHHHHHHHH
Confidence 7999999999999998755
No 28
>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=22.35 E-value=1.5e+02 Score=25.44 Aligned_cols=33 Identities=21% Similarity=0.214 Sum_probs=23.1
Q ss_pred HHHHHHHHHhCCCCchhHHHHHcCCCHHHHHHHH
Q 017616 257 RIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (368)
Q Consensus 257 ~ir~~L~~~~gr~pt~~ewA~a~g~~~eeL~~~l 290 (368)
-++..+ ++.|.+||..+.|++.|++...+.+.+
T Consensus 13 ~I~~~~-~~~g~~~s~~eia~~lgl~~~tv~~~l 45 (196)
T 3k2z_A 13 FIEEFI-EKNGYPPSVREIARRFRITPRGALLHL 45 (196)
T ss_dssp HHHHHH-HHHSSCCCHHHHHHHHTSCHHHHHHHH
T ss_pred HHHHHH-HHhCCCCCHHHHHHHcCCCcHHHHHHH
Confidence 344434 335899999999999999865554433
No 29
>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=22.00 E-value=19 Score=33.03 Aligned_cols=40 Identities=25% Similarity=0.381 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhCCCCchhHHHHHcC--CCHHHHHHHHHhc
Q 017616 254 NLERIKTTLEKESGKAASLNCWAQAAG--VSERVLKQHLAFG 293 (368)
Q Consensus 254 ~Le~ir~~L~~~~gr~pt~~ewA~a~g--~~~eeL~~~l~~G 293 (368)
.+.+....|...+|+.||.+|.|+..| ++...+...+..+
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 455566667788899999999999999 9988887776553
No 30
>2zc2_A DNAD-like replication protein; GI 24377835, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Streptococcus mutans UA159}
Probab=21.07 E-value=1.4e+02 Score=22.14 Aligned_cols=60 Identities=18% Similarity=0.177 Sum_probs=39.4
Q ss_pred HHHHHhCCCCch------hHHHHHcCCCHHHHHHHHHhcHHHHHHHHHHchHHHHHHHHHccCCCC-ChhH
Q 017616 261 TLEKESGKAASL------NCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGI-PFSD 324 (368)
Q Consensus 261 ~L~~~~gr~pt~------~ewA~a~g~~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkrY~~rg~-d~eD 324 (368)
..+..+|+.|+. ..|-...|++.+.+..+++..- . -=..+.+.|.+|++.+...|+ +.+|
T Consensus 9 ~~e~~~gr~ls~~e~~~i~~w~~~~~~~~elI~~A~~~a~---~-~~~~s~~Yi~~Il~~W~~~gi~T~e~ 75 (78)
T 2zc2_A 9 DFERELGRMLSPFELEDLQKTVSDDKTDPDLVRSALREAV---F-NGKTNWNYIQAILRNWRHEGISTLRQ 75 (78)
T ss_dssp HHHHHHTSCCCHHHHHHHHHHHTTTCCCHHHHHHHHHHHH---H-HTCCCHHHHHHHHHHHHHTTCCSHHH
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHH---H-cCCCCHHHHHHHHHHHHHcCCCCHHH
Confidence 345566887775 4566666788777776665432 1 113468899999999988776 4444
Done!