Query 017761
Match_columns 366
No_of_seqs 213 out of 1551
Neff 4.5
Searched_HMMs 29240
Date Mon Mar 25 04:31:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017761.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/017761hhsearch_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 1.8E-28 6.2E-33 247.6 14.6 154 208-364 90-279 (438)
2 2a6h_F RNA polymerase sigma fa 99.9 2E-28 6.8E-33 245.1 10.1 153 209-364 76-264 (423)
3 3ugo_A RNA polymerase sigma fa 99.9 2E-27 6.9E-32 222.5 14.3 153 209-364 4-192 (245)
4 3iyd_F RNA polymerase sigma fa 99.4 5E-14 1.7E-18 146.6 6.4 90 273-364 358-456 (613)
5 1sig_A Sigma70, RNA polymerase 99.4 2.2E-13 7.4E-18 131.4 8.3 80 275-354 251-339 (339)
6 1rp3_A RNA polymerase sigma fa 98.7 1.6E-08 5.6E-13 89.1 6.9 71 284-354 11-89 (239)
7 1l0o_C Sigma factor; bergerat 98.7 2E-09 6.7E-14 94.8 -0.3 71 283-353 26-101 (243)
8 1or7_A Sigma-24, RNA polymeras 98.0 1.6E-05 5.3E-10 68.3 7.9 81 275-356 12-96 (194)
9 2q1z_A RPOE, ECF SIGE; ECF sig 97.6 0.00014 4.8E-09 61.9 7.6 80 273-355 13-97 (184)
10 3mzy_A RNA polymerase sigma-H 97.1 0.00017 5.7E-09 59.5 1.8 46 309-354 1-50 (164)
11 2o7g_A Probable RNA polymerase 97.0 0.0013 4.6E-08 52.4 6.2 69 283-355 22-92 (112)
12 1h3l_A RNA polymerase sigma fa 96.9 0.0027 9.2E-08 48.3 6.9 70 283-355 10-81 (87)
13 3iyd_F RNA polymerase sigma fa 95.7 0.00092 3.1E-08 69.7 -2.1 35 208-243 92-127 (613)
14 2lfw_A PHYR sigma-like domain; 94.7 0.0037 1.3E-07 53.0 -1.1 65 288-355 4-70 (157)
15 3n0r_A Response regulator; sig 86.2 0.6 2.1E-05 43.4 4.3 69 284-355 20-90 (286)
16 2jt1_A PEFI protein; solution 65.6 7.2 0.00025 30.2 4.3 33 249-281 14-46 (77)
17 1bl0_A Protein (multiple antib 62.6 15 0.00053 29.6 6.0 37 246-282 14-50 (129)
18 2k9s_A Arabinose operon regula 52.0 78 0.0027 24.3 8.4 37 246-282 6-43 (107)
19 3oio_A Transcriptional regulat 51.4 75 0.0026 24.6 8.2 38 245-282 9-46 (113)
20 3mn2_A Probable ARAC family tr 49.8 26 0.0009 27.0 5.2 37 246-282 5-41 (108)
21 2zc2_A DNAD-like replication p 45.3 27 0.00093 26.1 4.5 57 254-314 12-75 (78)
22 3lsg_A Two-component response 44.2 1E+02 0.0035 23.3 8.4 35 248-282 7-42 (103)
23 3oou_A LIN2118 protein; protei 43.5 36 0.0012 26.3 5.1 36 247-282 9-44 (108)
24 3mkl_A HTH-type transcriptiona 38.3 42 0.0014 26.5 4.8 36 247-282 11-46 (120)
25 3ugo_A RNA polymerase sigma fa 37.1 7.2 0.00024 35.9 0.0 41 244-284 198-240 (245)
26 3k2z_A LEXA repressor; winged 36.8 43 0.0015 29.0 5.0 27 255-281 20-46 (196)
27 1d5y_A ROB transcription facto 36.4 49 0.0017 29.6 5.5 38 245-282 5-42 (292)
28 1jko_C HIN recombinase, DNA-in 33.2 64 0.0022 20.7 4.4 23 260-282 22-44 (52)
29 1tc3_C Protein (TC3 transposas 26.7 1.2E+02 0.0041 18.9 5.9 21 261-281 23-43 (51)
30 3f2g_A Alkylmercury lyase; MER 26.2 64 0.0022 29.8 4.4 27 256-282 33-59 (220)
31 2ofy_A Putative XRE-family tra 21.8 2.2E+02 0.0076 20.4 6.0 48 261-317 29-76 (86)
32 4fe7_A Xylose operon regulator 21.5 1.1E+02 0.0036 28.9 5.1 33 251-283 313-345 (412)
33 2dkw_A Hypothetical protein KI 20.2 87 0.003 26.1 3.7 45 271-315 48-92 (131)
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=99.95 E-value=1.8e-28 Score=247.55 Aligned_cols=154 Identities=26% Similarity=0.322 Sum_probs=132.1
Q ss_pred CCCCChhH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHH------------------HHhhcCCCCchHHHHHH
Q 017761 208 VDYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREV------------------LSERCGGSPTFAQWAAA 268 (366)
Q Consensus 208 ~~~~D~l~-YLkei~~~~~LLt~eEE~eLa~~Iq~l~~le~~r~~------------------L~~~~GrePT~~eWA~a 268 (366)
..+.|+++ ||++| +++||||++||++|+++|+.++.++..... .....++.|+..+|+..
T Consensus 90 ~~~~d~~~~Yl~ei-~~~pLLt~eEE~~La~~i~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 168 (438)
T 1l9z_H 90 VSTSDPVRQYLHEI-GQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDP 168 (438)
T ss_pred CCCCChHHHHHHHh-ccCCCCCHHHHHHHHHHHHHhhhHHHHHHhhhccchhhhhhhhhhhhhhcccccccccccccccc
Confidence 34578999 99999 999999999999999999998654432221 22345688998887532
Q ss_pred ------------hcCCHHHHHHhhhhhHHHHHHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCC--CC
Q 017761 269 ------------AGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSST--PP 332 (366)
Q Consensus 269 ------------ag~~~~~L~~~L~~G~~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~--G~ 332 (366)
.+++..+|...+..|..|+++||.+|+|+|++||++|.|+|++++||||||+||||+ ++||+ |+
T Consensus 169 ~~~~~~~~~~~~~~~~~~eLi~~~~~d~~A~~~Li~~nlrlVv~iA~ry~~~g~~aeDLIQEg~IgL~kAvekFDp~kG~ 248 (438)
T 1l9z_H 169 KTVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRF 248 (438)
T ss_pred hhhhhhhhhhhcccchHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCcccCC
Confidence 355667888888889999999999999999999999999999999999999999994 89999 89
Q ss_pred CccccHH-HHHHHHHHHHHhcCCCCCCCcCccc
Q 017761 333 KVSSSQP-MLIGGSNRQFASHFPTNPEQLDYHF 364 (366)
Q Consensus 333 rFSTYA~-wIr~~I~R~i~d~~~~V~~~l~~~~ 364 (366)
+|+||+. ||++.|.++|++++++|+ +|+|.
T Consensus 249 rFsTYA~~wIR~~I~~~i~~~~R~ir--lp~~~ 279 (438)
T 1l9z_H 249 KFSTYATWWIRQAINRAIADQARTIR--IPVHM 279 (438)
T ss_pred ChHHHHHHHHHHHHHHHHHHhcchhc--cchHH
Confidence 9999986 599999999999999998 88885
No 2
>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=99.95 E-value=2e-28 Score=245.12 Aligned_cols=153 Identities=26% Similarity=0.340 Sum_probs=128.2
Q ss_pred CCCChhH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH------------------HhhcCCCCchHHHHH--
Q 017761 209 DYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVL------------------SERCGGSPTFAQWAA-- 267 (366)
Q Consensus 209 ~~~D~l~-YLkei~~~~~LLt~eEE~eLa~~Iq~l~~le~~r~~L------------------~~~~GrePT~~eWA~-- 267 (366)
...||++ ||++| +++||||++||++|+++|+.+..++...... ....++.|+..+|+.
T Consensus 76 ~~~d~~~~Yl~ei-~~~plLt~eEE~~La~ri~~g~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (423)
T 2a6h_F 76 STSDPVRQYLHEI-GQVPLLTLEEEVELARKVEEGMEAIKKLSEITGLDPDLIREVVRAKILGSARVRHIPGLKETLDPK 154 (423)
T ss_dssp TTHHHHHHHHHHH-HHCCCCTTHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCHHHHHTTSCSSSCTTH
T ss_pred CCCcHHHHHHHHh-cccCCCCHHHHHHHHHHHHhchhHHHHHHHhhccchhhhhhhHhhhhhhhhhcccccchhhhhhhh
Confidence 3568999 99999 9999999999999999999875443322111 112346677555442
Q ss_pred ----------HhcCCHHHHHHhhhhhHHHHHHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCC--CCC
Q 017761 268 ----------AAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSST--PPK 333 (366)
Q Consensus 268 ----------aag~~~~~L~~~L~~G~~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~--G~r 333 (366)
+++++..+|...+..|..|+++||.+|+|+|++||++|.|+|++++||||||+||||. ++||| |++
T Consensus 155 ~~~~~~~~~~~~~~~~~~L~~~~~~d~~A~~~Li~~~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~kav~kFd~~~g~~ 234 (423)
T 2a6h_F 155 TVEEIDQKLKSLPKEHKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFK 234 (423)
T ss_dssp HHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTTCTTTSCHHHHHHHHHHHHHHHHHHCCTTSCCC
T ss_pred hhhhhhhhhhcccccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCcccCCC
Confidence 2456677888888899999999999999999999999999999999999999999994 89999 899
Q ss_pred ccccHH-HHHHHHHHHHHhcCCCCCCCcCccc
Q 017761 334 VSSSQP-MLIGGSNRQFASHFPTNPEQLDYHF 364 (366)
Q Consensus 334 FSTYA~-wIr~~I~R~i~d~~~~V~~~l~~~~ 364 (366)
|+||++ ||++.|.++|++++|+|+ +|+|.
T Consensus 235 FstYa~~wIr~~i~~~i~~~~r~ir--~p~~~ 264 (423)
T 2a6h_F 235 FSTYATWWIRQAINRAIADQARTIR--IPVHM 264 (423)
T ss_dssp HHHHHHHHHHHHHHHHHHHHSSSSC--CCHHH
T ss_pred HHHHHHHHHHHHHHHHHHHccceee--ccHHH
Confidence 999986 599999999999999998 89884
No 3
>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=99.95 E-value=2e-27 Score=222.47 Aligned_cols=153 Identities=26% Similarity=0.334 Sum_probs=124.6
Q ss_pred CCCChhH-HHHHhhcCCCCCCHHHHHHHHHHHHHHHHH-HHHHHHHH--h-----------------------hcCCCCc
Q 017761 209 DYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKL-EGLREVLS--E-----------------------RCGGSPT 261 (366)
Q Consensus 209 ~~~D~l~-YLkei~~~~~LLt~eEE~eLa~~Iq~l~~l-e~~r~~L~--~-----------------------~~GrePT 261 (366)
.++||++ ||++| |++||||++||++|+++|+.++.. +.+..... . ..+.+|+
T Consensus 4 ~~~d~~~~yl~~i-~~~~llt~~~e~~la~~i~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~g~~~~~~~~ 82 (245)
T 3ugo_A 4 MTSDPVRQYLHEI-GQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPK 82 (245)
T ss_dssp -CCHHHHHHHHHH-TTSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHTTGGGCSCCCCTTCCCCCCHH
T ss_pred CCCCcHHHHHHHc-ccccCCCHHHHHHHHHHHHHHHHHHHHHHhccCCcHHHHHHhhhhhhhccchhcccccccccccch
Confidence 4689999 99999 999999999999999999998753 33322110 0 0147899
Q ss_pred hHHHHHHhcCCH----HHHHHhhhhhHHHHHHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCC--CCC
Q 017761 262 FAQWAAAAGVDQ----RELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSST--PPK 333 (366)
Q Consensus 262 ~~eWA~aag~~~----~~L~~~L~~G~~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~--G~r 333 (366)
..+||.+.|++. ..|.+..+.|..|+++|+..|+++|.++|++|.+.+.+.+||+|||++||+. ++||+ |++
T Consensus 83 ~~~~~~~~~~~~~~~~~~L~~~~~~d~~A~~~L~~~y~~lV~~ia~r~~~~~~~aeDLvQegfi~L~~a~~~fd~~~g~~ 162 (245)
T 3ugo_A 83 TVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFK 162 (245)
T ss_dssp HHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHGGGTTSSSCHHHHHHHHHHHHHHHHHHCCGGGCCC
T ss_pred hHHHHHHhhccchHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHcCcccCCc
Confidence 999999999854 4555667788999999999999999999999999999999999999999994 89999 899
Q ss_pred ccccHHH-HHHHHHHHHHhcCCCCCCCcCccc
Q 017761 334 VSSSQPM-LIGGSNRQFASHFPTNPEQLDYHF 364 (366)
Q Consensus 334 FSTYA~w-Ir~~I~R~i~d~~~~V~~~l~~~~ 364 (366)
|+||++| |+++|.++|+++.+.++ +|.|+
T Consensus 163 F~tya~~~ir~~i~~~ir~~~r~~r--~p~~l 192 (245)
T 3ugo_A 163 FSTYATWWIRQAINRAIADQARTIR--IPVHM 192 (245)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTC----------
T ss_pred HHHHHHHHHHHHHHHHHHHhccccc--ccHHH
Confidence 9999987 99999999999999886 77775
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=99.45 E-value=5e-14 Score=146.62 Aligned_cols=90 Identities=30% Similarity=0.416 Sum_probs=79.5
Q ss_pred HHHHHHhhhhh-HHH---HHHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCC--CCCccccHHH-HHH
Q 017761 273 QRELRRRLNYG-ILC---KDKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSST--PPKVSSSQPM-LIG 343 (366)
Q Consensus 273 ~~~L~~~L~~G-~~A---R~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~--G~rFSTYA~w-Ir~ 343 (366)
...|-.++..| ..| ++.|+..|+++|+++|++|.++|.+++||+|||+|||+. ++||+ |++|+||++| |++
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 34556666666 344 999999999999999999999999999999999999994 89999 8999999865 999
Q ss_pred HHHHHHHhcCCCCCCCcCccc
Q 017761 344 GSNRQFASHFPTNPEQLDYHF 364 (366)
Q Consensus 344 ~I~R~i~d~~~~V~~~l~~~~ 364 (366)
.|.++++++.++++ +|+|.
T Consensus 438 ~i~~~lr~~~r~~r--ip~~~ 456 (613)
T 3iyd_F 438 AITRSIADQARTIR--IPVHM 456 (613)
T ss_dssp HHHHHTTTSCSSSC--CCSHH
T ss_pred HHHHHHHhcCccee--CcHHH
Confidence 99999999999987 88875
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=99.42 E-value=2.2e-13 Score=131.39 Aligned_cols=80 Identities=31% Similarity=0.431 Sum_probs=69.5
Q ss_pred HHHHhhhhh-H---HHHHHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCC--CCCccccHHH-HHHHH
Q 017761 275 ELRRRLNYG-I---LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSST--PPKVSSSQPM-LIGGS 345 (366)
Q Consensus 275 ~L~~~L~~G-~---~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~--G~rFSTYA~w-Ir~~I 345 (366)
.|-.++..| . .|++.|+..|+++|+++|++|.++|.+++||+|||++||+. .+||+ |++|+||++| |++.|
T Consensus 251 ~l~~~~~~gd~~~~~A~~~L~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~f~~~~g~~f~twl~~iirn~~ 330 (339)
T 1sig_A 251 DINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 330 (339)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTSTTSSSCHHHHHHHHHHHHHHHHHHCCGGGCCCHHHHHHHHHHHHH
T ss_pred HHHHHHHhccccchhhhHHHHHHHHHHHHHHHHHHhcCCCCHhHHHHHHHHHHHHHHHHhCCccCCCHHHHHHHHHHHHH
Confidence 444555556 3 79999999999999999999999999999999999999994 89999 8999999875 89999
Q ss_pred HHHHHhcCC
Q 017761 346 NRQFASHFP 354 (366)
Q Consensus 346 ~R~i~d~~~ 354 (366)
.++++++.+
T Consensus 331 ~~~lr~~~r 339 (339)
T 1sig_A 331 TRSIADQAR 339 (339)
T ss_dssp HHHHHHC--
T ss_pred HHHHHHhcC
Confidence 999998653
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=98.72 E-value=1.6e-08 Score=89.14 Aligned_cols=71 Identities=20% Similarity=0.182 Sum_probs=63.7
Q ss_pred HHHHHHHHHHcHHHHHHHHHHcc---cCCCChhhHHHHhHHHHHh--ccCCC--CCCccccHH-HHHHHHHHHHHhcCC
Q 017761 284 ILCKDKMITSNIRLVISIAKNYQ---GAGMNLQDLVQDVEALLEV--QKSST--PPKVSSSQP-MLIGGSNRQFASHFP 354 (366)
Q Consensus 284 ~~AR~kLI~sNLRLVvsIAkrY~---g~Gl~~~DLIQEG~iGLi~--ekFD~--G~rFSTYA~-wIr~~I~R~i~d~~~ 354 (366)
..|.+.|+..|.++|..+|++|. +.+.+.+||+|||.+||+. ++||+ |.+|.||+. ||++.+.++++.+.+
T Consensus 11 ~~a~~~l~~~~~~~v~~~a~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~f~~~l~~~~~~~~~d~~r~~~~ 89 (239)
T 1rp3_A 11 QIEREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAYIKLRIKGAIYDYLRSLDF 89 (239)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTSCTTSCHHHHHHHHHHHHHHHHHTCCCCCTHHHHHHHHHHHHHHHHHHHHTSST
T ss_pred chHHHHHHHHhHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcCc
Confidence 45899999999999999999998 6789999999999999994 89998 679999976 599999999998764
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=98.68 E-value=2e-09 Score=94.83 Aligned_cols=71 Identities=27% Similarity=0.269 Sum_probs=1.2
Q ss_pred hHHHHHHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCC--CCCccccHH-HHHHHHHHHHHhcC
Q 017761 283 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSST--PPKVSSSQP-MLIGGSNRQFASHF 353 (366)
Q Consensus 283 G~~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~--G~rFSTYA~-wIr~~I~R~i~d~~ 353 (366)
...|.+.|+..|.++|..+|++|.+.+.+.+||+|||.++|+. +.||+ |..|.||+. ++++.+.++++.+.
T Consensus 26 d~~a~~~l~~~~~~~v~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~f~~~l~~i~~~~~~d~~r~~~ 101 (243)
T 1l0o_C 26 DQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG 101 (243)
T ss_dssp --------------------------------------------------------------------------CC
T ss_pred CHHHHHHHHHHhHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcC
Confidence 3678899999999999999999999999999999999999994 89998 689999975 58888888888765
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=97.99 E-value=1.6e-05 Score=68.29 Aligned_cols=81 Identities=11% Similarity=0.034 Sum_probs=65.0
Q ss_pred HHHHhhhhh-HHHHHHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCCCCCccccHHH-HHHHHHHHHH
Q 017761 275 ELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSSTPPKVSSSQPM-LIGGSNRQFA 350 (366)
Q Consensus 275 ~L~~~L~~G-~~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~G~rFSTYA~w-Ir~~I~R~i~ 350 (366)
+|-..+..| ..|.+.|+..|.+.|..+|.+|.+ ..+.+|++||+.+.++. ..|++...|.+|... ++..+.+.++
T Consensus 12 ~l~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~-~~~aeDl~Qe~~l~~~~~~~~~~~~~~~~~~l~~i~~n~~~d~~R 90 (194)
T 1or7_A 12 VLVERVQKGDQKAFNLLVVRYQHKVASLVSRYVP-SGDVPDVVQEAFIKAYRALDSFRGDSAFYTWLYRIAVNTAKNYLV 90 (194)
T ss_dssp HHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTSC-GGGHHHHHHHHHHHHHHHGGGCCSSSCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHcC-HHhHHHHHHHHHHHHHHhHHhcCCccchHHHHHHHHHHHHHHHHH
Confidence 344444444 789999999999999999999999 99999999999999994 789885568888654 7777777777
Q ss_pred hcCCCC
Q 017761 351 SHFPTN 356 (366)
Q Consensus 351 d~~~~V 356 (366)
.+.+..
T Consensus 91 ~~~~~~ 96 (194)
T 1or7_A 91 AQGRRP 96 (194)
T ss_dssp HHTTCC
T ss_pred HHhccC
Confidence 665543
No 9
>2q1z_A RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc bindin transcription factor; 2.40A {Rhodobacter sphaeroides} PDB: 2z2s_A
Probab=97.60 E-value=0.00014 Score=61.93 Aligned_cols=80 Identities=10% Similarity=-0.026 Sum_probs=60.3
Q ss_pred HHHHHHh-hhhh-HHHHHHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCCCC-CccccHHHHHHHHHH
Q 017761 273 QRELRRR-LNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSSTPP-KVSSSQPMLIGGSNR 347 (366)
Q Consensus 273 ~~~L~~~-L~~G-~~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~G~-rFSTYA~wIr~~I~R 347 (366)
..+|-.. +..| ..|.+.|+..|.+.|..+|.+|.+...+.+|++||+.+.++. ..|++.. .|. +|+...+.+
T Consensus 13 ~~~li~~~~~~gd~~a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~l~~~~~~~~~~~~~~~~~---~wl~~i~~n 89 (184)
T 2q1z_A 13 WVALMRAIRDHRDEAAFAELFQHFAPKVKGFLMKSGSVASQAEECAQDVMATVWQKAHLFDPSRASVA---TWIFTIARN 89 (184)
T ss_dssp HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHSGGGCCTTTCCHH---HHHHHHHHT
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHhhhhcCcccCcHH---HHHHHHHHH
Confidence 3344444 4444 789999999999999999999999889999999999999994 7888732 454 454445556
Q ss_pred HHHhcCCC
Q 017761 348 QFASHFPT 355 (366)
Q Consensus 348 ~i~d~~~~ 355 (366)
.+.|+.+.
T Consensus 90 ~~~d~~R~ 97 (184)
T 2q1z_A 90 RRIDGLRK 97 (184)
T ss_dssp SCCTTTCS
T ss_pred HHHHHHHh
Confidence 66555554
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=97.07 E-value=0.00017 Score=59.54 Aligned_cols=46 Identities=17% Similarity=-0.022 Sum_probs=35.4
Q ss_pred CCChhhHHHHhHHHHHh--ccCCCC-CCccccHH-HHHHHHHHHHHhcCC
Q 017761 309 GMNLQDLVQDVEALLEV--QKSSTP-PKVSSSQP-MLIGGSNRQFASHFP 354 (366)
Q Consensus 309 Gl~~~DLIQEG~iGLi~--ekFD~G-~rFSTYA~-wIr~~I~R~i~d~~~ 354 (366)
|.+.+||+|||.++|+. .+||++ .+|.||+. +++..+.++++.+.+
T Consensus 1 g~daeDl~Qe~~~~l~~~~~~~~~~~~~f~~~l~~i~~n~~~d~~r~~~~ 50 (164)
T 3mzy_A 1 GAEKEDLVQEGILGLLKAIKFYDETKSSFSSFAFLCIRREMISAIRKANT 50 (164)
T ss_dssp ----CTTHHHHHHHHHHHHHHCCTTTSCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCcHHHHHHHHHHHHHHHHHHhCccCCChHHHhHHHHHHHHHHHHHHhhc
Confidence 67899999999999994 799985 79999975 588888888887543
No 11
>2o7g_A Probable RNA polymerase sigma-C factor; sigma factor, transcription regulation, -10 element recognit domain, transcription; 2.70A {Mycobacterium tuberculosis}
Probab=96.96 E-value=0.0013 Score=52.35 Aligned_cols=69 Identities=13% Similarity=0.033 Sum_probs=52.7
Q ss_pred hHHHHHHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCCCCCccccHHHHHHHHHHHHHhcCCC
Q 017761 283 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSSTPPKVSSSQPMLIGGSNRQFASHFPT 355 (366)
Q Consensus 283 G~~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~G~rFSTYA~wIr~~I~R~i~d~~~~ 355 (366)
...+-+.|+..+.+.+..+|.+| +...+-+|++||..+.+.. ..|+....| .+|+...+.|.+.++.|.
T Consensus 22 d~~a~~~l~~~~~~~l~~~~~~~-~~~~~aeD~vQe~fl~~~~~~~~~~~~~~~---~~wl~~i~~n~~~d~~R~ 92 (112)
T 2o7g_A 22 NGRALEAFIKATQQDVWRFVAYL-SDVGSADDLTQETFLRAIGAIPRFSARSSA---RTWLLAIARHVVADHIRH 92 (112)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHH-SCHHHHHHHHHHHHHHHHHHGGGCCCSSCH---HHHHHHHHHHHHHHHTC-
T ss_pred CHHHHHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHHHHhcCCCCCH---HHHHHHHHHHHHHHHHHH
Confidence 47789999999999999999999 8888899999999999994 678764344 455444455555554443
No 12
>1h3l_A RNA polymerase sigma factor; transcription, DNA-binding, transcription regulation; 2.37A {Streptomyces coelicolor A3} SCOP: a.177.1.1
Probab=96.86 E-value=0.0027 Score=48.32 Aligned_cols=70 Identities=13% Similarity=0.044 Sum_probs=56.4
Q ss_pred hHHHHHHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCCCCCccccHHHHHHHHHHHHHhcCCC
Q 017761 283 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSSTPPKVSSSQPMLIGGSNRQFASHFPT 355 (366)
Q Consensus 283 G~~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~G~rFSTYA~wIr~~I~R~i~d~~~~ 355 (366)
...+-+.|+..+.+.+..+|.++.+...+-+|++||..+.|.. ..|++. .++.+|+...+.+.+.|+.+.
T Consensus 10 ~~~af~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~fl~~~~~~~~~~~~---~~~~~wl~~i~~n~~~d~~R~ 81 (87)
T 1h3l_A 10 RSARFERDALEFLDQMYSAALRMTRNPADAEDLVQETYAKAYASFHQFREG---TNLKAWLYRILTNTFINSYRK 81 (87)
T ss_dssp HHHHHHHHHHHTHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHGGGCCSS---SCHHHHHHHHHHHHHHHTCC-
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC---ccHHHHHHHHHHHHHHHHHHH
Confidence 4678899999999999999999999889999999999999994 677764 345566666666777666654
No 13
>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=95.72 E-value=0.00092 Score=69.66 Aligned_cols=35 Identities=31% Similarity=0.564 Sum_probs=13.7
Q ss_pred CCCCChhH-HHHHhhcCCCCCCHHHHHHHHHHHHHHH
Q 017761 208 VDYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLL 243 (366)
Q Consensus 208 ~~~~D~l~-YLkei~~~~~LLt~eEE~eLa~~Iq~l~ 243 (366)
+.++||++ ||++| |+++|||+++|++|+++|..+.
T Consensus 92 ~~~~dpvrmyl~em-g~~~ll~~~~e~~~ak~ie~g~ 127 (613)
T 3iyd_F 92 GRTTDPVRMYMREM-GTVELLTREGEIDIAKRIEDGI 127 (613)
T ss_dssp -------------C---------CSSSTTTHHHHHHH
T ss_pred cCCCCcHHHHHHHh-cccccCCchhHHHHHHHHHHhH
Confidence 45799999 99999 9999999999999999999765
No 14
>2lfw_A PHYR sigma-like domain; signal transduction, response regulator, sigma factor mimicr sigma factor, general stress response, signaling protein; NMR {Sphingomonas SP}
Probab=94.69 E-value=0.0037 Score=52.99 Aligned_cols=65 Identities=6% Similarity=0.011 Sum_probs=48.8
Q ss_pred HHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCCCCCccccHHHHHHHHHHHHHhcCCC
Q 017761 288 DKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSSTPPKVSSSQPMLIGGSNRQFASHFPT 355 (366)
Q Consensus 288 ~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~G~rFSTYA~wIr~~I~R~i~d~~~~ 355 (366)
+.|+..+.+.|..+|.+|.+...+-+||+||+.+.++. ..|+++..|.+|. ...+.|.+.|+.|.
T Consensus 4 ~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~~~~~~wl---~~ia~n~~~d~~R~ 70 (157)
T 2lfw_A 4 GQQLAPHLPFLRRYGRALTGSQNQGDKYVRATLEAIVAAPDQFPRDVDPRLGL---YRMFQGIWASANAD 70 (157)
T ss_dssp GGGTGGGGGGGTTTGGGTTSCHHHHHHHHHHHHHTTTTCGGGCCCSSCTTHHH---HHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCCCcHHHHH---HHHHHHHHHHHhhc
Confidence 35778889999999999999888999999999999994 7888754555554 33445555555443
No 15
>3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A
Probab=86.25 E-value=0.6 Score=43.36 Aligned_cols=69 Identities=10% Similarity=-0.023 Sum_probs=54.2
Q ss_pred HHHHHHHHHHcHHHHHHHHHHcccCCCChhhHHHHhHHHHHh--ccCCCCCCccccHHHHHHHHHHHHHhcCCC
Q 017761 284 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQDVEALLEV--QKSSTPPKVSSSQPMLIGGSNRQFASHFPT 355 (366)
Q Consensus 284 ~~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQEG~iGLi~--ekFD~G~rFSTYA~wIr~~I~R~i~d~~~~ 355 (366)
..+-+.|+..+.+.+...|.+|.+..-+-+|++||-.+-+.. ..|+... .|.+|+...+.|...|+.|.
T Consensus 20 ~~~f~~l~~~~~~~l~~~a~~~~~~~~~AeD~vQe~fl~~~~~~~~~~~~~---~~~~wL~~ia~n~~~d~~r~ 90 (286)
T 3n0r_A 20 EMHLLARLAPHLPYIRRYARALTGDQATGDHYVRVALEALAAGELVLDANL---SPRVALYRVFHAIWLSSGAQ 90 (286)
T ss_dssp CCCHHHHHGGGHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHTTSSCCCSSS---CHHHHHHHHHHHHHSCTTC-
T ss_pred cCCHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHhCchhcCCCc---ChHHHHHHHHHHHHHhhccc
Confidence 456788999999999999999999888999999999999995 6777543 45556555556666666654
No 16
>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}
Probab=65.60 E-value=7.2 Score=30.15 Aligned_cols=33 Identities=24% Similarity=0.206 Sum_probs=24.7
Q ss_pred HHHHHhhcCCCCchHHHHHHhcCCHHHHHHhhh
Q 017761 249 REVLSERCGGSPTFAQWAAAAGVDQRELRRRLN 281 (366)
Q Consensus 249 r~~L~~~~GrePT~~eWA~aag~~~~~L~~~L~ 281 (366)
+..+.+..|.+||..|.|+++|++...+++-|.
T Consensus 14 ~~~i~~~~g~~psv~EIa~~lgvS~~TVrr~L~ 46 (77)
T 2jt1_A 14 QERQNMDDGAPVKTRDIADAAGLSIYQVRLYLE 46 (77)
T ss_dssp HHHHHHHTTSCEEHHHHHHHHTCCHHHHHHHHH
T ss_pred HHHHhhccCCCcCHHHHHHHHCCCHHHHHHHHH
Confidence 344444458999999999999999877665554
No 17
>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=62.55 E-value=15 Score=29.56 Aligned_cols=37 Identities=8% Similarity=0.211 Sum_probs=29.3
Q ss_pred HHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHhhhh
Q 017761 246 EGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 282 (366)
Q Consensus 246 e~~r~~L~~~~GrePT~~eWA~aag~~~~~L~~~L~~ 282 (366)
.++..-+......+++..++|..+|++...|.+.+..
T Consensus 14 ~~~~~~i~~~~~~~~sl~~lA~~~~~S~~~l~r~fk~ 50 (129)
T 1bl0_A 14 HSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKK 50 (129)
T ss_dssp HHHHHHHHTTTTSCCCCHHHHHHSSSCHHHHHHHHHH
T ss_pred HHHHHHHHHccCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 3444456666777899999999999999999887765
No 18
>2k9s_A Arabinose operon regulatory protein; activator, arabinose catabolism, carbohydrate metabolism, cytoplasm, DNA-binding, repressor, transcription; NMR {Escherichia coli}
Probab=52.00 E-value=78 Score=24.26 Aligned_cols=37 Identities=11% Similarity=0.067 Sum_probs=29.2
Q ss_pred HHHHHHHHhhcC-CCCchHHHHHHhcCCHHHHHHhhhh
Q 017761 246 EGLREVLSERCG-GSPTFAQWAAAAGVDQRELRRRLNY 282 (366)
Q Consensus 246 e~~r~~L~~~~G-rePT~~eWA~aag~~~~~L~~~L~~ 282 (366)
.++..-+.+... .+++..++|..+|++...|.+.+..
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 344455666667 7899999999999999999887765
No 19
>3oio_A Transcriptional regulator (ARAC-type DNA-binding containing proteins); PSI-2, midwest center for structural genomics; 1.65A {Chromobacterium violaceum}
Probab=51.38 E-value=75 Score=24.63 Aligned_cols=38 Identities=18% Similarity=0.205 Sum_probs=29.7
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHhhhh
Q 017761 245 LEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 282 (366)
Q Consensus 245 le~~r~~L~~~~GrePT~~eWA~aag~~~~~L~~~L~~ 282 (366)
+.++..-+.+....+++..++|..+|++...|.+.+..
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 33445556667778899999999999999988887755
No 20
>3mn2_A Probable ARAC family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.80A {Rhodopseudomonas palustris}
Probab=49.79 E-value=26 Score=27.02 Aligned_cols=37 Identities=14% Similarity=0.212 Sum_probs=28.9
Q ss_pred HHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHhhhh
Q 017761 246 EGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 282 (366)
Q Consensus 246 e~~r~~L~~~~GrePT~~eWA~aag~~~~~L~~~L~~ 282 (366)
+++..-+......++|..++|..+|++...|.+.+..
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 3444555666677899999999999999988887765
No 21
>2zc2_A DNAD-like replication protein; GI 24377835, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Streptococcus mutans UA159}
Probab=45.31 E-value=27 Score=26.14 Aligned_cols=57 Identities=16% Similarity=0.236 Sum_probs=38.8
Q ss_pred hhcCCCCch------HHHHHHhcCCHHHHHHhhhhhHHHHHHHHHHcHHHHHHHHHHcccCCCC-hhh
Q 017761 254 ERCGGSPTF------AQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMN-LQD 314 (366)
Q Consensus 254 ~~~GrePT~------~eWA~aag~~~~~L~~~L~~G~~AR~kLI~sNLRLVvsIAkrY~g~Gl~-~~D 314 (366)
...||+||. .+|....|++.+.+...++... .. =..|++.|-.|++++...|+. ++|
T Consensus 12 ~~~gr~ls~~e~~~i~~w~~~~~~~~elI~~A~~~a~-~~---~~~s~~Yi~~Il~~W~~~gi~T~e~ 75 (78)
T 2zc2_A 12 RELGRMLSPFELEDLQKTVSDDKTDPDLVRSALREAV-FN---GKTNWNYIQAILRNWRHEGISTLRQ 75 (78)
T ss_dssp HHHTSCCCHHHHHHHHHHHTTTCCCHHHHHHHHHHHH-HH---TCCCHHHHHHHHHHHHHTTCCSHHH
T ss_pred HHhCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHH-Hc---CCCCHHHHHHHHHHHHHcCCCCHHH
Confidence 345666664 3466666777777776666653 11 246899999999999999974 444
No 22
>3lsg_A Two-component response regulator YESN; structural genomics, PSI-2, protein structure initiative, MCSG; 2.05A {Fusobacterium nucleatum}
Probab=44.21 E-value=1e+02 Score=23.34 Aligned_cols=35 Identities=9% Similarity=0.115 Sum_probs=26.9
Q ss_pred HHHHHHhhcCC-CCchHHHHHHhcCCHHHHHHhhhh
Q 017761 248 LREVLSERCGG-SPTFAQWAAAAGVDQRELRRRLNY 282 (366)
Q Consensus 248 ~r~~L~~~~Gr-ePT~~eWA~aag~~~~~L~~~L~~ 282 (366)
+..-+.+.... .++..++|..+|++...|.+.+..
T Consensus 7 i~~~i~~~~~~~~~~~~~lA~~~~~S~~~l~r~fk~ 42 (103)
T 3lsg_A 7 IQNIIEESYTDSQFTLSVLSEKLDLSSGYLSIMFKK 42 (103)
T ss_dssp HHHHHHHHTTCTTCCHHHHHHHTTCCHHHHHHHHHH
T ss_pred HHHHHHHHccCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 33344455565 789999999999999999887755
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=43.47 E-value=36 Score=26.30 Aligned_cols=36 Identities=6% Similarity=0.061 Sum_probs=28.0
Q ss_pred HHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHhhhh
Q 017761 247 GLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 282 (366)
Q Consensus 247 ~~r~~L~~~~GrePT~~eWA~aag~~~~~L~~~L~~ 282 (366)
++..-+....+..++..++|..+|++...|.+.+..
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 344445556677889999999999999999887754
No 24
>3mkl_A HTH-type transcriptional regulator GADX; PSI2, MCSG, structural genomics, protein structure initiativ midwest center for structural genomics; 2.15A {Escherichia coli}
Probab=38.26 E-value=42 Score=26.51 Aligned_cols=36 Identities=17% Similarity=0.160 Sum_probs=27.3
Q ss_pred HHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHhhhh
Q 017761 247 GLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 282 (366)
Q Consensus 247 ~~r~~L~~~~GrePT~~eWA~aag~~~~~L~~~L~~ 282 (366)
++..-+......+++..++|..+|++...|.+.+..
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 344455566677889999999999999888766543
No 25
>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=37.05 E-value=7.2 Score=35.88 Aligned_cols=41 Identities=24% Similarity=0.399 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhhcCCCCchHHHHHHhc--CCHHHHHHhhhhhH
Q 017761 244 KLEGLREVLSERCGGSPTFAQWAAAAG--VDQRELRRRLNYGI 284 (366)
Q Consensus 244 ~le~~r~~L~~~~GrePT~~eWA~aag--~~~~~L~~~L~~G~ 284 (366)
++.+...+|...+|+.||.+|.|+..| ++..+++..++.++
T Consensus 198 ~l~~~~~~L~~~~~~~ps~~EIAe~Lg~~is~~tVk~~l~~ar 240 (245)
T 3ugo_A 198 KLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIAQ 240 (245)
T ss_dssp -------------------------------------------
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHCCCCCHHHHHHHHHHHh
Confidence 344555667778899999999999999 99999998887653
No 26
>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=36.83 E-value=43 Score=28.99 Aligned_cols=27 Identities=19% Similarity=0.166 Sum_probs=22.1
Q ss_pred hcCCCCchHHHHHHhcCCHHHHHHhhh
Q 017761 255 RCGGSPTFAQWAAAAGVDQRELRRRLN 281 (366)
Q Consensus 255 ~~GrePT~~eWA~aag~~~~~L~~~L~ 281 (366)
+.|.+||..|.|++.|++...+.+.|.
T Consensus 20 ~~g~~~s~~eia~~lgl~~~tv~~~l~ 46 (196)
T 3k2z_A 20 KNGYPPSVREIARRFRITPRGALLHLI 46 (196)
T ss_dssp HHSSCCCHHHHHHHHTSCHHHHHHHHH
T ss_pred HhCCCCCHHHHHHHcCCCcHHHHHHHH
Confidence 348999999999999999776666554
No 27
>1d5y_A ROB transcription factor; protein-DNA complex, DNA, transcription/DNA complex; HET: DNA; 2.70A {Escherichia coli} SCOP: a.4.1.8 a.4.1.8 d.60.1.2
Probab=36.41 E-value=49 Score=29.58 Aligned_cols=38 Identities=21% Similarity=0.198 Sum_probs=30.0
Q ss_pred HHHHHHHHHhhcCCCCchHHHHHHhcCCHHHHHHhhhh
Q 017761 245 LEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNY 282 (366)
Q Consensus 245 le~~r~~L~~~~GrePT~~eWA~aag~~~~~L~~~L~~ 282 (366)
+.++..-+.+.+...+|..++|..+|++...|.+.+..
T Consensus 5 ~~~~~~~i~~~~~~~~~~~~la~~~~~s~~~l~r~f~~ 42 (292)
T 1d5y_A 5 IRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKD 42 (292)
T ss_dssp HHHHHHHHHTTSSSSCCCHHHHTTTSSCHHHHHHHHHH
T ss_pred HHHHHHHHHhCCCCCCCHHHHHHHHCcCHHHHHHHHHH
Confidence 34455556667788899999999999999999887654
No 28
>1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} SCOP: a.4.1.2 PDB: 1ijw_C* 1jj6_C* 1jj8_C* 1hcr_A 1jkp_C 1jkq_C 1jkr_C
Probab=33.24 E-value=64 Score=20.71 Aligned_cols=23 Identities=22% Similarity=0.119 Sum_probs=19.6
Q ss_pred CchHHHHHHhcCCHHHHHHhhhh
Q 017761 260 PTFAQWAAAAGVDQRELRRRLNY 282 (366)
Q Consensus 260 PT~~eWA~aag~~~~~L~~~L~~ 282 (366)
-|..+.|...|++...+.+.+..
T Consensus 22 ~s~~~ia~~lgvs~~Tv~r~l~~ 44 (52)
T 1jko_C 22 HPRQQLAIIFGIGVSTLYRYFPA 44 (52)
T ss_dssp CCHHHHHHTTSCCHHHHHHHSCT
T ss_pred CCHHHHHHHHCCCHHHHHHHHHH
Confidence 57889999999999999887764
No 29
>1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2
Probab=26.69 E-value=1.2e+02 Score=18.86 Aligned_cols=21 Identities=10% Similarity=0.148 Sum_probs=16.7
Q ss_pred chHHHHHHhcCCHHHHHHhhh
Q 017761 261 TFAQWAAAAGVDQRELRRRLN 281 (366)
Q Consensus 261 T~~eWA~aag~~~~~L~~~L~ 281 (366)
|..+.|...|++...+.+.+.
T Consensus 23 s~~~IA~~lgis~~Tv~~~~~ 43 (51)
T 1tc3_C 23 SLHEMSRKISRSRHCIRVYLK 43 (51)
T ss_dssp CHHHHHHHHTCCHHHHHHHHH
T ss_pred CHHHHHHHHCcCHHHHHHHHh
Confidence 678888889998877776654
No 30
>3f2g_A Alkylmercury lyase; MERB, organomercurial lyase, mercury resistance, mercuric resistance, plasmid; 1.78A {Escherichia coli} PDB: 3f2h_A 3fn8_A 1s6l_A 3f0o_A 3f0p_A 3f2f_A
Probab=26.17 E-value=64 Score=29.78 Aligned_cols=27 Identities=11% Similarity=-0.001 Sum_probs=24.0
Q ss_pred cCCCCchHHHHHHhcCCHHHHHHhhhh
Q 017761 256 CGGSPTFAQWAAAAGVDQRELRRRLNY 282 (366)
Q Consensus 256 ~GrePT~~eWA~aag~~~~~L~~~L~~ 282 (366)
.|++|+..+.|.++|.+.++++..|+.
T Consensus 33 ~Grpv~~~~LA~~~g~~~~~v~~~L~~ 59 (220)
T 3f2g_A 33 KGRPVSRTTLAGILDWPAERVAAVLEQ 59 (220)
T ss_dssp TTSCBCHHHHHHHHTCCHHHHHHHHHH
T ss_pred cCCCCCHHHHHHHhCcCHHHHHHHHHh
Confidence 599999999999999999888877765
No 31
>2ofy_A Putative XRE-family transcriptional regulator; transcription regulator, structural genomics, PS protein structure initiative; 1.70A {Rhodococcus SP} SCOP: a.35.1.3
Probab=21.83 E-value=2.2e+02 Score=20.39 Aligned_cols=48 Identities=21% Similarity=0.279 Sum_probs=34.1
Q ss_pred chHHHHHHhcCCHHHHHHhhhhhHHHHHHHHHHcHHHHHHHHHHcccCCCChhhHHH
Q 017761 261 TFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQ 317 (366)
Q Consensus 261 T~~eWA~aag~~~~~L~~~L~~G~~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DLIQ 317 (366)
|..+.|..+|++...+.+..+.... .-++..+..||+-| |+++++|+.
T Consensus 29 sq~~lA~~~gis~~~is~~E~g~~~------~p~~~~l~~ia~~l---~v~~~~l~~ 76 (86)
T 2ofy_A 29 SMVTVAFDAGISVETLRKIETGRIA------TPAFFTIAAVARVL---DLSLDDVAA 76 (86)
T ss_dssp CHHHHHHHHTCCHHHHHHHHTTCCS------SCBHHHHHHHHHHT---TCCHHHHHT
T ss_pred CHHHHHHHhCCCHHHHHHHHcCCCC------CCCHHHHHHHHHHh---CCCHHHHhc
Confidence 7889999999999888766654210 12455667788766 788888864
No 32
>4fe7_A Xylose operon regulatory protein; HTH_ARAC, helix-turn-helix, PBP, periplasmic binding protein binding transcription regulator, DNA xylose; HET: XYS; 2.90A {Escherichia coli} PDB: 4fe4_A
Probab=21.45 E-value=1.1e+02 Score=28.95 Aligned_cols=33 Identities=15% Similarity=0.231 Sum_probs=25.6
Q ss_pred HHHhhcCCCCchHHHHHHhcCCHHHHHHhhhhh
Q 017761 251 VLSERCGGSPTFAQWAAAAGVDQRELRRRLNYG 283 (366)
Q Consensus 251 ~L~~~~GrePT~~eWA~aag~~~~~L~~~L~~G 283 (366)
-+........+..+||+.+|++...|.+.++.-
T Consensus 313 ~i~~~~~~~~~~~~~a~~~~~s~~~l~r~f~~~ 345 (412)
T 4fe7_A 313 YIRNHACKGIKVDQVLDAVGISRSNLEKRFKEE 345 (412)
T ss_dssp HHHHHGGGTCCHHHHHHHTTCCHHHHHHHHHHH
T ss_pred HHHhhccCCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 344445667899999999999999998877553
No 33
>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=20.17 E-value=87 Score=26.09 Aligned_cols=45 Identities=16% Similarity=0.129 Sum_probs=38.2
Q ss_pred CCHHHHHHhhhhhHHHHHHHHHHcHHHHHHHHHHcccCCCChhhH
Q 017761 271 VDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDL 315 (366)
Q Consensus 271 ~~~~~L~~~L~~G~~AR~kLI~sNLRLVvsIAkrY~g~Gl~~~DL 315 (366)
||...++..|..|.+.--.-+..-++||++=|+.|.+.|-+...+
T Consensus 48 mDL~tI~~kl~~~~Y~s~~~f~~D~~Li~~Na~~yN~~~s~~~~~ 92 (131)
T 2dkw_A 48 MDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKI 92 (131)
T ss_dssp CCHHHHHHHHHTTCCCSSHHHHHHHHHHHHHHHHSCCCSSTTHHH
T ss_pred cCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHCCCCChhHHH
Confidence 688999999998877666778899999999999999999876533
Done!