Query 012691
Match_columns 458
No_of_seqs 286 out of 2018
Neff 4.3
Searched_HMMs 29240
Date Mon Mar 25 14:22:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012691.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/012691hhsearch_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 3.4E-30 1.2E-34 267.3 17.2 164 290-454 92-286 (438)
2 3ugo_A RNA polymerase sigma fa 100.0 1.1E-29 3.9E-34 244.3 15.8 166 290-456 5-201 (245)
3 2a6h_F RNA polymerase sigma fa 100.0 2.9E-30 9.9E-35 265.6 12.1 164 290-454 77-271 (423)
4 3iyd_F RNA polymerase sigma fa 99.7 7E-18 2.4E-22 180.5 6.2 104 353-456 358-465 (613)
5 1sig_A Sigma70, RNA polymerase 99.6 1.2E-15 4.2E-20 151.2 11.1 86 354-439 250-339 (339)
6 1l0o_C Sigma factor; bergerat 99.3 1.7E-13 5.9E-18 124.4 -0.2 87 363-450 26-112 (243)
7 1rp3_A RNA polymerase sigma fa 99.3 5.3E-12 1.8E-16 114.8 9.2 77 364-440 11-90 (239)
8 1or7_A Sigma-24, RNA polymeras 98.7 2.8E-08 9.5E-13 88.1 8.8 85 354-441 11-96 (194)
9 2q1z_A RPOE, ECF SIGE; ECF sig 98.7 1.2E-08 3.9E-13 90.1 4.5 92 351-443 11-104 (184)
10 3mzy_A RNA polymerase sigma-H 98.5 8.1E-08 2.8E-12 82.1 3.8 55 389-444 1-55 (164)
11 2o7g_A Probable RNA polymerase 98.3 2E-06 6.8E-11 71.1 8.1 86 356-444 14-100 (112)
12 1h3l_A RNA polymerase sigma fa 98.1 4.2E-06 1.4E-10 66.1 5.6 76 362-439 9-84 (87)
13 2lfw_A PHYR sigma-like domain; 96.8 6.9E-05 2.4E-09 65.7 -2.7 70 367-438 3-72 (157)
14 3n0r_A Response regulator; sig 95.2 0.003 1E-07 60.9 -0.4 72 364-437 20-91 (286)
15 3iyd_F RNA polymerase sigma fa 93.1 0.025 8.5E-07 60.7 1.3 33 290-323 94-127 (613)
16 2jt1_A PEFI protein; solution 41.3 32 0.0011 27.3 4.5 32 328-359 13-44 (77)
17 2zc2_A DNAD-like replication p 39.6 34 0.0012 26.5 4.3 56 335-394 13-75 (78)
18 3mn2_A Probable ARAC family tr 32.5 63 0.0021 25.7 5.0 37 326-362 5-41 (108)
19 3nxc_A HTH-type protein SLMA; 30.0 2.2E+02 0.0077 23.7 8.4 72 335-406 40-112 (212)
20 3oio_A Transcriptional regulat 29.0 72 0.0025 25.6 4.8 37 326-362 10-46 (113)
21 3lsg_A Two-component response 28.8 82 0.0028 24.7 5.1 36 327-362 6-42 (103)
22 2k9s_A Arabinose operon regula 27.5 88 0.003 24.8 5.1 37 326-362 6-43 (107)
23 3oou_A LIN2118 protein; protei 27.4 87 0.003 24.9 5.0 36 327-362 9-44 (108)
24 3knw_A Putative transcriptiona 26.8 2.8E+02 0.0094 23.1 11.5 71 336-406 30-101 (212)
25 3pas_A TETR family transcripti 25.2 2.8E+02 0.0095 22.6 8.7 66 339-404 28-93 (195)
26 3mnl_A KSTR, transcriptional r 23.3 2.6E+02 0.0088 23.1 7.5 68 340-407 41-108 (203)
27 3eup_A Transcriptional regulat 23.0 1.6E+02 0.0056 24.3 6.2 70 340-409 32-101 (204)
28 3mkl_A HTH-type transcriptiona 22.7 1E+02 0.0036 24.9 4.7 36 327-362 11-46 (120)
29 1bl0_A Protein (multiple antib 21.9 99 0.0034 25.5 4.5 36 327-362 15-50 (129)
30 3qbm_A TETR transcriptional re 21.8 3.3E+02 0.011 22.3 9.0 72 335-406 22-94 (199)
31 3dcf_A Transcriptional regulat 20.3 3.7E+02 0.013 22.3 11.1 75 335-409 46-121 (218)
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=99.97 E-value=3.4e-30 Score=267.27 Aligned_cols=164 Identities=36% Similarity=0.596 Sum_probs=142.7
Q ss_pred CCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHH------------------HHHhhcCCCCchHHHHHH--
Q 012691 290 YSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLRE------------------VLSERCGGSPTFAQWAAA-- 348 (458)
Q Consensus 290 ~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~------------------~L~~~~Gr~pt~~ewA~a-- 348 (458)
..|+++ ||++| ++.|+||++||++|+++|+.++.++.... ......++.|+..+|+..
T Consensus 92 ~~d~~~~Yl~ei-~~~pLLt~eEE~~La~~i~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 170 (438)
T 1l9z_H 92 TSDPVRQYLHEI-GQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKT 170 (438)
T ss_pred CCChHHHHHHHh-ccCCCCCHHHHHHHHHHHHHhhhHHHHHHhhhccchhhhhhhhhhhhhhcccccccccccccccchh
Confidence 467898 99999 99999999999999999998754332211 122345678888877432
Q ss_pred ----------hcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCch
Q 012691 349 ----------AGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKF 418 (458)
Q Consensus 349 ----------ag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rF 418 (458)
.+++..+|...+++|..|+++||..|+++|++||++|.++|++++||||||+||||+|+++|||++|++|
T Consensus 171 ~~~~~~~~~~~~~~~~eLi~~~~~d~~A~~~Li~~nlrlVv~iA~ry~~~g~~aeDLIQEg~IgL~kAvekFDp~kG~rF 250 (438)
T 1l9z_H 171 VEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKF 250 (438)
T ss_pred hhhhhhhhhcccchHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCcccCCCh
Confidence 2556688888898899999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHhcCCccccCchhhhhhccc
Q 012691 419 STYAHWWIKQAVRKSLSDQSRTIRLPVISHGRGNLQ 454 (458)
Q Consensus 419 STYA~~wIR~aI~~aIr~qsr~IRlP~~~~e~inkL 454 (458)
+|||+||||+.|.++|+++.+.+|+|.|+.+.++++
T Consensus 251 sTYA~~wIR~~I~~~i~~~~R~irlp~~~~~~l~~l 286 (438)
T 1l9z_H 251 STYATWWIRQAINRAIADQARTIRIPVHMVETINKL 286 (438)
T ss_pred HHHHHHHHHHHHHHHHHHhcchhccchHHHHHHHHH
Confidence 999999999999999999999999999998887765
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=1.1e-29 Score=244.33 Aligned_cols=166 Identities=37% Similarity=0.618 Sum_probs=131.3
Q ss_pred CCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHH-HHHHHHHHH--h-----------------------hcCCCCch
Q 012691 290 YSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLK-LEGLREVLS--E-----------------------RCGGSPTF 342 (458)
Q Consensus 290 ~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~-lE~lr~~L~--~-----------------------~~Gr~pt~ 342 (458)
..|+++ ||++| |+.||||++||++|+++|+.++. .+++..... . ..+.+|+.
T Consensus 5 ~~d~~~~yl~~i-~~~~llt~~~e~~la~~i~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~g~~~~~~~~~ 83 (245)
T 3ugo_A 5 TSDPVRQYLHEI-GQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKT 83 (245)
T ss_dssp CCHHHHHHHHHH-TTSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHTTGGGCSCCCCTTCCCCCCHHH
T ss_pred CCCcHHHHHHHc-ccccCCCHHHHHHHHHHHHHHHHHHHHHHhccCCcHHHHHHhhhhhhhccchhcccccccccccchh
Confidence 478999 99999 99999999999999999998765 334422110 0 02468899
Q ss_pred HHHHHHhcCC----HHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCch
Q 012691 343 AQWAAAAGVD----QRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKF 418 (458)
Q Consensus 343 ~ewA~aag~d----~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rF 418 (458)
.+||.+.|++ .+.|.+.+++|..|+++|+..|+++|..+|++|.+.+.+.+||+|||++||++|+++|||++|++|
T Consensus 84 ~~~~~~~~~~~~~~~~~L~~~~~~d~~A~~~L~~~y~~lV~~ia~r~~~~~~~aeDLvQegfi~L~~a~~~fd~~~g~~F 163 (245)
T 3ugo_A 84 VEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKF 163 (245)
T ss_dssp HHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHGGGTTSSSCHHHHHHHHHHHHHHHHHHCCGGGCCCH
T ss_pred HHHHHHhhccchHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHcCcccCCcH
Confidence 9999999885 345677788889999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHhcCCccccCchhhhhhccccc
Q 012691 419 STYAHWWIKQAVRKSLSDQSRTIRLPVISHGRGNLQSE 456 (458)
Q Consensus 419 STYA~~wIR~aI~~aIr~qsr~IRlP~~~~e~inkL~E 456 (458)
+||++||||++|.++++++.+.+++|.++.+.++++.+
T Consensus 164 ~tya~~~ir~~i~~~ir~~~r~~r~p~~l~e~i~~l~~ 201 (245)
T 3ugo_A 164 STYATWWIRQAINRAIADQARTIRIPVHMVETINKLSR 201 (245)
T ss_dssp HHHHHHHHHHHHHHHHHHHTC-----------------
T ss_pred HHHHHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHH
Confidence 99999999999999999999999999999999888764
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=2.9e-30 Score=265.62 Aligned_cols=164 Identities=37% Similarity=0.596 Sum_probs=138.9
Q ss_pred CCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHH------------------HHhhcCCCCchHHHH----
Q 012691 290 YSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREV------------------LSERCGGSPTFAQWA---- 346 (458)
Q Consensus 290 ~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~~lE~lr~~------------------L~~~~Gr~pt~~ewA---- 346 (458)
..|+++ ||++| ++.|+||++||++|+++|+.+..+...... .....++.|+..+|+
T Consensus 77 ~~d~~~~Yl~ei-~~~plLt~eEE~~La~ri~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 (423)
T 2a6h_F 77 TSDPVRQYLHEI-GQVPLLTLEEEVELARKVEEGMEAIKKLSEITGLDPDLIREVVRAKILGSARVRHIPGLKETLDPKT 155 (423)
T ss_dssp THHHHHHHHHHH-HHCCCCTTHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCHHHHHTTSCSSSCTTHH
T ss_pred CCcHHHHHHHHh-cccCCCCHHHHHHHHHHHHhchhHHHHHHHhhccchhhhhhhHhhhhhhhhhcccccchhhhhhhhh
Confidence 357898 99999 999999999999999999986433221111 111234566655433
Q ss_pred -----H---HhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCch
Q 012691 347 -----A---AAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKF 418 (458)
Q Consensus 347 -----~---aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rF 418 (458)
. +.+++...|...+..|..|+++||..|+++|++||++|.++|++++||||||++|||+|+++|||.+|++|
T Consensus 156 ~~~~~~~~~~~~~~~~~L~~~~~~d~~A~~~Li~~~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~kav~kFd~~~g~~F 235 (423)
T 2a6h_F 156 VEEIDQKLKSLPKEHKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKF 235 (423)
T ss_dssp HHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTTCTTTSCHHHHHHHHHHHHHHHHHHCCTTSCCCH
T ss_pred hhhhhhhhhcccccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCcccCCCH
Confidence 2 23566778888888899999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHhcCCccccCchhhhhhccc
Q 012691 419 STYAHWWIKQAVRKSLSDQSRTIRLPVISHGRGNLQ 454 (458)
Q Consensus 419 STYA~~wIR~aI~~aIr~qsr~IRlP~~~~e~inkL 454 (458)
+|||+||||+.|.++|+++.++||+|.|+.+.++++
T Consensus 236 stYa~~wIr~~i~~~i~~~~r~ir~p~~~~~~~~~l 271 (423)
T 2a6h_F 236 STYATWWIRQAINRAIADQARTIRIPVHMVETINKL 271 (423)
T ss_dssp HHHHHHHHHHHHHHHHHHHSSSSCCCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHccceeeccHHHHHHHHHH
Confidence 999999999999999999999999999999887765
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=99.70 E-value=7e-18 Score=180.48 Aligned_cols=104 Identities=45% Similarity=0.830 Sum_probs=95.8
Q ss_pred HHHHHHHHhcc-HHH---HHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHH
Q 012691 353 QRELRRRLNYG-ILC---KDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQ 428 (458)
Q Consensus 353 ~eeL~r~l~~G-~~A---rekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~ 428 (458)
...|..+++.| ..| ++.|+..|+++|.++|++|.+++.+.+||+|||++|||+++++||+.+|++|+||++||||+
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 45566666666 555 99999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCccccCchhhhhhccccc
Q 012691 429 AVRKSLSDQSRTIRLPVISHGRGNLQSE 456 (458)
Q Consensus 429 aI~~aIr~qsr~IRlP~~~~e~inkL~E 456 (458)
+|.++++++.+.+|+|.|+.+.+|++..
T Consensus 438 ~i~~~lr~~~r~~rip~~~~~~~~k~~r 465 (613)
T 3iyd_F 438 AITRSIADQARTIRIPVHMIETINKLNR 465 (613)
T ss_dssp HHHHHTTTSCSSSCCCSHHHHTTTTTTT
T ss_pred HHHHHHHhcCcceeCcHHHHHHHHHHHH
Confidence 9999999999999999999999988754
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=99.62 E-value=1.2e-15 Score=151.23 Aligned_cols=86 Identities=48% Similarity=0.950 Sum_probs=78.0
Q ss_pred HHHHHHHhcc-H---HHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHH
Q 012691 354 RELRRRLNYG-I---LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQA 429 (458)
Q Consensus 354 eeL~r~l~~G-~---~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~a 429 (458)
..|...+..| . .|++.|+..|+++|.++|++|.+.+.+.+||+|||++||++++++||+.+|++|+||++|||++.
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 3455666655 5 79999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCC
Q 012691 430 VRKSLSDQSR 439 (458)
Q Consensus 430 I~~aIr~qsr 439 (458)
|.++++++.+
T Consensus 330 ~~~~lr~~~r 339 (339)
T 1sig_A 330 ITRSIADQAR 339 (339)
T ss_dssp HHHHHHHC--
T ss_pred HHHHHHHhcC
Confidence 9999998763
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=99.31 E-value=1.7e-13 Score=124.35 Aligned_cols=87 Identities=33% Similarity=0.525 Sum_probs=8.9
Q ss_pred cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccc
Q 012691 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIR 442 (458)
Q Consensus 363 G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IR 442 (458)
+..+++.|+..|.++|..++.+|.+...+.+||+|||+++|++++++||+.+|..|.||+.++|++.+.++++++. .++
T Consensus 26 d~~a~~~l~~~~~~~v~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~f~~~l~~i~~~~~~d~~r~~~-~~~ 104 (243)
T 1l0o_C 26 DQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVK 104 (243)
T ss_dssp --------------------------------------------------------------------------CC-CCT
T ss_pred CHHHHHHHHHHhHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcC-Ccc
Confidence 3778999999999999999999999889999999999999999999999999999999999999999999999987 678
Q ss_pred cCchhhhh
Q 012691 443 LPVISHGR 450 (458)
Q Consensus 443 lP~~~~e~ 450 (458)
+|.++.+.
T Consensus 105 ~~~~~~~~ 112 (243)
T 1l0o_C 105 VSRSLKEM 112 (243)
T ss_dssp THHHHHHH
T ss_pred CcHHHHHH
Confidence 88765443
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=99.30 E-value=5.3e-12 Score=114.84 Aligned_cols=77 Identities=21% Similarity=0.355 Sum_probs=72.2
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhc---CCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCc
Q 012691 364 ILCKDKMITSNIRLVISIAKNYQ---GAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~---~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~ 440 (458)
..++++|+..|.++|..+|.+|. +.+.+.+||+|||+++|++++++||+.+|.+|.||+.+||++.|.++++++.+.
T Consensus 11 ~~a~~~l~~~~~~~v~~~a~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~f~~~l~~~~~~~~~d~~r~~~~~ 90 (239)
T 1rp3_A 11 QIEREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAYIKLRIKGAIYDYLRSLDFG 90 (239)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTSCTTSCHHHHHHHHHHHHHHHHHTCCCCCTHHHHHHHHHHHHHHHHHHHHTSSTT
T ss_pred chHHHHHHHHhHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcCcc
Confidence 45899999999999999999998 567899999999999999999999999999999999999999999999998653
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=98.73 E-value=2.8e-08 Score=88.11 Aligned_cols=85 Identities=19% Similarity=0.207 Sum_probs=75.1
Q ss_pred HHHHHHHhc-cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHH
Q 012691 354 RELRRRLNY-GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRK 432 (458)
Q Consensus 354 eeL~r~l~~-G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~ 432 (458)
.+|...+.. +..+.+.|+..|.+.|..++.+|.+ ..+.+|++||+.+.|++++++|++.. .|.+|+...+++.+.+
T Consensus 11 ~~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~-~~~aeDl~Qe~~l~~~~~~~~~~~~~--~~~~~l~~i~~n~~~d 87 (194)
T 1or7_A 11 QVLVERVQKGDQKAFNLLVVRYQHKVASLVSRYVP-SGDVPDVVQEAFIKAYRALDSFRGDS--AFYTWLYRIAVNTAKN 87 (194)
T ss_dssp HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTSC-GGGHHHHHHHHHHHHHHHGGGCCSSS--CHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHcC-HHhHHHHHHHHHHHHHHhHHhcCCcc--chHHHHHHHHHHHHHH
Confidence 445555554 4899999999999999999999999 88999999999999999999999864 5999999999999999
Q ss_pred HHHhcCCcc
Q 012691 433 SLSDQSRTI 441 (458)
Q Consensus 433 aIr~qsr~I 441 (458)
.++++.+..
T Consensus 88 ~~R~~~~~~ 96 (194)
T 1or7_A 88 YLVAQGRRP 96 (194)
T ss_dssp HHHHHTTCC
T ss_pred HHHHHhccC
Confidence 999877543
No 9
>2q1z_A RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc bindin transcription factor; 2.40A {Rhodobacter sphaeroides} PDB: 2z2s_A
Probab=98.67 E-value=1.2e-08 Score=90.07 Aligned_cols=92 Identities=12% Similarity=0.049 Sum_probs=79.8
Q ss_pred CCHHHHHHH-Hhc-cHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHH
Q 012691 351 VDQRELRRR-LNY-GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQ 428 (458)
Q Consensus 351 ~d~eeL~r~-l~~-G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~ 428 (458)
++.+.|... +.. +..+.+.|+..|.+.|..++.+|.+...+.+|++||+.+.|++++++|++..| .|.+|+...+++
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 345556665 554 48999999999999999999999888789999999999999999999999876 799999999999
Q ss_pred HHHHHHHhcCCcccc
Q 012691 429 AVRKSLSDQSRTIRL 443 (458)
Q Consensus 429 aI~~aIr~qsr~IRl 443 (458)
.+.+.++++.+...+
T Consensus 90 ~~~d~~R~~~~~~~~ 104 (184)
T 2q1z_A 90 RRIDGLRKDRQPEPE 104 (184)
T ss_dssp SCCTTTCSSSCCCCC
T ss_pred HHHHHHHhhcccccc
Confidence 999999987765444
No 10
>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=98.46 E-value=8.1e-08 Score=82.06 Aligned_cols=55 Identities=27% Similarity=0.490 Sum_probs=44.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCCccccC
Q 012691 389 GMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLP 444 (458)
Q Consensus 389 Gle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr~IRlP 444 (458)
|.+.+|++||++++|++++++||+.+ .+|.||+..+|++.+.++++++.+..+.|
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 78999999999999999999876544443
No 11
>2o7g_A Probable RNA polymerase sigma-C factor; sigma factor, transcription regulation, -10 element recognit domain, transcription; 2.70A {Mycobacterium tuberculosis}
Probab=98.28 E-value=2e-06 Score=71.11 Aligned_cols=86 Identities=14% Similarity=0.044 Sum_probs=68.0
Q ss_pred HHHHHh-ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHH
Q 012691 356 LRRRLN-YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSL 434 (458)
Q Consensus 356 L~r~l~-~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aI 434 (458)
|...+. ++..+.+.|+..|.+.+..++.++ +...+-+|++||..+.+++.+.+|++. ..|.+|...-+++.+.+.+
T Consensus 14 l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~-~~~~~aeD~vQe~fl~~~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~ 90 (112)
T 2o7g_A 14 LALSAAKGNGRALEAFIKATQQDVWRFVAYL-SDVGSADDLTQETFLRAIGAIPRFSAR--SSARTWLLAIARHVVADHI 90 (112)
T ss_dssp HHHHHHTTCHHHHHHHHHHHHHHHHHHHHHH-SCHHHHHHHHHHHHHHHHHHGGGCCCS--SCHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHHHHHHH
Confidence 444444 448899999999999999999999 777789999999999999999999963 4799999999999999999
Q ss_pred HhcCCccccC
Q 012691 435 SDQSRTIRLP 444 (458)
Q Consensus 435 r~qsr~IRlP 444 (458)
|++.+..+++
T Consensus 91 R~~~~~~~~~ 100 (112)
T 2o7g_A 91 RHVRSRPRTT 100 (112)
T ss_dssp C---------
T ss_pred HHhhcccccc
Confidence 9877654443
No 12
>1h3l_A RNA polymerase sigma factor; transcription, DNA-binding, transcription regulation; 2.37A {Streptomyces coelicolor A3} SCOP: a.177.1.1
Probab=98.08 E-value=4.2e-06 Score=66.14 Aligned_cols=76 Identities=13% Similarity=0.079 Sum_probs=66.1
Q ss_pred ccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcCC
Q 012691 362 YGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439 (458)
Q Consensus 362 ~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qsr 439 (458)
++..+.+.|+..|.+.+..++.++.+...+-+|++||..+.|++.+++|++. ..|.+|+...+++.+.+.++++.+
T Consensus 9 g~~~af~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~fl~~~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~R~~~~ 84 (87)
T 1h3l_A 9 ERSARFERDALEFLDQMYSAALRMTRNPADAEDLVQETYAKAYASFHQFREG--TNLKAWLYRILTNTFINSYRKKQR 84 (87)
T ss_dssp HHHHHHHHHHHHTHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHGGGCCSS--SCHHHHHHHHHHHHHHHTCC----
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC--ccHHHHHHHHHHHHHHHHHHHhcc
Confidence 3478999999999999999999999887899999999999999999999874 579999999999999998887653
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=96.83 E-value=6.9e-05 Score=65.73 Aligned_cols=70 Identities=7% Similarity=0.083 Sum_probs=62.4
Q ss_pred HHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhcC
Q 012691 367 KDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQS 438 (458)
Q Consensus 367 rekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~qs 438 (458)
.+.|+..|.+.|..++.++.+...+-+|++||+.+.+++.+++|++. ..|.+|+..-+++.+.+.+++..
T Consensus 3 f~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~--~~~~~wl~~ia~n~~~d~~R~~~ 72 (157)
T 2lfw_A 3 LGQQLAPHLPFLRRYGRALTGSQNQGDKYVRATLEAIVAAPDQFPRD--VDPRLGLYRMFQGIWASANADGE 72 (157)
T ss_dssp GGGGTGGGGGGGTTTGGGTTSCHHHHHHHHHHHHHTTTTCGGGCCCS--SCTTHHHHHHHHHHHHHHTTTTS
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCC--CcHHHHHHHHHHHHHHHHhhccC
Confidence 35678899999999999998877889999999999999999999975 46999999999999999998753
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=95.17 E-value=0.003 Score=60.86 Aligned_cols=72 Identities=11% Similarity=0.026 Sum_probs=63.0
Q ss_pred HHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHhc
Q 012691 364 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQ 437 (458)
Q Consensus 364 ~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeKFDpskG~rFSTYA~~wIR~aI~~aIr~q 437 (458)
..+.++|+..|.+.+..+|.+|.+..-+-+|++||-.+-+++...+|++. ..|.+|.+.-.++...+.+++.
T Consensus 20 ~~~f~~l~~~~~~~l~~~a~~~~~~~~~AeD~vQe~fl~~~~~~~~~~~~--~~~~~wL~~ia~n~~~d~~r~~ 91 (286)
T 3n0r_A 20 EMHLLARLAPHLPYIRRYARALTGDQATGDHYVRVALEALAAGELVLDAN--LSPRVALYRVFHAIWLSSGAQL 91 (286)
T ss_dssp CCCHHHHHGGGHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHTTSSCCCSS--SCHHHHHHHHHHHHHSCTTC--
T ss_pred cCCHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHhCchhcCCC--cChHHHHHHHHHHHHHhhcccc
Confidence 55789999999999999999999887789999999999999999999864 4699999999999888877753
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=93.08 E-value=0.025 Score=60.67 Aligned_cols=33 Identities=33% Similarity=0.634 Sum_probs=13.5
Q ss_pred CCCHHH-HHHHhhcCCCCCCHHHHHHHHHHHHHHH
Q 012691 290 YSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLL 323 (458)
Q Consensus 290 ~~d~lr-YL~ei~~~~~lLT~EEE~eL~~~Iq~l~ 323 (458)
..||+| ||++| |+.||||+++|++|+++|..+.
T Consensus 94 ~~dpvrmyl~em-g~~~ll~~~~e~~~ak~ie~g~ 127 (613)
T 3iyd_F 94 TTDPVRMYMREM-GTVELLTREGEIDIAKRIEDGI 127 (613)
T ss_dssp -----------C---------CSSSTTTHHHHHHH
T ss_pred CCCcHHHHHHHh-cccccCCchhHHHHHHHHHHhH
Confidence 589999 99999 9999999999999999999753
No 16
>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}
Probab=41.32 E-value=32 Score=27.31 Aligned_cols=32 Identities=22% Similarity=0.180 Sum_probs=23.5
Q ss_pred HHHHHHhhcCCCCchHHHHHHhcCCHHHHHHH
Q 012691 328 LREVLSERCGGSPTFAQWAAAAGVDQRELRRR 359 (458)
Q Consensus 328 lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~ 359 (458)
++..+.+..|.+||..|.|++.|++...+++-
T Consensus 13 I~~~i~~~~g~~psv~EIa~~lgvS~~TVrr~ 44 (77)
T 2jt1_A 13 VQERQNMDDGAPVKTRDIADAAGLSIYQVRLY 44 (77)
T ss_dssp HHHHHHHHTTSCEEHHHHHHHHTCCHHHHHHH
T ss_pred HHHHHhhccCCCcCHHHHHHHHCCCHHHHHHH
Confidence 44444444589999999999999987655443
No 17
>2zc2_A DNAD-like replication protein; GI 24377835, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Streptococcus mutans UA159}
Probab=39.60 E-value=34 Score=26.49 Aligned_cols=56 Identities=16% Similarity=0.168 Sum_probs=35.9
Q ss_pred hcCCCCch------HHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCC-CHHH
Q 012691 335 RCGGSPTF------AQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGM-NLQD 394 (458)
Q Consensus 335 ~~Gr~pt~------~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGl-e~eD 394 (458)
.+||.||. ..|....|++.+.+..+++.. .. -=..+.++|.+|++.+...|+ +.+|
T Consensus 13 ~~gr~ls~~e~~~i~~w~~~~~~~~elI~~A~~~a---~~-~~~~s~~Yi~~Il~~W~~~gi~T~e~ 75 (78)
T 2zc2_A 13 ELGRMLSPFELEDLQKTVSDDKTDPDLVRSALREA---VF-NGKTNWNYIQAILRNWRHEGISTLRQ 75 (78)
T ss_dssp HHTSCCCHHHHHHHHHHHTTTCCCHHHHHHHHHHH---HH-HTCCCHHHHHHHHHHHHHTTCCSHHH
T ss_pred HhCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHH---HH-cCCCCHHHHHHHHHHHHHcCCCCHHH
Confidence 44655543 246666677777666665533 11 113578999999999998887 4555
No 18
>3mn2_A Probable ARAC family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.80A {Rhodopseudomonas palustris}
Probab=32.52 E-value=63 Score=25.66 Aligned_cols=37 Identities=14% Similarity=0.212 Sum_probs=29.0
Q ss_pred HHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhc
Q 012691 326 EGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 362 (458)
Q Consensus 326 E~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~ 362 (458)
+++..-+.+.+..+++..++|...|++...|.+.++.
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 3444455566777899999999999999988887774
No 19
>3nxc_A HTH-type protein SLMA; nucleoid occlusion, cell division, TETR family member, DNA B protein; 2.50A {Escherichia coli}
Probab=29.99 E-value=2.2e+02 Score=23.68 Aligned_cols=72 Identities=18% Similarity=0.018 Sum_probs=38.2
Q ss_pred hcC-CCCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHH
Q 012691 335 RCG-GSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRG 406 (458)
Q Consensus 335 ~~G-r~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikA 406 (458)
+.| ...|..+.|+++|++...|-+-...-.+....++..+..-+..........+.+..+.+..-...++.-
T Consensus 40 ~~G~~~~t~~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 112 (212)
T 3nxc_A 40 SDGSQRITTAKLAASVGVSEAALYRHFPSKTRMFDSLIEFIEDSLITRINLILKDEKDTTARLRLIVLLLLGF 112 (212)
T ss_dssp ------CCHHHHHHHTTSCHHHHHTTCSSHHHHHHHHHHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHH
T ss_pred cCChhhcCHHHHHHHhCCChhHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHH
Confidence 345 467899999999999877776666545555555554444444333333222334444444444444433
No 20
>3oio_A Transcriptional regulator (ARAC-type DNA-binding containing proteins); PSI-2, midwest center for structural genomics; 1.65A {Chromobacterium violaceum}
Probab=28.99 E-value=72 Score=25.58 Aligned_cols=37 Identities=16% Similarity=0.175 Sum_probs=29.1
Q ss_pred HHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhc
Q 012691 326 EGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 362 (458)
Q Consensus 326 E~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~ 362 (458)
+++..-+.+.+..+++..++|+..|++...|.+.++.
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 3444455666777899999999999999988887775
No 21
>3lsg_A Two-component response regulator YESN; structural genomics, PSI-2, protein structure initiative, MCSG; 2.05A {Fusobacterium nucleatum}
Probab=28.80 E-value=82 Score=24.74 Aligned_cols=36 Identities=8% Similarity=0.071 Sum_probs=27.5
Q ss_pred HHHHHHHhhcCC-CCchHHHHHHhcCCHHHHHHHHhc
Q 012691 327 GLREVLSERCGG-SPTFAQWAAAAGVDQRELRRRLNY 362 (458)
Q Consensus 327 ~lr~~L~~~~Gr-~pt~~ewA~aag~d~eeL~r~l~~ 362 (458)
++..-+.+.+.. .++..++|...|++...|.+.++.
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 344445555665 789999999999999998887764
No 22
>2k9s_A Arabinose operon regulatory protein; activator, arabinose catabolism, carbohydrate metabolism, cytoplasm, DNA-binding, repressor, transcription; NMR {Escherichia coli}
Probab=27.54 E-value=88 Score=24.81 Aligned_cols=37 Identities=11% Similarity=0.067 Sum_probs=29.1
Q ss_pred HHHHHHHHhhcC-CCCchHHHHHHhcCCHHHHHHHHhc
Q 012691 326 EGLREVLSERCG-GSPTFAQWAAAAGVDQRELRRRLNY 362 (458)
Q Consensus 326 E~lr~~L~~~~G-r~pt~~ewA~aag~d~eeL~r~l~~ 362 (458)
.++..-+.+.+. ..++..++|+..|++...|.+.++.
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 344455566677 7889999999999999998888774
No 23
>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=27.39 E-value=87 Score=24.86 Aligned_cols=36 Identities=6% Similarity=0.061 Sum_probs=27.9
Q ss_pred HHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhc
Q 012691 327 GLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 362 (458)
Q Consensus 327 ~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~ 362 (458)
++..-+.+.++..++..++|...|++...|.+.++.
T Consensus 9 ~~~~~i~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 44 (108)
T 3oou_A 9 NVLSYITEHFSEGMSLKTLGNDFHINAVYLGQLFQK 44 (108)
T ss_dssp HHHHHHHHHTTSCCCHHHHHHHHTSCHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 344445556677889999999999999988887764
No 24
>3knw_A Putative transcriptional regulator (TETR/ACRR FAM; TETR-like protein, MCSG, PSI, structural genomics, protein S initiative; 2.45A {Acinetobacter SP}
Probab=26.77 E-value=2.8e+02 Score=23.10 Aligned_cols=71 Identities=8% Similarity=-0.014 Sum_probs=50.0
Q ss_pred cCC-CCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHH
Q 012691 336 CGG-SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRG 406 (458)
Q Consensus 336 ~Gr-~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikA 406 (458)
.|- ..|..+.|+++|++...|-+-...-.+....++..+..-+..........+.+..+.+..-...++..
T Consensus 30 ~G~~~~ti~~IA~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 101 (212)
T 3knw_A 30 KGFVGVGLQEILKTSGVPKGSFYHYFESKEAFGCELLKHYISDYQIRLNQLWTTETSARDKLMNYLQCWVKD 101 (212)
T ss_dssp HCSTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHC
T ss_pred cCCccCCHHHHHHHhCCChHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHH
Confidence 463 67899999999999999998888666666667776666655555554444566666666655555554
No 25
>3pas_A TETR family transcription regulator; structural genomics, joint center for structural genomics, J protein structure initiative; HET: MSE; 1.90A {Marinobacter aquaeolei}
Probab=25.16 E-value=2.8e+02 Score=22.58 Aligned_cols=66 Identities=17% Similarity=0.066 Sum_probs=40.7
Q ss_pred CCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 012691 339 SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLV 404 (458)
Q Consensus 339 ~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLi 404 (458)
..|..+.|+++|++...+-+-...-.+....++..+..-+..........+.+..+.+..-...++
T Consensus 28 ~~t~~~Ia~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 93 (195)
T 3pas_A 28 ATSVGKIAKAAGLSPATLYIYYEDKEQLLLATFYYVSDQVIDAALDSFSRGKDLREGLRRQWHTLF 93 (195)
T ss_dssp HCCHHHHHHHHTSCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHH
T ss_pred hcCHHHHHHHhCCCchHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence 468999999999999888888776556666666555544444333333344454444444433333
No 26
>3mnl_A KSTR, transcriptional regulatory protein (probably TETR; TETR family of transcriptional regulator, all-helical; 1.80A {Mycobacterium tuberculosis}
Probab=23.27 E-value=2.6e+02 Score=23.10 Aligned_cols=68 Identities=13% Similarity=-0.020 Sum_probs=40.8
Q ss_pred CchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHH
Q 012691 340 PTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGA 407 (458)
Q Consensus 340 pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAI 407 (458)
.|..+.|+.+|++...|.+....-.+....++..+..-+..........+.+..|.+..-...++..+
T Consensus 41 ~t~~~Ia~~agvs~~t~Y~~F~~K~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 108 (203)
T 3mnl_A 41 VQMRAVADRADVAVGTLYRYFPSKVHLLVSALGREFSRIDAKTDRSAVAGATPFQRLNFMVGKLNRAM 108 (203)
T ss_dssp CCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHCCCGGGTTCCHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHcCCChhHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHH
Confidence 68899999999999888887776555555555555444433332222334455555554444444433
No 27
>3eup_A Transcriptional regulator, TETR family; structural genomics, MCSG, protein structure initiative, midwest center for STRU genomics; 1.99A {Cytophaga hutchinsonii}
Probab=23.05 E-value=1.6e+02 Score=24.29 Aligned_cols=70 Identities=7% Similarity=-0.023 Sum_probs=44.6
Q ss_pred CchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHh
Q 012691 340 PTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEK 409 (458)
Q Consensus 340 pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeK 409 (458)
.|..+.|+++|++...|-+-...-.+....++..+..-+..........+.+..+.+..-...++..+..
T Consensus 32 ~ti~~IA~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 101 (204)
T 3eup_A 32 TSLTDLTEATNLTKGSIYGNFENKEAVAIAAFDYNWGHVKSVLTAKVQACNTYKEMLLVYSSMYNDADGS 101 (204)
T ss_dssp CCHHHHHHHHTCCHHHHTTTSSSHHHHHHHHHHHHHHHHHHHHHHHHTTCSSHHHHHTCHHHHHHGGGGT
T ss_pred CCHHHHHHHhCCCcHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhc
Confidence 5889999999999888877776556666666666655555444444444456666555555555444433
No 28
>3mkl_A HTH-type transcriptional regulator GADX; PSI2, MCSG, structural genomics, protein structure initiativ midwest center for structural genomics; 2.15A {Escherichia coli}
Probab=22.72 E-value=1e+02 Score=24.95 Aligned_cols=36 Identities=17% Similarity=0.160 Sum_probs=27.5
Q ss_pred HHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhc
Q 012691 327 GLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 362 (458)
Q Consensus 327 ~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~ 362 (458)
++..-+.+.+...++..++|...|++...|.+.++.
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 344445556677889999999999999888877654
No 29
>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=21.87 E-value=99 Score=25.48 Aligned_cols=36 Identities=8% Similarity=0.213 Sum_probs=28.5
Q ss_pred HHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHHHhc
Q 012691 327 GLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 362 (458)
Q Consensus 327 ~lr~~L~~~~Gr~pt~~ewA~aag~d~eeL~r~l~~ 362 (458)
++..-+.+.+..+++..++|+..|++...|.+.++.
T Consensus 15 ~~~~~i~~~~~~~~sl~~lA~~~~~S~~~l~r~fk~ 50 (129)
T 1bl0_A 15 SILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKK 50 (129)
T ss_dssp HHHHHHHTTTTSCCCCHHHHHHSSSCHHHHHHHHHH
T ss_pred HHHHHHHHccCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 344445566777899999999999999998887774
No 30
>3qbm_A TETR transcriptional regulator; DNA/RNA-binding three-helical bundle, structural genomics, J center for structural genomics, JCSG; HET: MSE PGE; 1.80A {Chloroflexus aurantiacus}
Probab=21.79 E-value=3.3e+02 Score=22.25 Aligned_cols=72 Identities=10% Similarity=-0.068 Sum_probs=47.6
Q ss_pred hcCC-CCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHH
Q 012691 335 RCGG-SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRG 406 (458)
Q Consensus 335 ~~Gr-~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikA 406 (458)
+.|- ..|..+.|+++|++...+-+-...-.+....++..+..-+............+..+.+....-.++.-
T Consensus 22 ~~G~~~~t~~~IA~~agvs~~t~Y~~F~sK~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 94 (199)
T 3qbm_A 22 VSGYAGTAISDIMAATGLEKGGIYRHFESKEQLALAAFDYAAEKVRERFAVGLAGHKHTVDTIIAFLDVFRSY 94 (199)
T ss_dssp HHCSTTCCHHHHHHHHTCCHHHHHTTCSSHHHHHHHHHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHGG
T ss_pred HhCcCcCCHHHHHHHhCCCccHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHccCccHHHHHHHHHHHHHHH
Confidence 3463 57899999999999988888777656666666666666555555444444456666655554444443
No 31
>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=20.33 E-value=3.7e+02 Score=22.30 Aligned_cols=75 Identities=7% Similarity=-0.047 Sum_probs=48.5
Q ss_pred hcCC-CCchHHHHHHhcCCHHHHHHHHhccHHHHHHHHHHcHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHh
Q 012691 335 RCGG-SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEK 409 (458)
Q Consensus 335 ~~Gr-~pt~~ewA~aag~d~eeL~r~l~~G~~ArekLI~~nLrLV~sIAkrY~~rGle~eDLIQEG~IGLikAIeK 409 (458)
+.|- ..|..+.|+++|++...|-+....-.+....++.....-+..........+.+..+-+..-...++..+..
T Consensus 46 ~~G~~~~tv~~Ia~~agvs~~t~Y~~F~sK~~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 121 (218)
T 3dcf_A 46 EKGYYATSLDDIADRIGFTKPAIYYYFKSKEDVLFAIVNSIVDEALERFHAIAAGPGSPGERIHALLVEHTRTILR 121 (218)
T ss_dssp HTCTTTCCHHHHHHHHTCCHHHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHHHTSSSCHHHHHHHHHHHHHHHHHH
T ss_pred HcCcccCcHHHHHHHhCCCHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHc
Confidence 3463 57899999999999999988887656666666666555555444444444455555555555555554443
Done!