Query         gi|254780762|ref|YP_003065175.1| recombination protein RecR [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 201
No_of_seqs    130 out of 1674
Neff          5.3 
Searched_HMMs 33803
Date          Wed Jun  1 14:08:27 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780762.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >1vdd_A Recombination protein  100.0 3.3E-43       0  311.5   6.6  109   70-180     1-109 (109)
  2 >1vdd_A Recombination protein   99.8 1.4E-18 4.2E-23  145.9   7.8   64    6-69      3-66  (66)
  3 >1mw9_X DNA topoisomerase I; d  96.7  0.0033 9.8E-08   42.6   5.2   97   83-199     3-99  (100)
  4 >1cuk_A RUVA protein; DNA repa  96.5  0.0021 6.2E-08   43.9   3.2   32    5-36     28-64  (79)
  5 >2ztd_A Holliday junction ATP-  96.3  0.0029 8.5E-08   43.0   3.2   33    5-37     29-66  (75)
  6 >1ixr_A Holliday junction DNA   96.1  0.0044 1.3E-07   41.7   3.0   24   14-37    106-129 (191)
  7 >1gku_B Reverse gyrase, TOP-RG  95.3   0.045 1.3E-06   34.9   5.8   54  137-199   167-220 (221)
  8 >3i0w_A 8-oxoguanine-DNA-glyco  94.6   0.041 1.2E-06   35.2   3.8   31    9-39     27-57  (58)
  9 >2h56_A DNA-3-methyladenine gl  94.2   0.034   1E-06   35.7   2.9   34    7-40     53-86  (156)
 10 >1nui_A DNA primase/helicase;   94.1    0.17 4.9E-06   31.1   6.2   86   76-171     7-94  (118)
 11 >3fsp_A A/G-specific adenine g  93.9   0.049 1.4E-06   34.7   3.2   31   10-40     80-110 (110)
 12 >3fhf_A Mjogg, N-glycosylase/D  93.9   0.053 1.6E-06   34.5   3.3   30    7-36     80-109 (113)
 13 >2gai_A DNA topoisomerase I; z  93.3    0.15 4.5E-06   31.4   4.8   95   83-199     6-100 (100)
 14 >1i7d_A DNA topoisomerase III;  93.0    0.17   5E-06   31.1   4.7  108   84-199     2-150 (152)
 15 >2w9m_A Polymerase X; SAXS, DN  93.0     0.1   3E-06   32.5   3.5   58    7-64     48-106 (118)
 16 >2au3_A DNA primase; zinc ribb  92.4    0.59 1.8E-05   27.4   6.8   88   80-183    18-105 (125)
 17 >2abk_A Endonuclease III; DNA-  92.2    0.16 4.6E-06   31.3   3.7   31    9-39     81-111 (111)
 18 >1kea_A Possible G-T mismatche  92.1    0.11 3.3E-06   32.3   2.8   29   10-38     82-110 (111)
 19 >1orn_A Endonuclease III; DNA   92.1    0.14 4.2E-06   31.6   3.4   31    9-39     80-110 (110)
 20 >2fcj_A Small toprim domain pr  91.8     1.2 3.4E-05   25.5   8.5  101   80-197     2-103 (119)
 21 >2nrt_A Uvrabc system protein   91.7    0.22 6.5E-06   30.3   3.9   38    8-45      5-48  (64)
 22 >1t6t_1 Putative protein; stru  91.5    0.91 2.7E-05   26.2   6.9   78   81-173    19-96  (118)
 23 >2jhn_A ALKA, 3-methyladenine   91.5    0.18 5.5E-06   30.8   3.4   31    9-39     25-55  (55)
 24 >1kg2_A A/G-specific adenine g  91.0     0.2 5.9E-06   30.6   3.2   25   15-39     23-47  (139)
 25 >1z00_B DNA repair endonucleas  90.4    0.29 8.6E-06   29.5   3.5   38   10-47     13-56  (71)
 26 >1z00_A DNA excision repair pr  90.2    0.26 7.6E-06   29.9   3.1   38    7-44     11-54  (89)
 27 >1dd9_A DNA primase, DNAG; top  90.2     1.6 4.9E-05   24.4   7.9  106   80-199    16-126 (140)
 28 >1nnq_A Rubrerythrin; structur  90.0    0.57 1.7E-05   27.5   4.8   58   23-80     32-99  (105)
 29 >3bzc_A TEX; helix-turn-helix,  89.7    0.28 8.2E-06   29.6   3.0   25   14-38      9-33  (70)
 30 >1x2i_A HEF helicase/nuclease;  89.1    0.47 1.4E-05   28.1   3.8   30    8-37      7-36  (49)
 31 >2fmp_A DNA polymerase beta; n  88.7    0.73 2.2E-05   26.8   4.6   39   14-52     56-94  (119)
 32 >1q57_A DNA primase/helicase;   88.7    0.59 1.7E-05   27.4   4.1  108   78-200     9-122 (129)
 33 >2bgw_A XPF endonuclease; hydr  88.2    0.56 1.7E-05   27.6   3.7   27    9-35      8-34  (49)
 34 >2edu_A Kinesin-like protein K  87.1    0.55 1.6E-05   27.6   3.1   21   15-35     40-60  (98)
 35 >2duy_A Competence protein com  86.7    0.41 1.2E-05   28.5   2.3   21   14-34     26-46  (75)
 36 >1ryq_A DNA-directed RNA polym  86.5    0.53 1.6E-05   27.8   2.8   56   54-109     8-66  (69)
 37 >1s5l_U Photosystem II 12 kDa   86.3    0.26 7.7E-06   29.8   1.1   21   14-34     15-35  (87)
 38 >1t94_A Polymerase (DNA direct  85.9    0.37 1.1E-05   28.8   1.7   28    7-34      2-31  (70)
 39 >2a1j_A DNA repair endonucleas  85.6    0.64 1.9E-05   27.2   2.8   32   15-46      4-41  (63)
 40 >2bcq_A DNA polymerase lambda;  85.1    0.31 9.3E-06   29.3   1.0   39   14-52     56-94  (128)
 41 >2aq4_A DNA repair protein REV  85.0    0.45 1.3E-05   28.2   1.8   18   17-34      4-21  (67)
 42 >1jms_A Terminal deoxynucleoti  84.9    0.76 2.2E-05   26.7   2.9   50   15-64     80-130 (154)
 43 >2ihm_A POL MU, DNA polymerase  83.6    0.95 2.8E-05   26.0   3.0   35   15-49     61-95  (129)
 44 >1kft_A UVRC, excinuclease ABC  83.5    0.31 9.2E-06   29.3   0.4   29    7-35     16-44  (78)
 45 >1ixr_A Holliday junction DNA   83.3     1.3 3.9E-05   25.1   3.6   28    7-34     64-91  (191)
 46 >3c1y_A DNA integrity scanning  82.8     1.1 3.2E-05   25.7   3.0   22   14-35     11-32  (74)
 47 >3bz1_U Photosystem II 12 kDa   82.7     0.5 1.5E-05   27.9   1.2   21   15-35     33-53  (104)
 48 >1kft_A UVRC, excinuclease ABC  81.9     1.1 3.2E-05   25.7   2.7   22   14-35     55-76  (78)
 49 >3c1y_A DNA integrity scanning  81.6     1.2 3.5E-05   25.4   2.8   24   14-37     43-66  (74)
 50 >2kp7_A Crossover junction end  81.4     1.4 4.2E-05   24.9   3.1   25   14-38     57-81  (87)
 51 >1a76_A Flap endonuclease-1 pr  79.6    0.97 2.9E-05   26.0   1.8   18   17-34     18-35  (65)
 52 >1rxw_A Flap structure-specifi  77.3     1.3 3.7E-05   25.2   1.8   18   17-34     17-34  (68)
 53 >3fbl_A Putative uncharacteriz  77.2     1.8 5.5E-05   24.1   2.7   35    3-37     46-80  (82)
 54 >1jx4_A DNA polymerase IV (fam  76.5     1.4   4E-05   25.0   1.8   26   20-45      1-33  (55)
 55 >1pzn_A RAD51, DNA repair and   76.4     1.7 5.1E-05   24.3   2.3   29   17-45     37-72  (95)
 56 >1exn_A 5'-exonuclease, 5'-nuc  76.3     1.4 4.1E-05   24.9   1.8   18   17-34     24-41  (80)
 57 >1b22_A DNA repair protein RAD  76.2     1.4 4.1E-05   24.9   1.8   50   16-65     26-89  (114)
 58 >2izo_A FEN1, flap structure-s  75.0     1.6 4.7E-05   24.6   1.8   18   17-34     18-35  (82)
 59 >1b43_A Protein (FEN-1); nucle  72.5       2 5.9E-05   23.9   1.8   17   17-33     28-44  (77)
 60 >1wcn_A Transcription elongati  69.7     3.1 9.3E-05   22.5   2.4   20   15-34      7-26  (70)
 61 >3bqs_A Uncharacterized protei  68.9     2.6 7.6E-05   23.1   1.8   26   16-41      5-30  (93)
 62 >2apo_B Ribosome biogenesis pr  67.1     1.7 5.2E-05   24.3   0.6   29   53-81      2-30  (60)
 63 >1ul1_X Flap endonuclease-1; p  65.6     3.3 9.9E-05   22.4   1.8   18   17-34     31-48  (89)
 64 >2exu_A Transcription initiati  65.4     1.6 4.6E-05   24.6   0.1   55   55-109     2-76  (91)
 65 >3h7h_A Transcription elongati  64.9       2 5.9E-05   23.9   0.6   55   55-109    14-90  (95)
 66 >2gmg_A Hypothetical protein P  58.1       6 0.00018   20.6   2.0   60   16-82     29-97  (105)
 67 >1ci4_A Protein (barrier-TO-au  56.9      14 0.00043   18.1   3.8   32   17-48     20-64  (89)
 68 >2i5h_A Hypothetical protein A  56.8     7.3 0.00022   20.1   2.3   34   15-48    132-165 (205)
 69 >2aus_D NOP10, ribosome biogen  56.3     4.7 0.00014   21.4   1.2   28   54-81      2-29  (60)
 70 >2zkq_m 40S ribosomal protein   53.3      12 0.00037   18.5   3.0   40   12-51     25-72  (88)
 71 >3c65_A Uvrabc system protein   51.4     3.8 0.00011   22.0   0.1   22  143-164   173-194 (226)
 72 >2w9m_A Polymerase X; SAXS, DN  50.9      16 0.00046   17.9   3.2   57    9-66      2-70  (123)
 73 >2vxo_A GMP synthase [glutamin  49.7      20 0.00059   17.1   5.3   54  137-190    21-74  (229)
 74 >1dgs_A DNA ligase; AMP comple  46.8     9.9 0.00029   19.2   1.6   17   19-35     85-101 (116)
 75 >2vqe_M 30S ribosomal protein   45.0      14 0.00042   18.2   2.2   24   12-35     14-37  (64)
 76 >1k8r_B Protein kinase BYR2; s  44.1     7.7 0.00023   19.9   0.7   42   61-102    48-93  (110)
 77 >3i1m_M 30S ribosomal protein   43.3      16 0.00048   17.7   2.3   26   12-37     14-39  (63)
 78 >1iv0_A Hypothetical protein;   43.2      13 0.00037   18.5   1.7   64  110-173    21-91  (98)
 79 >1o98_A 2,3-bisphosphoglycerat  43.1      15 0.00043   18.1   2.0   75   89-165    19-96  (238)
 80 >1d8b_A SGS1 RECQ helicase; fi  42.0      13 0.00037   18.5   1.6   23   14-36     47-69  (81)
 81 >2zbk_B Type 2 DNA topoisomera  41.8      22 0.00065   16.9   2.8   40   12-51     26-73  (82)
 82 >1yuz_A Nigerythrin; rubrythri  40.5      18 0.00054   17.4   2.2   56   24-79    134-196 (202)
 83 >2rhf_A DNA helicase RECQ; HRD  40.1      28 0.00082   16.2   3.1   24   14-37     46-69  (77)
 84 >3gfk_B DNA-directed RNA polym  40.1      21 0.00063   17.0   2.5   23   15-37     48-70  (79)
 85 >2kn9_A Rubredoxin; metallopro  39.4      13 0.00039   18.3   1.4   27   56-82     26-73  (81)
 86 >1lko_A Rubrerythrin all-iron(  38.4      10  0.0003   19.1   0.7   24   57-80      7-34  (43)
 87 >1coo_A RNA polymerase alpha s  34.7      33 0.00098   15.7   2.8   29    9-37     46-78  (98)
 88 >1nu0_A Hypothetical protein Y  34.5      22 0.00064   16.9   1.8   60  112-171    25-92  (138)
 89 >2p6r_A Afuhel308 helicase; pr  33.4      22 0.00064   16.9   1.7   15   19-33      2-16  (68)
 90 >1dpe_A Dipeptide-binding prot  33.3      26 0.00076   16.4   2.0   71  102-172    57-140 (185)
 91 >3f2b_A DNA-directed DNA polym  32.4      24  0.0007   16.7   1.7   29   21-49      1-29  (69)
 92 >6rxn_A Rubredoxin; electron t  32.2      16 0.00047   17.8   0.8   25   58-82      4-42  (45)
 93 >2waq_B DNA-directed RNA polym  32.1      25 0.00075   16.4   1.8   43   56-100     5-53  (76)
 94 >1zt2_A DNA primase small subu  32.0      15 0.00044   18.0   0.6   31   55-91      5-36  (94)
 95 >2csb_A Topoisomerase V, TOP61  31.2      38  0.0011   15.2   5.7   35   14-50     81-115 (142)
 96 >1lb2_B DNA-directed RNA polym  31.1      38  0.0011   15.2   3.1   29    9-37     32-64  (84)
 97 >1wgx_A KIAA1903 protein; MYB   31.0      34   0.001   15.6   2.3   27    5-31     11-49  (73)
 98 >1z3e_B DNA-directed RNA polym  31.0      39  0.0011   15.2   3.0   29    9-37     31-63  (73)
 99 >2d5w_A Peptide ABC transporte  30.2      40  0.0012   15.1   3.5   71  102-172    44-138 (183)
100 >3igz_B Cofactor-independent p  29.5      41  0.0012   15.1   3.8   75   89-165    19-96  (239)
101 >1dd3_A 50S ribosomal protein   29.4      41  0.0012   15.0   2.6   45   11-55     14-66  (71)
102 >1dx8_A Rubredoxin; zinc-subst  29.0      20  0.0006   17.1   0.9   27   56-82      6-53  (70)
103 >2io8_A Bifunctional glutathio  28.5      42  0.0013   14.9   5.4   47  127-173     8-55  (136)
104 >3gr0_A Protein PRGH; type III  27.0      12 0.00037   18.5  -0.5   14  100-113    12-25  (59)
105 >1s24_A Rubredoxin 2; electron  26.6      19 0.00056   17.3   0.4   32   50-81     28-80  (87)
106 >1vr7_A Adometdc, samdc, S-ade  26.3      46  0.0014   14.7   3.5   36  143-178    92-127 (142)
107 >3ci0_K Pseudopilin GSPK; gene  25.8      12 0.00035   18.7  -0.8   14   40-53     34-47  (181)
108 >3isx_A Endoglucanase; TM1050,  24.0      51  0.0015   14.4   3.1   19    8-26     11-29  (253)
109 >1yk4_A Rubredoxin, RD; electr  23.9      34 0.00099   15.6   1.3   24   58-81      3-47  (52)
110 >1vq2_A DCMP deaminase, deoxyc  23.8      37  0.0011   15.3   1.5   31   47-77     51-81  (137)
111 >3h0g_B DNA-directed RNA polym  23.4      39  0.0012   15.2   1.5   32   56-91      6-43  (68)
112 >1vhx_A Putative holliday junc  22.8      54  0.0016   14.3   2.8   49  124-172    41-95  (150)
113 >2gnr_A Conserved hypothetical  22.5      26 0.00078   16.3   0.5   43   39-81     29-73  (145)
114 >1e8j_A Rubredoxin; iron-sulfu  22.5      48  0.0014   14.6   1.8   26   57-82      3-49  (52)
115 >3cp8_A TRNA uridine 5-carboxy  22.2      10  0.0003   19.1  -1.7   34  151-185    20-53  (58)
116 >3gi1_A LBP, laminin-binding p  21.9      56  0.0017   14.1   3.5   82  112-196    25-109 (109)
117 >1xi4_A Clathrin heavy chain;   21.8      20  0.0006   17.1  -0.2   57  102-161     1-59  (61)
118 >4rxn_A Rubredoxin; electron t  21.4      35   0.001   15.5   0.9   25   58-82      4-49  (54)
119 >3erm_A Uncharacterized conser  20.8      59  0.0017   14.0   3.5   36   11-46     37-73  (91)
120 >2v3b_B Rubredoxin 2, rubredox  20.7      34   0.001   15.6   0.8   25   58-82      4-49  (55)
121 >2zxi_A TRNA uridine 5-carboxy  20.2      11 0.00032   18.9  -1.9   34  147-180    14-47  (62)

No 1  
>>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} (A:67-175)
Probab=100.00  E-value=3.3e-43  Score=311.48  Aligned_cols=109  Identities=42%  Similarity=0.782  Sum_probs=107.1

Q ss_pred             CCCCCCCCCCCCCCEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCC
Q ss_conf             65410035555673699983588999997517401342101210020002681112889999985157855499994699
Q gi|254780762|r   70 DPCAICIDQQRDASVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISAT  149 (201)
Q Consensus        70 ~~C~iC~d~~Rd~~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t  149 (201)
                      ++|+||+|++||+++|||||++.|+|+||+||.|+|+||||||+|||++|++|++|++++|++|+  .+++|||||||||
T Consensus         1 d~C~IC~d~~Rd~~~lcVVE~~~Di~~iE~s~~y~G~YhVL~g~isp~~gi~p~~l~~~~L~~r~--~~i~EvIlA~s~t   78 (109)
T 1vdd_A            1 EKCDVCADPSRDQRTICVVEEPGDVIALERSGEYRGLYHVLHGVLSPMNGVGPDKLHIKPLLPRV--GQGMEVILATGTT   78 (109)
T ss_dssp             SSCHHHHCSSSCTTEEEEESSHHHHHHTTTTSSCCSEEEECSSCCBGGGTBCTTTSTTGGGGGGC--CTTCEEEECCCSS
T ss_pred             CCCCCCCCCCCCCCEEEEEECHHHHHHHHHCCHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHH--CCCCEEEEEECCC
T ss_conf             77431037777752699995689989998512222104230574473448885201125667762--4776799982698


Q ss_pred             CCHHHHHHHHHHHHCCCCCEEEEEECCCCCC
Q ss_conf             7868999999998201798088741467488
Q gi|254780762|r  150 IEGQTTAHYIMDKLKGIDVKITRLAYGIPMG  180 (201)
Q Consensus       150 ~EGe~Ta~yi~~~lk~~~ikitrla~GiP~G  180 (201)
                      +|||+||+||+++||++++||||||+|||+|
T Consensus        79 ~EGe~Ta~yi~~~lk~~~ikvtrlA~GiP~G  109 (109)
T 1vdd_A           79 VEGDATALYLQRLLEPLGAAISRIAYGVPVG  109 (109)
T ss_dssp             HHHHHHHHHHHHHHTTSSCEEEECCBCBCTT
T ss_pred             CCCHHHHHHHHHHHHHCCCEEEEECCCCCCC
T ss_conf             6508999999998423496187602268778


No 2  
>>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} (A:1-66)
Probab=99.76  E-value=1.4e-18  Score=145.86  Aligned_cols=64  Identities=31%  Similarity=0.603  Sum_probs=62.1

Q ss_pred             CCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             8667999999997568999537999999997199899999999999999851828899973345
Q gi|254780762|r    6 TGKEIENLIKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMANIYNKVCLCSICGNVDTT   69 (201)
Q Consensus         6 ~~~~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~~~~~i~~C~~C~~l~~~   69 (201)
                      +|++|++||+.|++|||||+|||+|||||||+++++++.+|+++|.+++++|++|+.|||++|.
T Consensus         3 ~p~~i~~LI~~l~~LPGIG~KsA~Rla~~lL~~~~~~~~~l~~~l~~~~~~i~~C~~C~~lses   66 (66)
T 1vdd_A            3 YPPSLVSLIRELSRLPGIGPKSAQRLAFHLFEQPREDIERLASALLEAKRDLHVCPICFNITDA   66 (66)
T ss_dssp             CCHHHHHHHHHHHTSTTCCHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHCEECSSSCCEESS
T ss_pred             CCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEECCC
T ss_conf             9699999999996789988999999999997299999999999999999851989877867256


No 3  
>>1mw9_X DNA topoisomerase I; decatenase enzyme, toprim domain; HET: DNA; 1.67A {Escherichia coli} (X:1-32,X:89-156)
Probab=96.67  E-value=0.0033  Score=42.58  Aligned_cols=97  Identities=18%  Similarity=0.299  Sum_probs=71.4

Q ss_pred             CEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHH
Q ss_conf             36999835889999975174013421012100200026811128899999851578554999946997868999999998
Q gi|254780762|r   83 SVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYIMDK  162 (201)
Q Consensus        83 ~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi~~~  162 (201)
                      .-+.+||+|+....|.+   |-|--+|...      .+|..+. ++.|.+.+  .+.++||+||.|.-|||..+.++.+.
T Consensus         3 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~------~~~~kk~-l~~Ikkl~--k~ad~IIiATD~DREGE~Ia~eI~~~   70 (100)
T 1mw9_X            3 KALVIVESPAKAKTINK---YLGSDYVVKS------SVGKEKV-VSELKQLA--EKADHIYLATDLDREGEAIAWHLREV   70 (100)
T ss_dssp             CEEEEESCHHHHHHHHT---TSCTTEEEEE------CCSCHHH-HHHHHHHH--HTCSEEEECCCSSHHHHHHHHHHHHH
T ss_pred             CEEEEECCHHHHHHHHH---HHCCCCEEEE------CCCHHHH-HHHHHHHH--HCCCEEEECCCCCCCHHHHHHHHHHH
T ss_conf             83999898999999999---8299989995------4677999-99999998--45999998889873353999999999


Q ss_pred             HCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             2017980887414674882066634799999983064
Q gi|254780762|r  163 LKGIDVKITRLAYGIPMGSELDYLDDGTIFEAIRSRT  199 (201)
Q Consensus       163 lk~~~ikitrla~GiP~G~~ley~D~~TL~~Al~~R~  199 (201)
                      ++..+.++.|+-+        .-+....+.+||++-+
T Consensus        71 ~~~~~k~vkRl~f--------sslT~~~I~~A~~nlr   99 (100)
T 1mw9_X           71 IGGDDARYSRVVF--------NEITKNAIRQAFNKPG   99 (100)
T ss_dssp             HCSCGGGEEECCC--------SSCSHHHHHHHHHSCB
T ss_pred             HCCCCCCEEEEEE--------CCCCHHHHHHHHHCCC
T ss_conf             6689986599996--------6689999999974877


No 4  
>>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination, helicase; 1.90A {Escherichia coli} (A:66-144)
Probab=96.48  E-value=0.0021  Score=43.89  Aligned_cols=32  Identities=22%  Similarity=0.569  Sum_probs=24.1

Q ss_pred             CCCHHHHHHH-----HHHHHCCCCCHHHHHHHHHHHH
Q ss_conf             6866799999-----9997568999537999999997
Q gi|254780762|r    5 ITGKEIENLI-----KILARIPGFGPRSARRATLHLV   36 (201)
Q Consensus         5 ~~~~~l~~LI-----~~l~kLPGIG~KsA~R~a~~Ll   36 (201)
                      +.++.+-+.|     ..|+++||||+|+|+||++.|=
T Consensus        28 ~~~~el~~aI~~~D~~~L~~ipGIG~KtAerii~eLk   64 (79)
T 1cuk_A           28 MSAQQFVNAVEREEVGALVKLPGIGKKTAERLIVEMK   64 (79)
T ss_dssp             SCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf             9999999999928999984199988999999999999


No 5  
>>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 (A:80-154)
Probab=96.34  E-value=0.0029  Score=42.99  Aligned_cols=33  Identities=30%  Similarity=0.580  Sum_probs=25.0

Q ss_pred             CCCHHHHHHH-----HHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             6866799999-----99975689995379999999971
Q gi|254780762|r    5 ITGKEIENLI-----KILARIPGFGPRSARRATLHLVK   37 (201)
Q Consensus         5 ~~~~~l~~LI-----~~l~kLPGIG~KsA~R~a~~Ll~   37 (201)
                      +.+.+|-+.|     ..|+++||||+|+|+||++.|-.
T Consensus        29 ~~~~el~~aI~~~D~~~L~~ipGIG~KtA~rii~ELk~   66 (75)
T 2ztd_A           29 HDAPALRQVLADGNVAALTRVPGIGKRGAERMVLELRD   66 (75)
T ss_dssp             SCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHCCCHHHHHCCCCCCHHHHHHHHHHHHC
T ss_conf             77677778885368899850888356889999999841


No 6  
>>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} (A:)
Probab=96.06  E-value=0.0044  Score=41.74  Aligned_cols=24  Identities=33%  Similarity=0.509  Sum_probs=21.0

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             999975689995379999999971
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLHLVK   37 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~Ll~   37 (201)
                      ++.|+++||||+|+|+|+..+|=.
T Consensus       106 ~~~L~~ipGIG~KtA~rIi~eLk~  129 (191)
T 1ixr_A          106 ARLLTSASGVGRRLAERIALELKG  129 (191)
T ss_dssp             HHHHTTSTTCCHHHHHHHHHHHTT
T ss_pred             HHHHCCCCCCCHHHHHHHHHHHHH
T ss_conf             998513888456889999999986


No 7  
>>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} (B:1-29,B:235-251,B:501-675)
Probab=95.33  E-value=0.045  Score=34.93  Aligned_cols=54  Identities=20%  Similarity=0.273  Sum_probs=44.2

Q ss_pred             CCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             785549999469978689999999982017980887414674882066634799999983064
Q gi|254780762|r  137 KKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMGSELDYLDDGTIFEAIRSRT  199 (201)
Q Consensus       137 ~~i~EVIlA~~~t~EGe~Ta~yi~~~lk~~~ikitrla~GiP~G~~ley~D~~TL~~Al~~R~  199 (201)
                      .++++||+||.+.-|||.-+..|.+.++. ..++.|+=+        .-+....+.+||++.+
T Consensus       167 k~aD~IIiATD~DREGE~I~~eIl~~~~~-~~~v~R~~f--------sslT~~~I~~Af~nlk  220 (221)
T 1gku_B          167 HDAEFVIVGTDPDTEGEKIAWDLKNLLSG-CGAVKRAEF--------HEVTRRAILEALESLR  220 (221)
T ss_dssp             HHHSEEEECCCSSHHHHHHHHHHHHHHTT-SSEEEECCC--------SBCSHHHHHHHHTSCB
T ss_pred             CCCCEEEEECCCCCCCCHHHHHHHHHHCC-CCHHHHHHH--------HHHHHHHHHHHHHHHH
T ss_conf             46708998079887643155568877500-232348888--------8999999999999876


No 8  
>>3i0w_A 8-oxoguanine-DNA-glycosylase; OGG, cacogg, DNA, 8-OXOG, 8OXOG, glycosylase, cytosine, hydrolase,lyase/DNA complex; HET: 8OG; 1.73A {Clostridium acetobutylicum} PDB: 3i0x_A* 3f10_A* 3f0z_A (A:111-127,A:196-236)
Probab=94.56  E-value=0.041  Score=35.24  Aligned_cols=31  Identities=23%  Similarity=0.265  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC
Q ss_conf             7999999997568999537999999997199
Q gi|254780762|r    9 EIENLIKILARIPGFGPRSARRATLHLVKKK   39 (201)
Q Consensus         9 ~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~   39 (201)
                      +-+++.+.|.++||||||||+=+.+|=+..+
T Consensus        27 ~~eea~~~L~~i~GIGpwTAdciLLF~L~RP   57 (58)
T 3i0w_A           27 NDNECHEELKKFMGVGPQVADCIMLFSMQKY   57 (58)
T ss_dssp             CHHHHHHHHTTSTTCCHHHHHHHHHHHHCCT
T ss_pred             CCHHHHHHHHHCCCCHHHHHHHHHHHHCCCC
T ss_conf             5446789998268812999999999864898


No 9  
>>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, structural genomics, PSI-2, protein structure initiative; 2.55A {Bacillus halodurans} (A:1-49,A:127-233)
Probab=94.25  E-value=0.034  Score=35.75  Aligned_cols=34  Identities=24%  Similarity=0.373  Sum_probs=29.7

Q ss_pred             CHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCH
Q ss_conf             6679999999975689995379999999971998
Q gi|254780762|r    7 GKEIENLIKILARIPGFGPRSARRATLHLVKKKE   40 (201)
Q Consensus         7 ~~~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~~   40 (201)
                      .-.+.+.++.|.+|||||++||.=+..+-++.+.
T Consensus        53 ~g~~pe~~~~LlsLPGIGpkTA~~ILlfalgrpd   86 (156)
T 2h56_A           53 GAEATTVIEKLTAIKGIGQWTAEXFXXFSLGRLD   86 (156)
T ss_dssp             TSCHHHHHHHHHTSTTCCHHHHHHHHHHTTCCSC
T ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCC
T ss_conf             6535578888887389787899999985168997


No 10 
>>1nui_A DNA primase/helicase; zinc-biding domain, toprim fold, DNA replication, DNA- directed RNA polymerase, primosome, late protein; HET: DNA; 2.90A {Enterobacteria phage T7} (A:138-255)
Probab=94.13  E-value=0.17  Score=31.12  Aligned_cols=86  Identities=13%  Similarity=0.151  Sum_probs=62.9

Q ss_pred             CCCCCCCCEEEEEECHHHHHHHHHHCCEE--EEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHH
Q ss_conf             35555673699983588999997517401--3421012100200026811128899999851578554999946997868
Q gi|254780762|r   76 IDQQRDASVIIVVEDVADLWALERSKAVN--ALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQ  153 (201)
Q Consensus        76 ~d~~Rd~~~lCVVE~~~Di~~IE~t~~y~--G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe  153 (201)
                      .+.-|+.+.++|||-+.|..++...|.-+  ..+...|+..++      +.  +..|.+.  ....++||+++...--|+
T Consensus         7 ~~~~~~~~~v~i~EG~~Dals~~~~g~~~~~~~~~~~g~~~~~------~~--~~~l~~~--~~~~~~iii~~DnD~aG~   76 (118)
T 1nui_A            7 KHLWNGGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGASAAK------KT--CAANYEY--FDQFEQIILMFDMDEAGR   76 (118)
T ss_dssp             GGGCCCBSCCEEESSHHHHHHHHHHHTTCSCEECCTTTTTTHH------HH--HHHTHHH--HTTBSCEEEECCSSHHHH
T ss_pred             EEECCCCCEEEEECCCHHHHHHHHHHCCCCCCCCCCCCHHHHH------HH--HHHHHHH--HCCCCEEEEECCCCHHHH
T ss_conf             2104687669997881369999998426886543676301214------67--7888887--436775999778998999


Q ss_pred             HHHHHHHHHHCCCCCEEE
Q ss_conf             999999998201798088
Q gi|254780762|r  154 TTAHYIMDKLKGIDVKIT  171 (201)
Q Consensus       154 ~Ta~yi~~~lk~~~ikit  171 (201)
                      .-+..+.+.+...++.+.
T Consensus        77 ~~~~~~~~~l~~~~~~~~   94 (118)
T 1nui_A           77 KAVEEAAQVLPAGKVRVA   94 (118)
T ss_dssp             HHHHHHHHHSCTTTEEEC
T ss_pred             HHHHHHHHHCCCCCEEEE
T ss_conf             999999987577879995


No 11 
>>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* (A:34-143)
Probab=93.94  E-value=0.049  Score=34.71  Aligned_cols=31  Identities=16%  Similarity=0.193  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHHHHCCH
Q ss_conf             9999999975689995379999999971998
Q gi|254780762|r   10 IENLIKILARIPGFGPRSARRATLHLVKKKE   40 (201)
Q Consensus        10 l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~~   40 (201)
                      .++.++.|.+|||||||||.=++.+-+..++
T Consensus        80 ~~~~~~~L~~lpGIG~~tA~~vll~~~g~pe  110 (110)
T 3fsp_A           80 VPDDPDEFSRLKGVGPYTVGAVLSLAYGVPE  110 (110)
T ss_dssp             CCCSHHHHHTSTTCCHHHHHHHHHHHHCCCC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             9988999951112689999999999715887


No 12 
>>3fhf_A Mjogg, N-glycosylase/DNA lyase, DNA-; helix-hairpin-helix, 8-oxoguanine, 8-OXOG, DNA damage, DNA repair, glycosidase, hydrolase; 2.00A {Methanocaldococcus jannaschii} (A:38-150)
Probab=93.88  E-value=0.053  Score=34.48  Aligned_cols=30  Identities=17%  Similarity=0.108  Sum_probs=25.0

Q ss_pred             CHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf             667999999997568999537999999997
Q gi|254780762|r    7 GKEIENLIKILARIPGFGPRSARRATLHLV   36 (201)
Q Consensus         7 ~~~l~~LI~~l~kLPGIG~KsA~R~a~~Ll   36 (201)
                      ...-+++.+.|.+|||||||||.=+..|+-
T Consensus        80 ~~~~~~~~~~L~~l~GIG~~tA~~~l~f~~  109 (113)
T 3fhf_A           80 ENEKVAREFLVRNIKGIGYKEASHFLRNVG  109 (113)
T ss_dssp             SSHHHHHHHHHHHSTTCCHHHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHCCCCCHHHHHHHHHHHC
T ss_conf             688976399998785832999999999967


No 13 
>>2gai_A DNA topoisomerase I; zinc ribbon; HET: DNA; 1.70A {Thermotoga maritima MSB8} PDB: 2gaj_A* (A:1-35,A:63-127)
Probab=93.30  E-value=0.15  Score=31.39  Aligned_cols=95  Identities=22%  Similarity=0.271  Sum_probs=64.2

Q ss_pred             CEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHH
Q ss_conf             36999835889999975174013421012100200026811128899999851578554999946997868999999998
Q gi|254780762|r   83 SVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYIMDK  162 (201)
Q Consensus        83 ~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi~~~  162 (201)
                      ....|||+|.-+..||..  .--.|-|..       ..|-.+ -++.|.+..+   ..+||+||.|.-|||.-+..|.+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~-------~~~kkk-~i~~Lkkl~k---~adIIiATD~DREGE~Ia~eIl~~   72 (100)
T 2gai_A            6 KKYIVVESPAKAKTIKSI--LGNEYEVFA-------SMGKEK-VVEKLKDLAK---KGELLIASDMDREGEAIAWHIARV   72 (100)
T ss_dssp             -CEEEESCHHHHHHHHHH--HGGGSEEEE-------CCSCHH-HHHHHHHHHH---HSCEEECCCSSHHHHHHHHHHHHH
T ss_pred             CEEEEECCHHHHHHHHHH--CCCCCEEEE-------ECCHHH-HHHHHHHHHC---CCCEEECCCCCCCCCHHHHHHHHH
T ss_conf             579998797999999998--094989996-------146699-9999999846---898999489981520999999998


Q ss_pred             HCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             2017980887414674882066634799999983064
Q gi|254780762|r  163 LKGIDVKITRLAYGIPMGSELDYLDDGTIFEAIRSRT  199 (201)
Q Consensus       163 lk~~~ikitrla~GiP~G~~ley~D~~TL~~Al~~R~  199 (201)
                      ++. ..++.|+-+        .-+++..+.+||+|.+
T Consensus        73 ~~~-~kpvkRl~f--------sslT~~~I~~A~~nlR  100 (100)
T 2gai_A           73 TNT-LGRKNRIVF--------SEITPRVIREAVKNPR  100 (100)
T ss_dssp             HTC-TTSSCBCCC--------SSCCHHHHHHHHHSCB
T ss_pred             HCC-CCCEEEEEE--------ECCCHHHHHHHHHCCH
T ss_conf             588-898058997--------1079999999996816


No 14 
>>1i7d_A DNA topoisomerase III; decatenating enzyme, protein-DNA complex, single-stranded DNA, isomerase/DNA complex; HET: DNA; 2.05A {Escherichia coli} (A:1-152)
Probab=92.97  E-value=0.17  Score=31.08  Aligned_cols=108  Identities=19%  Similarity=0.212  Sum_probs=64.8

Q ss_pred             EEEEEECHHHHHHHHHH--CCE---EEE------EEEH--HHHC-C--CCCCC--------------CHHHC------CH
Q ss_conf             69998358899999751--740---134------2101--2100-2--00026--------------81112------88
Q gi|254780762|r   84 VIIVVEDVADLWALERS--KAV---NAL------YHVL--GGSL-S--PLDRI--------------GPEDI------GI  127 (201)
Q Consensus        84 ~lCVVE~~~Di~~IE~t--~~y---~G~------YhVL--gG~i-s--pl~g~--------------~p~~l------~i  127 (201)
                      +|||+|.|.-..+|.+.  +.+   +|.      |.|.  .|++ .  .-++.              -|...      +-
T Consensus         2 kLiIaEKPs~Ak~Ia~~Lg~~~~~~~~~~~~~~~~~v~~~~GHl~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~   81 (152)
T 1i7d_A            2 RLFIAEKPSLARAIADVLPKPHRKGDGFIECGNGQVVTWCIGHLLEQAQPDAYDSRYARWNLADLPIVPEKWQLQPRPSV   81 (152)
T ss_dssp             EEEEESSHHHHHHHHTTSCSCCEEETTEEEETTTEEEEECSSCSEEECCHHHHCGGGGSCCSTTCSCCCSSCCEEECGGG
T ss_pred             EEEEECCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCEEEECCCH
T ss_conf             79997788999999998487763577750159974999646625338971116631247785327878755537778627


Q ss_pred             HHHHHHHC--CCCCCEEEEEECCCCCHHHHHHHHHHHHCC---CCCEEEEEECCCCCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             99999851--578554999946997868999999998201---7980887414674882066634799999983064
Q gi|254780762|r  128 QSLIERIE--VKKIRELIFAISATIEGQTTAHYIMDKLKG---IDVKITRLAYGIPMGSELDYLDDGTIFEAIRSRT  199 (201)
Q Consensus       128 ~~L~~ri~--~~~i~EVIlA~~~t~EGe~Ta~yi~~~lk~---~~ikitrla~GiP~G~~ley~D~~TL~~Al~~R~  199 (201)
                      ...++.++  ..+.++||+||.+.-|||.-+..+.+.++.   .+..+.|+=+        .-+....+.+||++.+
T Consensus        82 ~~~~~~lk~~~~~~d~iiiatD~DrEGE~I~~~i~~~~~~~~~~~~~v~R~~f--------ssiT~~~I~~A~~nl~  150 (152)
T 1i7d_A           82 TKQLNVIKRFLHEASEIVHAGDPDREGQLLVDEVLDYLQLAPEKRQQVQRCLI--------NDLNPQAVERAIDRLR  150 (152)
T ss_dssp             HHHHHHHHHHHHHCSEEEEECCSSHHHHHHHHHHHHHTTCCHHHHHTCEECCC--------SCCSHHHHHHHHTTCE
T ss_pred             HHHHHHHHHHHHCCCEEEECCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEE--------CCCCHHHHHHHHHCCC
T ss_conf             89999999998559989989899813419999999985623347885389996--------1579999999997786


No 15 
>>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans} (A:1-118)
Probab=92.96  E-value=0.1  Score=32.55  Aligned_cols=58  Identities=16%  Similarity=0.041  Sum_probs=42.2

Q ss_pred             CHHHHHH-HHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             6679999-999975689995379999999971998999999999999998518288999
Q gi|254780762|r    7 GKEIENL-IKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMANIYNKVCLCSICG   64 (201)
Q Consensus         7 ~~~l~~L-I~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~~~~~i~~C~~C~   64 (201)
                      +.++... .+.+.++||||++.|+++.-++-.-.-..+..+-......-.....+.-.|
T Consensus        48 ~~~i~~~~~~~l~~lpGIG~~~a~kI~E~l~tG~~~~le~l~~~~~~~l~~l~~i~GiG  106 (118)
T 2w9m_A           48 NEETPELLAREFTGIPKVGKGIAAELSDFARSGTFAPLEAAAGQLPPGLLDLLGVRGLG  106 (118)
T ss_dssp             C----------CCSSTTCCHHHHHHHHHHHHHSSCHHHHHHHHHSCHHHHHHTTSTTCC
T ss_pred             CCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHCCCHHHHHHHHCCCCCC
T ss_conf             82366754988625999878999999999984982889998702517899985789878


No 16 
>>2au3_A DNA primase; zinc ribbon, toprim, RNA polymerase, DNA replication, transferase; HET: DNA; 2.00A {Aquifex aeolicus} (A:225-349)
Probab=92.41  E-value=0.59  Score=27.41  Aligned_cols=88  Identities=18%  Similarity=0.254  Sum_probs=65.0

Q ss_pred             CCCCEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHH
Q ss_conf             56736999835889999975174013421012100200026811128899999851578554999946997868999999
Q gi|254780762|r   80 RDASVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYI  159 (201)
Q Consensus        80 Rd~~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi  159 (201)
                      ++...++|||-..|.+++-+.+ +.......|+.+++      ..  +..|     ....++|+|++...-.|+.-+..+
T Consensus        18 ~~~~~v~i~EG~~dals~~~~g-~~~~~~~~g~~~~~------~~--~~~l-----~~~~~~vvi~~D~D~aG~~~a~~~   83 (125)
T 2au3_A           18 KEEGFAILVEGYFDLLRLFSEG-IRNVVAPLGTALTQ------NQ--ANLL-----SKFTKKVYILYDGDDAGRKAMKSA   83 (125)
T ss_dssp             HHHTCEEECSSHHHHHHHHHTT-CCSEEEESSSSCCH------HH--HHHH-----HTTCSEEEEECCSSHHHHHHHHHH
T ss_pred             CCCCCEEEECCCHHHHHHHHCC-CCCCCCCCCCCCCH------HH--HHHH-----HHCCCCEEEECCCCHHHHHHHHHH
T ss_conf             1344103304623567887618-65533431234336------88--9887-----612772367427867777557887


Q ss_pred             HHHHCCCCCEEEEEECCCCCCCCH
Q ss_conf             998201798088741467488206
Q gi|254780762|r  160 MDKLKGIDVKITRLAYGIPMGSEL  183 (201)
Q Consensus       160 ~~~lk~~~ikitrla~GiP~G~~l  183 (201)
                      .+.+...++++..+-  +|-|-+.
T Consensus        84 ~~~l~~~~~~~~~~~--~p~~kD~  105 (125)
T 2au3_A           84 IPLLLSAGVEVYPVY--LPEGYDP  105 (125)
T ss_dssp             HHHHHHTTCEEEEEC--CCTTCCH
T ss_pred             HHHHHCCCCCEEEEE--CCCCCCH
T ss_conf             765402365213665--8999884


No 17 
>>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} (A:23-133)
Probab=92.21  E-value=0.16  Score=31.29  Aligned_cols=31  Identities=19%  Similarity=0.215  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC
Q ss_conf             7999999997568999537999999997199
Q gi|254780762|r    9 EIENLIKILARIPGFGPRSARRATLHLVKKK   39 (201)
Q Consensus         9 ~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~   39 (201)
                      ..++..+.|.+|||||||+|.=+..+-+.+|
T Consensus        81 ~~~~~~~~L~~l~GIG~~tA~~vll~~~g~P  111 (111)
T 2abk_A           81 EVPEDRAALEALPGVGRKTANVVLNTAFGWP  111 (111)
T ss_dssp             SCCSCHHHHHHSTTCCHHHHHHHHHHHHCCC
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHCCC
T ss_conf             1367799999898606359999999985671


No 18 
>>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} (A:29-139)
Probab=92.15  E-value=0.11  Score=32.32  Aligned_cols=29  Identities=17%  Similarity=0.236  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHHHHC
Q ss_conf             99999999756899953799999999719
Q gi|254780762|r   10 IENLIKILARIPGFGPRSARRATLHLVKK   38 (201)
Q Consensus        10 l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~   38 (201)
                      .++.++.|.+||||||+||.=+..+-+..
T Consensus        82 ~~~~~~~L~~l~GIG~~tA~~~llf~~gr  110 (111)
T 1kea_A           82 VPRNRKAILDLPGVGKYTCAAVMCLAFGK  110 (111)
T ss_dssp             CCSCHHHHHTSTTCCHHHHHHHHHHTTCC
T ss_pred             CCCHHHHHHCCCCCCHHHHHHHHHHHCCC
T ss_conf             97304676508987616899999986388


No 19 
>>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} (A:28-137)
Probab=92.12  E-value=0.14  Score=31.60  Aligned_cols=31  Identities=19%  Similarity=0.250  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC
Q ss_conf             7999999997568999537999999997199
Q gi|254780762|r    9 EIENLIKILARIPGFGPRSARRATLHLVKKK   39 (201)
Q Consensus         9 ~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~   39 (201)
                      ..++.++.|.+|||||||||.=+..+=+.+|
T Consensus        80 ~~~~~~~~L~~l~GIG~~ta~~~llf~~~~P  110 (110)
T 1orn_A           80 EVPRDRDELMKLPGVGRKTANVVVSVAFGVP  110 (110)
T ss_dssp             SCCSCHHHHTTSTTCCHHHHHHHHHHHHCCC
T ss_pred             CCCCCHHHHHHCCCCCHHHHHHHHHHHHCCC
T ss_conf             8988899997587975258999999985788


No 20 
>>2fcj_A Small toprim domain protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: MES; 1.30A {Geobacillus stearothermophilus} (A:)
Probab=91.81  E-value=1.2  Score=25.47  Aligned_cols=101  Identities=10%  Similarity=0.056  Sum_probs=66.5

Q ss_pred             CCCCEEEEEECHHHHHHHHHHCCEEEEEEEHHH-HCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHH
Q ss_conf             567369998358899999751740134210121-0020002681112889999985157855499994699786899999
Q gi|254780762|r   80 RDASVIIVVEDVADLWALERSKAVNALYHVLGG-SLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHY  158 (201)
Q Consensus        80 Rd~~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG-~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~y  158 (201)
                      |..+.+-|||-..|++++.+.| |+..=-+++| .++      .+.  + +++.|.  ....+||+++...--|+.-+.-
T Consensus         2 ~k~~~viIVEG~~D~i~l~~~G-~~n~Va~~~gta~~------~~~--l-~~l~~~--~~~~~iil~~D~D~aG~~a~~~   69 (119)
T 2fcj_A            2 RRVEKVIIVEGRSDKQKVAAVL-NEPVVIVCTNGTIS------DAR--L-EELADE--LEGYDVYLLADADEAGEKLRRQ   69 (119)
T ss_dssp             CCCCEEEEESSHHHHHHHHHHB-SSCCEEEECCSCCC------HHH--H-HHHHHH--TTTSEEEEECCSSHHHHHHHHH
T ss_pred             CCCCEEEEECCHHHHHHHHHHC-CCCEEECCCCCCCC------HHH--H-HHHHHH--CCCCEEEEEECCCCHHHHHHHH
T ss_conf             7289899980889999999818-98869768986373------999--9-999997--0898489984489288999999


Q ss_pred             HHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHC
Q ss_conf             999820179808874146748820666347999999830
Q gi|254780762|r  159 IMDKLKGIDVKITRLAYGIPMGSELDYLDDGTIFEAIRS  197 (201)
Q Consensus       159 i~~~lk~~~ikitrla~GiP~G~~ley~D~~TL~~Al~~  197 (201)
                      +.+.+.  .+++-.+..|-.   ..++.+..-+..++.+
T Consensus        70 l~~~l~--~~~~~~~~~~~~---~~~~~~~~d~~e~l~~  103 (119)
T 2fcj_A           70 FRRMFP--EAEHLYIDRAYR---EVAAAPIWHLAQVLLR  103 (119)
T ss_dssp             HHHHCT--TSEEECCCTTTC---STTTSCHHHHHHHHHH
T ss_pred             HHHHCC--CCCEEEECCCCC---CHHCCCHHHHHHHHHH
T ss_conf             998678--553888546541---0202456789999997


No 21 
>>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 (A:157-220)
Probab=91.66  E-value=0.22  Score=30.31  Aligned_cols=38  Identities=24%  Similarity=0.458  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHHH------HHCCHHHHHH
Q ss_conf             6799999999756899953799999999------7199899999
Q gi|254780762|r    8 KEIENLIKILARIPGFGPRSARRATLHL------VKKKEQLLGP   45 (201)
Q Consensus         8 ~~l~~LI~~l~kLPGIG~KsA~R~a~~L------l~~~~~~~~~   45 (201)
                      .+.+.++-.|..+||||+++|++++-|.      .+.+.+++.+
T Consensus         5 ~~~~~~~~~L~~I~gIG~~~a~~L~~~F~s~~~i~~As~eeL~~   48 (64)
T 2nrt_A            5 REKESLRSVLDNVPGIGPIRKKKLIEHFGSLENIRSASLEEIAR   48 (64)
T ss_dssp             HHHHHHHHHHTTSTTCCHHHHHHHHHHHCSHHHHHTSCHHHHHH
T ss_pred             HHHHHHCCHHHCCCCCCHHHHHHHHHHCCCHHHHHCCCHHHHHH
T ss_conf             64342015222053107999999999868999997099999986


No 22 
>>1t6t_1 Putative protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG, unknown function; 1.80A {Aquifex aeolicus VF5} (1:)
Probab=91.46  E-value=0.91  Score=26.15  Aligned_cols=78  Identities=14%  Similarity=0.164  Sum_probs=60.6

Q ss_pred             CCCEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf             67369998358899999751740134210121002000268111288999998515785549999469978689999999
Q gi|254780762|r   81 DASVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYIM  160 (201)
Q Consensus        81 d~~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi~  160 (201)
                      +.+.+-|||-+.|+.++.+.| |+...-+.|+.+++            .-...+  ...++|||++.+.-.|+.-+.=+.
T Consensus        19 ~~~~viIvEG~~Dalsl~~~G-~~~~va~~g~~~~~------------~~~~~l--~~~~~vii~~D~D~~G~~~~~~~~   83 (118)
T 1t6t_1           19 SREAVILVEGKNDKKALSKFS-IKNVIDLSGKRYAD------------VVDXLE--GKWEKVILLFDLDTHGERINQKXK   83 (118)
T ss_dssp             TTTSEEEESSHHHHHHHHTTT-CCCEEECTTSCHHH------------HHHHHT--TTCSEEEECCCSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECHHHHHHHHHHC-CHHHHHCCCCCCHH------------HHHHHH--HCCCCEEEEECCCHHHHHHHHHHH
T ss_conf             799689981459999999834-12324128875458------------999998--348926998489888999999999


Q ss_pred             HHHCCCCCEEEEE
Q ss_conf             9820179808874
Q gi|254780762|r  161 DKLKGIDVKITRL  173 (201)
Q Consensus       161 ~~lk~~~ikitrl  173 (201)
                      +.|.+.+..+..+
T Consensus        84 ~~l~~~g~D~~~~   96 (118)
T 1t6t_1           84 ELLSSQGFLVDEN   96 (118)
T ss_dssp             HHHHHTTCEEECH
T ss_pred             HHHHHCCCEEEHH
T ss_conf             9999869944245


No 23 
>>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 (A:112-130,A:199-234)
Probab=91.46  E-value=0.18  Score=30.82  Aligned_cols=31  Identities=19%  Similarity=0.176  Sum_probs=26.4

Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC
Q ss_conf             7999999997568999537999999997199
Q gi|254780762|r    9 EIENLIKILARIPGFGPRSARRATLHLVKKK   39 (201)
Q Consensus         9 ~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~~~   39 (201)
                      +-+++++.|.+++|||+.||+=+..|=|..+
T Consensus        25 ~Deevi~~Lt~IkGIG~WTAem~LmF~LgR~   55 (55)
T 2jhn_A           25 GEEEAYEYLTSFKGIGRWTAELVLSIALGKN   55 (55)
T ss_dssp             CHHHHHHHHHTSTTCCHHHHHHHHHHTTCCC
T ss_pred             CCHHHHHHHHHCCCCCHHHHHHHHHHCCCCC
T ss_conf             4316788987537828999999998615989


No 24 
>>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} (A:1-23,A:110-225)
Probab=91.01  E-value=0.2  Score=30.58  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=18.6

Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHCC
Q ss_conf             9997568999537999999997199
Q gi|254780762|r   15 KILARIPGFGPRSARRATLHLVKKK   39 (201)
Q Consensus        15 ~~l~kLPGIG~KsA~R~a~~Ll~~~   39 (201)
                      -.|.+|||||+|+|.=+..|-+..+
T Consensus        23 ~eL~~LpGIG~ktAd~Illfa~~~~   47 (139)
T 1kg2_A           23 PEVAALPGVGRSTAGAILSLSLGKH   47 (139)
T ss_dssp             GHHHTSTTCCHHHHHHHHHHHHCCS
T ss_pred             CHHHCCCCCCHHHHHHHHHHHCCCC
T ss_conf             9986289872789999999844986


No 25 
>>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} (B:1-71)
Probab=90.36  E-value=0.29  Score=29.51  Aligned_cols=38  Identities=18%  Similarity=0.306  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHH------HHHCCHHHHHHHH
Q ss_conf             9999999975689995379999999------9719989999999
Q gi|254780762|r   10 IENLIKILARIPGFGPRSARRATLH------LVKKKEQLLGPLA   47 (201)
Q Consensus        10 l~~LI~~l~kLPGIG~KsA~R~a~~------Ll~~~~~~~~~l~   47 (201)
                      =..+.+.|..+||||+|.|+++.-+      |.+.+.+++.++.
T Consensus        13 ~~~~~~~L~~ipGIg~k~~~~Ll~~f~si~~i~~As~eeL~~v~   56 (71)
T 1z00_B           13 NPGPQDFLLKMPGVNAKNCRSLMHHVKNIAELAALSQDELTSIL   56 (71)
T ss_dssp             CHHHHHHHHTCSSCCHHHHHHHHHHSSCHHHHHHSCHHHHHHHH
T ss_pred             CCHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHCCHHHHHHCC
T ss_conf             20499999808998899999999990799999878999998875


No 26 
>>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} (A:)
Probab=90.16  E-value=0.26  Score=29.85  Aligned_cols=38  Identities=8%  Similarity=0.136  Sum_probs=29.2

Q ss_pred             CHHHHHHHHHHHHCCCCCHHHHHHHHHH------HHHCCHHHHH
Q ss_conf             6679999999975689995379999999------9719989999
Q gi|254780762|r    7 GKEIENLIKILARIPGFGPRSARRATLH------LVKKKEQLLG   44 (201)
Q Consensus         7 ~~~l~~LI~~l~kLPGIG~KsA~R~a~~------Ll~~~~~~~~   44 (201)
                      ...++.++..|..+||||++.|++++-+      +.+.+.+.+.
T Consensus        11 ~~~~~~~l~~L~~I~gIG~~~a~~L~~~F~s~~~i~~A~~~~L~   54 (89)
T 1z00_A           11 QDFVSRVTECLTTVKSVNKTDSQTLLTTFGSLEQLIAASREDLA   54 (89)
T ss_dssp             HHHHHHHHHHHTTSSSCCHHHHHHHHHHTCBHHHHHHCCHHHHH
T ss_pred             CCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHC
T ss_conf             78399999986589976999999999990994787665475100


No 27 
>>1dd9_A DNA primase, DNAG; toprim, 3-helix bundle, DNA-binding protein, RNA polymerase, replication protein; HET: DNA; 1.60A {Escherichia coli} (A:146-285)
Probab=90.15  E-value=1.6  Score=24.44  Aligned_cols=106  Identities=16%  Similarity=0.151  Sum_probs=66.1

Q ss_pred             CCCCEEEEEECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHH
Q ss_conf             56736999835889999975174013421012100200026811128899999851578554999946997868999999
Q gi|254780762|r   80 RDASVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYI  159 (201)
Q Consensus        80 Rd~~~lCVVE~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi  159 (201)
                      +..+.+.|||-..|.+++...|.- -.-...++..++      ..  +..|.     ...++|++|+...-.|+.-+.-+
T Consensus        16 ~~~~~v~i~EG~~Dals~~~~g~~-~~~~~~~~~~~~------~~--~~~l~-----~~~~~i~i~~D~D~~G~~~~~~~   81 (140)
T 1dd9_A           16 AEPNRLLVVEGYMDVVALAQYGIN-YAVASLGTSTTA------DH--IQLLF-----RATNNVICCYDGDRAGRDAAWRA   81 (140)
T ss_dssp             SSCSCEEEESSHHHHHHHHHTTCC-CEEECCC-CCCH------HH--HHHHH-----HHCSEEEEEEESSHHHHHHHHHH
T ss_pred             CCCCCEEEEECHHHHHHHHHCCCC-CCCHHHHCCCHH------HH--HHHHH-----HCCCCEEEEECCCCHHHHHHHHH
T ss_conf             556525999557989999871523-440133102117------89--99987-----40774578753662021678858


Q ss_pred             HHHHCCCCC-----EEEEEECCCCCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             998201798-----0887414674882066634799999983064
Q gi|254780762|r  160 MDKLKGIDV-----KITRLAYGIPMGSELDYLDDGTIFEAIRSRT  199 (201)
Q Consensus       160 ~~~lk~~~i-----kitrla~GiP~G~~ley~D~~TL~~Al~~R~  199 (201)
                      .+.++....     .+..+..|-=.+--+----...+.++|.++.
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~kD~nd~~~~~g~e~~~~~i~~a~  126 (140)
T 1dd9_A           82 LETALPYMTDGRQLRFMFLPDGEDPDTLVRKEGKEAFEARMEQAM  126 (140)
T ss_dssp             HHHHGGGCCTTCEEEEEEECTTCCHHHHHHHHHHHHHHHHHTTCE
T ss_pred             HHHHHHHHCCCCEEEEEEECCCCCHHHHHHHCCHHHHHHHHHCCC
T ss_conf             998768735997389998058998899988517799999986288


No 28 
>>1nnq_A Rubrerythrin; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics, secsg; 2.35A {Pyrococcus furiosus} (A:67-171)
Probab=90.05  E-value=0.57  Score=27.54  Aligned_cols=58  Identities=21%  Similarity=0.379  Sum_probs=44.5

Q ss_pred             CCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH-------CCCCCCCCCCCCCC---CCCCCCCCCC
Q ss_conf             9953799999999719989999999999999985-------18288999733456---5410035555
Q gi|254780762|r   23 FGPRSARRATLHLVKKKEQLLGPLAEAMANIYNK-------VCLCSICGNVDTTD---PCAICIDQQR   80 (201)
Q Consensus        23 IG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~~~~~-------i~~C~~C~~l~~~~---~C~iC~d~~R   80 (201)
                      =|-+.|.|.-.++....+.-...+...+..+...       .-.|.+||++.+.+   .|++|.-+.-
T Consensus        32 eg~~~aA~~F~~~~~vEk~H~~~~~k~~~~~~~~~~~~~~~~~~C~vCGyi~~ge~P~~CPvC~~~~~   99 (105)
T 1nnq_A           32 QGEKEAVRTTHYALEAEKIHAELYRKAKEKAEKGEDIEIKKVYICPICGYTAVDEAPEYCPVCGAPKE   99 (105)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCCCSCEEECTTTCCEEESCCCSBCTTTCCBGG
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCHH
T ss_conf             78799999999999999999999999998765045556778348998939289999997989989666


No 29 
>>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} (A:499-568)
Probab=89.75  E-value=0.28  Score=29.64  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=21.2

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHC
Q ss_conf             9999756899953799999999719
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLHLVKK   38 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~Ll~~   38 (201)
                      .+.|.+|||||++.|+++.-|--+.
T Consensus         9 ~~~L~~lpgig~~~A~~Ii~~R~~~   33 (70)
T 3bzc_A            9 AALLARISGLNSTLAQNIVAHRDAN   33 (70)
T ss_dssp             HHHHHTSTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHC
T ss_conf             8888660697889999999999966


No 30 
>>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} (A:1-49)
Probab=89.11  E-value=0.47  Score=28.10  Aligned_cols=30  Identities=23%  Similarity=0.209  Sum_probs=25.9

Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             679999999975689995379999999971
Q gi|254780762|r    8 KEIENLIKILARIPGFGPRSARRATLHLVK   37 (201)
Q Consensus         8 ~~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~   37 (201)
                      ...+.+...|..+||||+++|++++-|.-.
T Consensus         7 r~~~~~~~~L~~I~gVG~~~ak~Ll~~Fgs   36 (49)
T 1x2i_A            7 TLAERQRLIVEGLPHVSATLARRLLKHFGS   36 (49)
T ss_dssp             CHHHHHHHHHTTSTTCCHHHHHHHHHHHCS
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHCCH
T ss_conf             899999999858999789999999997062


No 31 
>>2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} (A:1-119)
Probab=88.75  E-value=0.73  Score=26.82  Aligned_cols=39  Identities=18%  Similarity=0.238  Sum_probs=31.6

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             999975689995379999999971998999999999999
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMAN   52 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~   52 (201)
                      .+.+.+|||||++.|+++.-+|-.-.-+.+.++-.....
T Consensus        56 ~~~~~~lpgiG~~ia~~I~e~l~tG~~~~le~l~~~~~~   94 (119)
T 2fmp_A           56 GAEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIRQDDTS   94 (119)
T ss_dssp             HHHHHTSTTCCHHHHHHHHHHHHHSSCHHHHHHHHCHHH
T ss_pred             HHHHHCCCCCCHHHHHHHHHHHHCCCHHHHHHHHCCCCH
T ss_conf             999847999648999999999964865899998733872


No 32 
>>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} (A:75-203)
Probab=88.69  E-value=0.59  Score=27.44  Aligned_cols=108  Identities=13%  Similarity=0.150  Sum_probs=69.6

Q ss_pred             CCCCCCEEEEEECHHHHHHHHHHCCEE--EEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHH
Q ss_conf             555673699983588999997517401--342101210020002681112889999985157855499994699786899
Q gi|254780762|r   78 QQRDASVIIVVEDVADLWALERSKAVN--ALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTT  155 (201)
Q Consensus        78 ~~Rd~~~lCVVE~~~Di~~IE~t~~y~--G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~T  155 (201)
                      .-++.+.++|||...|.+++-..|.-.  -.+...|+..++      +.  +..+...  ....++||+|+...-.|+.-
T Consensus         9 ~~~~~~~i~i~EG~~Dalsl~~~g~~~~~~~~~~~g~~~~~------~~--~~~~~~~--~~~~~~ivi~~D~D~aG~~~   78 (129)
T 1q57_A            9 LWNGGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGASAAK------KT--CAANYEY--FDQFEQIILMFDMDEAGRKA   78 (129)
T ss_dssp             GCSSEEEEEEESSHHHHHHHTTTTTTCSCEEEESSTTTTHH------HH--HHTTHHH--HHTEEEEEEECCSSHHHHHH
T ss_pred             CCCCCCEEEEECCHHHHHHHHHHCCCCCEEEECCCCCCHHH------HH--HHHHHHH--HCCCCEEEEECCCCHHHHHH
T ss_conf             04799989998866899999996588861561575421048------89--9998998--63698799960899899999


Q ss_pred             HHHHHHHHCCCCCEEEEEECCCCCCCCHHHH----HHHHHHHHHHCCCC
Q ss_conf             9999998201798088741467488206663----47999999830647
Q gi|254780762|r  156 AHYIMDKLKGIDVKITRLAYGIPMGSELDYL----DDGTIFEAIRSRTV  200 (201)
Q Consensus       156 a~yi~~~lk~~~ikitrla~GiP~G~~ley~----D~~TL~~Al~~R~~  200 (201)
                      +..+.+.+...++.+-     .|-|.+.+=.    ...-+.+++++++.
T Consensus        79 a~~~~~~~~~~~~~~~-----~p~~kD~nd~l~~~~~~~~~~~l~~a~~  122 (129)
T 1q57_A           79 VEEAAQVLPAGKVRVA-----VLPCKDANECHLNGHDREIMEQVWNAGP  122 (129)
T ss_dssp             HHHHHHHSCGGGEEEC-----CCSSSSHHHHHTTSCHHHHHHHHTTCCC
T ss_pred             HHHHHHHCCCCEEEEE-----ECCCCCCCHHHHHCCCHHHHHHHHHHCC
T ss_conf             9999875577559998-----5665687456664231345678775213


No 33 
>>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} (A:149-197)
Probab=88.22  E-value=0.56  Score=27.58  Aligned_cols=27  Identities=33%  Similarity=0.442  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             799999999756899953799999999
Q gi|254780762|r    9 EIENLIKILARIPGFGPRSARRATLHL   35 (201)
Q Consensus         9 ~l~~LI~~l~kLPGIG~KsA~R~a~~L   35 (201)
                      .-..+...|..+||||||.|+++.-|.
T Consensus         8 ~k~~~~s~L~~IpGIG~k~~~~LL~~F   34 (49)
T 2bgw_A            8 VREWQLYILQSFPGIGRRTAERILERF   34 (49)
T ss_dssp             HHHHHHHHHHTSTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHC
T ss_conf             889888888535689978999999986


No 34 
>>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} (A:)
Probab=87.12  E-value=0.55  Score=27.64  Aligned_cols=21  Identities=19%  Similarity=0.243  Sum_probs=18.5

Q ss_pred             HHHHHCCCCCHHHHHHHHHHH
Q ss_conf             999756899953799999999
Q gi|254780762|r   15 KILARIPGFGPRSARRATLHL   35 (201)
Q Consensus        15 ~~l~kLPGIG~KsA~R~a~~L   35 (201)
                      +.|.+|||||++.|++++-|=
T Consensus        40 ~eL~~lpgig~~~A~~Ii~~R   60 (98)
T 2edu_A           40 RDLRSLQRIGPKKAQLIVGWR   60 (98)
T ss_dssp             HHHHHSTTCCHHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHH
T ss_conf             999757898999999999999


No 35 
>>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus HB8} (A:)
Probab=86.66  E-value=0.41  Score=28.48  Aligned_cols=21  Identities=38%  Similarity=0.629  Sum_probs=18.6

Q ss_pred             HHHHHHCCCCCHHHHHHHHHH
Q ss_conf             999975689995379999999
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLH   34 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~   34 (201)
                      .+.|.++||||++.|++|+-|
T Consensus        26 ~~~L~~lpGig~~~A~~Ii~~   46 (75)
T 2duy_A           26 LEELXALPGIGPVLARRIVEG   46 (75)
T ss_dssp             HHHHTTSTTCCHHHHHHHHHT
T ss_pred             HHHHHHCCCCCHHHHHHHHHC
T ss_conf             999977789899999999986


No 36 
>>1ryq_A DNA-directed RNA polymerase, subunit E''; structural genomics, zinc, PSI, protein structure initiative; 1.38A {Pyrococcus furiosus} (A:)
Probab=86.55  E-value=0.53  Score=27.77  Aligned_cols=56  Identities=18%  Similarity=0.350  Sum_probs=42.4

Q ss_pred             HHHCCCCCCCCCCCCCCCCCCCCC--CCCCCCEEEEEECHHHHHHHHHHCC-EEEEEEE
Q ss_conf             985182889997334565410035--5556736999835889999975174-0134210
Q gi|254780762|r   54 YNKVCLCSICGNVDTTDPCAICID--QQRDASVIIVVEDVADLWALERSKA-VNALYHV  109 (201)
Q Consensus        54 ~~~i~~C~~C~~l~~~~~C~iC~d--~~Rd~~~lCVVE~~~Di~~IE~t~~-y~G~YhV  109 (201)
                      ....+-|..|+.+.+.+.|++|..  .+-+.+=+.+|-+|.+=|.-...+. ..|.|-+
T Consensus         8 ~~~~rAC~~C~~i~~~~~CpnC~s~~tT~~~~G~i~i~dP~~S~vAk~l~i~~pG~YAl   66 (69)
T 1ryq_A            8 GSSEKACRHCHYITSEDRCPVCGSRDLSEEWFDLVIIVDVENSEIAKKIGAKVPGKYAI   66 (69)
T ss_dssp             ---CEEETTTCBEESSSSCTTTCCCCEESCEEEEEEESCGGGCHHHHHHTCCSCEEEEE
T ss_pred             CCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHCCCCCCCEEEE
T ss_conf             63033575298766888798974987787724089997767889999829998986888


No 37 
>>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} (U:48-134)
Probab=86.30  E-value=0.26  Score=29.82  Aligned_cols=21  Identities=19%  Similarity=0.240  Sum_probs=18.2

Q ss_pred             HHHHHHCCCCCHHHHHHHHHH
Q ss_conf             999975689995379999999
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLH   34 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~   34 (201)
                      .+.|.++||||++.|+|++-+
T Consensus        15 ~~~L~~ipGig~~~A~~Iv~~   35 (87)
T 1s5l_U           15 IAAFIQYRGLYPTLAKLIVKN   35 (87)
T ss_dssp             GGGGGGSTTCTHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHC
T ss_conf             999977103469999999982


No 38 
>>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family DNA polymerase, translesion DNA synthesis, lesion bypass; 2.40A {Homo sapiens} (A:271-340)
Probab=85.93  E-value=0.37  Score=28.80  Aligned_cols=28  Identities=14%  Similarity=0.329  Sum_probs=20.5

Q ss_pred             CHHHHHHHHH--HHHCCCCCHHHHHHHHHH
Q ss_conf             6679999999--975689995379999999
Q gi|254780762|r    7 GKEIENLIKI--LARIPGFGPRSARRATLH   34 (201)
Q Consensus         7 ~~~l~~LI~~--l~kLPGIG~KsA~R~a~~   34 (201)
                      |+.+.+++..  ++++||||+|+++|+.-+
T Consensus         2 ~~~~~~~l~~lpi~~i~GIG~~~~~~L~~~   31 (70)
T 1t94_A            2 RQAVMDFIKDLPIRKVSGIGKVTEKMLKAL   31 (70)
T ss_dssp             HHHHHHHHTTCBGGGCTTSCHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCCCCCCCCCCCHHHHHHH
T ss_conf             789999997397140257631100454541


No 39 
>>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} (A:)
Probab=85.65  E-value=0.64  Score=27.18  Aligned_cols=32  Identities=22%  Similarity=0.449  Sum_probs=25.4

Q ss_pred             HHHHHCCCCCHHHHHHHHHH------HHHCCHHHHHHH
Q ss_conf             99975689995379999999------971998999999
Q gi|254780762|r   15 KILARIPGFGPRSARRATLH------LVKKKEQLLGPL   46 (201)
Q Consensus        15 ~~l~kLPGIG~KsA~R~a~~------Ll~~~~~~~~~l   46 (201)
                      +.|..+||||++.|++++-+      |.+.+.+++.++
T Consensus         4 s~L~~IpgVG~~~a~~Ll~~f~Si~~i~~As~eeL~~i   41 (63)
T 2a1j_A            4 DFLLKMPGVNAKNCRSLMHHVKNIAELAALSQDELTSI   41 (63)
T ss_dssp             HHHHTSTTCCHHHHHHHHHHCSSHHHHHTCCHHHHHHH
T ss_pred             HHHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHHC
T ss_conf             88851999899999999998078999986999999778


No 40 
>>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} (A:1-128)
Probab=85.10  E-value=0.31  Score=29.28  Aligned_cols=39  Identities=23%  Similarity=0.296  Sum_probs=27.4

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHH
Q ss_conf             999975689995379999999971998999999999999
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMAN   52 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~   52 (201)
                      .+.+.+|||||++.|+++.-+|-.-.-+...++-+....
T Consensus        56 ~~~~~~lpgIG~~ia~~I~E~l~tG~~~~le~l~~~~~~   94 (128)
T 2bcq_A           56 YQEACSIPGIGKRMAEKIIEILESGHLRKLDHISESVPV   94 (128)
T ss_dssp             HHHHHTSTTCCHHHHHHHHHHHHSSSCGGGGGCCTTHHH
T ss_pred             HHHHHCCCCCCHHHHHHHHHHHHCCCHHHHHHHCCCCCH
T ss_conf             999827999648999999999973978888743033661


No 41 
>>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A* (A:240-306)
Probab=84.98  E-value=0.45  Score=28.23  Aligned_cols=18  Identities=28%  Similarity=0.499  Sum_probs=15.6

Q ss_pred             HHHCCCCCHHHHHHHHHH
Q ss_conf             975689995379999999
Q gi|254780762|r   17 LARIPGFGPRSARRATLH   34 (201)
Q Consensus        17 l~kLPGIG~KsA~R~a~~   34 (201)
                      ++++||||+|+++|+.-.
T Consensus         4 i~~i~GVG~~t~~kL~~~   21 (67)
T 2aq4_A            4 LDDLPGVGHSTLSRLEST   21 (67)
T ss_dssp             GGGSTTCCHHHHHHHHHH
T ss_pred             CCCHHCCCHHHHHHHHHH
T ss_conf             230120278999999987


No 42 
>>1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} (A:1-154)
Probab=84.86  E-value=0.76  Score=26.69  Aligned_cols=50  Identities=10%  Similarity=-0.005  Sum_probs=34.2

Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHH-HHHHCCCCCCCC
Q ss_conf             99975689995379999999971998999999999999-998518288999
Q gi|254780762|r   15 KILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMAN-IYNKVCLCSICG   64 (201)
Q Consensus        15 ~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~-~~~~i~~C~~C~   64 (201)
                      +.+.+|||||++.|+++.-+|-.-.-+.+..+-..... +-.....+.-.|
T Consensus        80 ~~l~~lpgIG~~ia~~I~E~l~tG~l~~le~l~~~~~~~~~~~l~~i~GiG  130 (154)
T 1jms_A           80 KDTEGIPCLGDKVKSIIEGIIEDGESSEAKAVLNDERYKSFKLFTSVFGVG  130 (154)
T ss_dssp             GGGTTCSSCCHHHHHHHHHHHHHSSCHHHHHHHHCHHHHHHHHHHTSTTCC
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHHCCCCC
T ss_conf             998379996499999999999969889899987266530788888567879


No 43 
>>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus} (A:1-129)
Probab=83.62  E-value=0.95  Score=26.04  Aligned_cols=35  Identities=20%  Similarity=0.172  Sum_probs=28.7

Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             99975689995379999999971998999999999
Q gi|254780762|r   15 KILARIPGFGPRSARRATLHLVKKKEQLLGPLAEA   49 (201)
Q Consensus        15 ~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~   49 (201)
                      +.+.+|||||++.|+++.-+|-.-.-..+..+-+.
T Consensus        61 ~~~~~lpgIG~~ia~~I~E~l~tG~~~~le~l~~~   95 (129)
T 2ihm_A           61 SQLHGLPYFGEHSTRVIQELLEHGTCEEVKQVRCS   95 (129)
T ss_dssp             GGGTTCTTCCHHHHHHHHHHHHHSCCHHHHHHHHS
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHH
T ss_conf             99835999778999999999970988999988632


No 44 
>>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} (A:)
Probab=83.51  E-value=0.31  Score=29.31  Aligned_cols=29  Identities=17%  Similarity=0.201  Sum_probs=23.4

Q ss_pred             CHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             66799999999756899953799999999
Q gi|254780762|r    7 GKEIENLIKILARIPGFGPRSARRATLHL   35 (201)
Q Consensus         7 ~~~l~~LI~~l~kLPGIG~KsA~R~a~~L   35 (201)
                      ..+.+.++.+|..+||||+++|++++-+.
T Consensus        16 ~~~~~~~~~~L~~I~gIG~~~a~~L~~~F   44 (78)
T 1kft_A           16 PRGSHMNTSSLETIEGVGPKRRQMLLKYM   44 (78)
T ss_dssp             -------CCGGGGCTTCSSSHHHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCHHHHHHHHHHC
T ss_conf             57412032846569994799999999990


No 45 
>>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} (A:)
Probab=83.32  E-value=1.3  Score=25.06  Aligned_cols=28  Identities=25%  Similarity=0.369  Sum_probs=22.4

Q ss_pred             CHHHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             6679999999975689995379999999
Q gi|254780762|r    7 GKEIENLIKILARIPGFGPRSARRATLH   34 (201)
Q Consensus         7 ~~~l~~LI~~l~kLPGIG~KsA~R~a~~   34 (201)
                      .+.-.++-..|.++||||||+|.++.-+
T Consensus        64 ~~~er~~F~~L~~V~GIGpk~Al~iL~~   91 (191)
T 1ixr_A           64 DEENLALFELLLSVSGVGPKVALALLSA   91 (191)
T ss_dssp             SHHHHHHHHHHHSSSCCCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHCCCCCCHHHHHHHHHC
T ss_conf             2899999999857588477889999855


No 46 
>>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* (A:304-377)
Probab=82.83  E-value=1.1  Score=25.70  Aligned_cols=22  Identities=5%  Similarity=0.052  Sum_probs=14.7

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             9999756899953799999999
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLHL   35 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~L   35 (201)
                      -..|..+||||++.|++++-+.
T Consensus        11 ~~~L~~I~giG~~~a~~L~~~f   32 (74)
T 3c1y_A           11 YRLLKTVARIPLSIGYNVVRMF   32 (74)
T ss_dssp             HHHHHHTSCCCHHHHHHHHHHH
T ss_pred             HHHHHCCCCCCHHHHHHHHHHH
T ss_conf             8887339999899999999985


No 47 
>>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* 3a0b_U* 3a0h_U* (U:)
Probab=82.74  E-value=0.5  Score=27.93  Aligned_cols=21  Identities=14%  Similarity=0.157  Sum_probs=17.6

Q ss_pred             HHHHHCCCCCHHHHHHHHHHH
Q ss_conf             999756899953799999999
Q gi|254780762|r   15 KILARIPGFGPRSARRATLHL   35 (201)
Q Consensus        15 ~~l~kLPGIG~KsA~R~a~~L   35 (201)
                      +.|.++||||++.|++|+-|=
T Consensus        33 ~~L~~ipGig~~~A~~Iv~~g   53 (104)
T 3bz1_U           33 AAFIQYRGLYPTLAKLIVKNA   53 (104)
T ss_dssp             GGGGGSTTTTHHHHHHHHHSC
T ss_pred             HHHHHCCCCCHHHHHHHHHCC
T ss_conf             999777586999999999708


No 48 
>>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} (A:)
Probab=81.86  E-value=1.1  Score=25.69  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=19.2

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             9999756899953799999999
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLHL   35 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~L   35 (201)
                      .+.|.++||||++.|+++.-||
T Consensus        55 ~eeL~~v~gIG~~~A~~I~~~l   76 (78)
T 1kft_A           55 VEEIAKVPGISQGLAEKIFWSL   76 (78)
T ss_dssp             HHHHTTSSSTTSHHHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHHHH
T ss_conf             9999738998999999999997


No 49 
>>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* (A:304-377)
Probab=81.59  E-value=1.2  Score=25.44  Aligned_cols=24  Identities=21%  Similarity=0.441  Sum_probs=20.7

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             999975689995379999999971
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLHLVK   37 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~Ll~   37 (201)
                      .+.|..+||||++.|+.+.-|+=+
T Consensus        43 ~~~L~~v~GiG~~~A~~i~~~~~~   66 (74)
T 3c1y_A           43 VEDLKKVEGIGEKRARAISESISS   66 (74)
T ss_dssp             HHHHTTSTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf             988854478469999999999999


No 50 
>>2kp7_A Crossover junction endonuclease MUS81; helix-hairpin-helix, tumour suppressor, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; NMR {Mus musculus} (A:)
Probab=81.37  E-value=1.4  Score=24.88  Aligned_cols=25  Identities=24%  Similarity=0.178  Sum_probs=20.1

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHC
Q ss_conf             9999756899953799999999719
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLHLVKK   38 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~Ll~~   38 (201)
                      ...+..|||||+|.|.++--+|-.-
T Consensus        57 ~~~l~~lpgiG~~ia~kI~e~l~tg   81 (87)
T 2kp7_A           57 GKEAKILQHFGDRLCRMLDEKLKQH   81 (87)
T ss_dssp             HHHHHTCTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHH
T ss_conf             9998738998789999999999999


No 51 
>>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanococcus jannaschii} (A:210-274)
Probab=79.55  E-value=0.97  Score=25.98  Aligned_cols=18  Identities=17%  Similarity=0.187  Sum_probs=14.3

Q ss_pred             HHHCCCCCHHHHHHHHHH
Q ss_conf             975689995379999999
Q gi|254780762|r   17 LARIPGFGPRSARRATLH   34 (201)
Q Consensus        17 l~kLPGIG~KsA~R~a~~   34 (201)
                      +.-+||||||+|.++.-.
T Consensus        18 ipGV~GIGpKtA~~li~~   35 (65)
T 1a76_A           18 PGGVKGIGFKRAYELVRS   35 (65)
T ss_dssp             TTTTTTCCHHHHHHHHHH
T ss_pred             CCCCCCEEHHHHHHHHHH
T ss_conf             555685629999999997


No 52 
>>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} (A:221-288)
Probab=77.26  E-value=1.3  Score=25.23  Aligned_cols=18  Identities=17%  Similarity=0.152  Sum_probs=14.6

Q ss_pred             HHHCCCCCHHHHHHHHHH
Q ss_conf             975689995379999999
Q gi|254780762|r   17 LARIPGFGPRSARRATLH   34 (201)
Q Consensus        17 l~kLPGIG~KsA~R~a~~   34 (201)
                      +.-+||||+|+|.++.-.
T Consensus        17 ~pGV~GIG~ktA~~li~~   34 (68)
T 1rxw_A           17 NEGVKGVGVKKALNYIKT   34 (68)
T ss_dssp             BCCCTTCCHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHH
T ss_conf             589999578999999999


No 53 
>>3fbl_A Putative uncharacterized protein; AFV1, archaeal virus, extremophiles, lipothrixviridae, structural protein, DNA-binding protein; 1.95A {Acidianus filamentous virus 1} (A:)
Probab=77.18  E-value=1.8  Score=24.10  Aligned_cols=35  Identities=14%  Similarity=0.266  Sum_probs=30.5

Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             66686679999999975689995379999999971
Q gi|254780762|r    3 KKITGKEIENLIKILARIPGFGPRSARRATLHLVK   37 (201)
Q Consensus         3 ~~~~~~~l~~LI~~l~kLPGIG~KsA~R~a~~Ll~   37 (201)
                      ++|..+.+++.|.+|+.-.||...+||++|-|+-.
T Consensus        46 sdmiaeyinnaisafssrtgisqetaqkiadfits   80 (82)
T 3fbl_A           46 SDMIAEYINNAISAFSSRTGISQETAQKIADFITS   80 (82)
T ss_dssp             HHHHHHHHHHHHHHHHTSTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHC
T ss_conf             78999999889998760246449999999998723


No 54 
>>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase/DNA complex; HET: DNA MSE ADI; 1.70A {Sulfolobus solfataricus} (A:183-237)
Probab=76.52  E-value=1.4  Score=24.99  Aligned_cols=26  Identities=19%  Similarity=0.250  Sum_probs=18.2

Q ss_pred             CCCCCHHHHHHHHHH-------HHHCCHHHHHH
Q ss_conf             689995379999999-------97199899999
Q gi|254780762|r   20 IPGFGPRSARRATLH-------LVKKKEQLLGP   45 (201)
Q Consensus        20 LPGIG~KsA~R~a~~-------Ll~~~~~~~~~   45 (201)
                      +||||+++++|+.-+       |.+.+.+.+..
T Consensus         1 i~GIG~~t~~kL~~~GI~ti~dl~~~~~~~L~~   33 (55)
T 1jx4_A            1 VPGIGNITAEKLKKLGINKLVDTLSIEFDKLKG   33 (55)
T ss_dssp             STTCCHHHHHHHHTTTCCBGGGGGSSCHHHHHH
T ss_pred             CCCCCHHHHHHHHHHCCCCCHHCCCCCHHHHHH
T ss_conf             259966799999984896823121379999998


No 55 
>>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerization motif; HET: DNA; 2.85A {Pyrococcus furiosus} (A:1-95)
Probab=76.41  E-value=1.7  Score=24.30  Aligned_cols=29  Identities=21%  Similarity=0.384  Sum_probs=16.5

Q ss_pred             HHHCCCCCHHHHHHHHHH-------HHHCCHHHHHH
Q ss_conf             975689995379999999-------97199899999
Q gi|254780762|r   17 LARIPGFGPRSARRATLH-------LVKKKEQLLGP   45 (201)
Q Consensus        17 l~kLPGIG~KsA~R~a~~-------Ll~~~~~~~~~   45 (201)
                      +..+||||++.|++++-+       |...+.+.+.+
T Consensus        37 ll~I~gIG~~~a~~L~~~~~~s~e~i~~As~e~L~~   72 (95)
T 1pzn_A           37 IEDLPGVGPATAEKLREAGYDTLEAIAVASPIELKE   72 (95)
T ss_dssp             SSCCTTCCHHHHHHHHTTTCCSHHHHHTCCHHHHHH
T ss_pred             HHHCCCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHH
T ss_conf             643799799999999985997199998289999997


No 56 
>>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} (A:182-261)
Probab=76.28  E-value=1.4  Score=24.94  Aligned_cols=18  Identities=11%  Similarity=0.309  Sum_probs=14.3

Q ss_pred             HHHCCCCCHHHHHHHHHH
Q ss_conf             975689995379999999
Q gi|254780762|r   17 LARIPGFGPRSARRATLH   34 (201)
Q Consensus        17 l~kLPGIG~KsA~R~a~~   34 (201)
                      +.-+||||||+|.++.-.
T Consensus        24 ipGV~GIG~ktA~~Li~~   41 (80)
T 1exn_A           24 IRGVEGIGAKRGYNIIRE   41 (80)
T ss_dssp             BCCCTTCCHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHH
T ss_conf             899997679999999999


No 57 
>>1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics; HET: DNA; NMR {Homo sapiens} (A:)
Probab=76.24  E-value=1.4  Score=24.95  Aligned_cols=50  Identities=8%  Similarity=-0.018  Sum_probs=31.2

Q ss_pred             HHHHCCCCCHHHHHHHHHH-------HHHCCHHHHHH-------HHHHHHHHHHHCCCCCCCCC
Q ss_conf             9975689995379999999-------97199899999-------99999999985182889997
Q gi|254780762|r   16 ILARIPGFGPRSARRATLH-------LVKKKEQLLGP-------LAEAMANIYNKVCLCSICGN   65 (201)
Q Consensus        16 ~l~kLPGIG~KsA~R~a~~-------Ll~~~~~~~~~-------l~~~l~~~~~~i~~C~~C~~   65 (201)
                      .+..+||||+++|+|+.-.       |...+.+.+..       .+..+......+.....+..
T Consensus        26 ~l~~i~GVG~~~~~~L~~~Gi~Tv~~la~~~~~~L~~i~G~~~~~a~~i~~~ar~~~~~~~~~~   89 (114)
T 1b22_A           26 SRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAEAAKLVPMGFTTA   89 (114)
T ss_dssp             HHHHHTTCSHHHHHHHHTTCCSSGGGBTSSBHHHHHTTTTCSTTHHHHHHHHHHHHSCCC----
T ss_pred             HHHHHCCCCHHHHHHHHHCCCCHHHHHHHCCHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCH
T ss_conf             9997689998999999996985399998589999986206369999999999998668775509


No 58 
>>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} (A:219-300)
Probab=74.97  E-value=1.6  Score=24.56  Aligned_cols=18  Identities=28%  Similarity=0.399  Sum_probs=14.7

Q ss_pred             HHHCCCCCHHHHHHHHHH
Q ss_conf             975689995379999999
Q gi|254780762|r   17 LARIPGFGPRSARRATLH   34 (201)
Q Consensus        17 l~kLPGIG~KsA~R~a~~   34 (201)
                      +.-+||||+|+|.++.-.
T Consensus        18 i~GV~GiG~ktA~~li~~   35 (82)
T 2izo_A           18 PDGIRGIGPERALKIIKK   35 (82)
T ss_dssp             TTCSTTCCHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHH
T ss_conf             334799448899999998


No 59 
>>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication; 2.00A {Pyrococcus furiosus} (A:212-288)
Probab=72.46  E-value=2  Score=23.90  Aligned_cols=17  Identities=24%  Similarity=0.255  Sum_probs=13.6

Q ss_pred             HHHCCCCCHHHHHHHHH
Q ss_conf             97568999537999999
Q gi|254780762|r   17 LARIPGFGPRSARRATL   33 (201)
Q Consensus        17 l~kLPGIG~KsA~R~a~   33 (201)
                      +..+||||+|+|-++.-
T Consensus        28 i~GV~GiG~ktA~kli~   44 (77)
T 1b43_A           28 PGGIKGIGLKKALEIVR   44 (77)
T ss_dssp             TTCSTTCCHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHH
T ss_conf             56589624999999999


No 60 
>>1wcn_A Transcription elongation protein NUSA; RNA-binding protein, escherichia coli NUSA, transcription regulation, regulation of RNA binding; NMR {Escherichia coli} PDB: 2jzb_B (A:)
Probab=69.73  E-value=3.1  Score=22.55  Aligned_cols=20  Identities=15%  Similarity=0.107  Sum_probs=12.4

Q ss_pred             HHHHHCCCCCHHHHHHHHHH
Q ss_conf             99975689995379999999
Q gi|254780762|r   15 KILARIPGFGPRSARRATLH   34 (201)
Q Consensus        15 ~~l~kLPGIG~KsA~R~a~~   34 (201)
                      +.|..+||||++.|+++.-.
T Consensus         7 ~~L~~i~Gig~~~a~~L~~a   26 (70)
T 1wcn_A            7 DDLLNLEGVDRDLAFKLAAR   26 (70)
T ss_dssp             HHHHSSTTCCHHHHHHHHTT
T ss_pred             HHHHHCCCCCHHHHHHHHHC
T ss_conf             89981789899999999996


No 61 
>>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A (A:)
Probab=68.89  E-value=2.6  Score=23.13  Aligned_cols=26  Identities=15%  Similarity=0.183  Sum_probs=19.3

Q ss_pred             HHHHCCCCCHHHHHHHHHHHHHCCHH
Q ss_conf             99756899953799999999719989
Q gi|254780762|r   16 ILARIPGFGPRSARRATLHLVKKKEQ   41 (201)
Q Consensus        16 ~l~kLPGIG~KsA~R~a~~Ll~~~~~   41 (201)
                      .|+.||+|||++++.+.--=+...++
T Consensus         5 ~l~~LPNiG~~~e~~L~~iGI~tv~~   30 (93)
T 3bqs_A            5 NLSELPNIGKVLEQDLIKAGIKTPVE   30 (93)
T ss_dssp             CGGGSTTCCHHHHHHHHHTTCCSHHH
T ss_pred             HHHHCCCCCHHHHHHHHHCCCCCHHH
T ss_conf             78568999999999999839998999


No 62 
>>2apo_B Ribosome biogenesis protein NOP10; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} (B:)
Probab=67.08  E-value=1.7  Score=24.26  Aligned_cols=29  Identities=17%  Similarity=0.415  Sum_probs=24.5

Q ss_pred             HHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             99851828899973345654100355556
Q gi|254780762|r   53 IYNKVCLCSICGNVDTTDPCAICIDQQRD   81 (201)
Q Consensus        53 ~~~~i~~C~~C~~l~~~~~C~iC~d~~Rd   81 (201)
                      .+..|..|+.|+.+|-.+.|+-|-.+...
T Consensus         2 Mk~~irkC~~c~~YTLk~~cP~cG~~T~~   30 (60)
T 2apo_B            2 VEXRXKKCPKCGLYTLKEICPKCGEKTVI   30 (60)
T ss_dssp             -CCCCEECTTTCCEESSSBCSSSCSBCBC
T ss_pred             CHHHHHHCCCCCCEECCCCCCCCCCCCCC
T ss_conf             27666518745543256637778887576


No 63 
>>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} (X:1-14,X:218-292)
Probab=65.65  E-value=3.3  Score=22.36  Aligned_cols=18  Identities=28%  Similarity=0.427  Sum_probs=14.3

Q ss_pred             HHHCCCCCHHHHHHHHHH
Q ss_conf             975689995379999999
Q gi|254780762|r   17 LARIPGFGPRSARRATLH   34 (201)
Q Consensus        17 l~kLPGIG~KsA~R~a~~   34 (201)
                      +..+||||+|+|.++.-.
T Consensus        31 ~pGV~GIG~KtA~kLI~~   48 (89)
T 1ul1_X           31 CESIRGIGPKRAVDLIQK   48 (89)
T ss_dssp             SCCCTTCCHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHH
T ss_conf             355788569999999998


No 64 
>>2exu_A Transcription initiation protein SPT4/SPT5; helixs surrounding beta sheet; 2.23A {Saccharomyces cerevisiae} (A:1-91)
Probab=65.42  E-value=1.6  Score=24.58  Aligned_cols=55  Identities=20%  Similarity=0.457  Sum_probs=41.3

Q ss_pred             HHCCCCCCCCCCCCC-----CCCCCCCC------------CCCCCCEEEEEECHHHHHHHHHHCC---EEEEEEE
Q ss_conf             851828899973345-----65410035------------5556736999835889999975174---0134210
Q gi|254780762|r   55 NKVCLCSICGNVDTT-----DPCAICID------------QQRDASVIIVVEDVADLWALERSKA---VNALYHV  109 (201)
Q Consensus        55 ~~i~~C~~C~~l~~~-----~~C~iC~d------------~~Rd~~~lCVVE~~~Di~~IE~t~~---y~G~YhV  109 (201)
                      .+.+-|..|+.+.+.     +.|+.|.+            .+-+.+=+.+|-+|.+=|.-...+.   ..|.|-+
T Consensus         2 k~lrAC~~C~~I~t~~qF~~~gCpnC~~~~~~~~~~v~~~tT~~f~G~i~i~dP~~SwvAk~l~i~~~vpG~YAi   76 (91)
T 2exu_A            2 SSERACMLCGIVQTTNEFNRDGCPNCQGIFEEAGVSTMECTSPSFEGLVGMCKPTKSWVAKWLSVDHSIAGMYAI   76 (91)
T ss_dssp             -CEEEETTTCBEEEHHHHHHHCCTTTHHHHHHHTCCSGGGEESCEEEEEEESCTTTCHHHHHTTCTTSCSEEEEE
T ss_pred             CCCCHHHHCCCCCCHHHHCCCCCCCCCCHHCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHCCCCCCCCEEEE
T ss_conf             747155519953024253137999970011036665444567261648999676273999985788778865899


No 65 
>>3h7h_A Transcription elongation factor SPT4; helices surrounding beta sheet, activator, metal-binding, nucleus, repressor, transcription regulation, zinc; 1.55A {Homo sapiens} (A:1-95)
Probab=64.93  E-value=2  Score=23.89  Aligned_cols=55  Identities=24%  Similarity=0.434  Sum_probs=39.2

Q ss_pred             HHCCCCCCCCCCCCC-----CCCCCCC--------------CCCCCCCEEEEEECHHHHHHHHHHCC---EEEEEEE
Q ss_conf             851828899973345-----6541003--------------55556736999835889999975174---0134210
Q gi|254780762|r   55 NKVCLCSICGNVDTT-----DPCAICI--------------DQQRDASVIIVVEDVADLWALERSKA---VNALYHV  109 (201)
Q Consensus        55 ~~i~~C~~C~~l~~~-----~~C~iC~--------------d~~Rd~~~lCVVE~~~Di~~IE~t~~---y~G~YhV  109 (201)
                      .+.+-|..|+.+.+.     +.|++|.              ..+-+.+=+.++-+|.+=|.-...+.   -.|.|-|
T Consensus        14 r~lrAC~~C~~I~t~~qF~~~gCpnC~~~l~~~~~~~~v~~~tT~~f~G~i~i~dP~~SwvAk~l~i~~~vpG~YAi   90 (95)
T 3h7h_A           14 RHLRACLLCSLVKTIDQFEYDGCDNCDAYLQMKGNREMVYDCTSSSFDGIIAMMSPEDSWVSKWQRVSNFKPGVYAV   90 (95)
T ss_dssp             TTEEEETTTCBEEEHHHHHHHCCTTTHHHHCCTTCHHHHHHHEESCEEEEEEESCGGGCHHHHHTTCTTSCSEEEEE
T ss_pred             CCCHHHHCCCCEECHHHHHHCCCCCCHHHHCCCCCHHHHEECCCCCCCEEEEEECCCCCHHHHHHCCCCCCCCEEEE
T ss_conf             22435520871304999956499870777427887536104346663337999568423899986456778974898


No 66 
>>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structural genomics, PSI; NMR {Pyrococcus furiosus dsm 3638} (A:)
Probab=58.06  E-value=6  Score=20.65  Aligned_cols=60  Identities=20%  Similarity=0.291  Sum_probs=39.9

Q ss_pred             HHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH----CCCCCCCCCCCCC-----CCCCCCCCCCCCC
Q ss_conf             99756899953799999999719989999999999999985----1828899973345-----6541003555567
Q gi|254780762|r   16 ILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMANIYNK----VCLCSICGNVDTT-----DPCAICIDQQRDA   82 (201)
Q Consensus        16 ~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l~~~~~~----i~~C~~C~~l~~~-----~~C~iC~d~~Rd~   82 (201)
                      .|++.=||+++.+++-+|.       .+..+++++..-...    =-.|..||+.-.+     .-|+-|.++.=+.
T Consensus        29 ela~~l~i~~~~~ek~Vy~-------hLeHIaksl~r~g~~L~v~Pp~C~~CGf~F~d~~~kPsRCP~CkSe~Iee   97 (105)
T 2gmg_A           29 ELARILDMRGKGSKKVILE-------DLKVISKIAKREGMVLLIKPAQCRKCGFVFKAEINIPSRCPKCKSEWIEE   97 (105)
T ss_dssp             HHHHSSCCCSSCCHHHHHH-------HHHHHHHHHTTTTEEEEECCCBBTTTCCBCCCCSSCCSSCSSSCCCCBCC
T ss_pred             HHHHHHCCCCCCCHHHHHH-------HHHHHHHHHHCCCCEEEEECHHHCCCCCEECCCCCCCCCCCCCCCCCCCC
T ss_conf             9999963345440889999-------99999998860897699868312207777267789999899988726359


No 67 
>>1ci4_A Protein (barrier-TO-autointegration factor (BAF) ); DNA binding protein, retroviral integration, preintegration complex; 1.90A {Homo sapiens} (A:)
Probab=56.85  E-value=14  Score=18.08  Aligned_cols=32  Identities=19%  Similarity=0.400  Sum_probs=23.7

Q ss_pred             HHHCCCCCHHHHHHHH-------------HHHHHCCHHHHHHHHH
Q ss_conf             9756899953799999-------------9997199899999999
Q gi|254780762|r   17 LARIPGFGPRSARRAT-------------LHLVKKKEQLLGPLAE   48 (201)
Q Consensus        17 l~kLPGIG~KsA~R~a-------------~~Ll~~~~~~~~~l~~   48 (201)
                      ...|||||+.-++|+.             |-+++.+++..++-..
T Consensus        20 V~~l~GIg~~lg~~L~~kGfdKAyvvLGqfLvl~kde~~F~~Wlk   64 (89)
T 1ci4_A           20 VGSLAGIGEVLGKKLEERGFDKAYVVLGQFLVLKKDEDLFREWLK   64 (89)
T ss_dssp             GGGSTTCCHHHHHHHHHTTCCSHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             451688638998899984853999999999982774999999999


No 68 
>>2i5h_A Hypothetical protein AF1531; PFAM:DUF655, PSI-2, structural genomics, protein structure initiative; 1.74A {Archaeoglobus fulgidus} (A:)
Probab=56.76  E-value=7.3  Score=20.10  Aligned_cols=34  Identities=18%  Similarity=0.224  Sum_probs=24.4

Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHH
Q ss_conf             9997568999537999999997199899999999
Q gi|254780762|r   15 KILARIPGFGPRSARRATLHLVKKKEQLLGPLAE   48 (201)
Q Consensus        15 ~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~   48 (201)
                      ..|..+||||++.|+++.-+=-+.+=....+|.+
T Consensus       132 ~~L~~I~GiG~~~a~~Iie~Re~g~F~S~eDl~~  165 (205)
T 2i5h_A          132 HQLELLPGVGKKMMWAIIEERKKRPFESFEDIAQ  165 (205)
T ss_dssp             BGGGGSTTCCHHHHHHHHHHHHHSCCCSHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHCCCCCCCHHHHHH
T ss_conf             9887444515899999999975489889999998


No 69 
>>2aus_D NOP10, ribosome biogenesis protein NOP10; isomerase, structural protein, isomerase/structural protein complex; 2.10A {Pyrococcus abyssi} PDB: 3hax_C* 2hvy_C* 3hay_C* 2ey4_E 3hjw_B* 2rfk_B* 3hjy_B (D:)
Probab=56.34  E-value=4.7  Score=21.37  Aligned_cols=28  Identities=18%  Similarity=0.610  Sum_probs=23.5

Q ss_pred             HHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             9851828899973345654100355556
Q gi|254780762|r   54 YNKVCLCSICGNVDTTDPCAICIDQQRD   81 (201)
Q Consensus        54 ~~~i~~C~~C~~l~~~~~C~iC~d~~Rd   81 (201)
                      +..+..|+.|+.+|-.+.|+.|-.+...
T Consensus         2 ~~~ir~c~~c~~YTLk~~cP~cG~~t~~   29 (60)
T 2aus_D            2 RFRIRKCPKCGRYTLKETCPVCGEKTKV   29 (60)
T ss_dssp             --CCEECTTTCCEESSSBCTTTCSBCEE
T ss_pred             CHHHHHCCCCCCEECCCCCCCCCCCCCC
T ss_conf             0576518625654234537677883576


No 70 
>>2zkq_m 40S ribosomal protein S18E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1h_M (m:1-88)
Probab=53.31  E-value=12  Score=18.54  Aligned_cols=40  Identities=18%  Similarity=0.158  Sum_probs=28.3

Q ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHHC--------CHHHHHHHHHHHH
Q ss_conf             999999756899953799999999719--------9899999999999
Q gi|254780762|r   12 NLIKILARIPGFGPRSARRATLHLVKK--------KEQLLGPLAEAMA   51 (201)
Q Consensus        12 ~LI~~l~kLPGIG~KsA~R~a~~Ll~~--------~~~~~~~l~~~l~   51 (201)
                      .+.-+|+.+-|||+++|.++...+=-.        .++.+..+.+.|.
T Consensus        25 ~i~~ALt~I~GIG~~~A~~Ic~~lgi~~~~k~~~Lt~~qi~~l~~~i~   72 (88)
T 2zkq_m           25 KIAFAITAIKGVGRRYAHVVLRKADIDLTKRAGELTEDEVERVITIMQ   72 (88)
T ss_dssp             BHHHHGGGSTTCCHHHHHHHHHHHTCCTTSBTTTSCHHHHHHHHHHHH
T ss_pred             EEEEEHHCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             873603024662899999999982999543336399999999999984


No 71 
>>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus} (A:)
Probab=51.35  E-value=3.8  Score=21.97  Aligned_cols=22  Identities=5%  Similarity=-0.005  Sum_probs=10.1

Q ss_pred             EEEECCCCCHHHHHHHHHHHHC
Q ss_conf             9994699786899999999820
Q gi|254780762|r  143 IFAISATIEGQTTAHYIMDKLK  164 (201)
Q Consensus       143 IlA~~~t~EGe~Ta~yi~~~lk  164 (201)
                      .++++-.-=|..||--|.+.+.
T Consensus       173 ~~~~~I~~IG~~~a~~Ll~~Fg  194 (226)
T 3c65_A          173 SVLDDIPGVGEKRKKALLNYFG  194 (226)
T ss_dssp             ----------------------
T ss_pred             CHHHHHHHHCHHHHHHHHHHCC
T ss_conf             7688998747999999999858


No 72 
>>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans} (A:119-241)
Probab=50.95  E-value=16  Score=17.85  Aligned_cols=57  Identities=26%  Similarity=0.328  Sum_probs=34.3

Q ss_pred             HHHHHHHH-----HHHCCCCCHHHHHHHHHHHH--H-----CCHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             79999999-----97568999537999999997--1-----99899999999999999851828899973
Q gi|254780762|r    9 EIENLIKI-----LARIPGFGPRSARRATLHLV--K-----KKEQLLGPLAEAMANIYNKVCLCSICGNV   66 (201)
Q Consensus         9 ~l~~LI~~-----l~kLPGIG~KsA~R~a~~Ll--~-----~~~~~~~~l~~~l~~~~~~i~~C~~C~~l   66 (201)
                      ++++|-.+     ++.|||+|.|+.+++-.-|-  +     .+-..+..+++.+...-..+. ...||.+
T Consensus         2 tleeL~~a~~~~~i~~l~gfG~K~~~~il~gl~~~~~~~~ri~~~ea~~~a~~i~~~l~~~~-~~~~GS~   70 (123)
T 2w9m_A            2 SLERLREAAESGELAGLKGFGAKSAATILENVVFLFEARQRQSLRAGLAVAEELAGALTDLS-PAPAGDV   70 (123)
T ss_dssp             SHHHHHHHHHHTTTTTSTTCCHHHHHHHHHHHHHHHHHCSSEEHHHHHHHHHHHHHHTGGGC-CEECHHH
T ss_pred             CHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCE-EEECCCC
T ss_conf             89999998760880121101388999999878788875356699999999999997544766-9975742


No 73 
>>2vxo_A GMP synthase [glutamine-hydrolyzing]; proto-oncogene, phosphoprotein, GMP synthetase, guanine monophosphate synthetase, chromosomal rearrangement; HET: XMP; 2.5A {Homo sapiens} (A:218-446)
Probab=49.73  E-value=20  Score=17.15  Aligned_cols=54  Identities=9%  Similarity=0.151  Sum_probs=46.7

Q ss_pred             CCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHH
Q ss_conf             785549999469978689999999982017980887414674882066634799
Q gi|254780762|r  137 KKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMGSELDYLDDGT  190 (201)
Q Consensus       137 ~~i~EVIlA~~~t~EGe~Ta~yi~~~lk~~~ikitrla~GiP~G~~ley~D~~T  190 (201)
                      .+-+-|++|+|-=++.-++++.+++.....++..--.-.|.+...+++|+....
T Consensus        21 ~~~~~v~v~~SGG~DSs~ll~l~~~~~~~~~i~~v~~~~g~~~~~~~~~a~~~a   74 (229)
T 2vxo_A           21 VGTSKVLVLLSGGVDSTVCTALLNRALNQEQVIAVHIDNGFMRKRESQSVEEAL   74 (229)
T ss_dssp             HTTCEEEEECCSSHHHHHHHHHHHHHSCGGGEEEEEEECSCCCSSTTHHHHHHH
T ss_pred             HCCCCCEEEECCCCCHHHHHHHHHHHHCCCCEEEEEECCCCCCCCHHHHHHHHH
T ss_conf             414551366305751388999999850436437999563347865599999999


No 74 
>>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} (A:427-542)
Probab=46.83  E-value=9.9  Score=19.20  Aligned_cols=17  Identities=29%  Similarity=0.497  Sum_probs=10.4

Q ss_pred             HCCCCCHHHHHHHHHHH
Q ss_conf             56899953799999999
Q gi|254780762|r   19 RIPGFGPRSARRATLHL   35 (201)
Q Consensus        19 kLPGIG~KsA~R~a~~L   35 (201)
                      .+||||+++|+.++-|.
T Consensus        85 gI~giG~~~ak~L~~~f  101 (116)
T 1dgs_A           85 GLPGVGEVLARNLARRF  101 (116)
T ss_dssp             TCSSCCHHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHHHHC
T ss_conf             99754568999998766


No 75 
>>2vqe_M 30S ribosomal protein S13, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} (M:1-64)
Probab=45.02  E-value=14  Score=18.16  Aligned_cols=24  Identities=25%  Similarity=0.216  Sum_probs=20.1

Q ss_pred             HHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             999999756899953799999999
Q gi|254780762|r   12 NLIKILARIPGFGPRSARRATLHL   35 (201)
Q Consensus        12 ~LI~~l~kLPGIG~KsA~R~a~~L   35 (201)
                      .+.-+|+++-|||+++|.++...+
T Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~~l   37 (64)
T 2vqe_M           14 RVDVALTYIYGIGKARAKEALEKT   37 (64)
T ss_dssp             BHHHHHTTSSSCCSHHHHHHTTTT
T ss_pred             EEEEEEEEEECCCHHHHHHHHHHC
T ss_conf             888873306581899999999982


No 76 
>>1k8r_B Protein kinase BYR2; signal transduction, cancer, GTPase, ubiquitin fold, signaling protein; HET: GNP; 3.00A {Schizosaccharomyces pombe} (B:)
Probab=44.06  E-value=7.7  Score=19.93  Aligned_cols=42  Identities=19%  Similarity=0.243  Sum_probs=30.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCC-CCCEEEEEE--CH-HHHHHHHHHCC
Q ss_conf             89997334565410035555-673699983--58-89999975174
Q gi|254780762|r   61 SICGNVDTTDPCAICIDQQR-DASVIIVVE--DV-ADLWALERSKA  102 (201)
Q Consensus        61 ~~C~~l~~~~~C~iC~d~~R-d~~~lCVVE--~~-~Di~~IE~t~~  102 (201)
                      ..|..+++.+...||.+++| .++.|..+-  .+ -|-.+|+++..
T Consensus        48 ~~~~~L~D~EL~~IC~~~~R~ER~RLIL~~k~~~~P~~~~l~~s~~   93 (110)
T 1k8r_B           48 SRIKLITEEEFKQICFNSSSPERDRLIIVPKEKPCPSFEDLRRSWE   93 (110)
T ss_dssp             SSEEECCCC-------------CCCEEEEESSSCCCCHHHHHHTTC
T ss_pred             HHEEEECHHHHHHHHCCCCCCCCCCEEEEECCCCCCCHHHHHHHHH
T ss_conf             3437730887999980898321571698767899989899999999


No 77 
>>3i1m_M 30S ribosomal protein S13; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_M* 3e1a_F 3e1c_F 1vs5_M 3i1o_M 3i1q_M 3i1s_M 3i1z_M 3i21_M 2qal_M* 1p6g_M 1p87_M 2aw7_M 2avy_M 2i2u_M 2i2p_M* 2qan_M* 2qb9_M* 2qbb_M* 2qbd_M ... (M:1-63)
Probab=43.25  E-value=16  Score=17.75  Aligned_cols=26  Identities=15%  Similarity=0.134  Sum_probs=20.9

Q ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             99999975689995379999999971
Q gi|254780762|r   12 NLIKILARIPGFGPRSARRATLHLVK   37 (201)
Q Consensus        12 ~LI~~l~kLPGIG~KsA~R~a~~Ll~   37 (201)
                      .+.-+|+.+-|||+++|.++...+=-
T Consensus        14 ~v~~aLt~i~GIG~~~A~~Ic~~~gi   39 (63)
T 3i1m_M           14 HAVIALTSIYGVGKTRSKAILAAAGI   39 (63)
T ss_dssp             CHHHHGGGSTTCCHHHHHHHHTTTTC
T ss_pred             EEEEEEECEECCCHHHHHHHHHHCCC
T ss_conf             88887534457389999999999198


No 78 
>>1iv0_A Hypothetical protein; rnaseh-like, YQGF, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Thermus thermophilus} (A:)
Probab=43.18  E-value=13  Score=18.49  Aligned_cols=64  Identities=8%  Similarity=0.133  Sum_probs=45.0

Q ss_pred             HHHHCCCCCCCCHHHC--CHHHHHHHHCCCCCCEEEEEECCCCCHHHH-----HHHHHHHHCCCCCEEEEE
Q ss_conf             1210020002681112--889999985157855499994699786899-----999999820179808874
Q gi|254780762|r  110 LGGSLSPLDRIGPEDI--GIQSLIERIEVKKIRELIFAISATIEGQTT-----AHYIMDKLKGIDVKITRL  173 (201)
Q Consensus       110 LgG~ispl~g~~p~~l--~i~~L~~ri~~~~i~EVIlA~~~t~EGe~T-----a~yi~~~lk~~~ikitrl  173 (201)
                      ++..-+|+.-+.-.+.  .++.|.+.+++.++..|++.+.-+..|.-+     +.-..+.|+..++.|...
T Consensus        21 ~~~~a~pl~~i~~~~~~~~~~~l~~li~~~~v~~iVvGlP~~~~g~~~~~~~~i~~f~~~l~~~~i~v~~~   91 (98)
T 1iv0_A           21 GVPLASGRGYLVRKTLEEDVEALLDFVRREGLGKLVVGLPLRTDLKESAQAGKVLPLVEALRARGVEVELW   91 (98)
T ss_dssp             CCSSCCCEEEEECCCHHHHHHHHHHHHHHHTCCEEEEECCCCCCSSSCCCSSTTHHHHHHHHHTTCEEEEE
T ss_pred             CCCEEECEEEEECCCCHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             99878167889867865899999999987362507816897789991889999999999986479989998


No 79 
>>1o98_A 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; isomerase, alpha/beta-type structure; HET: 2PG; 1.4A {Bacillus stearothermophilus} (A:75-312)
Probab=43.09  E-value=15  Score=18.08  Aligned_cols=75  Identities=17%  Similarity=0.214  Sum_probs=49.0

Q ss_pred             ECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEE-EEEE--CCCCCHHHHHHHHHHHHCC
Q ss_conf             358899999751740134210121002000268111288999998515785549-9994--6997868999999998201
Q gi|254780762|r   89 EDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIREL-IFAI--SATIEGQTTAHYIMDKLKG  165 (201)
Q Consensus        89 E~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EV-IlA~--~~t~EGe~Ta~yi~~~lk~  165 (201)
                      +++.=..+|+....-+|.-|.+ |++|+- |+--..=.+-.|++..++.++++| |=|+  .-.+.-..-..||+++.+.
T Consensus        19 ~n~~l~~~~~~~k~~~~~lHl~-GL~SdG-GVHSh~~Hl~al~~~a~~~gv~~V~iH~f~DGRDt~P~Sa~~yi~~le~~   96 (238)
T 1o98_A           19 RNETFLAAMNHVKQHGTSLHLF-GLLSDG-GVHSHIHHLYALLRLAAKEGVKRVYIHGFLDGRDVGPQTAPQYIKELQEK   96 (238)
T ss_dssp             GCHHHHHHHHHHHHHTCCEEEE-EECSSC-CSSCCHHHHHHHHHHHHHTTCCCEEEEEEECSSSSCTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHCCCCEEEE-EECCCC-CCCCCHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHH
T ss_conf             4999999999998669824789-842688-65554345568899999719940578884146667832579999999986


No 80 
>>1d8b_A SGS1 RECQ helicase; five helices, three-helical bundle flanked by two helices, DNA binding protein; NMR {Saccharomyces cerevisiae} (A:)
Probab=41.96  E-value=13  Score=18.49  Aligned_cols=23  Identities=13%  Similarity=0.056  Sum_probs=19.1

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf             99997568999537999999997
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLHLV   36 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~Ll   36 (201)
                      .+.|.++||+|++.++|+.-+|.
T Consensus        47 ~~eL~~i~G~~~~k~~~yG~~l~   69 (81)
T 1d8b_A           47 DSAFATLGTVEDKYRRRFKYFKA   69 (81)
T ss_dssp             HHHHGGGSCCCHHHHHHGGGTHH
T ss_pred             HHHHHCCCCCCHHHHHHHHHHHH
T ss_conf             99981799999999999999999


No 81 
>>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} (B:229-310)
Probab=41.79  E-value=22  Score=16.86  Aligned_cols=40  Identities=13%  Similarity=0.047  Sum_probs=27.9

Q ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHH--------CCHHHHHHHHHHHH
Q ss_conf             99999975689995379999999971--------99899999999999
Q gi|254780762|r   12 NLIKILARIPGFGPRSARRATLHLVK--------KKEQLLGPLAEAMA   51 (201)
Q Consensus        12 ~LI~~l~kLPGIG~KsA~R~a~~Ll~--------~~~~~~~~l~~~l~   51 (201)
                      .+.-+++.+-|||+++|+.+...+=-        ..++.+..|.+++.
T Consensus        26 ~i~~aLt~i~GIG~~~A~~I~~~~gi~~~~~~~~Lt~~qi~~L~~~~~   73 (82)
T 2zbk_B           26 IKEFLVNEFQSIGDTTADKILELAGLKPNKKVKNLTEEEITRLVETFK   73 (82)
T ss_dssp             HHHHHHTTSTTCCHHHHHHHHHHTTCCSSCBSSCCCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHCCCC
T ss_conf             334551576467608777666552366334723336788876411010


No 82 
>>1yuz_A Nigerythrin; rubrythrin, rubredoxin, hemerythrin, electron transfer, DIIRON center, oxidoreductase; 1.40A {Desulfovibrio vulgaris subsp} (A:)
Probab=40.50  E-value=18  Score=17.39  Aligned_cols=56  Identities=23%  Similarity=0.431  Sum_probs=36.1

Q ss_pred             CHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH----HHCCCCCCCCCCCCC---CCCCCCCCCC
Q ss_conf             9537999999997199899999999999999----851828899973345---6541003555
Q gi|254780762|r   24 GPRSARRATLHLVKKKEQLLGPLAEAMANIY----NKVCLCSICGNVDTT---DPCAICIDQQ   79 (201)
Q Consensus        24 G~KsA~R~a~~Ll~~~~~~~~~l~~~l~~~~----~~i~~C~~C~~l~~~---~~C~iC~d~~   79 (201)
                      |-..+..+.-+++.........|.+.+..+.    .....|..|+++.+.   +.|++|..+.
T Consensus       134 ~d~~~~~~l~~~~~~E~~h~~~~~~ll~~~~~~~~~~~~~~~l~~~l~~~~~p~~cp~c~~~~  196 (202)
T 1yuz_A          134 GNSKAVHVFTRAKLAESVHAERYLAAYNDIDAPDDDKFHLCPICGYIHKGEDFEKCPICFRPK  196 (202)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCSCCEEECSSSCCEEESSCCSBCTTTCCBG
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCEECCCCCCCCCCCCCCH
T ss_conf             879999999999999999999999999986277788077889999852199999899999876


No 83 
>>2rhf_A DNA helicase RECQ; HRDC, D. radiodurans, ATP-binding, hydrolase, nucleotide-binding; HET: DNA; 1.10A {Deinococcus radiodurans R1} (A:)
Probab=40.14  E-value=28  Score=16.18  Aligned_cols=24  Identities=21%  Similarity=0.459  Sum_probs=19.9

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             999975689995379999999971
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLHLVK   37 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~Ll~   37 (201)
                      ++.|.+++|+|++..+|+.-.+|.
T Consensus        46 ~~eL~~i~gi~~~~~~~~G~~il~   69 (77)
T 2rhf_A           46 LAELAEVPGLGEKRIEAYGERILD   69 (77)
T ss_dssp             HHHHTTSTTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCCCHHHHHHHHHHHHH
T ss_conf             999737999899999999999999


No 84 
>>3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex, cytoplasm, redox-active center, stress response, transcription; 2.30A {Bacillus subtilis} (B:)
Probab=40.11  E-value=21  Score=16.98  Aligned_cols=23  Identities=13%  Similarity=0.290  Sum_probs=18.3

Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             99975689995379999999971
Q gi|254780762|r   15 KILARIPGFGPRSARRATLHLVK   37 (201)
Q Consensus        15 ~~l~kLPGIG~KsA~R~a~~Ll~   37 (201)
                      +.|.++||+|+||.+.+--.|-.
T Consensus        48 ~dLl~i~nlG~ksl~EI~~~L~~   70 (79)
T 3gfk_B           48 EDMMKVRNLGRKSLEEVKAKLEE   70 (79)
T ss_dssp             HHHTTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHH
T ss_conf             99985789867369999999998


No 85 
>>2kn9_A Rubredoxin; metalloprotein, ssgcid, structural genomics, seattle structural genomics center for infectious disease, electron transport; NMR {Mycobacterium tuberculosis} (A:)
Probab=39.42  E-value=13  Score=18.34  Aligned_cols=27  Identities=26%  Similarity=0.474  Sum_probs=19.5

Q ss_pred             HCCCCCCCCCCCCCC---------------------CCCCCCCCCCCC
Q ss_conf             518288999733456---------------------541003555567
Q gi|254780762|r   56 KVCLCSICGNVDTTD---------------------PCAICIDQQRDA   82 (201)
Q Consensus        56 ~i~~C~~C~~l~~~~---------------------~C~iC~d~~Rd~   82 (201)
                      .+-.|..||++-+..                     .|++|..++-..
T Consensus        26 ~~~~C~~CgyiYd~~~Gd~~~~i~pGT~f~~lP~~w~CPvC~~~K~~F   73 (81)
T 2kn9_A           26 KLFRCIQCGFEYDEALGWPEDGIAAGTRWDDIPDDWSCPDCGAAKSDF   73 (81)
T ss_dssp             CEEEETTTCCEEETTTCBTTTTBCTTCCTTTSCTTCCCTTTCCCGGGE
T ss_pred             CEEECCCCCEEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHHC
T ss_conf             859849999497766688466869899756799887795998957887


No 86 
>>1lko_A Rubrerythrin all-iron(II) form; reduced form, DIIRON, four-helix bundle, rubredoxin-like, electron transport; 1.63A {Desulfovibrio vulgaris} (A:149-191)
Probab=38.44  E-value=10  Score=19.10  Aligned_cols=24  Identities=25%  Similarity=0.641  Sum_probs=18.4

Q ss_pred             CCCCCCCCCCCCC----CCCCCCCCCCC
Q ss_conf             1828899973345----65410035555
Q gi|254780762|r   57 VCLCSICGNVDTT----DPCAICIDQQR   80 (201)
Q Consensus        57 i~~C~~C~~l~~~----~~C~iC~d~~R   80 (201)
                      .=.|.+||.+-+.    +.|++|.-+.-
T Consensus         7 ~W~C~~CGyi~~G~~aP~~CPvC~~~~~   34 (43)
T 1lko_A            7 KWRCRNCGYVHEGTGAPELCPACAHPKA   34 (43)
T ss_dssp             EEEETTTCCEEEEEECCSBCTTTCCBGG
T ss_pred             EEECCCCCCEEECCCCCCCCCCCCCCHH
T ss_conf             4788999862018999885989999669


No 87 
>>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli K12} (A:)
Probab=34.73  E-value=33  Score=15.66  Aligned_cols=29  Identities=24%  Similarity=0.320  Sum_probs=20.5

Q ss_pred             HHHHHH----HHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             799999----99975689995379999999971
Q gi|254780762|r    9 EIENLI----KILARIPGFGPRSARRATLHLVK   37 (201)
Q Consensus         9 ~l~~LI----~~l~kLPGIG~KsA~R~a~~Ll~   37 (201)
                      ++.+|+    +.|.++||+|+||.+.+.--|-.
T Consensus        46 ti~dL~~~s~~dLl~i~n~G~kSl~Ei~~~L~~   78 (98)
T 1coo_A           46 YIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS   78 (98)
T ss_dssp             BHHHHHTSCHHHHTTSTTCCHHHHHHHHHHHHH
T ss_pred             CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf             599998589999986779878789999999998


No 88 
>>1nu0_A Hypothetical protein YQGF; structural genomics, structure 2 function project, S2F, unknown function; 1.60A {Escherichia coli} (A:)
Probab=34.54  E-value=22  Score=16.90  Aligned_cols=60  Identities=15%  Similarity=0.236  Sum_probs=40.2

Q ss_pred             HHCCCCCCCCHHHC--CHHHHHHHHCCCCCCEEEEEECCCCCHHHH------HHHHHHHHCCCCCEEE
Q ss_conf             10020002681112--889999985157855499994699786899------9999998201798088
Q gi|254780762|r  112 GSLSPLDRIGPEDI--GIQSLIERIEVKKIRELIFAISATIEGQTT------AHYIMDKLKGIDVKIT  171 (201)
Q Consensus       112 G~ispl~g~~p~~l--~i~~L~~ri~~~~i~EVIlA~~~t~EGe~T------a~yi~~~lk~~~ikit  171 (201)
                      ...+|+.-+...+.  .++.|.+.+++.++++|++.+.-+..|..+      ..|...+-+..++.|.
T Consensus        25 ~ia~p~~~i~~~~~~~~~~~l~~li~~~~~~~iViGlP~~~~g~~~~~a~~v~~f~~~L~~~~~l~v~   92 (138)
T 1nu0_A           25 GTARPLPAIKAQDGTPDWNIIERLLKEWQPDEIIVGLPLNXDGTEQPLTARARKFANRIHGRFGVEVK   92 (138)
T ss_dssp             TEEEEEEEEEEETTEECHHHHHHHHHHHCCSEEEEEEEECTTSCBCHHHHHHHHHHHHHHHHHCCCEE
T ss_pred             CCCCCEEEEECCCCCHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCEE
T ss_conf             74014078981677268999999864248738996443477787578999999999999986299969


No 89 
>>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} (A:635-702)
Probab=33.43  E-value=22  Score=16.92  Aligned_cols=15  Identities=33%  Similarity=0.326  Sum_probs=12.0

Q ss_pred             HCCCCCHHHHHHHHH
Q ss_conf             568999537999999
Q gi|254780762|r   19 RIPGFGPRSARRATL   33 (201)
Q Consensus        19 kLPGIG~KsA~R~a~   33 (201)
                      .+||||++-|+++--
T Consensus         2 ~i~gVGR~RAR~Ly~   16 (68)
T 2p6r_A            2 RIRHIGRVRARKLYN   16 (68)
T ss_dssp             TSTTCCHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHH
T ss_conf             889999999999998


No 90 
>>1dpe_A Dipeptide-binding protein; peptide transport, periplasmic, chemotaxis binding proteins for active transport; 2.00A {Escherichia coli} (A:242-410,A:471-486)
Probab=33.33  E-value=26  Score=16.42  Aligned_cols=71  Identities=6%  Similarity=-0.031  Sum_probs=46.8

Q ss_pred             CEEEEEEEHHHHCCCCCC-----CCHHHCCHHHHHHHHCCCCCCE----EE----EEECCCCCHHHHHHHHHHHHCCCCC
Q ss_conf             401342101210020002-----6811128899999851578554----99----9946997868999999998201798
Q gi|254780762|r  102 AVNALYHVLGGSLSPLDR-----IGPEDIGIQSLIERIEVKKIRE----LI----FAISATIEGQTTAHYIMDKLKGIDV  168 (201)
Q Consensus       102 ~y~G~YhVLgG~ispl~g-----~~p~~l~i~~L~~ri~~~~i~E----VI----lA~~~t~EGe~Ta~yi~~~lk~~~i  168 (201)
                      .|.|.+.+-.+.++|-..     ..+-..+.++=.+.+.+.+.++    -+    +..+.+.+.+..+.++++.++..++
T Consensus        57 i~~g~~~~a~~~~~~~~~~~~~~~~~~~~d~~~A~~lL~~aG~~~g~~~~~~~~~~~~~~~~~~~~ia~~l~~~l~~~Gi  136 (185)
T 1dpe_A           57 VYQGAGVSAKNLIPPTMWGYNDDVQDYTYDPEKAKALLKEAGLEKGFSIDLWAMPVQRPYNPNARRMAEMIQADWAKVGV  136 (185)
T ss_dssp             HHTTSEEECSSSSCTTSTTCCTTCCCCCCCHHHHHHHHHHTTCTTCEEEEEECCSSCBTTBSCHHHHHHHHHHHHHTTTE
T ss_pred             HHCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCHHCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHCC
T ss_conf             73897666545449842355765332346978863123211001587510221123345777899999987777653032


Q ss_pred             EEEE
Q ss_conf             0887
Q gi|254780762|r  169 KITR  172 (201)
Q Consensus       169 kitr  172 (201)
                      +++-
T Consensus       137 ~v~i  140 (185)
T 1dpe_A          137 QAKI  140 (185)
T ss_dssp             EEEE
T ss_pred             CCEE
T ss_conf             2124


No 91 
>>3f2b_A DNA-directed DNA polymerase III alpha chain; DNA polymerase C; HET: DGT; 2.39A {Geobacillus kaustophilus} PDB: 3f2c_A* 3f2d_A* (A:973-1041)
Probab=32.45  E-value=24  Score=16.66  Aligned_cols=29  Identities=17%  Similarity=0.147  Sum_probs=19.1

Q ss_pred             CCCCHHHHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             89995379999999971998999999999
Q gi|254780762|r   21 PGFGPRSARRATLHLVKKKEQLLGPLAEA   49 (201)
Q Consensus        21 PGIG~KsA~R~a~~Ll~~~~~~~~~l~~~   49 (201)
                      ||||.+.|++++-.=-+.+=..+.+|...
T Consensus         1 pGig~~~a~~Iv~~R~~g~F~s~~Df~~R   29 (69)
T 3f2b_A            1 PGLGTNVAQAIVRAREEGEFLSKEDLQQR   29 (69)
T ss_dssp             TTCCHHHHHHHHHHHHTSCCCSHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHCCCCCCCHHHHHHH
T ss_conf             89899999999998657999999999975


No 92 
>>6rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.50A {Desulfovibrio desulfuricans} (A:)
Probab=32.19  E-value=16  Score=17.83  Aligned_cols=25  Identities=20%  Similarity=0.594  Sum_probs=17.9

Q ss_pred             CCCCCCCCCCCCC--------------CCCCCCCCCCCC
Q ss_conf             8288999733456--------------541003555567
Q gi|254780762|r   58 CLCSICGNVDTTD--------------PCAICIDQQRDA   82 (201)
Q Consensus        58 ~~C~~C~~l~~~~--------------~C~iC~d~~Rd~   82 (201)
                      -.|..||.+-+.+              .|++|..++...
T Consensus         4 y~C~~CgyiYd~~~Gdgt~F~~LP~~w~CP~C~a~K~~F   42 (45)
T 6rxn_A            4 YVCNVCGYEYDPAEHDNVPFDQLPDDWCCPVCGVSKDQF   42 (45)
T ss_dssp             EEETTTCCEECGGGGTTCCGGGSCTTCBCTTTCCBGGGE
T ss_pred             EEECCCCEEECCCCCCCCCHHHCCCCCCCCCCCCCHHHC
T ss_conf             590899818777447998877889877895998928875


No 93 
>>2waq_B DNA-directed RNA polymerase RPO2 subunit; multi-subunit, transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_B 2pmz_B 3hkz_B (B:1056-1131)
Probab=32.09  E-value=25  Score=16.45  Aligned_cols=43  Identities=23%  Similarity=0.367  Sum_probs=24.3

Q ss_pred             HCCCCCCCCCCCCCC------CCCCCCCCCCCCCEEEEEECHHHHHHHHHH
Q ss_conf             518288999733456------541003555567369998358899999751
Q gi|254780762|r   56 KVCLCSICGNVDTTD------PCAICIDQQRDASVIIVVEDVADLWALERS  100 (201)
Q Consensus        56 ~i~~C~~C~~l~~~~------~C~iC~d~~Rd~~~lCVVE~~~Di~~IE~t  100 (201)
                      .+..|..||.+...+      .|..|.+...  -...-+-...-++.=|=+
T Consensus         5 ~~~VC~~CG~i~~~~~~~~~~~C~~C~~~~~--i~~i~iPYafKlL~qEL~   53 (76)
T 2waq_B            5 TIYVCDQCGYIGWYDKNKNKYVCPIHGDKSN--LFPVTVSYAFKLLIQELM   53 (76)
T ss_dssp             EEEECSSSCCCCCCCSSSSCCCCTTCSSSSC--CEEEEEEHHHHHHHHHHH
T ss_pred             CEEECCCCCCEEEEECCCCCEECCCCCCCCC--CCCCCCCHHHHHHHHHHH
T ss_conf             3030467786688853587146763588786--220689889999999997


No 94 
>>1zt2_A DNA primase small subunit; heterodimeric complex, replication, transferase; HET: DNA; 3.33A {Sulfolobus solfataricus} (A:107-142,A:273-330)
Probab=32.00  E-value=15  Score=18.00  Aligned_cols=31  Identities=29%  Similarity=0.701  Sum_probs=21.5

Q ss_pred             HHCCCCCCCCCCCCCCCCCCCCCCCCC-CCEEEEEECH
Q ss_conf             851828899973345654100355556-7369998358
Q gi|254780762|r   55 NKVCLCSICGNVDTTDPCAICIDQQRD-ASVIIVVEDV   91 (201)
Q Consensus        55 ~~i~~C~~C~~l~~~~~C~iC~d~~Rd-~~~lCVVE~~   91 (201)
                      ..|.+|+.|||--..+.|.      || -..+=-||..
T Consensus         5 ~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~   36 (94)
T 1zt2_A            5 RSIRFCPVCGNAVVSEKCE------RDNVETLEYVEMT   36 (94)
T ss_dssp             EEEEECTTTCCBCSSSEET------TTTEECEEEEECC
T ss_pred             CCCCCCCCCCCCCCCHHCC------CCCHHHHHHHHHH
T ss_conf             4444345444443310102------2320022155679


No 95 
>>2csb_A Topoisomerase V, TOP61; topoisomerase IB, helix-turn-helix, helix- hairpin-helix, HHH motif, three helix bundle; 2.30A {Methanopyrus kandleri} (A:181-225,A:375-471)
Probab=31.17  E-value=38  Score=15.24  Aligned_cols=35  Identities=20%  Similarity=0.312  Sum_probs=25.8

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf             9999756899953799999999719989999999999
Q gi|254780762|r   14 IKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAM   50 (201)
Q Consensus        14 I~~l~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l~~~l   50 (201)
                      ...|.+--|+|+|+|+|+.--+  -+++.+++|+.-+
T Consensus        81 laeltkkegvgrktaerllraf--gnpervkqlaref  115 (142)
T 2csb_A           81 LAELTKKEGVGRKTAERLLRAF--GNPERVKQLAREF  115 (142)
T ss_dssp             HHHHHTSTTCCHHHHHHHHHHH--SSHHHHHHHHHTT
T ss_pred             HHHHHHHCCCCHHHHHHHHHHH--CCHHHHHHHHHHH
T ss_conf             9977654064565799999970--9989999999887


No 96 
>>1lb2_B DNA-directed RNA polymerase alpha chain; protein-DNA complex, gene-regulatory, gene regulation/DNA complex; HET: CMP; 3.10A {Escherichia coli} (B:)
Probab=31.07  E-value=38  Score=15.23  Aligned_cols=29  Identities=24%  Similarity=0.320  Sum_probs=20.3

Q ss_pred             HHHHHH----HHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             799999----99975689995379999999971
Q gi|254780762|r    9 EIENLI----KILARIPGFGPRSARRATLHLVK   37 (201)
Q Consensus         9 ~l~~LI----~~l~kLPGIG~KsA~R~a~~Ll~   37 (201)
                      ++.+|+    +.|.++||+|+||.+.+--.|-.
T Consensus        32 ti~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~~   64 (84)
T 1lb2_B           32 YIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS   64 (84)
T ss_dssp             BHHHHHTCCHHHHHHSTTCCHHHHHHHHHHHHH
T ss_pred             CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf             699987289999974889878899999999998


No 97 
>>1wgx_A KIAA1903 protein; MYB DNA-binding domain, human cDNA, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} (A:)
Probab=31.04  E-value=34  Score=15.61  Aligned_cols=27  Identities=30%  Similarity=0.462  Sum_probs=20.5

Q ss_pred             CCCHHHHHHHHHHHHCCC------------CCHHHHHHH
Q ss_conf             686679999999975689------------995379999
Q gi|254780762|r    5 ITGKEIENLIKILARIPG------------FGPRSARRA   31 (201)
Q Consensus         5 ~~~~~l~~LI~~l~kLPG------------IG~KsA~R~   31 (201)
                      -.+++|++|-.+|.+||-            ||-|||+--
T Consensus        11 W~e~EL~klh~a~~slpkh~~~fW~~Va~~VgtRSAeeC   49 (73)
T 1wgx_A           11 WNEKELQKLHCAFASLPKHKPGFWSEVAAAVGSRSPEEC   49 (73)
T ss_dssp             CCHHHHHHHHHHHHHSCSSSSSHHHHHHHHTTTSCHHHH
T ss_pred             CCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHCCCCHHHH
T ss_conf             289999999999983588777509999999835879999


No 98 
>>1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription regulation, disulfide stress; 1.50A {Bacillus subtilis} (B:)
Probab=31.00  E-value=39  Score=15.23  Aligned_cols=29  Identities=14%  Similarity=0.331  Sum_probs=20.7

Q ss_pred             HHHHHH----HHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             799999----99975689995379999999971
Q gi|254780762|r    9 EIENLI----KILARIPGFGPRSARRATLHLVK   37 (201)
Q Consensus         9 ~l~~LI----~~l~kLPGIG~KsA~R~a~~Ll~   37 (201)
                      ++.+|+    +.|.++|++|+||.+-+.-.|-.
T Consensus        31 ti~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~~   63 (73)
T 1z3e_B           31 TVQELANKTEEDMMKVRNLGRKSLEEVKAKLEE   63 (73)
T ss_dssp             BHHHHHTSCHHHHHTSTTCCHHHHHHHHHHHHH
T ss_pred             CHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf             799998779999975889766059999999998


No 99 
>>2d5w_A Peptide ABC transporter, peptide-binding protein; protein-peptide complex, peptide binding protein; 1.30A {Thermus thermophilus HB8} (A:301-475,A:543-550)
Probab=30.16  E-value=40  Score=15.13  Aligned_cols=71  Identities=10%  Similarity=0.181  Sum_probs=46.0

Q ss_pred             CEEEEEEEHHHHCCCCCCCCHH-----HCCHHHHHHHHCCC-------------------CCCEEEEEECCCCCHHHHHH
Q ss_conf             4013421012100200026811-----12889999985157-------------------85549999469978689999
Q gi|254780762|r  102 AVNALYHVLGGSLSPLDRIGPE-----DIGIQSLIERIEVK-------------------KIRELIFAISATIEGQTTAH  157 (201)
Q Consensus       102 ~y~G~YhVLgG~ispl~g~~p~-----~l~i~~L~~ri~~~-------------------~i~EVIlA~~~t~EGe~Ta~  157 (201)
                      .|+|...+..+.++|...-.+.     .-+.++-.+.+.+.                   .+..++...+.+.+-..++.
T Consensus        44 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~d~~~A~~ll~~ag~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~a~  123 (183)
T 2d5w_A           44 FFDGLQPVAHTWIAPVNPLFNPNVKKYEFDLKKAEALLAEMGWRKGPDGILQRTVNGRTVRFEIEYVTTAGNVVRERTQQ  123 (183)
T ss_dssp             HHTTSSCBCSSSSCTTSTTCCTTSCCCCCCHHHHHHHHHHTTCEECTTSCEEEEETTEEEECEEEEECBTTCHHHHHHHH
T ss_pred             HHCCCCCCCCEEEEECCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH
T ss_conf             75234421100011013334666532100189999999863875455543222211224555433333235716899999


Q ss_pred             HHHHHHCCCCCEEEE
Q ss_conf             999982017980887
Q gi|254780762|r  158 YIMDKLKGIDVKITR  172 (201)
Q Consensus       158 yi~~~lk~~~ikitr  172 (201)
                      +|++.|+..+|+++.
T Consensus       124 ~i~~~l~~~Gi~v~v  138 (183)
T 2d5w_A          124 FFAEDLKKIGIAVKI  138 (183)
T ss_dssp             HHHHHHHHTTCEEEE
T ss_pred             HHHHHHHHCCEEEEE
T ss_conf             999999864858999


No 100
>>3igz_B Cofactor-independent phosphoglycerate mutase; glycolysis, cobalt, isomerase; HET: 3PG 2PG; 1.90A {Leishmania mexicana} PDB: 3igy_B* (B:88-326)
Probab=29.51  E-value=41  Score=15.06  Aligned_cols=75  Identities=13%  Similarity=0.122  Sum_probs=48.7

Q ss_pred             ECHHHHHHHHHHCCEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEE-EEEEC--CCCCHHHHHHHHHHHHCC
Q ss_conf             358899999751740134210121002000268111288999998515785549-99946--997868999999998201
Q gi|254780762|r   89 EDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIREL-IFAIS--ATIEGQTTAHYIMDKLKG  165 (201)
Q Consensus        89 E~~~Di~~IE~t~~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EV-IlA~~--~t~EGe~Ta~yi~~~lk~  165 (201)
                      +++.=..+++....-+|.-|++ |++|+- |+--..=.+-.|++..++.++++| |=|+.  -.+.-..-..||+++.+.
T Consensus        19 ~n~~l~~~~~~~k~~~~~lHl~-GL~SdG-GVHSh~~Hl~ali~~a~~~gv~~V~vH~f~DGRDt~P~S~~~yi~~le~~   96 (239)
T 3igz_B           19 TGEGYRYLHGAFSKEGSTLHLI-GLLSDG-GVHSRDNQIYSIIEHAVKDGAKRIRVHALYDGRDVPDGSSFRFTDELEAV   96 (239)
T ss_dssp             TSHHHHHHHHHHTSTTCCEEEE-EECSSC-CSSCCHHHHHHHHHHHHHTTCCEEEEEEEECSSSSCTTTHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHCCCCEEEE-EEECCC-CCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCHHHHHHHHHHHH
T ss_conf             4999999999998549945789-974176-41101778999999999739984489998246665751389999999999


No 101
>>1dd3_A 50S ribosomal protein L7/L12; dimer formation, flexibility, hinge region, four-helix- bundle, five-helix- bundle, alpha-beta structure; 2.00A {Thermotoga maritima} (A:58-128)
Probab=29.42  E-value=41  Score=15.05  Aligned_cols=45  Identities=13%  Similarity=0.189  Sum_probs=35.4

Q ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHH--------HCCHHHHHHHHHHHHHHHH
Q ss_conf             99999997568999537999999997--------1998999999999999998
Q gi|254780762|r   11 ENLIKILARIPGFGPRSARRATLHLV--------KKKEQLLGPLAEAMANIYN   55 (201)
Q Consensus        11 ~~LI~~l~kLPGIG~KsA~R~a~~Ll--------~~~~~~~~~l~~~l~~~~~   55 (201)
                      -.+|..++.++|+|-|.|..++-.+-        +-+++++..+-..|..+-.
T Consensus        14 i~vIK~Vr~itglgLkEAK~lVe~~P~~~~~ike~vskeeAE~iK~~Le~aGA   66 (71)
T 1dd3_A           14 IQVIKVVREITGLGLKEAKDLVEKAGSPDAVIKSGVSKEEAEEIKKKLEEAGA   66 (71)
T ss_dssp             HHHHHHHHHHHCCCHHHHHHHHTTTTSTTCEEEEEECHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHCCCCCCHHHHCCCCHHHHHHHHHHHHHCCC
T ss_conf             58999998855998899999997157872678538899999999999998599


No 102
>>1dx8_A Rubredoxin; zinc-substitution; NMR {Guillardia theta} (A:)
Probab=29.04  E-value=20  Score=17.10  Aligned_cols=27  Identities=19%  Similarity=0.530  Sum_probs=19.3

Q ss_pred             HCCCCCCCCCCCCCC---------------------CCCCCCCCCCCC
Q ss_conf             518288999733456---------------------541003555567
Q gi|254780762|r   56 KVCLCSICGNVDTTD---------------------PCAICIDQQRDA   82 (201)
Q Consensus        56 ~i~~C~~C~~l~~~~---------------------~C~iC~d~~Rd~   82 (201)
                      ..-.|..|+.+-+..                     .|++|..++.+.
T Consensus         6 ~~y~C~~CgyiYd~~~Gd~~~gI~pGT~F~~LPddw~CP~Cga~K~~F   53 (70)
T 1dx8_A            6 GKYECEACGYIYEPEKGDKFAGIPPGTPFVDLSDSFMCPACRSPKNQF   53 (70)
T ss_dssp             SCEEETTTCCEECTTTCCTTTTCCSSCCGGGSCTTCBCTTTCCBGGGE
T ss_pred             CEEECCCCCCEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHHH
T ss_conf             707829999087844478456879899968988987893998968981


No 103
>>2io8_A Bifunctional glutathionylspermidine synthetase/amidase; ligase, hydrolase; HET: ADP; 2.10A {Escherichia coli} (A:359-494)
Probab=28.54  E-value=42  Score=14.95  Aligned_cols=47  Identities=15%  Similarity=0.125  Sum_probs=37.0

Q ss_pred             HHHHHHHHCC-CCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             8999998515-7855499994699786899999999820179808874
Q gi|254780762|r  127 IQSLIERIEV-KKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRL  173 (201)
Q Consensus       127 i~~L~~ri~~-~~i~EVIlA~~~t~EGe~Ta~yi~~~lk~~~ikitrl  173 (201)
                      -++|+++-+. ..-.-|=+|...+.|-..|+.|+++..+..+..+.-+
T Consensus         8 ~e~L~~~wk~~~~~~~vh~~~~~~~ED~~T~~yL~~~a~~AG~~t~~~   55 (136)
T 2io8_A            8 INELAGAWKHSRARPFVHIMQDKDIEENYHAQFMEQALHQAGFETRIL   55 (136)
T ss_dssp             HHHHHHHHHTSCCCSEEEEEECSCHHHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             HHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             999999998628997799996898224889999999999879966886


No 104
>>3gr0_A Protein PRGH; type III secretion system, inner membrane protein, cell membrane, membrane, transmembrane, virulence; 2.30A {Salmonella typhimurium} (A:1-59)
Probab=26.96  E-value=12  Score=18.52  Aligned_cols=14  Identities=21%  Similarity=0.283  Sum_probs=11.9

Q ss_pred             HCCEEEEEEEHHHH
Q ss_conf             17401342101210
Q gi|254780762|r  100 SKAVNALYHVLGGS  113 (201)
Q Consensus       100 t~~y~G~YhVLgG~  113 (201)
                      .|-++|+||||+|.
T Consensus        12 Lgd~q~rf~iLpg~   25 (59)
T 3gr0_A           12 LGQEKERFQVLPGR   25 (59)
T ss_dssp             CGGGTTTCEEEECT
T ss_pred             HCCCCCCCEEEECC
T ss_conf             66999883586579


No 105
>>1s24_A Rubredoxin 2; electron transport; NMR {Pseudomonas oleovorans} (A:)
Probab=26.62  E-value=19  Score=17.29  Aligned_cols=32  Identities=19%  Similarity=0.404  Sum_probs=21.2

Q ss_pred             HHHHHHHCCCCCCCCCCCCCC---------------------CCCCCCCCCCC
Q ss_conf             999998518288999733456---------------------54100355556
Q gi|254780762|r   50 MANIYNKVCLCSICGNVDTTD---------------------PCAICIDQQRD   81 (201)
Q Consensus        50 l~~~~~~i~~C~~C~~l~~~~---------------------~C~iC~d~~Rd   81 (201)
                      ........-.|..||.+-+..                     .|++|...+.+
T Consensus        28 ~~~~~~~~~~C~~CgyiYdp~~Gd~~~~i~pGT~f~~lP~~w~CP~C~~~K~~   80 (87)
T 1s24_A           28 QGGKAYLKWICITCGHIYDEALGDEAEGFTPGTRFEDIPDDWCCPDCGATKED   80 (87)
T ss_dssp             ----CCCEEEETTTTEEEETTSCCTTTTCCSCCCGGGCCTTCCCSSSCCCGGG
T ss_pred             CCCCCCCEEECCCCCCEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHH
T ss_conf             36777644889999918765657745686989986678888768599895889


No 106
>>1vr7_A Adometdc, samdc, S-adenosylmethionine decarboxylase proenzyme; TM0655, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.20A {Thermotoga maritima} (A:)
Probab=26.28  E-value=46  Score=14.69  Aligned_cols=36  Identities=14%  Similarity=0.182  Sum_probs=31.5

Q ss_pred             EEEECCCCCHHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf             999469978689999999982017980887414674
Q gi|254780762|r  143 IFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIP  178 (201)
Q Consensus       143 IlA~~~t~EGe~Ta~yi~~~lk~~~ikitrla~GiP  178 (201)
                      |+--+++.+.+....||++.|+...++++.+-||.+
T Consensus        92 iftCg~~~~p~~a~~~l~~~l~~~~~~~~~~~RG~~  127 (142)
T 1vr7_A           92 LFTCGEDVDPWKAFEHLKKALKAKRVHVVEHERGRY  127 (142)
T ss_dssp             EEEESTTCCHHHHHHHHHHHHTCSEEEEEEEEEEEH
T ss_pred             EECCCCCCCHHHHHHHHHHHHCCCEEEEEEEECCCC
T ss_conf             984799999999999999972998699999989997


No 107
>>3ci0_K Pseudopilin GSPK; general secretory pathway, pseudopilus, type 4 pilin biogenesis, methylation, protein transport; 2.20A {Escherichia coli} (K:76-256)
Probab=25.82  E-value=12  Score=18.66  Aligned_cols=14  Identities=14%  Similarity=0.069  Sum_probs=5.3

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             89999999999999
Q gi|254780762|r   40 EQLLGPLAEAMANI   53 (201)
Q Consensus        40 ~~~~~~l~~~l~~~   53 (201)
                      ......+++++.+.
T Consensus        34 ~~~a~~~~~~~~d~   47 (181)
T 3ci0_K           34 AYRAELIAESLWEF   47 (181)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             67899999999998


No 108
>>3isx_A Endoglucanase; TM1050, structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2, hydrolase; HET: MSE; 1.40A {Thermotoga maritima} (A:1-74,A:165-343)
Probab=24.05  E-value=51  Score=14.42  Aligned_cols=19  Identities=26%  Similarity=0.324  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHCCCCCHH
Q ss_conf             6799999999756899953
Q gi|254780762|r    8 KEIENLIKILARIPGFGPR   26 (201)
Q Consensus         8 ~~l~~LI~~l~kLPGIG~K   26 (201)
                      +.+-++...|-+.|.+++.
T Consensus        11 ~~~~~~~~~l~~~~s~s~~   29 (253)
T 3isx_A           11 HHXKELIRKLTEAFGPSGR   29 (253)
T ss_dssp             SCCHHHHHHHHHSCCBTTC
T ss_pred             HHHHHHHHHHHCCCCCCCC
T ss_conf             9999999999739995963


No 109
>>1yk4_A Rubredoxin, RD; electron transport; 0.69A {Pyrococcus abyssi} PDB: 2pya_A 1yk5_A 1bq8_A 1bq9_A* 1brf_A 1caa_A 1cad_A 1vcx_A 1zrp_A 1iu5_A 1iu6_A 1rwd_A 1qcv_A 2pve_A 2pvx_A 2rdv_A 1rdv_A 1rb9_A* 2qkz_A 2ql0_A ... (A:)
Probab=23.94  E-value=34  Score=15.63  Aligned_cols=24  Identities=29%  Similarity=0.790  Sum_probs=16.4

Q ss_pred             CCCCCCCCCCCCC---------------------CCCCCCCCCCC
Q ss_conf             8288999733456---------------------54100355556
Q gi|254780762|r   58 CLCSICGNVDTTD---------------------PCAICIDQQRD   81 (201)
Q Consensus        58 ~~C~~C~~l~~~~---------------------~C~iC~d~~Rd   81 (201)
                      -.|..||.+-+.+                     .|++|..++-+
T Consensus         3 y~C~~CgyvYd~~~Gd~~~~i~pGT~F~~lP~dw~CP~C~a~K~~   47 (52)
T 1yk4_A            3 LSCKICGYIYDEDEGDPDNGISPGTKFEDLPDDWVCPLCGAPKSE   47 (52)
T ss_dssp             EEESSSSCEEETTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGG
T ss_pred             CCCCCCCEEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHH
T ss_conf             586999948786657846687999997898998899399895899


No 110
>>1vq2_A DCMP deaminase, deoxycytidylate deaminase; hydrolase; HET: DDN; 2.20A {Enterobacteria phage T4} (A:1-45,A:102-193)
Probab=23.75  E-value=37  Score=15.32  Aligned_cols=31  Identities=16%  Similarity=0.110  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             9999999985182889997334565410035
Q gi|254780762|r   47 AEAMANIYNKVCLCSICGNVDTTDPCAICID   77 (201)
Q Consensus        47 ~~~l~~~~~~i~~C~~C~~l~~~~~C~iC~d   77 (201)
                      .++|..+..+-...+.|-.++..++|+.|..
T Consensus        51 i~Ai~~a~~~~~~l~g~tlYvTlEPC~mCa~   81 (137)
T 1vq2_A           51 LNAILFAAENGSSIEGATMYVTLSPCPDCAK   81 (137)
T ss_dssp             HHHHHHHHHHTCCCTTCEEEEEECCCHHHHH
T ss_pred             HHHHHHHHHHCCCCCCCEEEECCCCCHHHHH
T ss_conf             9999998861689877568706799678999


No 111
>>3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} (B:1143-1210)
Probab=23.41  E-value=39  Score=15.20  Aligned_cols=32  Identities=25%  Similarity=0.535  Sum_probs=20.6

Q ss_pred             HCCCCCCCCCCCC------CCCCCCCCCCCCCCCEEEEEECH
Q ss_conf             5182889997334------56541003555567369998358
Q gi|254780762|r   56 KVCLCSICGNVDT------TDPCAICIDQQRDASVIIVVEDV   91 (201)
Q Consensus        56 ~i~~C~~C~~l~~------~~~C~iC~d~~Rd~~~lCVVE~~   91 (201)
                      .+..|..||.+..      ...|.+|.+..    .+.-|+-|
T Consensus         6 ~~~VC~~CG~~~~~~~~~~~~~C~~C~~~~----~i~~i~iP   43 (68)
T 3h0g_B            6 RVIVCDICGLIAIASYKKDSYECRSCQNRT----RFSQVYLP   43 (68)
T ss_dssp             EEEEESSSCCBCCCCSSSCCCCCTTTCCSS----CEEEEECC
T ss_pred             CEEECCCCCCEEEECCCCCCEECCCCCCCC----CCCCCCCC
T ss_conf             135036778765402446855656023898----26615898


No 112
>>1vhx_A Putative holliday junction resolvase; structural genomics, hydrolase; 1.96A {Bacillus subtilis} (A:)
Probab=22.77  E-value=54  Score=14.25  Aligned_cols=49  Identities=16%  Similarity=0.265  Sum_probs=37.6

Q ss_pred             HCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHH------HHHHHHCCCCCEEEE
Q ss_conf             1288999998515785549999469978689999------999982017980887
Q gi|254780762|r  124 DIGIQSLIERIEVKKIRELIFAISATIEGQTTAH------YIMDKLKGIDVKITR  172 (201)
Q Consensus       124 ~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~------yi~~~lk~~~ikitr  172 (201)
                      +..++.|.+.+++.+++.|++....+..|..+..      |+....+..++.|+-
T Consensus        41 ~~~~~~L~~ii~~~~~~~iviG~p~~~~g~~~~~~~~~~~~~~~l~~~~~i~v~~   95 (150)
T 1vhx_A           41 DYGLSRLSELIKDYTIDKIVLGFPKNXNGTVGPRGEASQTFAKVLETTYNVPVVL   95 (150)
T ss_dssp             BCCHHHHHHHHTTSEEEEEEEECCCCBTTBCCHHHHHHHHHHHHHHHHHCSCEEE
T ss_pred             HHHHHHHHHHHHHHCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEE
T ss_conf             2689999999976343628851642347762178899999999735577832798


No 113
>>2gnr_A Conserved hypothetical protein; 13815350, structural genomics, PSI, protein structure initiative; 1.80A {Sulfolobus solfataricus P2} (A:)
Probab=22.54  E-value=26  Score=16.33  Aligned_cols=43  Identities=14%  Similarity=0.209  Sum_probs=33.4

Q ss_pred             CHHHHHHHHHHHHHHHHHCCCCCCCCCCCC--CCCCCCCCCCCCC
Q ss_conf             989999999999999985182889997334--5654100355556
Q gi|254780762|r   39 KEQLLGPLAEAMANIYNKVCLCSICGNVDT--TDPCAICIDQQRD   81 (201)
Q Consensus        39 ~~~~~~~l~~~l~~~~~~i~~C~~C~~l~~--~~~C~iC~d~~Rd   81 (201)
                      .......|-+++.+=+-...+|..||.+.-  ...|+-|....-+
T Consensus        29 ~~~~~~~f~~~~~~~rl~~~rC~~CG~~~~Ppr~~C~~Cg~~~~~   73 (145)
T 2gnr_A           29 VGPAGEQFFNGLKQNKIIGSKCSKCGRIFVPARSYCEHCFVKIEN   73 (145)
T ss_dssp             SHHHHHHHHHHHHTTCCEEEECTTTCCEEESCCSEETTTTEECCE
T ss_pred             CCCHHHHHHHHHHCCCEEEEEECCCCCEEECCCCCCCCCCCCCCE
T ss_conf             780089999886649399999189997886753568999997302


No 114
>>1e8j_A Rubredoxin; iron-sulfur-protein, zinc-substitution, thermostability; NMR {Desulfovibrio gigas} (A:)
Probab=22.47  E-value=48  Score=14.56  Aligned_cols=26  Identities=19%  Similarity=0.680  Sum_probs=18.1

Q ss_pred             CCCCCCCCCCCCCC---------------------CCCCCCCCCCCC
Q ss_conf             18288999733456---------------------541003555567
Q gi|254780762|r   57 VCLCSICGNVDTTD---------------------PCAICIDQQRDA   82 (201)
Q Consensus        57 i~~C~~C~~l~~~~---------------------~C~iC~d~~Rd~   82 (201)
                      .-.|..|+.+-+.+                     .|++|..++.+.
T Consensus         3 ~y~C~~CgyiYd~~~Gd~~~~i~pGT~F~~lP~~w~CP~C~a~K~~F   49 (52)
T 1e8j_A            3 IYVCTVCGYEYDPAKGDPDSGIKPGTKFEDLPDDWACPVCGASKDAF   49 (52)
T ss_dssp             CEECSSSCCCCCTTTCCTTTTCCSSCCTTSSCTTCCCSSSCCCTTSC
T ss_pred             EEECCCCCEEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHHH
T ss_conf             37918999087755477456879999877889988895998818993


No 115
>>3cp8_A TRNA uridine 5-carboxymethylaminomethyl modification enzyme GIDA; rossmann fold, FAD-binding domain, dinucleotide-binding motif; HET: FAD; 3.20A {Chlorobium tepidum} (A:172-218,A:356-366)
Probab=22.19  E-value=10  Score=19.11  Aligned_cols=34  Identities=18%  Similarity=0.381  Sum_probs=28.1

Q ss_pred             CHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHH
Q ss_conf             86899999999820179808874146748820666
Q gi|254780762|r  151 EGQTTAHYIMDKLKGIDVKITRLAYGIPMGSELDY  185 (201)
Q Consensus       151 EGe~Ta~yi~~~lk~~~ikitrla~GiP~G~~ley  185 (201)
                      .||..|..|.+.|+..++++-|+-.|-|- -.|||
T Consensus        20 ~ge~~s~~Ls~sL~~lGf~l~RlKTGTP~-~~~~~   53 (58)
T 3cp8_A           20 TAEPPVEGLTESLASLGFSFGRLKTGTPG-YAIEY   53 (58)
T ss_dssp             TTSCCBCSHHHHHHHTTCCEEEEEEEECC-EEEEE
T ss_pred             CCCCCCCCCCHHHHHCCCCCEEEEECCCC-CCCEE
T ss_conf             48764544407788506630124412466-33100


No 116
>>3gi1_A LBP, laminin-binding protein of group A streptococci; zinc-binding receptor, metal-binding, helical backbone, alpha/beta domains; 2.45A {Streptococcus pyogenes} PDB: 3hjt_A (A:178-286)
Probab=21.92  E-value=56  Score=14.14  Aligned_cols=82  Identities=10%  Similarity=0.140  Sum_probs=46.9

Q ss_pred             HHCCCCCCCCHHHCCHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCC-HHHHHH--
Q ss_conf             10020002681112889999985157855499994699786899999999820179808874146748820-666347--
Q gi|254780762|r  112 GSLSPLDRIGPEDIGIQSLIERIEVKKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMGSE-LDYLDD--  188 (201)
Q Consensus       112 G~ispl~g~~p~~l~i~~L~~ri~~~~i~EVIlA~~~t~EGe~Ta~yi~~~lk~~~ikitrla~GiP~G~~-ley~D~--  188 (201)
                      |.+.+..+..|.--.+..+.+.+++.+++=|+..-.+   +..++..|.+.+.-..+.+.-++.+.|-|.+ ++.++.  
T Consensus        25 ~~~~~~~~~~ps~~~i~~l~~~ik~~~i~~i~~e~~~---~~~~~~~ia~~~~~~~~~l~~l~~~~~~~~~Y~~~m~~n~  101 (109)
T 3gi1_A           25 GISGISPEQEPSPRQLKEIQDFVKEYNVKTIFAEDNV---NPKIAHAIAKSTGAKVKTLSPLEAAPSGNKTYLENLRANL  101 (109)
T ss_dssp             EEECSCC---CCHHHHHHHHHHHHHTTCCEEEECTTS---CTHHHHHHHHTTTCEEEECCCSCSCCSSSCCHHHHHHHHH
T ss_pred             ECCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEECCC---CHHHHHHHHHHHCCCEEEECCCCCCCCCCCCHHHHHHHHH
T ss_conf             3256687678998999999999997599889995889---9399999999829987874777678888665999999999


Q ss_pred             HHHHHHHH
Q ss_conf             99999983
Q gi|254780762|r  189 GTIFEAIR  196 (201)
Q Consensus       189 ~TL~~Al~  196 (201)
                      .+|..||+
T Consensus       102 ~~l~~aLk  109 (109)
T 3gi1_A          102 EVLYQQLK  109 (109)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHC
T ss_conf             99999719


No 117
>>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis/exocytosis complex; 7.90A {Bos taurus} (A:707-767)
Probab=21.75  E-value=20  Score=17.10  Aligned_cols=57  Identities=14%  Similarity=0.287  Sum_probs=33.5

Q ss_pred             CEEEEEEEHHHHCCCCCCCCHHHCCHHHHHHHHCCCCCCEE--EEEECCCCCHHHHHHHHHH
Q ss_conf             40134210121002000268111288999998515785549--9994699786899999999
Q gi|254780762|r  102 AVNALYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIREL--IFAISATIEGQTTAHYIMD  161 (201)
Q Consensus       102 ~y~G~YhVLgG~ispl~g~~p~~l~i~~L~~ri~~~~i~EV--IlA~~~t~EGe~Ta~yi~~  161 (201)
                      .|.|+|+-||..++..+.   .++.+.=...-.+-++++||  |---|..-++|-+-+||++
T Consensus         1 s~eglyyyL~sivn~s~d---~~v~fKYIeAa~k~gq~~EvERicresn~YdpekvKnfLKe   59 (61)
T 1xi4_A            1 SFEGLFYFLGSIVNFSQD---PDVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKE   59 (61)
T ss_pred             CCHHHHHHHHHHCCCCCC---CHHHHHHHHHHHHHCCHHHHHHHHCCCCCCCHHHHHHHHHC
T ss_conf             631399998876155668---21899999999972758999999705677898999999840


No 118
>>4rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.20A {} (A:)
Probab=21.37  E-value=35  Score=15.55  Aligned_cols=25  Identities=20%  Similarity=0.688  Sum_probs=17.2

Q ss_pred             CCCCCCCCCCCCC---------------------CCCCCCCCCCCC
Q ss_conf             8288999733456---------------------541003555567
Q gi|254780762|r   58 CLCSICGNVDTTD---------------------PCAICIDQQRDA   82 (201)
Q Consensus        58 ~~C~~C~~l~~~~---------------------~C~iC~d~~Rd~   82 (201)
                      -.|..||.+-+.+                     .|++|..++.+.
T Consensus         4 ~~C~~CgyiYd~~~Gd~~~~i~pGT~F~~LP~dw~CP~C~a~K~~F   49 (54)
T 4rxn_A            4 YTCTVCGYIYDPEDGDPDDGVNPGTDFKDIPDDWVCPLCGVGKDEF   49 (54)
T ss_dssp             EEETTTCCEECTTTCBGGGTBCTTCCGGGSCTTCBCTTTCCBGGGE
T ss_pred             EECCCCCCEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHHC
T ss_conf             5919999288855478456879899968889988993998948993


No 119
>>3erm_A Uncharacterized conserved protein; APC85034, ppspto1197, seudomonas syringae PV. tomato STR. DC3000, structural genomics, PSI-2; HET: MSE; 2.45A {Pseudomonas syringae PV} (A:)
Probab=20.78  E-value=59  Score=13.99  Aligned_cols=36  Identities=22%  Similarity=0.456  Sum_probs=27.2

Q ss_pred             HHHHHHH-HHCCCCCHHHHHHHHHHHHHCCHHHHHHH
Q ss_conf             9999999-75689995379999999971998999999
Q gi|254780762|r   11 ENLIKIL-ARIPGFGPRSARRATLHLVKKKEQLLGPL   46 (201)
Q Consensus        11 ~~LI~~l-~kLPGIG~KsA~R~a~~Ll~~~~~~~~~l   46 (201)
                      ++|.+.| ++.||+...+++-+++||-++++....-|
T Consensus        37 d~L~~~L~~~~~~lde~~~E~l~l~LA~nKd~l~~~l   73 (91)
T 3erm_A           37 ELLTDVLIKNVPGLSEKHAEDASIYXAKNRAVFAAAF   73 (91)
T ss_dssp             HHHHHHHHHHSTTCCHHHHHHHHHHHHTTHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999838899888899999999997799999998


No 120
>>2v3b_B Rubredoxin 2, rubredoxin; alkane degradation, iron-sulfur protein, oxidoreductase, electron transfer, electron transport, FAD, NAD, iron; HET: FAD; 2.45A {Pseudomonas aeruginosa} (B:)
Probab=20.74  E-value=34  Score=15.59  Aligned_cols=25  Identities=24%  Similarity=0.490  Sum_probs=17.3

Q ss_pred             CCCCCCCCCCCCC---------------------CCCCCCCCCCCC
Q ss_conf             8288999733456---------------------541003555567
Q gi|254780762|r   58 CLCSICGNVDTTD---------------------PCAICIDQQRDA   82 (201)
Q Consensus        58 ~~C~~C~~l~~~~---------------------~C~iC~d~~Rd~   82 (201)
                      -.|..||.+-+.+                     .|++|..++.+.
T Consensus         4 y~C~~CgyiYd~~~Gd~~~~I~pGT~F~~LP~~w~CP~C~a~K~~F   49 (55)
T 2v3b_B            4 WQCVVCGFIYDEALGLPEEGIPAGTRWEDIPADWVCPDCGVGKIDF   49 (55)
T ss_dssp             EEETTTCCEEETTTCBTTTTBCTTCCGGGSCTTCCCTTTCCCGGGE
T ss_pred             EECCCCCCEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCHHHC
T ss_conf             5939999188956588456869899867888886796999968888


No 121
>>2zxi_A TRNA uridine 5-carboxymethylaminomethyl modification enzyme MNMG; 5-carboxymethylaminomethyl uridine, wobble uridine, FAD, FAD-binding protein; HET: FAD; 2.30A {Aquifex aeolicus} PDB: 2zxh_A* 2e57_A* (A:179-223,A:367-383)
Probab=20.16  E-value=11  Score=18.90  Aligned_cols=34  Identities=18%  Similarity=0.252  Sum_probs=28.9

Q ss_pred             CCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCC
Q ss_conf             6997868999999998201798088741467488
Q gi|254780762|r  147 SATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMG  180 (201)
Q Consensus       147 ~~t~EGe~Ta~yi~~~lk~~~ikitrla~GiP~G  180 (201)
                      +.--.||..+..|.+.|++.++++-|+-.|-|.=
T Consensus        14 ~gGR~Ge~~s~~LS~sL~~lGf~l~RlKTGTP~~   47 (62)
T 2zxi_A           14 PGGRLGEPRSEGLSDFYRRFDFPLIRFKTGTPAY   47 (62)
T ss_dssp             ECSBTTBCCBCTHHHHHHHTTCCCEEEEEEECCE
T ss_pred             CCCCCHHCCCHHHHHHHHHCCCCCCCHHCCCCHH
T ss_conf             4543010000127899886074200011024244


Done!