Query         gi|254781152|ref|YP_003065565.1| hypothetical protein CLIBASIA_05295 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 155
No_of_seqs    17 out of 19
Neff          2.2 
Searched_HMMs 23785
Date          Wed Jun  1 01:39:18 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781152.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3go5_A Multidomain protein wit  94.9   0.035 1.5E-06   32.7   5.0   48    3-50    232-283 (285)
  2 1lva_A Selenocysteine-specific  83.8     2.5  0.0001   21.9   6.2   44    7-50     12-57  (258)
  3 3dkw_A DNR protein; CRP-FNR, H  79.2     2.9 0.00012   21.5   4.9   42   10-51    176-217 (227)
  4 3e97_A Transcriptional regulat  79.1     2.9 0.00012   21.5   4.9   56   10-66    173-228 (231)
  5 2vn2_A DNAD, chromosome replic  79.0     1.9 8.1E-05   22.5   4.0   40    4-44     44-83  (128)
  6 2zdb_A Transcriptional regulat  76.8     1.7   7E-05   22.9   3.1   46   11-56    138-183 (195)
  7 2v9v_A Selenocysteine-specific  74.9     4.9  0.0002   20.2   5.4   56    4-59      9-68  (135)
  8 2pjp_A Selenocysteine-specific  74.8     4.9 0.00021   20.2   8.4   67   12-80     20-87  (121)
  9 3d0s_A Transcriptional regulat  72.9     5.5 0.00023   19.9   5.1   45   10-54    175-219 (227)
 10 3la7_A Global nitrogen regulat  72.8     5.5 0.00023   19.9   5.7   44   11-54    192-235 (243)
 11 3e6c_C CPRK, cyclic nucleotide  72.8     5.5 0.00023   19.9   4.9   57   10-67    175-231 (250)
 12 2gau_A Transcriptional regulat  70.2     6.3 0.00026   19.5   5.3   47   10-56    178-224 (232)
 13 3edp_A LIN2111 protein; APC883  69.8     6.4 0.00027   19.5   5.6   41    5-46     27-68  (236)
 14 2oz6_A Virulence factor regula  69.4     6.6 0.00028   19.4   4.8   39   12-50    164-202 (207)
 15 2v79_A DNA replication protein  68.1     4.9 0.00021   20.2   3.9   38    6-44     46-83  (135)
 16 1zyb_A Transcription regulator  67.4       6 0.00025   19.6   4.2   41   11-51    185-225 (232)
 17 1o5l_A Transcriptional regulat  65.7       1 4.3E-05   24.1   0.0   43   11-53    163-205 (213)
 18 2zcw_A TTHA1359, transcription  65.6     7.9 0.00033   19.0   4.7   51   11-62    145-195 (202)
 19 3neu_A LIN1836 protein; struct  60.0      10 0.00042   18.4   5.6   41    5-46     31-71  (125)
 20 2fmy_A COOA, carbon monoxide o  58.6      10 0.00044   18.3   4.1   51   10-61    165-216 (220)
 21 2ek5_A Predicted transcription  57.0      11 0.00047   18.1   5.5   47    5-52     22-70  (129)
 22 3bwg_A Uncharacterized HTH-typ  56.2      12 0.00049   18.0   5.7   42    4-46     22-64  (239)
 23 3kcc_A Catabolite gene activat  55.3      12  0.0005   17.9   4.7   38   12-49    217-254 (260)
 24 3dp7_A SAM-dependent methyltra  52.2      13 0.00057   17.6   7.0   52    8-61     48-99  (363)
 25 2ra5_A Putative transcriptiona  47.8     5.3 0.00022   20.0   1.2   47    5-52     34-82  (247)
 26 3dv8_A Transcriptional regulat  47.0      16 0.00069   17.1   5.4   47    9-55    166-212 (220)
 27 3fx3_A Cyclic nucleotide-bindi  43.7      18 0.00077   16.8   4.2   52   10-63    176-227 (237)
 28 3f2g_A Alkylmercury lyase; MER  43.5      15 0.00064   17.3   3.0   35    1-37     27-61  (220)
 29 1i7f_A Heat shock protein 33;   40.5     1.3 5.5E-05   23.5  -2.9   50    5-55    213-264 (292)
 30 1ft9_A Carbon monoxide oxidati  40.0      21 0.00089   16.5   3.4   50   11-61    162-212 (222)
 31 2fxa_A Protease production reg  37.0      24 0.00099   16.2   3.1   85    2-102    55-143 (207)
 32 3f8m_A GNTR-family protein tra  35.4      25  0.0011   16.1   5.9   41    5-46     30-70  (248)
 33 3iwz_A CAP-like, catabolite ac  33.7      27  0.0011   15.9   4.9   36   14-49    189-224 (230)
 34 2bgc_A PRFA; bacterial infecti  31.1      30  0.0012   15.6   5.6   47   10-56    167-214 (238)
 35 1j5y_A Transcriptional regulat  29.5      32  0.0013   15.5   4.8   43    7-51     33-76  (187)
 36 2h3o_A MERF; membrane protein,  28.9      10 0.00044   18.3   0.2   19  125-143     5-23  (61)
 37 1v4r_A Transcriptional repress  28.4      15 0.00062   17.4   0.9   43    5-48     29-71  (102)
 38 2r3s_A Uncharacterized protein  28.0      33  0.0014   15.3   5.9   49    8-58     37-85  (335)
 39 3fm5_A Transcriptional regulat  28.0      34  0.0014   15.3   3.8   48    3-52     47-98  (150)
 40 3eet_A Putative GNTR-family tr  27.1      35  0.0015   15.2   5.4   41    5-46     47-87  (272)
 41 2l02_A Uncharacterized protein  27.0      35  0.0015   15.2   5.2   38   13-50     23-62  (82)
 42 3by6_A Predicted transcription  25.6      37  0.0016   15.1   5.0   45    5-50     29-74  (126)
 43 3deu_A Transcriptional regulat  25.3      38  0.0016   15.0   3.3   39    3-43     61-99  (166)
 44 2z99_A Putative uncharacterize  24.0      40  0.0017   14.9   4.4   56    4-61     24-85  (219)
 45 2wv0_A YVOA, HTH-type transcri  23.9      40  0.0017   14.9   5.5   45    5-50     28-73  (243)
 46 3i53_A O-methyltransferase; CO  23.8      40  0.0017   14.8   5.2   50    7-58     35-85  (332)
 47 3mcz_A O-methyltransferase; ad  23.6      41  0.0017   14.8   6.2   45   14-58     58-102 (352)
 48 3cf4_G Acetyl-COA decarbonylas  21.9      44  0.0018   14.6   4.8   37   30-66     25-62  (170)
 49 3lst_A CALO1 methyltransferase  21.4      45  0.0019   14.6   3.4   50    7-58     52-101 (348)
 50 2k9l_A RNA polymerase sigma fa  20.2      48   0.002   14.4   3.5   36    4-39     40-75  (76)

No 1  
>3go5_A Multidomain protein with S1 RNA-binding domains; joint center for structural genomics, protein structure initiative, PSI-2; HET: MSE; 1.40A {Streptococcus pneumoniae TIGR4}
Probab=94.90  E-value=0.035  Score=32.67  Aligned_cols=48  Identities=25%  Similarity=0.173  Sum_probs=43.1

Q ss_pred             CHHCCCCCCCCHH----HHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEE
Q ss_conf             1000489875027----99977719999999999999985391899389242
Q gi|254781152|r    3 SLYDRGGSIPDND----KYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIY   50 (155)
Q Consensus         3 ~MYdrGgPL~~N~----r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LW   50 (155)
                      .|.++||.++.+|    +.+....|+|++.|-+|+-.|++.++|.+.+++++
T Consensus       232 ~L~~~~g~l~~~DkS~pe~I~~~f~~SK~~fK~aiG~L~K~~~I~~~~~~i~  283 (285)
T 3go5_A          232 YLESNGGFMTLNDKSSPDDIKATFGISKGQFKKALGGLMKAGKIKQDQFGTE  283 (285)
T ss_dssp             HHHHTTTEESCCTTSCHHHHHHHHSSCHHHHHHHHHHHHHTTCEEEETTEEE
T ss_pred             HHHHCCCEEECCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCEEEEECCEEE
T ss_conf             9997699160699999999999879099999998567641865999499799


No 2  
>1lva_A Selenocysteine-specific elongation factor; winged-helix, translation; 2.12A {Moorella thermoacetica} SCOP: a.4.5.35 a.4.5.35 a.4.5.35 a.4.5.35 PDB: 2uwm_A 2ply_A 1wsu_A
Probab=83.81  E-value=2.5  Score=21.89  Aligned_cols=44  Identities=11%  Similarity=0.092  Sum_probs=34.3

Q ss_pred             CCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE--ECCCEE
Q ss_conf             48987502799977719999999999999985391899--389242
Q gi|254781152|r    7 RGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI--QEGNIY   50 (155)
Q Consensus         7 rGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l--~DG~LW   50 (155)
                      ...+-..+..-++...|-|......+++-|...|++..  .++..|
T Consensus        12 ~~~~~gl~~~e~~~~~~l~~~~~~~~L~~l~~~~~v~~~~~~~~~~   57 (258)
T 1lva_A           12 QEHREGLDWQEAATRASLSLEETRKLLQSMAAAGQVTLLRVENDLY   57 (258)
T ss_dssp             HTCTTCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEEEETTEEE
T ss_pred             HHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCCEE
T ss_conf             8575787999999995989999999999988579779995589459


No 3  
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix, homodimer, transcription regulator; 3.60A {Pseudomonas aeruginosa}
Probab=79.21  E-value=2.9  Score=21.49  Aligned_cols=42  Identities=19%  Similarity=0.186  Sum_probs=36.7

Q ss_pred             CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEEC
Q ss_conf             875027999777199999999999999853918993892421
Q gi|254781152|r   10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYN   51 (155)
Q Consensus        10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN   51 (155)
                      |++.+-+.||.++|.|..+.-+++.-|.+.|.|...+|.+.=
T Consensus       176 ~l~~t~~~lA~~lg~sr~tv~r~l~~L~~~g~I~~~~~~i~I  217 (227)
T 3dkw_A          176 EIPVAKQLVAGHLSIQPETFSRIMHRLGDEGIIHLDGREISI  217 (227)
T ss_dssp             CCCSCTHHHHHHTTSCHHHHHHHHHHHHHHTSEEESSSCEEE
T ss_pred             ECCHHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEE
T ss_conf             445059999888699899999999999978979971999998


No 4  
>3e97_A Transcriptional regulator, CRP/FNR family; YP_604437.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.86A {Deinococcus geothermalis dsm 11300}
Probab=79.13  E-value=2.9  Score=21.49  Aligned_cols=56  Identities=14%  Similarity=0.077  Sum_probs=44.8

Q ss_pred             CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHHHHHHHHHH
Q ss_conf             875027999777199999999999999853918993892421899999997567788
Q gi|254781152|r   10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEIIKASEERQ   66 (155)
Q Consensus        10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL~n~sEer~   66 (155)
                      .++.+-+-||.++|+|-.+.-.++.-|.+.|.|....+.+.=.+.++ |.++.++.+
T Consensus       173 ~~~lt~~~iA~~lg~sr~tvsR~l~~l~~~giI~~~~~~i~I~d~~~-L~~la~~~~  228 (231)
T 3e97_A          173 VLPLGTQDIMARTSSSRETVSRVLKRLEAHNILEVSPRSVTLLDLAA-LEALSFEGA  228 (231)
T ss_dssp             EECCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECSSCEEESCHHH-HHHCC----
T ss_pred             CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHH-HHHHHHCCC
T ss_conf             22769999998869989999999999997899997299999998999-999855166


No 5  
>2vn2_A DNAD, chromosome replication initiation protein; DNA replication, primosome; 2.3A {Geobacillus kaustophilus HTA426}
Probab=79.03  E-value=1.9  Score=22.52  Aligned_cols=40  Identities=18%  Similarity=0.153  Sum_probs=32.7

Q ss_pred             HHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Q ss_conf             00048987502799977719999999999999985391899
Q gi|254781152|r    4 LYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI   44 (155)
Q Consensus         4 MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l   44 (155)
                      ..++|.+-| +.+.||..+|+|.+....++.-|++.|-|.+
T Consensus        44 ~~~~~~~~P-S~~~La~~~g~s~~~v~~~l~~L~~~gli~i   83 (128)
T 2vn2_A           44 FFEEGVLFP-TPAELAERMTVSAAECMEMVRRLLQKGMIAI   83 (128)
T ss_dssp             HHTTTCSSC-CHHHHHHTSSSCHHHHHHHHHHHHHTTSSEE
T ss_pred             HHHCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
T ss_conf             987599999-9999998959499999999999998899798


No 6  
>2zdb_A Transcriptional regulator, CRP family; CAMP-binding domain, winged helix-turn-helix, thermus thermophilus DNA-binding, plasmid; 2.00A {Thermus thermophilus}
Probab=76.79  E-value=1.7  Score=22.89  Aligned_cols=46  Identities=13%  Similarity=0.075  Sum_probs=41.0

Q ss_pred             CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHH
Q ss_conf             7502799977719999999999999985391899389242189999
Q gi|254781152|r   11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEK   56 (155)
Q Consensus        11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEe   56 (155)
                      ++..-+.||.++|+|..+.-.++..|.+.|-|...+|.+.-.+.+.
T Consensus       138 i~lt~~~lA~~lg~sr~tvsR~l~~L~~~g~I~~~~~~i~I~d~~~  183 (195)
T 2zdb_A          138 VTVSHEEIADATASIRESVSKVLADLRREGLIATAYRRVYLLDLAA  183 (195)
T ss_dssp             EECCHHHHHHTTTSCHHHHHHHHHHHHHHTSEEEETTEEEECCHHH
T ss_pred             CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHH
T ss_conf             4887999998879979999999999998898997099999978999


No 7  
>2v9v_A Selenocysteine-specific elongation factor; transcription, protein conformational change, transcription elongation factor SELB; 1.10A {Moorella thermoacetica} SCOP: a.4.5.35 a.4.5.35
Probab=74.94  E-value=4.9  Score=20.20  Aligned_cols=56  Identities=7%  Similarity=-0.089  Sum_probs=42.1

Q ss_pred             HHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEE--CC--CEECHHHHHHHH
Q ss_conf             000489875027999777199999999999999853918993--89--242189999999
Q gi|254781152|r    4 LYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQ--EG--NIYNVRVEKEII   59 (155)
Q Consensus         4 MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~--DG--~LWN~RVEeEL~   59 (155)
                      -+...+|-..+..-|+..+|-|.+...++++.|...|+|...  ++  .+|....-+++.
T Consensus         9 ~~l~~~~~gl~~~el~~~~~l~~~~l~~~L~~L~~~g~i~~~~~~~~~~~~~~~~~~~~~   68 (135)
T 2v9v_A            9 QIIQEHREGLDWQEAATRASLSLEETRKLLQSMAAAGQVTLLRVENDLYAISTERYQAWW   68 (135)
T ss_dssp             HHHHHCSSCEEHHHHHHHHTCCHHHHHHHHHHHHHTTCEEEEEETTEEEEEEHHHHHHHH
T ss_pred             HHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCCEEEECHHHHHHHH
T ss_conf             999857689899999999498999999999998508958999507965998799999999


No 8  
>2pjp_A Selenocysteine-specific elongation factor; SELB, protein-RNA complex, elongation factor, winged- helix, bulge, translation/RNA complex; 2.30A {Escherichia coli}
Probab=74.76  E-value=4.9  Score=20.17  Aligned_cols=67  Identities=15%  Similarity=0.076  Sum_probs=54.1

Q ss_pred             CCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEE-EECCCEECHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
Q ss_conf             50279997771999999999999998539189-9389242189999999756778874220111245666
Q gi|254781152|r   12 PDNDKYIAGVCGCSIRRWRNIRAILEKFNKIF-IQEGNIYNVRVEKEIIKASEERQENGRKGGIKSSQMR   80 (155)
Q Consensus        12 ~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~-l~DG~LWN~RVEeEL~n~sEer~~agRkGg~~S~Q~R   80 (155)
                      |--.+-||...|-+.+.++.++.+|.+.|.|+ +.++..+-...-.++.+..++-...  .|++.-++.|
T Consensus        20 Pp~v~dla~~l~~d~~~~~~~L~~l~~~G~lv~i~~~~y~~~~~~~~~~~~~~~~~~~--~~~itva~~R   87 (121)
T 2pjp_A           20 PWWVRDLAKETGTDEQAMRLTLRQAAQQGIITAIVKDRYYRNDRIVEFANMIRDLDQE--CGSTCAADFR   87 (121)
T ss_dssp             CEEHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEEETTEEEEHHHHHHHHHHHHHHHHH--HSSEEHHHHH
T ss_pred             CCCHHHHHHHHCCCHHHHHHHHHHHHHCCEEEEECCCEEEEHHHHHHHHHHHHHHHHH--CCCEEHHHHH
T ss_conf             9989999989794999999999999989958995299888589999999999999987--7977199999


No 9  
>3d0s_A Transcriptional regulatory protein; CAMP receptor protein (CRP), dimer, inactive(APO, unliganded) form, allostery, DNA binding; 2.00A {Mycobacterium tuberculosis} PDB: 3i54_A* 3i59_A* 3h3u_A*
Probab=72.85  E-value=5.5  Score=19.90  Aligned_cols=45  Identities=13%  Similarity=0.014  Sum_probs=38.0

Q ss_pred             CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHH
Q ss_conf             875027999777199999999999999853918993892421899
Q gi|254781152|r   10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRV   54 (155)
Q Consensus        10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RV   54 (155)
                      |++..-+.||.++|.|..+...++.-|.+.|.|...++.+.=.+.
T Consensus       175 ~~~~t~~~lA~~lg~s~~tvsr~l~~L~~~g~I~~~~~~i~I~d~  219 (227)
T 3d0s_A          175 THDLTQEEIAQLVGASRETVNKALADFAHRGWIRLEGKSVLISDS  219 (227)
T ss_dssp             ECCCCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEETTEEEESCH
T ss_pred             ECCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCH
T ss_conf             307899999988798999999999999988989963999998889


No 10 
>3la7_A Global nitrogen regulator; activator, DNA-binding, transcription, transcription regulation; HET: BOG; 1.90A {Anabaena} PDB: 3la2_A* 3la3_A* 2xko_A* 2xgx_A* 2xhk_A* 2xkp_A*
Probab=72.79  E-value=5.5  Score=19.89  Aligned_cols=44  Identities=16%  Similarity=0.075  Sum_probs=35.2

Q ss_pred             CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHH
Q ss_conf             75027999777199999999999999853918993892421899
Q gi|254781152|r   11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRV   54 (155)
Q Consensus        11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RV   54 (155)
                      ++..-+-||.++|+|..+.-.++.-|.+.|.|...+|.+.=.+-
T Consensus       192 ~~lt~~~LA~~lGisr~tvsR~L~~L~~~glI~~~~~~I~I~d~  235 (243)
T 3la7_A          192 LKLSHQAIAEAIGSTRVTVTRLLGDLREKKMISIHKKKITVHKP  235 (243)
T ss_dssp             SCCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECC-
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCH
T ss_conf             75259999888799999999999999978989974999998589


No 11 
>3e6c_C CPRK, cyclic nucleotide-binding protein; CPRK, halorespiration; HET: DNA 3C4; 1.80A {Desulfitobacterium hafniense} SCOP: a.4.5.4 b.82.3.2 PDB: 3e6b_A* 3e5u_C* 3e6d_A 3e5x_A* 3e5q_A 2h6b_A* 2h6c_A
Probab=72.75  E-value=5.5  Score=19.89  Aligned_cols=57  Identities=19%  Similarity=0.170  Sum_probs=45.0

Q ss_pred             CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHHHHHHHHHHH
Q ss_conf             8750279997771999999999999998539189938924218999999975677887
Q gi|254781152|r   10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEIIKASEERQE   67 (155)
Q Consensus        10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL~n~sEer~~   67 (155)
                      +++.+-+.||..+|.|..+..+++..|.+.|.|...+|.+-=.+ .++|..+.|+...
T Consensus       175 ~~~lt~~~LA~~lgisr~tvsR~l~~L~~~giI~~~~~~i~I~d-~~~L~~~a~~~~~  231 (250)
T 3e6c_C          175 TMPLSQKSIGEITGVHHVTVSRVLASLKRENILDKKKNKIIVYN-LGELKHLSEQTSY  231 (250)
T ss_dssp             ECCCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECSSEEEESC-HHHHHHHHTSSCC
T ss_pred             CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECC-HHHHHHHHCCCCC
T ss_conf             78868999998979999999999999998898996499999878-9999998757566


No 12 
>2gau_A Transcriptional regulator, CRP/FNR family; structural genomics, PSI; 1.90A {Porphyromonas gingivalis W83} SCOP: a.4.5.4 b.82.3.2
Probab=70.19  E-value=6.3  Score=19.54  Aligned_cols=47  Identities=9%  Similarity=0.041  Sum_probs=38.8

Q ss_pred             CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHH
Q ss_conf             87502799977719999999999999985391899389242189999
Q gi|254781152|r   10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEK   56 (155)
Q Consensus        10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEe   56 (155)
                      +++..-+.||.++|.|..+.-.++..|.+.|-|...++.+.-.+.+.
T Consensus       178 ~~~~t~~~lA~~~G~sr~tvsr~l~~l~~~g~I~~~~~~i~I~d~~~  224 (232)
T 2gau_A          178 SIYLSREELATLSNMTVSNAIRTLSTFVSERMLALDGKRIKIIDCDR  224 (232)
T ss_dssp             SCCCCHHHHHHHTTSCHHHHHHHHHHHHHTTSEEEETTEEEESCHHH
T ss_pred             CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCEEEECCHHH
T ss_conf             34505999998879899999999999998897997099999868999


No 13 
>3edp_A LIN2111 protein; APC88337, listeria innocua CLIP11262, structural genomics, PSI-2, protein structure initiative; 2.09A {Listeria innocua}
Probab=69.76  E-value=6.4  Score=19.48  Aligned_cols=41  Identities=15%  Similarity=0.226  Sum_probs=35.0

Q ss_pred             HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-EC
Q ss_conf             0048987502799977719999999999999985391899-38
Q gi|254781152|r    5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QE   46 (155)
Q Consensus         5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~D   46 (155)
                      |.-|..||. ++-||...|+|--+-|.|++.|.+.|.|.- .+
T Consensus        27 ~~~G~~LPs-E~eLa~~~~VSr~TvR~Al~~L~~eGli~r~~g   68 (236)
T 3edp_A           27 YKTGMLMPN-ETALQEIYSSSRTTIRRAVDLLVEEGLVVRKNG   68 (236)
T ss_dssp             SCCCC--CC-HHHHHHHTTCCHHHHHHHHHHHHHTTSEEEETT
T ss_pred             CCCCCCCCC-HHHHHHHHCCCHHHHHHHHHHHHHHCCCEECCC
T ss_conf             999199927-999999979599999999999997215040588


No 14 
>2oz6_A Virulence factor regulator; winged helix, helix-turn-helix, transcription factor, CAMP- binding proteins, CAMP receptor protein; HET: CMP; 2.80A {Pseudomonas aeruginosa} SCOP: a.4.5.4 b.82.3.2
Probab=69.40  E-value=6.6  Score=19.44  Aligned_cols=39  Identities=15%  Similarity=0.218  Sum_probs=25.4

Q ss_pred             CCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEE
Q ss_conf             502799977719999999999999985391899389242
Q gi|254781152|r   12 PDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIY   50 (155)
Q Consensus        12 ~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LW   50 (155)
                      +..-+.||.++|+|..+.-.++.-|.+.|.|...++.+.
T Consensus       164 ~~t~~~iA~~lg~sr~tvsr~l~~L~~~g~I~~~~~~i~  202 (207)
T 2oz6_A          164 KITRQEIGRIVGCSREMVGRVLKSLEEQGLVHVKGKTMV  202 (207)
T ss_dssp             ECCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEEETTEEE
T ss_pred             CCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEE
T ss_conf             778999998879999999999999998898997799999


No 15 
>2v79_A DNA replication protein DNAD; primosome, DNA remodelling, oligomerization domain, DNA-binding protein; HET: DNA; 2.00A {Bacillus subtilis}
Probab=68.11  E-value=4.9  Score=20.17  Aligned_cols=38  Identities=13%  Similarity=0.186  Sum_probs=31.4

Q ss_pred             CCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Q ss_conf             048987502799977719999999999999985391899
Q gi|254781152|r    6 DRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI   44 (155)
Q Consensus         6 drGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l   44 (155)
                      ++|.+- -+...||..+|+|.+.-.+.+..|++.|-|.+
T Consensus        46 ~~g~~f-PS~~~La~~~g~s~~~v~~~l~~L~~kgli~i   83 (135)
T 2v79_A           46 EKGSYF-PTPNQLQEGMSISVEECTNRLRMFIQKGFLFI   83 (135)
T ss_dssp             TTTCCS-CCHHHHHTTSSSCHHHHHHHHHHHHHHTSCEE
T ss_pred             HCCCCC-CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
T ss_conf             769979-89999998959499999999999998899799


No 16 
>1zyb_A Transcription regulator, CRP family; NP_813211.1, structural genomics, joint center for structural genomics, JCSG; 2.15A {Bacteroides thetaiotaomicron vpi-5482} SCOP: a.4.5.4 b.82.3.2
Probab=67.44  E-value=6  Score=19.64  Aligned_cols=41  Identities=10%  Similarity=-0.081  Sum_probs=32.8

Q ss_pred             CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEEC
Q ss_conf             75027999777199999999999999853918993892421
Q gi|254781152|r   11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYN   51 (155)
Q Consensus        11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN   51 (155)
                      ++.+-+-||.++|+|..+.-.++.-|.+.|.|....|.+-=
T Consensus       185 ~~~~~~~lA~~~g~sr~tv~R~L~~L~~~glI~~~~~~i~I  225 (232)
T 1zyb_A          185 FKVKMDDLARCLDDTRLNISKTLNELQDNGLIELHRKEILI  225 (232)
T ss_dssp             EECCHHHHHHHHTSCHHHHHHHHHHHHHTTSCEEETTEEEE
T ss_pred             CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEE
T ss_conf             67899999989798999999999999988989970999998


No 17 
>1o5l_A Transcriptional regulator, CRP family; TM1171, structural genomics, JCSG, PSI, protein structure initiative; 2.30A {Thermotoga maritima} SCOP: b.82.3.2
Probab=65.68  E-value=1  Score=24.11  Aligned_cols=43  Identities=16%  Similarity=0.193  Sum_probs=27.2

Q ss_pred             CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHH
Q ss_conf             7502799977719999999999999985391899389242189
Q gi|254781152|r   11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVR   53 (155)
Q Consensus        11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~R   53 (155)
                      ++..-+.||..+|+|..+.-+++..|.+.|.|...++++.=.+
T Consensus       163 ~~~t~~~iA~~lg~sr~tvsr~l~~L~~~g~I~~~~~~i~Il~  205 (213)
T 1o5l_A          163 LPVTLEELSRLFGCARPALSRVFQELEREGYIEKHGRRIKVLK  205 (213)
T ss_dssp             -------------------------------------------
T ss_pred             CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEEEC
T ss_conf             0568999999979899999999999997898998799999967


No 18 
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary phase, DNA-binding, transcription regulation; 1.50A {Thermus thermophilus}
Probab=65.57  E-value=7.9  Score=18.98  Aligned_cols=51  Identities=14%  Similarity=0.113  Sum_probs=39.9

Q ss_pred             CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHHHHHH
Q ss_conf             7502799977719999999999999985391899389242189999999756
Q gi|254781152|r   11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEIIKAS   62 (155)
Q Consensus        11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL~n~s   62 (155)
                      ++..-+.||..+|+|..+...++.-|.+.|.|...+|.+-=.+. +.|.++.
T Consensus       145 ~~~t~~~iA~~lg~sr~tv~r~l~~L~~~g~I~~~~~~i~I~d~-~~L~~~a  195 (202)
T 2zcw_A          145 LKATHDELAAAVGSVRETVTKVIGELAREGYIRSGYGKIQLLDL-KGLKELA  195 (202)
T ss_dssp             EECCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEESCH-HHHHHHH
T ss_pred             CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCH-HHHHHHH
T ss_conf             78879999989798899999999999988999974999999889-9999999


No 19 
>3neu_A LIN1836 protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, unknown function; 1.58A {Listeria innocua}
Probab=59.99  E-value=10  Score=18.38  Aligned_cols=41  Identities=10%  Similarity=0.126  Sum_probs=33.7

Q ss_pred             HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC
Q ss_conf             004898750279997771999999999999998539189938
Q gi|254781152|r    5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQE   46 (155)
Q Consensus         5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~D   46 (155)
                      |..|..|| +++-||...|+|.-+-|.|+..|.+.|-|....
T Consensus        31 l~~G~~LP-ser~La~~~~VSr~tVr~Al~~L~~~Glv~~~~   71 (125)
T 3neu_A           31 WKGEDKLP-SVREMGVKLAVNPNTVSRAYQELERAGYIYAKR   71 (125)
T ss_dssp             SCTTCBCC-CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEET
T ss_pred             CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC
T ss_conf             99969995-499999993928899999999999889179963


No 20 
>2fmy_A COOA, carbon monoxide oxidation system transcription regulator COOA-1; DNA transcription regulator, DNA binding protein; HET: HEM; 2.20A {Carboxydothermus hydrogenoformans} PDB: 2hkx_A*
Probab=58.64  E-value=10  Score=18.27  Aligned_cols=51  Identities=10%  Similarity=0.014  Sum_probs=37.2

Q ss_pred             CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-ECCCEECHHHHHHHHHH
Q ss_conf             87502799977719999999999999985391899-38924218999999975
Q gi|254781152|r   10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QEGNIYNVRVEKEIIKA   61 (155)
Q Consensus        10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~DG~LWN~RVEeEL~n~   61 (155)
                      +++..-+.||.++|.|..+.-.++.-|.+.|.|.. .++.+--.+ .++|.++
T Consensus       165 ~~~lt~~~lA~~lg~sr~tvsr~l~~l~~~g~I~~~~~~~i~i~d-~~~L~~~  216 (220)
T 2fmy_A          165 ELGLNTEEIALMLGTTRQTVSVLLNDFKKMGILERVNQRTLLLKD-LQKLKEF  216 (220)
T ss_dssp             ECSSCHHHHHHHHTSCHHHHHHHHHHHHHTTSEEESSSSEEEESC-HHHHHHH
T ss_pred             EECCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCCEEEECC-HHHHHHH
T ss_conf             707249999999799999999999999988999976999899899-9999998


No 21 
>2ek5_A Predicted transcriptional regulators; helix-turn-helix, interwined alpha helices; 2.20A {Corynebacterium glutamicum atcc 13032} PDB: 2du9_A
Probab=57.03  E-value=11  Score=18.08  Aligned_cols=47  Identities=13%  Similarity=0.139  Sum_probs=35.6

Q ss_pred             HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-EC-CCEECH
Q ss_conf             0048987502799977719999999999999985391899-38-924218
Q gi|254781152|r    5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QE-GNIYNV   52 (155)
Q Consensus         5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~D-G~LWN~   52 (155)
                      |.-|..|| +++-||...|+|.-+.|.|+..|.+.|-|.. .+ |...+.
T Consensus        22 ~~pG~~LP-se~~La~~~gVSr~tVR~Al~~L~~~Glv~~~~g~G~~V~~   70 (129)
T 2ek5_A           22 LSIDQRVP-STNELAAFHRINPATARNGLTLLVEAGILYKKRGIGMFVSA   70 (129)
T ss_dssp             SCTTSCBC-CHHHHHHHTTCCHHHHHHHHHHHHTTTSEEEETTTEEEECT
T ss_pred             CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEEEECC
T ss_conf             99969987-89999989299999999999999988917996386678889


No 22 
>3bwg_A Uncharacterized HTH-type transcriptional regulator YYDK; APC85486, structural genomics, PSI-2, protein structure initiative; 2.09A {Bacillus subtilis subsp} SCOP: a.4.5.6 d.190.1.2
Probab=56.17  E-value=12  Score=17.99  Aligned_cols=42  Identities=17%  Similarity=0.188  Sum_probs=34.8

Q ss_pred             HHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-EC
Q ss_conf             00048987502799977719999999999999985391899-38
Q gi|254781152|r    4 LYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QE   46 (155)
Q Consensus         4 MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~D   46 (155)
                      .|.-|..|| .++.||-..|+|--+-|.|++.|.+.|.|.- .+
T Consensus        22 ~~~~G~kLP-sE~~La~~~~VSR~TvR~Al~~L~~~G~i~~~~G   64 (239)
T 3bwg_A           22 QLQQGDKLP-VLETLMAQFEVSKSTITKSLELLEQKGAIFQVRG   64 (239)
T ss_dssp             TCCTTCBCC-CHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEETT
T ss_pred             CCCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHHCCEECCCC
T ss_conf             999919991-6999999989599999999999997246052488


No 23 
>3kcc_A Catabolite gene activator; helix-turn-helix, CAMP, CAMP-binding, DNA- binding, nucleotide-binding, transcription; HET: CMP; 1.66A {Escherichia coli k-12} PDB: 3fwe_A 1g6n_A* 2cgp_A* 3hif_A 1i5z_A* 1j59_A* 1lb2_A* 1run_A* 1zrc_A* 1zrd_A* 1zre_A* 1zrf_A* 2gzw_A* 2wc2_A 3iyd_G* 1hw5_A* 1ruo_A* 1i6x_A* 1cgp_A* 1o3t_A* ...
Probab=55.34  E-value=12  Score=17.91  Aligned_cols=38  Identities=26%  Similarity=0.276  Sum_probs=22.1

Q ss_pred             CCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCE
Q ss_conf             50279997771999999999999998539189938924
Q gi|254781152|r   12 PDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNI   49 (155)
Q Consensus        12 ~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~L   49 (155)
                      +..-+-||.++|+|..+.-.++.-|.+.|-|...++.+
T Consensus       217 ~lt~~~LA~~lG~sr~tvsR~l~~L~~~glI~~~~~~I  254 (260)
T 3kcc_A          217 KITRQEIGQIVGCSRETVGRILKMLEDQNLISAHGKTI  254 (260)
T ss_dssp             ECCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECSSEE
T ss_pred             CCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEE
T ss_conf             68999999997998999999999999799199659999


No 24 
>3dp7_A SAM-dependent methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research, nysgxrc; 2.33A {Bacteroides vulgatus atcc 8482}
Probab=52.20  E-value=13  Score=17.61  Aligned_cols=52  Identities=10%  Similarity=0.047  Sum_probs=45.2

Q ss_pred             CCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHHHHH
Q ss_conf             898750279997771999999999999998539189938924218999999975
Q gi|254781152|r    8 GGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEIIKA   61 (155)
Q Consensus         8 GgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL~n~   61 (155)
                      ++|+  +.+-||..+|++.+.-+..+++|...|-+...+++.+++...+++...
T Consensus        48 ~~~~--t~~eLa~~~g~~~~~l~rlL~~L~~~g~l~~~~~~y~lt~~s~~l~~~   99 (363)
T 3dp7_A           48 REGY--TLQEISGRTGLTRYAAQVLLEASLTIGTILLEEDRYVLAKAGWFLLND   99 (363)
T ss_dssp             TTCB--CHHHHHHHHTCCHHHHHHHHHHHHHHTSEEEETTEEEECHHHHHHHHC
T ss_pred             CCCC--CHHHHHHHHCCCHHHHHHHHHHHHHCCEEEEECCCEEECHHHHHHHCC
T ss_conf             9998--999999887909999999999998589189859928778889988079


No 25 
>2ra5_A Putative transcriptional regulator; beta structure, UTRA domain, structural genomics, PSI-2, protein structure initiative; HET: SRT; 2.40A {Streptomyces coelicolor A3} SCOP: d.190.1.2
Probab=47.85  E-value=5.3  Score=19.97  Aligned_cols=47  Identities=17%  Similarity=0.068  Sum_probs=36.3

Q ss_pred             HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEE-EEC-CCEECH
Q ss_conf             004898750279997771999999999999998539189-938-924218
Q gi|254781152|r    5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIF-IQE-GNIYNV   52 (155)
Q Consensus         5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~-l~D-G~LWN~   52 (155)
                      |..|..|| .++-||...|+|--+-|.|++.|.+.|-|. ..+ |-.+..
T Consensus        34 ~~~G~~LP-sE~~La~~~~VSR~TvR~Al~~L~~eGlI~~~~G~Gt~V~~   82 (247)
T 2ra5_A           34 LTPGSLLG-NEIELAARLGLSRPTVRQAIQSLVDKGLLVRRRGVGTQVVH   82 (247)
T ss_dssp             -----------------------------------CEEEEEC--------
T ss_pred             CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCCEEEECC
T ss_conf             89919993-89999988697989999999999976985865895699999


No 26 
>3dv8_A Transcriptional regulator, CRP/FNR family; RER070207001219, structural genomics, joint center for structural genomics, JCSG; 2.55A {Eubacterium rectale atcc 33656}
Probab=47.01  E-value=16  Score=17.13  Aligned_cols=47  Identities=11%  Similarity=0.075  Sum_probs=36.2

Q ss_pred             CCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHH
Q ss_conf             98750279997771999999999999998539189938924218999
Q gi|254781152|r    9 GSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVE   55 (155)
Q Consensus         9 gPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVE   55 (155)
                      ..++..-+.||..+|+|-.+.-.++..|.+.|-|...++.+.=.+.+
T Consensus       166 ~~~~~t~~~lA~~lg~sr~tvsr~l~~L~~~g~I~~~~~~i~I~d~~  212 (220)
T 3dv8_A          166 NELKITHETIANHLGSHREVITRMLRYFQVEGLVKLSRGKITILDSK  212 (220)
T ss_dssp             SEECCCHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEESCHH
T ss_pred             CCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHH
T ss_conf             77789999999997989999999999999889899729999988899


No 27 
>3fx3_A Cyclic nucleotide-binding protein; helix_TURN_helix, CAMP regulatory protein, structural genomics, PSI-2, protein structure initiative; 2.20A {Ruegeria pomeroyi} PDB: 3h3z_A*
Probab=43.73  E-value=18  Score=16.83  Aligned_cols=52  Identities=13%  Similarity=0.154  Sum_probs=38.3

Q ss_pred             CCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHHHHHHH
Q ss_conf             875027999777199999999999999853918993892421899999997567
Q gi|254781152|r   10 SIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEIIKASE   63 (155)
Q Consensus        10 PL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL~n~sE   63 (155)
                      .++.+-+.||.++|+|..+.-.++.-|.+.| |+..+|.+.=.+.+. |.++.|
T Consensus       176 ~l~~t~~~iA~~lgisr~tvsR~l~~L~~~g-ii~~~~~i~I~d~~~-L~~~a~  227 (237)
T 3fx3_A          176 TLPYDKMLIAGRLGMKPESLSRAFSRLKAAG-VTVKRNHAEIEDIAL-LRDYAE  227 (237)
T ss_dssp             ECCSCTHHHHHHTTCCHHHHHHHHHHHGGGT-EECCTTEEEESCHHH-HHHHHC
T ss_pred             CCCCCHHHHHHHHCCCHHHHHHHHHHHHHCC-CEEECCEEEECCHHH-HHHHHC
T ss_conf             6788999999886998999999999999799-399799899978999-999865


No 28 
>3f2g_A Alkylmercury lyase; MERB, organomercurial lyase, mercury resistance, mercuric resistance, plasmid; 1.78A {Escherichia coli} PDB: 3f2h_A 3fn8_A 1s6l_A 3f0o_A 3f0p_A 3f2f_A
Probab=43.48  E-value=15  Score=17.29  Aligned_cols=35  Identities=11%  Similarity=0.250  Sum_probs=29.3

Q ss_pred             CCCHHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf             9210004898750279997771999999999999998
Q gi|254781152|r    1 MISLYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILE   37 (155)
Q Consensus         1 lv~MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll   37 (155)
                      +++++++|.|....+  ||..+|.|+...+.+|+.+-
T Consensus        27 llr~la~G~pv~~~~--LA~~~~~~~e~v~~~L~~~~   61 (220)
T 3f2g_A           27 LLRELAKGRPVSRTT--LAGILDWPAERVAAVLEQAT   61 (220)
T ss_dssp             HHHHHTTTSCBCHHH--HHHHHTCCHHHHHHHHHHCT
T ss_pred             HHHHHHCCCCCCHHH--HHHHHCCCHHHHHHHHHHCC
T ss_conf             999997799999999--99882998999999998679


No 29 
>1i7f_A Heat shock protein 33; HSP33, redox sensitive molecular chaperone; 2.70A {Escherichia coli} SCOP: d.193.1.1 PDB: 1xjh_A
Probab=40.46  E-value=1.3  Score=23.51  Aligned_cols=50  Identities=18%  Similarity=0.307  Sum_probs=29.3

Q ss_pred             HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCC--EEEECCCEECHHHH
Q ss_conf             0048987502799977719999999999999985391--89938924218999
Q gi|254781152|r    5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNK--IFIQEGNIYNVRVE   55 (155)
Q Consensus         5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GK--I~l~DG~LWN~RVE   55 (155)
                      ++..++-....+-+...|.||..|+..+|..|-+...  |+..+|.+ ...|+
T Consensus       213 f~~~~~~i~~~~~v~f~C~CS~er~~~~L~~Lg~~El~~i~~e~g~i-ev~C~  264 (292)
T 1i7f_A          213 YHEEEVTVYDPQDVEFKCTCSRERSADALKTLPDEEVDSILAEDGEI-DMHCD  264 (292)
T ss_dssp             HTTSCCCCCCCCCCCCCCC----------------------------------
T ss_pred             HCCCCCEECCCCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHCCCCE-EEEEE
T ss_conf             18688168346137879999999999999826999999998649978-99956


No 30 
>1ft9_A Carbon monoxide oxidation system transcription regulator; heme sensor, catabolite gene activator protein; HET: HEM; 2.60A {Rhodospirillum rubrum} SCOP: a.4.5.4 b.82.3.1
Probab=39.99  E-value=21  Score=16.48  Aligned_cols=50  Identities=20%  Similarity=0.003  Sum_probs=37.7

Q ss_pred             CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC-CCEECHHHHHHHHHH
Q ss_conf             750279997771999999999999998539189938-924218999999975
Q gi|254781152|r   11 IPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQE-GNIYNVRVEKEIIKA   61 (155)
Q Consensus        11 L~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~D-G~LWN~RVEeEL~n~   61 (155)
                      ++..-+-||.++|.|-.+.-+++.-|.+.|.|...+ |.+.=.+ .++|...
T Consensus       162 ~~lt~~~lA~~lg~sr~tvsr~l~~L~~~g~I~~~~r~~i~i~d-~~~L~~~  212 (222)
T 1ft9_A          162 VDFTVEEIANLIGSSRQTTSTALNSLIKEGYISRQGRGHYTIPN-LVRLKAA  212 (222)
T ss_dssp             ECCCHHHHHHHHCSCHHHHHHHHHHHHHTTSSEECSTTCEECSS-HHHHHHT
T ss_pred             CCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCCEEEECC-HHHHHHH
T ss_conf             88469999999799899999999999988999988999699899-9999998


No 31 
>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=37.00  E-value=24  Score=16.20  Aligned_cols=85  Identities=19%  Similarity=0.134  Sum_probs=54.1

Q ss_pred             CCHHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEE-E---ECCCEECHHHHHHHHHHHHHHHHHHHHCCHHHH
Q ss_conf             210004898750279997771999999999999998539189-9---389242189999999756778874220111245
Q gi|254781152|r    2 ISLYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIF-I---QEGNIYNVRVEKEIIKASEERQENGRKGGIKSS   77 (155)
Q Consensus         2 v~MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~-l---~DG~LWN~RVEeEL~n~sEer~~agRkGg~~S~   77 (155)
                      ..+|..++   .+..-||..++.+.-..-.+++-|.+.|-|. .   .|+|.+..+.-++=..+-++-...         
T Consensus        55 ~~L~~~~~---~s~~ela~~~~~~~stvs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~l~~~~~~~---------  122 (207)
T 2fxa_A           55 WIAYQLNG---ASISEIAKFGVMHVSTAFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVFWSLLEE---------  122 (207)
T ss_dssp             HHHHHHTS---EEHHHHHHHTTCCHHHHHHHHHHHHHHTSEEEECC------CEEEECHHHHHHHHHHHHH---------
T ss_pred             HHHHHCCC---CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCCCCEEEEEEECHHHHHHHHHHHHH---------
T ss_conf             99997699---499999999886987999999999968998872389887568988898899999999999---------


Q ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHC
Q ss_conf             6666777655664301564786308
Q gi|254781152|r   78 QMRILSKKTNNLFQGTLKPAHVFQK  102 (155)
Q Consensus        78 Q~R~~~kk~n~~fq~~~~~~~~~~~  102 (155)
                          .....+..|+|..+..+++-+
T Consensus       123 ----~~~~~~~~~~g~~p~~el~g~  143 (207)
T 2fxa_A          123 ----FDPTRNAVFKGSQPLYHLFGK  143 (207)
T ss_dssp             ----CCGGGCHHHHHTHHHHHHHSS
T ss_pred             ----HHHHHHHHHCCCCCHHHHHHH
T ss_conf             ----999999998068817999750


No 32 
>3f8m_A GNTR-family protein transcriptional regulator; PHNF, HUTC, winged helix- turn-helix, UTRA, DNA-binding, transcription regulation; 1.80A {Mycobacterium smegmatis}
Probab=35.43  E-value=25  Score=16.05  Aligned_cols=41  Identities=15%  Similarity=0.070  Sum_probs=34.3

Q ss_pred             HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC
Q ss_conf             004898750279997771999999999999998539189938
Q gi|254781152|r    5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQE   46 (155)
Q Consensus         5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~D   46 (155)
                      |.-|..|| .++-||..-|.|.-+-|.|++.|.+.|-|.-.+
T Consensus        30 l~~G~~LP-sE~eLa~~~~VSR~TVR~Al~~L~~eGlI~rrG   70 (248)
T 3f8m_A           30 MRIGDPFP-AEREIAEQFEVARETVRQALRELLIDGRVERRG   70 (248)
T ss_dssp             CCTTCBCC-CHHHHHHHTTCCHHHHHHHHHHHHHTTSEEEET
T ss_pred             CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEECCC
T ss_conf             99988484-799999997979999999999999778887146


No 33 
>3iwz_A CAP-like, catabolite activation-like protein; XCC, pathogenicity, CRP, CLP, C-DI-GMP receptor, quorum sensing, DNA-binding; 2.30A {Xanthomonas campestris PV}
Probab=33.74  E-value=27  Score=15.89  Aligned_cols=36  Identities=14%  Similarity=0.190  Sum_probs=17.0

Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCE
Q ss_conf             279997771999999999999998539189938924
Q gi|254781152|r   14 NDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNI   49 (155)
Q Consensus        14 N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~L   49 (155)
                      .-+.||.++|.|-.+.-+++.-|.+.|-|...++.+
T Consensus       189 t~~~lA~~lg~sr~tv~R~l~~l~~~giI~~~~~~I  224 (230)
T 3iwz_A          189 SRQELARLVGCSREMAGRVLKKLQADGLLHARGKTV  224 (230)
T ss_dssp             CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEE
T ss_pred             CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECCCEE
T ss_conf             999999997998999999999999789899739999


No 34 
>2bgc_A PRFA; bacterial infection, human pathogen, transcriptional regulator, transcription; HET: PR3; 2.3A {Listeria monocytogenes} SCOP: a.4.5.4 b.82.3.3 PDB: 2beo_A* 1omi_A
Probab=31.06  E-value=30  Score=15.63  Aligned_cols=47  Identities=11%  Similarity=0.003  Sum_probs=38.6

Q ss_pred             CCCCHHHHHHHHHCCCHHH-HHHHHHHHHHCCCEEEECCCEECHHHHH
Q ss_conf             8750279997771999999-9999999985391899389242189999
Q gi|254781152|r   10 SIPDNDKYIAGVCGCSIRR-WRNIRAILEKFNKIFIQEGNIYNVRVEK   56 (155)
Q Consensus        10 PL~~N~r~LAg~CGCSvKk-Fr~aLd~Ll~~GKI~l~DG~LWN~RVEe   56 (155)
                      +++..-+.+|.++|.|.+. +-.++..|.+.|-|....+.++=.+.+.
T Consensus       167 ~~~~t~~~lA~~lg~s~r~~vsR~L~~L~~~giI~~~~~~i~I~D~~~  214 (238)
T 2bgc_A          167 LDNLTMQELGYSSGIAHSSAVSRIISKLKQEKVIVYKNSCFYVQNLDY  214 (238)
T ss_dssp             CSCCCHHHHHHHTTCCCHHHHHHHHHHHHHTTSEEEETTEEEESCHHH
T ss_pred             CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHCCCEEECCCEEEECCHHH
T ss_conf             247679999999689818899999999998897997699999888999


No 35 
>1j5y_A Transcriptional regulator, biotin repressor family; structural genomics, TM1602, JCSG, conserved hypothetical protein, PSI; 2.30A {Thermotoga maritima} SCOP: a.4.5.1 d.94.2.1
Probab=29.47  E-value=32  Score=15.46  Aligned_cols=43  Identities=12%  Similarity=-0.078  Sum_probs=34.3

Q ss_pred             CCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCC-EEEECCCEEC
Q ss_conf             48987502799977719999999999999985391-8993892421
Q gi|254781152|r    7 RGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNK-IFIQEGNIYN   51 (155)
Q Consensus         7 rGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GK-I~l~DG~LWN   51 (155)
                      .++|  ....-||..+|+|.++-+.-++.|.+.|. |.-..|+.+-
T Consensus        33 ~~~~--vs~~eLa~~l~vS~~TIrrdi~~L~~~G~~i~~~~gGy~L   76 (187)
T 1j5y_A           33 SKEP--VSGAQLAEELSVSRQVIVQDIAYLRSLGYNIVATPRGYVL   76 (187)
T ss_dssp             CSSC--BCHHHHHHHHTSCHHHHHHHHHHHHHHTCCCEEETTEEEC
T ss_pred             CCCC--CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCEEE
T ss_conf             5996--7699999997989999999999999779968984698896


No 36 
>2h3o_A MERF; membrane protein, alpha-helix, bicelle; NMR {Morganella morganii}
Probab=28.94  E-value=10  Score=18.28  Aligned_cols=19  Identities=37%  Similarity=0.513  Sum_probs=14.5

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q ss_conf             8898776556787664100
Q gi|254781152|r  125 LVIALCCATDVLIHHYGIV  143 (155)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~  143 (155)
                      .+.||||.|.+|.--.|.|
T Consensus         5 vi~ALCCFTPvLVil~g~v   23 (61)
T 2h3o_A            5 TLVALSSFTPVLVILLGVV   23 (61)
T ss_dssp             -----------CHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
T ss_conf             9999998119999999984


No 37 
>1v4r_A Transcriptional repressor; helix-turn-helix, winged-helix, gene regulation; NMR {Streptomyces} SCOP: a.4.5.6
Probab=28.41  E-value=15  Score=17.39  Aligned_cols=43  Identities=14%  Similarity=0.154  Sum_probs=34.7

Q ss_pred             HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCC
Q ss_conf             00489875027999777199999999999999853918993892
Q gi|254781152|r    5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGN   48 (155)
Q Consensus         5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~   48 (155)
                      |.-|..|| .++.||...|+|.-+.+.|+..|.+.|-|....|.
T Consensus        29 ~~pG~~LP-ser~La~~~~vSr~tvr~Al~~L~~~Gli~~~~g~   71 (102)
T 1v4r_A           29 LAPGDTLP-SVADIRAQFGVAAKTVSRALAVLKSEGLVSSRGAL   71 (102)
T ss_dssp             CCTTSBCC-CHHHHHHHSSSCTTHHHHHTTTTTTSSCCEEETTT
T ss_pred             CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCC
T ss_conf             99939983-79999999798779999999999988948997586


No 38 
>2r3s_A Uncharacterized protein; methyltransferase domain, structural genomics, joint center structural genomics, JCSG; HET: MSE; 2.15A {Nostoc punctiforme pcc 73102}
Probab=28.03  E-value=33  Score=15.32  Aligned_cols=49  Identities=16%  Similarity=0.091  Sum_probs=41.4

Q ss_pred             CCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHH
Q ss_conf             898750279997771999999999999998539189938924218999999
Q gi|254781152|r    8 GGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEI   58 (155)
Q Consensus         8 GgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL   58 (155)
                      .+|  ....-||..+|++.+..+..+++|...|-+...+++..|+..-+++
T Consensus        37 ~g~--~t~~eLA~~~g~~~~~l~~lL~~L~~~gll~~~~~~y~lt~~~~~~   85 (335)
T 2r3s_A           37 QGI--ESSQSLAQKCQTSERGMRMLCDYLVIIGFMTKQAEGYRLTSDSAMF   85 (335)
T ss_dssp             TSE--ECHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECHHHHHH
T ss_pred             CCC--CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCEEEECHHHHHH
T ss_conf             799--9999999771979999999999998789238737856516878977


No 39 
>3fm5_A Transcriptional regulator; MCSG, PF04017, PSI, MARR, structural genomics, protein structure initiative; HET: GOL; 2.00A {Rhodococcus jostii RHA1}
Probab=27.96  E-value=34  Score=15.31  Aligned_cols=48  Identities=8%  Similarity=0.058  Sum_probs=36.9

Q ss_pred             CHHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEE----EECCCEECH
Q ss_conf             10004898750279997771999999999999998539189----938924218
Q gi|254781152|r    3 SLYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIF----IQEGNIYNV   52 (155)
Q Consensus         3 ~MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~----l~DG~LWN~   52 (155)
                      .+++.++|+.  -.-||..++++.-..-.+++-|.+.|-|.    ..|+|..-.
T Consensus        47 ~l~~~~~~~t--~~ela~~l~~~~~~vsr~v~~L~~~glI~r~~~~~D~R~~~l   98 (150)
T 3fm5_A           47 LACEQAEGVN--QRGVAATMGLDPSQIVGLVDELEERGLVVRTLDPSDRRNKLI   98 (150)
T ss_dssp             HHHHSTTCCC--SHHHHHHHTCCHHHHHHHHHHHHTTTSEEC-----------C
T ss_pred             HHHHCCCCCC--HHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCCCCCCHHH
T ss_conf             9998598989--999999978878778899998976476466018665661243


No 40 
>3eet_A Putative GNTR-family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.97A {Streptomyces avermitilis}
Probab=27.07  E-value=35  Score=15.21  Aligned_cols=41  Identities=15%  Similarity=0.025  Sum_probs=34.0

Q ss_pred             HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC
Q ss_conf             004898750279997771999999999999998539189938
Q gi|254781152|r    5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQE   46 (155)
Q Consensus         5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~D   46 (155)
                      |.-|..|| .++-||-..|+|--+-|.|+..|...|-|....
T Consensus        47 l~pG~rLP-sereLA~~~gVSR~TVR~Al~~L~~~Glv~~~~   87 (272)
T 3eet_A           47 LPPHTRLP-SQARIREEYGVSDTVALEARKVLMAEGLVEGRS   87 (272)
T ss_dssp             SCTTSBCC-CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECC
T ss_pred             CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEECC
T ss_conf             99929990-899999998949999999999999869938649


No 41 
>2l02_A Uncharacterized protein; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative; NMR {Bacteroides thetaiotaomicron}
Probab=27.00  E-value=35  Score=15.21  Aligned_cols=38  Identities=21%  Similarity=0.090  Sum_probs=33.4

Q ss_pred             CHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE--ECCCEE
Q ss_conf             02799977719999999999999985391899--389242
Q gi|254781152|r   13 DNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI--QEGNIY   50 (155)
Q Consensus        13 ~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l--~DG~LW   50 (155)
                      -+.+-|++.++-|.+-...|+--|.++|||..  .+|.++
T Consensus        23 ~s~~eL~k~t~lsd~e~~lAiGWLaRE~KI~~e~k~g~l~   62 (82)
T 2l02_A           23 ISIPELARKVNLSVESTALAVGWLARENKVVIERKNGLIE   62 (82)
T ss_dssp             BCHHHHHHHHTCCHHHHHHHHHHHHTTTSEEEEEETTEEE
T ss_pred             CCHHHHHHHHCCCHHHHHHHHHHHHCCCEEEEEEECCEEE
T ss_conf             7799999886959999999875874278068998778799


No 42 
>3by6_A Predicted transcriptional regulator; structural genomics, PSI-2, MCSG, protein structure initiative, midwest center for structural genomics; 2.20A {Oenococcus oeni psu-1}
Probab=25.64  E-value=37  Score=15.06  Aligned_cols=45  Identities=11%  Similarity=-0.022  Sum_probs=35.0

Q ss_pred             HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-ECCCEE
Q ss_conf             0048987502799977719999999999999985391899-389242
Q gi|254781152|r    5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QEGNIY   50 (155)
Q Consensus         5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~DG~LW   50 (155)
                      |..|..|| .++-||...|+|.-+.+.|+..|.+.|-|.. .+.+.|
T Consensus        29 l~~G~~LP-ser~La~~~~vSr~tVr~Al~~L~~~Gli~~~~g~G~~   74 (126)
T 3by6_A           29 LSANDQLP-SVRETALQEKINPNTVAKAYKELEAQKVIRTIPGKGTF   74 (126)
T ss_dssp             SCTTCEEC-CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTTEEE
T ss_pred             CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEEE
T ss_conf             99929990-49999999798989999999999988927997381589


No 43 
>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=25.31  E-value=38  Score=15.02  Aligned_cols=39  Identities=13%  Similarity=-0.029  Sum_probs=31.5

Q ss_pred             CHHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
Q ss_conf             10004898750279997771999999999999998539189
Q gi|254781152|r    3 SLYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIF   43 (155)
Q Consensus         3 ~MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~   43 (155)
                      .++..++++  ...-||..++++.-....+++-|.+.|-|.
T Consensus        61 ~L~~~~~~~--t~~eLa~~l~i~~stvsr~v~~L~~~GlI~   99 (166)
T 3deu_A           61 NIHQLPPDQ--SQIQLAKAIGIEQPSLVRTLDQLEDKGLIS   99 (166)
T ss_dssp             HHHHSCSSE--EHHHHHHHHTSCHHHHHHHHHHHHHTTSEE
T ss_pred             HHHHCCCCC--CHHHHHHHHCCCHHHHHHHHHHHHHCCCEE
T ss_conf             999769897--999999997989989999999998589888


No 44 
>2z99_A Putative uncharacterized protein; winged helix domain, cell cycle, cell division, chromosome partition, cytoplasm; 2.30A {Mycobacterium tuberculosis}
Probab=24.00  E-value=40  Score=14.87  Aligned_cols=56  Identities=5%  Similarity=-0.019  Sum_probs=37.9

Q ss_pred             HHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHC------CCEEEECCCEECHHHHHHHHHH
Q ss_conf             000489875027999777199999999999999853------9189938924218999999975
Q gi|254781152|r    4 LYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKF------NKIFIQEGNIYNVRVEKEIIKA   61 (155)
Q Consensus         4 MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~------GKI~l~DG~LWN~RVEeEL~n~   61 (155)
                      +|..++|+  +.+.||.+++++....+.+++.|.+.      |-.+..-|+-|-.+...|.-..
T Consensus        24 LF~s~epv--s~~~La~~~~~~~~~v~~~l~~L~~~y~~~~~g~~l~~~~ggy~l~t~~~~~~~   85 (219)
T 2z99_A           24 LLVIDTPV--TADALAAATEQPVYRVAAKLQLMADELTGRDSGIDLRHTSEGWRMYTRARFAPY   85 (219)
T ss_dssp             HHHCSSCB--CHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCSEEEEEETTEEEEEECGGGHHH
T ss_pred             HHHCCCCC--CHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCEEEEEECCEEEEEECHHHHHH
T ss_conf             99717997--999999883898899999999999987426663589996895899957566168


No 45 
>2wv0_A YVOA, HTH-type transcriptional repressor YVOA; DNA-binding, transcription regulation, transcriptional regulator, GNTR/HUTC family; 2.40A {Bacillus subtilis}
Probab=23.91  E-value=40  Score=14.86  Aligned_cols=45  Identities=13%  Similarity=0.139  Sum_probs=34.8

Q ss_pred             HCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE-ECCCEE
Q ss_conf             0048987502799977719999999999999985391899-389242
Q gi|254781152|r    5 YDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFI-QEGNIY   50 (155)
Q Consensus         5 YdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l-~DG~LW   50 (155)
                      |--|..|| .++-||...|+|.-+-|.|++.|.+.|-|.- .+.|.|
T Consensus        28 ~~~G~~LP-se~~La~~~~VSr~TVR~Al~~L~~eGli~~~~g~G~~   73 (243)
T 2wv0_A           28 LQPDMPLP-SEREYAEQFGISRMTVRQALSNLVNEGLLYRLKGRGTF   73 (243)
T ss_dssp             SCTTCBCC-CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEECTTSCEE
T ss_pred             CCCCCCCC-CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCCCC
T ss_conf             99939993-79999999796999999999999977997997884465


No 46 
>3i53_A O-methyltransferase; CO-complex, rossmann-like fold; HET: SAH; 2.08A {Streptomyces carzinostaticus subsp} PDB: 3i58_A* 3i5u_A* 3i64_A*
Probab=23.77  E-value=40  Score=14.85  Aligned_cols=50  Identities=12%  Similarity=0.065  Sum_probs=37.9

Q ss_pred             CCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEC-CCEECHHHHHHH
Q ss_conf             4898750279997771999999999999998539189938-924218999999
Q gi|254781152|r    7 RGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQE-GNIYNVRVEKEI   58 (155)
Q Consensus         7 rGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~D-G~LWN~RVEeEL   58 (155)
                      ..||+.  ..-||..+|++.+..+.++.+|...|-+...+ |..-++++.+.+
T Consensus        35 ~~gp~t--~~eLA~~~g~~~~~l~rlLr~L~~~gil~~~~~g~y~~t~~s~~l   85 (332)
T 3i53_A           35 AAGHRT--AAEIASAAGAHADSLDRLLRHLVAVGLFTRDGQGVYGLTEFGEQL   85 (332)
T ss_dssp             HTTCCB--HHHHHHHHTCCHHHHHHHHHHHHHTTSEEECTTSBEEECTTGGGG
T ss_pred             HCCCCC--HHHHHHHHCCCHHHHHHHHHHHHHCCEEEECCCCEEECCHHHHHH
T ss_conf             379999--999998879098999999999997896897088268348889987


No 47 
>3mcz_A O-methyltransferase; adomet_mtases, S-adenosylmethionine-dependent methyltransfer structural genomics, PSI-2; HET: MSE; 1.90A {Burkholderia thailandensis}
Probab=23.56  E-value=41  Score=14.82  Aligned_cols=45  Identities=9%  Similarity=0.037  Sum_probs=39.0

Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHH
Q ss_conf             279997771999999999999998539189938924218999999
Q gi|254781152|r   14 NDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEI   58 (155)
Q Consensus        14 N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL   58 (155)
                      .-.-||..+|++.+.-+.++++|...|-+...+++..|+..-+.+
T Consensus        58 t~~eLA~~~g~~~~~l~~lLr~L~a~Gll~~~~~~y~~t~~~~~~  102 (352)
T 3mcz_A           58 TPAEVAASFGMVEGKAAILLHALAALGLLTKEGDAFRNTALTERY  102 (352)
T ss_dssp             CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECHHHHHH
T ss_pred             CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCEEECCHHHHHH
T ss_conf             999999882989899999999998689289989999788889988


No 48 
>3cf4_G Acetyl-COA decarbonylase/synthase epsilon subunit; methanomicrobia, iron-nikel-sulfur, 4Fe-NI-4S, oxidoreductase; 2.00A {Methanosarcina barkeri}
Probab=21.93  E-value=44  Score=14.63  Aligned_cols=37  Identities=11%  Similarity=0.188  Sum_probs=28.7

Q ss_pred             HHHHHHHHHCCC-EEEECCCEECHHHHHHHHHHHHHHH
Q ss_conf             999999985391-8993892421899999997567788
Q gi|254781152|r   30 RNIRAILEKFNK-IFIQEGNIYNVRVEKEIIKASEERQ   66 (155)
Q Consensus        30 r~aLd~Ll~~GK-I~l~DG~LWN~RVEeEL~n~sEer~   66 (155)
                      ..+.+.|-+.-+ +++.++++|...+++++.++.|+-.
T Consensus        25 e~~~~li~~akrP~ii~G~g~~~~~~~~~l~~~~~~~~   62 (170)
T 3cf4_G           25 EMAAKIISKAKRPLLMVGTLALDPELLDRVVKISKAAN   62 (170)
T ss_dssp             HHHHHHHHHCSSEEEEECSTTCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             99999999668989994665250669999999999859


No 49 
>3lst_A CALO1 methyltransferase; calicheamicin, enediyne, SAH, structural genomics, PSI-2, protein structure initiative; HET: SAH; 2.40A {Micromonospora echinospora}
Probab=21.38  E-value=45  Score=14.56  Aligned_cols=50  Identities=12%  Similarity=0.129  Sum_probs=40.9

Q ss_pred             CCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCCEECHHHHHHH
Q ss_conf             4898750279997771999999999999998539189938924218999999
Q gi|254781152|r    7 RGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKFNKIFIQEGNIYNVRVEKEI   58 (155)
Q Consensus         7 rGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~GKI~l~DG~LWN~RVEeEL   58 (155)
                      ..||+  ...-||..+|++.+.-+.++.+|...|-+...+|+.-+++.-+++
T Consensus        52 ~~gp~--t~~eLA~~~g~~~~~l~rlLr~L~~~Gll~~~~g~y~~t~~s~~l  101 (348)
T 3lst_A           52 VDGPR--TPAELAAATGTDADALRRVLRLLAVRDVVRESDGRFALTDKGAAL  101 (348)
T ss_dssp             TTSCB--CHHHHHHHHTCCHHHHHHHHHHHHHTTSEEEETTEEEECTTTGGG
T ss_pred             CCCCC--CHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEECCEEECCHHHHHH
T ss_conf             18998--999999887909899999999999789889429856337888887


No 50 
>2k9l_A RNA polymerase sigma factor RPON; protein, transcription; NMR {Aquifex aeolicus}
Probab=20.21  E-value=48  Score=14.42  Aligned_cols=36  Identities=17%  Similarity=0.361  Sum_probs=30.8

Q ss_pred             HHCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHC
Q ss_conf             000489875027999777199999999999999853
Q gi|254781152|r    4 LYDRGGSIPDNDKYIAGVCGCSIRRWRNIRAILEKF   39 (155)
Q Consensus         4 MYdrGgPL~~N~r~LAg~CGCSvKkFr~aLd~Ll~~   39 (155)
                      -.+.-|=+..+..-+|..+|||...+..++..|++.
T Consensus        40 ~LD~~GyL~~~~eeia~~l~~~~~~ve~vL~~lQ~l   75 (76)
T 2k9l_A           40 YLNEKGFLSKSVEEISDVLRCSVEELEKVRQKVLRL   75 (76)
T ss_dssp             HCTTSSTTCCCHHHHHHHHTSCHHHHHHHHHHHHTT
T ss_pred             HCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHCC
T ss_conf             359788818899999999790999999999998606


Done!