Query 016759
Match_columns 383
No_of_seqs 257 out of 1507
Neff 4.5
Searched_HMMs 29240
Date Mon Mar 25 03:19:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016759.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/016759hhsearch_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 100.0 7.1E-29 2.4E-33 252.2 15.7 159 223-381 94-283 (438)
2 3ugo_A RNA polymerase sigma fa 100.0 1.2E-28 4E-33 232.4 14.7 162 221-382 5-197 (245)
3 2a6h_F RNA polymerase sigma fa 100.0 9.5E-29 3.3E-33 249.2 14.0 160 222-381 78-268 (423)
4 3iyd_F RNA polymerase sigma fa 99.7 3.6E-18 1.2E-22 179.0 6.8 99 283-381 358-460 (613)
5 1sig_A Sigma70, RNA polymerase 99.7 1.9E-16 6.5E-21 153.8 12.1 87 283-369 249-339 (339)
6 1l0o_C Sigma factor; bergerat 99.4 1.9E-14 6.4E-19 128.2 1.2 97 282-379 14-111 (243)
7 1rp3_A RNA polymerase sigma fa 99.4 1.1E-12 3.9E-17 116.9 9.2 75 295-369 12-89 (239)
8 1or7_A Sigma-24, RNA polymeras 99.0 4.1E-10 1.4E-14 97.9 8.2 86 283-371 10-96 (194)
9 2q1z_A RPOE, ECF SIGE; ECF sig 99.0 1.5E-10 5.1E-15 100.1 4.1 92 281-373 11-104 (184)
10 2o7g_A Probable RNA polymerase 98.7 1.9E-08 6.4E-13 81.7 6.9 87 285-374 13-100 (112)
11 3mzy_A RNA polymerase sigma-H 98.7 1.1E-08 3.7E-13 85.8 3.8 55 319-374 1-55 (164)
12 1h3l_A RNA polymerase sigma fa 98.5 6.2E-08 2.1E-12 75.2 4.8 76 291-368 7-83 (87)
13 2lfw_A PHYR sigma-like domain; 97.7 1.9E-06 6.4E-11 74.2 -2.4 69 297-367 3-71 (157)
14 3n0r_A Response regulator; sig 97.2 5.5E-05 1.9E-09 71.5 0.2 70 296-367 22-91 (286)
15 3iyd_F RNA polymerase sigma fa 52.6 5.4 0.00018 41.7 2.0 32 223-254 96-128 (613)
16 2jt1_A PEFI protein; solution 49.7 24 0.00081 27.3 4.8 36 255-290 10-45 (77)
17 3mn2_A Probable ARAC family tr 36.8 58 0.002 25.2 5.4 38 255-292 4-41 (108)
18 3lsg_A Two-component response 31.5 87 0.003 23.9 5.6 37 256-292 5-42 (103)
19 2zc2_A DNAD-like replication p 31.3 97 0.0033 23.2 5.6 59 262-324 10-75 (78)
20 3knw_A Putative transcriptiona 31.2 2.1E+02 0.0073 23.2 11.0 79 264-342 28-108 (212)
21 3oou_A LIN2118 protein; protei 30.4 89 0.003 24.2 5.5 39 255-293 7-45 (108)
22 2k9s_A Arabinose operon regula 29.7 83 0.0029 24.3 5.2 38 255-292 5-43 (107)
23 3oio_A Transcriptional regulat 28.0 65 0.0022 25.2 4.3 38 255-292 9-46 (113)
24 1sig_A Sigma70, RNA polymerase 25.0 25 0.00086 33.4 1.5 19 236-254 1-19 (339)
25 3nxc_A HTH-type protein SLMA; 24.3 2.1E+02 0.0073 23.2 7.1 74 262-335 37-111 (212)
26 3mkl_A HTH-type transcriptiona 22.6 1E+02 0.0034 24.4 4.5 37 256-292 10-46 (120)
27 1bl0_A Protein (multiple antib 22.6 99 0.0034 24.8 4.5 38 255-292 13-50 (129)
28 3ppb_A Putative TETR family tr 21.0 3.1E+02 0.011 21.7 10.6 72 264-335 23-95 (195)
29 3eup_A Transcriptional regulat 20.7 2.1E+02 0.0073 22.9 6.3 73 268-340 30-102 (204)
30 3dcf_A Transcriptional regulat 20.6 3.4E+02 0.012 22.0 10.1 75 264-338 45-120 (218)
31 3k2z_A LEXA repressor; winged 20.4 1.8E+02 0.0063 25.1 6.1 26 265-290 20-45 (196)
32 1sgm_A Putative HTH-type trans 20.0 3.3E+02 0.011 21.5 7.8 77 264-340 20-98 (191)
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=99.96 E-value=7.1e-29 Score=252.20 Aligned_cols=159 Identities=27% Similarity=0.427 Sum_probs=136.3
Q ss_pred hHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHHHHHHHHH------------------HHHHhCCcCchHHHHH------
Q 016759 223 FSAERALNSRGR-RLTIARNEAEMSKGVQVVANLERIKTT------------------LEKESGKAASLNCWAQ------ 277 (383)
Q Consensus 223 ~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~Le~~r~~------------------L~~~~gr~pt~~ewA~------ 277 (383)
+.++.|++.+++ ||||++||++|+++|+.+..++..... .....++.|+..+|+.
T Consensus 94 d~~~~Yl~ei~~~pLLt~eEE~~La~~i~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (438)
T 1l9z_H 94 DPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKTVEE 173 (438)
T ss_pred ChHHHHHHHhccCCCCCHHHHHHHHHHHHHhhhHHHHHHhhhccchhhhhhhhhhhhhhcccccccccccccccchhhhh
Confidence 446678887775 999999999999999998665433211 1223567888887743
Q ss_pred ------HcCCCHHHHHHHHHhcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchH
Q 016759 278 ------AAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTY 351 (383)
Q Consensus 278 ------a~gl~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTY 351 (383)
+.+++..+|+..++.|..|+++||.+|+++|+++|++|.++|.+++||||||+||||+|+++|||++|++|+||
T Consensus 174 ~~~~~~~~~~~~~eLi~~~~~d~~A~~~Li~~nlrlVv~iA~ry~~~g~~aeDLIQEg~IgL~kAvekFDp~kG~rFsTY 253 (438)
T 1l9z_H 174 VDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTY 253 (438)
T ss_pred hhhhhhcccchHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCcccCCChHHH
Confidence 23556788999998888899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHcCCCccCchhhHHHh
Q 016759 352 VQYWIRKSISKMVARHARGIKIPVPLFLIC 381 (383)
Q Consensus 352 A~~wIr~aI~~~Ir~qsr~IRlP~~~~e~i 381 (383)
|+|||++.|.++|+++.+.+|+|.|+.+.+
T Consensus 254 A~~wIR~~I~~~i~~~~R~irlp~~~~~~l 283 (438)
T 1l9z_H 254 ATWWIRQAINRAIADQARTIRIPVHMVETI 283 (438)
T ss_pred HHHHHHHHHHHHHHHhcchhccchHHHHHH
Confidence 999999999999999999999999998755
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=99.96 E-value=1.2e-28 Score=232.43 Aligned_cols=162 Identities=27% Similarity=0.431 Sum_probs=128.0
Q ss_pred hhhHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHHHH-HHHHHH--HHH-----------------------hCCcCchH
Q 016759 221 TIFSAERALNSRGR-RLTIARNEAEMSKGVQVVANLE-RIKTTL--EKE-----------------------SGKAASLN 273 (383)
Q Consensus 221 ~~~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~Le-~~r~~L--~~~-----------------------~gr~pt~~ 273 (383)
+.++|+-|++..++ ||||++||++|+++|+.+..+. .+.... ... .+.+|+..
T Consensus 5 ~~d~~~~yl~~i~~~~llt~~~e~~la~~i~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~g~~~~~~~~~~ 84 (245)
T 3ugo_A 5 TSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKTV 84 (245)
T ss_dssp CCHHHHHHHHHHTTSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHTTGGGCSCCCCTTCCCCCCHHHH
T ss_pred CCCcHHHHHHHcccccCCCHHHHHHHHHHHHHHHHHHHHHHhccCCcHHHHHHhhhhhhhccchhcccccccccccchhH
Confidence 45678889988886 8999999999999999987633 332210 000 14678899
Q ss_pred HHHHHcCCC----HHHHHHHHHhcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccc
Q 016759 274 CWAQAAGVS----ERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFS 349 (383)
Q Consensus 274 ewA~a~gl~----~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFS 349 (383)
+||.+.+++ ...|.+.++.|+.|+++|++.|.|+|+++|++|.+.+.+.+||+|||++|||+|+++|||++|++|+
T Consensus 85 ~~~~~~~~~~~~~~~~L~~~~~~d~~A~~~L~~~y~~lV~~ia~r~~~~~~~aeDLvQegfi~L~~a~~~fd~~~g~~F~ 164 (245)
T 3ugo_A 85 EEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFS 164 (245)
T ss_dssp HHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHGGGTTSSSCHHHHHHHHHHHHHHHHHHCCGGGCCCHH
T ss_pred HHHHHhhccchHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHcCcccCCcHH
Confidence 999998875 3456667777888999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHcCCCccCchhhHHHhh
Q 016759 350 TYVQYWIRKSISKMVARHARGIKIPVPLFLICA 382 (383)
Q Consensus 350 TYA~~wIr~aI~~~Ir~qsr~IRlP~~~~e~i~ 382 (383)
||++||||++|.++++++.+.+++|.++.+.+.
T Consensus 165 tya~~~ir~~i~~~ir~~~r~~r~p~~l~e~i~ 197 (245)
T 3ugo_A 165 TYATWWIRQAINRAIADQARTIRIPVHMVETIN 197 (245)
T ss_dssp HHHHHHHHHHHHHHHHHHTC-------------
T ss_pred HHHHHHHHHHHHHHHHHhcccccccHHHHHHHH
Confidence 999999999999999999999999999887653
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=99.96 E-value=9.5e-29 Score=249.22 Aligned_cols=160 Identities=28% Similarity=0.436 Sum_probs=133.9
Q ss_pred hhHHHHHhhcCC-CCCCCcHHHHHHHHHhHHHHHHHHHHHHH------------------HHHhCCcCchHHHH------
Q 016759 222 IFSAERALNSRG-RRLTIARNEAEMSKGVQVVANLERIKTTL------------------EKESGKAASLNCWA------ 276 (383)
Q Consensus 222 ~~~v~~~~~~~~-~~LLtaeEE~eL~~~iq~~~~Le~~r~~L------------------~~~~gr~pt~~ewA------ 276 (383)
.+.++.|++..+ .|+||++||++|+++|+.+..+....... ....++.|+..+|+
T Consensus 78 ~d~~~~Yl~ei~~~plLt~eEE~~La~ri~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (423)
T 2a6h_F 78 SDPVRQYLHEIGQVPLLTLEEEVELARKVEEGMEAIKKLSEITGLDPDLIREVVRAKILGSARVRHIPGLKETLDPKTVE 157 (423)
T ss_dssp HHHHHHHHHHHHHCCCCTTHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCHHHHHTTSCSSSCTTHHHH
T ss_pred CcHHHHHHHHhcccCCCCHHHHHHHHHHHHhchhHHHHHHHhhccchhhhhhhHhhhhhhhhhcccccchhhhhhhhhhh
Confidence 456777887777 49999999999999999986544322111 11223556654432
Q ss_pred ---H---HcCCCHHHHHHHHHhcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccch
Q 016759 277 ---Q---AAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFST 350 (383)
Q Consensus 277 ---~---a~gl~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFST 350 (383)
. +.++++.+|+..++.|..|+++||.+|+++|+++|++|.++|.+++||||||+||||+|+++|||.+|++|+|
T Consensus 158 ~~~~~~~~~~~~~~~L~~~~~~d~~A~~~Li~~~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~kav~kFd~~~g~~Fst 237 (423)
T 2a6h_F 158 EIDQKLKSLPKEHKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFST 237 (423)
T ss_dssp HHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTTCTTTSCHHHHHHHHHHHHHHHHHHCCTTSCCCHHH
T ss_pred hhhhhhhcccccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCcccCCCHHH
Confidence 1 3466778899999988889999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHcCCCccCchhhHHHh
Q 016759 351 YVQYWIRKSISKMVARHARGIKIPVPLFLIC 381 (383)
Q Consensus 351 YA~~wIr~aI~~~Ir~qsr~IRlP~~~~e~i 381 (383)
||+|||+++|.++|+++.+.+|+|.|+++.+
T Consensus 238 Ya~~wIr~~i~~~i~~~~r~ir~p~~~~~~~ 268 (423)
T 2a6h_F 238 YATWWIRQAINRAIADQARTIRIPVHMVETI 268 (423)
T ss_dssp HHHHHHHHHHHHHHHHHSSSSCCCHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHccceeeccHHHHHHH
Confidence 9999999999999999999999999998665
No 4
>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=99.72 E-value=3.6e-18 Score=178.96 Aligned_cols=99 Identities=34% Similarity=0.749 Sum_probs=94.0
Q ss_pred HHHHHHHHHhcHH-H---HHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-C---REELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (383)
Q Consensus 283 ~eeL~~~l~~G~~-A---re~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~ 358 (383)
..+|+.+++.|+. | +++|+..|.++|+++|++|.+++.+++||+|||+||||+|+++||+.+|++|+||++|||++
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 5678888999975 5 99999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHcCCCccCchhhHHHh
Q 016759 359 SISKMVARHARGIKIPVPLFLIC 381 (383)
Q Consensus 359 aI~~~Ir~qsr~IRlP~~~~e~i 381 (383)
+|.++++++.+.+|+|.|+.+.+
T Consensus 438 ~i~~~lr~~~r~~rip~~~~~~~ 460 (613)
T 3iyd_F 438 AITRSIADQARTIRIPVHMIETI 460 (613)
T ss_dssp HHHHHTTTSCSSSCCCSHHHHTT
T ss_pred HHHHHHHhcCcceeCcHHHHHHH
Confidence 99999999999999999997765
No 5
>1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma factor, transcription regulation; 2.60A {Escherichia coli} SCOP: a.177.1.1
Probab=99.67 E-value=1.9e-16 Score=153.84 Aligned_cols=87 Identities=34% Similarity=0.782 Sum_probs=80.0
Q ss_pred HHHHHHHHHhcH----HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHH
Q 016759 283 ERVLKQHLAFGW----YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (383)
Q Consensus 283 ~eeL~~~l~~G~----~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~ 358 (383)
...|+.+++.|+ .|+++|+..|.|+|+++|++|.+.+.+++||+|||+||||+++++||+.+|++|+||++|||++
T Consensus 249 ~~~l~~~~~~gd~~~~~A~~~L~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~f~~~~g~~f~twl~~iirn 328 (339)
T 1sig_A 249 VKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 328 (339)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTSTTSSSCHHHHHHHHHHHHHHHHHHCCGGGCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHhccccchhhhHHHHHHHHHHHHHHHHHHhcCCCCHhHHHHHHHHHHHHHHHHhCCccCCCHHHHHHHHHHH
Confidence 356778888886 5899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHcCC
Q 016759 359 SISKMVARHAR 369 (383)
Q Consensus 359 aI~~~Ir~qsr 369 (383)
.|.++++++.+
T Consensus 329 ~~~~~lr~~~r 339 (339)
T 1sig_A 329 AITRSIADQAR 339 (339)
T ss_dssp HHHHHHHHC--
T ss_pred HHHHHHHHhcC
Confidence 99999998753
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=99.42 E-value=1.9e-14 Score=128.17 Aligned_cols=97 Identities=26% Similarity=0.373 Sum_probs=8.3
Q ss_pred CHHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHH
Q 016759 282 SERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSI 360 (383)
Q Consensus 282 ~~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI 360 (383)
+..+|+..++.|+. +++.|+..|.++|.++|.+|.+...+.+|++|||+++||+++++||+.+|.+|.||++++|++.+
T Consensus 14 ~~~~l~~~~~~gd~~a~~~l~~~~~~~v~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~f~~~l~~i~~~~~ 93 (243)
T 1l0o_C 14 EMKELIRRSQEGDQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSVDKFDLSYDVKFSTYAVPMIIGEI 93 (243)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHhHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHH
Confidence 35678888888875 99999999999999999999998899999999999999999999999998899999999999999
Q ss_pred HHHHHHcCCCccCchhhHH
Q 016759 361 SKMVARHARGIKIPVPLFL 379 (383)
Q Consensus 361 ~~~Ir~qsr~IRlP~~~~e 379 (383)
.++++++. .+++|.++..
T Consensus 94 ~d~~r~~~-~~~~~~~~~~ 111 (243)
T 1l0o_C 94 QRFLRDDG-TVKVSRSLKE 111 (243)
T ss_dssp ------CC-CCTTHHHHHH
T ss_pred HHHHHhcC-CccCcHHHHH
Confidence 99999976 7788876543
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=99.37 E-value=1.1e-12 Score=116.91 Aligned_cols=75 Identities=23% Similarity=0.353 Sum_probs=71.2
Q ss_pred HHHHHHHHHhhHHHHHHHHHcc---CCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCC
Q 016759 295 YCREELIKSTRPLVLFLARNYR---GLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369 (383)
Q Consensus 295 ~Are~LI~~nlrLV~~IAkry~---~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr 369 (383)
.++++|+..|.|+|..+|++|. +.+.+.+|++|+|+++||+++++||+.+|.+|.||+++||++.+.++++++.+
T Consensus 12 ~a~~~l~~~~~~~v~~~a~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~f~~~l~~~~~~~~~d~~r~~~~ 89 (239)
T 1rp3_A 12 IEREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAYIKLRIKGAIYDYLRSLDF 89 (239)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTSCTTSCHHHHHHHHHHHHHHHHHTCCCCCTHHHHHHHHHHHHHHHHHHHHTSST
T ss_pred hHHHHHHHHhHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcCc
Confidence 4899999999999999999998 66899999999999999999999999999999999999999999999998764
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=99.04 E-value=4.1e-10 Score=97.91 Aligned_cols=86 Identities=15% Similarity=0.161 Sum_probs=78.9
Q ss_pred HHHHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHH
Q 016759 283 ERVLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSIS 361 (383)
Q Consensus 283 ~eeL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~ 361 (383)
+.+|+..++.|+. |.+.|+..|.+.|..+|.+|.+ ..+.+|++|++++.+|+++++|++.. .|.+|++..+++.+.
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 5678888888875 9999999999999999999999 89999999999999999999999864 599999999999999
Q ss_pred HHHHHcCCCc
Q 016759 362 KMVARHARGI 371 (383)
Q Consensus 362 ~~Ir~qsr~I 371 (383)
+.++++.+..
T Consensus 87 d~~R~~~~~~ 96 (194)
T 1or7_A 87 NYLVAQGRRP 96 (194)
T ss_dssp HHHHHHTTCC
T ss_pred HHHHHHhccC
Confidence 9999876654
No 9
>2q1z_A RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc bindin transcription factor; 2.40A {Rhodobacter sphaeroides} PDB: 2z2s_A
Probab=99.01 E-value=1.5e-10 Score=100.12 Aligned_cols=92 Identities=15% Similarity=0.022 Sum_probs=83.2
Q ss_pred CCHHHHHHH-HHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHH
Q 016759 281 VSERVLKQH-LAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRK 358 (383)
Q Consensus 281 l~~eeL~~~-l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~ 358 (383)
+++++|+.. +..|+. |.+.|+..|.|.|..+|.++.+...+.+|++||+++.+|+++++|++..| .|.+|++..+++
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 567888888 888875 99999999999999999999988899999999999999999999999876 899999999999
Q ss_pred HHHHHHHHcCCCccC
Q 016759 359 SISKMVARHARGIKI 373 (383)
Q Consensus 359 aI~~~Ir~qsr~IRl 373 (383)
.+.+.++++.+...+
T Consensus 90 ~~~d~~R~~~~~~~~ 104 (184)
T 2q1z_A 90 RRIDGLRKDRQPEPE 104 (184)
T ss_dssp SCCTTTCSSSCCCCC
T ss_pred HHHHHHHhhcccccc
Confidence 999999987665443
No 10
>2o7g_A Probable RNA polymerase sigma-C factor; sigma factor, transcription regulation, -10 element recognit domain, transcription; 2.70A {Mycobacterium tuberculosis}
Probab=98.73 E-value=1.9e-08 Score=81.66 Aligned_cols=87 Identities=17% Similarity=0.082 Sum_probs=71.4
Q ss_pred HHHHHHHhcHH-HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHH
Q 016759 285 VLKQHLAFGWY-CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKM 363 (383)
Q Consensus 285 eL~~~l~~G~~-Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~ 363 (383)
+|+..+..|+. +.+.|+..|.+.|..+|.++ +...+.+|++||.++.+|+.+.+|++. ..|.+|++..+++.+.+.
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 67777888765 99999999999999999999 877899999999999999999999964 379999999999999999
Q ss_pred HHHcCCCccCc
Q 016759 364 VARHARGIKIP 374 (383)
Q Consensus 364 Ir~qsr~IRlP 374 (383)
+|++.+...+|
T Consensus 90 ~R~~~~~~~~~ 100 (112)
T 2o7g_A 90 IRHVRSRPRTT 100 (112)
T ss_dssp TC---------
T ss_pred HHHhhcccccc
Confidence 99876654443
No 11
>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=98.66 E-value=1.1e-08 Score=85.75 Aligned_cols=55 Identities=24% Similarity=0.439 Sum_probs=44.8
Q ss_pred CCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcCCCccCc
Q 016759 319 GIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIP 374 (383)
Q Consensus 319 gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qsr~IRlP 374 (383)
|++.+|++|+|+++||+++.+||+.+ .+|.||++.+|++.+.++++++.+..+.|
T Consensus 1 g~daeDl~Qe~~~~l~~~~~~~~~~~-~~f~~~l~~i~~n~~~d~~r~~~~~~~~~ 55 (164)
T 3mzy_A 1 GAEKEDLVQEGILGLLKAIKFYDETK-SSFSSFAFLCIRREMISAIRKANTQKHMV 55 (164)
T ss_dssp ----CTTHHHHHHHHHHHHHHCCTTT-SCHHHHHHHHHHHHHHHHHHHHHHCC---
T ss_pred CCcHHHHHHHHHHHHHHHHHHhCccC-CChHHHhHHHHHHHHHHHHHHhhcccchh
Confidence 67899999999999999999999988 69999999999999999999876544443
No 12
>1h3l_A RNA polymerase sigma factor; transcription, DNA-binding, transcription regulation; 2.37A {Streptomyces coelicolor A3} SCOP: a.177.1.1
Probab=98.54 E-value=6.2e-08 Score=75.18 Aligned_cols=76 Identities=8% Similarity=-0.041 Sum_probs=66.7
Q ss_pred HhcH-HHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHcC
Q 016759 291 AFGW-YCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHA 368 (383)
Q Consensus 291 ~~G~-~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~qs 368 (383)
..|+ .+.++|+..|.+.+..+|.++.+...+.||++||.++.+|+.+..|++. ..|.+|+...+++.+.+.++++.
T Consensus 7 ~~g~~~af~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~fl~~~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~R~~~ 83 (87)
T 1h3l_A 7 TAERSARFERDALEFLDQMYSAALRMTRNPADAEDLVQETYAKAYASFHQFREG--TNLKAWLYRILTNTFINSYRKKQ 83 (87)
T ss_dssp HHHHHHHHHHHHHHTHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHGGGCCSS--SCHHHHHHHHHHHHHHHTCC---
T ss_pred CcccHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC--ccHHHHHHHHHHHHHHHHHHHhc
Confidence 3454 4999999999999999999999888999999999999999999999975 37999999999999999988754
No 13
>2lfw_A PHYR sigma-like domain; signal transduction, response regulator, sigma factor mimicr sigma factor, general stress response, signaling protein; NMR {Sphingomonas SP}
Probab=97.72 E-value=1.9e-06 Score=74.18 Aligned_cols=69 Identities=9% Similarity=0.024 Sum_probs=62.8
Q ss_pred HHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHc
Q 016759 297 REELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARH 367 (383)
Q Consensus 297 re~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~q 367 (383)
.+.|+..|.+.|..+|.++.+...+.+|++||+++.+|+++++|++.. .|.+|++..+++.+.+.+++.
T Consensus 3 f~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~~--~~~~wl~~ia~n~~~d~~R~~ 71 (157)
T 2lfw_A 3 LGQQLAPHLPFLRRYGRALTGSQNQGDKYVRATLEAIVAAPDQFPRDV--DPRLGLYRMFQGIWASANADG 71 (157)
T ss_dssp GGGGTGGGGGGGTTTGGGTTSCHHHHHHHHHHHHHTTTTCGGGCCCSS--CTTHHHHHHHHHHHHHHTTTT
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCCC--cHHHHHHHHHHHHHHHHhhcc
Confidence 356888999999999999998888999999999999999999999753 699999999999999999864
No 14
>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A
Probab=97.20 E-value=5.5e-05 Score=71.47 Aligned_cols=70 Identities=10% Similarity=-0.041 Sum_probs=63.7
Q ss_pred HHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHccCCCCCCccchHHHHHHHHHHHHHHHHc
Q 016759 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARH 367 (383)
Q Consensus 296 Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekFDpsrG~rFSTYA~~wIr~aI~~~Ir~q 367 (383)
++++|+..|.+.++.+|.+|.+...+.+|++||.++-+|+...+|++. ..|.+|.+..+++.+.+.+|+.
T Consensus 22 ~f~~l~~~~~~~l~~~a~~~~~~~~~AeD~vQe~fl~~~~~~~~~~~~--~~~~~wL~~ia~n~~~d~~r~~ 91 (286)
T 3n0r_A 22 HLLARLAPHLPYIRRYARALTGDQATGDHYVRVALEALAAGELVLDAN--LSPRVALYRVFHAIWLSSGAQL 91 (286)
T ss_dssp CHHHHHGGGHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHTTSSCCCSS--SCHHHHHHHHHHHHHSCTTC--
T ss_pred CHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHhCchhcCCC--cChHHHHHHHHHHHHHhhcccc
Confidence 899999999999999999999888899999999999999999999974 3699999999999999888753
No 15
>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=52.60 E-value=5.4 Score=41.68 Aligned_cols=32 Identities=16% Similarity=0.170 Sum_probs=14.0
Q ss_pred hHHHHHhhcCCC-CCCCcHHHHHHHHHhHHHHH
Q 016759 223 FSAERALNSRGR-RLTIARNEAEMSKGVQVVAN 254 (383)
Q Consensus 223 ~~v~~~~~~~~~-~LLtaeEE~eL~~~iq~~~~ 254 (383)
++|+=|++..|+ ||||.++|++|+++|+.+..
T Consensus 96 dpvrmyl~emg~~~ll~~~~e~~~ak~ie~g~~ 128 (613)
T 3iyd_F 96 DPVRMYMREMGTVELLTREGEIDIAKRIEDGIN 128 (613)
T ss_dssp ---------C--------CSSSTTTHHHHHHHH
T ss_pred CcHHHHHHHhcccccCCchhHHHHHHHHHHhHH
Confidence 335666666664 89999999999999998753
No 16
>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}
Probab=49.73 E-value=24 Score=27.35 Aligned_cols=36 Identities=19% Similarity=0.225 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 255 Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
|+-++..+++..|.+||..+.|++.|++...+.+.+
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 444555665556899999999999999876655433
No 17
>3mn2_A Probable ARAC family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.80A {Rhodopseudomonas palustris}
Probab=36.81 E-value=58 Score=25.20 Aligned_cols=38 Identities=11% Similarity=0.196 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHh
Q 016759 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (383)
Q Consensus 255 Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~ 292 (383)
++++..-+.......++..++|+..|++...|.+.++.
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 34556667777788899999999999999999888775
No 18
>3lsg_A Two-component response regulator YESN; structural genomics, PSI-2, protein structure initiative, MCSG; 2.05A {Fusobacterium nucleatum}
Probab=31.53 E-value=87 Score=23.93 Aligned_cols=37 Identities=16% Similarity=0.163 Sum_probs=29.5
Q ss_pred HHHHHHHHHHhCC-cCchHHHHHHcCCCHHHHHHHHHh
Q 016759 256 ERIKTTLEKESGK-AASLNCWAQAAGVSERVLKQHLAF 292 (383)
Q Consensus 256 e~~r~~L~~~~gr-~pt~~ewA~a~gl~~eeL~~~l~~ 292 (383)
+++..-+++.... .++..++|+..|++...|.+.++.
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 4455556666666 889999999999999999888776
No 19
>2zc2_A DNAD-like replication protein; GI 24377835, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Streptococcus mutans UA159}
Probab=31.30 E-value=97 Score=23.16 Aligned_cols=59 Identities=19% Similarity=0.183 Sum_probs=40.0
Q ss_pred HHHHhCCcCch------HHHHHHcCCCHHHHHHHHHhcHHHHHHHHHHhhHHHHHHHHHccCCCC-ChHH
Q 016759 262 LEKESGKAASL------NCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGI-PFSD 324 (383)
Q Consensus 262 L~~~~gr~pt~------~ewA~a~gl~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkry~~~gl-d~ED 324 (383)
.+...|+.||. ..|....|++.+.+..+++.. .. -=..+.+.|.+|++.+...|+ +.+|
T Consensus 10 ~e~~~gr~ls~~e~~~i~~w~~~~~~~~elI~~A~~~a---~~-~~~~s~~Yi~~Il~~W~~~gi~T~e~ 75 (78)
T 2zc2_A 10 FERELGRMLSPFELEDLQKTVSDDKTDPDLVRSALREA---VF-NGKTNWNYIQAILRNWRHEGISTLRQ 75 (78)
T ss_dssp HHHHHTSCCCHHHHHHHHHHHTTTCCCHHHHHHHHHHH---HH-HTCCCHHHHHHHHHHHHHTTCCSHHH
T ss_pred HHHHhCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHH---HH-cCCCCHHHHHHHHHHHHHcCCCCHHH
Confidence 44556887775 457777788888777766543 11 113468899999999988886 4444
No 20
>3knw_A Putative transcriptional regulator (TETR/ACRR FAM; TETR-like protein, MCSG, PSI, structural genomics, protein S initiative; 2.45A {Acinetobacter SP}
Probab=31.21 E-value=2.1e+02 Score=23.21 Aligned_cols=79 Identities=13% Similarity=-0.036 Sum_probs=49.5
Q ss_pred HHhC-CcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHH-HHccC
Q 016759 264 KESG-KAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQG-AERFD 341 (383)
Q Consensus 264 ~~~g-r~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirA-iekFD 341 (383)
.+.| ...|..+.|+++|++...+-.-...-+.....++..+..-+..........+.+..+.+......++.. +...+
T Consensus 28 ~~~G~~~~ti~~IA~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 107 (212)
T 3knw_A 28 LRKGFVGVGLQEILKTSGVPKGSFYHYFESKEAFGCELLKHYISDYQIRLNQLWTTETSARDKLMNYLQCWVKDPATEQS 107 (212)
T ss_dssp HHHCSTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHC------
T ss_pred HHcCCccCCHHHHHHHhCCChHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHHhhcc
Confidence 3346 578999999999999998887777555555666666555555544444344667777766666666555 44334
Q ss_pred C
Q 016759 342 H 342 (383)
Q Consensus 342 p 342 (383)
+
T Consensus 108 ~ 108 (212)
T 3knw_A 108 W 108 (212)
T ss_dssp -
T ss_pred c
Confidence 3
No 21
>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=30.44 E-value=89 Score=24.16 Aligned_cols=39 Identities=10% Similarity=0.118 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHhc
Q 016759 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAFG 293 (383)
Q Consensus 255 Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~G 293 (383)
+.++..-+.......++..++|+..|++...|.+.++.-
T Consensus 7 i~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~~ 45 (108)
T 3oou_A 7 IQNVLSYITEHFSEGMSLKTLGNDFHINAVYLGQLFQKE 45 (108)
T ss_dssp HHHHHHHHHHHTTSCCCHHHHHHHHTSCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 344555666677888999999999999999998887653
No 22
>2k9s_A Arabinose operon regulatory protein; activator, arabinose catabolism, carbohydrate metabolism, cytoplasm, DNA-binding, repressor, transcription; NMR {Escherichia coli}
Probab=29.66 E-value=83 Score=24.27 Aligned_cols=38 Identities=11% Similarity=0.031 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhC-CcCchHHHHHHcCCCHHHHHHHHHh
Q 016759 255 LERIKTTLEKESG-KAASLNCWAQAAGVSERVLKQHLAF 292 (383)
Q Consensus 255 Le~~r~~L~~~~g-r~pt~~ewA~a~gl~~eeL~~~l~~ 292 (383)
+.++..-+..... ..++..++|+..|++...|.+..+.
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 4455566667777 7899999999999999999888876
No 23
>3oio_A Transcriptional regulator (ARAC-type DNA-binding containing proteins); PSI-2, midwest center for structural genomics; 1.65A {Chromobacterium violaceum}
Probab=28.00 E-value=65 Score=25.17 Aligned_cols=38 Identities=24% Similarity=0.203 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHh
Q 016759 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (383)
Q Consensus 255 Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~ 292 (383)
+.++..-+...+...++..++|+..|++...|.+.++.
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 34455566666778899999999999999999888776
No 24
>1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma factor, transcription regulation; 2.60A {Escherichia coli} SCOP: a.177.1.1
Probab=24.97 E-value=25 Score=33.45 Aligned_cols=19 Identities=16% Similarity=0.141 Sum_probs=14.5
Q ss_pred CCCcHHHHHHHHHhHHHHH
Q 016759 236 LTIARNEAEMSKGVQVVAN 254 (383)
Q Consensus 236 LLtaeEE~eL~~~iq~~~~ 254 (383)
|||.|.|++++++|+.+..
T Consensus 1 LLTREgEI~IAKRIE~G~~ 19 (339)
T 1sig_A 1 GSHMEGEIDIAKRIEDGIN 19 (339)
T ss_dssp ---CCTHHHHHHHHHHHHH
T ss_pred CCChHHHHHHHHHHHHHHH
Confidence 7999999999999998754
No 25
>3nxc_A HTH-type protein SLMA; nucleoid occlusion, cell division, TETR family member, DNA B protein; 2.50A {Escherichia coli}
Probab=24.32 E-value=2.1e+02 Score=23.18 Aligned_cols=74 Identities=19% Similarity=0.077 Sum_probs=34.5
Q ss_pred HHHHhC-CcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHH
Q 016759 262 LEKESG-KAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQ 335 (383)
Q Consensus 262 L~~~~g-r~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLir 335 (383)
|..+.| ...|..+.|+++|++...+-.-...-++-...++.....-+..........+.+..+.+..-...++.
T Consensus 37 lf~~~G~~~~t~~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 111 (212)
T 3nxc_A 37 LESSDGSQRITTAKLAASVGVSEAALYRHFPSKTRMFDSLIEFIEDSLITRINLILKDEKDTTARLRLIVLLLLG 111 (212)
T ss_dssp HHC------CCHHHHHHHTTSCHHHHHTTCSSHHHHHHHHHHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHH
T ss_pred HHhcCChhhcCHHHHHHHhCCChhHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHH
Confidence 433346 67889999999999876665544433333333333333333322222222223444444444444433
No 26
>3mkl_A HTH-type transcriptional regulator GADX; PSI2, MCSG, structural genomics, protein structure initiativ midwest center for structural genomics; 2.15A {Escherichia coli}
Probab=22.62 E-value=1e+02 Score=24.37 Aligned_cols=37 Identities=22% Similarity=0.186 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHh
Q 016759 256 ERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (383)
Q Consensus 256 e~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~ 292 (383)
.++..-+...+...++..++|+..|++...|.+.++.
T Consensus 10 ~~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 46 (120)
T 3mkl_A 10 TRVCTVINNNIAHEWTLARIASELLMSPSLLKKKLRE 46 (120)
T ss_dssp HHHHHHHHTSTTSCCCHHHHHHHTTCCHHHHHHHHHH
T ss_pred HHHHHHHHHhccCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 4455556666677899999999999999988887765
No 27
>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=22.62 E-value=99 Score=24.80 Aligned_cols=38 Identities=18% Similarity=0.176 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhCCcCchHHHHHHcCCCHHHHHHHHHh
Q 016759 255 LERIKTTLEKESGKAASLNCWAQAAGVSERVLKQHLAF 292 (383)
Q Consensus 255 Le~~r~~L~~~~gr~pt~~ewA~a~gl~~eeL~~~l~~ 292 (383)
+.++..-+.......++..++|+..|++...|.+.++.
T Consensus 13 i~~~~~~i~~~~~~~~sl~~lA~~~~~S~~~l~r~fk~ 50 (129)
T 1bl0_A 13 IHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKK 50 (129)
T ss_dssp HHHHHHHHHTTTTSCCCCHHHHHHSSSCHHHHHHHHHH
T ss_pred HHHHHHHHHHccCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 44555666667778899999999999999999888876
No 28
>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=21.05 E-value=3.1e+02 Score=21.67 Aligned_cols=72 Identities=15% Similarity=0.022 Sum_probs=48.2
Q ss_pred HHhC-CcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHH
Q 016759 264 KESG-KAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQ 335 (383)
Q Consensus 264 ~~~g-r~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLir 335 (383)
.+.| ...|..+.|+.+|++...+-.-...-+.....++.....-+..........+.+..+.+......++.
T Consensus 23 ~~~G~~~~tv~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 95 (195)
T 3ppb_A 23 VSQGFHGTSTATIAREAGVATGTLFHHFPSKEQLLEQLFLGVKQEFADAIQASVSSRGDLKQDAEQLWFAALT 95 (195)
T ss_dssp HHTCSTTSCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHTCCCCSCHHHHHHHHHHHHHH
T ss_pred HhcCcccCCHHHHHHHhCCChhHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHHHHHHHHHHH
Confidence 3446 67889999999999998887776655556666666666555555555445556666666655555444
No 29
>3eup_A Transcriptional regulator, TETR family; structural genomics, MCSG, protein structure initiative, midwest center for STRU genomics; 1.99A {Cytophaga hutchinsonii}
Probab=20.68 E-value=2.1e+02 Score=22.94 Aligned_cols=73 Identities=7% Similarity=-0.063 Sum_probs=43.0
Q ss_pred CcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHcc
Q 016759 268 KAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERF 340 (383)
Q Consensus 268 r~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekF 340 (383)
...|..+.|+.+|++...+-.-...-+.....++.....-+..........+.+..+.+..-...++..+...
T Consensus 30 ~~~ti~~IA~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 102 (204)
T 3eup_A 30 AGTSLTDLTEATNLTKGSIYGNFENKEAVAIAAFDYNWGHVKSVLTAKVQACNTYKEMLLVYSSMYNDADGSL 102 (204)
T ss_dssp HHCCHHHHHHHHTCCHHHHTTTSSSHHHHHHHHHHHHHHHHHHHHHHHHTTCSSHHHHHTCHHHHHHGGGGTT
T ss_pred ccCCHHHHHHHhCCCcHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhcc
Confidence 3568899999999998777665554444555555555444444444433344566666555555555544433
No 30
>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=20.64 E-value=3.4e+02 Score=21.96 Aligned_cols=75 Identities=15% Similarity=-0.045 Sum_probs=46.3
Q ss_pred HHhC-CcCchHHHHHHcCCCHHHHHHHHHhcHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHH
Q 016759 264 KESG-KAASLNCWAQAAGVSERVLKQHLAFGWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAE 338 (383)
Q Consensus 264 ~~~g-r~pt~~ewA~a~gl~~eeL~~~l~~G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAie 338 (383)
.+.| ...|..+.|+.+|++...+-.-...-++....++.....-+..........+.+..+-+...+..++..+.
T Consensus 45 ~~~G~~~~tv~~Ia~~agvs~~t~Y~~F~sK~~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 120 (218)
T 3dcf_A 45 REKGYYATSLDDIADRIGFTKPAIYYYFKSKEDVLFAIVNSIVDEALERFHAIAAGPGSPGERIHALLVEHTRTIL 120 (218)
T ss_dssp HHTCTTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHHHTSSSCHHHHHHHHHHHHHHHHH
T ss_pred HHcCcccCcHHHHHHHhCCCHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHH
Confidence 3457 56899999999999998887766654445555555554444444444334445555555555555555443
No 31
>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=20.39 E-value=1.8e+02 Score=25.07 Aligned_cols=26 Identities=23% Similarity=0.224 Sum_probs=20.4
Q ss_pred HhCCcCchHHHHHHcCCCHHHHHHHH
Q 016759 265 ESGKAASLNCWAQAAGVSERVLKQHL 290 (383)
Q Consensus 265 ~~gr~pt~~ewA~a~gl~~eeL~~~l 290 (383)
+.|.+||..+.|++.|++...+.+.+
T Consensus 20 ~~g~~~s~~eia~~lgl~~~tv~~~l 45 (196)
T 3k2z_A 20 KNGYPPSVREIARRFRITPRGALLHL 45 (196)
T ss_dssp HHSSCCCHHHHHHHHTSCHHHHHHHH
T ss_pred HhCCCCCHHHHHHHcCCCcHHHHHHH
Confidence 45999999999999999866554433
No 32
>1sgm_A Putative HTH-type transcriptional regulator YXAF; structural genomics, PSI, protein structure initiative; 2.00A {Bacillus subtilis} SCOP: a.4.1.9 a.121.1.1
Probab=20.05 E-value=3.3e+02 Score=21.52 Aligned_cols=77 Identities=14% Similarity=0.016 Sum_probs=45.2
Q ss_pred HHhC-CcCchHHHHHHcCCCHHHHHHHHHh-cHHHHHHHHHHhhHHHHHHHHHccCCCCChHHHHHHHHHHHHHHHHcc
Q 016759 264 KESG-KAASLNCWAQAAGVSERVLKQHLAF-GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERF 340 (383)
Q Consensus 264 ~~~g-r~pt~~ewA~a~gl~~eeL~~~l~~-G~~Are~LI~~nlrLV~~IAkry~~~gld~EDLiQEG~IGLirAiekF 340 (383)
.+.| ...|..+.|+++|++...+-.-... -+.-...++.....-+............+..+-+....-.++..+...
T Consensus 20 ~~~G~~~~t~~~Ia~~agvs~~t~Y~~F~~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 98 (191)
T 1sgm_A 20 QLQGYHATGLNQIVKESGAPKGSLYHFFPNGKEELAIEAVTYTGKIVEHLIQQSMDESSDPVEAIQLFIKKTASQFDNT 98 (191)
T ss_dssp HHHCTTTCCHHHHHHHHCCCSCHHHHSTTTCHHHHHHHHHHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHTTSSG
T ss_pred HHcCccccCHHHHHHHHCCCchhHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHhcccc
Confidence 3346 4689999999999998888777764 444445555544444333333322233456666665555555544433
Done!