Query         gi|255764496|ref|YP_003065012.2| excinuclease ABC subunit C [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 616
No_of_seqs    192 out of 2410
Neff          6.8 
Searched_HMMs 23785
Date          Tue May 31 18:53:01 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 255764496.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3c65_A Uvrabc system protein C 100.0       0       0  561.9  14.9  224  366-609     2-226 (226)
  2 2nrt_A Uvrabc system protein C 100.0       0       0  533.2  19.5  214  362-607     5-219 (220)
  3 2nrr_A Uvrabc system protein C 100.0       0       0  406.1  14.8  156  365-551     3-158 (159)
  4 1yd6_A UVRC; DNA binding prote 100.0 6.1E-29 2.6E-33  226.7   9.7   91    3-94      9-99  (99)
  5 1yd0_A Uvrabc system protein C 100.0 3.2E-28 1.3E-32  221.5   9.9   87    3-92      9-95  (96)
  6 2wsh_A Endonuclease II; GIY-YI  99.9 3.2E-26 1.3E-30  207.1   4.2   89    2-90     32-142 (143)
  7 1kft_A UVRC, excinuclease ABC   99.6 3.8E-15 1.6E-19  127.2   5.9   68  542-609    10-78  (78)
  8 2a1j_A DNA repair endonuclease  99.3 3.6E-12 1.5E-16  105.7   5.9   60  553-613     2-61  (63)
  9 1z00_B DNA repair endonuclease  99.3 2.8E-12 1.2E-16  106.5   4.3   61  552-613    15-75  (84)
 10 1x2i_A HEF helicase/nuclease;   99.1 8.2E-11 3.5E-15   95.9   7.0   60  554-613    13-72  (75)
 11 2a1j_B DNA excision repair pro  99.1 1.2E-10 5.2E-15   94.7   7.2   58  553-610    30-87  (91)
 12 1z00_A DNA excision repair pro  99.1 1.9E-10 7.8E-15   93.4   7.6   61  553-613    17-77  (89)
 13 2bgw_A XPF endonuclease; hydro  98.9 2.5E-09   1E-13   85.3   6.4   56  555-610   162-217 (219)
 14 1mk0_A Intron-associated endon  98.7   8E-08 3.4E-12   74.4   8.1   80    8-87      1-89  (97)
 15 2zj8_A DNA helicase, putative   98.4 7.6E-07 3.2E-11   67.3   6.6   84  529-612   599-704 (720)
 16 2owo_A DNA ligase; protein/DNA  98.2 3.4E-06 1.4E-10   62.6   7.2   54  557-610   514-567 (671)
 17 1e52_A Excinuclease ABC subuni  98.2 1.1E-06 4.7E-11   66.1   4.5   49  186-234    12-61  (63)
 18 1vq8_Y 50S ribosomal protein L  98.2 1.8E-07 7.6E-12   71.9   0.0   63  549-611     9-72  (241)
 19 1dgs_A DNA ligase; AMP complex  98.2 3.3E-06 1.4E-10   62.8   6.2   52  558-609   510-561 (667)
 20 3c1y_A DNA integrity scanning   98.1   6E-06 2.5E-10   60.9   6.2   85  525-609   271-369 (377)
 21 1ixr_A Holliday junction DNA h  97.7 8.3E-05 3.5E-09   52.7   6.6   65  548-612    65-132 (191)
 22 2ztd_A Holliday junction ATP-d  97.6 0.00011 4.5E-09   51.9   6.0   63  549-611    82-147 (212)
 23 1cuk_A RUVA protein; DNA repai  97.5 0.00012 4.9E-09   51.6   5.4   60  550-609    68-130 (203)
 24 2w36_A Endonuclease V; hypoxan  97.5 0.00064 2.7E-08   46.3   8.7  111  368-501    22-141 (225)
 25 2ziu_A MUS81 protein; helix-ha  97.3 0.00019 7.9E-09   50.1   4.6   58  555-612   237-309 (311)
 26 1c4o_A DNA nucleotide excision  97.0 7.6E-05 3.2E-09   52.9   0.0   39   44-83     38-79  (664)
 27 3ga2_A Endonuclease V; alpha-b  96.8 0.00093 3.9E-08   45.1   4.2  114  367-501    22-147 (246)
 28 3bz1_U Photosystem II 12 kDa e  96.8 0.00085 3.6E-08   45.4   4.0   56  554-615    32-87  (104)
 29 1s5l_U Photosystem II 12 kDa e  96.8  0.0012 4.9E-08   44.4   4.6   57  553-615    61-117 (134)
 30 1b22_A DNA repair protein RAD5  96.8 0.00031 1.3E-08   48.5   1.5   52  559-610    29-81  (114)
 31 3ho1_A Argonaute; argonaute, p  96.7    0.02 8.5E-07   35.4  10.3  112  376-515   468-586 (685)
 32 1jms_A Terminal deoxynucleotid  96.4   0.017 7.3E-07   35.9   8.3   20  213-233    55-74  (381)
 33 3goc_A Endonuclease V; alpha-b  96.4  0.0013 5.3E-08   44.1   2.5  100  380-500    40-144 (237)
 34 3oqg_A HPY188I; endonuclease-D  96.4  0.0028 1.2E-07   41.6   4.0   33    9-42     69-102 (180)
 35 2p6r_A Afuhel308 helicase; pro  96.3   0.013 5.3E-07   36.9   7.2   76  529-607   589-682 (702)
 36 2zix_A Crossover junction endo  96.2 0.00075 3.1E-08   45.8   0.3   59  555-613   233-306 (307)
 37 1u04_A Argonaute, hypothetical  96.1   0.062 2.6E-06   31.9   9.9  119  364-502   530-661 (771)
 38 2ihm_A POL MU, DNA polymerase   96.1   0.015 6.2E-07   36.4   6.7   40  193-232    15-54  (360)
 39 2w9m_A Polymerase X; SAXS, DNA  95.8    0.01 4.3E-07   37.6   4.8   13  476-488   472-484 (578)
 40 2duy_A Competence protein come  95.7  0.0063 2.6E-07   39.1   3.2   49  555-609    27-75  (75)
 41 2fmp_A DNA polymerase beta; nu  95.6   0.023 9.6E-07   35.1   5.9   20  213-232    31-50  (335)
 42 2edu_A Kinesin-like protein KI  95.6   0.015 6.4E-07   36.3   5.0   49  553-606    38-89  (98)
 43 3mr3_A DNA polymerase ETA; POL  95.4   0.016 6.9E-07   36.1   4.6   55  556-612   254-310 (435)
 44 1exn_A 5'-exonuclease, 5'-nucl  95.3  0.0093 3.9E-07   37.9   3.1   30  556-585   204-233 (290)
 45 3maj_A DNA processing chain A;  95.3   0.026 1.1E-06   34.7   5.3   33  568-604   330-362 (382)
 46 2va8_A SSO2462, SKI2-type heli  95.3   0.014   6E-07   36.5   4.0   78  529-609   610-709 (715)
 47 2bcq_A DNA polymerase lambda;   95.3   0.024 9.9E-07   34.9   5.1   19  213-232    32-50  (335)
 48 2qh9_A UPF0215 protein AF_1433  95.0   0.003 1.3E-07   41.4  -0.2   92  380-501     7-101 (184)
 49 2izo_A FEN1, flap structure-sp  94.8    0.01 4.3E-07   37.6   2.1   49  555-604   233-282 (346)
 50 1dgs_A DNA ligase; AMP complex  94.6   0.015 6.3E-07   36.4   2.5   56  556-611   442-499 (667)
 51 3gqc_A DNA repair protein REV1  94.5   0.079 3.3E-06   31.1   5.9   56  555-613   315-372 (504)
 52 3osn_A DNA polymerase IOTA; ho  94.4   0.097 4.1E-06   30.5   6.2   11  217-227   179-189 (420)
 53 2owo_A DNA ligase; protein/DNA  94.2   0.056 2.4E-06   32.2   4.7   54  557-610   448-503 (671)
 54 3mx1_A ECO29KIR; type II restr  94.1  0.0068 2.9E-07   38.8  -0.1   73    9-86     66-176 (235)
 55 1zg2_A Hypothetical UPF0213 pr  93.9   0.018 7.7E-07   35.8   1.8   66    7-76      5-71  (107)
 56 1ul1_X Flap endonuclease-1; pr  93.9   0.043 1.8E-06   33.1   3.6   31  555-585   232-262 (379)
 57 3lda_A DNA repair protein RAD5  93.9    0.18 7.4E-06   28.6   6.7   12  213-224   142-153 (400)
 58 2d7d_A Uvrabc system protein B  93.5   0.056 2.4E-06   32.2   3.6   41   45-86     46-86  (661)
 59 2edu_A Kinesin-like protein KI  93.5   0.079 3.3E-06   31.2   4.4   31  578-608    31-61  (98)
 60 3bq0_A POL IV, DBH, DNA polyme  93.4   0.071   3E-06   31.5   4.1   10  218-227   126-135 (354)
 61 1rxw_A Flap structure-specific  93.3   0.049   2E-06   32.7   3.1   30  555-584   235-264 (336)
 62 2ziu_B Crossover junction endo  93.0     0.3 1.2E-05   27.0   6.7   60  555-614   255-335 (341)
 63 2aq4_A DNA repair protein REV1  92.6    0.14 5.8E-06   29.4   4.6   54  556-611   242-299 (434)
 64 1b43_A Protein (FEN-1); nuclea  92.5   0.099 4.2E-06   30.5   3.8   41  557-604   239-279 (340)
 65 1wcn_A Transcription elongatio  92.2    0.27 1.1E-05   27.3   5.7   51  556-606     8-59  (70)
 66 1a76_A Flap endonuclease-1 pro  92.1   0.084 3.5E-06   31.0   3.0   27  557-583   227-253 (326)
 67 2duy_A Competence protein come  92.1   0.052 2.2E-06   32.5   1.9   27  580-606    20-46  (75)
 68 3mfi_A DNA polymerase ETA; DNA  92.0   0.066 2.8E-06   31.7   2.3   18  556-573   308-325 (520)
 69 3im1_A Protein SNU246, PRE-mRN  91.1    0.66 2.8E-05   24.5   6.7   10  466-475   266-275 (328)
 70 1t94_A Polymerase (DNA directe  90.8    0.67 2.8E-05   24.5   6.5  108  477-614   229-339 (459)
 71 2q0z_X Protein Pro2281; SEC63,  90.5    0.72   3E-05   24.2   6.4   10  466-475   269-278 (339)
 72 1s5l_U Photosystem II 12 kDa e  90.4   0.082 3.4E-06   31.1   1.5   21  556-576    90-110 (134)
 73 1jms_A Terminal deoxynucleotid  90.3    0.42 1.8E-05   25.9   5.1   22  521-542   310-331 (381)
 74 2ihm_A POL MU, DNA polymerase   90.3   0.061 2.6E-06   32.0   0.8   24  520-543   288-311 (360)
 75 2i5h_A Hypothetical protein AF  90.1    0.52 2.2E-05   25.3   5.4   79  525-610   101-188 (205)
 76 3bz1_U Photosystem II 12 kDa e  90.1   0.079 3.3E-06   31.1   1.2   26  580-605    26-51  (104)
 77 1yvu_A Hypothetical protein AQ  89.9    0.96 4.1E-05   23.3  11.8  101  378-502   494-603 (706)
 78 2bcq_A DNA polymerase lambda;   89.3    0.33 1.4E-05   26.7   3.9   13  476-488   204-216 (335)
 79 1pu6_A 3-methyladenine DNA gly  88.3       1 4.3E-05   23.1   5.9   15  127-141    44-58  (218)
 80 1ywl_A Hypothetical UPF0213 pr  88.2    0.13 5.5E-06   29.6   1.2   65   10-76      7-72  (96)
 81 1bgx_T TAQ DNA polymerase; DNA  87.9   0.012 4.9E-07   37.2  -4.3   97  508-609   596-698 (832)
 82 2csb_A Topoisomerase V, TOP61;  87.1     1.4 6.1E-05   22.0   6.5   41  556-597   469-509 (519)
 83 2w42_A PIWI, putative uncharac  86.7     1.5 6.3E-05   21.9  15.3  106  379-502   179-297 (427)
 84 1im4_A DBH; DNA polymerase PAL  85.9    0.29 1.2E-05   27.1   1.9   36  555-591   184-221 (221)
 85 2abk_A Endonuclease III; DNA-r  84.8     0.8 3.4E-05   23.9   3.8   14  131-144     6-19  (211)
 86 1u9l_A Transcription elongatio  82.3     1.6 6.5E-05   21.8   4.4   45  562-606    13-58  (70)
 87 3fsp_A A/G-specific adenine gl  80.7       2 8.6E-05   21.0   4.6   27  461-488   269-295 (369)
 88 1kea_A Possible G-T mismatches  80.5     1.3 5.5E-05   22.4   3.5   12  368-379   191-202 (221)
 89 1orn_A Endonuclease III; DNA r  80.2     1.7 7.2E-05   21.5   4.0   16  128-143     7-22  (226)
 90 2kp7_A Crossover junction endo  79.8       1 4.3E-05   23.1   2.8   32  516-547     8-43  (87)
 91 1z3e_B DNA-directed RNA polyme  79.6     2.8 0.00012   20.0   5.3   56  554-610     8-64  (73)
 92 1kg2_A A/G-specific adenine gl  78.9     2.1 8.9E-05   20.9   4.1   17  364-380   182-198 (225)
 93 3lti_A DNA-directed RNA polyme  77.0     0.7 2.9E-05   24.3   1.2   21    6-27      2-28  (296)
 94 3bzc_A TEX; helix-turn-helix,   75.8     1.3 5.7E-05   22.3   2.4   55  555-611   508-562 (785)
 95 3ofo_B 30S ribosomal protein S  75.8     3.6 0.00015   19.2   5.9   56  434-502   128-183 (218)
 96 3gfk_B DNA-directed RNA polyme  74.2     3.5 0.00015   19.3   4.2   56  554-610    15-71  (79)
 97 1gm5_A RECG; helicase, replica  70.1     3.6 0.00015   19.2   3.5   17  173-189   262-278 (780)
 98 3k4g_A DNA-directed RNA polyme  69.6     4.9 0.00021   18.2   6.1   56  553-610    10-67  (86)
 99 3bbn_B Ribosomal protein S2; s  67.0     5.5 0.00023   17.9   7.2   54  435-501   137-190 (231)
100 1mpg_A ALKA, 3-methyladenine D  66.2     4.8  0.0002   18.3   3.5   54  555-608   207-261 (282)
101 3ecd_A Serine hydroxymethyltra  65.0       6 0.00025   17.6   5.5   26  464-489   320-347 (425)
102 2vqe_B 30S ribosomal protein S  63.9     6.3 0.00026   17.5   4.3   38  460-502   155-192 (256)
103 1rv3_A Serine hydroxymethyltra  63.7     6.3 0.00027   17.4   4.5   24  464-489   355-382 (483)
104 2gkg_A Response regulator homo  63.0     6.5 0.00027   17.4   3.7   39  462-501    48-90  (127)
105 2jba_A Phosphate regulon trans  57.8     7.9 0.00033   16.7   3.7   77  425-501     8-86  (127)
106 2qr3_A Two-component system re  57.0     8.1 0.00034   16.6   3.4   73  426-501    10-90  (140)
107 2jhn_A ALKA, 3-methyladenine D  56.8     8.2 0.00034   16.6   4.4   17  556-572   211-227 (295)
108 3gl9_A Response regulator; bet  54.2     8.9 0.00037   16.4   3.1   76  426-501     9-86  (122)
109 3c3m_A Response regulator rece  54.1     8.1 0.00034   16.7   2.9   75  426-501    10-87  (138)
110 1vdd_A Recombination protein R  54.0     6.6 0.00028   17.3   2.5   97  239-349    86-190 (228)
111 3kbq_A Protein TA0487; structu  53.6     9.2 0.00039   16.3   3.1   14  376-389   119-132 (172)
112 3i42_A Response regulator rece  53.3       8 0.00033   16.7   2.8   76  426-501    10-87  (127)
113 1ngn_A Methyl-CPG binding prot  52.6     9.5  0.0004   16.2   4.5   81  527-610    38-127 (155)
114 3lua_A Response regulator rece  52.3     9.6  0.0004   16.1   5.6   77  425-502    10-92  (140)
115 2etv_A Iron(III) ABC transport  50.1     7.9 0.00033   16.8   2.3   20  464-483   232-251 (346)
116 3cvo_A Methyltransferase-like   48.7     5.6 0.00024   17.8   1.4   24  463-487   122-145 (202)
117 1coo_A RNA polymerase alpha su  47.6      11 0.00047   15.6   3.8   55  555-610    24-79  (98)
118 3eod_A Protein HNR; response r  46.1      12  0.0005   15.5   5.5   76  425-502    13-90  (130)
119 3cg4_A Response regulator rece  45.6      12 0.00051   15.4   2.7   75  426-501    14-91  (142)
120 2qvg_A Two component response   45.5      12 0.00051   15.4   2.9   75  425-500    13-98  (143)
121 1mb3_A Cell division response   44.7     9.1 0.00038   16.3   2.0   39  463-501    45-85  (124)
122 2zay_A Response regulator rece  43.5     7.1  0.0003   17.1   1.3   38  463-500    52-91  (147)
123 3n0l_A Serine hydroxymethyltra  41.4      14 0.00058   15.0   5.4   24  465-488   313-338 (417)
124 1srr_A SPO0F, sporulation resp  39.9      11 0.00048   15.6   1.9   74  425-500     9-84  (124)
125 1zgz_A Torcad operon transcrip  38.5      12 0.00052   15.4   1.9   38  463-501    46-83  (122)
126 1d8b_A SGS1 RECQ helicase; fiv  38.5      14  0.0006   14.9   2.2   16  556-571    49-64  (81)
127 1gp8_A Protein (scaffolding pr  38.3      14 0.00057   15.1   2.0   30  198-227     9-38  (40)
128 3n5n_X A/G-specific adenine DN  37.6      16 0.00066   14.6   5.6   20  124-143     8-27  (287)
129 2h31_A Multifunctional protein  37.0      13 0.00054   15.2   1.8   29  464-498   322-351 (425)
130 1g8l_A Molybdopterin biosynthe  36.9      16 0.00068   14.5   2.7  100  398-525   199-302 (411)
131 2j48_A Two-component sensor ki  35.9      17  0.0007   14.4   2.5   40  463-503    45-87  (119)
132 1vi6_A 30S ribosomal protein S  33.6      18 0.00076   14.1   6.1   36  462-502   114-149 (208)
133 3h7f_A Serine hydroxymethyltra  32.4      19  0.0008   14.0   3.8   24  464-489   337-364 (447)
134 3e1s_A Exodeoxyribonuclease V,  32.2     6.8 0.00028   17.2  -0.3   30  513-550   473-502 (574)
135 3gbx_A Serine hydroxymethyltra  31.4      20 0.00083   13.9   3.3   26  464-489   319-346 (420)
136 3kht_A Response regulator; PSI  30.9      20 0.00084   13.8   4.5   79  462-541    50-130 (144)
137 1zh2_A KDP operon transcriptio  30.8      11 0.00048   15.6   0.6   36  463-502    45-83  (121)
138 3bqs_A Uncharacterized protein  30.4      20 0.00085   13.8   2.9   31  554-585     3-35  (93)
139 1jlj_A Gephyrin; globular alph  29.9      21 0.00087   13.7   3.2   30  425-474    60-89  (189)
140 3m6m_D Sensory/regulatory prot  29.1      21  0.0009   13.6   2.2   76  425-501    20-100 (143)
141 1uz5_A MOEA protein, 402AA lon  29.0      21  0.0009   13.6   4.3   99  399-525   203-305 (402)
142 2a7v_A Serine hydroxymethyltra  27.9      22 0.00094   13.5   4.2   26  464-489   365-392 (490)
143 3lu0_A DNA-directed RNA polyme  27.2      11 0.00045   15.8   0.0   22  120-142    26-47  (329)
144 2q6t_A DNAB replication FORK h  27.1      23 0.00097   13.4   3.8   36  464-499   311-361 (444)
145 3f6p_A Transcriptional regulat  27.1      23 0.00097   13.4   3.5   75  425-500     8-82  (120)
146 3er9_B Poly(A) polymerase cata  26.8      20 0.00084   13.8   1.3   30   26-55     69-98  (479)
147 3nhm_A Response regulator; pro  26.7      23 0.00099   13.3   2.4   37  462-499    46-85  (133)
148 2pl1_A Transcriptional regulat  26.6      24 0.00099   13.3   2.6   74  426-502     7-83  (121)
149 3hdv_A Response regulator; PSI  26.5      24 0.00099   13.3   2.2   75  425-500    13-90  (136)
150 2db7_A Hairy/enhancer-OF-split  26.5      18 0.00075   14.2   1.0   44  536-579    11-59  (64)
151 3n2l_A OPRT, oprtase, orotate   26.2      22 0.00094   13.5   1.5   32  466-501   176-210 (238)
152 3cnb_A DNA-binding response re  25.7      24   0.001   13.2   4.1   74  426-500    15-93  (143)
153 2qzj_A Two-component response   25.2      20 0.00085   13.8   1.1   35  462-501    47-85  (136)
154 1xl7_A COT, peroxisomal carnit  23.6      27  0.0011   12.9   2.0   34  196-229   215-259 (612)
155 1i3c_A Response regulator RCP1  23.6      27  0.0011   12.9   5.0   40  461-501    59-101 (149)
156 1qkk_A DCTD, C4-dicarboxylate   23.3      27  0.0011   12.9   3.5   73  426-501    10-85  (155)
157 2is8_A Molybdopterin biosynthe  23.2      27  0.0011   12.9   3.2   42  425-486    44-87  (164)
158 3h5i_A Response regulator/sens  22.9      20 0.00086   13.8   0.8   73  425-501    11-88  (140)
159 2rjn_A Response regulator rece  22.8      28  0.0012   12.8   1.8   74  425-500    13-88  (154)
160 2a9o_A Response regulator; ess  22.7      16 0.00068   14.5   0.2   36  463-502    45-83  (120)
161 3opy_B 6-phosphofructo-1-kinas  22.3      28  0.0012   12.8   3.5   37  464-500   663-701 (941)
162 2a6h_A DNA-directed RNA polyme  22.3      15 0.00063   14.7   0.0   39  103-142     6-44  (315)
163 2ixs_A SDAI restriction endonu  22.0      28  0.0012   12.7   2.1   18  400-417   275-292 (323)
164 1m3q_A 8-oxoguanine DNA glycos  21.5      29  0.0012   12.7   5.4   16  555-570   230-245 (317)
165 2rhf_A DNA helicase RECQ; HRDC  21.4      29  0.0012   12.6   3.3   47  524-570     5-62  (77)
166 2x8r_A Glycosyl hydrolase; pep  21.3      29  0.0012   12.6   1.6   14  465-478   193-206 (210)
167 1wud_A ATP-dependent DNA helic  21.1      30  0.0012   12.6   3.4   14  556-569    56-69  (89)
168 3heb_A Response regulator rece  20.9      30  0.0013   12.6   4.4   40  461-501    57-99  (152)
169 2i2c_A Probable inorganic poly  20.7      30  0.0013   12.5   5.4   12  216-227    11-22  (272)
170 3gt7_A Sensor protein; structu  20.3      31  0.0013   12.5   4.9   75  425-500    13-90  (154)
171 1k68_A Phytochrome response re  20.1      31  0.0013   12.5   4.7   75  426-501     9-95  (140)

No 1  
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus}
Probab=100.00  E-value=0  Score=561.92  Aligned_cols=224  Identities=35%  Similarity=0.609  Sum_probs=207.9

Q ss_pred             HHHHHHHHCCCCCCCEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf             99998751566435169997074437754048888851687280323211024444554116899899999999775313
Q gi|255764496|r  366 LKDFTKKFALPHIPKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMVLERRFSQLIKN  445 (616)
Q Consensus       366 l~~Lk~~L~L~~~p~rIE~fDiSh~~G~~~Vas~Vvf~~g~~~K~~YR~f~Ik~~~v~~~DD~~~m~Evi~RR~~r~~~~  445 (616)
                      +.+|++.|+|+. |+|||||||||++|+++|||||||++|+|.|+.||+|||++  +.++|||+||+||++|||+++.++
T Consensus         2 ~~~L~~~L~l~~-p~rIE~fDiSh~~G~~~V~s~Vvf~~g~~~K~~YR~f~ik~--~~~~DDy~~m~Evl~Rr~~r~~~~   78 (226)
T 3c65_A            2 SHMLGERLGIPA-PRRIEAFDNSNIYGADPVSALVVFLDGKPAKKEYRKYKVKT--VAGPNDYETMREVVRRRYTRVLKE   78 (226)
T ss_dssp             HHHHHHHHTSCC-CSEEEEEEEEESSSSSCEEEEEEEETTEECGGGCEEEECCC--CCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCC-CCEEEEEECCCCCCCCCEEEEEEEECCCCCHHHCCCCCCCC--CCCCCHHHHHHHHHHHHHHHHHHC
T ss_conf             789999858499-88799997876589885599999978953867660226567--889974999999999987776631


Q ss_pred             CCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCEEEECCCCCEEEECCCCH
Q ss_conf             11123333333345457984899809858999999999975887787189997187767663489817983488579989
Q gi|255764496|r  446 EENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAAQGVLKKLNVENRITIISIAKGPKRSAGMEKFFVKKGEALVLNMRDP  525 (616)
Q Consensus       446 ~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~a~~vl~~l~i~~~i~viglaK~~~r~~~~e~~~~~~~~~i~l~~~~~  525 (616)
                      +.              ++|||||||||+||||+|.++|++.+.. .|||+||||+++|++. +.+++..++++.|+++++
T Consensus        79 ~~--------------~~PDLilIDGGkgQl~~a~~~l~~~~~~-~i~ii~iaK~~~~~~~-~~~~~~~~~~i~l~~~s~  142 (226)
T 3c65_A           79 GL--------------PLPDLIIIDGGKGHLSAVRDVLENELGL-DVPLAGLAKDEKHRTS-ELLAGDPPDVVPLDRQSQ  142 (226)
T ss_dssp             TC--------------CCCSEEEESSCHHHHHHHHHHHHHTSCC-CCCEEEC--------C-CCEETTTTEECCCCTTSH
T ss_pred             CC--------------CCCCEEEECCCHHHHHHHHHHHHHHCCC-CCCEEEECCCCCCCCC-CCCCCCCCCCEECCCCCH
T ss_conf             89--------------9999899789889999999999974788-8544430245211343-220158754230687888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHH
Q ss_conf             999999887877887889899864321-4771004888798999999998088898993898888627899989999999
Q gi|255764496|r  526 ILYFIQRLRDEAHRFAITTHRKRRKKA-AYSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIY  604 (616)
Q Consensus       526 ~l~~Lq~iRDEaHRFAi~~hRk~r~k~-~~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~  604 (616)
                      +|+|||+||||||||||+|||++|+|. +.|.||+||||||+|+++||+||||+++|++||.|||++| |||+++|++||
T Consensus       143 ~l~lLq~iRDEaHRFAi~~hRk~r~k~~~~S~Ld~I~GIG~~~~~~Ll~~Fgs~~~i~~As~eeL~~v-gI~~~~A~~I~  221 (226)
T 3c65_A          143 EFYLLQRIQDEVHRFAVMFHRKTRQKTMFHSVLDDIPGVGEKRKKALLNYFGSVKKMKEATVEELQRA-NIPRAVAEKIY  221 (226)
T ss_dssp             HHHHHHHHHHHHHHHTTC--------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHCCHHHHHHC-CCCHHHHHHHH
T ss_conf             99999999999999999999998740320371102688699999999998189999973899999876-99999999999


Q ss_pred             HHHCC
Q ss_conf             98547
Q gi|255764496|r  605 NHFHK  609 (616)
Q Consensus       605 ~~l~~  609 (616)
                      ++||+
T Consensus       222 ~~l~e  226 (226)
T 3c65_A          222 EKLHE  226 (226)
T ss_dssp             -----
T ss_pred             HHHCC
T ss_conf             99629


No 2  
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A
Probab=100.00  E-value=0  Score=533.17  Aligned_cols=214  Identities=33%  Similarity=0.583  Sum_probs=198.3

Q ss_pred             HHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             89999999875156643516999707443775404888885168728032321102444455411689989999999977
Q gi|255764496|r  362 HQMILKDFTKKFALPHIPKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMVLERRFSQ  441 (616)
Q Consensus       362 ~~~~l~~Lk~~L~L~~~p~rIE~fDiSh~~G~~~Vas~Vvf~~g~~~K~~YR~f~Ik~~~v~~~DD~~~m~Evi~RR~~r  441 (616)
                      ++.+|++|++.|+|+++|+|||||||||++|+++|||||||.+|+|.|+.||+|+|+.   .++|||+||+||++|||++
T Consensus         5 ~~~~l~~L~~~l~l~~~p~rIE~fDiSh~~G~~~V~s~Vvf~~g~~~k~~YR~y~ik~---~~~dDy~~m~evl~Rr~~~   81 (220)
T 2nrt_A            5 RKEALEELMKLLNMKDFPYRIEGIDISHLQGKYTVASLVVFEDGFPKKGDYRRYKIEQ---DHPDDYESIRTVVKRRYSK   81 (220)
T ss_dssp             CHHHHHHHHHHTTCSSCCCEEEEEEEEEETTTEEEEEEEEEETTEECGGGCEEEEEEC---SSCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCCCCCCCCEEEEEECCCCCCCCCEEEEEEECCCCCCHHHHHHHCCCC---CCCHHHHHHHHHHHHHCCC
T ss_conf             9999999999819999988599998975589874599999807987666656625788---8970799999999983045


Q ss_pred             HHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCEEEECCCCCEEEEC
Q ss_conf             53131112333333334545798489980985899999999997588778718999718776766348981798348857
Q gi|255764496|r  442 LIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAAQGVLKKLNVENRITIISIAKGPKRSAGMEKFFVKKGEALVLN  521 (616)
Q Consensus       442 ~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~a~~vl~~l~i~~~i~viglaK~~~r~~~~e~~~~~~~~~i~l~  521 (616)
                                         .++|||||||||+||||+|.++|++++++  ++++|++|.++       ++..++.++.|+
T Consensus        82 -------------------~~~PDLilIDGGkgQL~~a~~~l~~~~~~--i~~~~~~k~~~-------~~~~~~~~i~l~  133 (220)
T 2nrt_A           82 -------------------HPLPNLLFVDGGIGQVNAAIEALKEIGKD--CPVVGLAKKEE-------TVVFENREIHLP  133 (220)
T ss_dssp             -------------------SCCCSEEEESSSHHHHHHHHHHHHHTTCC--CCEEEECTTTC-------CEEETTEEECCC
T ss_pred             -------------------CCCCEEEEEECCHHHHHHHHHHHHHCCCC--CHHHCCCCCCE-------EECCCCCEEECC
T ss_conf             -------------------89985899819999999999998740776--21220356542-------661799435569


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHH
Q ss_conf             9989999999887877887889899864321-477100488879899999999808889899389888862789998999
Q gi|255764496|r  522 MRDPILYFIQRLRDEAHRFAITTHRKRRKKA-AYSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIA  600 (616)
Q Consensus       522 ~~~~~l~~Lq~iRDEaHRFAi~~hRk~r~k~-~~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A  600 (616)
                      .++++|+|||+||||||||||+|||++|+|. +.|.||+||||||+|+++||+||||+++|++||++||++|+|+ +++|
T Consensus       134 ~~~~~~~~Lq~iRDEaHRFAi~~hRk~r~k~~~~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~I~~As~eeL~~v~g~-~k~A  212 (220)
T 2nrt_A          134 HDHPVLRLLVQIRDETHRFAVSYHRKRREKESLRSVLDNVPGIGPIRKKKLIEHFGSLENIRSASLEEIARVIGS-TEIA  212 (220)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHGGGHHHHHHHHHHHHHTTSTTCCHHHHHHHHHHHCSHHHHHTSCHHHHHHHHTC-HHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHCCCCCHHHHHHHHHHCCCHHHHHHCCHHHHHHCCCC-HHHH
T ss_conf             999899999999999989879879999752103464100379699999999998189999971899999868695-9999


Q ss_pred             HHHHHHH
Q ss_conf             9999985
Q gi|255764496|r  601 CKIYNHF  607 (616)
Q Consensus       601 ~~I~~~l  607 (616)
                      ++||++|
T Consensus       213 ~~I~~~l  219 (220)
T 2nrt_A          213 RRVLDIL  219 (220)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHH
T ss_conf             9999971


No 3  
>2nrr_A Uvrabc system protein C; UVRC, endonuclase, NER, hydrolase; 1.20A {Thermotoga maritima}
Probab=100.00  E-value=0  Score=406.11  Aligned_cols=156  Identities=33%  Similarity=0.589  Sum_probs=143.6

Q ss_pred             HHHHHHHHHCCCCCCCEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf             99999875156643516999707443775404888885168728032321102444455411689989999999977531
Q gi|255764496|r  365 ILKDFTKKFALPHIPKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMVLERRFSQLIK  444 (616)
Q Consensus       365 ~l~~Lk~~L~L~~~p~rIE~fDiSh~~G~~~Vas~Vvf~~g~~~K~~YR~f~Ik~~~v~~~DD~~~m~Evi~RR~~r~~~  444 (616)
                      +|++|++.|+|++.|+|||||||||++|+++|||||||.+|+|.|+.||+|||++   .++|||+||+||++|||++   
T Consensus         3 al~~L~~~l~l~~~p~rIE~fDiSh~~G~~~Vgs~Vvf~~g~~~k~~YR~f~i~~---~~~dDy~~m~evl~RR~~~---   76 (159)
T 2nrr_A            3 ALEELMKLLNMKDFPYRIEGIDISHLQGKYTVASLVVFEDGFPKKGDYRRYKIEQ---DHPDDYESIRTVVKRRYSK---   76 (159)
T ss_dssp             HHHHHHHHTTCSSCCCEEEEEEEECC---CCEEEEEEEETTEECGGGCEEEEC--------CHHHHHHHHHHHHHTT---
T ss_pred             HHHHHHHHCCCCCCCCEEEEEECCCCCCCCCEEEEEEECCCCCCHHHHHHHCCCC---CCCHHHHHHHHHHHHHHCC---
T ss_conf             9999999819899988499998975589776699999828985646788853377---7861999999999998567---


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCEEEECCCCCEEEECCCC
Q ss_conf             31112333333334545798489980985899999999997588778718999718776766348981798348857998
Q gi|255764496|r  445 NEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAAQGVLKKLNVENRITIISIAKGPKRSAGMEKFFVKKGEALVLNMRD  524 (616)
Q Consensus       445 ~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~a~~vl~~l~i~~~i~viglaK~~~r~~~~e~~~~~~~~~i~l~~~~  524 (616)
                                      .++|||||||||+||||+|.++|++++++  ||++|+||+++      .++. .++++.++.++
T Consensus        77 ----------------~~lPDLilIDGGkgQL~~a~~~l~~~~~~--i~~i~laK~~~------~~~~-~~~~~~l~~~~  131 (159)
T 2nrr_A           77 ----------------HPLPNLLFVDGGIGQVNAAIEALKEIGKD--CPVVGLAKKEE------TVVF-ENREIHLPHDH  131 (159)
T ss_dssp             ----------------SCCCSEEEESSCHHHHHHHHHHHHHTTCC--CCEEEEC----------CEEE-TTEEECCCTTC
T ss_pred             ----------------CCCCCEEEECCCHHHHHHHHHHHHHCCCC--CCCCCCCCCCH------HHCC-CCCEECCCCCC
T ss_conf             ----------------99985899809989999999999984996--63123345211------0023-68612379999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999988787788788989986432
Q gi|255764496|r  525 PILYFIQRLRDEAHRFAITTHRKRRKK  551 (616)
Q Consensus       525 ~~l~~Lq~iRDEaHRFAi~~hRk~r~k  551 (616)
                      ++|+|||+||||||||||+|||++|+|
T Consensus       132 ~~l~lLq~iRDEaHRFAi~~hR~~r~K  158 (159)
T 2nrr_A          132 PVLRLLVQIRDETHRFAVSYHRKRREK  158 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHTC-------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             899999999999999999999988765


No 4  
>1yd6_A UVRC; DNA binding protein; 2.00A {Bacillus caldotenax}
Probab=99.96  E-value=6.1e-29  Score=226.69  Aligned_cols=91  Identities=41%  Similarity=0.800  Sum_probs=86.9

Q ss_pred             HHHCCCCCCEEEEECCCCCEEEEEECHHHHHHHHHHCCCCCCCHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHCC
Q ss_conf             12586788625888699888899601258788876137887787999999734442999828719999999988776187
Q gi|255764496|r    3 SEQMPECPGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHSNNHTHRITHMISQINNIRFTVTCTEVEALLLEANMIKRLKP   82 (616)
Q Consensus         3 ~~~lP~~pGvY~~~~~~~~iiYvGKaknL~~Rv~syf~~~~~~~k~~~l~~~~~~ie~~~t~~e~eAlilE~~lIk~~~P   82 (616)
                      .++||++||||+|+|++|+|||||||+|||+||+|||++. .+.++.+|+.++.+|+|++|.||.+|++||+.||++|+|
T Consensus         9 l~~lP~~pGVY~f~d~~g~vlYVGKaknLr~Rv~shf~~~-~~~~~~~l~~~~~~i~~~~t~~e~~A~llE~~lIk~~~P   87 (99)
T 1yd6_A            9 LAVLPEQPGCYLMKDKHGTVIYVGKAKSLKERVRSYFTGT-HDGKTQRLVEEIADFEYIVTSSNAEALILEMNLIKKHDP   87 (99)
T ss_dssp             HHTCCSSCEEEEEECSSCCEEEEEEESCHHHHHHGGGSSC-CCHHHHHHHHHCSEEEEEECSSHHHHHHHHHHHHHHHCC
T ss_pred             HHHCCCCCEEEEEECCCCCEEEEECCHHHHHHHHHHHHHC-CHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHHHCC
T ss_conf             9868999868999899998999767375889999996213-227899999873372089849788889999999998299


Q ss_pred             CCEECCCCCCCC
Q ss_conf             200336468977
Q gi|255764496|r   83 RFNILLRDDKSF   94 (616)
Q Consensus        83 ~yNi~LkDdk~y   94 (616)
                      +||++|||||+|
T Consensus        88 ~yN~~~k~~k~y   99 (99)
T 1yd6_A           88 KYNVMLKDDKSY   99 (99)
T ss_dssp             HHHHHTCC----
T ss_pred             CCHHCCCCCCCC
T ss_conf             740102589999


No 5  
>1yd0_A Uvrabc system protein C; DNA binding protein; 1.50A {Thermotoga maritima} PDB: 1ycz_A 1yd1_A 1yd4_A 1yd3_A 1yd2_A 1yd5_A
Probab=99.95  E-value=3.2e-28  Score=221.49  Aligned_cols=87  Identities=34%  Similarity=0.652  Sum_probs=82.7

Q ss_pred             HHHCCCCCCEEEEECCCCCEEEEEECHHHHHHHHHHCCCCCCCHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHCC
Q ss_conf             12586788625888699888899601258788876137887787999999734442999828719999999988776187
Q gi|255764496|r    3 SEQMPECPGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHSNNHTHRITHMISQINNIRFTVTCTEVEALLLEANMIKRLKP   82 (616)
Q Consensus         3 ~~~lP~~pGvY~~~~~~~~iiYvGKaknL~~Rv~syf~~~~~~~k~~~l~~~~~~ie~~~t~~e~eAlilE~~lIk~~~P   82 (616)
                      .+.+|++||||+|.| +|+|||||||+|||+||+|||++  .+.|+..|+.++.+|||++|+||.|||+||++||++|+|
T Consensus         9 l~~lP~~pGVY~f~d-~~~vLYVGKAknLr~Rv~syf~~--~~~k~~~l~~~~~~i~~~~t~se~eAlllE~~lIk~~kP   85 (96)
T 1yd0_A            9 ILLAPEEPGVYIFKN-KGVPIYIGKAKRLSNRLRSYLNP--QTEKVFRIGEEADELETIVVMNEREAFILEANLIKKYRP   85 (96)
T ss_dssp             HHHCCSSCEEEEEEE-TTEEEEEEEESSHHHHHHGGGSC--SSHHHHHHHHHCSEEEEEECSSHHHHHHHHHHHHHHHCC
T ss_pred             HHHCCCCCEEEEECC-CCCEEEEECCHHHHHHHHHHHCC--CHHHHHHHHHHHHEEEEEEECCHHHHHHHHHHHHHHHCC
T ss_conf             985899986899879-99478972608899999988501--118888888762204568418999999999999998589


Q ss_pred             CCEECCCCCC
Q ss_conf             2003364689
Q gi|255764496|r   83 RFNILLRDDK   92 (616)
Q Consensus        83 ~yNi~LkDdk   92 (616)
                      +||++|||||
T Consensus        86 ~yN~~lkd~k   95 (96)
T 1yd0_A           86 KYNVRLKDTD   95 (96)
T ss_dssp             TTCC------
T ss_pred             CCHHHCCCCC
T ss_conf             5176605789


No 6  
>2wsh_A Endonuclease II; GIY-YIG, hydrolase; 1.90A {Enterobacteria phage T4}
Probab=99.92  E-value=3.2e-26  Score=207.07  Aligned_cols=89  Identities=26%  Similarity=0.360  Sum_probs=81.2

Q ss_pred             CHHHCCCCCCEEEEECCCCCEEEEEECHHHHHHHHHHCCCCC---------CCHHHHHHHHHCCCEEEEE----------
Q ss_conf             912586788625888699888899601258788876137887---------7879999997344429998----------
Q gi|255764496|r    2 SSEQMPECPGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHSNN---------HTHRITHMISQINNIRFTV----------   62 (616)
Q Consensus         2 ~~~~lP~~pGvY~~~~~~~~iiYvGKaknL~~Rv~syf~~~~---------~~~k~~~l~~~~~~ie~~~----------   62 (616)
                      +...+|++||||+|++.+|+|||||||+|||+||+|||++..         .+.|+..|++++.+|||++          
T Consensus        32 ~~~~lP~~~GVyy~~~~~~~IlYVGKAknLrkRv~SYf~~~~~~~~~s~~~~~~ki~~~v~~~~~ve~~v~~~~~~~~~~  111 (143)
T 2wsh_A           32 KQLSIPNKYNVIYAIAINDELVYIGKTKNLRKRINYYRTAINRKDKTSDSTKSALIHSALKEGSKVEFYARQCFNLSMTN  111 (143)
T ss_dssp             CCCCCCCCCSEEEEEEETTEEEEEEEESCHHHHHHHHHHHHHTTCCSSCCHHHHHHHHHHHTTCCEEEEEEECCEEEEEE
T ss_pred             EECCCCCCCCEEEEEECCCEEEEEECCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCC
T ss_conf             26558999988999947993999975303778899980778865544202453899999862666999997034200024


Q ss_pred             ---CCCHHHHHHHHHHHHHHHCCCCEECCCC
Q ss_conf             ---2871999999998877618720033646
Q gi|255764496|r   63 ---TCTEVEALLLEANMIKRLKPRFNILLRD   90 (616)
Q Consensus        63 ---t~~e~eAlilE~~lIk~~~P~yNi~LkD   90 (616)
                         |.||.|||+||++|||+|+|+||+.||.
T Consensus       112 ~~~T~se~eAlllE~~LIkk~~P~yN~~~K~  142 (143)
T 2wsh_A          112 ELGTMTIATIDLEAPLFIKLFNPPWNIQHKK  142 (143)
T ss_dssp             TTEEEEEETHHHHHHHHHHHHCCTTCCC---
T ss_pred             CCCCCCHHHHHHHHHHHHHHHCCHHHHHCCC
T ss_conf             6678889999999999998839837864367


No 7  
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3
Probab=99.55  E-value=3.8e-15  Score=127.20  Aligned_cols=68  Identities=29%  Similarity=0.493  Sum_probs=62.9

Q ss_pred             HHHHHHHHHHH-CCCCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCC
Q ss_conf             89899864321-477100488879899999999808889899389888862789998999999998547
Q gi|255764496|r  542 ITTHRKRRKKA-AYSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHK  609 (616)
Q Consensus       542 i~~hRk~r~k~-~~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~  609 (616)
                      .+.|+.+|+|. ..|.||+||||||+|+++|+++|||+++|++||+|||.+|+|||+++|++||++||.
T Consensus        10 ~~~~~~~R~K~~~~S~L~~IpGIG~k~ak~Ll~~F~si~~i~~As~eeL~~v~GIg~~~A~~I~~~l~n   78 (78)
T 1kft_A           10 HSSGLVPRGSHMNTSSLETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKIFWSLKH   78 (78)
T ss_dssp             -------------CCGGGGCTTCSSSHHHHHHHHHSCHHHHHHCCHHHHTTSSSTTSHHHHHHHHHHTC
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHCHHHHHCCCCCCHHHHHHHHHHHCC
T ss_conf             344656675442338265699932999999999929949998837999980799899999999999668


No 8  
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A*
Probab=99.28  E-value=3.6e-12  Score=105.74  Aligned_cols=60  Identities=20%  Similarity=0.298  Sum_probs=56.5

Q ss_pred             CCCCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCCCC
Q ss_conf             4771004888798999999998088898993898888627899989999999985478678
Q gi|255764496|r  553 AYSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKNTSH  613 (616)
Q Consensus       553 ~~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~~~  613 (616)
                      ..+.|++|||||+++.+.|++||||+++|.+||.+||.+|+| |++.|+.||++||...++
T Consensus         2 ~~d~L~~IPGIg~~~~~~Ll~~fgSi~~l~~as~eeL~~v~G-~~~~A~~i~~~l~~~~~~   61 (63)
T 2a1j_A            2 PQDFLLKMPGVNAKNCRSLMHHVKNIAELAALSQDELTSILG-NAANAKQLYDFIHTSFAE   61 (63)
T ss_dssp             CCHHHHTSTTCCHHHHHHHHHHCSSHHHHHTCCHHHHHHHHS-CHHHHHHHHHHHHCCCCC
T ss_pred             CHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHCCHHHHHHCCC-CHHHHHHHHHHHCCCCCC
T ss_conf             588885299988999999999867999998799999987869-899999999998021001


No 9  
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=99.26  E-value=2.8e-12  Score=106.55  Aligned_cols=61  Identities=20%  Similarity=0.296  Sum_probs=56.7

Q ss_pred             HCCCCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCCCC
Q ss_conf             14771004888798999999998088898993898888627899989999999985478678
Q gi|255764496|r  552 AAYSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKNTSH  613 (616)
Q Consensus       552 ~~~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~~~  613 (616)
                      ...+.|+.|||||+++.+.||+||||+++|++||++||++|+| +++.|++||++||..-.+
T Consensus        15 ~~~~~L~~iPGIg~k~~~~Ll~~f~sl~~i~~AS~eeL~~v~G-~~~~Ak~i~~~lh~~~~~   75 (84)
T 1z00_B           15 GPQDFLLKMPGVNAKNCRSLMHHVKNIAELAALSQDELTSILG-NAANAKQLYDFIHTSFAE   75 (84)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHSSCHHHHHHSCHHHHHHHHS-CHHHHHHHHHHHTSBHHH
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHCCHHHHHHCCC-CHHHHHHHHHHHCCCCCC
T ss_conf             1999998389999999999999966999998599999988759-799999999998553555


No 10 
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5
Probab=99.14  E-value=8.2e-11  Score=95.93  Aligned_cols=60  Identities=25%  Similarity=0.311  Sum_probs=56.3

Q ss_pred             CCCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCCCC
Q ss_conf             771004888798999999998088898993898888627899989999999985478678
Q gi|255764496|r  554 YSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKNTSH  613 (616)
Q Consensus       554 ~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~~~  613 (616)
                      .+.|+.|||||+++.++|++||||+++|.+||.+||..|+|||+++|+.|+++||..-..
T Consensus        13 ~~~L~~IpgIG~~~a~~L~~~F~s~~~i~~As~eeL~~v~GIG~~~a~~i~~~~~~~~~~   72 (75)
T 1x2i_A           13 RLIVEGLPHVSATLARRLLKHFGSVERVFTASVAELMKVEGIGEKIAKEIRRVITAPYIE   72 (75)
T ss_dssp             HHHHTTSTTCCHHHHHHHHHHHCSHHHHHHCCHHHHTTSTTCCHHHHHHHHHHHHSCCCC
T ss_pred             HHHHCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCHHHC
T ss_conf             999848999429999999999688898999789999855897999999999998576320


No 11 
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5
Probab=99.12  E-value=1.2e-10  Score=94.65  Aligned_cols=58  Identities=21%  Similarity=0.396  Sum_probs=55.2

Q ss_pred             CCCCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCC
Q ss_conf             4771004888798999999998088898993898888627899989999999985478
Q gi|255764496|r  553 AYSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKN  610 (616)
Q Consensus       553 ~~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~  610 (616)
                      +.+.|+.|+|||+++.+.|+++|||+++|.+||.+||.+++|||+++|+.|+++||+.
T Consensus        30 ~~~~L~~I~gIGk~~A~~L~~~F~Si~~l~~As~eeL~~i~GIG~~~A~~I~~~f~~p   87 (91)
T 2a1j_B           30 VTECLTTVKSVNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGPQKARRLFDVLHEP   87 (91)
T ss_dssp             HHHHHTTSTTCCHHHHHHHHHHHSSHHHHHSCCHHHHHTSSSCCSHHHHHHHHHHHSC
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCC
T ss_conf             9998646888599999999999588298999899975577996999999999998481


No 12 
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=99.10  E-value=1.9e-10  Score=93.39  Aligned_cols=61  Identities=20%  Similarity=0.356  Sum_probs=56.3

Q ss_pred             CCCCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCCCC
Q ss_conf             4771004888798999999998088898993898888627899989999999985478678
Q gi|255764496|r  553 AYSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKNTSH  613 (616)
Q Consensus       553 ~~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~~~  613 (616)
                      +.+.|+.|||||+++.+.|+++|||+++|.+||.+||.+|+|||+++|+.|+++|+..-.-
T Consensus        17 ~~~~L~~I~gIG~~~a~~L~~~Fgsl~~i~~As~eeL~~i~GiG~~~A~~I~~~f~~pf~~   77 (89)
T 1z00_A           17 VTECLTTVKSVNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGPQKARRLFDVLHEPFLK   77 (89)
T ss_dssp             HHHHHTTSSSCCHHHHHHHHHHTCBHHHHHHCCHHHHHTSTTCCHHHHHHHHHHHHSCSSS
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCHHCC
T ss_conf             9998758997599999999999488899999878777268996999999999998084204


No 13 
>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} SCOP: a.60.2.5 c.52.1.20 PDB: 2bhn_A
Probab=98.89  E-value=2.5e-09  Score=85.28  Aligned_cols=56  Identities=25%  Similarity=0.373  Sum_probs=53.5

Q ss_pred             CCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCC
Q ss_conf             71004888798999999998088898993898888627899989999999985478
Q gi|255764496|r  555 SPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKN  610 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~  610 (616)
                      ..|..|||||+++.+.|++||||++++.+||.+||.+|+|||++.|+.|+++||..
T Consensus       162 ~~L~~Ipgi~~~~A~~Ll~~f~Sl~~l~~as~~eL~~v~giG~~~A~~I~~~l~~p  217 (219)
T 2bgw_A          162 YILQSFPGIGRRTAERILERFGSLERFFTASKAEISKVEGIGEKRAEEIKKILMTP  217 (219)
T ss_dssp             HHHHTSTTCCHHHHHHHHHHHSSHHHHTTCCHHHHHHSTTCCHHHHHHHHHHHHSC
T ss_pred             HHHHCCCCCCHHHHHHHHHHCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHCCC
T ss_conf             99840799899999999998699999986889999608997999999999996385


No 14 
>1mk0_A Intron-associated endonuclease 1; alpha/beta fold, catalytic domain, DNA-binding surface, hydrolase; HET: CIT; 1.60A {Enterobacteria phage T4} SCOP: d.226.1.1 PDB: 1ln0_A
Probab=98.66  E-value=8e-08  Score=74.40  Aligned_cols=80  Identities=19%  Similarity=0.266  Sum_probs=59.4

Q ss_pred             CCCCEEEEECCCCCEEEEEECHHHHHHHHHHCCC----CCCCHHHHHHHHH-CCCEEEEE----CCCHHHHHHHHHHHHH
Q ss_conf             7886258886998888996012587888761378----8778799999973-44429998----2871999999998877
Q gi|255764496|r    8 ECPGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHS----NNHTHRITHMISQ-INNIRFTV----TCTEVEALLLEANMIK   78 (616)
Q Consensus         8 ~~pGvY~~~~~~~~iiYvGKaknL~~Rv~syf~~----~~~~~k~~~l~~~-~~~ie~~~----t~~e~eAlilE~~lIk   78 (616)
                      .++|||.+.|..+..+|||.|+||++|..+|+..    .....+.+.-+.. -.+++|.+    +.++.+++.+|..+|+
T Consensus         1 mk~GIY~i~n~~~gk~YIG~t~nl~~R~~~h~~~~~~~~~~~~~L~~~~~k~g~~F~~~ile~~~~~~~~l~~~E~~~I~   80 (97)
T 1mk0_A            1 MKSGIYQIKNTLNNKVYVGSAKDFEKRWKRHFKDLEKGCHSSIKLQRSFNKHGNVFECSILEEIPYEKDLIIERANFWIK   80 (97)
T ss_dssp             CCCEEEEEEETTTCCEEEEEESSHHHHHHHHHHHHHHTCCSCHHHHHHHHHHSSCEEEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             CCCEEEEEEECCCCEEEEEEECCHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEEEEEEEECCCHHHHHHHHHHHHH
T ss_conf             94789999979999799988688889999998775226997699999999633365999999969999999999999999


Q ss_pred             HHCCCCEEC
Q ss_conf             618720033
Q gi|255764496|r   79 RLKPRFNIL   87 (616)
Q Consensus        79 ~~~P~yNi~   87 (616)
                      ++.|+||..
T Consensus        81 ~~~~~~ngy   89 (97)
T 1mk0_A           81 ELNSKINGY   89 (97)
T ss_dssp             HTTTTTSSS
T ss_pred             HHCCCCCCE
T ss_conf             868976720


No 15 
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Probab=98.36  E-value=7.6e-07  Score=67.34  Aligned_cols=84  Identities=31%  Similarity=0.432  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHHHHHHHH-----------------HHHHH-HC---CCCHHCCCCCCHHHHHHHHHH-HCCHHHHHHCCH
Q ss_conf             999887877887889899-----------------86432-14---771004888798999999998-088898993898
Q gi|255764496|r  529 FIQRLRDEAHRFAITTHR-----------------KRRKK-AA---YSPLDEINGIGPLRKRLLLQS-FGTVKMISRSSP  586 (616)
Q Consensus       529 ~Lq~iRDEaHRFAi~~hR-----------------k~r~k-~~---~S~Ld~I~GIG~k~~~~Ll~~-Fgs~~~i~~As~  586 (616)
                      .+|.+.+.|.+|+-.-.+                 ..|-. ..   .++|-+|||||+++.++|+++ |+|+++|.+|+.
T Consensus       599 ~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~l~~l~~r~~~g~~~e~~~L~~i~~ig~~~ar~L~~~G~~s~~~i~~~~~  678 (720)
T 2zj8_A          599 DIYRIVETAEWLVYSLKEIAKVLGAYEIVDYLETLRVRVKYGIREELIPLMQLPLVGRRRARALYNSGFRSIEDISQARP  678 (720)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCGGGHHHHHHHHHHHHHTCCGGGGGGTTSTTCCHHHHHHHHTTTCCSHHHHHTCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCHHHHHCCCH
T ss_conf             99999999999999999999986988999999999999985898110562278999999999999879999999974998


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHCCCCC
Q ss_conf             88862789998999999998547867
Q gi|255764496|r  587 ETLASIEGISKKIACKIYNHFHKNTS  612 (616)
Q Consensus       587 eeL~~v~gi~~~~A~~I~~~l~~~~~  612 (616)
                      ++|.+++|+|+++|+.|.++...+..
T Consensus       679 ~~l~~v~g~g~k~a~~i~~~~~~~~~  704 (720)
T 2zj8_A          679 EELLKIEGIGVKTVEAIFKFLGKNVK  704 (720)
T ss_dssp             HHHHTSTTCCHHHHHHHHHHHC----
T ss_pred             HHHHHCCCCCHHHHHHHHHHHCHHCC
T ss_conf             89852769489999999974450058


No 16 
>2owo_A DNA ligase; protein/DNA complex, ligase/DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli K12}
Probab=98.21  E-value=3.4e-06  Score=62.64  Aligned_cols=54  Identities=22%  Similarity=0.316  Sum_probs=51.4

Q ss_pred             HHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCC
Q ss_conf             004888798999999998088898993898888627899989999999985478
Q gi|255764496|r  557 LDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKN  610 (616)
Q Consensus       557 Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~  610 (616)
                      =..|++||..+.+.|..+|++++.+.+||.++|.+++||++.+|+.|.+||+..
T Consensus       514 ALGI~~vG~~~ak~La~~f~~l~~l~~as~eeL~~I~gIG~~~A~si~~ff~~~  567 (671)
T 2owo_A          514 ALGIREVGEATAAGLAAYFGTLEALEAASIEELQKVPDVGIVVASHVHNFFAEE  567 (671)
T ss_dssp             HTTCTTCCHHHHHHHHHHHCSHHHHHTCCHHHHTTSTTCCHHHHHHHHHHHTCH
T ss_pred             HCCCCCCCHHHHHHHHHHCCCHHHHHCCCHHHHHCCCCCCHHHHHHHHHHHCCH
T ss_conf             643777547789999886299999873899999644981699999999997498


No 17 
>1e52_A Excinuclease ABC subunit; DNA excision repair, UVRB, DNA repair, UVRC binding domain; NMR {Escherichia coli} SCOP: a.2.9.1 PDB: 1qoj_A
Probab=98.20  E-value=1.1e-06  Score=66.12  Aligned_cols=49  Identities=18%  Similarity=0.134  Sum_probs=40.4

Q ss_pred             HHHHHHCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             2345503871-589999999999998633388888899999999862211
Q gi|255764496|r  186 EAKKFLSGGN-HNLKEKIARNMNQATLKEDYESAIIHRDRLAALSHIQNH  234 (616)
Q Consensus       186 ~~~~fL~G~~-~~ii~~L~~~M~~aS~~l~FE~Aa~~RD~I~aL~~i~~~  234 (616)
                      .+...|+++. .+.++.|+++|..||++++||+||.+||+|.+|+.....
T Consensus        12 ~~~~~ls~~el~k~I~~Le~~M~~aA~~ldFE~AA~~RD~I~~L~~~L~~   61 (63)
T 1e52_A           12 NVPMDMSPKALQQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQLRELFIA   61 (63)
T ss_dssp             TSSCCSCCSHHHHHHHHHHHHHHHHHHTTCHHHHTTHHHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             54213899999999999999999999968899999999999999999876


No 18 
>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.9.2.1 PDB: 1vq4_Y* 1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y* 1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y* 1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ...
Probab=98.17  E-value=1.8e-07  Score=71.85  Aligned_cols=63  Identities=24%  Similarity=0.469  Sum_probs=56.2

Q ss_pred             HHHHCCCCHHCCCCCCHHHHHHHHHH-HCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCC
Q ss_conf             43214771004888798999999998-0888989938988886278999899999999854786
Q gi|255764496|r  549 RKKAAYSPLDEINGIGPLRKRLLLQS-FGTVKMISRSSPETLASIEGISKKIACKIYNHFHKNT  611 (616)
Q Consensus       549 r~k~~~S~Ld~I~GIG~k~~~~Ll~~-Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~  611 (616)
                      ..+..+..|.+|+|||+++.++|+.+ |.+++.|..++.++|.+++||+++.|++|++.++.-.
T Consensus         9 ~~~~~~~~l~~i~gvG~~~~~~l~~~g~~~~~~i~~~~~~~L~~~~g~g~k~a~~i~~~i~~~~   72 (241)
T 1vq8_Y            9 EAEEEYTELTDISGVGPSKAESLREAGFESVEDVRGADQSALADVSGIGNALAARIKADVGGLE   72 (241)
T ss_dssp             ----------------------------------------------------------------
T ss_pred             HHHHHHHHHCCCCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHCC
T ss_conf             8688674325889989999999997689999999869999997468957999999999986500


No 19 
>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2 PDB: 1v9p_A*
Probab=98.16  E-value=3.3e-06  Score=62.78  Aligned_cols=52  Identities=25%  Similarity=0.378  Sum_probs=50.4

Q ss_pred             HCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCC
Q ss_conf             0488879899999999808889899389888862789998999999998547
Q gi|255764496|r  558 DEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHK  609 (616)
Q Consensus       558 d~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~  609 (616)
                      ..|||||..+.+.|..+|++++.+.+||.++|.+++|||+.+|++|.++|+.
T Consensus       510 LGIp~vG~~~ak~L~~~f~~l~~l~~as~e~L~~I~GIG~~~A~si~~~f~~  561 (667)
T 1dgs_A          510 LGLPGVGEVLARNLARRFGTMDRLLEASLEELIEVEEVGELTARAILETLKD  561 (667)
T ss_dssp             TTCSSCCHHHHHHHHHTTSBHHHHTTCCHHHHHTSTTCCHHHHHHHHHHHHC
T ss_pred             CCCCCCCHHHHHHHHHHCCCHHHHHCCCHHHHHCCCCCCHHHHHHHHHHHCC
T ss_conf             0678744899999988759999986079999857799489999999999759


No 20 
>3c1y_A DNA integrity scanning protein DISA; DNA damage, DNA repair, DNA-binding, DNA binding protein; HET: DNA 2BA; 2.10A {Thermotoga maritima} PDB: 3c1z_A* 3c21_A* 3c23_A*
Probab=98.08  E-value=6e-06  Score=60.88  Aligned_cols=85  Identities=22%  Similarity=0.196  Sum_probs=65.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-----HC----CC-----CHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHH
Q ss_conf             999999988787788788989986432-----14----77-----10048887989999999980888989938988886
Q gi|255764496|r  525 PILYFIQRLRDEAHRFAITTHRKRRKK-----AA----YS-----PLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLA  590 (616)
Q Consensus       525 ~~l~~Lq~iRDEaHRFAi~~hRk~r~k-----~~----~S-----~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~  590 (616)
                      .+...|+.+.++...-.....|-+--.     ..    .|     .|..||.+-....+.|.+||||+++|.+||.|||.
T Consensus       271 ~a~~~L~~L~~~elldl~~ia~~LGy~~~g~~~llD~~v~pRGyRiLskiprlp~~vienLV~~FgsLq~Ll~AS~EeL~  350 (377)
T 3c1y_A          271 TAQNILQDFITRREPSPISISRVLGYDVQQAAQLDDVLVSARGYRLLKTVARIPLSIGYNVVRMFKTLDQISKASVEDLK  350 (377)
T ss_dssp             HHHHHHHHHHTTSCCCHHHHHHHTTCCCSCGGGGGGCBCCCCSHHHHHHTSCCCHHHHHHHHHHHCSHHHHTTCCHHHHT
T ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHH
T ss_conf             89999986222244676899998299987866644456574178887238999788999999984689999858998896


Q ss_pred             HCCCCCHHHHHHHHHHHCC
Q ss_conf             2789998999999998547
Q gi|255764496|r  591 SIEGISKKIACKIYNHFHK  609 (616)
Q Consensus       591 ~v~gi~~~~A~~I~~~l~~  609 (616)
                      +|.|||+..|+.|.+.|..
T Consensus       351 eVeGIGe~RAr~IreGL~R  369 (377)
T 3c1y_A          351 KVEGIGEKRARAISESISS  369 (377)
T ss_dssp             TSTTCCHHHHHHHHHHHHH
T ss_pred             HCCCCCHHHHHHHHHHHHH
T ss_conf             4588589999999999999


No 21 
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2
Probab=97.70  E-value=8.3e-05  Score=52.65  Aligned_cols=65  Identities=18%  Similarity=0.331  Sum_probs=55.0

Q ss_pred             HHHHHCCCCHHCCCCCCHHHHHHHHHHHC---CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCCC
Q ss_conf             64321477100488879899999999808---889899389888862789998999999998547867
Q gi|255764496|r  548 RRKKAAYSPLDEINGIGPLRKRLLLQSFG---TVKMISRSSPETLASIEGISKKIACKIYNHFHKNTS  612 (616)
Q Consensus       548 ~r~k~~~S~Ld~I~GIG~k~~~~Ll~~Fg---s~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~~  612 (616)
                      +..+.++..|-.|+|||||..-.+|..+.   =+..|.+-+..-|+++||||+++|++|.-.|+..-.
T Consensus        65 ~~Er~lF~~Li~V~GIGpK~Al~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtAerIilELk~K~~  132 (191)
T 1ixr_A           65 EENLALFELLLSVSGVGPKVALALLSALPPRLLARALLEGDARLLTSASGVGRRLAERIALELKGKVP  132 (191)
T ss_dssp             HHHHHHHHHHHSSSCCCHHHHHHHHHHSCHHHHHHHHHTTCHHHHTTSTTCCHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHCCCHHHHHHHHHCCCHHHHHCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             89999999985768837788988872599999999998399999501888468899999999986434


No 22 
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA binding, oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A
Probab=97.60  E-value=0.00011  Score=51.87  Aligned_cols=63  Identities=16%  Similarity=0.290  Sum_probs=53.2

Q ss_pred             HHHHCCCCHHCCCCCCHHHHHHHHHHHC---CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCC
Q ss_conf             4321477100488879899999999808---88989938988886278999899999999854786
Q gi|255764496|r  549 RKKAAYSPLDEINGIGPLRKRLLLQSFG---TVKMISRSSPETLASIEGISKKIACKIYNHFHKNT  611 (616)
Q Consensus       549 r~k~~~S~Ld~I~GIG~k~~~~Ll~~Fg---s~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~  611 (616)
                      ..+.++-.|-.|.|||||+.-.+|..+.   =+..|.+-...-|++|||||+++|++|.-.|+.--
T Consensus        82 ~Er~lF~~Li~VsGIGPK~AL~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtAeRIilELkdKl  147 (212)
T 2ztd_A           82 ETRDLFLTLLSVSGVGPRLAMAALAVHDAPALRQVLADGNVAALTRVPGIGKRGAERMVLELRDKV  147 (212)
T ss_dssp             HHHHHHHHHHTSTTCCHHHHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHHH
T ss_conf             999999999834897746787888549999999999808999985177824888999999997543


No 23 
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination, helicase; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A
Probab=97.53  E-value=0.00012  Score=51.57  Aligned_cols=60  Identities=23%  Similarity=0.412  Sum_probs=50.6

Q ss_pred             HHHCCCCHHCCCCCCHHHHHHHHHHHC---CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCC
Q ss_conf             321477100488879899999999808---889899389888862789998999999998547
Q gi|255764496|r  550 KKAAYSPLDEINGIGPLRKRLLLQSFG---TVKMISRSSPETLASIEGISKKIACKIYNHFHK  609 (616)
Q Consensus       550 ~k~~~S~Ld~I~GIG~k~~~~Ll~~Fg---s~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~  609 (616)
                      .+.++..|-.|+|||||..-.+|..+.   =+..|.+-...-|.++||||+++|++|.-.|+.
T Consensus        68 Er~lF~~Li~VsGIGPK~AL~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIilELkd  130 (203)
T 1cuk_A           68 ERTLFKELIKTNGVGPKLALAILSGMSAQQFVNAVEREEVGALVKLPGIGKKTAERLIVEMKD  130 (203)
T ss_dssp             HHHHHHHHHHSSSCCHHHHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHCCCHHHHHHHHHHCCHHHHHCCCCCCHHHHHHHHHHHHH
T ss_conf             999999985768857566888861279899999987189988606998779999999999999


No 24 
>2w36_A Endonuclease V; hypoxanthine, endonuclease, endonucleasev, hydrolase, inosine, DNA damage, DNA repair; HET: BRU; 2.10A {Thermotoga maritima} PDB: 2w35_A 3hd0_A
Probab=97.48  E-value=0.00064  Score=46.26  Aligned_cols=111  Identities=20%  Similarity=0.158  Sum_probs=61.4

Q ss_pred             HHHHHHCCC---CCCCEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHCCCCCCCCCHHHHHHHHH--HHHHHHHH
Q ss_conf             998751566---4351699970744377540488888516872803232110244445541168998999--99999775
Q gi|255764496|r  368 DFTKKFALP---HIPKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMV--LERRFSQL  442 (616)
Q Consensus       368 ~Lk~~L~L~---~~p~rIE~fDiSh~~G~~~Vas~Vvf~~g~~~K~~YR~f~Ik~~~v~~~DD~~~m~Ev--i~RR~~r~  442 (616)
                      +|++.+.+.   ..++.|-|+|+|...+...+|+.||++-.... --+..+-....+.-..--|-+.||+  +..-+.++
T Consensus        22 ~L~~~v~~~~~~~~~~~VaGvDvsy~~~~~~~A~~Vv~~~~~~~-~v~~~~~~~~~~~PYIPG~LafRE~P~ll~al~~L  100 (225)
T 2w36_A           22 ELRKKIKLTPYEGEPEYVAGVALSFPGKEEGLAVIVVLEYPSFK-ILEVVSERGEITFPYIPGLLAFREGPLFLKAWEKL  100 (225)
T ss_dssp             HHGGGCCCCCCCSCCSEEEEEEEEEEETTEEEEEEEEEETTTTE-EEEEEEEEEECCSCCCTTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHCEECCCCCCCCCEEEEEEEEECCCCCEEEEEEEEECCCCE-EEEEEEEEEECCCCCCCCCEECCHHHHHHHHHHHC
T ss_conf             99850254788998588999985875899359999999779955-99999999632577566411201048999999965


Q ss_pred             HCCCCCCCCCCCCCCCCCCCCCCEEEEECC-HHH---HHHHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             313111233333333454579848998098-589---99999999975887787189997187
Q gi|255764496|r  443 IKNEENLNFHPKKQEYSFPSWPDVVILDGG-KGQ---LSAAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       443 ~~~~~~l~~~~~~~~~~~~~~PDLilIDGG-kgQ---ln~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      .                  ..||+|||||= .-|   +..|-.+    |+..++|.||+||..
T Consensus       101 ~------------------~~PdvilvDG~G~~HPR~~GlA~Hl----Gv~l~~PtIGVAK~~  141 (225)
T 2w36_A          101 R------------------TKPDVVVFDGQGLAHPRKLGIASHM----GLFIEIPTIGVAKSR  141 (225)
T ss_dssp             C------------------SCCSEEEEESCSSSSTTSCCHHHHH----HHHHTSCEEEEESSC
T ss_pred             C------------------CCCCEEEECCCEEECCCCCCHHHEE----EEECCCCEEEEECCE
T ss_conf             7------------------8999999848533368766442200----342298876333343


No 25 
>2ziu_A MUS81 protein; helix-hairpin-helix, alternative splicing, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; 2.70A {Danio rerio} PDB: 2ziv_A 2ziw_A
Probab=97.34  E-value=0.00019  Score=50.06  Aligned_cols=58  Identities=19%  Similarity=0.372  Sum_probs=47.9

Q ss_pred             CCHHCCCCCCHHHHHHHHHHHCCHHHHHHC-----CHHH----HHHCC------CCCHHHHHHHHHHHCCCCC
Q ss_conf             710048887989999999980888989938-----9888----86278------9998999999998547867
Q gi|255764496|r  555 SPLDEINGIGPLRKRLLLQSFGTVKMISRS-----SPET----LASIE------GISKKIACKIYNHFHKNTS  612 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~A-----s~ee----L~~v~------gi~~~~A~~I~~~l~~~~~  612 (616)
                      ..|.+|||||+.....|+++|+|+..+.+|     +..|    |+.++      .||+++|++||++|....+
T Consensus       237 ~~L~qIpGIs~~~A~~I~~~y~T~~~L~~a~~~~~~~~e~~~ll~~~~~~~~~RkiG~~~S~~Iy~~~~~~~~  309 (311)
T 2ziu_A          237 RQLMQISGVSGDKAAAVLEHYSTVSSLLQAYDKCSSETEKEKLLSSVKYGKLKRNLGPALSRTIYQLYCTRGP  309 (311)
T ss_dssp             HHHTTBTTCCHHHHHHHHHHCSSHHHHHHHHHHCSSHHHHTTTTTTCEETTTTEECHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCC
T ss_conf             9998279999999999999769999999999856988889998764435655577389999999999677899


No 26 
>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase, hyperthermostable protein, replication; HET: DNA BOG; 1.50A {Thermus thermophilus HB8} SCOP: c.37.1.19 c.37.1.19 PDB: 1d2m_A*
Probab=97.04  E-value=7.6e-05  Score=52.91  Aligned_cols=39  Identities=18%  Similarity=0.243  Sum_probs=25.2

Q ss_pred             CCHHH---HHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHCCC
Q ss_conf             78799---99997344429998287199999999887761872
Q gi|255764496|r   44 HTHRI---THMISQINNIRFTVTCTEVEALLLEANMIKRLKPR   83 (616)
Q Consensus        44 ~~~k~---~~l~~~~~~ie~~~t~~e~eAlilE~~lIk~~~P~   83 (616)
                      -|.|+   ..++.+...=-.++|.|+.+|--|-..|-. +-|.
T Consensus        38 GS~kt~~iA~~~~~~~rp~LVvt~n~~~A~qL~~el~~-~~p~   79 (664)
T 1c4o_A           38 GTGKTVTMAKVIEALGRPALVLAPNKILAAQLAAEFRE-LFPE   79 (664)
T ss_dssp             TSCHHHHHHHHHHHHTCCEEEEESSHHHHHHHHHHHHH-HCTT
T ss_pred             CCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHH-HCCC
T ss_conf             75899999999998689989991899999999999998-6688


No 27 
>3ga2_A Endonuclease V; alpha-beta protein, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Bacillus subtilis}
Probab=96.85  E-value=0.00093  Score=45.07  Aligned_cols=114  Identities=17%  Similarity=0.105  Sum_probs=59.4

Q ss_pred             HHHHHHHCCCC-----CCCEEEEEECCCCCCC---CCEEEEEEEECCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             99987515664-----3516999707443775---404888885168728032321102444455411689989999999
Q gi|255764496|r  367 KDFTKKFALPH-----IPKRIEIYDNSHIMGC---SAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMVLERR  438 (616)
Q Consensus       367 ~~Lk~~L~L~~-----~p~rIE~fDiSh~~G~---~~Vas~Vvf~~g~~~K~~YR~f~Ik~~~v~~~DD~~~m~Evi~RR  438 (616)
                      .+|++.+.+..     ..+.|-|+|+|....+   .++|+.||+.-... +--|+.+-+..-+.-..--|-|.||+--  
T Consensus        22 ~~L~~~v~~~~~~~~~~v~~VaGvDvsy~~~~~~~~~~a~~Vvl~~~~~-~~v~~~~~~~~~~~PYIPG~LaFRE~p~--   98 (246)
T 3ga2_A           22 FNLKNRINLSPTIHPDSINTTAGVDLAYWEQDGEPYGVCCIIVIDADTK-EVIEKVHSMGRISVPYVSGFLAFRELPL--   98 (246)
T ss_dssp             HHHHTTCCCCCCCCGGGCSEEEEEEEEEEEETTEEEEEEEEEEEETTTC-CEEEEEEEEEECCCCSSSSCGGGGTHHH--
T ss_pred             HHHHHHEEECCCCCCCCCCEEEEEEEEEECCCCCEEEEEEEEEEECCCC-CEEEEEEEEEECCCCCCCCHHHHHHHHH--
T ss_conf             9998514746788987676899998666548886489999999977987-1899999996236883652365621799--


Q ss_pred             HHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECC-HHHH---HHHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             9775313111233333333454579848998098-5899---9999999975887787189997187
Q gi|255764496|r  439 FSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGG-KGQL---SAAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       439 ~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGG-kgQl---n~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      +..+.+.   |           ...||||+|||- .-|=   ..|-.    +|+..++|.||+||..
T Consensus        99 ll~al~~---L-----------~~~PDvllvDG~Gi~HPR~~GlA~H----lGv~l~~PtIGVAK~~  147 (246)
T 3ga2_A           99 IIEAAKK---L-----------ETEPDVFLFDGNGYLHYNHMGVATH----AAFFLGKPTIGIAKTY  147 (246)
T ss_dssp             HHHHHHH---C-----------SSCCSCEEEEBCSSSSTTSCCHHHH----HHHHHTSCEEEEESSC
T ss_pred             HHHHHHH---C-----------CCCCCEEEECCCCCCCCCCCCHHHH----EEEECCCCEEEEECCE
T ss_conf             9999985---6-----------7899999992862106877645331----0000398876441333


No 28 
>3bz1_U Photosystem II 12 kDa extrinsic protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 2axt_U* 3bz2_U* 3kzi_U* 3a0b_U* 3a0h_U*
Probab=96.84  E-value=0.00085  Score=45.36  Aligned_cols=56  Identities=14%  Similarity=0.252  Sum_probs=47.5

Q ss_pred             CCCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCCCCCC
Q ss_conf             77100488879899999999808889899389888862789998999999998547867898
Q gi|255764496|r  554 YSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKNTSHTP  615 (616)
Q Consensus       554 ~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~~~~~  615 (616)
                      ...|..+||||+...+++.+| |.+     -|++||.+|+||+++..+.|..+++.-.-.+|
T Consensus        32 ~~eL~~lpGig~~~A~~Iv~~-gpf-----~s~~dL~~V~Gig~~~~e~ik~yl~~~~~~~p   87 (104)
T 3bz1_U           32 IAAFIQYRGLYPTLAKLIVKN-APY-----ESVEDVLNIPGLTERQKQILRENLEHFTVTEV   87 (104)
T ss_dssp             GGGGGGSTTTTHHHHHHHHHS-CCC-----SSGGGGGGCTTCCHHHHHHHHHHGGGEECCCC
T ss_pred             HHHHHHCCCCCHHHHHHHHHC-CCC-----CCHHHHHCCCCCCHHHHHHHHHHHCCCEECCC
T ss_conf             999965899799999999974-997-----98999963899899999999986545544487


No 29 
>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis, oxygen-evolving, tetra- manganese, membrane; HET: CL1 PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus elongatus}
Probab=96.83  E-value=0.0012  Score=44.39  Aligned_cols=57  Identities=14%  Similarity=0.246  Sum_probs=48.0

Q ss_pred             CCCCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCCCCCC
Q ss_conf             477100488879899999999808889899389888862789998999999998547867898
Q gi|255764496|r  553 AYSPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKNTSHTP  615 (616)
Q Consensus       553 ~~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~~~~~  615 (616)
                      ..+.|..+|||||++.+++.+| |.+     .|+|||.+|+||+++.-+.|..++..-+-.+|
T Consensus        61 ~~~eL~~lpGig~~~A~~Iv~~-gpf-----~svedl~~v~Gig~~~~e~l~~~l~~ftv~~p  117 (134)
T 1s5l_U           61 NIAAFIQYRGLYPTLAKLIVKN-APY-----ESVEDVLNIPGLTERQKQILRENLEHFTVTEV  117 (134)
T ss_dssp             CGGGGGGSTTCTHHHHHHHHHT-CCC-----SSGGGGGGCTTCCHHHHHHHHHHHTTEECCCC
T ss_pred             CHHHHHHHHHHHHHHHHHHHHC-CCC-----CCHHHHHCCCCCCHHHHHHHHHHHCCCEECCC
T ss_conf             8999977103469999999982-784-----87999961775799999999986535312688


No 30 
>1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.60.4.1
Probab=96.79  E-value=0.00031  Score=48.51  Aligned_cols=52  Identities=31%  Similarity=0.332  Sum_probs=46.9

Q ss_pred             CCCCCCHHHHHHHHHH-HCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCC
Q ss_conf             4888798999999998-088898993898888627899989999999985478
Q gi|255764496|r  559 EINGIGPLRKRLLLQS-FGTVKMISRSSPETLASIEGISKKIACKIYNHFHKN  610 (616)
Q Consensus       559 ~I~GIG~k~~~~Ll~~-Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~  610 (616)
                      +++||||.+.++|... |.|++.|..|+.++|..++||+++.|++|.+..++-
T Consensus        29 ~~~Gvg~~~i~KL~~aG~~Tv~~Ia~~t~~eL~~i~Gi~e~~A~KIi~aark~   81 (114)
T 1b22_A           29 EQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAEAAKL   81 (114)
T ss_dssp             HHTTCSHHHHHHHHTTCCSSGGGBTSSBHHHHHTTTTCSTTHHHHHHHHHHHH
T ss_pred             HHCCCCHHHHHHHHHCCCCHHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHH
T ss_conf             76899999999999969744999984899999766698899999999999987


No 31 
>3ho1_A Argonaute; argonaute, protein-DNA-RNA complex, plasmid; 2.60A {Thermus thermophilus HB27} PDB: 3dlb_A* 3dlh_A* 3f73_A* 3hm9_A 3hvr_A 3hxm_A* 3hk2_A 3hjf_A
Probab=96.72  E-value=0.02  Score=35.44  Aligned_cols=112  Identities=12%  Similarity=0.084  Sum_probs=63.7

Q ss_pred             CCCCCEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHH--HCCCCCCCCCHHH-HHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             6435169997074437754048888851687280323211--0244445541168-998999999997753131112333
Q gi|255764496|r  376 PHIPKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKF--NLHPNDVKTQDDC-AMMRMVLERRFSQLIKNEENLNFH  452 (616)
Q Consensus       376 ~~~p~rIE~fDiSh~~G~~~Vas~Vvf~~g~~~K~~YR~f--~Ik~~~v~~~DD~-~~m~Evi~RR~~r~~~~~~~l~~~  452 (616)
                      +..|.-|-|+|++|=.+ ..++|+|.--+....  .|+..  ..........+|. .+|.+.|...+..           
T Consensus       468 ~~~~~miiG~DV~h~~~-~s~~~~vas~~~~~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~-----------  533 (685)
T 3ho1_A          468 AYPAELAVGFDAGGRES-FRFGGAACAVGGDGG--HLLWTLPEAQAGERIPQEVVWDLLEETLWAFRRK-----------  533 (685)
T ss_dssp             CCSCSEEEEEEEEETTE-EEEEEEEEEECC--C--CCEEECCCCCCSCCCHHHHHHHHHHHHHHHHHHH-----------
T ss_pred             CCCCCEEEEEEEECCCC-CCEEEEEEEECCCCC--EEEEEEEEECCCCEEHHHHHHHHHHHHHHHHHHH-----------
T ss_conf             99982899999836999-965899999818998--8889899714883763989999999999999998-----------


Q ss_pred             CCCCCCCCCCCCCEEEE--EC--CHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCEEEECCCC
Q ss_conf             33333454579848998--09--85899999999997588778718999718776766348981798
Q gi|255764496|r  453 PKKQEYSFPSWPDVVIL--DG--GKGQLSAAQGVLKKLNVENRITIISIAKGPKRSAGMEKFFVKKG  515 (616)
Q Consensus       453 ~~~~~~~~~~~PDLilI--DG--GkgQln~a~~vl~~l~i~~~i~viglaK~~~r~~~~e~~~~~~~  515 (616)
                             .+.+|+-|+|  ||  ..+++.++++++++++.  ++.+|.+.|...     -++++.++
T Consensus       534 -------~~~~P~~IiiyRDG~v~~~E~~~i~~~~~~~~~--~~~~i~V~k~~~-----~R~f~~~~  586 (685)
T 3ho1_A          534 -------AGRLPSRVLLLRNGRVPQDEFALALEALAREGI--AYDLVSVRKSGG-----GRVYPVQG  586 (685)
T ss_dssp             -------HSSCCSEEEEEECSSSCSGGGHHHHHHHHHTTC--EEEEEEEESSCC-----CCEEESSS
T ss_pred             -------HCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCC--CEEEEEEECCCC-----CEEECCCC
T ss_conf             -------489975699961687668999999999875199--589999983687-----20316899


No 32 
>1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1kdh_A* 1kej_A*
Probab=96.42  E-value=0.017  Score=35.90  Aligned_cols=20  Identities=10%  Similarity=0.071  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q ss_conf             338888889999999986221
Q gi|255764496|r  213 EDYESAIIHRDRLAALSHIQN  233 (616)
Q Consensus       213 l~FE~Aa~~RD~I~aL~~i~~  233 (616)
                      ..| ++.-||--+.+|+.+..
T Consensus        55 d~f-r~~AY~rAa~~i~~l~~   74 (381)
T 1jms_A           55 NEG-SCLAFMRASSVLKSLPF   74 (381)
T ss_dssp             CHH-HHHHHHHHHHHHHTCSS
T ss_pred             CCH-HHHHHHHHHHHHHHCCC
T ss_conf             808-79999999999985897


No 33 
>3goc_A Endonuclease V; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: YES; 1.60A {Streptomyces avermitilis ma-4680}
Probab=96.41  E-value=0.0013  Score=44.11  Aligned_cols=100  Identities=15%  Similarity=0.119  Sum_probs=54.0

Q ss_pred             CEEEEEECCCCCCC-CCEEEEEEEECCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             16999707443775-40488888516872803232110244445541168998999999997753131112333333334
Q gi|255764496|r  380 KRIEIYDNSHIMGC-SAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEY  458 (616)
Q Consensus       380 ~rIE~fDiSh~~G~-~~Vas~Vvf~~g~~~K~~YR~f~Ik~~~v~~~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~  458 (616)
                      ++|-|+|+|.-.+. .++|++||++-.... --+..+-......-..--|-+.||+--  +..+.+.             
T Consensus        40 ~~VaGvDvsy~~~~~~~~a~~Vvl~~~~~~-~v~~~~~~~~~~~PYIPG~LaFRE~p~--~l~al~~-------------  103 (237)
T 3goc_A           40 GRVTGVDVAYDDERDVVVAAAVVLDAATLD-VVAEATAVGEVSFPYVPGLLAFREIPT--VLAALDA-------------  103 (237)
T ss_dssp             SEEEEEEEEECSSSSEEEEEEEEEETTTCC-EEEEEEEEEECCSCCCTTCGGGGTHHH--HHHHHHT-------------
T ss_pred             CEEEEEEEEEECCCCEEEEEEEEEECCCCE-EEEEEEEEEECCCCCCCCHHHHHHHHH--HHHHHHH-------------
T ss_conf             789999866856998699999999889854-999999994047875653254520189--9999985-------------


Q ss_pred             CCCCCCCEEEEECC-HHH---HHHHHHHHHHCCCCCCCCEEEEECC
Q ss_conf             54579848998098-589---9999999997588778718999718
Q gi|255764496|r  459 SFPSWPDVVILDGG-KGQ---LSAAQGVLKKLNVENRITIISIAKG  500 (616)
Q Consensus       459 ~~~~~PDLilIDGG-kgQ---ln~a~~vl~~l~i~~~i~viglaK~  500 (616)
                       ....||||||||= ..|   +..|-.+    |+..++|.||+||.
T Consensus       104 -l~~~PdlllvDG~Gi~HPR~~GlAsHl----Gv~l~~PtIGVAK~  144 (237)
T 3goc_A          104 -LPCPPGLIVCDGYGVAHPRRFGLASHL----GVLTGLPTIGVAKN  144 (237)
T ss_dssp             -SSSCCSEEEEESCSSCSTTSCCHHHHH----HHHHCSCEEEEESS
T ss_pred             -CCCCCCEEEECCCEEECCCCCCHHHEE----EECCCCCEEEEECC
T ss_conf             -678999999828602278766642203----21059886754144


No 34 
>3oqg_A HPY188I; endonuclease-DNA complex, restriction enzyme, HPY188I, inter GIY-YIG nuclease, catalytic mechanism; HET: DNA; 1.75A {Helicobacter pylori} PDB: 3or3_A
Probab=96.36  E-value=0.0028  Score=41.63  Aligned_cols=33  Identities=27%  Similarity=0.536  Sum_probs=27.2

Q ss_pred             CCCEEEEECCCCCEEEEEECH-HHHHHHHHHCCCC
Q ss_conf             886258886998888996012-5878887613788
Q gi|255764496|r    9 CPGVYQMLDIAGRVLYVGKAY-NLQKRIKSYMHSN   42 (616)
Q Consensus         9 ~pGvY~~~~~~~~iiYvGKak-nL~~Rv~syf~~~   42 (616)
                      .-=||.|- -+|+|.|||+++ +|++|+.||-.+.
T Consensus        69 ~g~vY~~v-vdg~I~kIG~T~~gLkkR~~sY~~G~  102 (180)
T 3oqg_A           69 EGLVYVFV-IQGKIFKIGHSITPITKRVQSYNCGK  102 (180)
T ss_dssp             CCEEEEEE-ETTEEEEEEEESSCHHHHHHHHTTCC
T ss_pred             CCEEEEEE-ECCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf             75799999-99999994287632667688871735


No 35 
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A
Probab=96.32  E-value=0.013  Score=36.89  Aligned_cols=76  Identities=24%  Similarity=0.329  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHHHHHHHHH--H---------HHHHH---CC---CCHHCCCCCCHHHHHHHHHH-HCCHHHHHHCCHHHHH
Q ss_conf             999887877887889899--8---------64321---47---71004888798999999998-0888989938988886
Q gi|255764496|r  529 FIQRLRDEAHRFAITTHR--K---------RRKKA---AY---SPLDEINGIGPLRKRLLLQS-FGTVKMISRSSPETLA  590 (616)
Q Consensus       529 ~Lq~iRDEaHRFAi~~hR--k---------~r~k~---~~---S~Ld~I~GIG~k~~~~Ll~~-Fgs~~~i~~As~eeL~  590 (616)
                      .||.+++.|.+||-.-.+  +         .+.+.   ..   .+|-+|||||.+|.++|++. |.|++.|..|+ +.+.
T Consensus       589 ~l~~l~~~a~~~~~~~~~~~~~~~~~~l~~l~~rl~~gv~~e~~~L~~i~~v~~~~ar~L~~~g~~s~~~i~~~~-~~~~  667 (702)
T 2p6r_A          589 DLRRIVETAEWLSNAMNRIAEEVGNTSVSGLTERIKHGVKEELLELVRIRHIGRVRARKLYNAGIRNAEDIVRHR-EKVA  667 (702)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCCSSTTHHHHHHHTCCGGGHHHHTSTTCCHHHHHHHHTTTCCSHHHHHHTH-HHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCCCCHHHHHHCCCCCCCHHHHHHHHHCCCCCHHHHHHCC-HHHH
T ss_conf             999999999999999999999738898999999998499841696708899999999999987999999997097-7889


Q ss_pred             HCCCCCHHHHHHHHHHH
Q ss_conf             27899989999999985
Q gi|255764496|r  591 SIEGISKKIACKIYNHF  607 (616)
Q Consensus       591 ~v~gi~~~~A~~I~~~l  607 (616)
                      .+  +++++|++|.+.+
T Consensus       668 ~~--~~~~~~~~~~~~~  682 (702)
T 2p6r_A          668 SL--IGRGIAERVVEGI  682 (702)
T ss_dssp             HH--HCHHHHHHHHHHH
T ss_pred             HH--HCCCHHHHHHHHH
T ss_conf             77--4705499999874


No 36 
>2zix_A Crossover junction endonuclease MUS81; helix-hairpin-helix, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium, metal-binding, nucleus; 3.50A {Homo sapiens}
Probab=96.20  E-value=0.00075  Score=45.76  Aligned_cols=59  Identities=12%  Similarity=0.284  Sum_probs=47.0

Q ss_pred             CCHHCCCCCCHHHHHHHHHHHCCHHHHHHC-----CHHH----HHHCC------CCCHHHHHHHHHHHCCCCCC
Q ss_conf             710048887989999999980888989938-----9888----86278------99989999999985478678
Q gi|255764496|r  555 SPLDEINGIGPLRKRLLLQSFGTVKMISRS-----SPET----LASIE------GISKKIACKIYNHFHKNTSH  613 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~A-----s~ee----L~~v~------gi~~~~A~~I~~~l~~~~~~  613 (616)
                      ..|.+|||||+...+.|+++|+|+..+..|     +.++    |..+.      .||++++++||++|...++-
T Consensus       233 ~mL~qIpGIs~~~A~~I~~~ypT~~~L~~ay~~~~~~~e~~~ll~~~~~~~~~RkiG~~~Sk~I~~~~~~~~~~  306 (307)
T 2zix_A          233 RQLMQVRGVSGEKAAALVDRYSTPASLLAAYDACATPKEQETLLSTIKCGRLQRNLGPALSRTLSQLYCSYGPL  306 (307)
T ss_dssp             HTTTCSTTCCSTTTTTSSSSSCSHHHHHHHHHCCSSGGGTTTTTSCCCCTTTTCCCCHHHHHHHHHHHTCSSCC
T ss_pred             HHHHCCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCC
T ss_conf             99962789999999999997799999999998589888999998743356566742999999999997157999


No 37 
>1u04_A Argonaute, hypothetical protein PF0537; RNAI, silencing, PIWI, PAZ, RISC, slicer, RNAse H, hydrolase/gene regulation complex; 2.25A {Pyrococcus furiosus dsm 3638} SCOP: b.34.14.1 c.55.3.10 PDB: 1z25_A 1z26_A
Probab=96.14  E-value=0.062  Score=31.93  Aligned_cols=119  Identities=10%  Similarity=0.115  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHC-------CCCCCCEEEEEECCCC--CCCCCEEEEEEEECCCCCHHHHHHHHCCCCCCCCCHHHHHHHHH
Q ss_conf             99999987515-------6643516999707443--77540488888516872803232110244445541168998999
Q gi|255764496|r  364 MILKDFTKKFA-------LPHIPKRIEIYDNSHI--MGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMV  434 (616)
Q Consensus       364 ~~l~~Lk~~L~-------L~~~p~rIE~fDiSh~--~G~~~Vas~Vvf~~g~~~K~~YR~f~Ik~~~v~~~DD~~~m~Ev  434 (616)
                      ..+-++.-+||       .+-.+--|.|+|++|-  .+...+|++|+..+.+..+..+ ...+....-+..|...+|.+.
T Consensus       530 nIaLQiN~KLGG~~w~l~ipl~~~MiVG~DV~H~~~~~~~s~~~~vas~~~~~~~~~s-~~~~q~~~~E~i~~~~~~~~~  608 (771)
T 1u04_A          530 NLLFQVLSKLGVKYYVLDYRFNYDYIIGIDVAPMKRSEGYIGGSAVMFDSQGYIRKIV-PIKIGEQRGESVDMNEFFKEM  608 (771)
T ss_dssp             HHHHHHHHHTTCBCCEESCCCSSSEEEEEEEEEECCTTTCEEEEEEEEETTSCEEEEE-EEECCCCSSSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHCCEEEEECCCCCCCEEEEEEEEECCCCCCCEEEEEEEEECCCCCEEEE-EEEECCCCEEHHHHHHHHHHH
T ss_conf             9998777862885588515888837998777704777871699999997787765999-999337860125079999999


Q ss_pred             HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEE--EC-CHH-HHHHHHHHHHHCCCCCCCCEEEEECCCC
Q ss_conf             99999775313111233333333454579848998--09-858-9999999999758877871899971877
Q gi|255764496|r  435 LERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVIL--DG-GKG-QLSAAQGVLKKLNVENRITIISIAKGPK  502 (616)
Q Consensus       435 i~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilI--DG-Gkg-Qln~a~~vl~~l~i~~~i~viglaK~~~  502 (616)
                      +.+.+...                 ...+|+-|||  || ..+ -|.+.++++++.+.  ++.+|-+.|+.+
T Consensus       609 l~~~~~~n-----------------~~~~P~~IIiYRDGvV~~~El~~ik~a~~~y~p--kit~IvV~KR~~  661 (771)
T 1u04_A          609 VDKFKEFN-----------------IKLDNKKILLLRDGRITNNEEEGLKYISEMFDI--EVVTMDVIKNHP  661 (771)
T ss_dssp             HHHHHHTT-----------------CCCTTCEEEEECSBCCCHHHHHHHHHHHHHHTC--EEEEEEEESCCC
T ss_pred             HHHHHHHH-----------------CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCC--CEEEEEEEECCC
T ss_conf             99999995-----------------899998699987888557999999999997199--689999994478


No 38 
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=96.14  E-value=0.015  Score=36.43  Aligned_cols=40  Identities=13%  Similarity=0.108  Sum_probs=21.0

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8715899999999999986333888888999999998622
Q gi|255764496|r  193 GGNHNLKEKIARNMNQATLKEDYESAIIHRDRLAALSHIQ  232 (616)
Q Consensus       193 G~~~~ii~~L~~~M~~aS~~l~FE~Aa~~RD~I~aL~~i~  232 (616)
                      ..+..+++.|++-.+..--+-+-=++.-|+--+.+|+.+.
T Consensus        15 ~~N~~i~~~l~~la~~~~~~g~~fr~~aY~~Aa~~i~~l~   54 (360)
T 2ihm_A           15 HHNTLLSEALETLAEAAGFEANEGRLLSFSRAASVLKSLP   54 (360)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCS
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCC
T ss_conf             9659999999999999997599487999999999998599


No 39 
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=95.82  E-value=0.01  Score=37.56  Aligned_cols=13  Identities=23%  Similarity=0.227  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHCCC
Q ss_conf             9999999997588
Q gi|255764496|r  476 LSAAQGVLKKLNV  488 (616)
Q Consensus       476 ln~a~~vl~~l~i  488 (616)
                      +..+.+++.+.|+
T Consensus       472 ~e~v~~~~~~~g~  484 (578)
T 2w9m_A          472 LDAVLGACEANGT  484 (578)
T ss_dssp             HHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHCC
T ss_conf             9999999998199


No 40 
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus HB8} SCOP: a.60.2.7
Probab=95.68  E-value=0.0063  Score=39.09  Aligned_cols=49  Identities=20%  Similarity=0.347  Sum_probs=42.2

Q ss_pred             CCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCC
Q ss_conf             7100488879899999999808889899389888862789998999999998547
Q gi|255764496|r  555 SPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHK  609 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~  609 (616)
                      ..|..+||||++..++++.+ .-     =-|++||..|+||+++..++|..++++
T Consensus        27 ~eL~~lpGig~~~A~~Iv~~-R~-----f~s~~dL~~v~gi~~~~~~~i~~~lr~   75 (75)
T 2duy_A           27 EELMALPGIGPVLARRIVEG-RP-----YARVEDLLKVKGIGPATLERLRPYLRP   75 (75)
T ss_dssp             HHHTTSTTCCHHHHHHHHHT-CC-----CSSGGGGGGSTTCCHHHHHHHGGGEEC
T ss_pred             HHHHHCCCCCHHHHHHHHHC-CC-----CCCHHHHHHCCCCCHHHHHHHHHHCCC
T ss_conf             99977789899999999985-89-----898999975789899999999977288


No 41 
>2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1bpx_A* 1bpz_A* 1mq2_A* 1mq3_A* 1bpy_A* 1tva_A* 1zjm_A* 1zjn_A* 1zqa_A* 1zqb_A* 1zqc_A* 1zqd_A* 1zqe_A* 1zqf_A* 1zqg_A* 1zqh_A* 1zqi_A* 1zqj_A* 1zqk_A* 1zql_A* ...
Probab=95.62  E-value=0.023  Score=35.06  Aligned_cols=20  Identities=5%  Similarity=0.026  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             33888888999999998622
Q gi|255764496|r  213 EDYESAIIHRDRLAALSHIQ  232 (616)
Q Consensus       213 l~FE~Aa~~RD~I~aL~~i~  232 (616)
                      .+.=++.-|+.-+.+|+.+.
T Consensus        31 e~~fk~~AY~rAa~~i~~l~   50 (335)
T 2fmp_A           31 QAIHKYNAYRKAASVIAKYP   50 (335)
T ss_dssp             CCHHHHHHHHHHHHHHHHCS
T ss_pred             CCCHHHHHHHHHHHHHHHCC
T ss_conf             98278999999999998599


No 42 
>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.60.2.7
Probab=95.60  E-value=0.015  Score=36.30  Aligned_cols=49  Identities=27%  Similarity=0.407  Sum_probs=40.6

Q ss_pred             CCCCHHCCCCCCHHHHHHHHHH---HCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             4771004888798999999998---08889899389888862789998999999998
Q gi|255764496|r  553 AYSPLDEINGIGPLRKRLLLQS---FGTVKMISRSSPETLASIEGISKKIACKIYNH  606 (616)
Q Consensus       553 ~~S~Ld~I~GIG~k~~~~Ll~~---Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~  606 (616)
                      ....|..+||||+++.++++.+   .|.+     -|++||..|+||+++..++|.+.
T Consensus        38 s~~eL~~lpgIg~~~A~~Iv~~R~~~G~f-----~sledL~~v~Gi~~k~~eki~k~   89 (98)
T 2edu_A           38 SARDLRSLQRIGPKKAQLIVGWRELHGPF-----SQVEDLERVEGITGKQMESFLKA   89 (98)
T ss_dssp             CHHHHHHSTTCCHHHHHHHHHHHHHHCCC-----SSGGGGGGSTTCCHHHHHHHHHH
T ss_pred             CHHHHHHCCCCCHHHHHHHHHHHHHCCCC-----CCHHHHHCCCCCCHHHHHHHHHC
T ss_conf             99999647998999999999999985992-----88999844899899999999983


No 43 
>3mr3_A DNA polymerase ETA; POL ETA, polymerase, thymine dimer, CPD, XPV, xeroderma PIGM variant, DNA damage; HET: DNA TTD DZ4; 1.75A {Homo sapiens} PDB: 3mr2_A* 3mr5_A* 3mr6_A*
Probab=95.44  E-value=0.016  Score=36.10  Aligned_cols=55  Identities=15%  Similarity=0.203  Sum_probs=25.6

Q ss_pred             CHHCCCCCCHHHHHHHHHHHC--CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCCC
Q ss_conf             100488879899999999808--889899389888862789998999999998547867
Q gi|255764496|r  556 PLDEINGIGPLRKRLLLQSFG--TVKMISRSSPETLASIEGISKKIACKIYNHFHKNTS  612 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~~Ll~~Fg--s~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~~  612 (616)
                      ++.+++|||++...++|..+|  ++..+.+++.++|.+..  +.+.+..+++..+..+.
T Consensus       254 pi~~l~GiG~k~~~~~L~~~gi~ti~dl~~~~~~~L~~~~--G~~~g~~l~~~a~G~d~  310 (435)
T 3mr3_A          254 PIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHF--GEKNGSWLYAMCRGIEH  310 (435)
T ss_dssp             BGGGSTTCSSHHHHHHHHHHTCCBGGGGGGSCHHHHHHHH--CHHHHHHHHHHTTTCCC
T ss_pred             CCCEECCCCHHHHHHHHHHHCCCCHHHHHHCCHHHHHHHH--CHHHHHHHHHHHCCCCC
T ss_conf             6776077675789999999589478998739998999997--86889999999669989


No 44 
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A
Probab=95.34  E-value=0.0093  Score=37.86  Aligned_cols=30  Identities=27%  Similarity=0.431  Sum_probs=25.8

Q ss_pred             CHHCCCCCCHHHHHHHHHHHCCHHHHHHCC
Q ss_conf             100488879899999999808889899389
Q gi|255764496|r  556 PLDEINGIGPLRKRLLLQSFGTVKMISRSS  585 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As  585 (616)
                      -+-.|||||+||..+||+.|||+++|.++-
T Consensus       204 NIpGV~GiG~KtA~kLl~~ygsle~i~~~~  233 (290)
T 1exn_A          204 NIRGVEGIGAKRGYNIIREFGNVLDIIDQL  233 (290)
T ss_dssp             TBCCCTTCCHHHHHHHHHHHCSHHHHHHHC
T ss_pred             CCCCCCCCCHHHHHHHHHHHCCHHHHHHHH
T ss_conf             799999858999999998738999999877


No 45 
>3maj_A DNA processing chain A; MCSG, PSI-2, structural genomics, protein structure initiati midwest center for structural genomics; HET: DNA; 2.05A {Rhodopseudomonas palustris}
Probab=95.33  E-value=0.026  Score=34.67  Aligned_cols=33  Identities=21%  Similarity=0.345  Sum_probs=20.6

Q ss_pred             HHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHH
Q ss_conf             9999998088898993898888627899989999999
Q gi|255764496|r  568 KRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIY  604 (616)
Q Consensus       568 ~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~  604 (616)
                      .+.+|..++.-    ..++++|....|++..-.-.+.
T Consensus       330 ~~~il~~l~~~----~~~~d~l~~~~gl~~~~~~~~L  362 (382)
T 3maj_A          330 RTRILALLGPS----PVGIDDLIRLSGISPAVVRTIL  362 (382)
T ss_dssp             HHHHHHHCCSS----CEEHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHHHCCCC----CCCHHHHHHHHCCCHHHHHHHH
T ss_conf             99999866999----9889999999890999999999


No 46 
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-binding, nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Probab=95.32  E-value=0.014  Score=36.50  Aligned_cols=78  Identities=14%  Similarity=0.275  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHHHHHHHHH---------------HHHHH---HCC---CCHHCCCCCCHHHHHHHHHH-HCCHHHHHHCCH
Q ss_conf             999887877887889899---------------86432---147---71004888798999999998-088898993898
Q gi|255764496|r  529 FIQRLRDEAHRFAITTHR---------------KRRKK---AAY---SPLDEINGIGPLRKRLLLQS-FGTVKMISRSSP  586 (616)
Q Consensus       529 ~Lq~iRDEaHRFAi~~hR---------------k~r~k---~~~---S~Ld~I~GIG~k~~~~Ll~~-Fgs~~~i~~As~  586 (616)
                      -+|.+.+.|.+||-...+               ..+.+   ...   .+|-+|||||..+.++|++. |.|++.|. ++.
T Consensus       610 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~rl~~g~~~e~~~L~~i~~v~~~~ar~L~~~g~~s~~~i~-~~~  688 (715)
T 2va8_A          610 DLRNMVETMDWLTYSAYHLSRELKLNEHADKLRILNLRVRDGIKEELLELVQISGVGRKRARLLYNNGIKELGDVV-MNP  688 (715)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCCGGGHHHHTSTTCCHHHHHHHHHTTCCSHHHHH-HCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCCHHHHHHHHHCCCCCHHHHH-CCH
T ss_conf             9999999999999999999998598799999999999998599777797738899999999999987999999996-699


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHCC
Q ss_conf             88862789998999999998547
Q gi|255764496|r  587 ETLASIEGISKKIACKIYNHFHK  609 (616)
Q Consensus       587 eeL~~v~gi~~~~A~~I~~~l~~  609 (616)
                      +++..+  +++++|.+|.+..++
T Consensus       689 ~~~~~~--~~~~~~~~i~~~~~~  709 (715)
T 2va8_A          689 DKVKNL--LGQKLGEKVVQEAAR  709 (715)
T ss_dssp             HHHHHH--HCHHHHHHHHHHHHH
T ss_pred             HHHHHH--HCHHHHHHHHHHHHH
T ss_conf             999988--687899999999999


No 47 
>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ...
Probab=95.30  E-value=0.024  Score=34.94  Aligned_cols=19  Identities=16%  Similarity=0.280  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q ss_conf             33888888999999998622
Q gi|255764496|r  213 EDYESAIIHRDRLAALSHIQ  232 (616)
Q Consensus       213 l~FE~Aa~~RD~I~aL~~i~  232 (616)
                      ..| ++.-|+.-+.+|+.+.
T Consensus        32 d~f-r~~AY~rAa~~l~~l~   50 (335)
T 2bcq_A           32 DKW-RALGYAKAINALKSFH   50 (335)
T ss_dssp             CHH-HHHHHHHHHHHHHSCC
T ss_pred             CCH-HHHHHHHHHHHHHHCC
T ss_conf             947-7999999999998599


No 48 
>2qh9_A UPF0215 protein AF_1433; structural genomics, PSI-2, MCSG, protein structure initiative, midwest center for structural genomics; 1.80A {Archaeoglobus fulgidus}
Probab=95.03  E-value=0.003  Score=41.43  Aligned_cols=92  Identities=15%  Similarity=0.162  Sum_probs=57.7

Q ss_pred             CEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf             16999707443775404888885168728032321102444455411689989999999977531311123333333345
Q gi|255764496|r  380 KRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYS  459 (616)
Q Consensus       380 ~rIE~fDiSh~~G~~~Vas~Vvf~~g~~~K~~YR~f~Ik~~~v~~~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~  459 (616)
                      .|+-++|.|.. +..++++.||+.++-++.-.+..     -.+.|.|.+..+-.++.++  +                  
T Consensus         7 ~Rv~GvD~s~~-~~~~~~~gvv~~~~~~dgv~~~~-----i~vdG~dat~~i~~l~~~~--~------------------   60 (184)
T 2qh9_A            7 WRFLGIDDSFD-DRKCCVVGCVTCGGYVEGFLYTE-----IDIDGLDATDKLISMVRRS--K------------------   60 (184)
T ss_dssp             SEEEEEEEEEC-SSCEEEEEEEEETTEEEEEEEEE-----ECTTCSCHHHHHHHHHTTC--T------------------
T ss_pred             EEEEEEEECCC-CCCCEEEEEEEECCEEEEEEEEE-----EEECCCHHHHHHHHHHHHC--C------------------
T ss_conf             48999983667-89848999999899870289999-----9878841299999999971--4------------------


Q ss_pred             CCCCCCEEEEEC-CHHHHHHHH--HHHHHCCCCCCCCEEEEECCC
Q ss_conf             457984899809-858999999--999975887787189997187
Q gi|255764496|r  460 FPSWPDVVILDG-GKGQLSAAQ--GVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       460 ~~~~PDLilIDG-GkgQln~a~--~vl~~l~i~~~i~viglaK~~  501 (616)
                      +.+-||+|++|| |.++-|.+=  ..-..+    .+|+||++|..
T Consensus        61 ~r~~~~vv~ldG~~~a~fn~~di~~l~~~~----~~PvIgVak~~  101 (184)
T 2qh9_A           61 FREQIKCIFLPGITLGGFNLVDIQRVYRET----KIPVVVVMRRK  101 (184)
T ss_dssp             TTTTEEEEEESSSEETTTEECCHHHHHHHH----CCCEEEEESSC
T ss_pred             CCCCCCEEEECCEEECCCCEECHHHHHHHH----CCCEEEEEECC
T ss_conf             578985999988834158368899999886----99989999767


No 49 
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-binding, excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus}
Probab=94.82  E-value=0.01  Score=37.55  Aligned_cols=49  Identities=18%  Similarity=0.272  Sum_probs=33.7

Q ss_pred             CC-HHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHH
Q ss_conf             71-004888798999999998088898993898888627899989999999
Q gi|255764496|r  555 SP-LDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIY  604 (616)
Q Consensus       555 S~-Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~  604 (616)
                      |- +..|||||+||..+|++.|||+++|.+.. +.+....+.+-+-+..+|
T Consensus       233 dyn~~gv~giG~ktA~kli~~~~sle~i~~~~-~~~~~~~~~~~~~~~~~f  282 (346)
T 2izo_A          233 DYNPDGIRGIGPERALKIIKKYGKIEKAMEYG-EISKKDINFNIDEIRGLF  282 (346)
T ss_dssp             SSSTTCSTTCCHHHHHHHHHHSSCC------------------CTTHHHHH
T ss_pred             CCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHH-HHHCCCCCCCHHHHHHHH
T ss_conf             56866689837999999999939999999989-985677786889999997


No 50 
>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2 PDB: 1v9p_A*
Probab=94.60  E-value=0.015  Score=36.38  Aligned_cols=56  Identities=20%  Similarity=0.264  Sum_probs=49.5

Q ss_pred             CHHCCCCCCHHHHHHHHHH--HCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCC
Q ss_conf             1004888798999999998--0888989938988886278999899999999854786
Q gi|255764496|r  556 PLDEINGIGPLRKRLLLQS--FGTVKMISRSSPETLASIEGISKKIACKIYNHFHKNT  611 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~~Ll~~--Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~  611 (616)
                      .-.+|.|+|+++.++|+..  ..++..|...+.++|.+++|++++.|++|++.+.+..
T Consensus       442 ~~l~I~GlG~~~i~~L~e~g~I~~i~Diy~L~~~~l~~l~gfg~ksa~nll~sIe~sk  499 (667)
T 1dgs_A          442 KAMDIEGLGEKLIERLLEKGLVRDVADLYHLRKEDLLGLERMGEKSAQNLLRQIEESK  499 (667)
T ss_dssp             TSSCCTTCCHHHHHHHHHTTSCSSGGGGGGGCCHHHHTTSSCCSTTHHHHHHHHHHGG
T ss_pred             CCCCCCCCCHHHHHHHHHCCCCCCHHHHHCCCHHHHHCCCCCCCHHHHHHHHHHHHHC
T ss_conf             4427576089999999867872767884137887763577634023789999987641


No 51 
>3gqc_A DNA repair protein REV1; protein-DNA complex, alternative splicing, DNA damage, DNA repair, DNA synthesis; HET: DNA DOC DCP; 2.50A {Homo sapiens}
Probab=94.46  E-value=0.079  Score=31.15  Aligned_cols=56  Identities=16%  Similarity=0.173  Sum_probs=47.3

Q ss_pred             CCHHCCCCCCHHHHHHHHHHHC--CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCCCC
Q ss_conf             7100488879899999999808--8898993898888627899989999999985478678
Q gi|255764496|r  555 SPLDEINGIGPLRKRLLLQSFG--TVKMISRSSPETLASIEGISKKIACKIYNHFHKNTSH  613 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~Ll~~Fg--s~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~~~  613 (616)
                      -++.++||||+++.++ |..+|  ++..+.+.+.++|.+..  |++.++.+++..+..+..
T Consensus       315 lpv~~lpGIG~~~~~k-L~~lGI~Ti~DL~~l~~~~L~~~f--G~k~g~~L~~~a~Gid~~  372 (504)
T 3gqc_A          315 QLVTNLPGVGHSMESK-LASLGIKTCGDLQYMTMAKLQKEF--GPKTGQMLYRFCRGLDDR  372 (504)
T ss_dssp             SBGGGSTTCCHHHHHH-HHHTTCCBHHHHTTSCHHHHHHHH--CHHHHHHHHHHTTTCCCC
T ss_pred             HCCCCCCCCCHHHHHH-HHHHCCCCHHHHHCCCHHHHHHHH--CCHHHHHHHHHCCCCCCC
T ss_conf             1333447878789999-986168509998559999999884--717899999960798742


No 52 
>3osn_A DNA polymerase IOTA; hoogsteen base PAIR, protein-DNA complex, Y-family DNA polym translesion synthesis, nucleoside triphosphate; HET: DNA DOC 6OG TTP; 1.90A {Homo sapiens} PDB: 2dpj_A* 2fll_A* 2fln_A* 2flp_A* 3epg_A* 3epi_A* 2dpi_A* 3g6v_A* 3g6y_A* 3g6x_A* 3gv7_B* 3gv8_B* 3ngd_A* 3gv5_B* 3h4d_A* 3h4b_A* 2alz_A* 3h40_A* 1t3n_A* 1zet_A*
Probab=94.39  E-value=0.097  Score=30.53  Aligned_cols=11  Identities=18%  Similarity=0.090  Sum_probs=4.7

Q ss_pred             HHHHHHHHHHH
Q ss_conf             88889999999
Q gi|255764496|r  217 SAIIHRDRLAA  227 (616)
Q Consensus       217 ~Aa~~RD~I~a  227 (616)
                      -|+.+|++|..
T Consensus       179 la~~ir~~I~~  189 (420)
T 3osn_A          179 IAAEMREAMYN  189 (420)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999998


No 53 
>2owo_A DNA ligase; protein/DNA complex, ligase/DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli K12}
Probab=94.21  E-value=0.056  Score=32.23  Aligned_cols=54  Identities=19%  Similarity=0.229  Sum_probs=44.3

Q ss_pred             HHCCCCCCHHHHHHHHHHH--CCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCC
Q ss_conf             0048887989999999980--88898993898888627899989999999985478
Q gi|255764496|r  557 LDEINGIGPLRKRLLLQSF--GTVKMISRSSPETLASIEGISKKIACKIYNHFHKN  610 (616)
Q Consensus       557 Ld~I~GIG~k~~~~Ll~~F--gs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~  610 (616)
                      =.+|.|+|+++.++|+..=  .++..|...+.++|.+++|.+++.|+++++.+.+.
T Consensus       448 ~mdI~GlG~~~i~~L~~~G~i~~~~Di~~L~~~~l~~l~gfg~Ksa~nL~~sIe~s  503 (671)
T 2owo_A          448 AMDVDGMGDKIIDQLVEKEYVHTPADLFKLTAGKLTGLERMGPKSAQNVVNALEKA  503 (671)
T ss_dssp             TTCCTTCCHHHHHHHHHTTCCSSGGGGGTCCHHHHHTSTTCCHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             13777724899998736578688899965017777665411426789999999875


No 54 
>3mx1_A ECO29KIR; type II restriction endonuclease, GIY-YIG endonuclease, HYDR; 2.30A {Escherichia coli} PDB: 3mx4_A* 3nic_A*
Probab=94.13  E-value=0.0068  Score=38.84  Aligned_cols=73  Identities=27%  Similarity=0.388  Sum_probs=42.6

Q ss_pred             CCCEEEEE----------------CCCCCEEEEEEC------------------HHHHHHHHHHCCCCCCCHHHHHHHHH
Q ss_conf             88625888----------------699888899601------------------25878887613788778799999973
Q gi|255764496|r    9 CPGVYQML----------------DIAGRVLYVGKA------------------YNLQKRIKSYMHSNNHTHRITHMISQ   54 (616)
Q Consensus         9 ~pGvY~~~----------------~~~~~iiYvGKa------------------knL~~Rv~syf~~~~~~~k~~~l~~~   54 (616)
                      -.|||-.+                +....+||||||                  .-|.+|++-|+.+-....-     -.
T Consensus        66 GaGVYALYY~G~~~~Y~~la~~Nr~~~~~PIYVGKAvp~g~Rkg~~~~~~~~~g~~L~~RL~eH~rSI~~~~n-----Ld  140 (235)
T 3mx1_A           66 GAGVYALYYTGHYSLYDEYSRINRLAYNLPIYVGKAVPAGWRQSRISDHETRAGSELSNRIREHGRNIAKTSN-----LD  140 (235)
T ss_dssp             CCEEEEEEECSCCGGGTTHHHHTSSSCCCCSEEEEECCTTTSCSSCSSCSSCCCSHHHHHHHHHHHHHHTCSS-----CC
T ss_pred             CCEEEEEEEECCCHHHHHHHHHHCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCC-----CC
T ss_conf             8658999971785376899986335765562750346654423677766665329999999999987740259-----98


Q ss_pred             CCCEE--EEEC-CCHHH-HHHHHHHHHHHHCCCCEE
Q ss_conf             44429--9982-87199-999999887761872003
Q gi|255764496|r   55 INNIR--FTVT-CTEVE-ALLLEANMIKRLKPRFNI   86 (616)
Q Consensus        55 ~~~ie--~~~t-~~e~e-AlilE~~lIk~~~P~yNi   86 (616)
                      +.|+.  |.|+ +.+.+ .-+-|+-||+.|+|-.|.
T Consensus       141 ~~DF~cR~lV~~~~~s~wIpl~Es~LIr~~~P~WN~  176 (235)
T 3mx1_A          141 LCDFSCRFVIFEATGSDMISTVQAALIKIYKPLWNT  176 (235)
T ss_dssp             GGGEEEEEEECCSGGGGGHHHHHHHHHHHHCCHHHH
T ss_pred             HHHEEEEEEEEECCCCCHHHHHHHHHHHHCCCCHHC
T ss_conf             667489999982575413568999999860730330


No 55 
>1zg2_A Hypothetical UPF0213 protein BH0048; BHR2, structure, autostructure, northeast structural genomics consortium, PSI; NMR {Bacillus halodurans}
Probab=93.93  E-value=0.018  Score=35.75  Aligned_cols=66  Identities=20%  Similarity=0.182  Sum_probs=44.7

Q ss_pred             CCCCCEEEEECCCCCEEEEEECHHHHHHHHHHCCCC-CCCHHHHHHHHHCCCEEEEECCCHHHHHHHHHHH
Q ss_conf             678862588869988889960125878887613788-7787999999734442999828719999999988
Q gi|255764496|r    7 PECPGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHSN-NHTHRITHMISQINNIRFTVTCTEVEALLLEANM   76 (616)
Q Consensus         7 P~~pGvY~~~~~~~~iiYvGKaknL~~Rv~syf~~~-~~~~k~~~l~~~~~~ie~~~t~~e~eAlilE~~l   76 (616)
                      |..-=||+....+|. +|||-+.||.+|+.+|-++. ...-+-.   .-..-+-+....+..+|+-.|..+
T Consensus         5 ~M~~yVYIL~~~~~~-~Y~G~T~dl~rRl~qHn~g~gak~T~~~---~p~~lvy~e~f~~~~~A~~~E~~l   71 (107)
T 1zg2_A            5 PMNHYVYILECKDGS-WYTGYTTDVDRRIKKHASGKGAKYTRGR---GPFRLVATWAFPSKEEAMRWEYEV   71 (107)
T ss_dssp             -CCEEEEEEECTTSC-EEEEEECCHHHHHHHHHHHTTCCSCCCC---SSCEEEEEEEESCHHHHHHHHHHH
T ss_pred             CCCEEEEEEEECCCC-EEEEECCCHHHHHHHHHCCCCCCCCCCC---CCEEEEEEEECCCHHHHHHHHHHH
T ss_conf             961899999938899-9999859999999998381788833678---970578888479999999999998


No 56 
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Probab=93.89  E-value=0.043  Score=33.07  Aligned_cols=31  Identities=32%  Similarity=0.449  Sum_probs=27.3

Q ss_pred             CCHHCCCCCCHHHHHHHHHHHCCHHHHHHCC
Q ss_conf             7100488879899999999808889899389
Q gi|255764496|r  555 SPLDEINGIGPLRKRLLLQSFGTVKMISRSS  585 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As  585 (616)
                      .-...|||||+||.-+|++.|||+++|.+.-
T Consensus       232 Dy~~gv~giG~ktA~kli~~~~sle~i~~~~  262 (379)
T 1ul1_X          232 DYCESIRGIGPKRAVDLIQKHKSIEEIVRRL  262 (379)
T ss_dssp             SSSCCCTTCCHHHHHHHHHHSSSHHHHHTTC
T ss_pred             CCCCCCCCCCHHHHHHHHHHCCCHHHHHHHH
T ss_conf             6677678866899999999819999999999


No 57 
>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*
Probab=93.86  E-value=0.18  Score=28.63  Aligned_cols=12  Identities=17%  Similarity=0.080  Sum_probs=6.0

Q ss_pred             HHHHHHHHHHHH
Q ss_conf             338888889999
Q gi|255764496|r  213 EDYESAIIHRDR  224 (616)
Q Consensus       213 l~FE~Aa~~RD~  224 (616)
                      ..|..|..+..+
T Consensus       142 ~~f~ta~~~~~~  153 (400)
T 3lda_A          142 MGFVTAADFHMR  153 (400)
T ss_dssp             CSCCCHHHHHHH
T ss_pred             CCCCCHHHHHHH
T ss_conf             899559999974


No 58 
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex, hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 1d9z_A* 1d9x_A 2d7d_B* 2nmv_B*
Probab=93.47  E-value=0.056  Score=32.22  Aligned_cols=41  Identities=15%  Similarity=0.216  Sum_probs=27.1

Q ss_pred             CHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHCCCCEE
Q ss_conf             879999997344429998287199999999887761872003
Q gi|255764496|r   45 THRITHMISQINNIRFTVTCTEVEALLLEANMIKRLKPRFNI   86 (616)
Q Consensus        45 ~~k~~~l~~~~~~ie~~~t~~e~eAlilE~~lIk~~~P~yNi   86 (616)
                      ..=+..+..+...==.+||.++.+|--|.+.|.-- -|.=.|
T Consensus        46 a~~~a~l~~~~~~p~lvVt~~~~~A~~l~~dL~~~-~~~~~V   86 (661)
T 2d7d_A           46 TFTVSNLIKEVNKPTLVIAHNKTLAGQLYSEFKEF-FPNNAV   86 (661)
T ss_dssp             HHHHHHHHHHHCCCEEEECSSHHHHHHHHHHHHHH-CTTSEE
T ss_pred             HHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHH-CCCCCE
T ss_conf             99999999973999999908999999999999976-698728


No 59 
>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.60.2.7
Probab=93.46  E-value=0.079  Score=31.17  Aligned_cols=31  Identities=23%  Similarity=0.261  Sum_probs=27.0

Q ss_pred             HHHHHHCCHHHHHHCCCCCHHHHHHHHHHHC
Q ss_conf             8989938988886278999899999999854
Q gi|255764496|r  578 VKMISRSSPETLASIEGISKKIACKIYNHFH  608 (616)
Q Consensus       578 ~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~  608 (616)
                      +..|-.||.+||.++|||++++|+.|.++=.
T Consensus        31 L~~iNtAs~~eL~~lpgIg~~~A~~Iv~~R~   61 (98)
T 2edu_A           31 LDLLNEGSARDLRSLQRIGPKKAQLIVGWRE   61 (98)
T ss_dssp             HHHHHHSCHHHHHHSTTCCHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf             1004378999996479989999999999999


No 60 
>3bq0_A POL IV, DBH, DNA polymerase IV; Y-family, lesion bypass; HET: DNA; 2.60A {Sulfolobus acidocaldarius} SCOP: d.240.1.1 e.8.1.7 PDB: 3bq1_A* 3bq2_A* 1k1q_A 1k1s_A
Probab=93.44  E-value=0.071  Score=31.51  Aligned_cols=10  Identities=10%  Similarity=0.046  Sum_probs=4.5

Q ss_pred             HHHHHHHHHH
Q ss_conf             8889999999
Q gi|255764496|r  218 AIIHRDRLAA  227 (616)
Q Consensus       218 Aa~~RD~I~a  227 (616)
                      |..+|++|..
T Consensus       126 a~~ir~~I~~  135 (354)
T 3bq0_A          126 ARKIKQEILE  135 (354)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
T ss_conf             9999999999


No 61 
>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase/DNA complex; 2.00A {Archaeoglobus fulgidus} SCOP: a.60.7.1 c.120.1.2 PDB: 1rxv_A
Probab=93.33  E-value=0.049  Score=32.68  Aligned_cols=30  Identities=10%  Similarity=0.293  Sum_probs=26.3

Q ss_pred             CCHHCCCCCCHHHHHHHHHHHCCHHHHHHC
Q ss_conf             710048887989999999980888989938
Q gi|255764496|r  555 SPLDEINGIGPLRKRLLLQSFGTVKMISRS  584 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~A  584 (616)
                      .-...|||||++|..+|++.|||+++|.++
T Consensus       235 Dy~~gv~giG~ktA~kli~~~~~i~~i~~~  264 (336)
T 1rxw_A          235 DYNEGVKGVGVKKALNYIKTYGDIFRALKA  264 (336)
T ss_dssp             TTBCCCTTCCHHHHHHHHHHHSSHHHHHHH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHCCHHHHHHH
T ss_conf             768999996889999999992999999998


No 62 
>2ziu_B Crossover junction endonuclease EME1; helix-hairpin-helix, alternative splicing, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; 2.70A {Homo sapiens} PDB: 2ziw_B 2zix_B 2ziv_B
Probab=92.98  E-value=0.3  Score=27.02  Aligned_cols=60  Identities=15%  Similarity=0.327  Sum_probs=47.3

Q ss_pred             CCHHCCCCCCHHHHHHHHHHHCCHHHHHHC-----CHHH----HHHC------------CCCCHHHHHHHHHHHCCCCCC
Q ss_conf             710048887989999999980888989938-----9888----8627------------899989999999985478678
Q gi|255764496|r  555 SPLDEINGIGPLRKRLLLQSFGTVKMISRS-----SPET----LASI------------EGISKKIACKIYNHFHKNTSH  613 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~A-----s~ee----L~~v------------~gi~~~~A~~I~~~l~~~~~~  613 (616)
                      .-|-+|+||++.....+..+|.|...+..|     |.+|    |+.+            --||+.++++||..|-..+++
T Consensus       255 ~~L~qi~~vs~~~A~aI~~~Ypt~~~L~~ay~~~~~~~e~~~lL~~i~~~~~~~~~~~~rriG~~lSkriy~~~ts~dp~  334 (341)
T 2ziu_B          255 RQIQQLNRVSLEMASAVVNAYPSPQLLVQAYQQCFSDKERQNLLADIQVRRGEGVTSTSRRIGPELSRRIYLQMTTLQPH  334 (341)
T ss_dssp             HHHTTSTTCCHHHHHHHHHHSCSHHHHHHHHHTCSCHHHHTTTTTTCBTTTTC----CCCBCCHHHHHHHHHHHHCSCTT
T ss_pred             HHHHHCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHCEECCCCCCCCCCCCCCHHHHHHHHHHHHCCCCC
T ss_conf             99987149999999999997899999999998368756788886432323478877566743799999999998469944


Q ss_pred             C
Q ss_conf             9
Q gi|255764496|r  614 T  614 (616)
Q Consensus       614 ~  614 (616)
                      .
T Consensus       335 ~  335 (341)
T 2ziu_B          335 L  335 (341)
T ss_dssp             C
T ss_pred             H
T ss_conf             2


No 63 
>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A*
Probab=92.62  E-value=0.14  Score=29.40  Aligned_cols=54  Identities=20%  Similarity=0.334  Sum_probs=36.3

Q ss_pred             CHHCCCCCCHHHHHHHHHHH---CCHHHHHH-CCHHHHHHCCCCCHHHHHHHHHHHCCCC
Q ss_conf             10048887989999999980---88898993-8988886278999899999999854786
Q gi|255764496|r  556 PLDEINGIGPLRKRLLLQSF---GTVKMISR-SSPETLASIEGISKKIACKIYNHFHKNT  611 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~~Ll~~F---gs~~~i~~-As~eeL~~v~gi~~~~A~~I~~~l~~~~  611 (616)
                      ++.+|||||+++.++|-.-+   .++..+.+ .+.+.|....|  .+.++.+++..+..+
T Consensus       242 pv~~LpGIG~~~~~kL~~~~~Gi~ti~DL~~~~~~~~L~~~fG--~~~g~~l~~~~rG~D  299 (434)
T 2aq4_A          242 KLDDLPGVGHSTLSRLESTFDSPHSLNDLRKRYTLDALKASVG--SKLGMKIHLALQGQD  299 (434)
T ss_dssp             CGGGSTTCCHHHHHHHHHHTTCCCSHHHHHHHCCHHHHHHHHC--SSHHHHHHHHTTTCC
T ss_pred             CCCCCCCCCHHHHHHHHHHHCCCEEHHHHHHHCCHHHHHHHHC--CHHHHHHHHHHCCCC
T ss_conf             7210668678999999987658807999763282989999967--489999999971887


No 64 
>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication, transferase; 2.00A {Pyrococcus furiosus} SCOP: a.60.7.1 c.120.1.2 PDB: 1mc8_A
Probab=92.55  E-value=0.099  Score=30.45  Aligned_cols=41  Identities=10%  Similarity=0.057  Sum_probs=29.6

Q ss_pred             HHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHH
Q ss_conf             004888798999999998088898993898888627899989999999
Q gi|255764496|r  557 LDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIY  604 (616)
Q Consensus       557 Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~  604 (616)
                      ...||||||||.-+|+++|||++++..       ....++...+..+|
T Consensus       239 ~~gi~giG~ktA~~li~~~~~~~~~~~-------~~~~~~~~~~~~~~  279 (340)
T 1b43_A          239 PGGIKGIGLKKALEIVRHSKDPLAKFQ-------KQSDVDLYAIKEFF  279 (340)
T ss_dssp             TTCSTTCCHHHHHHHHHTCSSGGGGTG-------GGCSSCHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHCCHHHHHH-------HCCCCCHHHHHHHH
T ss_conf             555798279999999999599999987-------50102689999982


No 65 
>1wcn_A Transcription elongation protein NUSA; RNA-binding protein, escherichia coli NUSA, transcription regulation, regulation of RNA binding; NMR {Escherichia coli} PDB: 2jzb_B
Probab=92.20  E-value=0.27  Score=27.30  Aligned_cols=51  Identities=20%  Similarity=0.218  Sum_probs=47.1

Q ss_pred             CHHCCCCCCHHHHHHHHHH-HCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             1004888798999999998-08889899389888862789998999999998
Q gi|255764496|r  556 PLDEINGIGPLRKRLLLQS-FGTVKMISRSSPETLASIEGISKKIACKIYNH  606 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~~Ll~~-Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~  606 (616)
                      .|.+++|+++....+|-.+ +.|++.+...|++||..+.||+...|.+|--.
T Consensus         8 dL~~leG~~~~~~~~L~e~gI~t~edLAdls~dEL~ei~~i~ee~A~~lIM~   59 (70)
T 1wcn_A            8 DLLNLEGVDRDLAFKLAARGVCTLEDLAEQGIDDLADIEGLTDEKAGALIMA   59 (70)
T ss_dssp             HHHSSTTCCHHHHHHHHTTTCCSHHHHHTSCHHHHHTSSSCCHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHHCCCCCHHHHHHHCHHHHHHHCCCCHHHHHHHHHH
T ss_conf             9971789899999999996997499998728999987616899999999999


No 66 
>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanocaldococcus jannaschii} SCOP: a.60.7.1 c.120.1.2 PDB: 1a77_A
Probab=92.14  E-value=0.084  Score=30.97  Aligned_cols=27  Identities=22%  Similarity=0.242  Sum_probs=23.5

Q ss_pred             HHCCCCCCHHHHHHHHHHHCCHHHHHH
Q ss_conf             004888798999999998088898993
Q gi|255764496|r  557 LDEINGIGPLRKRLLLQSFGTVKMISR  583 (616)
Q Consensus       557 Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~  583 (616)
                      ...|||||+++.-+|++.|||++.|.+
T Consensus       227 ~~gi~giG~k~A~~li~~~~s~e~i~~  253 (326)
T 1a76_A          227 PGGVKGIGFKRAYELVRSGVAKDVLKK  253 (326)
T ss_dssp             TTTTTTCCHHHHHHHHHHTCHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHCCCHHHHHH
T ss_conf             889994249999999998499999988


No 67 
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus HB8} SCOP: a.60.2.7
Probab=92.07  E-value=0.052  Score=32.47  Aligned_cols=27  Identities=26%  Similarity=0.380  Sum_probs=23.8

Q ss_pred             HHHHCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             899389888862789998999999998
Q gi|255764496|r  580 MISRSSPETLASIEGISKKIACKIYNH  606 (616)
Q Consensus       580 ~i~~As~eeL~~v~gi~~~~A~~I~~~  606 (616)
                      +|-.||.+||.++||||+.+|+.|.++
T Consensus        20 diN~As~~eL~~lpGig~~~A~~Iv~~   46 (75)
T 2duy_A           20 SLNEASLEELMALPGIGPVLARRIVEG   46 (75)
T ss_dssp             ETTTCCHHHHTTSTTCCHHHHHHHHHT
T ss_pred             ECCCCCHHHHHHCCCCCHHHHHHHHHC
T ss_conf             071287999977789899999999985


No 68 
>3mfi_A DNA polymerase ETA; DNA damage, DNA repair, DNA replication, DNA synthesis, NUCL binding, magnesium; HET: DNA DOC TTD DTP; 1.76A {Saccharomyces cerevisiae} PDB: 3mfh_A* 2r8j_A* 2r8k_A* 2wtf_A* 1jih_A*
Probab=91.97  E-value=0.066  Score=31.74  Aligned_cols=18  Identities=11%  Similarity=0.237  Sum_probs=7.7

Q ss_pred             CHHCCCCCCHHHHHHHHH
Q ss_conf             100488879899999999
Q gi|255764496|r  556 PLDEINGIGPLRKRLLLQ  573 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~~Ll~  573 (616)
                      ++.+|+|||+++.++|..
T Consensus       308 pI~~i~GIG~~~~~kL~~  325 (520)
T 3mfi_A          308 EITSFWTLGGVLGKELID  325 (520)
T ss_dssp             CGGGSTTCSSHHHHHHHH
T ss_pred             CCCEECCCCHHHHHHHHH
T ss_conf             801006747899999999


No 69 
>3im1_A Protein SNU246, PRE-mRNA-splicing helicase BRR2; ATPase, RNA helicase, rnpase, RNA unwindase, molecular modeling; 1.65A {Saccharomyces cerevisiae} PDB: 3im2_A* 3hib_A
Probab=91.09  E-value=0.66  Score=24.52  Aligned_cols=10  Identities=20%  Similarity=0.242  Sum_probs=5.1

Q ss_pred             EEEEECCHHH
Q ss_conf             8998098589
Q gi|255764496|r  466 VVILDGGKGQ  475 (616)
Q Consensus       466 LilIDGGkgQ  475 (616)
                      ++|.|.--++
T Consensus       266 ~~v~d~~~~~  275 (328)
T 3im1_A          266 LVLGEVSKKE  275 (328)
T ss_dssp             EEEEEGGGTE
T ss_pred             EEEEECCCCE
T ss_conf             9999889998


No 70 
>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family DNA polymerase, translesion DNA synthesis, lesion bypass; 2.40A {Homo sapiens} SCOP: d.240.1.1 e.8.1.7 PDB: 2oh2_A* 2w7o_A* 2w7p_A* 3hed_A* 3in5_A*
Probab=90.82  E-value=0.67  Score=24.46  Aligned_cols=108  Identities=17%  Similarity=0.199  Sum_probs=63.0

Q ss_pred             HHHHHHHHHCCCCCCCCEEEEECCCC-CCCCCEEEECCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             99999999758877871899971877-67663489817983488579989999999887877887889899864321477
Q gi|255764496|r  477 SAAQGVLKKLNVENRITIISIAKGPK-RSAGMEKFFVKKGEALVLNMRDPILYFIQRLRDEAHRFAITTHRKRRKKAAYS  555 (616)
Q Consensus       477 n~a~~vl~~l~i~~~i~viglaK~~~-r~~~~e~~~~~~~~~i~l~~~~~~l~~Lq~iRDEaHRFAi~~hRk~r~k~~~S  555 (616)
                      ..-..+.+++|+.   .-+|||.+.- -|-+.+ +-.++|..+.++....+..||                      ..-
T Consensus       229 ~ir~~I~~~~gl~---~SiGIa~nk~lAKlAs~-~~KP~G~~~~~~~~~~~~~~L----------------------~~l  282 (459)
T 1t94_A          229 EIRFRIEQKTTLT---ASAGIAPNTMLAKVCSD-KNKPNGQYQILPNRQAVMDFI----------------------KDL  282 (459)
T ss_dssp             HHHHHHHHHHSCC---EEEEEESSHHHHHHHHH-HTTTTCEEECCSSHHHHHHHH----------------------TTC
T ss_pred             HHHHHHHHHHCCC---EEEEECCCHHHHHHHHH-HCCCCCCEEEECCHHHHHHHH----------------------HHC
T ss_conf             9999999986996---25442476888898897-369987089914689999998----------------------629


Q ss_pred             CHHCCCCCCHHHHHHHHHHHC--CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCCCCC
Q ss_conf             100488879899999999808--88989938988886278999899999999854786789
Q gi|255764496|r  556 PLDEINGIGPLRKRLLLQSFG--TVKMISRSSPETLASIEGISKKIACKIYNHFHKNTSHT  614 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~~Ll~~Fg--s~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~~~~  614 (616)
                      ++.+|+|||+++.++| ..+|  ++..+.+.. +.|..+.  ++..++.+++..+..+.++
T Consensus       283 pv~~l~GIG~~~~~~L-~~~gI~ti~dL~~~~-~~l~~~~--g~~~~~~~~~~~~Gid~~~  339 (459)
T 1t94_A          283 PIRKVSGIGKVTEKML-KALGIITCTELYQQR-ALLSLLF--SETSWHYFLHISLGLGSTH  339 (459)
T ss_dssp             BGGGCTTSCHHHHHHH-HHTTCCBHHHHHHTH-HHHHHHS--CHHHHHHHHHHHTTCCCSC
T ss_pred             CCCEECCCCCHHHHHH-HHHCCCCHHHHHHHH-HHHHHHH--CCHHHHHHHHHHCCCCCCC
T ss_conf             8353368884137889-870784999999858-8899984--5136664687762867633


No 71 
>2q0z_X Protein Pro2281; SEC63, SEC, NESG, HR1979, structural genomics, translocase, northeast structural genomics consortium, PSI-2; 2.00A {Homo sapiens} SCOP: a.289.1.1 b.1.18.22
Probab=90.55  E-value=0.72  Score=24.24  Aligned_cols=10  Identities=40%  Similarity=0.375  Sum_probs=4.9

Q ss_pred             EEEEECCHHH
Q ss_conf             8998098589
Q gi|255764496|r  466 VVILDGGKGQ  475 (616)
Q Consensus       466 LilIDGGkgQ  475 (616)
                      ++|.|.--++
T Consensus       269 v~v~d~~~~~  278 (339)
T 2q0z_X          269 VVIGDAKSNS  278 (339)
T ss_dssp             EEEEETTTTE
T ss_pred             EEEEECCCCE
T ss_conf             9999889998


No 72 
>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis, oxygen-evolving, tetra- manganese, membrane; HET: CL1 PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus elongatus}
Probab=90.41  E-value=0.082  Score=31.06  Aligned_cols=21  Identities=19%  Similarity=0.339  Sum_probs=13.1

Q ss_pred             CHHCCCCCCHHHHHHHHHHHC
Q ss_conf             100488879899999999808
Q gi|255764496|r  556 PLDEINGIGPLRKRLLLQSFG  576 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~~Ll~~Fg  576 (616)
                      .|.+|+|||+++.++|-.+..
T Consensus        90 dl~~v~Gig~~~~e~l~~~l~  110 (134)
T 1s5l_U           90 DVLNIPGLTERQKQILRENLE  110 (134)
T ss_dssp             GGGGCTTCCHHHHHHHHHHHT
T ss_pred             HHHCCCCCCHHHHHHHHHHHC
T ss_conf             996177579999999998653


No 73 
>1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1kdh_A* 1kej_A*
Probab=90.33  E-value=0.42  Score=25.91  Aligned_cols=22  Identities=0%  Similarity=-0.049  Sum_probs=8.6

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             7998999999988787788788
Q gi|255764496|r  521 NMRDPILYFIQRLRDEAHRFAI  542 (616)
Q Consensus       521 ~~~~~~l~~Lq~iRDEaHRFAi  542 (616)
                      +.++-.+.+|----...|--++
T Consensus       310 ~~~~~~~aLlyfTGS~~fN~~l  331 (381)
T 1jms_A          310 PYDRRAFALLGWTGSRQFERDL  331 (381)
T ss_dssp             CGGGHHHHHHHHHCCHHHHHHH
T ss_pred             CHHHHHHHHHHCCCCHHHHHHH
T ss_conf             8998789886320879999999


No 74 
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=90.31  E-value=0.061  Score=31.98  Aligned_cols=24  Identities=0%  Similarity=-0.136  Sum_probs=11.3

Q ss_pred             ECCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             579989999999887877887889
Q gi|255764496|r  520 LNMRDPILYFIQRLRDEAHRFAIT  543 (616)
Q Consensus       520 l~~~~~~l~~Lq~iRDEaHRFAi~  543 (616)
                      .+.++-.+.+|----...|--++.
T Consensus       288 v~~~~~~~aLlyfTGS~~fN~~lR  311 (360)
T 2ihm_A          288 TPSSQFPFALLGWTGSQFFERELR  311 (360)
T ss_dssp             CCTTSHHHHHHHHHSCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHCCHHHHHHHH
T ss_conf             588998999998027699999999


No 75 
>2i5h_A Hypothetical protein AF1531; PFAM:DUF655, PSI-2, structural genomics, protein structure initiative; 1.74A {Archaeoglobus fulgidus} SCOP: e.71.1.1
Probab=90.12  E-value=0.52  Score=25.28  Aligned_cols=79  Identities=13%  Similarity=0.315  Sum_probs=52.4

Q ss_pred             HHHHHHHHH-HHHHHHHHHHHHHHHHHHHCCCCHHCCCCCCHHHHHHHHHH-----HCCHHHHHHCCHHHHHHCCC-CCH
Q ss_conf             999999988-78778878898998643214771004888798999999998-----08889899389888862789-998
Q gi|255764496|r  525 PILYFIQRL-RDEAHRFAITTHRKRRKKAAYSPLDEINGIGPLRKRLLLQS-----FGTVKMISRSSPETLASIEG-ISK  597 (616)
Q Consensus       525 ~~l~~Lq~i-RDEaHRFAi~~hRk~r~k~~~S~Ld~I~GIG~k~~~~Ll~~-----Fgs~~~i~~As~eeL~~v~g-i~~  597 (616)
                      .+-..++.| .+...||.--|++.---......|+-+||||+|+...++..     |.|++.|.+       .|.| +.+
T Consensus       101 eL~~vv~~iV~~nE~~FV~FfN~A~pItlrlH~leLLPGIGKK~~~~IleeR~k~~FeSFedi~~-------Rv~gi~dp  173 (205)
T 2i5h_A          101 ELPYVIEHIIKQDEKKYVDFFNKADSITTRMHQLELLPGVGKKMMWAIIEERKKRPFESFEDIAQ-------RVKGIQRP  173 (205)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHC--CCBCSSSBGGGGSTTCCHHHHHHHHHHHHHSCCCSHHHHHH-------HSTTCCCH
T ss_pred             HHHHHHHHHHHHCCHHCCEEECCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCHHHHHH-------HHCCCCCH
T ss_conf             89999999999590201013246888618788887523505899999999965589889999998-------84467899


Q ss_pred             --HHHHHHHHHHCCC
Q ss_conf             --9999999985478
Q gi|255764496|r  598 --KIACKIYNHFHKN  610 (616)
Q Consensus       598 --~~A~~I~~~l~~~  610 (616)
                        -+|++|.+.+...
T Consensus       174 ~~lia~Ri~~El~~~  188 (205)
T 2i5h_A          174 EKLIVSRIIYEIKNP  188 (205)
T ss_dssp             HHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHCCC
T ss_conf             999999999996499


No 76 
>3bz1_U Photosystem II 12 kDa extrinsic protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 2axt_U* 3bz2_U* 3kzi_U* 3a0b_U* 3a0h_U*
Probab=90.11  E-value=0.079  Score=31.14  Aligned_cols=26  Identities=12%  Similarity=0.175  Sum_probs=16.1

Q ss_pred             HHHHCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf             89938988886278999899999999
Q gi|255764496|r  580 MISRSSPETLASIEGISKKIACKIYN  605 (616)
Q Consensus       580 ~i~~As~eeL~~v~gi~~~~A~~I~~  605 (616)
                      +|-.||.+||.++|||++.+|++|.+
T Consensus        26 dlN~As~~eL~~lpGig~~~A~~Iv~   51 (104)
T 3bz1_U           26 DLNNTNIAAFIQYRGLYPTLAKLIVK   51 (104)
T ss_dssp             ETTSSCGGGGGGSTTTTHHHHHHHHH
T ss_pred             ECCCCCHHHHHHCCCCCHHHHHHHHH
T ss_conf             78408999996589979999999997


No 77 
>1yvu_A Hypothetical protein AQ_1447; RNAse H fold, RNA binding protein, gene regulation; 2.90A {Aquifex aeolicus VF5} SCOP: b.34.14.1 c.55.3.10 PDB: 2f8s_A 2f8t_A 2nub_A
Probab=89.92  E-value=0.96  Score=23.33  Aligned_cols=101  Identities=13%  Similarity=0.056  Sum_probs=55.2

Q ss_pred             CCCEEEEEECCCCCCC----CCEEEEEEEECCCCCHHHHHHHHCCCCCCCCCHH-HHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             3516999707443775----4048888851687280323211024444554116-8998999999997753131112333
Q gi|255764496|r  378 IPKRIEIYDNSHIMGC----SAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDD-CAMMRMVLERRFSQLIKNEENLNFH  452 (616)
Q Consensus       378 ~p~rIE~fDiSh~~G~----~~Vas~Vvf~~g~~~K~~YR~f~Ik~~~v~~~DD-~~~m~Evi~RR~~r~~~~~~~l~~~  452 (616)
                      .+.-|.|+|+||-...    ..+|+.++|.+.+ .-..|.....   .-.+.++ ..+|.+++.- |.+   .       
T Consensus       494 ~~~miIGiDv~h~~~~~~~~~~~g~~~~~~~~g-~~~~~~~~~~---~~~~ee~~~~l~~~~l~~-y~~---~-------  558 (706)
T 1yvu_A          494 KVDAFVGIDISRITRDGKTVNAVAFTKIFNSKG-ELVRYYLTSY---PAFGEKLTEKAIGDVFSL-LEK---L-------  558 (706)
T ss_dssp             CCSEEEEECEEECCCSSSCCCEEEEEEEECTTS-CEEEEEEEEE---CSCTTHHHHHHHHHHHHH-HHH---T-------
T ss_pred             CCEEEEEEEEEECCCCCCCCCEEEEEEEECCCC-CEEEEEEEEC---CCCHHHHHHHHHHHHHHH-HHH---H-------
T ss_conf             952899999886378888663899999997999-7899999744---763688999999999999-999---6-------


Q ss_pred             CCCCCCCCCCCCCEEEE--ECC--HHHHHHHHHHHHHCCCCCCCCEEEEECCCC
Q ss_conf             33333454579848998--098--589999999999758877871899971877
Q gi|255764496|r  453 PKKQEYSFPSWPDVVIL--DGG--KGQLSAAQGVLKKLNVENRITIISIAKGPK  502 (616)
Q Consensus       453 ~~~~~~~~~~~PDLilI--DGG--kgQln~a~~vl~~l~i~~~i~viglaK~~~  502 (616)
                             .+.+|+-|+|  ||-  ..-+.+.++++++++.  ++.+|-+.|+..
T Consensus       559 -------n~~~P~rIiiyRDG~v~~~Ev~~ik~a~~~~~~--ki~~IvV~Kr~~  603 (706)
T 1yvu_A          559 -------GFKKGSKIVVHRDGRLYRDEVAAFKKYGELYGY--SLELLEIIKRNN  603 (706)
T ss_dssp             -------TCCTTCEEEEEESSCCCHHHHHHHHHHHHHHTC--EEEEEEEECSSC
T ss_pred             -------CCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCC--CEEEEEEECCCC
T ss_conf             -------599987799995887758999999999975499--689999980687


No 78 
>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ...
Probab=89.28  E-value=0.33  Score=26.70  Aligned_cols=13  Identities=15%  Similarity=0.151  Sum_probs=6.5

Q ss_pred             HHHHHHHHHHCCC
Q ss_conf             9999999997588
Q gi|255764496|r  476 LSAAQGVLKKLNV  488 (616)
Q Consensus       476 ln~a~~vl~~l~i  488 (616)
                      +......|.+.|.
T Consensus       204 l~~~~~~l~~~g~  216 (335)
T 2bcq_A          204 FSRLLDSLRQEGF  216 (335)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHCCC
T ss_conf             8877899986185


No 79 
>1pu6_A 3-methyladenine DNA glycosylase; helix-hairpin-helix, base excision repair, hydrolase; HET: KCX; 1.64A {Helicobacter pylori} SCOP: a.96.1.5 PDB: 1pu7_A* 1pu8_A*
Probab=88.32  E-value=1  Score=23.11  Aligned_cols=15  Identities=27%  Similarity=0.481  Sum_probs=5.5

Q ss_pred             CHHHHHHHHHHHHHH
Q ss_conf             878999999999973
Q gi|255764496|r  127 SVDAVEKTINSLQRT  141 (616)
Q Consensus       127 ~~~~~~~~l~~l~~~  141 (616)
                      +..++..+++-|...
T Consensus        44 ~~~~v~~a~~~L~~~   58 (218)
T 1pu6_A           44 KFEAVLKSLENLKNA   58 (218)
T ss_dssp             CHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHH
T ss_conf             899999999999998


No 80 
>1ywl_A Hypothetical UPF0213 protein EF2693; alpha and beta, structural genomics, northeast structural genomics consortium (NESG); NMR {Enterococcus faecalis}
Probab=88.15  E-value=0.13  Score=29.58  Aligned_cols=65  Identities=20%  Similarity=0.180  Sum_probs=41.7

Q ss_pred             CCEEEEECCCCCEEEEEECHHHHHHHHHHCCCC-CCCHHHHHHHHHCCCEEEEECCCHHHHHHHHHHH
Q ss_conf             862588869988889960125878887613788-7787999999734442999828719999999988
Q gi|255764496|r   10 PGVYQMLDIAGRVLYVGKAYNLQKRIKSYMHSN-NHTHRITHMISQINNIRFTVTCTEVEALLLEANM   76 (616)
Q Consensus        10 pGvY~~~~~~~~iiYvGKaknL~~Rv~syf~~~-~~~~k~~~l~~~~~~ie~~~t~~e~eAlilE~~l   76 (616)
                      -=||+....+|. +|||=+.||..|+.+|-++. ...-|+..- .-..=|=+....+-.+|+-+|..+
T Consensus         7 ~yVYIL~~~~~~-lY~G~T~dl~rRl~qHn~g~gak~Tr~~~~-~P~~Lvy~e~~~~~~~A~~~E~~i   72 (96)
T 1ywl_A            7 HYFYVLLCQDGS-FYGGYTTEPERRLTEHNSGTGAKYTRLAKR-RPVIMIHTEKFETRSEATKAEAAF   72 (96)
T ss_dssp             EEEEEEECTTCC-CEEEEESCHHHHHHHHHHHHSCSSCSSCCS-SCCEEEEEEEESSHHHHHHHHHHH
T ss_pred             EEEEEEEECCCC-EEEEECCCHHHHHHHHHCCCCCCCCCCCCC-CCEEEEEEEECCCHHHHHHHHHHH
T ss_conf             799999938899-999981999999999966488880335799-747999999698999999999999


No 81 
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition, helix-coil dynamics, inhibitor design, complex (polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP: a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A* 1taq_A*
Probab=87.86  E-value=0.012  Score=37.15  Aligned_cols=97  Identities=16%  Similarity=0.196  Sum_probs=49.6

Q ss_pred             EEEECCCCCE-EEECCCCHHHHHHHHH-HHHHHHHHH----HHHHHHHHHHCCCCHHCCCCCCHHHHHHHHHHHCCHHHH
Q ss_conf             4898179834-8857998999999988-787788788----989986432147710048887989999999980888989
Q gi|255764496|r  508 EKFFVKKGEA-LVLNMRDPILYFIQRL-RDEAHRFAI----TTHRKRRKKAAYSPLDEINGIGPLRKRLLLQSFGTVKMI  581 (616)
Q Consensus       508 e~~~~~~~~~-i~l~~~~~~l~~Lq~i-RDEaHRFAi----~~hRk~r~k~~~S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i  581 (616)
                      ..|.+.+|.. +..|-++--+++|.++ .|+.=.=|.    -.|...-.....-+.+++..  ..|+..=--.||-   +
T Consensus       596 ~~f~~~~G~~lv~aDySQIELRilAhlS~D~~li~af~~g~Dih~~tA~~~f~~~~~~v~~--~~R~~AK~~nfgl---~  670 (832)
T 1bgx_T          596 RAFIAEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGRDIHTETASWMFGVPREAVDP--LMRRAAKTINFGV---L  670 (832)
T ss_dssp             GGBCCCSSCCEEEEEESSHHHHHHHHTTTCTTHHHHHHHTCCHHHHHHHHHHTCCTTSCCT--THHHHHHHHHHHT---T
T ss_pred             CEEECCCCCEEEECCHHCCHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHCCCCCCCCCH--HHHHHHHHHHHHH---H
T ss_conf             3476699988982421006799999994698787654058707877799870997200687--8998989967447---6


Q ss_pred             HHCCHHHHHHCCCCCHHHHHHHHHHHCC
Q ss_conf             9389888862789998999999998547
Q gi|255764496|r  582 SRSSPETLASIEGISKKIACKIYNHFHK  609 (616)
Q Consensus       582 ~~As~eeL~~v~gi~~~~A~~I~~~l~~  609 (616)
                      ..++..-|++..|++..-|+.+.+.|+.
T Consensus       671 YG~g~~~La~~l~is~~EA~~~i~~f~~  698 (832)
T 1bgx_T          671 YGMSAHRLSQELAIPYEEAQAFIERYFQ  698 (832)
T ss_dssp             SCCCHHHHHHHSSCCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf             3767778988619999999999999999


No 82 
>2csb_A Topoisomerase V, TOP61; topoisomerase IB, helix-turn-helix, helix- hairpin-helix, HHH motif, three helix bundle; 2.30A {Methanopyrus kandleri} SCOP: a.60.2.4 a.60.2.4 a.60.2.4 a.60.2.4 a.267.1.1 PDB: 2csd_A
Probab=87.07  E-value=1.4  Score=22.05  Aligned_cols=41  Identities=27%  Similarity=0.409  Sum_probs=26.8

Q ss_pred             CHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCH
Q ss_conf             100488879899999999808889899389888862789998
Q gi|255764496|r  556 PLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISK  597 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~  597 (616)
                      .|-.|-||...+...||++||++.++..|.++||..- |+..
T Consensus       469 slisirgidreraerllkkyggyskvreagveelred-gltd  509 (519)
T 2csb_A          469 SLISIRGIDRERAERLLKKYGGYSKVREAGVEELRED-GLTD  509 (519)
T ss_dssp             HHHTSTTCCHHHHHHHHHHHTSHHHHHTSCHHHHHHT-TCCH
T ss_pred             HHEEECCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHC-CCCH
T ss_conf             5100016568999999998378058888508999875-7748


No 83 
>2w42_A PIWI, putative uncharacterized protein; RNAI, RISC, argonaute, PIWI domain, protein/DNA complex; 1.90A {Archaeoglobus fulgidus} PDB: 1ytu_A 2bgg_A 1w9h_A
Probab=86.75  E-value=1.5  Score=21.93  Aligned_cols=106  Identities=10%  Similarity=0.095  Sum_probs=51.5

Q ss_pred             CCEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             51699970744377540488888516872803232110244445541168998999999997753131112333333334
Q gi|255764496|r  379 PKRIEIYDNSHIMGCSAVGCMVVVGENGFVKNQYRKFNLHPNDVKTQDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEY  458 (616)
Q Consensus       379 p~rIE~fDiSh~~G~~~Vas~Vvf~~g~~~K~~YR~f~Ik~~~v~~~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~  458 (616)
                      +.-|-++|++|-.+...+|...+|...+ .   +-.+++... ..+...-..|.+++.+......++.            
T Consensus       179 ~~miIG~dv~h~~~~~~~~~a~~~~~~g-~---~~~~~~~~~-~~~~e~~~~l~~~l~~~l~~~~~~~------------  241 (427)
T 2w42_A          179 SDIIIGTGATRIDNVNLFCFAMVFKKDG-T---MLWNEISPI-VTSSEYLTYLKSTIKKVVYGFKKSN------------  241 (427)
T ss_dssp             CSEEEEEEEEESSSSEEEEEEEEECTTS-C---EEEEEECCC-EEGGGHHHHHHHHHHHHHHHHHHHC------------
T ss_pred             CEEEEEEEEECCCCCEEEEEEEEECCCC-C---EEEEEEEEE-CCCCCHHHHHHHHHHHHHHHHHHHH------------
T ss_conf             7599999998179971789999991889-8---899999992-6973679999999999999999983------------


Q ss_pred             CCCCCCCEEE-EECCH-H-----HHHHHHHHHHHCCC------CCCCCEEEEECCCC
Q ss_conf             5457984899-80985-8-----99999999997588------77871899971877
Q gi|255764496|r  459 SFPSWPDVVI-LDGGK-G-----QLSAAQGVLKKLNV------ENRITIISIAKGPK  502 (616)
Q Consensus       459 ~~~~~PDLil-IDGGk-g-----Qln~a~~vl~~l~i------~~~i~viglaK~~~  502 (616)
                       .+.+|+-|+ -++|+ +     .+.+..+++++++.      .-++.++.+.|...
T Consensus       242 -~~~~p~rIvi~rdg~~~~~~~~e~~~i~~a~~~~~~~~~~~~~~k~~~I~v~k~~~  297 (427)
T 2w42_A          242 -PDWDVEKLTLHVSGKRPKMKDGETKILKETVEELKKQEMVSRDVKYAILHLNETHP  297 (427)
T ss_dssp             -TTCCCSEEEEEEESSCCSCHHHHHHHHHHHHHHHHHTTSSCTTCEEEEEEEEECCC
T ss_pred             -CCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEECCC
T ss_conf             -89998436999687562058899999999999997863678887479999993467


No 84 
>1im4_A DBH; DNA polymerase PALM, thumb, fingers, helix-hairpin-helix, fidelity, processivity, transferase; 2.30A {Sulfolobus solfataricus} SCOP: e.8.1.7
Probab=85.87  E-value=0.29  Score=27.09  Aligned_cols=36  Identities=31%  Similarity=0.467  Sum_probs=29.5

Q ss_pred             CCHHCCCCCCHHHHHHHHHHHC--CHHHHHHCCHHHHHH
Q ss_conf             7100488879899999999808--889899389888862
Q gi|255764496|r  555 SPLDEINGIGPLRKRLLLQSFG--TVKMISRSSPETLAS  591 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~Ll~~Fg--s~~~i~~As~eeL~~  591 (616)
                      -++.+++|||+++.++| +.+|  ++.++.++|.++|.+
T Consensus       184 lpl~~l~GiG~~~~~~L-~~~Gi~ti~dl~~~~~~~L~r  221 (221)
T 1im4_A          184 LDIDEIPGIGSVLARRL-NELGIQKLRDILSKNYNELEK  221 (221)
T ss_dssp             CBGGGSTTCCHHHHHHH-HHTTCCBTTC-----------
T ss_pred             CCHHHHCCCCHHHHHHH-HHCCCCCHHHHHCCCHHHHCC
T ss_conf             98754189479999999-992992099985799998119


No 85 
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} SCOP: a.96.1.1
Probab=84.83  E-value=0.8  Score=23.91  Aligned_cols=14  Identities=7%  Similarity=-0.080  Sum_probs=6.7

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99999999973011
Q gi|255764496|r  131 VEKTINSLQRTFFL  144 (616)
Q Consensus       131 ~~~~l~~l~~~f~l  144 (616)
                      ..+++..|++.||-
T Consensus         6 ~~ei~~~L~~~~~~   19 (211)
T 2abk_A            6 RLEILTRLRENNPH   19 (211)
T ss_dssp             HHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHHCCC
T ss_conf             99999999997899


No 86 
>1u9l_A Transcription elongation protein NUSA; escherichia coli NUSA, phage lambda protein N, regulation of RNA binding, transcription antitermination, X-RAY crystallography; 1.90A {Escherichia coli} SCOP: a.60.4.2 PDB: 1wcl_A
Probab=82.25  E-value=1.6  Score=21.83  Aligned_cols=45  Identities=18%  Similarity=0.271  Sum_probs=37.1

Q ss_pred             CCCHHHHHHHHH-HHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             879899999999-808889899389888862789998999999998
Q gi|255764496|r  562 GIGPLRKRLLLQ-SFGTVKMISRSSPETLASIEGISKKIACKIYNH  606 (616)
Q Consensus       562 GIG~k~~~~Ll~-~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~  606 (616)
                      +|...-.+.|.. -|.|++.|..++.+||..+.|+...+|+.+.+.
T Consensus        13 dvDe~iA~lLv~EGF~siEeIAy~~~~eL~~IegfDee~a~eL~~R   58 (70)
T 1u9l_A           13 DIDEDFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRER   58 (70)
T ss_dssp             TCCHHHHHHHHHTTCCCHHHHHHSCHHHHTTSTTCCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHCCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH
T ss_conf             8639999999986559799987599999976315589999999999


No 87 
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA glycosylase, transition state analog, DNA repair; HET: NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A* 1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A*
Probab=80.74  E-value=2  Score=20.97  Aligned_cols=27  Identities=22%  Similarity=0.279  Sum_probs=13.7

Q ss_pred             CCCCCEEEEECCHHHHHHHHHHHHHCCC
Q ss_conf             5798489980985899999999997588
Q gi|255764496|r  461 PSWPDVVILDGGKGQLSAAQGVLKKLNV  488 (616)
Q Consensus       461 ~~~PDLilIDGGkgQln~a~~vl~~l~i  488 (616)
                      ..+|- +-++++...-.....+.+++|+
T Consensus       269 weFP~-~~~e~~~~~~~l~r~l~ee~~i  295 (369)
T 3fsp_A          269 WEFPS-CETDGADGKEKLEQMVGEQYGL  295 (369)
T ss_dssp             EECCE-EECSSSCTHHHHHHHHTTSSSC
T ss_pred             CCCCC-CCCCCCCCHHHHHHHHHHHCCC
T ss_conf             62885-6657643077899888987088


No 88 
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} SCOP: a.96.1.2
Probab=80.54  E-value=1.3  Score=22.38  Aligned_cols=12  Identities=33%  Similarity=0.686  Sum_probs=4.2

Q ss_pred             HHHHHHCCCCCC
Q ss_conf             998751566435
Q gi|255764496|r  368 DFTKKFALPHIP  379 (616)
Q Consensus       368 ~Lk~~L~L~~~p  379 (616)
                      ++......++.|
T Consensus       191 ~~G~~vC~~~~P  202 (221)
T 1kea_A          191 DFSAIICAPRKP  202 (221)
T ss_dssp             HHHHHTSCSSSC
T ss_pred             HHHHHHCCCCCC
T ss_conf             996887038899


No 89 
>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} SCOP: a.96.1.1 PDB: 1orp_A* 1p59_A*
Probab=80.16  E-value=1.7  Score=21.55  Aligned_cols=16  Identities=6%  Similarity=0.272  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             7899999999997301
Q gi|255764496|r  128 VDAVEKTINSLQRTFF  143 (616)
Q Consensus       128 ~~~~~~~l~~l~~~f~  143 (616)
                      ...++.+++.|.+.||
T Consensus         7 ~~~~~~i~~~L~~~y~   22 (226)
T 1orn_A            7 KQQIRYCLDEMAKMFP   22 (226)
T ss_dssp             HHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHCC
T ss_conf             9999999999998779


No 90 
>2kp7_A Crossover junction endonuclease MUS81; helix-hairpin-helix, tumour suppressor, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; NMR {Mus musculus}
Probab=79.77  E-value=1  Score=23.14  Aligned_cols=32  Identities=16%  Similarity=0.187  Sum_probs=20.6

Q ss_pred             CEEEECCCCHHHHHHHHHHHHHHHH----HHHHHHH
Q ss_conf             3488579989999999887877887----8898998
Q gi|255764496|r  516 EALVLNMRDPILYFIQRLRDEAHRF----AITTHRK  547 (616)
Q Consensus       516 ~~i~l~~~~~~l~~Lq~iRDEaHRF----Ai~~hRk  547 (616)
                      +|+.-..|...+..|+.+.|++.+=    +.+|.+-
T Consensus         8 r~~Ps~~N~lfi~~L~e~~~~~~~k~~k~~~aY~kA   43 (87)
T 2kp7_A            8 RPLPVCPNPLFVRWLTEWRDEAASRGRHTRFVFQKA   43 (87)
T ss_dssp             CCCCCSCCCHHHHHHHHHHHHHHHHTCTTHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             999999889999999999999987073579999999


No 91 
>1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription regulation, disulfide stress; 1.50A {Bacillus subtilis} SCOP: a.60.3.1 PDB: 3ihq_B
Probab=79.64  E-value=2.8  Score=19.97  Aligned_cols=56  Identities=11%  Similarity=0.203  Sum_probs=44.0

Q ss_pred             CCCHHCCCCCCHHHHHHHH-HHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCC
Q ss_conf             7710048887989999999-98088898993898888627899989999999985478
Q gi|255764496|r  554 YSPLDEINGIGPLRKRLLL-QSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKN  610 (616)
Q Consensus       554 ~S~Ld~I~GIG~k~~~~Ll-~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~  610 (616)
                      ..+++++ +++..+...|- ....++..+.+.|.+||..++|+|++..+.|.+.|++.
T Consensus         8 ~~~I~~L-~LS~R~~N~L~~~~I~tv~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~~~   64 (73)
T 1z3e_B            8 EMTIEEL-DLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEEL   64 (73)
T ss_dssp             TCBGGGS-CCBHHHHHHHHHTTCCBHHHHHTSCHHHHHTSTTCCHHHHHHHHHHHHHT
T ss_pred             CCCHHHH-CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHC
T ss_conf             6889884-69899999998948967999986899999747898660599999999984


No 92 
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A 1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A* 1wef_A* 1kg7_A 1kqj_A
Probab=78.91  E-value=2.1  Score=20.88  Aligned_cols=17  Identities=18%  Similarity=0.221  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHCCCCCCC
Q ss_conf             99999987515664351
Q gi|255764496|r  364 MILKDFTKKFALPHIPK  380 (616)
Q Consensus       364 ~~l~~Lk~~L~L~~~p~  380 (616)
                      .+|-++.........|.
T Consensus       182 ~~lv~~G~~iC~~~~P~  198 (225)
T 1kg2_A          182 QAMMDLGAMICTRSKPK  198 (225)
T ss_dssp             HHHHHHHHHTSCSSSCC
T ss_pred             HHHHHHHHHHCCCCCCC
T ss_conf             99999978881599999


No 93 
>3lti_A DNA-directed RNA polymerase subunit beta; BBM2, nucleotidyltransferase, transcription, transferase; HET: MLY MSE; 1.60A {Escherichia coli} PDB: 3e7h_A
Probab=76.98  E-value=0.7  Score=24.35  Aligned_cols=21  Identities=38%  Similarity=0.792  Sum_probs=13.9

Q ss_pred             CCCCCCEEEEE------CCCCCEEEEEE
Q ss_conf             86788625888------69988889960
Q gi|255764496|r    6 MPECPGVYQML------DIAGRVLYVGK   27 (616)
Q Consensus         6 lP~~pGvY~~~------~~~~~iiYvGK   27 (616)
                      -|.||||| |.      ...|+.+|.+.
T Consensus         2 ~~~SPGV~-F~~~~~k~~~~gk~ly~a~   28 (296)
T 3lti_A            2 HPMSPGVF-FDSDKGKTHSSGKVLYNAR   28 (296)
T ss_dssp             --CCCEEE-EEEC---------CCEEEE
T ss_pred             CCCCCEEE-EECCCCCCCCCCCEEEEEE
T ss_conf             89798687-6046674467885799999


No 94 
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5 c.55.3.13 PDB: 3bzk_A 2oce_A
Probab=75.85  E-value=1.3  Score=22.28  Aligned_cols=55  Identities=9%  Similarity=0.098  Sum_probs=37.5

Q ss_pred             CCHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCCC
Q ss_conf             710048887989999999980888989938988886278999899999999854786
Q gi|255764496|r  555 SPLDEINGIGPLRKRLLLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKNT  611 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~~  611 (616)
                      +.|--|.|+||.+.+.|+.+...-..  =.|.++|.+|+|+|+++-++.--||+=..
T Consensus       508 ~lL~~VsGLgprkA~~iv~~r~~~g~--f~~R~~L~~v~~lG~k~F~q~AgFlrI~~  562 (785)
T 3bzc_A          508 ALLARISGLNSTLAQNIVAHRDANGA--FRTRDELKKVSRLGEKTFEQAAGFLRVMN  562 (785)
T ss_dssp             HHHHTSTTCCHHHHHHHHHHHHHHCC--CSSGGGGGGSTTCCHHHHHHHGGGEECTT
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHCCC--CCCHHHHHHCCCCCHHHHHHCCEEEEECC
T ss_conf             77532578788999999999995799--57799997367866021765256777669


No 95 
>3ofo_B 30S ribosomal protein S2; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_B* 2wwl_B 3ofp_B 3i1m_B 1vs7_B* 3e1a_B 3e1c_B 1vs5_B 3i1o_B 3i1q_B 3i1s_B 3i1z_B 3i21_B 3kc4_B 3or9_B 3ora_B 2qal_B* 1p87_B 2aw7_B 2avy_B ...
Probab=75.80  E-value=3.6  Score=19.22  Aligned_cols=56  Identities=14%  Similarity=0.210  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCCC
Q ss_conf             999999775313111233333333454579848998098589999999999758877871899971877
Q gi|255764496|r  434 VLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAAQGVLKKLNVENRITIISIAKGPK  502 (616)
Q Consensus       434 vi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~a~~vl~~l~i~~~i~viglaK~~~  502 (616)
                      .+.|.+.++.+.-..+        ..-..+||+++|-.-...-.|+.|+.. +    .||++||+=-+-
T Consensus       128 ~~~r~~~kL~~~~~Gi--------~~m~~~P~~vii~d~~~~~~ai~Ea~~-l----~IPvI~ivDTn~  183 (218)
T 3ofo_B          128 MRTRELEKLENSLGGI--------KDMGGLPDALFVIDADHEHIAIKEANN-L----GIPVFAIVDTNS  183 (218)
T ss_dssp             HHHHHHHHHTTTCSSS--------TTCCSCCSSEEEEETGGGHHHHHHHHH-T----TCCEEEECCTTS
T ss_pred             HHHHHHHHHHHHCCCC--------CCCCCCCCEEEECCCCHHHHHHHHHHH-C----CCCEEEEEECCC
T ss_conf             7689999999960681--------113558734774285031799999998-5----997799850798


No 96 
>3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex, cytoplasm, redox-active center, stress response, transcription; 2.30A {Bacillus subtilis}
Probab=74.21  E-value=3.5  Score=19.32  Aligned_cols=56  Identities=11%  Similarity=0.203  Sum_probs=44.2

Q ss_pred             CCCHHCCCCCCHHHHHHHH-HHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCC
Q ss_conf             7710048887989999999-98088898993898888627899989999999985478
Q gi|255764496|r  554 YSPLDEINGIGPLRKRLLL-QSFGTVKMISRSSPETLASIEGISKKIACKIYNHFHKN  610 (616)
Q Consensus       554 ~S~Ld~I~GIG~k~~~~Ll-~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~  610 (616)
                      ..+++++ +++..+...|- ...-++..+.+-|.+||..++|+|++..+.|.+.|..-
T Consensus        15 ~~~I~~L-~LS~R~~n~L~~~gI~tv~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~~~   71 (79)
T 3gfk_B           15 EMTIEEL-DLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEEL   71 (79)
T ss_dssp             GCBGGGS-CCBHHHHHHHHHTTCCBHHHHTTCCHHHHTTSTTCHHHHHHHHHHHHHHT
T ss_pred             CCCHHHH-CCCHHHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHC
T ss_conf             4959984-79899999998928967999986889999757898673799999999985


No 97 
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19
Probab=70.08  E-value=3.6  Score=19.23  Aligned_cols=17  Identities=18%  Similarity=0.200  Sum_probs=8.7

Q ss_pred             CCCCHHHHHHHHHHHHH
Q ss_conf             12203566555432345
Q gi|255764496|r  173 GEISSEKYMEFVHEAKK  189 (616)
Q Consensus       173 ~~is~~~Y~~~v~~~~~  189 (616)
                      ..++.......|+++..
T Consensus       262 ~Glsqk~irklI~~al~  278 (780)
T 1gm5_A          262 SGISQKQMRKIFEENIP  278 (780)
T ss_dssp             TTBCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH
T ss_conf             55669999999999998


No 98 
>3k4g_A DNA-directed RNA polymerase subunit alpha; bacterial transcription regulation, DNA-directed RNA polymer nucleotidyltransferase; HET: MLY; 2.05A {Escherichia coli k-12} PDB: 1lb2_B* 1xs9_D
Probab=69.56  E-value=4.9  Score=18.22  Aligned_cols=56  Identities=11%  Similarity=0.149  Sum_probs=43.8

Q ss_pred             CCCCHHCCCCCCHHHHHHHHHHH--CCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCC
Q ss_conf             47710048887989999999980--88898993898888627899989999999985478
Q gi|255764496|r  553 AYSPLDEINGIGPLRKRLLLQSF--GTVKMISRSSPETLASIEGISKKIACKIYNHFHKN  610 (616)
Q Consensus       553 ~~S~Ld~I~GIG~k~~~~Ll~~F--gs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~  610 (616)
                      +..+++++ ++.. |...-|+.-  .++..+.+.|.+||.+++|+|++..+.|.+.|...
T Consensus        10 L~~~I~eL-~LSv-R~~N~Lk~~gI~tvgdLv~~se~dLl~i~NfG~kSl~EI~~~L~~~   67 (86)
T 3k4g_A           10 LLRPVDDL-ELTV-RSANCLXAEAIHYIGDLVQRTEVELLXTPNLGXXSLTEIXDVLASR   67 (86)
T ss_dssp             GGSBGGGG-CCCH-HHHHHHHHTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHHHHTT
T ss_pred             HCCCHHHH-CCCH-HHHHHHCCCCCCCHHHHHHCCHHHHCCCCCCCHHHHHHHHHHHHHC
T ss_conf             71969872-7889-9998725543937999984899998178898772699999999985


No 99 
>3bbn_B Ribosomal protein S2; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Probab=67.02  E-value=5.5  Score=17.87  Aligned_cols=54  Identities=19%  Similarity=0.292  Sum_probs=33.8

Q ss_pred             HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             9999977531311123333333345457984899809858999999999975887787189997187
Q gi|255764496|r  435 LERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       435 i~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      +.|++.++.+.-..+        ..-..+||+++|-+-..--.|+.|+..     .+||+|||+=-.
T Consensus       137 ~~~~~~kl~k~~~Gi--------~~m~~~Pd~viv~d~~~~~~ai~Ea~~-----l~IPvI~ivDtn  190 (231)
T 3bbn_B          137 VKRQLSHLQTYLGGI--------KYMTGLPDIVIIVDQQEEYTALRECIT-----LGIPTICLIDTN  190 (231)
T ss_dssp             HHHHHHHHTTSTTST--------TSCCSCCSEEEESCTTTTHHHHHHHHT-----TTCCEEECCCSS
T ss_pred             HHHHHHHHHHHCCCC--------CHHHCCCCEEEECCCCCCHHHHHHHHH-----CCCCEEEEECCC
T ss_conf             768999998731463--------103129977985286322799999997-----399878874389


No 100
>1mpg_A ALKA, 3-methyladenine DNA glycosylase II; DNA repair, base excision, methylation, hydrolase; 1.80A {Escherichia coli} SCOP: a.96.1.3 d.129.1.2 PDB: 1diz_A 1pvs_A* 3cvs_A* 3cvt_A* 3cw7_A* 3cwa_A* 3cws_A* 3cwt_A* 3cwu_A* 3d4v_A*
Probab=66.23  E-value=4.8  Score=18.27  Aligned_cols=54  Identities=11%  Similarity=0.183  Sum_probs=28.1

Q ss_pred             CCHHCCCCCCHHHHHH-HHHHHCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHC
Q ss_conf             7100488879899999-99980888989938988886278999899999999854
Q gi|255764496|r  555 SPLDEINGIGPLRKRL-LLQSFGTVKMISRSSPETLASIEGISKKIACKIYNHFH  608 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~-Ll~~Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~  608 (616)
                      ..|..||||||.|..- +|..+|-.+-.-....-=...+.+++++....+.+.+.
T Consensus       207 ~~L~~l~GIGpWTA~~vll~~lg~~D~fp~~Dl~l~~~~~~l~~~~~~~~ae~w~  261 (282)
T 1mpg_A          207 KTLQTFPGIGRWTANYFALRGWQAKDVFLPDDYLIKQRFPGMTPAQIRRYAERWK  261 (282)
T ss_dssp             HHHTTSTTCCHHHHHHHHHHHSCCSSCCCTTCHHHHHHSTTCCHHHHHHHHGGGT
T ss_pred             HHHHHCCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHCC
T ss_conf             9999767988699999999976998838743499998741089999999998556


No 101
>3ecd_A Serine hydroxymethyltransferase 2; ssgcid, decode, bupsa00008A, cytoplasm, one-carbon metabolism, pyridoxal phosphate; 1.60A {Burkholderia pseudomallei}
Probab=65.01  E-value=6  Score=17.60  Aligned_cols=26  Identities=12%  Similarity=0.284  Sum_probs=16.7

Q ss_pred             CCEEEEECCH-H-HHHHHHHHHHHCCCC
Q ss_conf             8489980985-8-999999999975887
Q gi|255764496|r  464 PDVVILDGGK-G-QLSAAQGVLKKLNVE  489 (616)
Q Consensus       464 PDLilIDGGk-g-Qln~a~~vl~~l~i~  489 (616)
                      =-+++||-.. | --..|..+|++.||.
T Consensus       320 nH~vlvd~~~~g~~g~~a~~~Le~~gI~  347 (425)
T 3ecd_A          320 NHLLLVDLRPKGLKGAQVEQALERAGIT  347 (425)
T ss_dssp             SSEEEEECGGGTCCHHHHHHHHHHTTEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHCCEE
T ss_conf             5479996366688689999999971958


No 102
>2vqe_B 30S ribosomal protein S2; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: c.23.15.1 PDB: 1gix_E* 1hnw_B* 1hnx_B* 1hnz_B* 1hr0_B 1ibk_B* 1ibl_B* 1ibm_B 1j5e_B 1jgo_E* 1jgp_E* 1jgq_E* 1ml5_E* 1n32_B* 1n33_B* 1n34_B 1n36_B 1xmo_B* 1xmq_B* 1xnq_B* ...
Probab=63.87  E-value=6.3  Score=17.46  Aligned_cols=38  Identities=21%  Similarity=0.295  Sum_probs=28.2

Q ss_pred             CCCCCCEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCCC
Q ss_conf             4579848998098589999999999758877871899971877
Q gi|255764496|r  460 FPSWPDVVILDGGKGQLSAAQGVLKKLNVENRITIISIAKGPK  502 (616)
Q Consensus       460 ~~~~PDLilIDGGkgQln~a~~vl~~l~i~~~i~viglaK~~~  502 (616)
                      ...+||+|+|=.-..-..|+.++.. +    +||+|||+=-+-
T Consensus       155 m~~~Pd~v~v~d~~~~~~AI~EA~~-l----~IPvIaivDTn~  192 (256)
T 2vqe_B          155 LKRLPDAIFVVDPTKEAIAVREARK-L----FIPVIALADTDS  192 (256)
T ss_dssp             CSSCCSEEEESCTTTTHHHHHHHHH-T----TCCCEECCCTTS
T ss_pred             CCCCCCEEEECCCCHHHHHHHHHHH-H----CCCEEEEECCCC
T ss_conf             2468977996377500889999998-5----895577613898


No 103
>1rv3_A Serine hydroxymethyltransferase, cytosolic; one-carbon metabolism; HET: GLY PLP; 2.40A {Oryctolagus cuniculus} SCOP: c.67.1.4 PDB: 1rv4_A* 1rvu_A* 1rvy_A* 1ls3_A* 1cj0_A* 1bj4_A* 1eji_A*
Probab=63.71  E-value=6.3  Score=17.44  Aligned_cols=24  Identities=25%  Similarity=0.534  Sum_probs=16.5

Q ss_pred             CCEEEEE----CCHHHHHHHHHHHHHCCCC
Q ss_conf             8489980----9858999999999975887
Q gi|255764496|r  464 PDVVILD----GGKGQLSAAQGVLKKLNVE  489 (616)
Q Consensus       464 PDLilID----GGkgQln~a~~vl~~l~i~  489 (616)
                      =-+++||    |.-|+  .|.+.|++.||.
T Consensus       355 nHlvlvdl~~~g~~g~--~a~~~Le~~gI~  382 (483)
T 1rv3_A          355 NHLILVDLRSKGTDGG--RAEKVLEACSIA  382 (483)
T ss_dssp             SSEEEEEGGGGTCCHH--HHHHHHHHTTEE
T ss_pred             CCEEEEECCCCCCCHH--HHHHHHHHCCCE
T ss_conf             7369986021378799--999999986948


No 104
>2gkg_A Response regulator homolog; social motility, receiver domain, signalling, high resolutio signaling protein; 1.00A {Myxococcus xanthus} PDB: 2i6f_A 2nt4_A 2nt3_A
Probab=63.00  E-value=6.5  Score=17.35  Aligned_cols=39  Identities=18%  Similarity=0.282  Sum_probs=24.9

Q ss_pred             CCCCEEEEECC----HHHHHHHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             79848998098----58999999999975887787189997187
Q gi|255764496|r  462 SWPDVVILDGG----KGQLSAAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       462 ~~PDLilIDGG----kgQln~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      ..||||++|=.    ..=+..+.++-...... .+||+.++-.+
T Consensus        48 ~~pdliilD~~lp~~~~G~~l~~~ir~~~~~~-~iPii~lt~~~   90 (127)
T 2gkg_A           48 DRPDLVVLAVDLSAGQNGYLICGKLKKDDDLK-NVPIVIIGNPD   90 (127)
T ss_dssp             HCCSEEEEESBCGGGCBHHHHHHHHHHSTTTT-TSCEEEEECGG
T ss_pred             CCCCEEEEECCCCCCCCHHHHHHHHHHCCCCC-CCCEEEEECCC
T ss_conf             79999999757776888999999998388889-98389996898


No 105
>2jba_A Phosphate regulon transcriptional regulatory protein PHOB; transcription factor, sensory transduction, phosphate regulation; 1.45A {Escherichia coli} PDB: 2jba_B 1b00_A 2iyn_A 2jb9_A 1zes_A
Probab=57.78  E-value=7.9  Score=16.73  Aligned_cols=77  Identities=16%  Similarity=0.098  Sum_probs=41.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHH--HHHHHCCCCCCCCEEEEECCC
Q ss_conf             11689989999999977531311123333333345457984899809858999999--999975887787189997187
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAAQ--GVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~a~--~vl~~l~i~~~i~viglaK~~  501 (616)
                      .||-..+++++.+.++..-=+-.....+......-....|||||+|-.-+.++...  +.++.......+|++-++-..
T Consensus         8 VDDd~~~~~~l~~~L~~~G~~v~~a~~~~~al~~l~~~~~dlii~D~~mp~~~G~~l~~~ir~~~~~~~~piI~ls~~~   86 (127)
T 2jba_A            8 VEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWPDLILLAWMLPGGSGIQFIKHLRRESMTRDIPVVMLTARG   86 (127)
T ss_dssp             ECSCHHHHHHHHHHHHHTTCEEEEECSHHHHHTTCSSSCCSEEEEESEETTEEHHHHHHHHHTSTTTTTSCEEEEEETT
T ss_pred             EECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCCEEEEECCC
T ss_conf             9799999999999999879999998999999999971799999981889996289999999847877999099998989


No 106
>2qr3_A Two-component system response regulator; structural genomics, signal receiver, PSI-2, protein structure initiative; 1.80A {Bacteroides fragilis YCH46}
Probab=57.01  E-value=8.1  Score=16.64  Aligned_cols=73  Identities=14%  Similarity=0.115  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEE--------CCHHHHHHHHHHHHHCCCCCCCCEEEE
Q ss_conf             168998999999997753131112333333334545798489980--------985899999999997588778718999
Q gi|255764496|r  426 DDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILD--------GGKGQLSAAQGVLKKLNVENRITIISI  497 (616)
Q Consensus       426 DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilID--------GGkgQln~a~~vl~~l~i~~~i~vigl  497 (616)
                      ||-.++++++.+.+...--+-.....+...-..-....|||+|+|        +|..=+..+.++-+. .-  .+|||-+
T Consensus        10 DDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~dlillDl~mP~~~~~G~dGl~~l~~ir~~-~~--~ipvI~l   86 (140)
T 2qr3_A           10 DDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLREENPEVVLLDMNFTSGINNGNEGLFWLHEIKRQ-YR--DLPVVLF   86 (140)
T ss_dssp             CSCHHHHHHHHHHHTTTSSEEEEECCHHHHHHHHHHSCEEEEEEETTTTC-----CCHHHHHHHHHHH-CT--TCCEEEE
T ss_pred             ECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCHHHHHHHHHHH-CC--CCCEEEE
T ss_conf             79999999999999978999999899999999997279999999168877776775199999999986-89--9828999


Q ss_pred             ECCC
Q ss_conf             7187
Q gi|255764496|r  498 AKGP  501 (616)
Q Consensus       498 aK~~  501 (616)
                      .-..
T Consensus        87 T~~~   90 (140)
T 2qr3_A           87 TAYA   90 (140)
T ss_dssp             EEGG
T ss_pred             ECCC
T ss_conf             7899


No 107
>2jhn_A ALKA, 3-methyladenine DNA-glycosylase; DNA repair, N1-methyladenine, N3-methylcytosine, hyperthermophiles, hydrolase; HET: MBO MES; 1.8A {Archaeoglobus fulgidus} PDB: 2jhj_A
Probab=56.83  E-value=8.2  Score=16.62  Aligned_cols=17  Identities=35%  Similarity=0.552  Sum_probs=9.9

Q ss_pred             CHHCCCCCCHHHHHHHH
Q ss_conf             10048887989999999
Q gi|255764496|r  556 PLDEINGIGPLRKRLLL  572 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~~Ll  572 (616)
                      .|..||||||.|..-++
T Consensus       211 ~L~~i~GIGpWTA~~il  227 (295)
T 2jhn_A          211 YLTSFKGIGRWTAELVL  227 (295)
T ss_dssp             HHHTSTTCCHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHH
T ss_conf             99845994889999999


No 108
>3gl9_A Response regulator; beta-sheet, surrounded by alpha helices, BOTH sides, signaling protein; HET: BFD; 1.80A {Thermotoga maritima} PDB: 3dgf_C 3dge_C
Probab=54.20  E-value=8.9  Score=16.38  Aligned_cols=76  Identities=16%  Similarity=0.092  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHH--HHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             16899899999999775313111233333333454579848998098589999--99999975887787189997187
Q gi|255764496|r  426 DDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSA--AQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       426 DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~--a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      ||-..+++++.+.+.+.-=+-.....+...-..-....|||||+|---+.++-  +.+.+++..-...+|++.+.-..
T Consensus         9 DD~~~~~~~l~~~L~~~g~~v~~a~~g~eal~~~~~~~pdliilD~~mP~~~G~el~~~ir~~~~~~~iPiI~lT~~~   86 (122)
T 3gl9_A            9 DDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSEFTPDLIVLXIMMPVMDGFTVLKKLQEKEEWKRIPVIVLTAKG   86 (122)
T ss_dssp             CSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHTTBCCSEEEECSCCSSSCHHHHHHHHHTSTTTTTSCEEEEESCC
T ss_pred             ECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCCEEEEECCC
T ss_conf             699999999999999879999998999999999983799999851028999889999999838878999899982799


No 109
>3c3m_A Response regulator receiver protein; structural genomics, unknown function, PSI-2, protein structure initiative; HET: MSE; 1.70A {Methanoculleus marisnigri JR1}
Probab=54.13  E-value=8.1  Score=16.66  Aligned_cols=75  Identities=16%  Similarity=0.106  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHH---HHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             1689989999999977531311123333333345457984899809858999---999999975887787189997187
Q gi|255764496|r  426 DDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLS---AAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       426 DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln---~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      ||-..+++++.+-+...-=+-.....+...-..-....|||||+|-.-+.++   .+..+-..... ..+||+.++-..
T Consensus        10 DD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~~~pdliilD~~mP~~dG~el~~~ir~~~~~-~~ipvI~ls~~~   87 (138)
T 3c3m_A           10 DDSPMIVDVFVTMLERGGYRPITAFSGEECLEALNATPPDLVLLDIMMEPMDGWETLERIKTDPAT-RDIPVLMLTAKP   87 (138)
T ss_dssp             CSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSCCSEEEEESCCSSSCHHHHHHHHHHSTTT-TTSCEEEEESSC
T ss_pred             ECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHCCCC-CCCCEEEEECCC
T ss_conf             799999999999999879999998999999999753899899970678999889999999848655-899879986379


No 110
>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} SCOP: e.49.1.1 PDB: 2v1c_A
Probab=53.98  E-value=6.6  Score=17.28  Aligned_cols=97  Identities=12%  Similarity=0.068  Sum_probs=41.9

Q ss_pred             CCCCCHHHHCCCCCEEEEEEEEEECCEEEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHEECCCCC-HHHHHHH
Q ss_conf             454201110001883478899842474541011356677789978988877754321378981231026888-5787666
Q gi|255764496|r  239 YNRMDCFSLYHNKNLACIQTCFFHFGQNRGTCTFFLKTDSESTNAQILSYFLRQFYTDKPCPENILLSEEAE-ETSLLEI  317 (616)
Q Consensus       239 ~~d~Dvi~i~~~~~~~~I~vl~vR~G~i~g~~~f~~~~~~~~~~~eil~~fI~qyY~~~~iP~~Iiv~~~~~-~~~~l~~  317 (616)
                      -+..|++++...+.+-  ...||=+|.+.-.....++   +....+++.. +     ++  -+|||+-..+. |-+.-..
T Consensus        86 E~~~Dl~aIE~tg~y~--G~YhVLgG~iSpldgigp~---~l~i~~L~~R-i-----~~--~~EVIlA~~~t~EGe~Ta~  152 (228)
T 1vdd_A           86 EEPGDVIALERSGEYR--GLYHVLHGVLSPMNGVGPD---KLHIKPLLPR-V-----GQ--GMEVILATGTTVEGDATAL  152 (228)
T ss_dssp             SSHHHHHHTTTTSSCC--SEEEECSSCCBGGGTBCTT---TSTTGGGGGG-C-----CT--TCEEEECCCSSHHHHHHHH
T ss_pred             CCHHHHHHHHHCCCCC--EEEEECCCCCCCCCCCCCC---CCCHHHHHHH-H-----CC--CCEEEEEECCCCCHHHHHH
T ss_conf             7899999998608112--6998668763723489941---0036999998-6-----35--8679998179855189999


Q ss_pred             HHHHHC-CCCCCCC-----CCCCCCHHHHHH-HHHHHHH
Q ss_conf             543201-3433321-----256552667899-9999999
Q gi|255764496|r  318 SFFKQY-GYKVKIT-----VPKQGEKRKIIE-QALINAH  349 (616)
Q Consensus       318 ~L~~k~-g~kV~i~-----~P~rG~kk~Ll~-lA~~NA~  349 (616)
                      +|.+.. +..++|.     .|.-|+ .+.+| ..+.+|-
T Consensus       153 yi~~~Lk~~~ikiTRLA~GlP~G~~-LeY~D~~TL~~Al  190 (228)
T 1vdd_A          153 YLQRLLEPLGAAISRIAYGVPVGGS-LEYTDEVTLGRAL  190 (228)
T ss_dssp             HHHHHHTTSSCEEEECCBCBCTTCC-GGGSCHHHHHHHH
T ss_pred             HHHHHHHHCCCEEEEECCCCCCCCC-HHHCCHHHHHHHH
T ss_conf             9999854449708761006877842-0016899999999


No 111
>3kbq_A Protein TA0487; structural genomics, CINA, protein structure initiative, MCSG, PSI-2, midwest center for structural genomics; 2.00A {Thermoplasma acidophilum}
Probab=53.57  E-value=9.2  Score=16.27  Aligned_cols=14  Identities=21%  Similarity=0.302  Sum_probs=7.5

Q ss_pred             CCCCCEEEEEECCC
Q ss_conf             64351699970744
Q gi|255764496|r  376 PHIPKRIEIYDNSH  389 (616)
Q Consensus       376 ~~~p~rIE~fDiSh  389 (616)
                      ...|.--+.++|++
T Consensus       119 A~~P~ga~~i~N~~  132 (172)
T 3kbq_A          119 AKIPPSCRPIENPV  132 (172)
T ss_dssp             GEECTTEEEECCSS
T ss_pred             HCCCCCCEEEECCC
T ss_conf             43842253441788


No 112
>3i42_A Response regulator receiver domain protein (CHEY- like); structural genomics, PSI-2, protein structure initiative; 2.15A {Methylobacillus flagellatus KT}
Probab=53.34  E-value=8  Score=16.71  Aligned_cols=76  Identities=12%  Similarity=0.034  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHH--HHHHHHCCCCCCCCEEEEECCC
Q ss_conf             168998999999997753131112333333334545798489980985899999--9999975887787189997187
Q gi|255764496|r  426 DDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAA--QGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       426 DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~a--~~vl~~l~i~~~i~viglaK~~  501 (616)
                      ||-...++++.+.+.++-=.-.....+...-..-....||+||+|-.-+.++-.  .+.++.......+|++.+.-..
T Consensus        10 DD~~~~~~~l~~~L~~~G~~v~~a~~g~eAl~~l~~~~~dlillD~~mP~~~G~el~~~lr~~~~~~~~pii~lt~~~   87 (127)
T 3i42_A           10 EDYQAAAETFKELLEMLGFQADYVMSGTDALHAMSTRGYDAVFIDLNLPDTSGLALVKQLRALPMEKTSKFVAVSGFA   87 (127)
T ss_dssp             CSCHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHSCCSEEEEESBCSSSBHHHHHHHHHHSCCSSCCEEEEEECC-
T ss_pred             ECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCEEEEEECCC
T ss_conf             578999999999999879999998999999999980899999862789998459999999847678999499997888


No 113
>1ngn_A Methyl-CPG binding protein MBD4; mismacth repair in methylated DNA, DNA binding protein; 2.10A {Mus musculus} SCOP: a.96.1.2 PDB: 3iho_A
Probab=52.59  E-value=9.5  Score=16.16  Aligned_cols=81  Identities=9%  Similarity=0.022  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-H-HH-CCCC----HHCCCCCCHH--HHHHHHHHHCCHHHHHHCCHHHHHHCCCCCH
Q ss_conf             99999887877887889899864-3-21-4771----0048887989--9999999808889899389888862789998
Q gi|255764496|r  527 LYFIQRLRDEAHRFAITTHRKRR-K-KA-AYSP----LDEINGIGPL--RKRLLLQSFGTVKMISRSSPETLASIEGISK  597 (616)
Q Consensus       527 l~~Lq~iRDEaHRFAi~~hRk~r-~-k~-~~S~----Ld~I~GIG~k--~~~~Ll~~Fgs~~~i~~As~eeL~~v~gi~~  597 (616)
                      -.++|+-+|++=.=+...-.++- . .. ....    .+-|.++|--  +.+.|.+-.   +.+..-+.++|.++||||+
T Consensus        38 ~ILsqqT~~~~v~~v~~~l~~~~pt~~~la~a~~~el~~~i~~lG~~~~KAk~I~~~a---~~~vp~~~~~l~~LpGVG~  114 (155)
T 1ngn_A           38 TIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAKTIIKFS---DEYLTKQWRYPIELHGIGK  114 (155)
T ss_dssp             HHHHTTSCHHHHHHHHHHHHHHSCSHHHHHHSCHHHHHHHTGGGSCHHHHHHHHHHHH---HHHHHSCCSSGGGSTTCCH
T ss_pred             HHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---HHHHHHHHHCCCCCCCCCH
T ss_conf             9998709699999999999998889999987349999999720026879999999997---1665442331675898219


Q ss_pred             HHHHHHHHHHCCC
Q ss_conf             9999999985478
Q gi|255764496|r  598 KIACKIYNHFHKN  610 (616)
Q Consensus       598 ~~A~~I~~~l~~~  610 (616)
                      ..|..+.-+...+
T Consensus       115 ytad~~~if~~~~  127 (155)
T 1ngn_A          115 YGNDSYRIFCVNE  127 (155)
T ss_dssp             HHHHHHHHHTSSC
T ss_pred             HHHHHHHHHHCCC
T ss_conf             9999999998799


No 114
>3lua_A Response regulator receiver protein; two-component signal transduction system, histidine kinase, phosphorelay, receiver domain, nysgxrc; 2.40A {Clostridium thermocellum}
Probab=52.32  E-value=9.6  Score=16.13  Aligned_cols=77  Identities=13%  Similarity=0.064  Sum_probs=42.8

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCC-CCCCCCCCC-CCCCCCCCCCEEEEE----CCHHHHHHHHHHHHHCCCCCCCCEEEEE
Q ss_conf             1168998999999997753131-112333333-334545798489980----9858999999999975887787189997
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNE-ENLNFHPKK-QEYSFPSWPDVVILD----GGKGQLSAAQGVLKKLNVENRITIISIA  498 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~-~~l~~~~~~-~~~~~~~~PDLilID----GGkgQln~a~~vl~~l~i~~~i~vigla  498 (616)
                      .||-..+++++..-+..+-... -....+... ........|||||+|    ||-+-...+..+-..... ..+|||.+.
T Consensus        10 VDD~~~~r~~l~~~L~~~G~~~v~~a~~g~eal~~l~~~~~~dlii~D~~mP~~~~g~~l~~~ir~~~~~-~~~piI~lT   88 (140)
T 3lua_A           10 IDYFEYEREKTKIIFDNIGEYDFIEVENLKKFYSIFKDLDSITLIIMDIAFPVEKEGLEVLSAIRNNSRT-ANTPVIIAT   88 (140)
T ss_dssp             ECSCHHHHHHHHHHHHHHCCCEEEEECSHHHHHTTTTTCCCCSEEEECSCSSSHHHHHHHHHHHHHSGGG-TTCCEEEEE
T ss_pred             EECCHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHHHCCCC-CCCCEEEEE
T ss_conf             9499999999999998679908999899999999997389985999868999999888999987644246-899889982


Q ss_pred             CCCC
Q ss_conf             1877
Q gi|255764496|r  499 KGPK  502 (616)
Q Consensus       499 K~~~  502 (616)
                      -...
T Consensus        89 ~~~~   92 (140)
T 3lua_A           89 KSDN   92 (140)
T ss_dssp             SCCC
T ss_pred             CCCC
T ss_conf             7999


No 115
>2etv_A Iron(III) ABC transporter, periplasmic iron- binding protein, putative; TM0189, structural genomics; HET: MLY; 1.70A {Thermotoga maritima MSB8} SCOP: c.92.2.4
Probab=50.15  E-value=7.9  Score=16.75  Aligned_cols=20  Identities=15%  Similarity=0.210  Sum_probs=13.0

Q ss_pred             CCEEEEECCHHHHHHHHHHH
Q ss_conf             84899809858999999999
Q gi|255764496|r  464 PDVVILDGGKGQLSAAQGVL  483 (616)
Q Consensus       464 PDLilIDGGkgQln~a~~vl  483 (616)
                      ||.|++.++-.+........
T Consensus       232 PDvI~v~~~~~~~~~~~~l~  251 (346)
T 2etv_A          232 PEYIFIDENGLSLVLDDYSX  251 (346)
T ss_dssp             CSEEEEEGGGHHHHHHHHHH
T ss_pred             CCEEEEECCCCCHHHHHHHH
T ss_conf             89999968985447888764


No 116
>3cvo_A Methyltransferase-like protein of unknown function; YP_167254.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE PG4; 1.80A {Silicibacter pomeroyi dss-3}
Probab=48.68  E-value=5.6  Score=17.80  Aligned_cols=24  Identities=29%  Similarity=0.443  Sum_probs=16.0

Q ss_pred             CCCEEEEECCHHHHHHHHHHHHHCC
Q ss_conf             9848998098589999999999758
Q gi|255764496|r  463 WPDVVILDGGKGQLSAAQGVLKKLN  487 (616)
Q Consensus       463 ~PDLilIDGGkgQln~a~~vl~~l~  487 (616)
                      -||||||||.-- ...+..++..+.
T Consensus       122 ~~DlIlIDGR~R-~aC~l~~~~~lk  145 (202)
T 3cvo_A          122 HPDVVLVDGRFR-VGCALATAFSIT  145 (202)
T ss_dssp             CCSEEEECSSSH-HHHHHHHHHHCS
T ss_pred             CCCEEEECCHHH-HHHHHHHHHHCC
T ss_conf             887899756378-999999999669


No 117
>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli K12} SCOP: a.60.3.1 PDB: 2jzb_A
Probab=47.62  E-value=11  Score=15.63  Aligned_cols=55  Identities=13%  Similarity=0.174  Sum_probs=38.6

Q ss_pred             CCHHCCCCCCHHHHHHHHHH-HCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHCCC
Q ss_conf             71004888798999999998-088898993898888627899989999999985478
Q gi|255764496|r  555 SPLDEINGIGPLRKRLLLQS-FGTVKMISRSSPETLASIEGISKKIACKIYNHFHKN  610 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~Ll~~-Fgs~~~i~~As~eeL~~v~gi~~~~A~~I~~~l~~~  610 (616)
                      .+++++ ++...+...|-+. ..++..+.+-|.+||..++|+|++.-+.|.+.|...
T Consensus        24 ~~I~eL-~LSvRs~N~L~~~gI~tvgdLv~~se~dLl~~~n~G~KSl~EIk~~L~~~   79 (98)
T 1coo_A           24 RPVDDL-ELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR   79 (98)
T ss_dssp             SBGGGG-TCCTTTHHHHHTTTCCBHHHHHTSCHHHHTTSTTCCHHHHHHHHHHHHHT
T ss_pred             CCHHHH-CCCHHHHHHHHHHCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHC
T ss_conf             969882-77899999873817938999985799999758897687899999999985


No 118
>3eod_A Protein HNR; response regulator, phosphoprotein, two-component regulatory system, signaling protein; 1.75A {Escherichia coli K12}
Probab=46.07  E-value=12  Score=15.47  Aligned_cols=76  Identities=16%  Similarity=0.112  Sum_probs=42.2

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHH--HHHHHHHCCCCCCCCEEEEECCCC
Q ss_conf             116899899999999775313111233333333454579848998098589999--999999758877871899971877
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSA--AQGVLKKLNVENRITIISIAKGPK  502 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~--a~~vl~~l~i~~~i~viglaK~~~  502 (616)
                      .||-..+++++.+.+.+.--+-.....+...-..-....|||+++|-.-+.++-  +.+.+++.+-  .+|++-++-...
T Consensus        13 VDD~~~~r~~l~~~L~~~g~~v~~a~~g~~Al~~l~~~~~dlvi~D~~mP~~dG~~~~~~ir~~~~--~~piI~lt~~~~   90 (130)
T 3eod_A           13 VEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGFTPDLMICDIAMPRMNGLKLLEHIRNRGD--QTPVLVISATEN   90 (130)
T ss_dssp             ECSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHHHTTCCCSEEEECCC-----CHHHHHHHHHTTC--CCCEEEEECCCC
T ss_pred             EECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEEHHHHCCCCCCHHHHHHHHHHHCC--CCCEEEEECCCC
T ss_conf             969899999999999988999999899999999985289887457421799989999999996098--998999989999


No 119
>3cg4_A Response regulator receiver domain protein (CHEY- like); structural genomics, unknown function, uncharacterized protein; HET: MSE; 1.61A {Methanospirillum hungatei jf-1}
Probab=45.63  E-value=12  Score=15.42  Aligned_cols=75  Identities=16%  Similarity=0.131  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHH---HHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             1689989999999977531311123333333345457984899809858999---999999975887787189997187
Q gi|255764496|r  426 DDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLS---AAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       426 DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln---~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      ||-.++++++.+-+...-=.-.....+...-..-....|||||+|-.-+.++   .+. .+++......+||+-+.-..
T Consensus        14 DD~~~~r~~l~~~L~~~g~~v~~a~~g~eal~~l~~~~~dliilD~~mP~~~G~el~~-~ir~~~~~~~ipiI~lT~~~   91 (142)
T 3cg4_A           14 DDDAHVRIAVKTILSDAGFHIISADSGGQCIDLLKKGFSGVVLLDIMMPGMDGWDTIR-AILDNSLEQGIAIVMLTAKN   91 (142)
T ss_dssp             CSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTCCCEEEEEESCCSSSCHHHHHH-HHHHTTCCTTEEEEEEECTT
T ss_pred             ECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHH-HHHHCCCCCCCEEEEEECCC
T ss_conf             7989999999999998799999989999999999717999999838999986899999-99857556899599997889


No 120
>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.50A {Legionella pneumophila subsp}
Probab=45.51  E-value=12  Score=15.41  Aligned_cols=75  Identities=13%  Similarity=0.160  Sum_probs=37.6

Q ss_pred             CHHHHHHHHHHHHHHHHHHCC---------CCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHH--HHHHHHHCCCCCCCC
Q ss_conf             116899899999999775313---------111233333333454579848998098589999--999999758877871
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKN---------EENLNFHPKKQEYSFPSWPDVVILDGGKGQLSA--AQGVLKKLNVENRIT  493 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~---------~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~--a~~vl~~l~i~~~i~  493 (616)
                      .||-...++++.+-+++.--.         ++.+.. -..........||||++|-.-+..+-  +.+.+++......+|
T Consensus        13 VDD~~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~-l~~~~~~~~~~~dliilD~~mP~~~G~el~~~ir~~~~~~~ip   91 (143)
T 2qvg_A           13 LEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDM-LYGRNKENKIHPKLILLDINIPKMNGIEFLKELRDDSSFTDIE   91 (143)
T ss_dssp             ECCCHHHHHHHHHHHHHHCTTCCEEEESSHHHHHHH-HHTCTTCCCCCCSEEEEETTCTTSCHHHHHHHHTTSGGGTTCE
T ss_pred             EECCHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHH-HHHHHHHCCCCCCEEEECCCCCCCCCHHHHHHHHHCCCCCCCE
T ss_conf             979999999999999976998499998999999999-9841233037987899648788997279999998577779991


Q ss_pred             EEEEECC
Q ss_conf             8999718
Q gi|255764496|r  494 IISIAKG  500 (616)
Q Consensus       494 viglaK~  500 (616)
                      ||.+.=.
T Consensus        92 iI~lS~~   98 (143)
T 2qvg_A           92 VFVLTAA   98 (143)
T ss_dssp             EEEEESC
T ss_pred             EEEEECC
T ss_conf             9999788


No 121
>1mb3_A Cell division response regulator DIVK; signal transduction protein, structural proteomics in europe, spine, structural genomics; 1.41A {Caulobacter vibrioides} SCOP: c.23.1.1 PDB: 1m5u_A 1mav_A 1mb0_A 1m5t_A
Probab=44.69  E-value=9.1  Score=16.30  Aligned_cols=39  Identities=18%  Similarity=0.242  Sum_probs=23.4

Q ss_pred             CCCEEEEECCHHHHHHH--HHHHHHCCCCCCCCEEEEECCC
Q ss_conf             98489980985899999--9999975887787189997187
Q gi|255764496|r  463 WPDVVILDGGKGQLSAA--QGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       463 ~PDLilIDGGkgQln~a--~~vl~~l~i~~~i~viglaK~~  501 (616)
                      .||+||+|-.-+.++-.  .+.+++..-...+|++.++-..
T Consensus        45 ~pdlillD~~mp~~~G~el~~~ir~~~~~~~iPii~ls~~~   85 (124)
T 1mb3_A           45 KPDLILMDIQLPEISGLEVTKWLKEDDDLAHIPVVAVTAFA   85 (124)
T ss_dssp             CCSEEEEESBCSSSBHHHHHHHHHHSTTTTTSCEEEEC---
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCCEEEEECCC
T ss_conf             99999978999998479999999828877999689998989


No 122
>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC, target 11006U, PSI-2, protein structure initiative; 2.00A {Desulfuromonas acetoxidans dsm 684}
Probab=43.46  E-value=7.1  Score=17.08  Aligned_cols=38  Identities=21%  Similarity=0.322  Sum_probs=22.3

Q ss_pred             CCCEEEEECCHHHHHH--HHHHHHHCCCCCCCCEEEEECC
Q ss_conf             9848998098589999--9999997588778718999718
Q gi|255764496|r  463 WPDVVILDGGKGQLSA--AQGVLKKLNVENRITIISIAKG  500 (616)
Q Consensus       463 ~PDLilIDGGkgQln~--a~~vl~~l~i~~~i~viglaK~  500 (616)
                      .|||||+|---+.++-  +.+.+++..-...+||+-++-.
T Consensus        52 ~pdliilD~~mP~~dG~el~~~ir~~~~~~~iPiI~lS~~   91 (147)
T 2zay_A           52 HPHLIITEANMPKISGMDLFNSLKKNPQTASIPVIALSGR   91 (147)
T ss_dssp             CCSEEEEESCCSSSCHHHHHHHHHTSTTTTTSCEEEEESS
T ss_pred             CCCEEEECCCCCCCCCHHHHHHHHHCCCCCCCCEEEEECC
T ss_conf             9999998599999975189999984855689718997268


No 123
>3n0l_A Serine hydroxymethyltransferase; alpha beta class, 3-layer(ABA) sandwich, CSGI transferase, structural genomics; HET: MSE; 1.80A {Campylobacter jejuni}
Probab=41.43  E-value=14  Score=14.98  Aligned_cols=24  Identities=13%  Similarity=0.129  Sum_probs=12.9

Q ss_pred             CEEEEEC-CHH-HHHHHHHHHHHCCC
Q ss_conf             4899809-858-99999999997588
Q gi|255764496|r  465 DVVILDG-GKG-QLSAAQGVLKKLNV  488 (616)
Q Consensus       465 DLilIDG-Gkg-Qln~a~~vl~~l~i  488 (616)
                      -+++||- .+| -=..|...|++.||
T Consensus       313 H~vlvd~~~~~~~G~~a~~~Le~~gI  338 (417)
T 3n0l_A          313 HLVLMSFLDREFSGKDADLALGNAGI  338 (417)
T ss_dssp             SEEEEECTTSSSCHHHHHHHHHHTTE
T ss_pred             EEEEEECCCCCCCHHHHHHHHHHCCE
T ss_conf             17888601135769999999987593


No 124
>1srr_A SPO0F, sporulation response regulatory protein; aspartate pocket, two component system; 1.90A {Bacillus subtilis} SCOP: c.23.1.1 PDB: 1pey_A 2ftk_E* 1fsp_A 1nat_A 1pux_A 2fsp_A 2jvj_A 2jvk_A 2jvi_A 1f51_E
Probab=39.92  E-value=11  Score=15.58  Aligned_cols=74  Identities=18%  Similarity=0.168  Sum_probs=34.5

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHH--HHHHHHHCCCCCCCCEEEEECC
Q ss_conf             116899899999999775313111233333333454579848998098589999--9999997588778718999718
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSA--AQGVLKKLNVENRITIISIAKG  500 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~--a~~vl~~l~i~~~i~viglaK~  500 (616)
                      -||=..+++++.+-+.+.--+-.....+...-..-....||||++|-.-+.++-  +.+.+++..-  .+|++-+.-.
T Consensus         9 VDD~~~~~~~l~~~L~~~g~~v~~a~~g~eal~~~~~~~~dliilD~~mP~~~G~el~~~ir~~~~--~~pii~lt~~   84 (124)
T 1srr_A            9 VDDQSGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIDE--NIRVIIMTAY   84 (124)
T ss_dssp             ECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHHCCSEEEEESCCTTCCHHHHHHHHHHHCT--TCEEEEEESS
T ss_pred             EECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHCC--CCCEEEEECC
T ss_conf             979999999999999986998999599899999998079988998536999988999999996099--9989999888


No 125
>1zgz_A Torcad operon transcriptional regulatory protein TORR; two-component system, gene regulation, transcription factor, TMAO respiratory system; 1.80A {Escherichia coli} SCOP: c.23.1.1
Probab=38.53  E-value=12  Score=15.35  Aligned_cols=38  Identities=16%  Similarity=0.170  Sum_probs=22.7

Q ss_pred             CCCEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             984899809858999999999975887787189997187
Q gi|255764496|r  463 WPDVVILDGGKGQLSAAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       463 ~PDLilIDGGkgQln~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      .|||||+|-.-+.++-. +.++.+--...+|++-++-..
T Consensus        46 ~~dliilD~~mP~~dG~-e~~~~~r~~~~~piI~lt~~~   83 (122)
T 1zgz_A           46 SVDLILLDINLPDENGL-MLTRALRERSTVGIILVTGRS   83 (122)
T ss_dssp             CCSEEEEESCCSSSCHH-HHHHHHHTTCCCEEEEEESSC
T ss_pred             CCCEEEEECCCCCCCHH-HHHHHHHHCCCCCEEEEECCC
T ss_conf             99899997898997728-999999847999399998369


No 126
>1d8b_A SGS1 RECQ helicase; five helices, three-helical bundle flanked by two helices, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.60.8.1
Probab=38.51  E-value=14  Score=14.90  Aligned_cols=16  Identities=6%  Similarity=0.187  Sum_probs=7.5

Q ss_pred             CHHCCCCCCHHHHHHH
Q ss_conf             1004888798999999
Q gi|255764496|r  556 PLDEINGIGPLRKRLL  571 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~~L  571 (616)
                      .|..|+|||+++.++-
T Consensus        49 eL~~I~Gvg~~k~~kY   64 (81)
T 1d8b_A           49 AFATLGTVEDKYRRRF   64 (81)
T ss_dssp             HHGGGSCCCHHHHHHG
T ss_pred             HHCCCCCCCHHHHHHH
T ss_conf             9827999998999999


No 127
>1gp8_A Protein (scaffolding protein); coat protein-binding domain, helix- loop-helix motif, viral protein; NMR {Enterobacteria phage P22} SCOP: j.58.1.1 PDB: 2gp8_A
Probab=38.31  E-value=14  Score=15.05  Aligned_cols=30  Identities=27%  Similarity=0.315  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999863338888889999999
Q gi|255764496|r  198 LKEKIARNMNQATLKEDYESAIIHRDRLAA  227 (616)
Q Consensus       198 ii~~L~~~M~~aS~~l~FE~Aa~~RD~I~a  227 (616)
                      -+..++++|+.|+.+-+-|.-.+++-++..
T Consensus         9 n~~ai~kqm~aaa~kgdvetyrklka~lkg   38 (40)
T 1gp8_A            9 NKDAIRKQMDAAASKGDVETYRKLKAKLKG   38 (40)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHCC
T ss_conf             089999999987414649999999998636


No 128
>3n5n_X A/G-specific adenine DNA glycosylase; alpha-helices, helix-hairpin-helix motif, iron-sulfur cluste hydrolase; 2.30A {Homo sapiens}
Probab=37.61  E-value=16  Score=14.57  Aligned_cols=20  Identities=25%  Similarity=0.134  Sum_probs=11.9

Q ss_pred             CCCCHHHHHHHHHHHHHHHH
Q ss_conf             37887899999999997301
Q gi|255764496|r  124 PFASVDAVEKTINSLQRTFF  143 (616)
Q Consensus       124 Pf~~~~~~~~~l~~l~~~f~  143 (616)
                      .|.+...+..+-+.|...|.
T Consensus         8 ~~~~~~~~~~~~~~Ll~Wy~   27 (287)
T 3n5n_X            8 LFRDVAEVTAFRGSLLSWYD   27 (287)
T ss_dssp             SCCCHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHH
T ss_conf             22888999999999999999


No 129
>2h31_A Multifunctional protein ADE2; alpha-beta-alpha, ligase, lyase; 2.80A {Homo sapiens}
Probab=36.99  E-value=13  Score=15.21  Aligned_cols=29  Identities=24%  Similarity=0.292  Sum_probs=20.7

Q ss_pred             CCE-EEEECCHHHHHHHHHHHHHCCCCCCCCEEEEE
Q ss_conf             848-99809858999999999975887787189997
Q gi|255764496|r  464 PDV-VILDGGKGQLSAAQGVLKKLNVENRITIISIA  498 (616)
Q Consensus       464 PDL-ilIDGGkgQln~a~~vl~~l~i~~~i~vigla  498 (616)
                      |.+ |-+-|+-++|.-+..++     . ..||||+-
T Consensus       322 ~~v~ia~aG~sa~L~g~va~~-----t-~~PVIgvP  351 (425)
T 2h31_A          322 PTVFVAVAGRSNGLGPVMSGN-----T-AYPVISCP  351 (425)
T ss_dssp             CEEEEEECCSSCCHHHHHHHH-----C-SSCEEECC
T ss_pred             CEEEEEECCCCCCCHHHHHHC-----C-CCCEEECC
T ss_conf             779998466322434553323-----6-89979767


No 130
>1g8l_A Molybdopterin biosynthesis MOEA protein; molybdenum cofactor biosynthesis, metal binding protein; 1.95A {Escherichia coli} SCOP: b.85.6.1 b.103.1.1 c.57.1.2 PDB: 1fc5_A 1g8r_A 2nqu_A 2nro_A 2nqq_A 2nqk_A 2nqr_A 2nqm_A 2nqs_A 2nrp_A 2nqv_A 2nrs_A 2nqn_A
Probab=36.90  E-value=16  Score=14.50  Aligned_cols=100  Identities=20%  Similarity=0.163  Sum_probs=59.3

Q ss_pred             EEEEEECCCCCHHHHHHHHCCCCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCH--H
Q ss_conf             888851687280323211024444-5541168998999999997753131112333333334545798489980985--8
Q gi|255764496|r  398 CMVVVGENGFVKNQYRKFNLHPND-VKTQDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGK--G  474 (616)
Q Consensus       398 s~Vvf~~g~~~K~~YR~f~Ik~~~-v~~~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGk--g  474 (616)
                      +.|+=.|+-.-...-+.+...... ..-.||...+++.+.+-.++                      -|+||+=||-  |
T Consensus       199 g~i~dsN~~~l~a~l~~~G~~~~~~~~~~Dd~~~i~~~~~~~~~~----------------------~DiiIttGG~S~G  256 (411)
T 1g8l_A          199 GQIYDTNRLAVHLMLEQLGCEVINLGIIRDDPHALRAAFIEADSQ----------------------ADVVISSGGVSVG  256 (411)
T ss_dssp             SCEECCHHHHHHHHHHHTTCEEEEEEEECSCHHHHHHHHHHHHHH----------------------CSEEEECSSSCSS
T ss_pred             CEEEECCHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHHHC----------------------CCEEEECCCCCCC
T ss_conf             719834589999999977998997464268699999998754420----------------------3558851575568


Q ss_pred             HHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCEEEECCCCCEE-EECCCCH
Q ss_conf             99999999997588778718999718776766348981798348-8579989
Q gi|255764496|r  475 QLSAAQGVLKKLNVENRITIISIAKGPKRSAGMEKFFVKKGEAL-VLNMRDP  525 (616)
Q Consensus       475 Qln~a~~vl~~l~i~~~i~viglaK~~~r~~~~e~~~~~~~~~i-~l~~~~~  525 (616)
                      .-..+.++|+++|   .+.+-+++=+..+-+.   +-..++.++ -|+-+.-
T Consensus       257 ~~D~v~~~l~~~G---~i~f~~v~ikPGkp~~---~~~~~~~~v~gLPGnPv  302 (411)
T 1g8l_A          257 EADYTKTILEELG---EIAFWKLAIKPGKPFA---FGKLSNSWFCGLPGNPV  302 (411)
T ss_dssp             SCSHHHHHHHHHS---EEEEEEBSEESCCEEE---EEECSSSEEEECCSSHH
T ss_pred             CCHHHHHHHHHCC---CEEEEEEEEECCCCEE---EEEECCCCCCCCCCCCH
T ss_conf             2066899999759---7699987686366469---99970564327988858


No 131
>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock, transferase, response regulator, histidine protein kinase; NMR {Synechococcus elongatus}
Probab=35.88  E-value=17  Score=14.39  Aligned_cols=40  Identities=10%  Similarity=0.106  Sum_probs=24.6

Q ss_pred             CCCEEEEECCHHHH---HHHHHHHHHCCCCCCCCEEEEECCCCC
Q ss_conf             98489980985899---999999997588778718999718776
Q gi|255764496|r  463 WPDVVILDGGKGQL---SAAQGVLKKLNVENRITIISIAKGPKR  503 (616)
Q Consensus       463 ~PDLilIDGGkgQl---n~a~~vl~~l~i~~~i~viglaK~~~r  503 (616)
                      .||+||+|-.-+..   ..+..+ ++..-...+|++.++-.+..
T Consensus        45 ~pdlvllD~~lp~~~G~~l~~~l-r~~~~~~~~pii~~t~~~~~   87 (119)
T 2j48_A           45 QPIVILMAWPPPDQSCLLLLQHL-REHQADPHPPLVLFLGEPPV   87 (119)
T ss_dssp             CCSEEEEECSTTCCTHHHHHHHH-HHTCCCSSCCCEEEESSCCS
T ss_pred             CCCEEEEECCCCCCCHHHHHHHH-HHCCCCCCCEEEEEECCHHH
T ss_conf             99989996379999999999999-82888898649999771889


No 132
>1vi6_A 30S ribosomal protein S2P; structural genomics, ribosome; 1.95A {Archaeoglobus fulgidus} SCOP: c.23.15.1 PDB: 1vi5_A
Probab=33.65  E-value=18  Score=14.14  Aligned_cols=36  Identities=14%  Similarity=0.250  Sum_probs=28.2

Q ss_pred             CCCCEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCCC
Q ss_conf             79848998098589999999999758877871899971877
Q gi|255764496|r  462 SWPDVVILDGGKGQLSAAQGVLKKLNVENRITIISIAKGPK  502 (616)
Q Consensus       462 ~~PDLilIDGGkgQln~a~~vl~~l~i~~~i~viglaK~~~  502 (616)
                      ..||+++|=+-.-.-+|+.++.+ +    +||+|||+=-+-
T Consensus       114 ~~P~~viv~dp~~d~~ai~Ea~~-l----~IP~I~ivDTn~  149 (208)
T 1vi6_A          114 REPEVVFVNDPAIDKQAVSEATA-V----GIPVVALCDSNN  149 (208)
T ss_dssp             CCCSEEEESCTTTTHHHHHHHHH-T----TCCEEEEECTTC
T ss_pred             CCCCCCEEECCCCCHHHHHHHHH-C----CCCEEEEECCCC
T ss_conf             46766077767753799999998-0----996588724999


No 133
>3h7f_A Serine hydroxymethyltransferase 1; cytoplasm, one-carbon metabolism, pyridoxal phosphate, structural genomics; HET: LLP; 1.50A {Mycobacterium tuberculosis}
Probab=32.37  E-value=19  Score=14.00  Aligned_cols=24  Identities=29%  Similarity=0.505  Sum_probs=16.0

Q ss_pred             CCEEEEE----CCHHHHHHHHHHHHHCCCC
Q ss_conf             8489980----9858999999999975887
Q gi|255764496|r  464 PDVVILD----GGKGQLSAAQGVLKKLNVE  489 (616)
Q Consensus       464 PDLilID----GGkgQln~a~~vl~~l~i~  489 (616)
                      =-+++||    |.-|+  .|.+.|++.||.
T Consensus       337 nH~vlvdl~~~g~~g~--~a~~~Le~agI~  364 (447)
T 3h7f_A          337 VHLVLVDLRDSPLDGQ--AAEDLLHEVGIT  364 (447)
T ss_dssp             SSEEEEECTTSSCCHH--HHHHHHHHTTEE
T ss_pred             CCEEEEECCCCCCCHH--HHHHHHHHCCEE
T ss_conf             5257532345799999--999999971918


No 134
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, hydrolase; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*
Probab=32.15  E-value=6.8  Score=17.23  Aligned_cols=30  Identities=23%  Similarity=0.319  Sum_probs=16.9

Q ss_pred             CCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             79834885799899999998878778878898998643
Q gi|255764496|r  513 KKGEALVLNMRDPILYFIQRLRDEAHRFAITTHRKRRK  550 (616)
Q Consensus       513 ~~~~~i~l~~~~~~l~~Lq~iRDEaHRFAi~~hRk~r~  550 (616)
                      .+++.+.++...        +.+=.|-||+|-|+..-+
T Consensus       473 ~dg~~v~~~~~~--------l~~l~laYA~TvHKsQGs  502 (574)
T 3e1s_A          473 FDGNVVELTGAE--------LFNLQLGYALTVHRAQGS  502 (574)
T ss_dssp             ETTEEEEECGGG--------GTTEEECSEEEHHHHTTC
T ss_pred             ECCEEEEECHHH--------HCCEEEEEEEEEECCCCC
T ss_conf             899699976788--------277039999367422004


No 135
>3gbx_A Serine hydroxymethyltransferase; structural genomics, IDP01011, cytoplasm, one-carbon metabolism, pyridoxal phosphate; HET: MSE; 1.80A {Salmonella typhimurium} PDB: 1dfo_A* 3g8m_A* 1eqb_A*
Probab=31.36  E-value=20  Score=13.89  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=15.2

Q ss_pred             CCEEEEECCHHHH--HHHHHHHHHCCCC
Q ss_conf             8489980985899--9999999975887
Q gi|255764496|r  464 PDVVILDGGKGQL--SAAQGVLKKLNVE  489 (616)
Q Consensus       464 PDLilIDGGkgQl--n~a~~vl~~l~i~  489 (616)
                      =-++|||=..-.+  ..|...|++.||.
T Consensus       319 ~H~vLvdl~~~g~~G~~a~~~Le~~gI~  346 (420)
T 3gbx_A          319 NHLFLLDLVDKNLTGKEADAALGRANIT  346 (420)
T ss_dssp             SSEEEEECGGGTCCHHHHHHHHHHTTEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHCEE
T ss_conf             7468752356799889999999982958


No 136
>3kht_A Response regulator; PSI-II, structural genomics, protein structure initiative, NEW YORK SGX research center for structural genomics; 2.10A {Hahella chejuensis kctc 2396}
Probab=30.85  E-value=20  Score=13.83  Aligned_cols=79  Identities=13%  Similarity=0.168  Sum_probs=39.7

Q ss_pred             CCCCEEEEECCHHHHHH--HHHHHHHCCCCCCCCEEEEECCCCCCCCCEEEECCCCCEEEECCCCHHHHHHHHHHHHHHH
Q ss_conf             79848998098589999--9999997588778718999718776766348981798348857998999999988787788
Q gi|255764496|r  462 SWPDVVILDGGKGQLSA--AQGVLKKLNVENRITIISIAKGPKRSAGMEKFFVKKGEALVLNMRDPILYFIQRLRDEAHR  539 (616)
Q Consensus       462 ~~PDLilIDGGkgQln~--a~~vl~~l~i~~~i~viglaK~~~r~~~~e~~~~~~~~~i~l~~~~~~l~~Lq~iRDEaHR  539 (616)
                      ..|||||+|-.-+.++-  +.+.+++......+||+.++-....... +..+-..-..+...+-.+.--|+.+|+.=..|
T Consensus        50 ~~~dliilD~~mP~~~G~el~~~ir~~~~~~~iPiI~lS~~~~~~~~-~~a~~~Ga~~~l~KP~~~~~eL~~~i~~~l~~  128 (144)
T 3kht_A           50 AKYDLIILDIGLPIANGFEVMSAVRKPGANQHTPIVILTDNVSDDRA-KQCMAAGASSVVDKSSNNVTDFYGRIYAIFSY  128 (144)
T ss_dssp             CCCSEEEECTTCGGGCHHHHHHHHHSSSTTTTCCEEEEETTCCHHHH-HHHHHTTCSEEEECCTTSHHHHHHHHHHHHHH
T ss_pred             CCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCCEEEEECCCCHHHH-HHHHHCCCCEEEECCCCCHHHHHHHHHHHHHH
T ss_conf             79999998699999999999999983787899918999888999999-99998699999969999999999999999998


Q ss_pred             HH
Q ss_conf             78
Q gi|255764496|r  540 FA  541 (616)
Q Consensus       540 FA  541 (616)
                      |-
T Consensus       129 ~~  130 (144)
T 3kht_A          129 WL  130 (144)
T ss_dssp             HH
T ss_pred             HC
T ss_conf             66


No 137
>1zh2_A KDP operon transcriptional regulatory protein KDPE; two-component system, gene regulation, transcription factor, KDP potassium transport system; 2.00A {Escherichia coli} SCOP: c.23.1.1 PDB: 1zh4_A
Probab=30.77  E-value=11  Score=15.60  Aligned_cols=36  Identities=22%  Similarity=0.351  Sum_probs=21.9

Q ss_pred             CCCEEEEECCHHHH---HHHHHHHHHCCCCCCCCEEEEECCCC
Q ss_conf             98489980985899---99999999758877871899971877
Q gi|255764496|r  463 WPDVVILDGGKGQL---SAAQGVLKKLNVENRITIISIAKGPK  502 (616)
Q Consensus       463 ~PDLilIDGGkgQl---n~a~~vl~~l~i~~~i~viglaK~~~  502 (616)
                      .|||||+|=.-+.+   ..+.. ++.   ...+|++-+.-...
T Consensus        45 ~~dlil~D~~mp~~~G~~l~~~-ir~---~~~ipiI~lt~~~~   83 (121)
T 1zh2_A           45 KPDLIILDLGLPDGDGIEFIRD-LRQ---WSAVPVIVLSARSE   83 (121)
T ss_dssp             CCSEEEEESEETTEEHHHHHHH-HHT---TCCCCEEEEESCCS
T ss_pred             CCCEEEEECCCCCCCHHHHHHH-HHH---HCCCEEEEEECCCC
T ss_conf             9999998099999897999999-997---47990999978599


No 138
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A 3mab_A
Probab=30.43  E-value=20  Score=13.78  Aligned_cols=31  Identities=23%  Similarity=0.329  Sum_probs=17.5

Q ss_pred             CCCHHCCCCCCHHHHHHHHHHHC--CHHHHHHCC
Q ss_conf             77100488879899999999808--889899389
Q gi|255764496|r  554 YSPLDEINGIGPLRKRLLLQSFG--TVKMISRSS  585 (616)
Q Consensus       554 ~S~Ld~I~GIG~k~~~~Ll~~Fg--s~~~i~~As  585 (616)
                      -|.|.++|+|||+..+.|-+ -|  |++.++...
T Consensus         3 m~~L~~LPNig~~~e~~L~~-iGI~~~~~L~~~g   35 (93)
T 3bqs_A            3 LANLSELPNIGKVLEQDLIK-AGIKTPVELKDVG   35 (93)
T ss_dssp             CSCGGGSTTCCHHHHHHHHH-TTCCSHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHH-CCCCCHHHHHHCC
T ss_conf             67772489999999999999-3999899998679


No 139
>1jlj_A Gephyrin; globular alpha/beta fold, structural protein; 1.60A {Homo sapiens} SCOP: c.57.1.1 PDB: 1ihc_A
Probab=29.94  E-value=21  Score=13.72  Aligned_cols=30  Identities=17%  Similarity=0.336  Sum_probs=22.7

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHH
Q ss_conf             11689989999999977531311123333333345457984899809858
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKG  474 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkg  474 (616)
                      +||...+++.+.+...+                    .-.||||.-||-|
T Consensus        60 pDd~~~I~~~l~~~~~~--------------------~~~DlViTTGGtg   89 (189)
T 1jlj_A           60 PDEIEEIKETLIDWCDE--------------------KELNLILTTGGTG   89 (189)
T ss_dssp             CSCHHHHHHHHHHHHHT--------------------SCCSEEEEESCCS
T ss_pred             CCCHHHHHHHHHHHHHC--------------------CCCCEEEECCCCC
T ss_conf             89789999999998752--------------------3776899767556


No 140
>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase, lyase-transferase COMP; 2.50A {Xanthomonas campestris PV}
Probab=29.11  E-value=21  Score=13.63  Aligned_cols=76  Identities=16%  Similarity=0.094  Sum_probs=37.5

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHH---HHHHHH--HHCCCCCCCCEEEEEC
Q ss_conf             11689989999999977531311123333333345457984899809858999---999999--9758877871899971
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLS---AAQGVL--KKLNVENRITIISIAK  499 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln---~a~~vl--~~l~i~~~i~viglaK  499 (616)
                      -||-..+++++.+-+.++--+-.....+...-..-....||+|++|..-+.++   .+.++-  ..-+.. .+|++.+.-
T Consensus        20 VDD~~~~r~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~dlii~D~~mp~~~G~el~~~ir~~~~~~~~-~~pii~lt~   98 (143)
T 3m6m_D           20 ADDHEANRMVLQRLLEKAGHKVLCVNGAEQVLDAMAEEDYDAVIVDLHMPGMNGLDMLKQLRVMQASGMR-YTPVVVLSA   98 (143)
T ss_dssp             ECSSHHHHHHHHHHHHC--CEEEEESSHHHHHHHHHHSCCSEEEEESCCSSSCHHHHHHHHHHHHHTTCC-CCCEEEEES
T ss_pred             EECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCC-CCEEEEEEC
T ss_conf             9588999999999999879999998999999999752899999983888999889999999862843358-993999978


Q ss_pred             CC
Q ss_conf             87
Q gi|255764496|r  500 GP  501 (616)
Q Consensus       500 ~~  501 (616)
                      ..
T Consensus        99 ~~  100 (143)
T 3m6m_D           99 DV  100 (143)
T ss_dssp             CC
T ss_pred             CC
T ss_conf             89


No 141
>1uz5_A MOEA protein, 402AA long hypothetical molybdopterin biosynthesis MOEA protein; MOEA molybdopterin, MOCF biosynthesis; 2.05A {Pyrococcus horikoshii} SCOP: b.85.6.1 b.103.1.1 c.57.1.2
Probab=28.97  E-value=21  Score=13.61  Aligned_cols=99  Identities=18%  Similarity=0.230  Sum_probs=59.8

Q ss_pred             EEEEECCCCCHHHHHHHHCCCCCC-CCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECC--HHH
Q ss_conf             888516872803232110244445-54116899899999999775313111233333333454579848998098--589
Q gi|255764496|r  399 MVVVGENGFVKNQYRKFNLHPNDV-KTQDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGG--KGQ  475 (616)
Q Consensus       399 ~Vvf~~g~~~K~~YR~f~Ik~~~v-~~~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGG--kgQ  475 (616)
                      .|+=.|+-.-...-+.+....... .-.||...+++.+..-..+                      -|+||+-||  .|.
T Consensus       203 ~i~dsN~~~l~a~l~~~G~~~~~~~~~~D~~~~i~~~i~~~~~~----------------------~DivIttGG~S~G~  260 (402)
T 1uz5_A          203 QIYDINGRALCDAINELGGEGIFMGVARDDKESLKALIEKAVNV----------------------GDVVVISGGASGGT  260 (402)
T ss_dssp             CEECCHHHHHHHHHHHHTSEEEEEEEECSSHHHHHHHHHHHHHH----------------------CSEEEEECCC----
T ss_pred             CEEECCHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHCCCC----------------------CCEEEEECCCCCCC
T ss_conf             68445599999999866972776266685689999987632223----------------------54478754755885


Q ss_pred             HHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCEEEECCCCCEE-EECCCCH
Q ss_conf             9999999997588778718999718776766348981798348-8579989
Q gi|255764496|r  476 LSAAQGVLKKLNVENRITIISIAKGPKRSAGMEKFFVKKGEAL-VLNMRDP  525 (616)
Q Consensus       476 ln~a~~vl~~l~i~~~i~viglaK~~~r~~~~e~~~~~~~~~i-~l~~~~~  525 (616)
                      -..+.++|.++|-   +-+-+++=+..+-+..   -..++.++ -|+-+..
T Consensus       261 ~D~v~~~l~~~G~---~~f~~v~~kPGkP~~~---~~~~~~~v~gLPGnP~  305 (402)
T 1uz5_A          261 KDLTASVIEELGE---VKVHGIAIQPGKPTII---GVIKGKPVFGLPGYPT  305 (402)
T ss_dssp             -CHHHHHHHHHSE---EEEECBSEESCTTCEE---EEETTEEEEEECSSHH
T ss_pred             CHHHHHHHHHCCC---EEEEEEEEECCCCEEE---EECCCCEEEECCCCCH
T ss_conf             2349999997597---7997676870675589---7507756994898858


No 142
>2a7v_A Serine hydroxymethyltransferase; structural genomics, structural genomics consortium, SGC; 2.04A {Homo sapiens} SCOP: c.67.1.4 PDB: 3ou5_A
Probab=27.89  E-value=22  Score=13.48  Aligned_cols=26  Identities=27%  Similarity=0.395  Sum_probs=16.1

Q ss_pred             CCEEEEECC-HH-HHHHHHHHHHHCCCC
Q ss_conf             848998098-58-999999999975887
Q gi|255764496|r  464 PDVVILDGG-KG-QLSAAQGVLKKLNVE  489 (616)
Q Consensus       464 PDLilIDGG-kg-Qln~a~~vl~~l~i~  489 (616)
                      =-|+|||=. +| .=..|..+|+..||.
T Consensus       365 nHlvlvdl~~~g~~G~~a~~~Le~~gI~  392 (490)
T 2a7v_A          365 NHLVLVDLRPKGLDGARAERVLELVSIT  392 (490)
T ss_dssp             SSEEEEECTTTTCCHHHHHHHHHHTTEE
T ss_pred             CEEEEEECCCCCCCHHHHHHHHHHCCEE
T ss_conf             7069985454588678999999986907


No 143
>3lu0_A DNA-directed RNA polymerase subunit alpha; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_A
Probab=27.22  E-value=11  Score=15.80  Aligned_cols=22  Identities=18%  Similarity=0.120  Sum_probs=10.8

Q ss_pred             EEEECCCCHHHHHHHHHHHHHHH
Q ss_conf             37703788789999999999730
Q gi|255764496|r  120 SYFGPFASVDAVEKTINSLQRTF  142 (616)
Q Consensus       120 ~yfGPf~~~~~~~~~l~~l~~~f  142 (616)
                      -+++||..+. +-.+=..|+++.
T Consensus        26 f~i~Ple~G~-g~TlGnaLRRvL   47 (329)
T 3lu0_A           26 VTLEPLERGF-GHTLGNALRRIL   47 (329)
T ss_dssp             EEECCCCTTC-HHHHHHHHHHHT
T ss_pred             EEEECCCCCC-HHHHHHHHHHHH
T ss_conf             9997688862-636688999998


No 144
>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}
Probab=27.11  E-value=23  Score=13.39  Aligned_cols=36  Identities=31%  Similarity=0.428  Sum_probs=23.0

Q ss_pred             CCEEEEEC----------CHH-----HHHHHHHHHHHCCCCCCCCEEEEEC
Q ss_conf             84899809----------858-----9999999999758877871899971
Q gi|255764496|r  464 PDVVILDG----------GKG-----QLSAAQGVLKKLNVENRITIISIAK  499 (616)
Q Consensus       464 PDLilIDG----------Gkg-----Qln~a~~vl~~l~i~~~i~viglaK  499 (616)
                      ||+|+||-          +.+     ++..+...|+.+-...+|||+.+|-
T Consensus       311 ~~~vviDyl~~~~~~~~~~~~~~~~~~i~~i~~~Lk~lA~~~~i~vi~~sq  361 (444)
T 2q6t_A          311 VGLIIIDYLQLMSGPGSGKSGENRQQEIAAISRGLKALARELGIPIIALSQ  361 (444)
T ss_dssp             CCEEEEECGGGCBCC-------CHHHHHHHHHHHHHHHHHHHTSCEEEEEE
T ss_pred             CCEEEEEEHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCEEEEEEC
T ss_conf             785999624542145567764209999999999999999973987999851


No 145
>3f6p_A Transcriptional regulatory protein YYCF; unphosphorelated, receiver domain, cytoplasm, DNA-binding, phosphoprotein, transcription regulation; 1.95A {Bacillus subtilis} PDB: 2zwm_A
Probab=27.06  E-value=23  Score=13.38  Aligned_cols=75  Identities=16%  Similarity=0.085  Sum_probs=34.4

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECC
Q ss_conf             1168998999999997753131112333333334545798489980985899999999997588778718999718
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAAQGVLKKLNVENRITIISIAKG  500 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~a~~vl~~l~i~~~i~viglaK~  500 (616)
                      -||-..+++++.+.+...--+-.....+...-..-....|||||+|=.-+.++-. +.+..+.-...+|++-+.-.
T Consensus         8 VDDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~dlii~D~~mP~~~G~-e~~~~~r~~~~~~ii~lt~~   82 (120)
T 3f6p_A            8 VDDEKPIADILEFNLRKEGYEVHCAHDGNEAVEMVEELQPDLILLDIMLPNKDGV-EVCREVRKKYDMPIIMLTAK   82 (120)
T ss_dssp             ECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTTCCSEEEEETTSTTTHHH-HHHHHHHTTCCSCEEEEEES
T ss_pred             EECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEEEEECCCCCCCHH-HHHHHHHHCCCCCEEEEECC
T ss_conf             9399999999999999889999998999999999971899999982999999999-99999981689958999767


No 146
>3er9_B Poly(A) polymerase catalytic subunit; polyadenylate polymerase, translocation, single tranded RNA poly(A) polymerase, RNA protein complex, processivity, heterodimer; HET: 3AT; 2.06A {Vaccinia virus WR} PDB: 3er8_C* 3erc_C* 2ga9_D* 2gaf_D
Probab=26.82  E-value=20  Score=13.84  Aligned_cols=30  Identities=27%  Similarity=0.414  Sum_probs=21.1

Q ss_pred             EECHHHHHHHHHHCCCCCCCHHHHHHHHHC
Q ss_conf             601258788876137887787999999734
Q gi|255764496|r   26 GKAYNLQKRIKSYMHSNNHTHRITHMISQI   55 (616)
Q Consensus        26 GKaknL~~Rv~syf~~~~~~~k~~~l~~~~   55 (616)
                      |-...++.||-+||.+..+..|+.++..-+
T Consensus        69 ~s~~eIk~RI~~YFsKQ~~~~kiG~i~tIi   98 (479)
T 3er9_B           69 TSASEIKDRILSYFSKQTQTYNIGKLFTII   98 (479)
T ss_dssp             CCHHHHHHHHHHHTTGGGGCCCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCCHHHHHHHHHEEE
T ss_conf             998999999999974054033320002130


No 147
>3nhm_A Response regulator; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus}
Probab=26.67  E-value=23  Score=13.33  Aligned_cols=37  Identities=19%  Similarity=0.233  Sum_probs=22.0

Q ss_pred             CCCCEEEEECCHHHH---HHHHHHHHHCCCCCCCCEEEEEC
Q ss_conf             798489980985899---99999999758877871899971
Q gi|255764496|r  462 SWPDVVILDGGKGQL---SAAQGVLKKLNVENRITIISIAK  499 (616)
Q Consensus       462 ~~PDLilIDGGkgQl---n~a~~vl~~l~i~~~i~viglaK  499 (616)
                      ..|||||+|---+.+   ..+.. ++.......+||+-+.=
T Consensus        46 ~~pdliilD~~mP~~dG~el~~~-ir~~~~~~~iPiI~lT~   85 (133)
T 3nhm_A           46 HPPDVLISDVNMDGMDGYALCGH-FRSEPTLKHIPVIFVSG   85 (133)
T ss_dssp             SCCSEEEECSSCSSSCHHHHHHH-HHHSTTTTTCCEEEEES
T ss_pred             CCCCEEEECCCCCCCCHHHHHHH-HHHCCCCCCCCEEEEEC
T ss_conf             79999997599999999999999-98288889987899707


No 148
>2pl1_A Transcriptional regulatory protein PHOP; CHEY-like fold, response regulator, beryllium fluoride, transcription factor, activated, virulence; 1.90A {Escherichia coli} SCOP: c.23.1.1 PDB: 2pkx_A
Probab=26.57  E-value=24  Score=13.32  Aligned_cols=74  Identities=18%  Similarity=0.229  Sum_probs=34.6

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHH---HHHHHHHHHCCCCCCCCEEEEECCCC
Q ss_conf             168998999999997753131112333333334545798489980985899---99999999758877871899971877
Q gi|255764496|r  426 DDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQL---SAAQGVLKKLNVENRITIISIAKGPK  502 (616)
Q Consensus       426 DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQl---n~a~~vl~~l~i~~~i~viglaK~~~  502 (616)
                      ||-..+++++.+.+...--+-.....+...-..-....|||||+|=.-+.+   ..+. .+++.+-  .+|++-++-...
T Consensus         7 dDd~~~~~~l~~~L~~~G~~v~~a~~~~~al~~l~~~~~dlii~D~~mp~~dG~e~~~-~lr~~~~--~~pii~lt~~~~   83 (121)
T 2pl1_A            7 EDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIPDIAIVDLGLPDEDGLSLIR-RWRSNDV--SLPILVLTARES   83 (121)
T ss_dssp             CSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHSCCSEEEECSCCSSSCHHHHHH-HHHHTTC--CSCEEEEESCCC
T ss_pred             ECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEEEECCCCCCCCCHHHHH-HHHHCCC--CCCEEEEECCCC
T ss_conf             6899999999999998799999989999999996458998999889999987478999-9996399--981899978899


No 149
>3hdv_A Response regulator; PSI-II, structural genomics, protein structure initiative, NEW YORK SGX research center for structural genomics; 2.09A {Pseudomonas putida KT2440}
Probab=26.54  E-value=24  Score=13.32  Aligned_cols=75  Identities=15%  Similarity=0.086  Sum_probs=33.6

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC-CCCCCCCEEEEECCHHHHHHH--HHHHHHCCCCCCCCEEEEECC
Q ss_conf             1168998999999997753131112333333334-545798489980985899999--999997588778718999718
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEY-SFPSWPDVVILDGGKGQLSAA--QGVLKKLNVENRITIISIAKG  500 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~-~~~~~PDLilIDGGkgQln~a--~~vl~~l~i~~~i~viglaK~  500 (616)
                      .||-..+++++.+.+...--+-.....+...... .....|||||+|..-+.++-.  .+.++...- ..+|++-+.-.
T Consensus        13 VDD~~~~r~~l~~~L~~~G~~v~~a~~~~~a~~~l~~~~~~dlii~D~~mP~~~G~el~~~ir~~~~-~~~piI~lT~~   90 (136)
T 3hdv_A           13 VDDNAVNREALILYLKSRGIDAVGADGAEEARLYLHYQKRIGLMITDLRMQPESGLDLIRTIRASER-AALSIIVVSGD   90 (136)
T ss_dssp             ECSCHHHHHHHHHHHHHTTCCEEEESSHHHHHHHHHHCTTEEEEEECSCCSSSCHHHHHHHHHTSTT-TTCEEEEEESS
T ss_pred             EECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHCCC-CCCEEEEEECC
T ss_conf             9799999999999999879999998999999999975799988998798999989999999995579-99919999888


No 150
>2db7_A Hairy/enhancer-OF-split related with YRPW motif 1; structural genomics, unknown function, DNA binding protein, NPPSFA; 1.90A {Homo sapiens} SCOP: a.273.1.1
Probab=26.48  E-value=18  Score=14.19  Aligned_cols=44  Identities=18%  Similarity=0.199  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHH-HHHHHH--CCCCHHCCCCCCHH--HHHHHHHHHCCHH
Q ss_conf             77887889899-864321--47710048887989--9999999808889
Q gi|255764496|r  536 EAHRFAITTHR-KRRKKA--AYSPLDEINGIGPL--RKRLLLQSFGTVK  579 (616)
Q Consensus       536 EaHRFAi~~hR-k~r~k~--~~S~Ld~I~GIG~k--~~~~Ll~~Fgs~~  579 (616)
                      .+|.+|..|+. -=+.=+  ....|..++||.+.  .+.+||.|..+--
T Consensus        11 d~~~~a~~yra~GF~ECa~EVsRyL~~~eg~d~~d~~r~RLl~HL~~C~   59 (64)
T 2db7_A           11 DAHALAMDYRSLGFRECLAEVARYLSIIEGLDASDPLRVRLVSHLNNYA   59 (64)
T ss_dssp             CHHHHHHTHHHHHHHHHHHHHHHHHHHTSCCCTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             8799999999704999999999995036888976389999999999999


No 151
>3n2l_A OPRT, oprtase, orotate phosphoribosyltransferase; pyrimidine ribonucleotide biosynthesis, infectious diseases; 2.10A {Vibrio cholerae}
Probab=26.22  E-value=22  Score=13.49  Aligned_cols=32  Identities=41%  Similarity=0.558  Sum_probs=25.4

Q ss_pred             EEEEE---CCHHHHHHHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             89980---9858999999999975887787189997187
Q gi|255764496|r  466 VVILD---GGKGQLSAAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       466 LilID---GGkgQln~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      ++++|   ||+..++++.+++++.|    |++.+|++-.
T Consensus       176 ~vivDR~~gg~~~~~a~~~~~~~~g----i~~~Sl~tl~  210 (238)
T 3n2l_A          176 LVAIDRQEKGKGELSAIQEVERDFG----CAVISIVSLT  210 (238)
T ss_dssp             EEEEECCCBCSSSSBHHHHHHHHHC----CEEEEEEEHH
T ss_pred             EEEEECCCCCCCCHHHHHHHHHHCC----CEEEEEEEHH
T ss_conf             9986502155420228999999749----8299981399


No 152
>3cnb_A DNA-binding response regulator, MERR family; signal receiver domain, DNA binding protein, protein structure initiative, PSI-2; 2.00A {Colwellia psychrerythraea 34H}
Probab=25.72  E-value=24  Score=13.21  Aligned_cols=74  Identities=18%  Similarity=0.147  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCC--CCCCCCCCCCCCCCCCCEEEEECCHHHH---HHHHHHHHHCCCCCCCCEEEEECC
Q ss_conf             16899899999999775313111--2333333334545798489980985899---999999997588778718999718
Q gi|255764496|r  426 DDCAMMRMVLERRFSQLIKNEEN--LNFHPKKQEYSFPSWPDVVILDGGKGQL---SAAQGVLKKLNVENRITIISIAKG  500 (616)
Q Consensus       426 DD~~~m~Evi~RR~~r~~~~~~~--l~~~~~~~~~~~~~~PDLilIDGGkgQl---n~a~~vl~~l~i~~~i~viglaK~  500 (616)
                      ||-..+++++.+-+.++...-+-  ...+...-..-....|||||+|---+.+   ..+.+ ++...-...+||+.+.-.
T Consensus        15 DD~~~~~~~l~~~L~~~~~~~~v~~a~~g~eAl~~~~~~~pDlillD~~mP~~dG~el~~~-ir~~~~~~~ipvI~lt~~   93 (143)
T 3cnb_A           15 EDDKEFADMLTQFLENLFPYAKIKIAYNPFDAGDLLHTVKPDVVMLDLMMVGMDGFSICHR-IKSTPATANIIVIAMTGA   93 (143)
T ss_dssp             CSCHHHHHHHHHHHHHHCTTCEEEEECSHHHHHHHHHHTCCSEEEEETTCTTSCHHHHHHH-HHTSTTTTTSEEEEEESS
T ss_pred             ECCHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHH-HHHCCCCCCCEEEEEECC
T ss_conf             1999999999999982789808999899999999997279999998088899986999999-984788899849999848


No 153
>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics, protein structure initiative; 2.89A {Clostridium difficile 630}
Probab=25.19  E-value=20  Score=13.81  Aligned_cols=35  Identities=14%  Similarity=0.326  Sum_probs=20.4

Q ss_pred             CCCCEEEEE----CCHHHHHHHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             798489980----9858999999999975887787189997187
Q gi|255764496|r  462 SWPDVVILD----GGKGQLSAAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       462 ~~PDLilID----GGkgQln~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      ..|||||+|    |+-| +..+.+ +.+.   ..+|++-++-..
T Consensus        47 ~~~dlillD~~mP~~dG-~el~~~-~~~~---~~~piI~lt~~~   85 (136)
T 2qzj_A           47 NKYDLIFLEIILSDGDG-WTLCKK-IRNV---TTCPIVYMTYIN   85 (136)
T ss_dssp             CCCSEEEEESEETTEEH-HHHHHH-HHTT---CCCCEEEEESCC
T ss_pred             CCCCEEEECCCCCCCCC-HHHHHH-HHHC---CCCCEEEEEEEC
T ss_conf             79999997799989986-079999-9836---999899999628


No 154
>1xl7_A COT, peroxisomal carnitine O-octanoyltransferase; selenomethionine, hepes; HET: EPE; 2.00A {Mus musculus} SCOP: c.43.1.3 c.43.1.3 PDB: 1xl8_A* 1xmd_A* 1xmc_A*
Probab=23.64  E-value=27  Score=12.95  Aligned_cols=34  Identities=15%  Similarity=0.148  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHH
Q ss_conf             58999999999999863-----------33888888999999998
Q gi|255764496|r  196 HNLKEKIARNMNQATLK-----------EDYESAIIHRDRLAALS  229 (616)
Q Consensus       196 ~~ii~~L~~~M~~aS~~-----------l~FE~Aa~~RD~I~aL~  229 (616)
                      .++...|+.-+..++..           ++-...|..|..+.++.
T Consensus       215 ~el~~ql~~I~~~~~~~~~~~~vg~LTt~~R~~Wa~~R~~L~~~~  259 (612)
T 1xl7_A          215 PELLRQLTYIHKKCSNEPVGPSIAALTSEERTRWAKAREYLISLD  259 (612)
T ss_dssp             HHHHHHHHHHHHHHHTSCCCCCGGGGGGSCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCC
T ss_conf             999999999996254578888856045776119999999976079


No 155
>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A {Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A
Probab=23.63  E-value=27  Score=12.95  Aligned_cols=40  Identities=13%  Similarity=0.316  Sum_probs=23.7

Q ss_pred             CCCCCEEEEECCHHH---HHHHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             579848998098589---99999999975887787189997187
Q gi|255764496|r  461 PSWPDVVILDGGKGQ---LSAAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       461 ~~~PDLilIDGGkgQ---ln~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      ...|||||+|---+.   +..+..+-+.-.. ..|||+-+.-..
T Consensus        59 ~~~pdlillD~~mP~~~G~el~~~ir~~~~~-~~iPvI~lT~~~  101 (149)
T 1i3c_A           59 SPRPNLILLDLNLPKKDGREVLAEIKQNPDL-KRIPVVVLTTSH  101 (149)
T ss_dssp             CCCCSEEEECSCCSSSCHHHHHHHHHHCTTT-TTSCEEEEESCC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHCCCC-CCCCEEEEECCC
T ss_conf             6898889984899998649999999858044-799889995689


No 156
>1qkk_A DCTD, C4-dicarboxylate transport transcriptional regulatory protein; receiver domain, 2-component signal transduction; 1.7A {Sinorhizobium meliloti} SCOP: c.23.1.1 PDB: 1l5z_A 1l5y_A
Probab=23.30  E-value=27  Score=12.90  Aligned_cols=73  Identities=11%  Similarity=0.068  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHH---HHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             1689989999999977531311123333333345457984899809858999---999999975887787189997187
Q gi|255764496|r  426 DDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLS---AAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       426 DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln---~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      ||=..+++.+.+-+.+.--.-.....+......-....||+||+|=.-+.++   .+.+ +++.+-  .+|||-+.-..
T Consensus        10 DDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~dliilD~~mP~~dGle~~~~-ir~~~~--~~pvI~lT~~~   85 (155)
T 1qkk_A           10 DDDRDLRKAMQQTLELAGFTVSSFASATEALAGLSADFAGIVISDIRMPGMDGLALFRK-ILALDP--DLPMILVTGHG   85 (155)
T ss_dssp             CSCHHHHHHHHHHHHHTTCEEEEESCHHHHHHTCCTTCCSEEEEESCCSSSCHHHHHHH-HHHHCT--TSCEEEEECGG
T ss_pred             ECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEEECCCCCCCCCHHHHHHH-HHHHCC--CCCEEEEECCC
T ss_conf             59999999999999987998999789999999853269877765457899989999999-997298--99489897989


No 157
>2is8_A Molybdopterin biosynthesis enzyme, MOAB; globular alpha/beta fold, structural genomics, NPPSFA; 1.64A {Thermus thermophilus HB8}
Probab=23.16  E-value=27  Score=12.88  Aligned_cols=42  Identities=19%  Similarity=0.327  Sum_probs=24.4

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCH--HHHHHHHHHHHHC
Q ss_conf             1168998999999997753131112333333334545798489980985--8999999999975
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGK--GQLSAAQGVLKKL  486 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGk--gQln~a~~vl~~l  486 (616)
                      +||...+.+++......                    .-.||||.-||.  |+-....+++.++
T Consensus        44 ~Dd~~~i~~~l~~~~~~--------------------~~~DlVittGG~g~~~~D~t~~ai~~~   87 (164)
T 2is8_A           44 PDEPPMIKKVLRLWADR--------------------EGLDLILTNGGTGLAPRDRTPEATREL   87 (164)
T ss_dssp             CSCHHHHHHHHHHHHHT--------------------SCCSEEEEESCCSSSTTCCHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHC--------------------CCCCEEEECCCCCCCCCCCCHHHHHHH
T ss_conf             98889999999999845--------------------498689967861389985658889998


No 158
>3h5i_A Response regulator/sensory box protein/ggdef domain protein; structural genomics, transcription, PSI-2; 1.90A {Carboxydothermus hydrogenoformans z-2901}
Probab=22.90  E-value=20  Score=13.76  Aligned_cols=73  Identities=10%  Similarity=0.146  Sum_probs=34.8

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC-CCCCCCCCCCEEEEECCH----HHHHHHHHHHHHCCCCCCCCEEEEEC
Q ss_conf             1168998999999997753131112333333-334545798489980985----89999999999758877871899971
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNEENLNFHPKK-QEYSFPSWPDVVILDGGK----GQLSAAQGVLKKLNVENRITIISIAK  499 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~-~~~~~~~~PDLilIDGGk----gQln~a~~vl~~l~i~~~i~viglaK  499 (616)
                      -||-..+++++.+-+++.--+-.....+... ........|||||+|=.-    .=+..+..+ .+.  . .+||+-+.-
T Consensus        11 VDD~~~~~~~l~~~L~~~g~~v~~a~~g~eAl~~l~~~~~~dlillD~~mp~g~dG~e~~~~i-r~~--~-~~PvI~lT~   86 (140)
T 3h5i_A           11 VEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKVSGGWYPDLILMDIELGEGMDGVQTALAI-QQI--S-ELPVVFLTA   86 (140)
T ss_dssp             ECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHTTCCCSEEEEESSCSSSCCHHHHHHHH-HHH--C-CCCEEEEES
T ss_pred             EECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCCEEEEECCCCCCCCHHHHHHHH-HHC--C-CCCEEEEEC
T ss_conf             959899999999999987999999898999999998469998999726653357899999999-856--9-998999989


Q ss_pred             CC
Q ss_conf             87
Q gi|255764496|r  500 GP  501 (616)
Q Consensus       500 ~~  501 (616)
                      ..
T Consensus        87 ~~   88 (140)
T 3h5i_A           87 HT   88 (140)
T ss_dssp             SS
T ss_pred             CC
T ss_conf             99


No 159
>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92, PSI-2; 2.10A {Neptuniibacter caesariensis}
Probab=22.75  E-value=28  Score=12.83  Aligned_cols=74  Identities=18%  Similarity=0.003  Sum_probs=37.1

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHH--HHHHHHCCCCCCCCEEEEECC
Q ss_conf             1168998999999997753131112333333334545798489980985899999--999997588778718999718
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLSAA--QGVLKKLNVENRITIISIAKG  500 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln~a--~~vl~~l~i~~~i~viglaK~  500 (616)
                      .||-..+++.+.+.+.+.--+-.....+......-....|||||+|=.-+.++-.  .+.+++..-  .+|+|=+.-.
T Consensus        13 VDDd~~~~~~l~~~L~~~g~~v~~a~~~~~Al~~l~~~~~dliilD~~mp~~~G~~~l~~ir~~~~--~~piI~lt~~   88 (154)
T 2rjn_A           13 VDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTSVQLVISDMRMPEMGGEVFLEQVAKSYP--DIERVVISGY   88 (154)
T ss_dssp             ECSCHHHHHHHHHHHHTTTCEEEEESCHHHHHHHHTTSCCSEEEEESSCSSSCHHHHHHHHHHHCT--TSEEEEEECG
T ss_pred             EECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEEEECCCCCCCCCHHHHHHHHHHCC--CCCEEEEECC
T ss_conf             979999999999999987998999899999999986289988996688888881899999998588--9978999866


No 160
>2a9o_A Response regulator; essential protein, YYCF/YYCG homolog, signaling protein; 1.65A {Streptococcus pneumoniae} SCOP: c.23.1.1 PDB: 1nxo_A 1nxs_A 1nxv_A 1nxw_A 1nxx_A 1nxp_A 2a9p_A 2a9q_A 1nxt_A* 2a9r_A*
Probab=22.69  E-value=16  Score=14.49  Aligned_cols=36  Identities=25%  Similarity=0.410  Sum_probs=19.8

Q ss_pred             CCCEEEEECCHHH---HHHHHHHHHHCCCCCCCCEEEEECCCC
Q ss_conf             9848998098589---999999999758877871899971877
Q gi|255764496|r  463 WPDVVILDGGKGQ---LSAAQGVLKKLNVENRITIISIAKGPK  502 (616)
Q Consensus       463 ~PDLilIDGGkgQ---ln~a~~vl~~l~i~~~i~viglaK~~~  502 (616)
                      .|||||+|=.-+.   +..+.+ +...   ..+|++-+.-...
T Consensus        45 ~~dliilD~~mp~~dG~~~l~~-~~~~---~~~pvi~lt~~~~   83 (120)
T 2a9o_A           45 QPDIIILDLMLPEIDGLEVAKT-IRKT---SSVPILMLSAKDS   83 (120)
T ss_dssp             CCSEEEECSSCSSSCHHHHHHH-HHHH---CCCCEEEEESCCS
T ss_pred             CCCEEEECCCCCCCCHHHHHHH-HHHC---CCCCEEEEECCCC
T ss_conf             9989998299999899999999-8865---9981999979899


No 161
>3opy_B 6-phosphofructo-1-kinase beta-subunit; ATP binding, fructose-6-phosphate bindi magnesium binding, citrate binding, ADP binding; HET: ATP; 3.05A {Pichia pastoris}
Probab=22.29  E-value=28  Score=12.77  Aligned_cols=37  Identities=22%  Similarity=0.160  Sum_probs=26.6

Q ss_pred             CCEEEEECCHHHHHHHHHHHHHCCCC--CCCCEEEEECC
Q ss_conf             84899809858999999999975887--78718999718
Q gi|255764496|r  464 PDVVILDGGKGQLSAAQGVLKKLNVE--NRITIISIAKG  500 (616)
Q Consensus       464 PDLilIDGGkgQln~a~~vl~~l~i~--~~i~viglaK~  500 (616)
                      =|-+++=||=|=+..|.+.-++..-.  ..|||+||-|-
T Consensus       663 Id~LivIGGdgS~~~a~~L~~~~~~~~~~~I~vVgIPkT  701 (941)
T 3opy_B          663 FDGLILVGGFEAFISLHQLERARINYPSLRIPLVLIPAT  701 (941)
T ss_dssp             CSEEEEEESHHHHHHHHHHHHGGGTCGGGCSCEEEEEBC
T ss_pred             CCEEEEECCHHHHHHHHHHHHHHHHCCCCCCCEEEECCC
T ss_conf             997999167589999999999775424679737971144


No 162
>2a6h_A DNA-directed RNA polymerase alpha chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: d.74.3.1 d.181.1.1 PDB: 1smy_A* 1zyr_A* 1iw7_A* 2a69_A* 2a6e_A 2a68_A* 2be5_A* 2cw0_A 2o5i_A 2o5j_A* 2ppb_A* 3dxj_A* 3eql_A* 1i6v_A* 1ynj_A* 1l9z_A 1l9u_A* 1ynn_A* 2gho_A 1hqm_A ...
Probab=22.28  E-value=15  Score=14.71  Aligned_cols=39  Identities=15%  Similarity=0.082  Sum_probs=17.1

Q ss_pred             CCCCEEEEEECCCCCCCEEEECCCCHHHHHHHHHHHHHHH
Q ss_conf             9984599981235678437703788789999999999730
Q gi|255764496|r  103 HKIPALYKHRDSSTIQGSYFGPFASVDAVEKTINSLQRTF  142 (616)
Q Consensus       103 ~~~p~l~~~r~~~~~~~~yfGPf~~~~~~~~~l~~l~~~f  142 (616)
                      -++|.+...-....-+.-+.|||..+. +..+=..|+++.
T Consensus         6 ~~~~~~~~~~~~~~Yg~F~i~Pl~~G~-g~TlGnaLRRvL   44 (315)
T 2a6h_A            6 LKAPVFTVRTQGREYGEFVLEPLERGF-GVTLGNPLRRIL   44 (315)
T ss_dssp             TSCCEEEEEEETTTEEEEEEEEECTTC-HHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCEEEEEEECCCCCC-HHHHHHHHHHHH
T ss_conf             688566888668856899996688972-304678999999


No 163
>2ixs_A SDAI restriction endonuclease; hydrolase, domain architecture; HET: EPE; 2.0A {Streptomyces diastaticus}
Probab=22.05  E-value=28  Score=12.73  Aligned_cols=18  Identities=11%  Similarity=-0.044  Sum_probs=12.6

Q ss_pred             EEEECCCCCHHHHHHHHC
Q ss_conf             885168728032321102
Q gi|255764496|r  400 VVVGENGFVKNQYRKFNL  417 (616)
Q Consensus       400 Vvf~~g~~~K~~YR~f~I  417 (616)
                      ++|...-++++.+|+|--
T Consensus       275 lvfVTAF~dR~~fkk~~~  292 (323)
T 2ixs_A          275 LVFVNCFENREAMRQWLP  292 (323)
T ss_dssp             EEEEEEESSHHHHGGGGG
T ss_pred             EEEEEECCCHHHHHHHHH
T ss_conf             699985689899999999


No 164
>1m3q_A 8-oxoguanine DNA glycosylase; DNA repair, END product, HOGG, 8-aminoguanine, RE-ligation, hydrolase/DNA complex; HET: DRZ ANG; 1.90A {Homo sapiens} SCOP: a.96.1.3 d.129.1.2 PDB: 1m3h_A* 1n39_A* 1lwy_A* 1hu0_A* 1lwv_A* 1lww_A* 1fn7_A* 1n3a_A* 1n3c_A* 1ebm_A* 1ko9_A 2noe_A* 2noh_A* 2nol_A* 3ktu_A* 1yqk_A 2noz_A* 2nof_A* 1yqr_A* 1yql_A* ...
Probab=21.46  E-value=29  Score=12.65  Aligned_cols=16  Identities=19%  Similarity=0.220  Sum_probs=8.4

Q ss_pred             CCHHCCCCCCHHHHHH
Q ss_conf             7100488879899999
Q gi|255764496|r  555 SPLDEINGIGPLRKRL  570 (616)
Q Consensus       555 S~Ld~I~GIG~k~~~~  570 (616)
                      ..|..||||||++..-
T Consensus       230 ~~L~~l~GIG~wtAd~  245 (317)
T 1m3q_A          230 KALCILPGVGTKVADC  245 (317)
T ss_dssp             HHHTTSTTCCHHHHHH
T ss_pred             HHHHHCCCCCHHHHHH
T ss_conf             9998548948899999


No 165
>2rhf_A DNA helicase RECQ; HRDC, D. radiodurans, ATP-binding, hydrolase, nucleotide-binding; HET: DNA; 1.10A {Deinococcus radiodurans R1}
Probab=21.39  E-value=29  Score=12.64  Aligned_cols=47  Identities=21%  Similarity=0.333  Sum_probs=23.1

Q ss_pred             CHHHHHHHHHHHHH------HHHHHHHHHHHHH---HH--CCCCHHCCCCCCHHHHHH
Q ss_conf             89999999887877------8878898998643---21--477100488879899999
Q gi|255764496|r  524 DPILYFIQRLRDEA------HRFAITTHRKRRK---KA--AYSPLDEINGIGPLRKRL  570 (616)
Q Consensus       524 ~~~l~~Lq~iRDEa------HRFAi~~hRk~r~---k~--~~S~Ld~I~GIG~k~~~~  570 (616)
                      .+++.-|...|.+-      ..|.|-....++.   ..  ....|.+|+|||+++.++
T Consensus         5 ~~L~~~L~~~R~~~A~~~~vp~~~I~~d~~L~~ia~~~P~t~~eL~~I~Gig~~k~~~   62 (77)
T 2rhf_A            5 ADLSEALRELRRELMKETGYSAFVVFTNATLEALAARQPRTLAELAEVPGLGEKRIEA   62 (77)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCHHHHCCHHHHHHHHHHCCCSHHHHTTSTTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCEEEECHHHHHHHHHHCCCCHHHHHCCCCCCHHHHHH
T ss_conf             9999999999999998769896565789999999983978999980799979999999


No 166
>2x8r_A Glycosyl hydrolase; peptidoglycan cleavage, endo-N-acetylmuramidases, motif; 1.70A {Aspergillus fumigatus}
Probab=21.32  E-value=29  Score=12.63  Aligned_cols=14  Identities=29%  Similarity=0.275  Sum_probs=7.8

Q ss_pred             CEEEEECCHHHHHH
Q ss_conf             48998098589999
Q gi|255764496|r  465 DVVILDGGKGQLSA  478 (616)
Q Consensus       465 DLilIDGGkgQln~  478 (616)
                      ||=+..|...||..
T Consensus       193 D~n~f~G~~~~l~~  206 (210)
T 2x8r_A          193 DSDKFNGPMTQLRK  206 (210)
T ss_dssp             EEEEEESCHHHHHH
T ss_pred             CCCEECCCHHHHHH
T ss_conf             75656799999998


No 167
>1wud_A ATP-dependent DNA helicase RECQ; DNA-binding domain, HRDC, hydrolase; 2.20A {Escherichia coli} SCOP: a.60.8.1
Probab=21.12  E-value=30  Score=12.60  Aligned_cols=14  Identities=21%  Similarity=0.432  Sum_probs=7.1

Q ss_pred             CHHCCCCCCHHHHH
Q ss_conf             10048887989999
Q gi|255764496|r  556 PLDEINGIGPLRKR  569 (616)
Q Consensus       556 ~Ld~I~GIG~k~~~  569 (616)
                      .|..|+|||+++.+
T Consensus        56 eL~~I~Gvg~~k~~   69 (89)
T 1wud_A           56 EMLSVNGVGMRKLE   69 (89)
T ss_dssp             HHHTSTTCCHHHHH
T ss_pred             HHCCCCCCCHHHHH
T ss_conf             98079998999999


No 168
>3heb_A Response regulator receiver domain protein (CHEY); NYSGXRC, PSI-II, respose regulator, protein structure initiative; 2.40A {Rhodospirillum rubrum atcc 11170}
Probab=20.92  E-value=30  Score=12.58  Aligned_cols=40  Identities=13%  Similarity=0.205  Sum_probs=23.6

Q ss_pred             CCCCCEEEEECCHHHH---HHHHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             5798489980985899---9999999975887787189997187
Q gi|255764496|r  461 PSWPDVVILDGGKGQL---SAAQGVLKKLNVENRITIISIAKGP  501 (616)
Q Consensus       461 ~~~PDLilIDGGkgQl---n~a~~vl~~l~i~~~i~viglaK~~  501 (616)
                      ...|||||+|-.-+.+   ..+. .+++..-...+||+-+.-..
T Consensus        57 ~~~~dlIilD~~mP~~dG~el~~-~ir~~~~~~~iPvI~lTa~~   99 (152)
T 3heb_A           57 AGRAQLVLLDLNLPDMTGIDILK-LVKENPHTRRSPVVILTTTD   99 (152)
T ss_dssp             TTCBEEEEECSBCSSSBHHHHHH-HHHHSTTTTTSCEEEEESCC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHH-HHHHCCCCCCCCEEEEECCC
T ss_conf             06999899868999998899999-99848777999589997769


No 169
>2i2c_A Probable inorganic polyphosphate/ATP-NAD kinase 1; NADP bound of lmnadk1, transferase; HET: DTA PG4; 1.85A {Listeria monocytogenes egd-e} PDB: 2i1w_A* 2i2a_A* 2i2b_A* 2i29_A* 2i2d_A* 2i2e_A* 2i2f_A* 2q5f_A*
Probab=20.69  E-value=30  Score=12.54  Aligned_cols=12  Identities=25%  Similarity=0.205  Sum_probs=5.2

Q ss_pred             HHHHHHHHHHHH
Q ss_conf             888889999999
Q gi|255764496|r  216 ESAIIHRDRLAA  227 (616)
Q Consensus       216 E~Aa~~RD~I~a  227 (616)
                      |+|..++.+|..
T Consensus        11 ~~s~~i~~~i~~   22 (272)
T 2i2c_A           11 EKSDLLRLNMIA   22 (272)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
T ss_conf             899999999999


No 170
>3gt7_A Sensor protein; structural genomics, signal receiver domain, kinase, PSI-2, protein structure initiative; 2.30A {Syntrophus aciditrophicus SB}
Probab=20.34  E-value=31  Score=12.49  Aligned_cols=75  Identities=12%  Similarity=0.100  Sum_probs=36.3

Q ss_pred             CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHH---HHHHHHHHCCCCCCCCEEEEECC
Q ss_conf             11689989999999977531311123333333345457984899809858999---99999997588778718999718
Q gi|255764496|r  425 QDDCAMMRMVLERRFSQLIKNEENLNFHPKKQEYSFPSWPDVVILDGGKGQLS---AAQGVLKKLNVENRITIISIAKG  500 (616)
Q Consensus       425 ~DD~~~m~Evi~RR~~r~~~~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQln---~a~~vl~~l~i~~~i~viglaK~  500 (616)
                      .||-..+++++.+.+...-=+-.....+...-..-....|||||+|---+.++   .+..+-..... ..+|||-|.-.
T Consensus        13 VDDd~~~~~~l~~~L~~~G~~v~~a~~~~~al~~l~~~~~DlillD~~mP~~dG~el~~~ir~~~~~-~~iPiI~lTa~   90 (154)
T 3gt7_A           13 VEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSLTRPDLIISDVLMPEMDGYALCRWLKGQPDL-RTIPVILLTIL   90 (154)
T ss_dssp             ECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHTTCCCSEEEEESCCSSSCHHHHHHHHHHSTTT-TTSCEEEEECC
T ss_pred             EECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHCCCC-CCCEEEEEECC
T ss_conf             9799999999999999879999998999999999983899999980899999887999999858455-79959999826


No 171
>1k68_A Phytochrome response regulator RCPA; phosphorylated aspartate, CHEY homologue, homodimer, (beta/alpha)5, signaling protein; HET: PHD; 1.90A {Tolypothrix SP} SCOP: c.23.1.1
Probab=20.10  E-value=31  Score=12.46  Aligned_cols=75  Identities=13%  Similarity=0.239  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHHHHHHHHC---------CCCCCCCCCCCCCCCCCCCCCEEEEECCHHH---HHHHHHHHHHCCCCCCCC
Q ss_conf             1689989999999977531---------3111233333333454579848998098589---999999999758877871
Q gi|255764496|r  426 DDCAMMRMVLERRFSQLIK---------NEENLNFHPKKQEYSFPSWPDVVILDGGKGQ---LSAAQGVLKKLNVENRIT  493 (616)
Q Consensus       426 DD~~~m~Evi~RR~~r~~~---------~~~~l~~~~~~~~~~~~~~PDLilIDGGkgQ---ln~a~~vl~~l~i~~~i~  493 (616)
                      ||-..+++++.+-+.+.--         .++.+..-...........|||||+|-.-+.   +..+..+-..-.. ..||
T Consensus         9 dDd~~~~~~l~~~L~~~g~~~~v~~a~~g~eAl~~l~~~~~~~~~~~pdliilD~~mP~~dG~el~~~ir~~~~~-~~iP   87 (140)
T 1k68_A            9 EDNKADIRLIQEALANSTVPHEVVTVRDGMEAMAYLRQEGEYANASRPDLILLXLNLPKKDGREVLAEIKSDPTL-KRIP   87 (140)
T ss_dssp             CCCHHHHHHHHHHHHTCSSCCEEEEECSHHHHHHHHTTCGGGGSCCCCSEEEECSSCSSSCHHHHHHHHHHSTTG-GGSC
T ss_pred             ECCHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHCCCC-CCCC
T ss_conf             799999999999999679981899989999999999862454404799689998899998559999999838665-8998


Q ss_pred             EEEEECCC
Q ss_conf             89997187
Q gi|255764496|r  494 IISIAKGP  501 (616)
Q Consensus       494 viglaK~~  501 (616)
                      |+-+.-..
T Consensus        88 vi~ls~~~   95 (140)
T 1k68_A           88 VVVLSTSI   95 (140)
T ss_dssp             EEEEESCC
T ss_pred             EEEEECCC
T ss_conf             99995789


Done!