Query         gi|254780987|ref|YP_003065400.1| hypothetical protein CLIBASIA_04440 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 110
No_of_seqs    22 out of 24
Neff          3.0 
Searched_HMMs 23785
Date          Tue May 31 23:21:53 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780987.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3b73_A PHIH1 repressor-like pr  92.3    0.16 6.8E-06   28.2   4.6   57   21-80     25-84  (111)
  2 2h09_A Transcriptional regulat  90.5    0.22 9.4E-06   27.5   3.8   53   20-77     51-106 (155)
  3 1fx7_A Iron-dependent represso  88.9    0.39 1.7E-05   26.1   4.1   53   20-77     21-76  (230)
  4 3hrs_A Metalloregulator SCAR;   87.4     0.6 2.5E-05   25.1   4.2   54   19-77     16-72  (214)
  5 1on2_A Transcriptional regulat  86.9    0.56 2.4E-05   25.3   3.8   53   20-77     19-74  (142)
  6 1ub9_A Hypothetical protein PH  86.1    0.42 1.8E-05   26.0   2.9   60   21-82     28-93  (100)
  7 2qq9_A Diphtheria toxin repres  85.5    0.79 3.3E-05   24.5   4.0   53   20-77     21-76  (226)
  8 3cta_A Riboflavin kinase; stru  85.2    0.82 3.4E-05   24.4   4.0   60   17-78     21-83  (230)
  9 3hsr_A HTH-type transcriptiona  84.1     0.5 2.1E-05   25.5   2.5   75    5-79     32-110 (140)
 10 2gxg_A 146AA long hypothetical  83.6    0.63 2.6E-05   25.0   2.8   73    5-80     33-111 (146)
 11 2x4h_A Hypothetical protein SS  82.0     1.4 5.9E-05   23.1   4.1   60   10-76     19-81  (139)
 12 3eco_A MEPR; mutlidrug efflux   78.3     1.1 4.5E-05   23.7   2.5   73    5-79     27-107 (139)
 13 3nrv_A Putative transcriptiona  77.9     1.2 4.9E-05   23.6   2.6   75    5-81     36-116 (148)
 14 3g3z_A NMB1585, transcriptiona  77.6    0.99 4.2E-05   23.9   2.2   72    6-79     28-105 (145)
 15 3bro_A Transcriptional regulat  77.6    0.95   4E-05   24.0   2.0   72    6-79     31-110 (141)
 16 3k0l_A Repressor protein; heli  75.7     2.1   9E-05   22.1   3.4   73    5-77     42-118 (162)
 17 2fxa_A Protease production reg  74.8     0.7   3E-05   24.8   0.8   81    5-85     44-128 (207)
 18 2bv6_A MGRA, HTH-type transcri  74.1     2.4  0.0001   21.8   3.4   74    6-79     34-111 (142)
 19 3kp7_A Transcriptional regulat  73.2     2.5 0.00011   21.7   3.3   59   20-79     49-113 (151)
 20 2nyx_A Probable transcriptiona  73.1     2.7 0.00011   21.6   3.4   58   21-78     57-118 (168)
 21 3bja_A Transcriptional regulat  72.6       3 0.00013   21.3   3.6   58   22-79     46-107 (139)
 22 2eth_A Transcriptional regulat  71.9     3.6 0.00015   20.9   3.8   55   23-79     58-118 (154)
 23 2fa5_A Transcriptional regulat  71.4     1.7 6.9E-05   22.7   2.0   59   21-81     61-125 (162)
 24 3bpv_A Transcriptional regulat  71.4     3.1 0.00013   21.2   3.4   60   20-81     40-105 (138)
 25 1yg2_A Gene activator APHA; vi  71.1     2.7 0.00012   21.5   3.1   60   24-83     16-89  (179)
 26 2a61_A Transcriptional regulat  68.8     1.6 6.5E-05   22.9   1.4   72    6-79     30-107 (145)
 27 2qww_A Transcriptional regulat  68.0       2 8.4E-05   22.3   1.8   71    5-77     37-115 (154)
 28 1jgs_A Multiple antibiotic res  66.7       6 0.00025   19.7   4.1   57   20-78     45-107 (138)
 29 2hr3_A Probable transcriptiona  66.6       5 0.00021   20.1   3.6   57   21-79     48-110 (147)
 30 3cdh_A Transcriptional regulat  66.1     3.2 0.00014   21.2   2.6   72    6-79     40-117 (155)
 31 3edy_A Tripeptidyl-peptidase 1  65.8     5.8 0.00024   19.8   3.8   50    9-60     45-98  (544)
 32 3ech_A MEXR, multidrug resista  65.2       8 0.00034   19.0   4.5   61   20-80     48-112 (142)
 33 3bj6_A Transcriptional regulat  64.4     2.8 0.00012   21.5   2.0   57   21-79     52-114 (152)
 34 3bdd_A Regulatory protein MARR  64.0     2.2 9.1E-05   22.1   1.4   67    5-73     27-99  (142)
 35 2pex_A Transcriptional regulat  63.7     2.2 9.1E-05   22.1   1.3   69    6-76     44-118 (153)
 36 3boq_A Transcriptional regulat  62.8     8.3 0.00035   18.9   4.2   58   22-79     61-122 (160)
 37 3oop_A LIN2960 protein; protei  62.8     2.1 8.8E-05   22.2   1.1   73    6-80     34-112 (143)
 38 1s3j_A YUSO protein; structura  61.3     2.5  0.0001   21.8   1.3   72    6-79     34-111 (155)
 39 3nqo_A MARR-family transcripti  60.9       9 0.00038   18.7   4.1   58   20-79     54-117 (189)
 40 3fm5_A Transcriptional regulat  60.6     4.4 0.00018   20.4   2.4   59   19-79     50-114 (150)
 41 1lj9_A Transcriptional regulat  60.2     3.3 0.00014   21.1   1.8   73    5-79     25-103 (144)
 42 3jw4_A Transcriptional regulat  58.9      11 0.00045   18.3   4.3   62   18-79     52-117 (148)
 43 2fbh_A Transcriptional regulat  58.6     9.5  0.0004   18.6   3.9   56   22-79     51-112 (146)
 44 3cjn_A Transcriptional regulat  57.8     3.6 0.00015   20.9   1.6   59   20-80     63-127 (162)
 45 2fbi_A Probable transcriptiona  57.5     2.5  0.0001   21.8   0.7   57   21-79     48-110 (142)
 46 1xmk_A Double-stranded RNA-spe  57.5     4.2 0.00018   20.5   1.9   46   24-70     26-73  (79)
 47 1z91_A Organic hydroperoxide r  56.8     2.1   9E-05   22.1   0.3   71    5-77     36-112 (147)
 48 3deu_A Transcriptional regulat  56.6     4.8  0.0002   20.2   2.1   56   21-78     66-127 (166)
 49 1y0u_A Arsenical resistance op  56.4      12 0.00049   18.1   4.2   41   24-70     44-87  (96)
 50 2wte_A CSA3; antiviral protein  55.9       9 0.00038   18.7   3.4   52   20-75    163-217 (244)
 51 3f3x_A Transcriptional regulat  55.4     3.6 0.00015   20.9   1.3   54   24-79     51-110 (144)
 52 2rkh_A Putative APHA-like tran  53.7       7  0.0003   19.3   2.6   38   44-81     56-97  (180)
 53 2w48_A Sorbitol operon regulat  51.4      11 0.00047   18.2   3.3   26   22-49     20-45  (315)
 54 2nnn_A Probable transcriptiona  49.5     4.8  0.0002   20.2   1.2   58   20-79     49-112 (140)
 55 2fbk_A Transcriptional regulat  49.1     9.4 0.00039   18.6   2.6   58   22-79     85-146 (181)
 56 3e6m_A MARR family transcripti  48.1     4.5 0.00019   20.4   0.9   73    5-79     49-127 (161)
 57 2g7u_A Transcriptional regulat  47.4      14  0.0006   17.6   3.3   60    7-74     17-77  (257)
 58 1z4h_A TORI, TOR inhibition pr  47.3      17  0.0007   17.3   4.2   61   19-86      6-66  (66)
 59 2rdp_A Putative transcriptiona  44.6      18 0.00077   17.0   3.9   56   22-79     55-116 (150)
 60 1qbj_A Protein (double-strande  42.7      17 0.00071   17.2   3.1   46   21-69     25-73  (81)
 61 2frh_A SARA, staphylococcal ac  42.2      17 0.00073   17.2   3.1   60   18-79     48-113 (127)
 62 2esh_A Conserved hypothetical   41.2      13 0.00053   18.0   2.2   58   24-81     27-98  (118)
 63 3df8_A Possible HXLR family tr  41.2      21 0.00088   16.7   4.4   51   25-77     44-97  (111)
 64 2kfs_A Conserved hypothetical   40.4      22 0.00091   16.7   3.5   50    4-59     15-64  (148)
 65 2hzt_A Putative HTH-type trans  38.1      23 0.00099   16.5   5.5   53   21-74     25-83  (107)
 66 1b7y_B Phers, protein (phenyla  36.9      25   0.001   16.4   4.6   51   13-66    395-445 (785)
 67 1mkm_A ICLR transcriptional re  34.3      27  0.0011   16.1   3.5   63    7-76     11-74  (249)
 68 1xma_A Predicted transcription  33.7      18 0.00077   17.1   2.1   56   24-79     55-124 (145)
 69 3f6v_A Possible transcriptiona  33.1      28  0.0012   16.0   3.5   57   21-79     69-128 (151)
 70 3elk_A Putative transcriptiona  31.9      15 0.00064   17.5   1.5   51   29-79     37-95  (117)
 71 3l6s_A Aspartyl aminopeptidase  31.7      19 0.00079   17.0   1.9   30   40-73     46-75  (485)
 72 2ia2_A Putative transcriptiona  30.9      31  0.0013   15.8   2.9   61    8-76     25-86  (265)
 73 2o3f_A Putative HTH-type trans  29.8      25  0.0011   16.3   2.3   34   17-52     33-66  (111)
 74 3f8b_A Transcriptional regulat  29.6      25   0.001   16.3   2.2   56   24-79     26-95  (116)
 75 1qgp_A Protein (double strande  28.3      29  0.0012   16.0   2.4   44   22-67     30-75  (77)
 76 3iwf_A Transcription regulator  27.9      30  0.0013   15.9   2.4   33   18-52     30-62  (107)
 77 1p4x_A Staphylococcal accessor  27.4      36  0.0015   15.5   4.2   62   18-79     45-110 (250)
 78 3hhh_A Transcriptional regulat  27.1      26  0.0011   16.3   1.9   56   24-79     27-94  (116)
 79 3l4g_A Phenylalanyl-tRNA synth  27.0      11 0.00046   18.3   0.0   56   19-74     16-72  (508)
 80 2obp_A Putative DNA-binding pr  23.5      43  0.0018   15.0   3.7   58   21-78     34-93  (96)
 81 2cxi_A Phenylalanyl-tRNA synth  22.8      44  0.0019   15.0   3.6   45   19-66    280-324 (348)
 82 1u78_A TC3 transposase, transp  22.7      45  0.0019   15.0   4.0   30   23-52     77-106 (141)
 83 1xsv_A Hypothetical UPF0122 pr  21.9      46  0.0019   14.9   3.2   34   21-56     39-72  (113)
 84 1bia_A BIRA bifunctional prote  21.4      47   0.002   14.8   4.0   40   20-61     16-59  (321)
 85 2e1n_A PEX, period extender; c  21.2      46  0.0019   14.9   2.3   56   24-79     48-117 (138)
 86 2e58_A MNMC2; tRNA wobble urid  21.2      37  0.0015   15.4   1.8   26   36-61    225-251 (308)
 87 2p4w_A Transcriptional regulat  21.2      48   0.002   14.8   4.2   49   22-72     27-83  (202)
 88 1tty_A Sigma-A, RNA polymerase  20.5      50  0.0021   14.7   3.7   28   20-49     35-62  (87)
 89 1t1e_A Kumamolisin; proenzyme,  20.3      50  0.0021   14.7   3.6   49   12-60     59-109 (552)

No 1  
>3b73_A PHIH1 repressor-like protein; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 2.12A {Haloarcula marismortui atcc 43049}
Probab=92.29  E-value=0.16  Score=28.23  Aligned_cols=57  Identities=21%  Similarity=0.214  Sum_probs=43.4

Q ss_pred             CCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCCCCCEEECHHHHHHHHHHHHCC
Q ss_conf             765189999998777889899999---999879812202577532011611356445642010
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESGRKRDVLTPKGAKGGGRYFDTG   80 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~~dt~   80 (110)
                      .+..+|.+|.+.+|-..|...|..   .|.+.||-.   +.++-.|++|++|+.|-.--.|..
T Consensus        25 ~g~~t~~eIA~~lgi~~S~~~Vs~rl~~L~~~GLve---~~g~G~Y~iT~~G~~yL~gelDa~   84 (111)
T 3b73_A           25 EGNGSPKELEDRDEIRISKSSVSRRLKKLADHDLLQ---PLANGVYVITEEGEAYLNGEYDAG   84 (111)
T ss_dssp             HSCBCHHHHHTSTTCCSCHHHHHHHHHHHHHTTSEE---ECSTTCEEECHHHHHHHTTCEETT
T ss_pred             CCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCEE---ECCCCCEEECHHHHHHHHHHHCCC
T ss_conf             499999999998688847999999999998787956---668700798966899998775226


No 2  
>2h09_A Transcriptional regulator MNTR; transcription regulator, diphtheria toxin, manganese transport, structural genomics, NPPSFA; 2.10A {Escherichia coli}
Probab=90.51  E-value=0.22  Score=27.46  Aligned_cols=53  Identities=19%  Similarity=0.156  Sum_probs=38.3

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCCCCCEEECHHHHHHHHHHH
Q ss_conf             576518999999877788989999---9999879812202577532011611356445642
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESGRKRDVLTPKGAKGGGRYF   77 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~~   77 (110)
                      +.++-+.++|.+.|+  +|...|+   +.|...||-.   ...++.+.||++|++.+..+.
T Consensus        51 ~~~~vr~~dIA~~L~--vs~~sVs~~l~~L~~~GlI~---~~~~~~i~LT~~G~~~A~~i~  106 (155)
T 2h09_A           51 EVGEARQVDMAARLG--VSQPTVAKMLKRLATMGLIE---MIPWRGVFLTAEGEKLAQESR  106 (155)
T ss_dssp             HHSCCCHHHHHHHHT--SCHHHHHHHHHHHHHTTCEE---EETTTEEEECHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEE---ECCCCCEEECHHHHHHHHHHH
T ss_conf             389770999999969--89789999999997788987---549987558985999999999


No 3  
>1fx7_A Iron-dependent repressor IDER; DTXR, iron-dependent regulator, signaling protein; 2.00A {Mycobacterium tuberculosis} SCOP: a.4.5.24 a.76.1.1 b.34.1.2 PDB: 1u8r_A
Probab=88.88  E-value=0.39  Score=26.11  Aligned_cols=53  Identities=19%  Similarity=0.181  Sum_probs=37.9

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCCCCCEEECHHHHHHHHHHH
Q ss_conf             576518999999877788989999---9999879812202577532011611356445642
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESGRKRDVLTPKGAKGGGRYF   77 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~~   77 (110)
                      +.+.-+.++|.+.|+  .|.-.|+   +.|++.||-   ....++.+.||++|++.+..+.
T Consensus        21 ~~~~~~~~~lA~~L~--vs~~sv~~~l~~L~~~Glv---~~~~~~~i~LT~~G~~~A~~i~   76 (230)
T 1fx7_A           21 EGVTPLRARIAERLD--QSGPTVSQTVSRMERDGLL---RVAGDRHLELTEKGRALAIAVM   76 (230)
T ss_dssp             HTSCCCHHHHHHHHT--CCHHHHHHHHHHHHHTTSE---EECTTSCEEECHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCE---EECCCCCEEECHHHHHHHHHHH
T ss_conf             499761999999878--8928999999999888898---9818988898889999999999


No 4  
>3hrs_A Metalloregulator SCAR; DTXR/MNTR family member, transcription; 2.70A {Streptococcus gordonii} PDB: 3hrt_A 3hru_A
Probab=87.36  E-value=0.6  Score=25.12  Aligned_cols=54  Identities=19%  Similarity=0.163  Sum_probs=38.8

Q ss_pred             CCCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCCCCCEEECHHHHHHHHHHH
Q ss_conf             65765189999998777889899999---999879812202577532011611356445642
Q gi|254780987|r   19 NNLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESGRKRDVLTPKGAKGGGRYF   77 (110)
Q Consensus        19 ~~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~~   77 (110)
                      .+.+..+.++|.+.|+  .|...|.+   .|...||-..   ..++.+.||++|++.+..+.
T Consensus        16 ~~~~~v~~~~iA~~l~--vs~~sv~~~l~rL~~~g~i~~---~~~~~i~LT~~G~~~A~~i~   72 (214)
T 3hrs_A           16 TRHNKITNKEIAQLMQ--VSPPAVTEMMKKLLAEELLIK---DKKAGYLLTDLGLKLVSDLY   72 (214)
T ss_dssp             SSCSCCCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEE---ETTTEEEECHHHHHHHHHHH
T ss_pred             HCCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEE---CCCCCEEECHHHHHHHHHHH
T ss_conf             0489778999999868--995799999999997899897---38977765787999999999


No 5  
>1on2_A Transcriptional regulator MNTR; helix-turn-helix, DNA-binding protein, metalloregulatory protein; 1.61A {Bacillus subtilis} SCOP: a.4.5.24 a.76.1.1 PDB: 2ev0_A 1on1_A 2ev5_A 2ev6_A* 2f5c_A 2f5d_A 2f5e_A 2f5f_A 2hyf_A* 2hyg_D
Probab=86.89  E-value=0.56  Score=25.27  Aligned_cols=53  Identities=28%  Similarity=0.289  Sum_probs=37.7

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCCCCCEEECHHHHHHHHHHH
Q ss_conf             576518999999877788989999---9999879812202577532011611356445642
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESGRKRDVLTPKGAKGGGRYF   77 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~~   77 (110)
                      +.+..+.++|.+.|+  .|...|+   +.|.+.||-   ....++.+.||++|++.+..+.
T Consensus        19 ~~~~v~~~dlA~~L~--vs~~sv~~~lk~L~~~GlI---~~~~~~~i~LT~~G~~~A~~l~   74 (142)
T 1on2_A           19 EKGYARVSDIAEALA--VHPSSVTKMVQKLDKDEYL---IYEKYRGLVLTSKGKKIGKRLV   74 (142)
T ss_dssp             HHSSCCHHHHHHHHT--SCHHHHHHHHHHHHHTTSE---EEETTTEEEECHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCC---CCCCCCCEEECHHHHHHHHHHH
T ss_conf             379886999999969--8878999999999857984---4069986677788999999999


No 6  
>1ub9_A Hypothetical protein PH1061; helix-turn-helix motif, winged helix motif, structural genomics, transcription; 2.05A {Pyrococcus horikoshii OT3} SCOP: a.4.5.28
Probab=86.14  E-value=0.42  Score=25.98  Aligned_cols=60  Identities=17%  Similarity=0.111  Sum_probs=41.8

Q ss_pred             CCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHCCHH
Q ss_conf             765189999998777889899999---999879812202577---53201161135644564201000
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDTGKK   82 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt~k~   82 (110)
                      .+..+.++|.+.++  +|.-.+..   .|.+.||-......+   +..+.+||+|++.+..+.+....
T Consensus        28 ~~~~t~~eLa~~l~--is~~~vs~~l~~Le~~glV~~~~~~~d~r~~~~~LT~~G~~~~~~~~~~l~~   93 (100)
T 1ub9_A           28 RRKAPFSQIQKVLD--LTPGNLDSHIRVLERNGLVKTYKVIADRPRTVVEITDFGMEEAKRFLSSLKA   93 (100)
T ss_dssp             HSEEEHHHHHHHTT--CCHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCEEEEEECCCCCCEEECCCCHHHHHHHHHHHHHHHH
T ss_conf             89983999999989--1998999999999858906998748889731003599999999999999999


No 7  
>2qq9_A Diphtheria toxin repressor; regulator, DTXR, helix-turn-helix, metal ION, activation, DNA-binding, ferrous iron, cytoplasm; 1.71A {Corynebacterium diphtheriae} PDB: 2tdx_A 1ddn_A 1g3t_A 1g3s_A 1g3w_A 2qqa_A 2qqb_A 2dtr_A 1bi0_A 1bi2_A 1bi3_A 1dpr_A 1bi1_A 1fwz_A 1g3y_A 1c0w_A* 3glx_A 1p92_A 1xcv_A 1f5t_A ...
Probab=85.54  E-value=0.79  Score=24.48  Aligned_cols=53  Identities=13%  Similarity=0.168  Sum_probs=37.5

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCCCCCEEECHHHHHHHHHHH
Q ss_conf             5765189999998777889899999---999879812202577532011611356445642
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESGRKRDVLTPKGAKGGGRYF   77 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~~   77 (110)
                      +...-+.++|.+.|+  +|...|++   .|.+.||-   ....++.+.||++|++.+..+.
T Consensus        21 ~~~~v~~~~iA~~L~--vs~~svt~~l~~L~~~Gli---~~~~~~~v~LT~~G~~~A~~i~   76 (226)
T 2qq9_A           21 EGVTPLRARIAERLE--QSGPTVSQTVARMERDGLV---VVASDRSLQMTPTGRTLATAVM   76 (226)
T ss_dssp             HTCCCBHHHHHHHHT--CCHHHHHHHHHHHHHTTSE---EECTTSBEEECHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCE---EECCCCCEEECHHHHHHHHHHH
T ss_conf             499651999999968--9917999999999988998---9728978798988999999999


No 8  
>3cta_A Riboflavin kinase; structural genomics, transferase, PSI-2, protein structure initiative; 2.20A {Thermoplasma acidophilum dsm 1728} SCOP: a.4.5.28 b.43.5.2
Probab=85.20  E-value=0.82  Score=24.39  Aligned_cols=60  Identities=20%  Similarity=0.207  Sum_probs=41.0

Q ss_pred             CCCCCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCCCCCEEECHHHHHHHHHHHH
Q ss_conf             8765765189999998777889899999---9998798122025775320116113564456420
Q gi|254780987|r   17 TPNNLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESGRKRDVLTPKGAKGGGRYFD   78 (110)
Q Consensus        17 ~~~~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~~d   78 (110)
                      ...+.+.+|+++|+++++  +|.-.+++   .|.+.||-......-.....+|++|++.-.....
T Consensus        21 ~~~~~~~ls~~eLa~~l~--is~~tvsr~l~~Le~~GlI~R~~d~R~~~v~LTekG~~~L~~~~~   83 (230)
T 3cta_A           21 EASNRAYLTSSKLADMLG--ISQQSASRIIIDLEKNGYITRTVTKRGQILNITEKGLDVLYTEFA   83 (230)
T ss_dssp             TTSSEEECCHHHHHHHHT--SCHHHHHHHHHHHHHTTSEEEEEETTEEEEEECHHHHHHHHHHHH
T ss_pred             HHCCCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEECCCEEEEEECHHHHHHHHHHHH
T ss_conf             415799858999999988--788899999999998898798115984478988879999999999


No 9  
>3hsr_A HTH-type transcriptional regulator SARZ; helix-turn-helix, cysteine disulfide, MARR-family transcriptional regulator, DNA-binding; 1.90A {Staphylococcus aureus subsp} PDB: 3hse_A 3hrm_A
Probab=84.09  E-value=0.5  Score=25.54  Aligned_cols=75  Identities=16%  Similarity=0.123  Sum_probs=48.4

Q ss_pred             HCCCHHHHHCCCCCCCCCCCCHHHHHHHHCC-CCCHHHHHHHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHC
Q ss_conf             1223366515888765765189999998777-889899999999879812202577---53201161135644564201
Q gi|254780987|r    5 LGVNVLQDINLPTPNNLPYYTPTQLGKKLAT-KPSAIKVNKKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus         5 ~~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~-k~SA~~vN~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt   79 (110)
                      +|++..|-.-|-+=.+.+-.++.+|+++++- +.+..++=+.|...||-.......   ++.+.+|++|++....++..
T Consensus        32 ~glt~~q~~vL~~l~~~~~~t~~ela~~l~~~~~tvs~~l~~L~~~glv~r~~~~~D~R~~~i~LT~~G~~~~~~~~~~  110 (140)
T 3hsr_A           32 YDLTYTGYIVLMAIENDEKLNIKKLGERVFLDSGTLTPLLKKLEKKDYVVRTREEKDERNLQISLTEQGKAIKSPLAEI  110 (140)
T ss_dssp             GTCCHHHHHHHHHSCTTCEEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEC-------CEEEECHHHHHTHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             5999999999999986799899999999897864799999999727977982158888868888898899999999999


No 10 
>2gxg_A 146AA long hypothetical transcriptional regulator; winged helix; 1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A 3gez_A 3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A
Probab=83.60  E-value=0.63  Score=25.02  Aligned_cols=73  Identities=19%  Similarity=0.185  Sum_probs=45.4

Q ss_pred             HCCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC--CC-CEEECHHHHHHHHHHHH
Q ss_conf             122336651588876576518999999877788989999---9999879812202577--53-20116113564456420
Q gi|254780987|r    5 LGVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG--RK-RDVLTPKGAKGGGRYFD   78 (110)
Q Consensus         5 ~~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g--rk-ew~lT~~G~k~g~~~~d   78 (110)
                      +|++..|-.-|-.=.+. ..|+++|+++++  ++...|.   +.|.+.||-.....+.  |. ...+||+|++....+..
T Consensus        33 ~~lt~~q~~vL~~i~~~-~~t~~ela~~~~--i~~~~vs~~i~~L~~~g~v~r~~~~~D~R~~~l~LT~~G~~~~~~~~~  109 (146)
T 2gxg_A           33 LNLSYLDFLVLRATSDG-PKTMAYLANRYF--VTQSAITASVDKLEEMGLVVRVRDREDRRKILIEITEKGLETFNKGIE  109 (146)
T ss_dssp             TTCCHHHHHHHHHHTTS-CBCHHHHHHHTT--CCHHHHHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHCC-CCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEECCCCCCCHHHHHCCHHHHHHHHHHHH
T ss_conf             69799999999999859-919999999989--798699999999986889786078767750443058989999999999


Q ss_pred             CC
Q ss_conf             10
Q gi|254780987|r   79 TG   80 (110)
Q Consensus        79 t~   80 (110)
                      ..
T Consensus       110 ~~  111 (146)
T 2gxg_A          110 IY  111 (146)
T ss_dssp             HH
T ss_pred             HH
T ss_conf             99


No 11 
>2x4h_A Hypothetical protein SSO2273; transcription; 2.30A {Sulfolobus solfataricus}
Probab=81.97  E-value=1.4  Score=23.11  Aligned_cols=60  Identities=17%  Similarity=0.109  Sum_probs=40.1

Q ss_pred             HHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCCCCCEEECHHHHHHHHHH
Q ss_conf             6651588876576518999999877788989999---999987981220257753201161135644564
Q gi|254780987|r   10 LQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESGRKRDVLTPKGAKGGGRY   76 (110)
Q Consensus        10 ~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~   76 (110)
                      +++|..- ..+.+.-+.++|.+.|+  +|...|.   +.|.+.||-..   . ++...||++|++.+..+
T Consensus        19 L~aI~~l-~~~~~~v~~~~iA~~L~--vs~~svt~~l~~L~~~Glv~~---~-~~gi~LT~~G~~~A~~i   81 (139)
T 2x4h_A           19 LLTIKRY-NDSGEGAKINRIAKDLK--IAPSSVFEEVSHLEEKGLVKK---K-EDGVWITNNGTRSINYL   81 (139)
T ss_dssp             HHHHHHH-HTTTSCBCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEE---E-TTEEEECHHHHHHHHHH
T ss_pred             HHHHHHH-HHCCCCCCHHHHHHHHC--CCCHHHHHHHHHHHHCCCEEE---E-CCCCEECHHHHHHHHHH
T ss_conf             9999999-97599866999999968--890799999999998899545---0-47715788899999999


No 12 
>3eco_A MEPR; mutlidrug efflux pump regulator winged helix-turn-helix motif, DNA-binding, transcription, transcription regulation; 2.40A {Staphylococcus aureus}
Probab=78.30  E-value=1.1  Score=23.75  Aligned_cols=73  Identities=16%  Similarity=0.132  Sum_probs=47.8

Q ss_pred             HCCCHHHHHCCCC--CCCCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCC-CC--CCEEECHHHHHHHHHH
Q ss_conf             1223366515888--76576518999999877788989999---999987981220257-75--3201161135644564
Q gi|254780987|r    5 LGVNVLQDINLPT--PNNLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHES-GR--KRDVLTPKGAKGGGRY   76 (110)
Q Consensus         5 ~~~~~~~~~~LP~--~~~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~-gr--kew~lT~~G~k~g~~~   76 (110)
                      .|++..|..-|..  .++.+-.++++|++.++  ++.-.+.   +.|...||-...... .+  +...+|++|++....+
T Consensus        27 ~glt~~q~~vL~~l~~~~~~~~t~~ela~~l~--~~~~tvs~~v~~L~~~glv~r~~~~~D~R~~~l~LT~~G~~~~~~~  104 (139)
T 3eco_A           27 FDITNEQGHTLGYLYAHQQDGLTQNDIAKALQ--RTGPTVSNLLRNLERKKLIYRYVDAQDTRRKNIGLTTSGIKLVEAF  104 (139)
T ss_dssp             GTCCHHHHHHHHHHHHSTTTCEEHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEECCC--CCEEEEECHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEECCCCCCCCEEEEEECHHHHHHHHHH
T ss_conf             69899999999999835999969999999989--6887899999999978897851678998846757898899999999


Q ss_pred             HHC
Q ss_conf             201
Q gi|254780987|r   77 FDT   79 (110)
Q Consensus        77 ~dt   79 (110)
                      ...
T Consensus       105 ~~~  107 (139)
T 3eco_A          105 TSI  107 (139)
T ss_dssp             HHH
T ss_pred             HHH
T ss_conf             999


No 13 
>3nrv_A Putative transcriptional regulator (MARR/EMRR FAM; PSI-2, protein structure initiati structural genomics; HET: MSE; 2.00A {Acinetobacter SP}
Probab=77.88  E-value=1.2  Score=23.56  Aligned_cols=75  Identities=16%  Similarity=0.059  Sum_probs=46.5

Q ss_pred             HCCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHH
Q ss_conf             122336651588876576518999999877788989999---9999879812202577---5320116113564456420
Q gi|254780987|r    5 LGVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFD   78 (110)
Q Consensus         5 ~~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~d   78 (110)
                      +|++..|-.-|-.=.+.+-+++++|.+.++  ++.-.+.   +.|.+.||-.....+.   .+...+|++|++.......
T Consensus        36 ~glt~~q~~vL~~L~~~~~~t~~~la~~l~--i~~~~vsr~l~~L~~~gli~r~~~~~D~R~~~l~LT~~G~~~~~~~~~  113 (148)
T 3nrv_A           36 FGIGMTEWRIISVLSSASDCSVQKISDILG--LDKAAVSRTVKKLEEKKYIEVNGHSEDKRTYAINLTEMGQELYEVASD  113 (148)
T ss_dssp             GTCCHHHHHHHHHHHHSSSBCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEC---------CCBEECHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHCCCCEEECCCCCCCCEECCCCCHHHHHHHHHHHH
T ss_conf             498999999999999779979999999989--699899999999850793642479988883004339889999999999


Q ss_pred             CCH
Q ss_conf             100
Q gi|254780987|r   79 TGK   81 (110)
Q Consensus        79 t~k   81 (110)
                      ...
T Consensus       114 ~~~  116 (148)
T 3nrv_A          114 FAI  116 (148)
T ss_dssp             HTH
T ss_pred             HHH
T ss_conf             999


No 14 
>3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structural genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B}
Probab=77.60  E-value=0.99  Score=23.94  Aligned_cols=72  Identities=19%  Similarity=0.104  Sum_probs=43.8

Q ss_pred             CCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC-CC--CEEECHHHHHHHHHHHHC
Q ss_conf             22336651588876576518999999877788989999---9999879812202577-53--201161135644564201
Q gi|254780987|r    6 GVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG-RK--RDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus         6 ~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g-rk--ew~lT~~G~k~g~~~~dt   79 (110)
                      |++..|-.-|-.=.+.+.+++++|++.++  ++.-.++   +.|.+.||-.....+. ++  .-.+||+|+++...+...
T Consensus        28 gls~~~~~iL~~l~~~~~~t~~~la~~l~--~~~~~vs~~i~~L~~~glv~r~~~~~D~R~~~l~LT~~G~~~~~~~~~~  105 (145)
T 3g3z_A           28 DLNYNLFAVLYTLATEGSRTQKHIGEKWS--LPKQTVSGVCKTLAGQGLIEWQEGEQDRRKRLLSLTETGKAYAAPLTES  105 (145)
T ss_dssp             TCCHHHHHHHHHHHHHCSBCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEECCCSSCGGGSCEEECHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             98999999999999879949999999989--6988999999999857987985768887746878898799999999999


No 15 
>3bro_A Transcriptional regulator; helix_TURN_helix, multiple antibiotic resistance protein (MARR), structural genomics, PSI-2; HET: MSE; 2.04A {Oenococcus oeni psu-1} SCOP: a.4.5.28
Probab=77.56  E-value=0.95  Score=24.05  Aligned_cols=72  Identities=14%  Similarity=0.027  Sum_probs=46.6

Q ss_pred             CCCHHH--HHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHH
Q ss_conf             223366--515888765765189999998777889899999---999879812202577---532011611356445642
Q gi|254780987|r    6 GVNVLQ--DINLPTPNNLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYF   77 (110)
Q Consensus         6 ~~~~~~--~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~   77 (110)
                      |++..|  .+..-+.+..+.+|+++|++.++  ++.-.+..   .|.+.||-......+   .+...+|++|++....+.
T Consensus        31 glt~~q~~vL~~l~~~~~~~~t~~~La~~l~--i~~~~vs~~v~~L~~~glv~r~~~~~D~R~~~l~lT~~G~~~~~~~~  108 (141)
T 3bro_A           31 DLTGTQMTIIDYLSRNKNKEVLQRDLESEFS--IKSSTATVLLQRMEIKKLLYRKVSGKDSRQKCLKLTKKANKLETIIL  108 (141)
T ss_dssp             TCCHHHHHHHHHHHHTTTSCCBHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHTTHHHHH
T ss_pred             CCCHHHHHHHHHHHHCCCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCHHHHHHHHHHH
T ss_conf             9899999999999848999959999999989--78858999999998877788663057984222111787899999999


Q ss_pred             HC
Q ss_conf             01
Q gi|254780987|r   78 DT   79 (110)
Q Consensus        78 dt   79 (110)
                      ..
T Consensus       109 ~~  110 (141)
T 3bro_A          109 SY  110 (141)
T ss_dssp             HH
T ss_pred             HH
T ss_conf             99


No 16 
>3k0l_A Repressor protein; helix-turn-helix, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.35A {Acinetobacter SP}
Probab=75.70  E-value=2.1  Score=22.13  Aligned_cols=73  Identities=18%  Similarity=0.160  Sum_probs=44.5

Q ss_pred             HCCCHHHHHCCCCCCCCCCCCHHHHHHHHCC-CCCHHHHHHHHHHCCCCHHHCCC-CC--CCEEECHHHHHHHHHHH
Q ss_conf             1223366515888765765189999998777-88989999999987981220257-75--32011611356445642
Q gi|254780987|r    5 LGVNVLQDINLPTPNNLPYYTPTQLGKKLAT-KPSAIKVNKKLREWGFLLEEHES-GR--KRDVLTPKGAKGGGRYF   77 (110)
Q Consensus         5 ~~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~-k~SA~~vN~lL~~~GlQ~~~~~~-gr--kew~lT~~G~k~g~~~~   77 (110)
                      +|++..|-.-|-.=.+.+-.++++|.+.++- +.+.-++=+.|...||-.....+ .+  +...+|++|++....+.
T Consensus        42 ~glt~~q~~vL~~l~~~~~~t~~~La~~l~~~~~~vs~~l~~L~~~gli~r~~~~~D~R~~~l~LT~~G~~~~~~~~  118 (162)
T 3k0l_A           42 LEISLPQFTALSVLAAKPNLSNAKLAERSFIKPQSANKILQDLLANGWIEKAPDPTHGRRILVTVTPSGLDKLNQCN  118 (162)
T ss_dssp             TTCCHHHHHHHHHHHHCTTCCHHHHHHHHTSCGGGHHHHHHHHHHTTSEEEEECCSSSCCEEEEECHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHH
T ss_conf             59799999999999977998999999998968869999999999889979852799987568788988999999999


No 17 
>2fxa_A Protease production regulatory protein HPR; protease porduction, regulation, structural genomics, PSI, protein structure initiative; HET: PGE P6G 1PE; 2.40A {Bacillus subtilis} SCOP: a.4.5.28
Probab=74.80  E-value=0.7  Score=24.75  Aligned_cols=81  Identities=17%  Similarity=0.109  Sum_probs=51.3

Q ss_pred             HCCCHHHHHCCCCCCCCCCCCHHHHHHHHCCC-CCHHHHHHHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHCC
Q ss_conf             12233665158887657651899999987778-89899999999879812202577---532011611356445642010
Q gi|254780987|r    5 LGVNVLQDINLPTPNNLPYYTPTQLGKKLATK-PSAIKVNKKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDTG   80 (110)
Q Consensus         5 ~~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k-~SA~~vN~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt~   80 (110)
                      +|++..|-.-|-+=.+.+-.|+++|++.++-. .++-++-+.|.+.||-.......   .....+|++|++-...+....
T Consensus        44 ~gLt~~q~~iL~~L~~~~~~s~~ela~~~~~~~stvs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~l~~~~~~~~  123 (207)
T 2fxa_A           44 YDLNINEHHILWIAYQLNGASISEIAKFGVMHVSTAFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVFWSLLEEF  123 (207)
T ss_dssp             GTCCHHHHHHHHHHHHHTSEEHHHHHHHTTCCHHHHHHHHHHHHHHTSEEEECC------CEEEECHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCCCCEEEEEEECHHHHHHHHHHHHHH
T ss_conf             79999999999999976994999999998869879999999999689988723898875689888988999999999999


Q ss_pred             HHCCC
Q ss_conf             00158
Q gi|254780987|r   81 KKRSD   85 (110)
Q Consensus        81 k~h~n   85 (110)
                      .++.+
T Consensus       124 ~~~~~  128 (207)
T 2fxa_A          124 DPTRN  128 (207)
T ss_dssp             CGGGC
T ss_pred             HHHHH
T ss_conf             99999


No 18 
>2bv6_A MGRA, HTH-type transcriptional regulator MGRA; multidrug resistance regulator, virulence determinant, transcriptional factors; 2.8A {Staphylococcus aureus} SCOP: a.4.5.28
Probab=74.08  E-value=2.4  Score=21.84  Aligned_cols=74  Identities=14%  Similarity=0.030  Sum_probs=44.3

Q ss_pred             CCCHHHHHCCCCCCCCCCCCHHHHHHHHC-CCCCHHHHHHHHHHCCCCHHHCCC--CC-CCEEECHHHHHHHHHHHHC
Q ss_conf             22336651588876576518999999877-788989999999987981220257--75-3201161135644564201
Q gi|254780987|r    6 GVNVLQDINLPTPNNLPYYTPTQLGKKLA-TKPSAIKVNKKLREWGFLLEEHES--GR-KRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus         6 ~~~~~~~~~LP~~~~~~~ltPTqlGk~lg-~k~SA~~vN~lL~~~GlQ~~~~~~--gr-kew~lT~~G~k~g~~~~dt   79 (110)
                      |++..|-.-|-.=.+.+-+++++|..+++ .+.+.-++=+.|...||-.....+  .| +...+||+|+.....+...
T Consensus        34 glt~~q~~vL~~i~~~~~~t~~~la~~l~~~~~~vs~~l~~L~~~gli~r~~~~~DrR~~~l~LT~~G~~~~~~~~~~  111 (142)
T 2bv6_A           34 NLTYPQFLVLTILWDESPVNVKKVVTELALDTGTVSPLLKRMEQVDLIKRERSEVDQREVFIHLTDKSETIRPELSNA  111 (142)
T ss_dssp             TCCHHHHHHHHHHHHSSEEEHHHHHHHTTCCTTTHHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHHHHHTTH
T ss_pred             CCCHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             979999999999997799899999999897987999999999988997983378888755644788799999999999


No 19 
>3kp7_A Transcriptional regulator TCAR; multiple drug resistance, biofilm, transcription regulation, binding, transcription regulator; 2.30A {Staphylococcus epidermidis RP62A} PDB: 3kp3_A* 3kp4_A* 3kp5_A* 3kp2_A
Probab=73.22  E-value=2.5  Score=21.74  Aligned_cols=59  Identities=19%  Similarity=0.049  Sum_probs=38.3

Q ss_pred             CCCCCCHHHHHHHHCCC-CCHHHHHHHHHHCCCCHHHC--CC-CCC--CEEECHHHHHHHHHHHHC
Q ss_conf             57651899999987778-89899999999879812202--57-753--201161135644564201
Q gi|254780987|r   20 NLPYYTPTQLGKKLATK-PSAIKVNKKLREWGFLLEEH--ES-GRK--RDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k-~SA~~vN~lL~~~GlQ~~~~--~~-grk--ew~lT~~G~k~g~~~~dt   79 (110)
                      +.+ .++++|+++++-. .+.-++=+.|...||-.-..  .+ .++  ...+||+|++....+...
T Consensus        49 ~~~-~t~~~la~~l~i~~~~vs~~i~~L~~~glv~r~r~~d~~D~R~~~l~LT~~G~~~~~~~~~~  113 (151)
T 3kp7_A           49 IEA-LTVGQITEKQGVNKAAVSRRVKKLLNAELVKLEKPDSNTDQRLKIIKLSNKGKKYIKERKAI  113 (151)
T ss_dssp             HSC-BCHHHHHHHHCSCSSHHHHHHHHHHHTTSEEC-----------CCBEECHHHHHHHHHHHHH
T ss_pred             CCC-CCHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHH
T ss_conf             289-99999999989688899999999988898301467765442244204678899999999999


No 20 
>2nyx_A Probable transcriptional regulatory protein, RV1404; alpha/beta, structural genomics, PSI-2, protein structure initiative; 2.30A {Mycobacterium tuberculosis H37RV}
Probab=73.06  E-value=2.7  Score=21.59  Aligned_cols=58  Identities=12%  Similarity=0.021  Sum_probs=38.5

Q ss_pred             CCCCCHHHHHHHHCC-CCCHHHHHHHHHHCCCCHHHCCCC-C--CCEEECHHHHHHHHHHHH
Q ss_conf             765189999998777-889899999999879812202577-5--320116113564456420
Q gi|254780987|r   21 LPYYTPTQLGKKLAT-KPSAIKVNKKLREWGFLLEEHESG-R--KRDVLTPKGAKGGGRYFD   78 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~-k~SA~~vN~lL~~~GlQ~~~~~~g-r--kew~lT~~G~k~g~~~~d   78 (110)
                      .+-.++++|++.++- +.+..++=+.|.+.||-....... +  ..+.+|++|++....+..
T Consensus        57 ~~~~~~~eLa~~l~i~~~~vs~~l~~Le~~GlV~r~~~~~D~R~~~i~LT~~G~~~~~~~~~  118 (168)
T 2nyx_A           57 HGPINLATLATLLGVQPSATGRMVDRLVGAELIDRLPHPTSRRELLAALTKRGRDVVRQVTE  118 (168)
T ss_dssp             HCSEEHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCEEEEEECCCCCCEEEEEECHHHHHHHHHHHH
T ss_conf             79969999999989698899999999816442786533778854788778879999999999


No 21 
>3bja_A Transcriptional regulator, MARR family, putative; NP_978771.1, putative MARR-like transcription regulator, structural genomics; 2.38A {Bacillus cereus atcc 10987}
Probab=72.56  E-value=3  Score=21.33  Aligned_cols=58  Identities=12%  Similarity=0.184  Sum_probs=42.3

Q ss_pred             CCCCHHHHHHHHC-CCCCHHHHHHHHHHCCCCHHHCCC-CCC--CEEECHHHHHHHHHHHHC
Q ss_conf             6518999999877-788989999999987981220257-753--201161135644564201
Q gi|254780987|r   22 PYYTPTQLGKKLA-TKPSAIKVNKKLREWGFLLEEHES-GRK--RDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        22 ~~ltPTqlGk~lg-~k~SA~~vN~lL~~~GlQ~~~~~~-grk--ew~lT~~G~k~g~~~~dt   79 (110)
                      +-.++++|++.++ .+.+.-++=+.|.+.||-.....+ .++  .-.+|++|++....+...
T Consensus        46 ~~~t~~~La~~l~~~~~tvs~~l~~L~~~gli~r~~~~~DrR~~~l~lT~~G~~~~~~~~~~  107 (139)
T 3bja_A           46 GKVSMSKLIENMGCVPSNMTTMIQRMKRDGYVMTEKNPNDQRETLVYLTKKGEETKKQVDVQ  107 (139)
T ss_dssp             CSEEHHHHHHHCSSCCTTHHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHCCCCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             99899999847086888999999999988987983058898867878898899999999999


No 22 
>2eth_A Transcriptional regulator, putative, MAR family; TM0816, structural genomics, PSI, protein structure initiative; 2.30A {Thermotoga maritima} SCOP: a.4.5.28
Probab=71.88  E-value=3.6  Score=20.89  Aligned_cols=55  Identities=22%  Similarity=0.263  Sum_probs=39.3

Q ss_pred             CCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHC
Q ss_conf             518999999877788989999---9999879812202577---53201161135644564201
Q gi|254780987|r   23 YYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        23 ~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt   79 (110)
                      -.|+++|++.++  +|.-.++   +.|.+.||-.....+.   .....+|++|++....+...
T Consensus        58 ~~t~~eLa~~l~--i~~~tvs~~i~~L~~~g~v~r~~~~~DrR~~~l~lT~~G~~~~~~~~~~  118 (154)
T 2eth_A           58 PKKMKEIAEFLS--TTKSNVTNVVDSLEKRGLVVREMDPVDRRTYRVVLTEKGKEIFGEILSN  118 (154)
T ss_dssp             CBCHHHHHHHTT--SCHHHHHHHHHHHHHTTSEEEEECTTTSSCEEEEECHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCHHHHHHHHHHHHH
T ss_conf             949999999989--7988999999999988890210355556401200589899999999999


No 23 
>2fa5_A Transcriptional regulator MARR/EMRR family; multiple antibiotics resistance repressor, XCC structural genomics, X-RAY diffraction; 1.80A {Xanthomonas campestris}
Probab=71.41  E-value=1.7  Score=22.73  Aligned_cols=59  Identities=20%  Similarity=0.279  Sum_probs=42.2

Q ss_pred             CCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHCCH
Q ss_conf             765189999998777889899999---999879812202577---5320116113564456420100
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDTGK   81 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt~k   81 (110)
                      .+-.++++|+..++  ++.-.++.   .|.+.||-.....++   .+...+|++|++....+.....
T Consensus        61 ~~~~t~~~La~~l~--i~~~~vs~~v~~L~~~glv~r~~~~~DrR~~~i~LT~~G~~~~~~~~~~~~  125 (162)
T 2fa5_A           61 YPGSSASEVSDRTA--MDKVAVSRAVARLLERGFIRRETHGDDRRRSMLALSPAGRQVYETVAPLVN  125 (162)
T ss_dssp             STTCCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEC---------CCCEECHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEECCCCCCCCEEEEEECHHHHHHHHHHHHHHH
T ss_conf             79989999999978--787159999999985798730457898885665789889999999999999


No 24 
>3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor, winged helix motif, DNA-binding; 1.40A {Methanobacterium thermoautotrophicum} PDB: 3bpx_A*
Probab=71.39  E-value=3.1  Score=21.23  Aligned_cols=60  Identities=17%  Similarity=0.187  Sum_probs=41.0

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHHHH---HHHCCCCHHHCCC-CCC--CEEECHHHHHHHHHHHHCCH
Q ss_conf             57651899999987778898999999---9987981220257-753--20116113564456420100
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVNKK---LREWGFLLEEHES-GRK--RDVLTPKGAKGGGRYFDTGK   81 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN~l---L~~~GlQ~~~~~~-grk--ew~lT~~G~k~g~~~~dt~k   81 (110)
                      +.+-.|+++|++.++  +|.-.+++.   |.+.||-...... .++  ...+|++|++....+.....
T Consensus        40 ~~~~~t~~eLa~~~~--~~~~~vs~~v~~L~~~glv~r~~~~~DrR~~~l~lT~~G~~l~~~~~~~~~  105 (138)
T 3bpv_A           40 REPGIKQDELATFFH--VDKGTIARTLRRLEESGFIEREQDPENRRRYILEVTRRGEEIIPLILKVEE  105 (138)
T ss_dssp             HSTTCBHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHTHHHHHHHHH
T ss_pred             HCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEECCCCCCCEEEEEECHHHHHHHHHHHHHHH
T ss_conf             589979999999989--798799999999996898786028998875687889899999999999999


No 25 
>1yg2_A Gene activator APHA; virulence factor, winged helix, transcription factor; 2.20A {Vibrio cholerae} SCOP: a.4.5.61
Probab=71.10  E-value=2.7  Score=21.53  Aligned_cols=60  Identities=22%  Similarity=0.262  Sum_probs=38.4

Q ss_pred             CCHHHHHHHHCCC------CCHH---HHHHHHHHCCCCHHH-----CCCCCCCEEECHHHHHHHHHHHHCCHHC
Q ss_conf             1899999987778------8989---999999987981220-----2577532011611356445642010001
Q gi|254780987|r   24 YTPTQLGKKLATK------PSAI---KVNKKLREWGFLLEE-----HESGRKRDVLTPKGAKGGGRYFDTGKKR   83 (110)
Q Consensus        24 ltPTqlGk~lg~k------~SA~---~vN~lL~~~GlQ~~~-----~~~grkew~lT~~G~k~g~~~~dt~k~h   83 (110)
                      .++=+|-+.|.--      +|.-   ..=+.|.+.||-...     .+++|+.+.+||+|++.+..|..++..+
T Consensus        16 ~~GYel~k~l~~~~~~~~~~s~g~IY~~L~kLe~~GlI~~~~~~~~~~p~rk~Y~IT~~Gr~~l~~wl~~~~~~   89 (179)
T 1yg2_A           16 ATGYDITKEFSASIGYFWKASHQQVYRELNKMGEQGLVTCVLEPQEGKPDRKVYSITQAGRSALGEWFDQPTAH   89 (179)
T ss_dssp             BCHHHHHHHHTTGGGGTCCCCHHHHHHHHHHHHHTTSEEECCC---------CEEECHHHHHHHHHHHHSCCCC
T ss_pred             CCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEEEECCCCCCCCEEEEECHHHHHHHHHHHHCCCCC
T ss_conf             89999999999984883078978289999999977976898512689987637787889999999998566447


No 26 
>2a61_A Transcriptional regulator TM0710; APC4350, MCSG, midwest center for structural genomics, PSI, protein structure initiative, MARR; 1.80A {Thermotoga maritima} SCOP: a.4.5.28
Probab=68.80  E-value=1.6  Score=22.88  Aligned_cols=72  Identities=22%  Similarity=0.156  Sum_probs=43.7

Q ss_pred             CCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC-C--CCEEECHHHHHHHHHHHHC
Q ss_conf             22336651588876576518999999877788989999---9999879812202577-5--3201161135644564201
Q gi|254780987|r    6 GVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG-R--KRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus         6 ~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g-r--kew~lT~~G~k~g~~~~dt   79 (110)
                      |++..|-.-|-.=...+-.|+++|.+.++  ++.-.+.   +.|.+.||-....... +  +...+|++|++....+.+.
T Consensus        30 gLt~~q~~vL~~i~~~~~~t~~ela~~~~--~~~~~vs~~v~~L~~~gli~~~~~~~DkR~~~i~lT~~G~~~~~~~~~~  107 (145)
T 2a61_A           30 GITPAQFDILQKIYFEGPKRPGELSVLLG--VAKSTVTGLVKRLEADGYLTRTPDPADRRAYFLVITRKGEEVIEKVIER  107 (145)
T ss_dssp             TCCHHHHHHHHHHHHHCCBCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHCCCEEEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             97999999999998779989999999989--7987899999998528937996758898867878898999999999999


No 27 
>2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple antibiotic-resistance repressor (MARR), structural genomics; HET: MSE; 2.07A {Listeria monocytogenes str}
Probab=67.97  E-value=2  Score=22.28  Aligned_cols=71  Identities=18%  Similarity=0.178  Sum_probs=42.9

Q ss_pred             HCCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHH---HHHHHHCCCCHHHCCC---CCC--CEEECHHHHHHHHHH
Q ss_conf             12233665158887657651899999987778898999---9999987981220257---753--201161135644564
Q gi|254780987|r    5 LGVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKV---NKKLREWGFLLEEHES---GRK--RDVLTPKGAKGGGRY   76 (110)
Q Consensus         5 ~~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~v---N~lL~~~GlQ~~~~~~---grk--ew~lT~~G~k~g~~~   76 (110)
                      +|++..|-.-|-.=.+.+-.++++|+++++  ++.-.+   =+.|...||-.....+   .++  ...+|++|++....+
T Consensus        37 ~glt~~q~~vL~~L~~~~~~t~~~La~~l~--~~~~tvs~~v~~L~~~glV~r~~~~~~~DrR~~~l~LT~~G~~~~~~~  114 (154)
T 2qww_A           37 LGLTIQQLAMINVIYSTPGISVADLTKRLI--ITGSSAAANVDGLISLGLVVKLNKTIPNDSMDLTLKLSKKGEDLSKRS  114 (154)
T ss_dssp             HTCCHHHHHHHHHHHHSTTEEHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEESCC--CTTCTTCEEEECHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEECCCCCCCCEEEECCCHHHHHHHHHH
T ss_conf             698999999999999779989999999979--787579999999997899799601566765610103488899999999


Q ss_pred             H
Q ss_conf             2
Q gi|254780987|r   77 F   77 (110)
Q Consensus        77 ~   77 (110)
                      .
T Consensus       115 ~  115 (154)
T 2qww_A          115 T  115 (154)
T ss_dssp             H
T ss_pred             H
T ss_conf             9


No 28 
>1jgs_A Multiple antibiotic resistance protein MARR; transcription regulation, DNA-binding, repressor; HET: SAL; 2.30A {Escherichia coli} SCOP: a.4.5.28
Probab=66.74  E-value=6  Score=19.71  Aligned_cols=57  Identities=19%  Similarity=0.121  Sum_probs=40.1

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCCC---CCEEECHHHHHHHHHHHH
Q ss_conf             5765189999998777889899999---9998798122025775---320116113564456420
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESGR---KRDVLTPKGAKGGGRYFD   78 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~gr---kew~lT~~G~k~g~~~~d   78 (110)
                      +.+..|+++|++.++  ++.-.|++   .|...||-.....++.   +...+|++|++....+..
T Consensus        45 ~~~~~t~~ela~~~~--~~~~~vs~~l~~L~~~g~i~r~~~~~D~R~~~i~lT~~G~~~~~~~~~  107 (138)
T 1jgs_A           45 CAACITPVELKKVLS--VDLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTGGAAICEQCHQ  107 (138)
T ss_dssp             HHSSBCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEECTTCSSCEEEEECHHHHHHHHHHHH
T ss_pred             HCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHH
T ss_conf             779989999999989--788799999999986897798556888875688889889999999999


No 29 
>2hr3_A Probable transcriptional regulator; MCSG, structural genomics, PSI-2, protein structure initiati midwest center for structural genomics; 2.40A {Pseudomonas aeruginosa} SCOP: a.4.5.28
Probab=66.56  E-value=5  Score=20.12  Aligned_cols=57  Identities=16%  Similarity=0.179  Sum_probs=39.3

Q ss_pred             CCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHC
Q ss_conf             76518999999877788989999---9999879812202577---53201161135644564201
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt   79 (110)
                      .+-.|+++|++.++  ++.-.+.   +.|.+.||-.....+.   +....+||+|++....+...
T Consensus        48 ~g~~t~~ela~~~~--~~~~tvs~~l~~L~~~glv~r~~~~~DrR~~~i~lT~~G~~~~~~~~~~  110 (147)
T 2hr3_A           48 GGDVTPSELAAAER--MRSSNLAALLRELERGGLIVRHADPQDGRRTRVSLSSEGRRNLYGNRAK  110 (147)
T ss_dssp             TSCBCHHHHHHHTT--CCHHHHHHHHHHHHHTTSEEEEC------CCEEEECHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEECCCCCCCCEEEECHHHHHHHHHHHHH
T ss_conf             99989999999989--7987999999999867966873578877620024788899999999999


No 30 
>3cdh_A Transcriptional regulator, MARR family; helix-turn-hleix, structural genomics, PSI-2, protein structure initiative; 2.69A {Silicibacter pomeroyi dss-3}
Probab=66.12  E-value=3.2  Score=21.16  Aligned_cols=72  Identities=17%  Similarity=0.115  Sum_probs=42.9

Q ss_pred             CCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC--C-CCEEECHHHHHHHHHHHHC
Q ss_conf             22336651588876576518999999877788989999---9999879812202577--5-3201161135644564201
Q gi|254780987|r    6 GVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG--R-KRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus         6 ~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g--r-kew~lT~~G~k~g~~~~dt   79 (110)
                      |+...|-.-|-.=.+.+-.++++|.+.++  ++--.+.   +.|.+.||-......+  | +...+|++|+.....+...
T Consensus        40 gLt~~q~~iL~~l~~~~~~t~~eLa~~l~--~~~~tvs~~v~~L~~~Glv~r~~~~~D~R~~~l~LT~~G~~~~~~~~~~  117 (155)
T 3cdh_A           40 GLRVPEWRVLACLVDNDAMMITRLAKLSL--MEQSRMTRIVDQMDARGLVTRVADAKDKRRVRVRLTDDGRALAESLVAS  117 (155)
T ss_dssp             TCCHHHHHHHHHHSSCSCBCHHHHHHHTT--CCHHHHHHHHHHHHHTTSEEECC------CCCEEECHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             96999999999998579969999999989--6998899999999968977983158888867878898999999999999


No 31 
>3edy_A Tripeptidyl-peptidase 1; protease, TPP1, sedolisin, batten disease, lincl, zymogen, prodomain, exopeptidase, endopeptidase, S53 family, CLN2; HET: NAG; 1.85A {Homo sapiens} PDB: 3ee6_A*
Probab=65.75  E-value=5.8  Score=19.77  Aligned_cols=50  Identities=20%  Similarity=0.199  Sum_probs=36.0

Q ss_pred             HHHHHCCCC-CCCCCCCCHHHHHHHHCCCCCHH---HHHHHHHHCCCCHHHCCCCC
Q ss_conf             366515888-76576518999999877788989---99999998798122025775
Q gi|254780987|r    9 VLQDINLPT-PNNLPYYTPTQLGKKLATKPSAI---KVNKKLREWGFLLEEHESGR   60 (110)
Q Consensus         9 ~~~~~~LP~-~~~~~~ltPTqlGk~lg~k~SA~---~vN~lL~~~GlQ~~~~~~gr   60 (110)
                      .++++.=|. |+--.||||.|+.++++|  |..   +|-..|...||+.......+
T Consensus        45 ~~~~vsdP~S~~Y~~~Lt~~q~~~~f~p--s~~~~~~V~~wL~~~G~~v~~~~~~~   98 (544)
T 3edy_A           45 LVQAVSDPSSPQYGKYLTLENVADLVRP--SPLTLHTVQKWLLAAGAQKCHSVITQ   98 (544)
T ss_dssp             HHHHHHCTTSTTTTCCCCHHHHHHHHCC--CHHHHHHHHHHHHHHTCEEEEECTTS
T ss_pred             HHHHHCCCCCCCCCCCCCHHHHHHHHCC--CHHHHHHHHHHHHHCCCCEEEEECCC
T ss_conf             9998559999876888999999988792--99999999999998799536652478


No 32 
>3ech_A MEXR, multidrug resistance operon repressor; winged helix, helix-turn-helix, protein-peptide complex; 1.80A {Pseudomonas aeruginosa} PDB: 1lnw_A 3mex_A
Probab=65.17  E-value=8  Score=19.01  Aligned_cols=61  Identities=13%  Similarity=0.040  Sum_probs=40.7

Q ss_pred             CCCCCCHHHHHHHHCCC-CCHHHHHHHHHHCCCCHHHCCC--CC-CCEEECHHHHHHHHHHHHCC
Q ss_conf             57651899999987778-8989999999987981220257--75-32011611356445642010
Q gi|254780987|r   20 NLPYYTPTQLGKKLATK-PSAIKVNKKLREWGFLLEEHES--GR-KRDVLTPKGAKGGGRYFDTG   80 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k-~SA~~vN~lL~~~GlQ~~~~~~--gr-kew~lT~~G~k~g~~~~dt~   80 (110)
                      +.+-.++++|.+.++-. .+..++=+.|.+.||-.....+  +| ....+||+|++....+....
T Consensus        48 ~~~~~t~~~La~~l~i~~~~vsr~l~~L~~~g~v~r~~~~~D~R~~~l~lT~~G~~~~~~~~~~~  112 (142)
T 3ech_A           48 EQRGLNLQDLGRQMCRDKALITRKIRELEGRNLVRRERNPSDQRSFQLFLTDEGLAIHLHAELIM  112 (142)
T ss_dssp             HTTTCCHHHHHHHHC---CHHHHHHHHHHHTTSEEC----------CCEECHHHHHHHHHHHHHH
T ss_pred             HCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCCEEECCCCCCCEEEEEECHHHHHHHHHHHHHH
T ss_conf             77998999999998969879999999999879853503788887456578888999999999999


No 33 
>3bj6_A Transcriptional regulator, MARR family; helix-turn-helix, trasnscription regulator, structural genomics, PSI-2; 2.01A {Silicibacter pomeroyi dss-3}
Probab=64.44  E-value=2.8  Score=21.51  Aligned_cols=57  Identities=21%  Similarity=0.193  Sum_probs=38.5

Q ss_pred             CCCCCHHHHHHHHCCCCCHHHH---HHHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHC
Q ss_conf             7651899999987778898999---99999879812202577---53201161135644564201
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSAIKV---NKKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA~~v---N~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt   79 (110)
                      .+-.++++|+.+++  ++.-.+   =+.|.+.||-.....+.   .+...+|++|++........
T Consensus        52 ~~~~t~~~La~~l~--~~~~~is~~l~~L~~~gli~r~~~~~D~R~~~i~LT~~G~~~~~~~~~~  114 (152)
T 3bj6_A           52 TPGATAPQLGAALQ--MKRQYISRILQEVQRAGLIERRTNPEHARSHRYWLTPRGEAIITAIRAD  114 (152)
T ss_dssp             STTEEHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEECCSSSTTSCEEEECHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEECCCCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             79989999999989--6987999999999988997742499889845342589899999999999


No 34 
>3bdd_A Regulatory protein MARR; putative multiple antibiotic-resistance repressor, structura genomics, joint center for structural genomics, JCSG; 2.20A {Streptococcus suis 89}
Probab=63.97  E-value=2.2  Score=22.10  Aligned_cols=67  Identities=18%  Similarity=0.160  Sum_probs=41.0

Q ss_pred             HCCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCC--CC-CCEEECHHHHHHH
Q ss_conf             1223366515888765765189999998777889899999---99987981220257--75-3201161135644
Q gi|254780987|r    5 LGVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHES--GR-KRDVLTPKGAKGG   73 (110)
Q Consensus         5 ~~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~--gr-kew~lT~~G~k~g   73 (110)
                      +|+...|-.-|-.=.+.+-.++.+|++.++  ++.-.+++   .|.+.||-.....+  .| ....+|++|++..
T Consensus        27 ~glt~~q~~vL~~l~~~~~~t~~~la~~l~--i~~~tvs~~v~~L~~~gli~r~~~~~D~R~~~i~lT~~G~~~~   99 (142)
T 3bdd_A           27 LGISLTRYSILQTLLKDAPLHQLALQERLQ--IDRAAVTRHLKLLEESGYIIRKRNPDNQREVLVWPTEQAREAL   99 (142)
T ss_dssp             HSSCHHHHHHHHHHHHHCSBCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEECCCCCCCCEEEEEECHHHHHHH
T ss_conf             496999999999998779989999999989--6986899999999858987844899998966878898899999


No 35 
>2pex_A Transcriptional regulator OHRR; transcription regulator; 1.90A {Xanthomonas campestris} PDB: 2pfb_A
Probab=63.66  E-value=2.2  Score=22.10  Aligned_cols=69  Identities=13%  Similarity=0.119  Sum_probs=42.0

Q ss_pred             CCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHH---HHHHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHH
Q ss_conf             223366515888765765189999998777889899---999999879812202577---53201161135644564
Q gi|254780987|r    6 GVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIK---VNKKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRY   76 (110)
Q Consensus         6 ~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~---vN~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~   76 (110)
                      |+...|-.-|-.=.+.+-.++++|++.++  ++.-.   +=+.|...||-.....+.   .....+||+|++.....
T Consensus        44 gLt~~q~~vL~~l~~~~~~~~~eLa~~l~--~~~~tvs~~v~~Le~~GlV~r~~~~~D~R~~~l~LT~~G~~~~~~~  118 (153)
T 2pex_A           44 DLTYPQYLVMLVLWETDERSVSEIGERLY--LDSATLTPLLKRLQAAGLVTRTRAASDERQVIIALTETGRALRSKA  118 (153)
T ss_dssp             TCCHHHHHHHHHHHHSCSEEHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEC-------CEEEECHHHHHGGGGS
T ss_pred             CCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEECCCCCCCEEEEEECHHHHHHHHHH
T ss_conf             97999999999998479989999999989--6886899999999988998981189988747878898999999999


No 36 
>3boq_A Transcriptional regulator, MARR family; structural genomics, PSI-2, protein structure initiative; 2.39A {Silicibacter pomeroyi dss-3}
Probab=62.84  E-value=8.3  Score=18.91  Aligned_cols=58  Identities=14%  Similarity=0.074  Sum_probs=41.1

Q ss_pred             CCCCHHHHHHHHC-CCCCHHHHHHHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHC
Q ss_conf             6518999999877-7889899999999879812202577---53201161135644564201
Q gi|254780987|r   22 PYYTPTQLGKKLA-TKPSAIKVNKKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        22 ~~ltPTqlGk~lg-~k~SA~~vN~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt   79 (110)
                      +-.++++|+++++ .+.+.-.+=..|...||-.....+.   .....+|++|+.....+...
T Consensus        61 ~~~t~~~La~~~~v~~~~vs~~i~~Le~~Glv~r~~~~~DrR~~~v~lT~~G~~~~~~~~~~  122 (160)
T 3boq_A           61 DGLSMGKLSGALKVTNGNVSGLVNRLIKDGMVVKAMSADDRRSFSAKLTDAGLTTFKQASEA  122 (160)
T ss_dssp             TCEEHHHHHHHCSSCCSCHHHHHHHHHHHTSEEEC--------CEEEECHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             99989999999896885899999999867987987768888757887788899999999999


No 37 
>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; 1.78A {Listeria innocua}
Probab=62.81  E-value=2.1  Score=22.18  Aligned_cols=73  Identities=18%  Similarity=0.013  Sum_probs=45.7

Q ss_pred             CCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHC
Q ss_conf             223366515888765765189999998777889899999---999879812202577---53201161135644564201
Q gi|254780987|r    6 GVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus         6 ~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt   79 (110)
                      |++..|-.-|-.=.+.+-.++.+|.+.++  ++.-.++.   .|...||-.....+.   .+...+||+|++....+...
T Consensus        34 glt~~q~~iL~~l~~~~~~t~~~La~~l~--i~~~~vs~~i~~L~~~g~v~r~~~~~D~R~~~l~LT~~G~~~~~~~~~~  111 (143)
T 3oop_A           34 DVTPEQWSVLEGIEANEPISQKEIALWTK--KDTPTVNRIVDVLLRKELIVREISTEDRRISLLSLTDKGRKETTELRDI  111 (143)
T ss_dssp             SSCHHHHHHHHHHHHHSSEEHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEC----CCSCEEEECHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             99999999999998689979999999989--6997999999999756774341058998944768898999999999999


Q ss_pred             C
Q ss_conf             0
Q gi|254780987|r   80 G   80 (110)
Q Consensus        80 ~   80 (110)
                      .
T Consensus       112 ~  112 (143)
T 3oop_A          112 V  112 (143)
T ss_dssp             H
T ss_pred             H
T ss_conf             9


No 38 
>1s3j_A YUSO protein; structural genomics, MARR transcriptional regulator family, PSI, protein structure initiative; HET: MSE; 2.25A {Bacillus subtilis} SCOP: a.4.5.28
Probab=61.33  E-value=2.5  Score=21.77  Aligned_cols=72  Identities=15%  Similarity=0.187  Sum_probs=44.2

Q ss_pred             CCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC-CC--CEEECHHHHHHHHHHHHC
Q ss_conf             22336651588876576518999999877788989999---9999879812202577-53--201161135644564201
Q gi|254780987|r    6 GVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG-RK--RDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus         6 ~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g-rk--ew~lT~~G~k~g~~~~dt   79 (110)
                      |++..|-.-|-.=.+.+-.++++|.+.++  ++.-.+.   +.|.+.||-.....+. ++  .-.+|++|++....+...
T Consensus        34 glt~~q~~vL~~l~~~~~~t~~ela~~~~--~~~~~vs~~l~~L~~~glv~r~~~~~D~R~~~v~LT~~G~~~~~~~~~~  111 (155)
T 1s3j_A           34 GVTPAQLFVLASLKKHGSLKVSEIAERME--VKPSAVTLMADRLEQKNLIARTHNTKDRRVIDLSLTDEGDIKFEEVLAG  111 (155)
T ss_dssp             TCCHHHHHHHHHHHHHSEEEHHHHHHHHT--SCHHHHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHCCCHHHHHHHHHHHHH
T ss_conf             98999999999999869979999999989--6998999999999862425520233677520002489899999999999


No 39 
>3nqo_A MARR-family transcriptional regulator; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE PG4; 2.20A {Clostridium difficile}
Probab=60.88  E-value=9  Score=18.74  Aligned_cols=58  Identities=17%  Similarity=0.091  Sum_probs=39.1

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCC-CC--CCEEECHHHHHHHHHHHHC
Q ss_conf             576518999999877788989999---999987981220257-75--3201161135644564201
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHES-GR--KRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~-gr--kew~lT~~G~k~g~~~~dt   79 (110)
                      .++-.|+++|.+.++  ++.-.|.   +.|...||-.....+ .+  ..-.+||+|++....+...
T Consensus        54 ~~~~~t~~eLa~~l~--i~~stvs~~v~~Le~~glI~r~~~~~D~R~~~l~LT~kG~~~~~~~~~~  117 (189)
T 3nqo_A           54 PEEETTLNNIARKMG--TSKQNINRLVANLEKNGYVDVIPSPHDKRAINVKVTDLGKKVMVTCSRT  117 (189)
T ss_dssp             CGGGCCHHHHHHHHT--SCHHHHHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCCEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             899909999999989--6886999999999987986374326765401346788899999999999


No 40 
>3fm5_A Transcriptional regulator; MCSG, PF04017, PSI, MARR, structural genomics, protein structure initiative; HET: GOL; 2.00A {Rhodococcus jostii RHA1}
Probab=60.58  E-value=4.4  Score=20.44  Aligned_cols=59  Identities=10%  Similarity=0.099  Sum_probs=40.3

Q ss_pred             CCCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHC
Q ss_conf             6576518999999877788989999---9999879812202577---53201161135644564201
Q gi|254780987|r   19 NNLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        19 ~~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt   79 (110)
                      ++.+-.|+.+|.+.++  ++.-.++   +.|.+.||-.....+.   +....+|++|++....+...
T Consensus        50 ~~~~~~t~~ela~~l~--~~~~~vsr~v~~L~~~glI~r~~~~~D~R~~~l~LT~~G~~l~~~~~~~  114 (150)
T 3fm5_A           50 EQAEGVNQRGVAATMG--LDPSQIVGLVDELEERGLVVRTLDPSDRRNKLIAATEEGRRLRDDAKAR  114 (150)
T ss_dssp             HSTTCCCSHHHHHHHT--CCHHHHHHHHHHHHTTTSEEC-----------CEECHHHHHHHHHHHHH
T ss_pred             HCCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEECCCCCCCCHHHCCCHHHHHHHHHHHHH
T ss_conf             8598989999999978--8787788999989764764660186656612430589899999999999


No 41 
>1lj9_A Transcriptional regulator SLYA; HTH DNA binding protein, structural genomics, PSI, protein structure initiative; 1.60A {Enterococcus faecalis} SCOP: a.4.5.28
Probab=60.22  E-value=3.3  Score=21.11  Aligned_cols=73  Identities=18%  Similarity=0.193  Sum_probs=42.6

Q ss_pred             HCCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCC--C-CCEEECHHHHHHHHHHHH
Q ss_conf             1223366515888765765189999998777889899999---999879812202577--5-320116113564456420
Q gi|254780987|r    5 LGVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESG--R-KRDVLTPKGAKGGGRYFD   78 (110)
Q Consensus         5 ~~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~g--r-kew~lT~~G~k~g~~~~d   78 (110)
                      +|++..|-.-|-.=.+.+-.++++|++.++  ++.-.++.   .|.+.||-.....+.  | ..-.+||+|++.-..+..
T Consensus        25 ~glt~~q~~vL~~l~~~~~~t~~~La~~l~--i~~~~vs~~v~~L~~~g~i~r~~~~~D~R~~~l~LT~~G~~~~~~~~~  102 (144)
T 1lj9_A           25 LSLTRGQYLYLVRVCENPGIIQEKIAELIK--VDRTTAARAIKRLEEQGFIYRQEDASNKKIKRIYATEKGKNVYPIIVR  102 (144)
T ss_dssp             GTCTTTHHHHHHHHHHSTTEEHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEECCCCCCCCCEEEEECHHHHHHHHHHHH
T ss_conf             798999999999998489979999999989--788899999999996898631148888880022588899999999999


Q ss_pred             C
Q ss_conf             1
Q gi|254780987|r   79 T   79 (110)
Q Consensus        79 t   79 (110)
                      .
T Consensus       103 ~  103 (144)
T 1lj9_A          103 E  103 (144)
T ss_dssp             H
T ss_pred             H
T ss_conf             9


No 42 
>3jw4_A Transcriptional regulator, MARR/EMRR family; DNA-binding protein, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Clostridium acetobutylicum}
Probab=58.88  E-value=11  Score=18.34  Aligned_cols=62  Identities=16%  Similarity=0.159  Sum_probs=42.1

Q ss_pred             CCCCCCCCHHHHHHHHC-CCCCHHHHHHHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHC
Q ss_conf             76576518999999877-7889899999999879812202577---53201161135644564201
Q gi|254780987|r   18 PNNLPYYTPTQLGKKLA-TKPSAIKVNKKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        18 ~~~~~~ltPTqlGk~lg-~k~SA~~vN~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt   79 (110)
                      .+.++-.|+.+|.++++ .+.+.-++=+.|.+.||-.....+.   .....+||+|++....+...
T Consensus        52 ~~~~~~it~~eLa~~l~~~~~~~sr~l~~L~~~glI~r~~~~~D~R~~~l~LT~~G~~~~~~~~~~  117 (148)
T 3jw4_A           52 ENQESGIIQKDLAQFFGRRGASITSMLQGLEKKGYIERRIPENNARQKNIYVLPKGAALVEEFNNI  117 (148)
T ss_dssp             HHTTTCCCHHHHHHC------CHHHHHHHHHHTTSBCCC--------CCCCBCHHHHHHHHHHHHH
T ss_pred             HCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             379999399999999897785899999999988885105778888834768898899999999999


No 43 
>2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator, APC5857, structural genomics, PSI, protein structure initiative; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28
Probab=58.57  E-value=9.5  Score=18.60  Aligned_cols=56  Identities=18%  Similarity=0.067  Sum_probs=38.2

Q ss_pred             CCCCHHHHHHHHCCCCCHHH---HHHHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHC
Q ss_conf             65189999998777889899---999999879812202577---53201161135644564201
Q gi|254780987|r   22 PYYTPTQLGKKLATKPSAIK---VNKKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        22 ~~ltPTqlGk~lg~k~SA~~---vN~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt   79 (110)
                      +-.++++|+++++  ++.-.   +-+.|.+.||-.....+.   .+...+||+|++....+...
T Consensus        51 ~~~t~~eL~~~~~--~~~~~vs~~i~~L~~~glI~r~~~~~D~R~~~i~LT~~G~~~~~~~~~~  112 (146)
T 2fbh_A           51 DSPTQRELAQSVG--VEGPTLARLLDGLESQGLVRRLAVAEDRRAKHIVLTPKADVLIADIEAI  112 (146)
T ss_dssp             SCCBHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEECCBTTBCSCEEEECTTHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEECCCCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             9999999999989--6898999999999639877863678998956878898899999999999


No 44 
>3cjn_A Transcriptional regulator, MARR family; structural genomics, PSI-2, protein structure initiative; 1.95A {Silicibacter pomeroyi dss-3}
Probab=57.82  E-value=3.6  Score=20.89  Aligned_cols=59  Identities=20%  Similarity=0.150  Sum_probs=38.5

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHCC
Q ss_conf             5765189999998777889899999---999879812202577---532011611356445642010
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDTG   80 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt~   80 (110)
                      ..+-.|+++|+++++  ++.-.|++   .|.+.||-.....+.   .+.-.+||+|++....+....
T Consensus        63 ~~~~~t~~~La~~~~--~~~~~vsr~v~~L~~~glI~r~~~~~D~R~~~l~lT~~G~~~~~~~~~~~  127 (162)
T 3cjn_A           63 AKDGLPIGTLGIFAV--VEQSTLSRALDGLQADGLVRREVDSDDQRSSRVYLTPAGRAVYDRLWPHM  127 (162)
T ss_dssp             HSCSEEHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEEC--CCSSEEEEECHHHHHHHHHHHHHH
T ss_pred             HCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHHHH
T ss_conf             479989999999989--79889999999998689668852268888667678988999999999999


No 45 
>2fbi_A Probable transcriptional regulator; MARR, APC5816, structural genomics, PSI, protein structure initiative; 2.10A {Pseudomonas aeruginosa} SCOP: a.4.5.28
Probab=57.51  E-value=2.5  Score=21.78  Aligned_cols=57  Identities=18%  Similarity=-0.007  Sum_probs=39.0

Q ss_pred             CCCCCHHHHHHHHCCCCCHHH---HHHHHHHCCCCHHHCCCC--C-CCEEECHHHHHHHHHHHHC
Q ss_conf             765189999998777889899---999999879812202577--5-3201161135644564201
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSAIK---VNKKLREWGFLLEEHESG--R-KRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA~~---vN~lL~~~GlQ~~~~~~g--r-kew~lT~~G~k~g~~~~dt   79 (110)
                      .+-.++++|.++++  ++.-.   +=+.|...||-.....+.  | +...+||+|++....+...
T Consensus        48 ~~~~~~~~la~~l~--i~~~~vs~~i~~L~~~glI~~~~~~~D~R~~~l~LT~~G~~~~~~~~~~  110 (142)
T 2fbi_A           48 QGEMESYQLANQAC--ILRPSMTGVLARLERDGIVRRWKAPKDQRRVYVNLTEKGQQCFVSMSGD  110 (142)
T ss_dssp             HCSEEHHHHHHHTT--CCHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             79979999999979--8988999999999958987983068898867878898899999999999


No 46 
>1xmk_A Double-stranded RNA-specific adenosine deaminase; winged helix-turn-helix, RNA editing, interferon, ADAR1, hydrolase; 0.97A {Homo sapiens} SCOP: a.4.5.19
Probab=57.46  E-value=4.2  Score=20.54  Aligned_cols=46  Identities=17%  Similarity=0.024  Sum_probs=31.9

Q ss_pred             CCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHCCC--CCCCEEECHHHH
Q ss_conf             18999999877788989999999987981220257--753201161135
Q gi|254780987|r   24 YTPTQLGKKLATKPSAIKVNKKLREWGFLLEEHES--GRKRDVLTPKGA   70 (110)
Q Consensus        24 ltPTqlGk~lg~k~SA~~vN~lL~~~GlQ~~~~~~--grkew~lT~~G~   70 (110)
                      -++-+|.+.||-+ .|+.||..|-+.-=|-..++.  .-+.|.+|++..
T Consensus        26 stAl~iAk~LGl~-kakeVN~~LY~L~k~g~v~k~~~tPP~W~l~~~~~   73 (79)
T 1xmk_A           26 SSALNLAKNIGLT-KARDINAVLIDMERQGDVYRQGTTPPIWHLTDKKR   73 (79)
T ss_dssp             EEHHHHHHHHCGG-GHHHHHHHHHHHHHTTSEEEECSSSCEEEECHHHH
T ss_pred             CHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCEECCCCCCCCEEEHHHHH
T ss_conf             5399999992997-26777499999997678122799899634107378


No 47 
>1z91_A Organic hydroperoxide resistance transcriptional regulator; OHRR, MARR family, bacterial transcription factor, DNA binding protein; 2.50A {Bacillus subtilis} SCOP: a.4.5.28 PDB: 1z9c_A*
Probab=56.79  E-value=2.1  Score=22.13  Aligned_cols=71  Identities=17%  Similarity=0.150  Sum_probs=44.0

Q ss_pred             HCCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHH---HHHHHHHCCCCHHHCCCC-CC--CEEECHHHHHHHHHHH
Q ss_conf             1223366515888765765189999998777889899---999999879812202577-53--2011611356445642
Q gi|254780987|r    5 LGVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIK---VNKKLREWGFLLEEHESG-RK--RDVLTPKGAKGGGRYF   77 (110)
Q Consensus         5 ~~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~---vN~lL~~~GlQ~~~~~~g-rk--ew~lT~~G~k~g~~~~   77 (110)
                      +|++-.|-.-|-.=.+.+-.|+++|++.++  ++.-.   +=+.|...||-.....+. ++  ...+|++|++....+.
T Consensus        36 ~glt~~q~~vL~~l~~~~~~t~~eLa~~~~--i~~~tit~~i~~L~~~g~v~r~~~~~D~R~~~l~lT~~G~~~~~~~~  112 (147)
T 1z91_A           36 LNITYPQYLALLLLWEHETLTVKKMGEQLY--LDSGTLTPMLKRMEQQGLITRKRSEEDERSVLISLTEDGALLKEKAV  112 (147)
T ss_dssp             TCCCHHHHHHHHHHHHHSEEEHHHHHHTTT--CCHHHHHHHHHHHHHHTSEECCBCSSCTTSBEEEECHHHHSGGGGTT
T ss_pred             CCCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHH
T ss_conf             698999999999999779949999999979--78878999999999889979867788775468788988999999999


No 48 
>3deu_A Transcriptional regulator SLYA; MARR, WING-helix, transcription regulator, activator, DNA-binding, repressor; HET: SAL; 2.30A {Salmonella typhimurium} SCOP: a.4.5.28
Probab=56.61  E-value=4.8  Score=20.20  Aligned_cols=56  Identities=20%  Similarity=0.157  Sum_probs=36.8

Q ss_pred             CCCCCHHHHHHHHCCCCCHH---HHHHHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHH
Q ss_conf             76518999999877788989---9999999879812202577---5320116113564456420
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSAI---KVNKKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFD   78 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA~---~vN~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~d   78 (110)
                      .+-.++++|.+.++  ++.-   ++=+.|...||-.....+.   .+...+||+|++....+-.
T Consensus        66 ~~~~t~~eLa~~l~--i~~stvsr~v~~L~~~GlI~r~~~~~DrR~~~v~LT~~G~~~~~~~~~  127 (166)
T 3deu_A           66 PPDQSQIQLAKAIG--IEQPSLVRTLDQLEDKGLISRQTCASDRRAKRIKLTEKAEPLIAEMEE  127 (166)
T ss_dssp             CSSEEHHHHHHHHT--SCHHHHHHHHHHHHHTTSEEEC--------CEEEECGGGHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEECCCCCCCEEEEEECHHHHHHHHHHHH
T ss_conf             98979999999979--899899999999985898886131689885787778769999999999


No 49 
>1y0u_A Arsenical resistance operon repressor, putative; structural genomics, protein structure initiative, PSI; HET: MSE; 1.60A {Archaeoglobus fulgidus dsm 4304} SCOP: a.4.5.5
Probab=56.35  E-value=12  Score=18.10  Aligned_cols=41  Identities=20%  Similarity=0.137  Sum_probs=30.1

Q ss_pred             CCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCCCCCEEECHHHH
Q ss_conf             18999999877788989999---999987981220257753201161135
Q gi|254780987|r   24 YTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESGRKRDVLTPKGA   70 (110)
Q Consensus        24 ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~grkew~lT~~G~   70 (110)
                      .+.++|.+.++  +|--.+.   +.|.++||-...    ++.|++|++|+
T Consensus        44 ~~~~eLa~~lg--~s~stvs~HL~~L~~aGLV~~~----~~~y~lt~~G~   87 (96)
T 1y0u_A           44 RSEEEIMQTLS--LSKKQLDYHLKVLEAGFCIERV----GERWVVTDAGK   87 (96)
T ss_dssp             CCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEE----TTEEEECTTTC
T ss_pred             CCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEE----CCEEEECCCCH
T ss_conf             97999999989--1998999999999988967984----79899865774


No 50 
>2wte_A CSA3; antiviral protein, viral resistance, winged helix-turn-helix prnai nucleotide-binding domain; HET: MSE; 1.80A {Sulfolobus solfataricus}
Probab=55.94  E-value=9  Score=18.73  Aligned_cols=52  Identities=19%  Similarity=0.165  Sum_probs=35.7

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCCCCCEEECHHHHHHHHH
Q ss_conf             5765189999998777889899999---9998798122025775320116113564456
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESGRKRDVLTPKGAKGGGR   75 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~   75 (110)
                      +.+..+.++|.+++|  +|...+.+   .|.+.||-..  .+.++...+|++|......
T Consensus       163 ~~~~~s~~ela~~l~--~s~~tv~r~l~~Le~~GlV~r--~~r~~~v~LT~~G~~~~~~  217 (244)
T 2wte_A          163 ETKGTGITELAKMLD--KSEKTLINKIAELKKFGILTQ--KGKDRKVELNELGLNVIKL  217 (244)
T ss_dssp             HHTCBCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEE--ETTTTEEEECHHHHHHHHH
T ss_pred             HCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEE--ECCCCEEEECHHHHHHHHH
T ss_conf             779989999999979--798899999999998899998--3782279987879999999


No 51 
>3f3x_A Transcriptional regulator, MARR family, putative; DNA binding protein, DNA-binding, transcription regulation; 1.90A {Sulfolobus solfataricus}
Probab=55.44  E-value=3.6  Score=20.91  Aligned_cols=54  Identities=19%  Similarity=0.166  Sum_probs=37.5

Q ss_pred             CCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC-CC--CEEECHHHHHHHHHHHHC
Q ss_conf             18999999877788989999---9999879812202577-53--201161135644564201
Q gi|254780987|r   24 YTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG-RK--RDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        24 ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g-rk--ew~lT~~G~k~g~~~~dt   79 (110)
                      .++++|+++++  +|.-++.   +.|.+.||-.....+. ++  .-.+|++|.+....+...
T Consensus        51 ~t~~~la~~~~--~~~~tvs~~i~~L~~~Glv~r~~~~~D~R~~~i~LT~~G~~~~~~~~~~  110 (144)
T 3f3x_A           51 RSMVYLANRYF--VTQSAITAAVDKLEAKGLVRRIRDSKDRRIVIVEITPKGRQVLLEANEV  110 (144)
T ss_dssp             EEHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHC--CCHHHHHHHHHHHHHCCCCEECCCCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             69999999989--7886899999999988984444778888845767898999999999999


No 52 
>2rkh_A Putative APHA-like transcription factor; ZP_00208345.1, structural genomics, joint center for structural genomics, JCSG; 2.00A {Magnetospirillum magnetotacticum ms-1}
Probab=53.73  E-value=7  Score=19.32  Aligned_cols=38  Identities=11%  Similarity=0.026  Sum_probs=28.4

Q ss_pred             HHHHHCCCCHHH----CCCCCCCEEECHHHHHHHHHHHHCCH
Q ss_conf             999987981220----25775320116113564456420100
Q gi|254780987|r   44 KKLREWGFLLEE----HESGRKRDVLTPKGAKGGGRYFDTGK   81 (110)
Q Consensus        44 ~lL~~~GlQ~~~----~~~grkew~lT~~G~k~g~~~~dt~k   81 (110)
                      +.|.+.||-...    ..+.|+.+.+|++|++.+..|...+.
T Consensus        56 ~kLe~~GlI~~~e~~~~~p~rkvY~IT~~Gr~~l~~wl~~~~   97 (180)
T 2rkh_A           56 ELLRYEGLVEAVDDGQGMEDDAMLAISAAGRRELHSLLTARL   97 (180)
T ss_dssp             HHHHHTTSEECCC--------CEEEECHHHHHHHHHHHSCCC
T ss_pred             HHHHHCCCEEEEECCCCCCCCEEEEECHHHHHHHHHHHHCCC
T ss_conf             999986980143103689876588856689999999987425


No 53 
>2w48_A Sorbitol operon regulator; SORC, activator, repressor, DNA-binding, transcription, transcription regulator, transcription regulation; 3.20A {Klebsiella pneumoniae}
Probab=51.42  E-value=11  Score=18.22  Aligned_cols=26  Identities=15%  Similarity=0.209  Sum_probs=22.8

Q ss_pred             CCCCHHHHHHHHCCCCCHHHHHHHHHHC
Q ss_conf             6518999999877788989999999987
Q gi|254780987|r   22 PYYTPTQLGKKLATKPSAIKVNKKLREW   49 (110)
Q Consensus        22 ~~ltPTqlGk~lg~k~SA~~vN~lL~~~   49 (110)
                      +-+|-.||+++||  +|-..|+++|+++
T Consensus        20 ~g~tQ~eIA~~lg--iSR~~VsRlL~~A   45 (315)
T 2w48_A           20 QDMTQAQIARELG--IYRTTISRLLKRG   45 (315)
T ss_dssp             SCCCHHHHHHHTT--CCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHC--CCHHHHHHHHHHH
T ss_conf             4999999999879--5999999999999


No 54 
>2nnn_A Probable transcriptional regulator; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; 2.40A {Pseudomonas aeruginosa}
Probab=49.54  E-value=4.8  Score=20.21  Aligned_cols=58  Identities=17%  Similarity=0.199  Sum_probs=38.8

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC-C--CCEEECHHHHHHHHHHHHC
Q ss_conf             576518999999877788989999---9999879812202577-5--3201161135644564201
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG-R--KRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g-r--kew~lT~~G~k~g~~~~dt   79 (110)
                      +.+-.++++|.+.++  ++.-.|.   +.|.+.||-.....+. +  +...+|++|++........
T Consensus        49 ~~~~~t~~eLa~~~~--~~~~~vs~~i~~L~~~glv~r~~~~~D~R~~~l~lT~~G~~~~~~~~~~  112 (140)
T 2nnn_A           49 ETGPCPQNQLGRLTA--MDAATIKGVVERLDKRGLIQRSADPDDGRRLLVSLSPAGRAELEAGLAA  112 (140)
T ss_dssp             HHSSBCHHHHHHHTT--CCHHHHHHHHHHHHHTTCEEEEEETTEEEEEEEEECHHHHHHHHHHHHH
T ss_pred             HCCCCCHHHHHHHHC--CCCCCHHHHHHHHHHCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             879909999999878--5735299999999738966972279998867888898899999999999


No 55 
>2fbk_A Transcriptional regulator, MARR family; winged-helix-turn-helix; 2.30A {Deinococcus radiodurans} SCOP: a.4.5.28
Probab=49.12  E-value=9.4  Score=18.64  Aligned_cols=58  Identities=21%  Similarity=0.169  Sum_probs=37.7

Q ss_pred             CCCCHHHHHHHHCCCC-CHHHHHHHHHHCCCCHHHCCC-C--CCCEEECHHHHHHHHHHHHC
Q ss_conf             6518999999877788-989999999987981220257-7--53201161135644564201
Q gi|254780987|r   22 PYYTPTQLGKKLATKP-SAIKVNKKLREWGFLLEEHES-G--RKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        22 ~~ltPTqlGk~lg~k~-SA~~vN~lL~~~GlQ~~~~~~-g--rkew~lT~~G~k~g~~~~dt   79 (110)
                      +-+|+++|++.++-.. +.-++=+.|...||-...... .  .+...+|++|++....+...
T Consensus        85 ~~lt~~eLa~~l~~s~~~vs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~l~~~~~~~  146 (181)
T 2fbk_A           85 EGLRPTELSALAAISGPSTSNRIVRLLEKGLIERREDERDRRSASIRLTPQGRALVTHLLPA  146 (181)
T ss_dssp             SCBCHHHHHHHCSCCSGGGSSHHHHHHHHTSEECCC-------CCBEECHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCCCCCCEEECCCCHHHHHHHHHHHHH
T ss_conf             99099999999787875799999999987882435787788622113288899999999999


No 56 
>3e6m_A MARR family transcriptional regulator; APC88769, silicibacter pomeroyi DSS, structural genomics, PSI-2, protein structure initiative; 2.20A {Silicibacter pomeroyi}
Probab=48.10  E-value=4.5  Score=20.35  Aligned_cols=73  Identities=16%  Similarity=0.040  Sum_probs=45.5

Q ss_pred             HCCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHH
Q ss_conf             1223366515888765765189999998777889899999---999879812202577---5320116113564456420
Q gi|254780987|r    5 LGVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFD   78 (110)
Q Consensus         5 ~~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~d   78 (110)
                      .|++..|-.-|-.=.+.+-.++++|.+.++  ++.-.+.+   .|.+.||-.......   .....+|++|++.-..+..
T Consensus        49 ~gLt~~q~~vL~~l~~~~~~t~~~la~~l~--i~~~~vs~~i~~L~~~glv~r~~~~~D~R~~~l~LT~~G~~~~~~~~~  126 (161)
T 3e6m_A           49 EKLPTPKLRLLSSLSAYGELTVGQLATLGV--MEQSTTSRTVDQLVDEGLAARSISDADQRKRTVVLTRKGKKKLAEISP  126 (161)
T ss_dssp             HTCCHHHHHHHHHHHHHSEEEHHHHHHHTT--CCHHHHHHHHHHHHHTTSEEECC---CCCSCEEEECHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEECCCCCCEEECCCCHHHHHHHHHHHH
T ss_conf             697999999999999779989999999989--788799999999983897798325899873110168889999999999


Q ss_pred             C
Q ss_conf             1
Q gi|254780987|r   79 T   79 (110)
Q Consensus        79 t   79 (110)
                      .
T Consensus       127 ~  127 (161)
T 3e6m_A          127 L  127 (161)
T ss_dssp             H
T ss_pred             H
T ss_conf             9


No 57 
>2g7u_A Transcriptional regulator; ICLR family, structural genomics, MCSG, PSI, protein structure initiative, midwest center for structural genomics; 2.30A {Rhodococcus SP}
Probab=47.37  E-value=14  Score=17.65  Aligned_cols=60  Identities=25%  Similarity=0.368  Sum_probs=37.9

Q ss_pred             CCHHHHHCCCCCCCCCCCCHHHHHHHHC-CCCCHHHHHHHHHHCCCCHHHCCCCCCCEEECHHHHHHHH
Q ss_conf             2336651588876576518999999877-7889899999999879812202577532011611356445
Q gi|254780987|r    7 VNVLQDINLPTPNNLPYYTPTQLGKKLA-TKPSAIKVNKKLREWGFLLEEHESGRKRDVLTPKGAKGGG   74 (110)
Q Consensus         7 ~~~~~~~~LP~~~~~~~ltPTqlGk~lg-~k~SA~~vN~lL~~~GlQ~~~~~~grkew~lT~~G~k~g~   74 (110)
                      ..+++.+.    ...+-++.++|.+++| +|.++-+.=+-|.+.||..   +.+ +.|.++++=-..|.
T Consensus        17 l~IL~~~~----~~~~~~~~~eia~~~gl~~st~~RlL~tL~~~G~l~---~~~-~~Y~lG~~~~~l~~   77 (257)
T 2g7u_A           17 FAVLLAFD----AQRPNPTLAELATEAGLSRPAVRRILLTLQKLGYVA---GSG-GRWSLTPRVLSIGQ   77 (257)
T ss_dssp             HHHHHTCS----SSCSSCBHHHHHHHHTCCHHHHHHHHHHHHHTTSEE---EET-TEEEECGGGHHHHT
T ss_pred             HHHHHHHH----HCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE---ECC-CEEEECCHHHHHHH
T ss_conf             99999998----479998999999987939999999999999738653---229-83785504764435


No 58 
>1z4h_A TORI, TOR inhibition protein; winged helix, reverse turn, protein binding, DNA binding protein; NMR {Escherichia coli}
Probab=47.27  E-value=17  Score=17.28  Aligned_cols=61  Identities=7%  Similarity=0.027  Sum_probs=45.5

Q ss_pred             CCCCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHCCCCCCCEEECHHHHHHHHHHHHCCHHCCCC
Q ss_conf             65765189999998777889899999999879812202577532011611356445642010001588
Q gi|254780987|r   19 NNLPYYTPTQLGKKLATKPSAIKVNKKLREWGFLLEEHESGRKRDVLTPKGAKGGGRYFDTGKKRSDG   86 (110)
Q Consensus        19 ~~~~~ltPTqlGk~lg~k~SA~~vN~lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~~dt~k~h~nG   86 (110)
                      +.+.+++..|+-+++|  +|-..+-++..+.-|--....++|..|...+. +.|-....++    +||
T Consensus         6 ~~~~llr~keV~~~~g--lsrstiy~~i~~G~FP~piklg~r~~W~~sei-~~Wi~~~~~~----~~g   66 (66)
T 1z4h_A            6 QPDSLVDLKFIMADTG--FGKTFIYDRIKSGDLPKAKVIHGRARWLYRDH-CEFKNKLLSR----ANG   66 (66)
T ss_dssp             CSSSEECHHHHHHHHS--SCHHHHHHHHHHHHCCCSEESSSCEEEEHHHH-HHHHHHHHHH----TCC
T ss_pred             CCCCCCCHHHHHHHHC--CCHHHHHHHHHCCCCCCCEECCCCCEECHHHH-HHHHHHHHHH----CCC
T ss_conf             8542064999999989--79999999998799999873498531469999-9999999986----279


No 59 
>2rdp_A Putative transcriptional regulator MARR; PFAM PF01047, winged-helix DNA binding motif, structural genomics, PSI-2; 2.30A {Geobacillus stearothermophilus}
Probab=44.57  E-value=18  Score=17.04  Aligned_cols=56  Identities=14%  Similarity=0.159  Sum_probs=38.3

Q ss_pred             CCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCCCC---CEEECHHHHHHHHHHHHC
Q ss_conf             6518999999877788989999---999987981220257753---201161135644564201
Q gi|254780987|r   22 PYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESGRK---RDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        22 ~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~grk---ew~lT~~G~k~g~~~~dt   79 (110)
                      +-.++++|++.++  ++.-.+.   +.|.+.||-.....+.-+   ...+|++|...-..+...
T Consensus        55 ~~~t~~~La~~l~--~~~~~vs~~l~~L~~~Gli~r~~~~~D~R~~~l~LT~~G~~~~~~~~~~  116 (150)
T 2rdp_A           55 GDLTVGELSNKMY--LACSTTTDLVDRMERNGLVARVRDEHDRRVVRIRLLEKGERIIEEVIEK  116 (150)
T ss_dssp             CSBCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEECCC---CEEEEECHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHC--CCHHHHHHHHHHHHCCCCEEEEECCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             9959999999989--6887899999999718977985216898857867898999999999999


No 60 
>1qbj_A Protein (double-stranded RNA specific adenosine deaminase (ADAR1)); protein/Z-DNA complex, hydrolase/DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A
Probab=42.71  E-value=17  Score=17.25  Aligned_cols=46  Identities=17%  Similarity=0.060  Sum_probs=32.0

Q ss_pred             CCCCCHHHHHHHHCCCCCHHHHHHHHHH---CCCCHHHCCCCCCCEEECHHH
Q ss_conf             7651899999987778898999999998---798122025775320116113
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSAIKVNKKLRE---WGFLLEEHESGRKRDVLTPKG   69 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA~~vN~lL~~---~GlQ~~~~~~grkew~lT~~G   69 (110)
                      ....+.-+|.+.|+  ++-+.||+.|-.   .|.-.. ....-..|.+|+..
T Consensus        25 g~~~tA~~LAk~lg--~~Kk~vN~~LY~L~k~g~v~~-~~~~PP~W~l~~~~   73 (81)
T 1qbj_A           25 GKATTAHDLSGKLG--TPKKEINRVLYSLAKKGKLQK-EAGTPPLWKIAVST   73 (81)
T ss_dssp             TCCBCHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEE-ESSSSCEEEEC---
T ss_pred             CCCHHHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEE-CCCCCCCEEECCCC
T ss_conf             97521999999969--888898999999998798640-69989960637888


No 61 
>2frh_A SARA, staphylococcal accessory regulator A; winged-helix protein, divalent metal binding, transcription; 2.50A {Staphylococcus aureus} SCOP: a.4.5.28 PDB: 2fnp_A 1fzp_D
Probab=42.18  E-value=17  Score=17.18  Aligned_cols=60  Identities=13%  Similarity=0.065  Sum_probs=39.7

Q ss_pred             CCCCCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCC--C-CCEEECHHHHHHHHHHHHC
Q ss_conf             76576518999999877788989999---9999879812202577--5-3201161135644564201
Q gi|254780987|r   18 PNNLPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESG--R-KRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        18 ~~~~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~g--r-kew~lT~~G~k~g~~~~dt   79 (110)
                      .++..-+++++|++.++  ++.-.+.   +.|.+.||-.....+.  | ..-.+||+|.+..+.+...
T Consensus        48 ~~~~~~~t~~ela~~l~--~~~~~vs~~l~~Le~~glI~r~~~~~D~R~~~i~lT~~G~~~~~~l~~~  113 (127)
T 2frh_A           48 ENKEKEYYLKDIINHLN--YKQPQVVKAVKILSQEDYFDKKRNEHDERTVLILVNAQQRKKIESLLSR  113 (127)
T ss_dssp             HTCCSEEEHHHHHHHSS--SHHHHHHHHHHHHHHTTSSCCBCCSSSSCCCEEECCSHHHHHHHHHHHH
T ss_pred             HCCCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEECCCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             28999878999999979--8873699999999978977984037899858989998999999999999


No 62 
>2esh_A Conserved hypothetical protein TM0937; APC5794, X-RAY, structural genomics, PSI, protein structure initiative; 2.30A {Thermotoga maritima MSB8} SCOP: a.4.5.61
Probab=41.24  E-value=13  Score=17.95  Aligned_cols=58  Identities=26%  Similarity=0.252  Sum_probs=37.2

Q ss_pred             CCHHHHHHHHCC-------CC---CHHHHHHHHHHCCCCHHHCC----CCCCCEEECHHHHHHHHHHHHCCH
Q ss_conf             189999998777-------88---98999999998798122025----775320116113564456420100
Q gi|254780987|r   24 YTPTQLGKKLAT-------KP---SAIKVNKKLREWGFLLEEHE----SGRKRDVLTPKGAKGGGRYFDTGK   81 (110)
Q Consensus        24 ltPTqlGk~lg~-------k~---SA~~vN~lL~~~GlQ~~~~~----~grkew~lT~~G~k~g~~~~dt~k   81 (110)
                      ..+-+|-+.+.-       ++   +--.+=+.|.+.||-.....    ..|+.+.+||+|++....+.....
T Consensus        27 ~~GYei~k~i~~~~~~~~~~~~~gtiY~~L~rLe~~GlI~~~~~~~~g~~rk~Y~iT~~G~~~l~~~~~~~~   98 (118)
T 2esh_A           27 SHGYELAERLAEFGIEIPGIGHMGNIYRVLADLEESGFLSTEWDTTVSPPRKIYRITPQGKLYLREILRSLE   98 (118)
T ss_dssp             BCHHHHHHHHHTTCCSSTTCCCCCCHHHHHHHHHHTTSEEEEEECSSSSCEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCEEEEEECCCCCCCEEEEECHHHHHHHHHHHHHHH
T ss_conf             989999999998447873058976079999999988976999731689886798989889999999999999


No 63 
>3df8_A Possible HXLR family transcriptional factor; APC89000, structural genomics, PSI-2, midwest center for structural genomics, MCSG; 1.65A {Thermoplasma volcanium}
Probab=41.20  E-value=21  Score=16.74  Aligned_cols=51  Identities=12%  Similarity=0.160  Sum_probs=36.1

Q ss_pred             CHHHHHHHHCCCCCHHHHHHHH---HHCCCCHHHCCCCCCCEEECHHHHHHHHHHH
Q ss_conf             8999999877788989999999---9879812202577532011611356445642
Q gi|254780987|r   25 TPTQLGKKLATKPSAIKVNKKL---REWGFLLEEHESGRKRDVLTPKGAKGGGRYF   77 (110)
Q Consensus        25 tPTqlGk~lg~k~SA~~vN~lL---~~~GlQ~~~~~~grkew~lT~~G~k~g~~~~   77 (110)
                      +-.||-+.+.+ +|.+..++.|   .+.|+-... .+.+-+|.+|++|+.....+.
T Consensus        44 ~F~el~~~l~~-Is~~~Ls~rLk~L~~~Glv~r~-~~~~veY~LT~~G~~L~~il~   97 (111)
T 3df8_A           44 NFNDIRSSIPG-ISSTILSRRIKDLIDSGLVERR-SGQITTYALTEKGMNVRNSLM   97 (111)
T ss_dssp             CHHHHHHTSTT-CCHHHHHHHHHHHHHTTSEEEE-ESSSEEEEECHHHHHHHHHHH
T ss_pred             CHHHHHHHCCC-CCHHHHHHHHHHHHHCCEEEEC-CCCCEEEEECCCHHHHHHHHH
T ss_conf             79999987202-3588899999999979937726-999758877968889999999


No 64 
>2kfs_A Conserved hypothetical regulatory protein; WHTH, DNA binding, phosphorylation, DNA-binding protein; NMR {Mycobacterium tuberculosis}
Probab=40.35  E-value=22  Score=16.67  Aligned_cols=50  Identities=22%  Similarity=0.290  Sum_probs=35.0

Q ss_pred             HHCCCHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHCCCC
Q ss_conf             01223366515888765765189999998777889899999999879812202577
Q gi|254780987|r    4 VLGVNVLQDINLPTPNNLPYYTPTQLGKKLATKPSAIKVNKKLREWGFLLEEHESG   59 (110)
Q Consensus         4 ~~~~~~~~~~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN~lL~~~GlQ~~~~~~g   59 (110)
                      |-++-..+++-   ...+++||..++.++||  +|-.+|++++.+.-+- .+.+++
T Consensus        15 v~~i~~~~d~L---~~~~~~lt~~evA~~LG--vs~~~V~~~i~~~~Ll-av~~g~   64 (148)
T 2kfs_A           15 VGSIPAGDDVL---DPDEPTYDLPRVAELLG--VPVSKVAQQLREGHLV-AVRRAG   64 (148)
T ss_dssp             CSCCCCCBCCS---CTTSCEEEHHHHHHHHT--CCHHHHHHHHHTTSCC-CEEETT
T ss_pred             HHCCCCCCHHC---CCCCCCCCHHHHHHHHC--CCHHHHHHHHHCCCEE-EEECCC
T ss_conf             61777751000---46776348999999969--9889999999869259-997099


No 65 
>2hzt_A Putative HTH-type transcriptional regulator YTCD; DNA-binding protein, HTH-type transcription regulators, structural genomics, PSI-2; HET: CSU MSE; 2.00A {Bacillus subtilis} SCOP: a.4.5.69
Probab=38.11  E-value=23  Score=16.47  Aligned_cols=53  Identities=11%  Similarity=0.050  Sum_probs=36.5

Q ss_pred             CCCCCHHHHHHHHCCCCCHHHHHHHH---HHCCCCHHHCC---CCCCCEEECHHHHHHHH
Q ss_conf             76518999999877788989999999---98798122025---77532011611356445
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSAIKVNKKL---REWGFLLEEHE---SGRKRDVLTPKGAKGGG   74 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA~~vN~lL---~~~GlQ~~~~~---~grkew~lT~~G~k~g~   74 (110)
                      .+-.+..||-+.+.+ +|.+..++.|   .+.||-.....   +-+-+|.+|++|+....
T Consensus        25 ~g~~RF~eL~~~l~g-IS~~~Ls~rLk~Le~~GLv~R~~~~~~p~~veY~LT~~G~~L~~   83 (107)
T 2hzt_A           25 HGKKRTSELKRLMPN-ITQKMLTQQLRELEADGVINRIVYNQVPPKVEYELSEYGRSLEG   83 (107)
T ss_dssp             TCCBCHHHHHHHCTT-SCHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECTTGGGGHH
T ss_pred             CCCCCHHHHHHHCCC-CCHHHHHHHHHHHHHCCCHHHHCCCCCCCCEEEEECHHHHHHHH
T ss_conf             199869999977646-79889999999999878455312568999557777851889999


No 66 
>1b7y_B Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta homodimer, ligase; HET: FYA; 2.50A {Thermus thermophilus} SCOP: a.6.1.1 a.6.1.1 b.40.4.4 b.153.1.1 d.58.13.1 d.104.1.1 PDB: 1b70_B* 1eiy_B 1jjc_B* 1pys_B 2akw_B* 2aly_B* 2amc_B* 3hfz_B* 2iy5_B*
Probab=36.92  E-value=25  Score=16.36  Aligned_cols=51  Identities=18%  Similarity=0.171  Sum_probs=38.9

Q ss_pred             HCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHCCCCCCCEEEC
Q ss_conf             158887657651899999987778898999999998798122025775320116
Q gi|254780987|r   13 INLPTPNNLPYYTPTQLGKKLATKPSAIKVNKKLREWGFLLEEHESGRKRDVLT   66 (110)
Q Consensus        13 ~~LP~~~~~~~ltPTqlGk~lg~k~SA~~vN~lL~~~GlQ~~~~~~grkew~lT   66 (110)
                      ...+..+..-.+++..+-+.+|..++...+-++|...||+.+.   ..+.|..|
T Consensus       395 ~~~~~~~~~I~l~~~~i~~~lG~~i~~~ei~~iL~~Lgf~v~~---~~~~~~V~  445 (785)
T 1b7y_B          395 AGSPKPPEAIPFRPEYANRLLGTSYPEAEQIAILKRLGCRVEG---EGPTYRVT  445 (785)
T ss_dssp             ECCCCCCCCEEECHHHHHHHHTCCCCHHHHHHHHHHTTCEEES---SSSSEEEE
T ss_pred             ECCCCCCCEEEHHHHHHHHHCCCCCCHHHHHHHHHHCCCEEEC---CCCEEEEE
T ss_conf             1034564000000788764125200104689999847996985---89528998


No 67 
>1mkm_A ICLR transcriptional regulator; structural genomics, winged helix-turn-helix, PSI, protein structure initiative; 2.20A {Thermotoga maritima} SCOP: a.4.5.33 d.110.2.2
Probab=34.31  E-value=27  Score=16.12  Aligned_cols=63  Identities=24%  Similarity=0.170  Sum_probs=40.0

Q ss_pred             CCHHHHHCCCCCCCCCCCCHHHHHHHHC-CCCCHHHHHHHHHHCCCCHHHCCCCCCCEEECHHHHHHHHHH
Q ss_conf             2336651588876576518999999877-788989999999987981220257753201161135644564
Q gi|254780987|r    7 VNVLQDINLPTPNNLPYYTPTQLGKKLA-TKPSAIKVNKKLREWGFLLEEHESGRKRDVLTPKGAKGGGRY   76 (110)
Q Consensus         7 ~~~~~~~~LP~~~~~~~ltPTqlGk~lg-~k~SA~~vN~lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~   76 (110)
                      ..+++.+.    ....-++.+||.+.+| +|.++-++=+-|.+.||-   .+...+.|.++++=-..+...
T Consensus        11 l~IL~~~a----~~~~~~tl~eia~~lglpksT~~Rll~tL~~~G~l---~~~~~~~Y~lG~~~~~l~~~~   74 (249)
T 1mkm_A           11 FEILDFIV----KNPGDVSVSEIAEKFNMSVSNAYKYMVVLEEKGFV---LRKKDKRYVPGYKLIEYGSFV   74 (249)
T ss_dssp             HHHHHHHH----HCSSCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSE---EECTTSCEEECTHHHHHHHHH
T ss_pred             HHHHHHHH----HCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCE---EECCCCCHHHHHHHHHHHHHH
T ss_conf             99999997----38999899999998791999999999999977986---532553201324654446766


No 68 
>1xma_A Predicted transcriptional regulator; southeast collaboratory for structural genomics, secsg, protein structure initiative, PSI; 2.30A {Clostridium thermocellum} SCOP: a.4.5.61
Probab=33.68  E-value=18  Score=17.06  Aligned_cols=56  Identities=14%  Similarity=0.139  Sum_probs=34.2

Q ss_pred             CCHHHHHHHHC------CCCCHHHH---HHHHHHCCCCHHH-----CCCCCCCEEECHHHHHHHHHHHHC
Q ss_conf             18999999877------78898999---9999987981220-----257753201161135644564201
Q gi|254780987|r   24 YTPTQLGKKLA------TKPSAIKV---NKKLREWGFLLEE-----HESGRKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        24 ltPTqlGk~lg------~k~SA~~v---N~lL~~~GlQ~~~-----~~~grkew~lT~~G~k~g~~~~dt   79 (110)
                      ...-+|-+.+.      -.+|.-.+   =+.|.+.||-...     ....|+.+.+||+|+++...+...
T Consensus        55 ~~GYeI~k~i~~~~~~~~~is~gslYp~L~rLe~~GlI~s~~~~~~~gr~Rk~Y~IT~~G~~~L~~~~~e  124 (145)
T 1xma_A           55 SYGYEISKNIRIKTDELYVIKETTLYSAFARLEKNGYIKSYYGEETQGKRRTYYRITPEGIKYYKQKCEE  124 (145)
T ss_dssp             EEHHHHHHHHHHHHTTSCCCCHHHHHHHHHHHHHTTSEEEEEEEEC--CEEEEEEECHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEEEECCCCCCCCEEEEECHHHHHHHHHHHHH
T ss_conf             8899999999998499543787761999999997896699973057897657999898899999999999


No 69 
>3f6v_A Possible transcriptional regulator, ARSR family protein; probable transcriptional repressor ARSR family, structural genomics, PSI-2; 1.48A {Rhodococcus SP}
Probab=33.10  E-value=28  Score=16.01  Aligned_cols=57  Identities=19%  Similarity=0.225  Sum_probs=39.9

Q ss_pred             CCCCCHHHHHHHHCCCCCHHHHH---HHHHHCCCCHHHCCCCCCCEEECHHHHHHHHHHHHC
Q ss_conf             76518999999877788989999---999987981220257753201161135644564201
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSAIKVN---KKLREWGFLLEEHESGRKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA~~vN---~lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~~dt   79 (110)
                      .+.++.++|.+.|+  +|.-+|-   +.|.++||-.....+.+.-|.+++.+-+.-..+++.
T Consensus        69 ~g~~tv~eLa~~l~--is~stvS~HL~~L~~aGLV~~~r~Gr~~~Y~L~~~~l~~l~~~l~~  128 (151)
T 3f6v_A           69 SGEQTVNNLAAHFP--ASRSAISQHLRVLTEAGLVTPRKDGRFRYYRLDPQGLAQLRALFDS  128 (151)
T ss_dssp             GCCEEHHHHHTTSS--SCHHHHHHHHHHHHHTTSEEEEEETTEEEEEECHHHHHHHHHHHHH
T ss_pred             HCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEEECCEEEEEECHHHHHHHHHHHHH
T ss_conf             09938999999989--1999999999989988975889877989999887999999999999


No 70 
>3elk_A Putative transcriptional regulator TA0346; structural genomics, PSI-2, protein structure initiative; 1.70A {Thermoplasma acidophilum}
Probab=31.95  E-value=15  Score=17.49  Aligned_cols=51  Identities=16%  Similarity=0.067  Sum_probs=30.3

Q ss_pred             HHHHHCCCCCHHH---HHHHHHHCCCCHHH-CCC----CCCCEEECHHHHHHHHHHHHC
Q ss_conf             9998777889899---99999987981220-257----753201161135644564201
Q gi|254780987|r   29 LGKKLATKPSAIK---VNKKLREWGFLLEE-HES----GRKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        29 lGk~lg~k~SA~~---vN~lL~~~GlQ~~~-~~~----grkew~lT~~G~k~g~~~~dt   79 (110)
                      |.++.+..+|.-.   +=+.|.+.||-... ..+    .|+.+.+|++|+++...+...
T Consensus        37 i~~~~~~~~~~g~lY~~L~rLe~~G~I~~~~~~~~~g~~rk~Y~iT~~G~~~l~~~~~~   95 (117)
T 3elk_A           37 MFETTGQALPQGSIYILLKTMKERGFVISESSVNEKGQQLTVYHITDAGKKFLCDHSQA   95 (117)
T ss_dssp             HHHHHSCCCCTTHHHHHHHHHHHHTSEEEEEEEC-CCCEEEEEEECHHHHHHHHHTSTT
T ss_pred             HHHHHCCCCCCCCHHHHHHHHHHCCCEEEEEEECCCCCCCEEEEECHHHHHHHHHHHHH
T ss_conf             99984899997648999999998898799976347898866989898899999999999


No 71 
>3l6s_A Aspartyl aminopeptidase; hydrolase, structural genomics consortium, SGC, metal-binding, metalloprotease, protease, zinc; HET: SD3; 2.20A {Homo sapiens}
Probab=31.74  E-value=19  Score=16.98  Aligned_cols=30  Identities=17%  Similarity=0.168  Sum_probs=21.5

Q ss_pred             HHHHHHHHHCCCCHHHCCCCCCCEEECHHHHHHH
Q ss_conf             9999999987981220257753201161135644
Q gi|254780987|r   40 IKVNKKLREWGFLLEEHESGRKRDVLTPKGAKGG   73 (110)
Q Consensus        40 ~~vN~lL~~~GlQ~~~~~~grkew~lT~~G~k~g   73 (110)
                      ..+-++|.++||+   ...+++.|.+.+.| ||+
T Consensus        46 ~~~~~~L~~~Gf~---~l~e~~~w~l~~g~-kyy   75 (485)
T 3l6s_A           46 AECRNRLLQAGFS---ELKETEKWNIKPES-KYF   75 (485)
T ss_dssp             HHHHHHHHHTTCE---ECCTTSCCCCCTTC-EEE
T ss_pred             HHHHHHHHHCCCE---ECCCCCCCCCCCCC-EEE
T ss_conf             9999999987698---85666766656899-899


No 72 
>2ia2_A Putative transcriptional regulator; SAD, PSI-2, structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 2.10A {Rhodococcus SP}
Probab=30.93  E-value=31  Score=15.83  Aligned_cols=61  Identities=21%  Similarity=0.242  Sum_probs=37.8

Q ss_pred             CHHHHHCCCCCCCCCCCCHHHHHHHHC-CCCCHHHHHHHHHHCCCCHHHCCCCCCCEEECHHHHHHHHHH
Q ss_conf             336651588876576518999999877-788989999999987981220257753201161135644564
Q gi|254780987|r    8 NVLQDINLPTPNNLPYYTPTQLGKKLA-TKPSAIKVNKKLREWGFLLEEHESGRKRDVLTPKGAKGGGRY   76 (110)
Q Consensus         8 ~~~~~~~LP~~~~~~~ltPTqlGk~lg-~k~SA~~vN~lL~~~GlQ~~~~~~grkew~lT~~G~k~g~~~   76 (110)
                      .+++.+   +. ...-++.++|.+.++ +|.++-++=+-|.+.||-.   +.+ +.|.++++=-..+...
T Consensus        25 ~ILe~l---a~-~~~~lsl~eia~~l~l~kst~~RlL~tL~~~G~l~---~~~-~~Y~lG~~~~~l~~~~   86 (265)
T 2ia2_A           25 AVIRCF---DH-RNQRRTLSDVARATDLTRATARRFLLTLVELGYVA---TDG-SAFWLTPRVLELGYSY   86 (265)
T ss_dssp             HHHHTC---CS-SCSSEEHHHHHHHHTCCHHHHHHHHHHHHHHTSEE---ESS-SEEEECGGGGGTTHHH
T ss_pred             HHHHHH---HH-CCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEE---ECC-CCCCCCHHHHHHHHHH
T ss_conf             999999---73-79997999999997949999999999999879953---069-7320347888888877


No 73 
>2o3f_A Putative HTH-type transcriptional regulator YBBH; APC85504, putative transcriptional regulator YBBH; HET: MLY; 1.75A {Bacillus subtilis} SCOP: a.4.1.20
Probab=29.77  E-value=25  Score=16.28  Aligned_cols=34  Identities=15%  Similarity=0.090  Sum_probs=30.3

Q ss_pred             CCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCC
Q ss_conf             876576518999999877788989999999987981
Q gi|254780987|r   17 TPNNLPYYTPTQLGKKLATKPSAIKVNKKLREWGFL   52 (110)
Q Consensus        17 ~~~~~~~ltPTqlGk~lg~k~SA~~vN~lL~~~GlQ   52 (110)
                      -|++-.+.+.++|.++.+  .|...|.+.....||.
T Consensus        33 n~~~v~~~si~elA~~~~--vS~aTI~Rf~kklGf~   66 (111)
T 2o3f_A           33 HPHXAIESTVNEISALAN--SSDAAVIRLCXSLGLK   66 (111)
T ss_dssp             CHHHHHTCCHHHHHHHTT--CCHHHHHHHHHHTTCS
T ss_pred             CHHHHHHCCHHHHHHHHC--CCHHHHHHHHHHHCCC
T ss_conf             924764378999998979--8987999999992779


No 74 
>3f8b_A Transcriptional regulator, PADR-like family; winged helix turn helix, transcription regulator; 2.00A {Lactococcus lactis subsp} PDB: 3f8c_A* 3f8f_A*
Probab=29.55  E-value=25  Score=16.33  Aligned_cols=56  Identities=18%  Similarity=0.126  Sum_probs=34.4

Q ss_pred             CCHHHHHHHHC----C--CCCHHHH---HHHHHHCCCCHHH-CC----CCCCCEEECHHHHHHHHHHHHC
Q ss_conf             18999999877----7--8898999---9999987981220-25----7753201161135644564201
Q gi|254780987|r   24 YTPTQLGKKLA----T--KPSAIKV---NKKLREWGFLLEE-HE----SGRKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        24 ltPTqlGk~lg----~--k~SA~~v---N~lL~~~GlQ~~~-~~----~grkew~lT~~G~k~g~~~~dt   79 (110)
                      ..+-+|-+.+.    .  ++|.-.+   =+.|.+.||-... ..    +.|+.+.+||+|+++...+...
T Consensus        26 ~~GYei~~~i~~~~~~~~~i~~g~lY~~L~rL~~~GlI~~~~~~~~~g~~rk~Y~iT~~G~~~l~~~~~~   95 (116)
T 3f8b_A           26 NYVYGIIKQVKEASNGEMELNEATLYTIFKRLEKDGIISSYWGDESQGGRRKYYRLTEIGHENMRLAFES   95 (116)
T ss_dssp             BCHHHHHHHHHHHTTTCCCCCHHHHHHHHHHHHHTTSEEEEEEC----CCEEEEEECHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEEEEECCCCCCCEEEEECHHHHHHHHHHHHH
T ss_conf             8899999999998399316897754999999997897689963157898765999898899999999999


No 75 
>1qgp_A Protein (double stranded RNA adenosine deaminase); Z-alpha-Z-DNA binding domain, RNA-editing, Z-DNA recognition, ADAR1, helix- turn-helix; NMR {Homo sapiens} SCOP: a.4.5.19
Probab=28.29  E-value=29  Score=15.99  Aligned_cols=44  Identities=14%  Similarity=0.005  Sum_probs=29.2

Q ss_pred             CCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHCC--CCCCCEEECH
Q ss_conf             651899999987778898999999998798122025--7753201161
Q gi|254780987|r   22 PYYTPTQLGKKLATKPSAIKVNKKLREWGFLLEEHE--SGRKRDVLTP   67 (110)
Q Consensus        22 ~~ltPTqlGk~lg~k~SA~~vN~lL~~~GlQ~~~~~--~grkew~lT~   67 (110)
                      ...+.-+|.+.||  ++-+.||+.|-..-=|-..++  ..-..|.+|.
T Consensus        30 ~~~tA~~LAk~lg--~~Kk~vN~~LY~L~k~g~v~~~~~~PP~W~lt~   75 (77)
T 1qgp_A           30 KATTAHDLSGKLG--TPKKEINRVLYSLAKKGKLQKEAGTPPLWKIAV   75 (77)
T ss_dssp             SCEEHHHHHHHHC--CCHHHHHHHHHHHHHHTSEEEECSSSCEEEECC
T ss_pred             CCHHHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEECCCCCCCEEECC
T ss_conf             7602999999969--888888999999998789530699899326057


No 76 
>3iwf_A Transcription regulator RPIR family; transcriptional, N-terminal, domain, PSI, MCSG, structural genomics; 1.40A {Staphylococcus epidermidis atcc 12228}
Probab=27.90  E-value=30  Score=15.89  Aligned_cols=33  Identities=12%  Similarity=0.163  Sum_probs=30.0

Q ss_pred             CCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCC
Q ss_conf             76576518999999877788989999999987981
Q gi|254780987|r   18 PNNLPYYTPTQLGKKLATKPSAIKVNKKLREWGFL   52 (110)
Q Consensus        18 ~~~~~~ltPTqlGk~lg~k~SA~~vN~lL~~~GlQ   52 (110)
                      |++-.+++.++|.+..|  .|...|.+.....||.
T Consensus        30 ~~~i~~~si~elA~~~~--VS~aTi~Rf~kklGf~   62 (107)
T 3iwf_A           30 PHKVVNMTSQEIANQLE--TSSTSIIRLSKKVTPG   62 (107)
T ss_dssp             HHHHTTCCHHHHHHHHT--SCHHHHHHHHHHHSTT
T ss_pred             HHHHHHCCHHHHHHHHC--CCHHHHHHHHHHHCCC
T ss_conf             99997765999998979--8998999999995889


No 77 
>1p4x_A Staphylococcal accessory regulator A homologue; winged-helix protein, transcription; 2.20A {Staphylococcus aureus} SCOP: a.4.5.28 a.4.5.28
Probab=27.37  E-value=36  Score=15.45  Aligned_cols=62  Identities=6%  Similarity=-0.030  Sum_probs=35.7

Q ss_pred             CCCCCCCCHHHHHHHHCCCC-CHHHHHHHHHHCCCCHHHCCCC---CCCEEECHHHHHHHHHHHHC
Q ss_conf             76576518999999877788-9899999999879812202577---53201161135644564201
Q gi|254780987|r   18 PNNLPYYTPTQLGKKLATKP-SAIKVNKKLREWGFLLEEHESG---RKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        18 ~~~~~~ltPTqlGk~lg~k~-SA~~vN~lL~~~GlQ~~~~~~g---rkew~lT~~G~k~g~~~~dt   79 (110)
                      .++.+-+++++|.+.++-.. +.-++=+.|.+.||-.......   +..-.+|++|++.-..+...
T Consensus        45 ~~~~~~~~~~~la~~l~~~ks~vs~~l~~L~~~g~I~r~~~~~D~R~~~i~lTe~g~~~i~~~~~~  110 (250)
T 1p4x_A           45 HQQENTLPFKKIVSDLCYKQSDLVQHIKVLVKHSYISKVRSKIDERNTYISISEEQREKIAERVTL  110 (250)
T ss_dssp             SCSCSEEEHHHHHHHSSSCGGGTHHHHHHHHHTTSCEEEECSSSTTSEEEECCHHHHHHHHHHHHH
T ss_pred             HCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHCCCEEECCCCCCCCEEEEEECHHHHHHHHHHHHH
T ss_conf             479999789999999688810699999999988898865798888858999899999999999999


No 78 
>3hhh_A Transcriptional regulator, PADR family; PF03551, structural genomics, PSI-2, protein structure initiative; 2.70A {Enterococcus faecalis V583}
Probab=27.13  E-value=26  Score=16.26  Aligned_cols=56  Identities=20%  Similarity=0.158  Sum_probs=35.0

Q ss_pred             CCHHHHHHHHC----CCCCHHHHH---HHHHHCCCCHHHC-----CCCCCCEEECHHHHHHHHHHHHC
Q ss_conf             18999999877----788989999---9999879812202-----57753201161135644564201
Q gi|254780987|r   24 YTPTQLGKKLA----TKPSAIKVN---KKLREWGFLLEEH-----ESGRKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        24 ltPTqlGk~lg----~k~SA~~vN---~lL~~~GlQ~~~~-----~~grkew~lT~~G~k~g~~~~dt   79 (110)
                      ..+-+|-+.+.    -.+|.-.+-   +.|.+.||-....     ...|+.+.+|++|+++...+...
T Consensus        27 ~~GYei~~~l~~~~~~~~~~gslY~~L~rLe~~G~I~~~~~~~~~g~~rk~Y~iT~~G~~~L~~~~~~   94 (116)
T 3hhh_A           27 TYGYEITKILNDQGFTEIVEGTVYTILLRLEKNQWVIAEKKPSEKGPMRKFYRLTSSGEAELADFWQR   94 (116)
T ss_dssp             BCHHHHHHHHHTTSCSSCCHHHHHHHHHHHHHTTSEEEEEEECC--CEEEEEEECHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEEEEECCCCCCCEEEEECHHHHHHHHHHHHH
T ss_conf             88999999999848978997665999999998897699986436798846999898899999999999


No 79 
>3l4g_A Phenylalanyl-tRNA synthetase alpha chain; aminoacylation, tRNA-binding, DNA-binding domain, four-helix acetylation, aminoacyl-tRNA synthetase; HET: PHE; 3.30A {Homo sapiens}
Probab=26.97  E-value=11  Score=18.29  Aligned_cols=56  Identities=18%  Similarity=0.170  Sum_probs=32.4

Q ss_pred             CCCCCCCHHHHHHHHCCCC-CHHHHHHHHHHCCCCHHHCCCCCCCEEECHHHHHHHH
Q ss_conf             6576518999999877788-9899999999879812202577532011611356445
Q gi|254780987|r   19 NNLPYYTPTQLGKKLATKP-SAIKVNKKLREWGFLLEEHESGRKRDVLTPKGAKGGG   74 (110)
Q Consensus        19 ~~~~~ltPTqlGk~lg~k~-SA~~vN~lL~~~GlQ~~~~~~grkew~lT~~G~k~g~   74 (110)
                      ..++.++.-+|.+.+|-.. +-...=+.|++.|.-.+.-+...+.|+||+.|++|-.
T Consensus        16 ~~~~~~ds~ela~~~g~~~~~v~~~~~sL~~~g~li~~e~~~~~~~~LT~eG~~y~~   72 (508)
T 3l4g_A           16 ASDGGLDSAELAAELGMEHQAVVGAVKSLQALGEVIEAELRSTKHWELTAEGEEIAR   72 (508)
T ss_dssp             ---------------------------------------------------------
T ss_pred             HCCCCCCHHHHHHHCCCCHHHHHHHHHHHHHCCCEEEEEEEEEEEEEECHHHHHHHH
T ss_conf             568987899999884999999999999997389859999998889988888999998


No 80 
>2obp_A Putative DNA-binding protein; YP_298295.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Ralstonia eutropha JMP134} SCOP: a.4.5.71
Probab=23.48  E-value=43  Score=15.04  Aligned_cols=58  Identities=21%  Similarity=0.237  Sum_probs=43.0

Q ss_pred             CCCCCHHHHHHHHCCCCCH-HHHHHHHHHCCCCHHHC-CCCCCCEEECHHHHHHHHHHHH
Q ss_conf             7651899999987778898-99999999879812202-5775320116113564456420
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSA-IKVNKKLREWGFLLEEH-ESGRKRDVLTPKGAKGGGRYFD   78 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA-~~vN~lL~~~GlQ~~~~-~~grkew~lT~~G~k~g~~~~d   78 (110)
                      -...+--.|.||.+-++|. |++=.-|.++|+-.-.+ +-||-.=.+|+.|.......|-
T Consensus        34 g~~wSLAkl~KRa~vpMStLRR~LT~L~~aGlv~~~~~edG~g~A~LT~~G~~lc~~LFg   93 (96)
T 2obp_A           34 ATPWSLPKIAKRAQLPMSVLRRVLTQLQAAGLADVSVEADGRGHASLTQEGAALAAQLFP   93 (96)
T ss_dssp             CCCCBHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEECTTSCEEEEECHHHHHHHHHHCC
T ss_pred             CCCCCHHHHHHHCCCCHHHHHHHHHHHHHCCCEEEEECCCCCEEEHHHHHHHHHHHHHCC
T ss_conf             995339999877089679999999998617805888635774010041668999999818


No 81 
>2cxi_A Phenylalanyl-tRNA synthetase beta chain; aminoacyl-tRNA synthetase, ligase, structural genomics, NPPSFA; HET: MSE; 1.94A {Pyrococcus horikoshii OT3}
Probab=22.84  E-value=44  Score=14.97  Aligned_cols=45  Identities=13%  Similarity=0.014  Sum_probs=34.5

Q ss_pred             CCCCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHCCCCCCCEEEC
Q ss_conf             657651899999987778898999999998798122025775320116
Q gi|254780987|r   19 NNLPYYTPTQLGKKLATKPSAIKVNKKLREWGFLLEEHESGRKRDVLT   66 (110)
Q Consensus        19 ~~~~~ltPTqlGk~lg~k~SA~~vN~lL~~~GlQ~~~~~~grkew~lT   66 (110)
                      +..-.++...|-+.+|..++...+-++|...||+.+.   ..+.|..|
T Consensus       280 ~~~i~~~~~~i~~~lG~~i~~~~i~~iL~~Lgf~v~~---~~~~~~V~  324 (348)
T 2cxi_A          280 PKEFEVELDYIRKLSGLELNDGEIKELLEKMMYEVEI---SRGRAKLK  324 (348)
T ss_dssp             CEEEEEEHHHHHHHHTCCCCHHHHHHHHHHTTCEEEE---ETTEEEEE
T ss_pred             CEEEEECHHHHHHHHCCCCCHHHHHHHHHHCCCEEEE---CCCEEEEE
T ss_conf             6479967999988868867999999999987997996---59828998


No 82 
>1u78_A TC3 transposase, transposable element TC3 transposase; transposon DNA, bipartite DNA-binding, HTH- motif, DNA binding protein/DNA complex; 2.69A {Caenorhabditis elegans} SCOP: a.4.1.2 a.4.1.2
Probab=22.68  E-value=45  Score=14.95  Aligned_cols=30  Identities=13%  Similarity=0.206  Sum_probs=15.1

Q ss_pred             CCCHHHHHHHHCCCCCHHHHHHHHHHCCCC
Q ss_conf             518999999877788989999999987981
Q gi|254780987|r   23 YYTPTQLGKKLATKPSAIKVNKKLREWGFL   52 (110)
Q Consensus        23 ~ltPTqlGk~lg~k~SA~~vN~lL~~~GlQ   52 (110)
                      ..++.+|...++..+|-..|...|.+.|+.
T Consensus        77 ~~~~~~l~~~~~~~vS~~TV~r~L~~~g~~  106 (141)
T 1u78_A           77 CKTARDIRNELQLSASKRTILNVIKRSGVI  106 (141)
T ss_dssp             CCCHHHHHHHTTCCSCHHHHHHHHHHTC--
T ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHCCCC
T ss_conf             330899999873460499999999975860


No 83 
>1xsv_A Hypothetical UPF0122 protein SAV1236; helix-turn-helix, putative DNA-binding protein, signal recognition particle, unknown function; 1.70A {Staphylococcus aureus subsp} SCOP: a.4.13.3
Probab=21.91  E-value=46  Score=14.86  Aligned_cols=34  Identities=24%  Similarity=0.332  Sum_probs=26.1

Q ss_pred             CCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHC
Q ss_conf             765189999998777889899999999879812202
Q gi|254780987|r   21 LPYYTPTQLGKKLATKPSAIKVNKKLREWGFLLEEH   56 (110)
Q Consensus        21 ~~~ltPTqlGk~lg~k~SA~~vN~lL~~~GlQ~~~~   56 (110)
                      .+.++..+|+..+|  +|.-+|...|..+--+...|
T Consensus        39 ~e~ls~~EIA~~lg--iS~~aV~~~l~RA~~~L~~~   72 (113)
T 1xsv_A           39 LEDYSLSEIADTFN--VSRQAVYDNIRRTGDLVEDY   72 (113)
T ss_dssp             TSCCCHHHHHHHTT--CCHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCCHHHHHHHHC--CCHHHHHHHHHHHHHHHHHH
T ss_conf             91999999999989--69999999999999999999


No 84 
>1bia_A BIRA bifunctional protein; transcription regulation; 2.30A {Escherichia coli} SCOP: a.4.5.1 b.34.1.1 d.104.1.2 PDB: 1bib_A* 1hxd_A* 2ewn_A*
Probab=21.39  E-value=47  Score=14.80  Aligned_cols=40  Identities=33%  Similarity=0.483  Sum_probs=30.6

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCCC-CCC
Q ss_conf             5765189999998777889899999---99987981220257-753
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHES-GRK   61 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~~-grk   61 (110)
                      +..|++-.+|++.||  +|-.+|.+   .|.+.|++++...+ ||+
T Consensus        16 ~g~~~SGe~la~~L~--iSR~aVwk~i~~L~~~G~~I~s~~~~GY~   59 (321)
T 1bia_A           16 NGEFHSGEQLGETLG--MSRAAINKHIQTLRDWGVDVFTVPGKGYS   59 (321)
T ss_dssp             TSSCBCHHHHHHHHT--SCHHHHHHHHHHHHHTTCCCEEETTTEEE
T ss_pred             CCCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCCEEEECCCCEE
T ss_conf             699597999999879--79999999999999779729997896759


No 85 
>2e1n_A PEX, period extender; circadian clock, DNA binding protein, circadian clock protein; 1.80A {Synechococcus elongatus pcc 7942}
Probab=21.24  E-value=46  Score=14.87  Aligned_cols=56  Identities=16%  Similarity=0.044  Sum_probs=32.9

Q ss_pred             CCHHHHHHHHCC-----CCCHHHH---HHHHHHCCCCHHH-CC-----CCCCCEEECHHHHHHHHHHHHC
Q ss_conf             189999998777-----8898999---9999987981220-25-----7753201161135644564201
Q gi|254780987|r   24 YTPTQLGKKLAT-----KPSAIKV---NKKLREWGFLLEE-HE-----SGRKRDVLTPKGAKGGGRYFDT   79 (110)
Q Consensus        24 ltPTqlGk~lg~-----k~SA~~v---N~lL~~~GlQ~~~-~~-----~grkew~lT~~G~k~g~~~~dt   79 (110)
                      ..+-+|-+.+.-     .+|.-.+   =..|.+.|+-... ..     ..||-+.+|++|+++...+...
T Consensus        48 ~yGYeI~~~l~~~~~~~~is~gtLYp~L~rLe~~GlI~s~~~~~~~~Gr~RK~Y~IT~~Gr~~L~el~~e  117 (138)
T 2e1n_A           48 SYGTELIQHLETHWPNYRLSDTVLYTALKFLEDEQIISGYWKKVEGRGRPRRMYQLAQANDDRSRDLAQL  117 (138)
T ss_dssp             EEHHHHHHHHHHHSTTEECCHHHHHHHHHHHHHTTSEEEEEECCTTCSSCEEEEEESCSCCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHCCCCCCCCCEEEHHHHHHHHCCCEEEEEEECCCCCCCCEEEEECHHHHHHHHHHHHH
T ss_conf             8899999999998399776876232899999988983888643467898736999898899999999999


No 86 
>2e58_A MNMC2; tRNA wobble uridine, modification enzyme, genetic CODE, 5- methylaminomethyl-2-thiouridine, methyltransferase, 2-codon SETS; HET: SAM; 2.50A {Aquifex aeolicus VF5}
Probab=21.21  E-value=37  Score=15.40  Aligned_cols=26  Identities=35%  Similarity=0.515  Sum_probs=20.7

Q ss_pred             CCCHHHHHHHHHHCCCCHHHCCC-CCC
Q ss_conf             88989999999987981220257-753
Q gi|254780987|r   36 KPSAIKVNKKLREWGFLLEEHES-GRK   61 (110)
Q Consensus        36 k~SA~~vN~lL~~~GlQ~~~~~~-grk   61 (110)
                      =++|..|-+-|.++||+++...+ |+|
T Consensus       225 Yssag~VRr~L~~aGF~V~k~~G~g~K  251 (308)
T 2e58_A          225 YSSSLSVRKSLLTLGFKVGSSREIGRK  251 (308)
T ss_dssp             SCCCHHHHHHHHHTTCEEECCCCC---
T ss_pred             EEEHHHHHHHHHHCCCEEEECCCCCCC
T ss_conf             800499999999779989967889988


No 87 
>2p4w_A Transcriptional regulatory protein ARSR family; archaea, PHR, heat shock, transcriptional regulation, winged helix, DNA binding; 2.60A {Pyrococcus furiosus} SCOP: a.4.5.64
Probab=21.18  E-value=48  Score=14.78  Aligned_cols=49  Identities=22%  Similarity=0.213  Sum_probs=33.1

Q ss_pred             CCCCHHHHHHHHCCCCCHHHHHH---HHHHCCCCHHHCC---CC--CCCEEECHHHHHH
Q ss_conf             65189999998777889899999---9998798122025---77--5320116113564
Q gi|254780987|r   22 PYYTPTQLGKKLATKPSAIKVNK---KLREWGFLLEEHE---SG--RKRDVLTPKGAKG   72 (110)
Q Consensus        22 ~~ltPTqlGk~lg~k~SA~~vN~---lL~~~GlQ~~~~~---~g--rkew~lT~~G~k~   72 (110)
                      +..++++|.+.||  +|-.+|.+   .|.++||-.....   .|  ++.|.+|+.+..-
T Consensus        27 ~~~~~~ela~~l~--is~~~v~~HL~~L~~~Glv~~~~~~~~~G~~~~~y~l~~~~~~~   83 (202)
T 2p4w_A           27 RPYFVSELSRELG--VGQKAVLEHLRILEEAGLIESRVEKIPRGRPRKYYMIKKGLRLE   83 (202)
T ss_dssp             SCEEHHHHHHHHT--CCHHHHHHHHHHHHHTTSEEEEECCBTTBCCCEEEEECTTEEEE
T ss_pred             CCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCCEEEEEEECCCCCEEEEEEECCCCEEE
T ss_conf             9998999999989--09989999999999789517997642789617999807876245


No 88 
>1tty_A Sigma-A, RNA polymerase sigma factor RPOD; helix-turn-helix, transcription; NMR {Thermotoga maritima} SCOP: a.4.13.2
Probab=20.53  E-value=50  Score=14.70  Aligned_cols=28  Identities=7%  Similarity=-0.021  Sum_probs=22.6

Q ss_pred             CCCCCCHHHHHHHHCCCCCHHHHHHHHHHC
Q ss_conf             576518999999877788989999999987
Q gi|254780987|r   20 NLPYYTPTQLGKKLATKPSAIKVNKKLREW   49 (110)
Q Consensus        20 ~~~~ltPTqlGk~lg~k~SA~~vN~lL~~~   49 (110)
                      +..-.|-++||+.+|  +|.-+|-++-..+
T Consensus        35 ~~~~~Tl~eI~~~lg--iSreRVRQie~~A   62 (87)
T 1tty_A           35 DGKPKTLEEVGQYFN--VTRERIRQIEVKA   62 (87)
T ss_dssp             TSSCCCHHHHHHHHT--CCHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHC--CCHHHHHHHHHHH
T ss_conf             999657999998959--8899999999999


No 89 
>1t1e_A Kumamolisin; proenzyme, prosubtilase, activation mechanism, sedolisin, serine-carboxyl proteinase, hydrolase; 1.18A {Bacillus SP} SCOP: c.41.1.2 d.58.3.2 PDB: 1t1g_A 1t1i_A 1gt9_1 1gtg_1 1gtj_1 1gtl_1 1sio_A 1sn7_A 1zvj_A 1siu_A 1zvk_A
Probab=20.29  E-value=50  Score=14.67  Aligned_cols=49  Identities=8%  Similarity=0.096  Sum_probs=34.5

Q ss_pred             HHCCCC-CCCCCCCCHHHHHHHHCCC-CCHHHHHHHHHHCCCCHHHCCCCC
Q ss_conf             515888-7657651899999987778-898999999998798122025775
Q gi|254780987|r   12 DINLPT-PNNLPYYTPTQLGKKLATK-PSAIKVNKKLREWGFLLEEHESGR   60 (110)
Q Consensus        12 ~~~LP~-~~~~~~ltPTqlGk~lg~k-~SA~~vN~lL~~~GlQ~~~~~~gr   60 (110)
                      ++.-|. |.--.||||-|+.++++|. .+..+|-..|...||+......++
T Consensus        59 ~~~~p~s~~y~~~lt~~~~~~~~~ps~~~~~~v~~~L~~~Gl~v~~~~~~~  109 (552)
T 1t1e_A           59 ERQAALAPHARVHLEREAFAASHGASLDDFAEIRKFAEAHGLTLDRAHVAA  109 (552)
T ss_dssp             HHHTTSCTTSCCCCCHHHHHHHHSCCHHHHHHHHHHHHHTTCEEEEEETTT
T ss_pred             HCCCCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCCEEEEECCC
T ss_conf             435999975466889999998879499999999999998799557751689


Done!