Query         537021.9.peg.817_1
Match_columns 148
No_of_seqs    127 out of 965
Neff          6.6 
Searched_HMMs 23785
Date          Wed May 25 01:28:22 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i peg_817.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3c1y_A DNA integrity scanning   98.0 2.5E-05   1E-09   53.9   7.6   82   25-109   272-374 (377)
  2 1x2i_A HEF helicase/nuclease;   97.9 5.2E-05 2.2E-09   51.8   8.0   57   41-99     10-66  (75)
  3 2bgw_A XPF endonuclease; hydro  97.9 3.9E-05 1.6E-09   52.6   7.0   58   40-99    157-214 (219)
  4 1z00_A DNA excision repair pro  97.6 9.4E-05 3.9E-09   50.1   6.0   50   49-99     22-71  (89)
  5 2a1j_B DNA excision repair pro  97.5  0.0001 4.3E-09   49.8   5.1   48   51-99     37-84  (91)
  6 1kft_A UVRC, excinuclease ABC   97.4 0.00014   6E-09   48.9   4.1   40   59-98     36-75  (78)
  7 2a1j_A DNA repair endonuclease  96.7  0.0012 4.8E-08   43.1   3.9   45   51-97      9-53  (63)
  8 1z00_B DNA repair endonuclease  96.5  0.0018 7.8E-08   41.8   3.8   45   50-96     22-66  (84)
  9 3c65_A Uvrabc system protein C  96.0 0.00086 3.6E-08   43.9   0.0   46   46-98    178-223 (226)
 10 1dgs_A DNA ligase; AMP complex  96.0   0.033 1.4E-06   33.7   7.8   57   42-99    503-559 (667)
 11 1kea_A Possible G-T mismatches  95.7   0.021 8.7E-07   35.0   5.8   57   38-97     74-133 (221)
 12 1pu6_A 3-methyladenine DNA gly  95.6   0.016 6.6E-07   35.8   5.1   95   34-132    72-180 (218)
 13 1ngn_A Methyl-CPG binding prot  95.6   0.022 9.3E-07   34.8   5.7   61   40-100    33-96  (155)
 14 2owo_A DNA ligase; protein/DNA  95.5   0.032 1.3E-06   33.8   6.1   59   40-99    506-564 (671)
 15 2nrt_A Uvrabc system protein C  95.3  0.0085 3.6E-07   37.5   2.9   43   51-95    173-215 (220)
 16 2zj8_A DNA helicase, putative   94.9   0.039 1.6E-06   33.2   5.3   45   57-104   656-701 (720)
 17 1orn_A Endonuclease III; DNA r  94.7   0.029 1.2E-06   34.0   4.3   94   36-133    70-175 (226)
 18 1kg2_A A/G-specific adenine gl  94.7   0.054 2.3E-06   32.3   5.5   59   36-97     67-127 (225)
 19 1kea_A Possible G-T mismatches  94.2    0.03 1.3E-06   33.9   3.4   66   39-104    36-104 (221)
 20 2abk_A Endonuclease III; DNA-r  93.8   0.038 1.6E-06   33.2   3.3   89   38-132    68-169 (211)
 21 1kg2_A A/G-specific adenine gl  93.6    0.12   5E-06   30.1   5.5   73   31-106    16-97  (225)
 22 3fsp_A A/G-specific adenine gl  93.6   0.062 2.6E-06   31.9   4.0   50   39-88     39-90  (369)
 23 3n5n_X A/G-specific adenine DN  93.6    0.15 6.3E-06   29.4   5.9   47   42-88     53-100 (287)
 24 3fsp_A A/G-specific adenine gl  93.1    0.21 8.9E-06   28.4   6.1   61   35-98     75-137 (369)
 25 1orn_A Endonuclease III; DNA r  93.0    0.21 8.7E-06   28.5   5.9   64   39-102    34-100 (226)
 26 2abk_A Endonuclease III; DNA-r  93.0     0.1 4.4E-06   30.5   4.3   64   39-102    30-96  (211)
 27 3i0w_A 8-oxoguanine-DNA-glycos  91.6    0.25 1.1E-05   28.0   4.9   90   37-131   167-271 (290)
 28 1vq8_Y 50S ribosomal protein L  91.1   0.033 1.4E-06   33.7   0.0   44   59-102    27-71  (241)
 29 1m3q_A 8-oxoguanine DNA glycos  89.8    0.21 8.8E-06   28.5   3.2   55   47-102   191-252 (317)
 30 1b22_A DNA repair protein RAD5  89.4    0.22 9.1E-06   28.4   3.0   41   59-99     37-78  (114)
 31 2h56_A DNA-3-methyladenine gly  89.3     0.7 2.9E-05   25.1   5.6   43   54-96    109-155 (233)
 32 3n5n_X A/G-specific adenine DN  89.1    0.19 7.8E-06   28.8   2.5   62   34-98     84-148 (287)
 33 3fhg_A Mjogg, N-glycosylase/DN  88.8    0.65 2.7E-05   25.3   5.1   64   34-97     62-135 (207)
 34 1z3e_B DNA-directed RNA polyme  87.3     1.1 4.6E-05   23.8   5.5   42   59-100    19-62  (73)
 35 1u9l_A Transcription elongatio  85.8     1.3 5.4E-05   23.4   5.2   40   58-97     17-57  (70)
 36 3gfk_B DNA-directed RNA polyme  84.6     1.2 5.2E-05   23.5   4.7   41   60-100    27-69  (79)
 37 3k4g_A DNA-directed RNA polyme  84.3     1.8 7.6E-05   22.5   5.4   40   60-99     23-64  (86)
 38 3bz1_U Photosystem II 12 kDa e  84.2    0.14   6E-06   29.6  -0.3   34   63-96     17-50  (104)
 39 3lda_A DNA repair protein RAD5  83.9     2.4 9.9E-05   21.7   5.9   46   53-98     90-135 (400)
 40 3bz1_U Photosystem II 12 kDa e  83.2    0.67 2.8E-05   25.2   2.8   36   57-98     43-78  (104)
 41 1ixr_A Holliday junction DNA h  82.7     2.4   1E-04   21.7   5.5  104   31-140    59-166 (191)
 42 2edu_A Kinesin-like protein KI  82.4     1.4   6E-05   23.1   4.2   19   77-95     68-86  (98)
 43 2e1f_A Werner syndrome ATP-dep  81.8     2.6 0.00011   21.4   5.4   49   70-118    48-96  (103)
 44 1s5l_U Photosystem II 12 kDa e  81.7    0.31 1.3E-05   27.4   0.6   31   66-96     50-80  (134)
 45 1d8b_A SGS1 RECQ helicase; fiv  81.4       2 8.4E-05   22.2   4.7   39   70-108    39-77  (81)
 46 1kft_A UVRC, excinuclease ABC   81.1    0.37 1.6E-05   26.9   0.9   51   77-127    22-77  (78)
 47 2ztd_A Holliday junction ATP-d  80.4     2.4 9.9E-05   21.7   4.8  103   31-139    75-183 (212)
 48 1pzn_A RAD51, DNA repair and r  80.3     2.7 0.00011   21.3   5.0   47   52-98     41-87  (349)
 49 2duy_A Competence protein come  79.7     1.1 4.6E-05   23.8   2.9   27   72-98     20-46  (75)
 50 3fhf_A Mjogg, N-glycosylase/DN  75.3     4.4 0.00019   19.9   5.3   61   34-97     73-143 (214)
 51 1coo_A RNA polymerase alpha su  73.8     4.6 0.00019   19.8   4.7   40   60-99     35-76  (98)
 52 1cuk_A RUVA protein; DNA repai  73.3       3 0.00013   21.0   3.7  104   31-140    60-180 (203)
 53 2rhf_A DNA helicase RECQ; HRDC  72.7     5.1 0.00021   19.5   5.0   34   70-103    38-72  (77)
 54 1wud_A ATP-dependent DNA helic  72.2     4.3 0.00018   20.0   4.3   38   70-107    46-84  (89)
 55 3maj_A DNA processing chain A;  68.4     5.2 0.00022   19.5   4.0   56   27-84      7-62  (382)
 56 2rrd_A BLM HRDC domain, HRDC d  67.2     6.7 0.00028   18.8   5.3   41   70-110    55-96  (101)
 57 2kp7_A Crossover junction endo  64.4     7.5 0.00032   18.4   4.7   54   41-99     24-78  (87)
 58 2dgz_A Werner syndrome protein  61.9     3.9 0.00016   20.3   2.4   45   70-114    55-99  (113)
 59 2ihm_A POL MU, DNA polymerase   61.3     4.5 0.00019   19.9   2.6   41   55-96     72-119 (360)
 60 2w9m_A Polymerase X; SAXS, DNA  59.8     9.1 0.00038   17.9   4.4   19   78-96     96-114 (578)
 61 2jhn_A ALKA, 3-methyladenine D  59.3     8.6 0.00036   18.1   3.7   28   69-96    196-227 (295)
 62 1jms_A Terminal deoxynucleotid  59.3     5.1 0.00022   19.5   2.6   19   78-96    120-138 (381)
 63 1jei_A Emerin; membrane protei  51.8     3.5 0.00015   20.6   0.7   32   34-65      3-34  (53)
 64 2r4f_A 3-hydroxy-3-methylgluta  50.8       8 0.00034   18.3   2.5   51   17-67      2-68  (441)
 65 1mpg_A ALKA, 3-methyladenine D  49.6      13 0.00056   16.9   6.3   62   38-100   112-187 (282)
 66 1v5w_A DMC1, meiotic recombina  48.3     3.1 0.00013   21.0   0.0   54   42-98     26-79  (343)
 67 2i1q_A DNA repair and recombin  46.8      15 0.00062   16.6   7.0   46   51-96      8-53  (322)
 68 2fmp_A DNA polymerase beta; nu  44.6      16 0.00066   16.4   3.6   18   79-96     98-115 (335)
 69 1vdd_A Recombination protein R  42.4      14 0.00058   16.7   2.6   19   78-96     11-29  (228)
 70 2zkq_m 40S ribosomal protein S  40.5      14 0.00061   16.6   2.5   24   79-102    28-51  (152)
 71 2bcq_A DNA polymerase lambda;   40.3      18 0.00077   15.9   3.6   19   78-96     95-113 (335)
 72 2ziu_A MUS81 protein; helix-ha  38.4      19 0.00081   15.8   2.8   21   78-98    236-256 (311)
 73 3e1s_A Exodeoxyribonuclease V,  38.1     6.3 0.00026   18.9   0.3   56   39-98      7-63  (574)
 74 3lu0_A DNA-directed RNA polyme  37.1     5.8 0.00024   19.2   0.0   40   60-99    266-307 (329)
 75 2z43_A DNA repair and recombin  34.9     6.6 0.00028   18.8   0.0   32   65-96     31-62  (324)
 76 3ofp_M 30S ribosomal protein S  32.9      11 0.00044   17.5   0.8   24   79-102    16-39  (113)
 77 2vqe_M 30S ribosomal protein S  32.0      15 0.00062   16.5   1.4   24   79-102    17-40  (126)
 78 2a6h_A DNA-directed RNA polyme  29.0     9.5  0.0004   17.8   0.0   39   61-99    266-306 (315)
 79 2dla_A 397AA long hypothetical  28.5      13 0.00056   16.8   0.7   18   59-76     11-28  (222)
 80 5csm_A Chorismate mutase; chor  25.1      23 0.00095   15.4   1.3   36   86-121   139-175 (256)
 81 2pcj_A ABC transporter, lipopr  23.4      35  0.0015   14.1   2.1   48   35-83     95-143 (224)
 82 3bqs_A Uncharacterized protein  23.1      19 0.00078   15.9   0.6   21   77-97      2-22  (93)
 83 2izo_A FEN1, flap structure-sp  20.9      39  0.0017   13.8   1.9   16   60-75    247-262 (346)

No 1  
>3c1y_A DNA integrity scanning protein DISA; DNA damage, DNA repair, DNA-binding, DNA binding protein; HET: DNA 2BA; 2.10A {Thermotoga maritima} PDB: 3c1z_A* 3c21_A* 3c23_A*
Probab=97.96  E-value=2.5e-05  Score=53.86  Aligned_cols=82  Identities=13%  Similarity=0.104  Sum_probs=63.0

Q ss_pred             HHHHHHHCCHHHCCHHHHHHHHHHCCCCCC-CH--------------------HHHHHHHHHHCCCHHHHHCCCHHHHHH
Q ss_conf             999998239221898999999973379989-88--------------------999999997379978985099789973
Q 537021.9.peg.8   25 LRDRFLQKGENALAYYEILELILFRLIPRK-DT--------------------KSIAKALLKRFATLGGVFGAPLHLLQE   83 (148)
Q Consensus        25 ~RErll~~G~~~LsD~ELLallL~~g~~~~-~~--------------------~~lA~~lL~~fGsL~~ll~as~~eL~~   83 (148)
                      ..+.+-.--.+.+.|.+-++-+|++...+. ++                    ..++.+|.++||+|..+++||.+||..
T Consensus       272 a~~~L~~L~~~elldl~~ia~~LGy~~~g~~~llD~~v~pRGyRiLskiprlp~~vienLV~~FgsLq~Ll~AS~EeL~e  351 (377)
T 3c1y_A          272 AQNILQDFITRREPSPISISRVLGYDVQQAAQLDDVLVSARGYRLLKTVARIPLSIGYNVVRMFKTLDQISKASVEDLKK  351 (377)
T ss_dssp             HHHHHHHHHTTSCCCHHHHHHHTTCCCSCGGGGGGCBCCCCSHHHHHHTSCCCHHHHHHHHHHHCSHHHHTTCCHHHHTT
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCHHHHHHHHHHHCCHHHHHHCCHHHHHH
T ss_conf             99999862222446768999982999878666444565741788872389997889999999846899998589988964


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             78988999999754999999999987
Q 537021.9.peg.8   84 INRIGKRVALELKLVSVASQRILKAN  109 (148)
Q Consensus        84 i~GIG~aka~~l~a~~El~rR~~~~~  109 (148)
                      |+|||+..|.+|+   |--+|+....
T Consensus       352 VeGIGe~RAr~Ir---eGL~Rl~e~~  374 (377)
T 3c1y_A          352 VEGIGEKRARAIS---ESISSLKHRK  374 (377)
T ss_dssp             STTCCHHHHHHHH---HHHHHHHHHH
T ss_pred             CCCCCHHHHHHHH---HHHHHHHHCC
T ss_conf             5885899999999---9999987430


No 2  
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5
Probab=97.88  E-value=5.2e-05  Score=51.76  Aligned_cols=57  Identities=32%  Similarity=0.517  Sum_probs=47.5

Q ss_pred             HHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             99999973379989889999999973799789850997899737898899999975499
Q 537021.9.peg.8   41 EILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        41 ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      |-...+| .|.|+..-. .|+.|+++|||+.++++|+.++|..|+|||+.+|..|...+
T Consensus        10 ~~~~~~L-~~IpgIG~~-~a~~L~~~F~s~~~i~~As~eeL~~v~GIG~~~a~~i~~~~   66 (75)
T 1x2i_A           10 ERQRLIV-EGLPHVSAT-LARRLLKHFGSVERVFTASVAELMKVEGIGEKIAKEIRRVI   66 (75)
T ss_dssp             HHHHHHH-TTSTTCCHH-HHHHHHHHHCSHHHHHHCCHHHHTTSTTCCHHHHHHHHHHH
T ss_pred             HHHHHHH-CCCCCCCHH-HHHHHHHHHCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             9999998-489994299-99999999688898999789999855897999999999998


No 3  
>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} SCOP: a.60.2.5 c.52.1.20 PDB: 2bhn_A
Probab=97.85  E-value=3.9e-05  Score=52.56  Aligned_cols=58  Identities=28%  Similarity=0.377  Sum_probs=48.2

Q ss_pred             HHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             999999973379989889999999973799789850997899737898899999975499
Q 537021.9.peg.8   40 YEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        40 ~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      .+...-+| .+.|+.+. ..|+.|+++|||+..+.+|+.++|++|+|||+.+|..|...+
T Consensus       157 ~~~~~~~L-~~Ipgi~~-~~A~~Ll~~f~Sl~~l~~as~~eL~~v~giG~~~A~~I~~~l  214 (219)
T 2bgw_A          157 REWQLYIL-QSFPGIGR-RTAERILERFGSLERFFTASKAEISKVEGIGEKRAEEIKKIL  214 (219)
T ss_dssp             HHHHHHHH-HTSTTCCH-HHHHHHHHHHSSHHHHTTCCHHHHHHSTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHH-HCCCCCCH-HHHHHHHHHCCCHHHHHHCCHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             89899998-40799899-999999998699999986889999608997999999999996


No 4  
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5
Probab=97.62  E-value=9.4e-05  Score=50.13  Aligned_cols=50  Identities=20%  Similarity=0.181  Sum_probs=42.1

Q ss_pred             CCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             379989889999999973799789850997899737898899999975499
Q 537021.9.peg.8   49 RLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        49 ~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      ++.|+-.. ..|+.|+++|||+..+.+|++++|.+|+|||+.+|..|.-.+
T Consensus        22 ~~I~gIG~-~~a~~L~~~Fgsl~~i~~As~eeL~~i~GiG~~~A~~I~~~f   71 (89)
T 1z00_A           22 TTVKSVNK-TDSQTLLTTFGSLEQLIAASREDLALCPGLGPQKARRLFDVL   71 (89)
T ss_dssp             TTSSSCCH-HHHHHHHHHTCBHHHHHHCCHHHHHTSTTCCHHHHHHHHHHH
T ss_pred             CCCCCCCH-HHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             58997599-999999999488899999878777268996999999999998


No 5  
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5
Probab=97.52  E-value=0.0001  Score=49.85  Aligned_cols=48  Identities=23%  Similarity=0.200  Sum_probs=41.3

Q ss_pred             CCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             9989889999999973799789850997899737898899999975499
Q 537021.9.peg.8   51 IPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        51 ~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      .|+ =-...|+.|+++|||+..+..|+.++|.+|+|||+.+|..|...+
T Consensus        37 I~g-IGk~~A~~L~~~F~Si~~l~~As~eeL~~i~GIG~~~A~~I~~~f   84 (91)
T 2a1j_B           37 VKS-VNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGPQKARRLFDVL   84 (91)
T ss_dssp             STT-CCHHHHHHHHHHHSSHHHHHSCCHHHHHTSSSCCSHHHHHHHHHH
T ss_pred             CCC-CCHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHH
T ss_conf             888-599999999999588298999899975577996999999999998


No 6  
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3
Probab=97.36  E-value=0.00014  Score=48.94  Aligned_cols=40  Identities=20%  Similarity=0.246  Sum_probs=36.5

Q ss_pred             HHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             9999997379978985099789973789889999997549
Q 537021.9.peg.8   59 IAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV   98 (148)
Q Consensus        59 lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~   98 (148)
                      .|+.|+++||++.++.+|+++||.+|+|||+..|..|...
T Consensus        36 ~ak~Ll~~F~si~~i~~As~eeL~~v~GIg~~~A~~I~~~   75 (78)
T 1kft_A           36 RRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKIFWS   75 (78)
T ss_dssp             HHHHHHHHHSCHHHHHHCCHHHHTTSSSTTSHHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHCHHHHHCCCCCCHHHHHHHHHH
T ss_conf             9999999929949998837999980799899999999999


No 7  
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A*
Probab=96.71  E-value=0.0012  Score=43.08  Aligned_cols=45  Identities=16%  Similarity=0.193  Sum_probs=36.7

Q ss_pred             CCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf             99898899999999737997898509978997378988999999754
Q 537021.9.peg.8   51 IPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKL   97 (148)
Q Consensus        51 ~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a   97 (148)
                      .|+-..+. ++.|+.+|||+.++.+||.+||.+|.| |+..|..|.-
T Consensus         9 IPGIg~~~-~~~Ll~~fgSi~~l~~as~eeL~~v~G-~~~~A~~i~~   53 (63)
T 2a1j_A            9 MPGVNAKN-CRSLMHHVKNIAELAALSQDELTSILG-NAANAKQLYD   53 (63)
T ss_dssp             STTCCHHH-HHHHHHHCSSHHHHHTCCHHHHHHHHS-CHHHHHHHHH
T ss_pred             CCCCCHHH-HHHHHHHCCCHHHHHHCCHHHHHHCCC-CHHHHHHHHH
T ss_conf             99988999-999999867999998799999987869-8999999999


No 8  
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A*
Probab=96.50  E-value=0.0018  Score=41.76  Aligned_cols=45  Identities=16%  Similarity=0.207  Sum_probs=38.3

Q ss_pred             CCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHH
Q ss_conf             79989889999999973799789850997899737898899999975
Q 537021.9.peg.8   50 LIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELK   96 (148)
Q Consensus        50 g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~   96 (148)
                      ..|+-..+. ++.||.+|||+..+.+||.+||..|.| |+..|..|.
T Consensus        22 ~iPGIg~k~-~~~Ll~~f~sl~~i~~AS~eeL~~v~G-~~~~Ak~i~   66 (84)
T 1z00_B           22 KMPGVNAKN-CRSLMHHVKNIAELAALSQDELTSILG-NAANAKQLY   66 (84)
T ss_dssp             TCSSCCHHH-HHHHHHHSSCHHHHHHSCHHHHHHHHS-CHHHHHHHH
T ss_pred             CCCCCCHHH-HHHHHHHCCCHHHHHHCCHHHHHHCCC-CHHHHHHHH
T ss_conf             389999999-999999966999998599999988759-799999999


No 9  
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus}
Probab=96.03  E-value=0.00086  Score=43.91  Aligned_cols=46  Identities=28%  Similarity=0.170  Sum_probs=38.1

Q ss_pred             HHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             97337998988999999997379978985099789973789889999997549
Q 537021.9.peg.8   46 ILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV   98 (148)
Q Consensus        46 lL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~   98 (148)
                      |-+-|-.+      ++.||++|||+.++..||.+||+++ |||+..|..|...
T Consensus       178 I~GIG~~~------~~~Ll~~Fgs~~~i~~As~eeL~~v-gI~~~~A~~I~~~  223 (226)
T 3c65_A          178 IPGVGEKR------KKALLNYFGSVKKMKEATVEELQRA-NIPRAVAEKIYEK  223 (226)
T ss_dssp             -----------------------------------------------------
T ss_pred             CCCCCHHH------HHHHHHHCCCHHHHHHCCHHHHHHC-CCCHHHHHHHHHH
T ss_conf             68869999------9999998189999973899999876-9999999999999


No 10 
>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} SCOP: a.60.2.2 b.40.4.6 d.142.2.2 PDB: 1v9p_A*
Probab=95.95  E-value=0.033  Score=33.68  Aligned_cols=57  Identities=23%  Similarity=0.342  Sum_probs=47.1

Q ss_pred             HHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             9999973379989889999999973799789850997899737898899999975499
Q 537021.9.peg.8   42 ILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        42 LLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      +--++...|.|+.- ...|+.|...|+++..+.+++.++|..|+|||+..|..|..=+
T Consensus       503 l~r~L~aLGIp~vG-~~~ak~L~~~f~~l~~l~~as~e~L~~I~GIG~~~A~si~~~f  559 (667)
T 1dgs_A          503 LERLLYALGLPGVG-EVLARNLARRFGTMDRLLEASLEELIEVEEVGELTARAILETL  559 (667)
T ss_dssp             HHHHHHHTTCSSCC-HHHHHHHHHTTSBHHHHTTCCHHHHHTSTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCCCC-HHHHHHHHHHCCCHHHHHCCCHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             67777750678744-8999999887599999860799998577994899999999997


No 11 
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} SCOP: a.96.1.2
Probab=95.65  E-value=0.021  Score=34.98  Aligned_cols=57  Identities=12%  Similarity=0.130  Sum_probs=25.7

Q ss_pred             CHHHHHHHHHHCCCC---CCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf             989999999733799---898899999999737997898509978997378988999999754
Q 537021.9.peg.8   38 AYYEILELILFRLIP---RKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKL   97 (148)
Q Consensus        38 sD~ELLallL~~g~~---~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a   97 (148)
                      +..||.+++=..|..   -...+.+|+.+.++|||   ..-.+.++|.++||||+..|..++.
T Consensus        74 ~~~el~~~i~~~G~~~~KA~~l~~~a~~i~~~~~g---~vp~~~~eL~~LPGVG~ktA~~vl~  133 (221)
T 1kea_A           74 PKSEIAKDIKEIGLSNQRAEQLKELARVVINDYGG---RVPRNRKAILDLPGVGKYTCAAVMC  133 (221)
T ss_dssp             CHHHHHHHTGGGSCHHHHHHHHHHHHHHHHHHHTT---SCCSCHHHHHTSTTCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCC---CCCHHHHHHHCCCCCCHHHHHHHHH
T ss_conf             99999999998789999999999999999886058---7301288874489876567999999


No 12 
>1pu6_A 3-methyladenine DNA glycosylase; helix-hairpin-helix, base excision repair, hydrolase; HET: KCX; 1.64A {Helicobacter pylori} SCOP: a.96.1.5 PDB: 1pu7_A* 1pu8_A*
Probab=95.62  E-value=0.016  Score=35.77  Aligned_cols=95  Identities=14%  Similarity=0.053  Sum_probs=67.2

Q ss_pred             HHHCCHHHHHHHHHHCCCC---CCCHHHHHHHHHHHCCCHHHH-HCCCHHHHHHCCCCCHHHHHHHHHHHHHH-------
Q ss_conf             2218989999999733799---898899999999737997898-50997899737898899999975499999-------
Q 537021.9.peg.8   34 ENALAYYEILELILFRLIP---RKDTKSIAKALLKRFATLGGV-FGAPLHLLQEINRIGKRVALELKLVSVAS-------  102 (148)
Q Consensus        34 ~~~LsD~ELLallL~~g~~---~~~~~~lA~~lL~~fGsL~~l-l~as~~eL~~i~GIG~aka~~l~a~~El~-------  102 (148)
                      ...+++.||.+++=..|..   -...+.+|+.+.+.|+++.+. ...+.++|.+++|||+..|-.++.- .++       
T Consensus        72 la~a~~~eL~~~ir~~G~~~~Ka~~l~~~a~~i~~~~~~l~~~~~~~~~~~L~~lpGIG~kTA~~il~~-~~~~~~~~vD  150 (218)
T 1pu6_A           72 IAYIEFSKLAECVRPSGFYNQKAKRLIDLSGNILKDFQSFENFKQEVTREWLLDQKGIGKESADAILCY-ACAKEVMVVD  150 (218)
T ss_dssp             HHHSCHHHHHHHTGGGSCHHHHHHHHHHHHHHHHHHHSSHHHHHHHCCHHHHHTSTTCCHHHHHHHHHH-TTCCSCCCCC
T ss_pred             HHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCHHHHHHHHHH-HCCCCCCCCC
T ss_conf             977999999999998799589999999999999986631037994679999984899669999999999-8799806204


Q ss_pred             ---HHHHHHHHHHCCCCCCHHHHHHHHHHHHCC
Q ss_conf             ---999998764067788989999999998459
Q 537021.9.peg.8  103 ---QRILKANWSIKKFLTPGQPCLISVERHYPM  132 (148)
Q Consensus       103 ---rR~~~~~~~~~~~l~s~~~v~~yl~~~l~~  132 (148)
                         +|+... +  .-...+++++..+++..+..
T Consensus       151 ~~v~Rv~~R-l--g~~~~~~~~~~~~~~~~l~~  180 (218)
T 1pu6_A          151 KYSYLFLKK-L--GIEIEDYDELQHFFEKGVQE  180 (218)
T ss_dssp             HHHHHHHHH-T--TCCCCSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHH-H--CCCCCCHHHHHHHHHHHHHH
T ss_conf             259999999-0--89889999999999988689


No 13 
>1ngn_A Methyl-CPG binding protein MBD4; mismacth repair in methylated DNA, DNA binding protein; 2.10A {Mus musculus} SCOP: a.96.1.2 PDB: 3iho_A
Probab=95.56  E-value=0.022  Score=34.78  Aligned_cols=61  Identities=13%  Similarity=0.114  Sum_probs=52.4

Q ss_pred             HHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCC--HHHHHHHHHHHH
Q ss_conf             99999997337998988999999997379978985099789973-78988--999999754999
Q 537021.9.peg.8   40 YEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIG--KRVALELKLVSV  100 (148)
Q Consensus        40 ~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG--~aka~~l~a~~E  100 (148)
                      .-|++.+|..-++...|.....+|+++|.+...+..|+.++|.. |.++|  ..||..|+...+
T Consensus        33 ~~LVa~ILsqqT~~~~v~~v~~~l~~~~pt~~~la~a~~~el~~~i~~lG~~~~KAk~I~~~a~   96 (155)
T 1ngn_A           33 KLLIATIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAKTIIKFSD   96 (155)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHHHHSCSHHHHHHSCHHHHHHHTGGGSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             9999999987096999999999999988899999873499999997200268799999999971


No 14 
>2owo_A DNA ligase; protein/DNA complex, ligase/DNA complex; HET: DNA OMC AMP; 2.30A {Escherichia coli K12}
Probab=95.45  E-value=0.032  Score=33.78  Aligned_cols=59  Identities=20%  Similarity=0.184  Sum_probs=46.6

Q ss_pred             HHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             999999973379989889999999973799789850997899737898899999975499
Q 537021.9.peg.8   40 YEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        40 ~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      ..|--+|-..|.+..- ...|+.|...|+++..+.+++.++|.+|+|||+..|..|..-+
T Consensus       506 ~~l~r~L~ALGI~~vG-~~~ak~La~~f~~l~~l~~as~eeL~~I~gIG~~~A~si~~ff  564 (671)
T 2owo_A          506 TTFARFLYALGIREVG-EATAAGLAAYFGTLEALEAASIEELQKVPDVGIVVASHVHNFF  564 (671)
T ss_dssp             CCHHHHHHHTTCTTCC-HHHHHHHHHHHCSHHHHHTCCHHHHTTSTTCCHHHHHHHHHHH
T ss_pred             CCHHHHHHHCCCCCCC-HHHHHHHHHHCCCHHHHHCCCHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             9899999864377754-7789999886299999873899999644981699999999997


No 15 
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A
Probab=95.33  E-value=0.0085  Score=37.48  Aligned_cols=43  Identities=19%  Similarity=0.294  Sum_probs=32.7

Q ss_pred             CCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHH
Q ss_conf             998988999999997379978985099789973789889999997
Q 537021.9.peg.8   51 IPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALEL   95 (148)
Q Consensus        51 ~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l   95 (148)
                      .|+-.-+ -.+.||.+|||+.++.+||.+||++++|++. .|..|
T Consensus       173 I~GIG~k-~~~~Ll~~Fgs~~~I~~As~eeL~~v~g~~k-~A~~I  215 (220)
T 2nrt_A          173 VPGIGPI-RKKKLIEHFGSLENIRSASLEEIARVIGSTE-IARRV  215 (220)
T ss_dssp             STTCCHH-HHHHHHHHHCSHHHHHTSCHHHHHHHHTCHH-HHHHH
T ss_pred             CCCCCHH-HHHHHHHHCCCHHHHHHCCHHHHHHCCCCHH-HHHHH
T ss_conf             3796999-9999999818999997189999986869599-99999


No 16 
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Probab=94.92  E-value=0.039  Score=33.19  Aligned_cols=45  Identities=20%  Similarity=0.220  Sum_probs=36.7

Q ss_pred             HHHHHHHHHH-CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             9999999973-79978985099789973789889999997549999999
Q 537021.9.peg.8   57 KSIAKALLKR-FATLGGVFGAPLHLLQEINRIGKRVALELKLVSVASQR  104 (148)
Q Consensus        57 ~~lA~~lL~~-fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR  104 (148)
                      ...|+.|++. |+|+..+.++++++|.+++|+|+..|.   ++.+...|
T Consensus       656 ~~~ar~L~~~G~~s~~~i~~~~~~~l~~v~g~g~k~a~---~i~~~~~~  701 (720)
T 2zj8_A          656 RRRARALYNSGFRSIEDISQARPEELLKIEGIGVKTVE---AIFKFLGK  701 (720)
T ss_dssp             HHHHHHHHTTTCCSHHHHHTCCHHHHHTSTTCCHHHHH---HHHHHHC-
T ss_pred             HHHHHHHHHCCCCCHHHHHCCCHHHHHHCCCCCHHHHH---HHHHHHCH
T ss_conf             99999999879999999974998898527694899999---99974450


No 17 
>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} SCOP: a.96.1.1 PDB: 1orp_A* 1p59_A*
Probab=94.75  E-value=0.029  Score=34.01  Aligned_cols=94  Identities=13%  Similarity=0.145  Sum_probs=60.5

Q ss_pred             HCCHHHHHHHHHHCCCCC---CCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH---------HHH
Q ss_conf             189899999997337998---98899999999737997898509978997378988999999754999---------999
Q 537021.9.peg.8   36 ALAYYEILELILFRLIPR---KDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVSV---------ASQ  103 (148)
Q Consensus        36 ~LsD~ELLallL~~g~~~---~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~E---------l~r  103 (148)
                      ..+..|+++++-+.|..+   .+.+..|+.+.++|||   .+-.+.++|.+++|||+..|..+.+..-         =..
T Consensus        70 ~a~~~el~~~i~~~g~y~~ka~~i~~~a~~i~~~~~g---~vP~~~~~L~~LpGVG~kTA~~il~~a~~~p~~~VDtnv~  146 (226)
T 1orn_A           70 AVPLEELEQDIRSIGLYRNKARNIQKLCAMLIDKYNG---EVPRDRDELMKLPGVGRKTANVVVSVAFGVPAIAVDTHVE  146 (226)
T ss_dssp             SSCHHHHHHHTGGGSSHHHHHHHHHHHHHHHHHHSTT---SCCSCHHHHTTSTTCCHHHHHHHHHHHHCCCCCCCCHHHH
T ss_pred             CCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCC---CCCCCHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCHH
T ss_conf             3899899898874221999999999999999999299---7987899997487753679999999981688677885556


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHCCC
Q ss_conf             999987640677889899999999984597
Q 537021.9.peg.8  104 RILKANWSIKKFLTPGQPCLISVERHYPMK  133 (148)
Q Consensus       104 R~~~~~~~~~~~l~s~~~v~~yl~~~l~~~  133 (148)
                      |+.. ++.--..-.++..+...++..+...
T Consensus       147 RV~~-Rlg~~~~~~~~~~~~~~l~~~~p~~  175 (226)
T 1orn_A          147 RVSK-RLGFCRWDDSVLEVEKTLMKIIPKE  175 (226)
T ss_dssp             HHHH-HHTSSCTTCCHHHHHHHHHHHSCGG
T ss_pred             HHHH-HHCCCCCCCCHHHHHHHHHHHCCCC
T ss_conf             8998-8286665540367899999838653


No 18 
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A 1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A* 1wef_A* 1kg7_A 1kqj_A
Probab=94.70  E-value=0.054  Score=32.30  Aligned_cols=59  Identities=12%  Similarity=0.067  Sum_probs=36.1

Q ss_pred             HCCHHHHHHHHHHCCCCCC--CHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf             1898999999973379989--8899999999737997898509978997378988999999754
Q 537021.9.peg.8   36 ALAYYEILELILFRLIPRK--DTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKL   97 (148)
Q Consensus        36 ~LsD~ELLallL~~g~~~~--~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a   97 (148)
                      ..+..|+.+++=..|..++  +.+.+|+.++..|+|   -+-.+.++|.+++|||+..|..+++
T Consensus        67 ~a~~~el~~~i~~~gy~~ka~~l~~~a~~i~~~~~g---~~p~~~~~L~~LpGVG~kTA~~il~  127 (225)
T 1kg2_A           67 NAPLDEVLHLWTGLGYYARARNLHKAAQQVATLHGG---KFPETFEEVAALPGVGRSTAGAILS  127 (225)
T ss_dssp             HSCHHHHHHHHTTSCCTHHHHHHHHHHHHHHHHSTT---SCCCSHHHHHTSTTCCHHHHHHHHH
T ss_pred             HCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCC---CCCCHHHHHHHCCCCCHHHHHHHHH
T ss_conf             228999999986167327799999999999987079---9974299997589874789999999


No 19 
>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} SCOP: a.96.1.2
Probab=94.25  E-value=0.03  Score=33.95  Aligned_cols=66  Identities=20%  Similarity=0.326  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCC--HHHHHHHHHHHHHHHH
Q ss_conf             899999997337998988999999997379978985099789973-78988--9999997549999999
Q 537021.9.peg.8   39 YYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIG--KRVALELKLVSVASQR  104 (148)
Q Consensus        39 D~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG--~aka~~l~a~~El~rR  104 (148)
                      -.-|++.+|..-|+...|.....+|+++|++...+..|+.+++.+ |+|+|  ..||..|+.+......
T Consensus        36 ~~vlv~~iLsqqT~~~~v~~~~~~l~~~~pt~~~la~a~~~el~~~i~~~G~~~~KA~~l~~~a~~i~~  104 (221)
T 1kea_A           36 YVILITEILLRRTTAGHVKKIYDKFFVKYKCFEDILKTPKSEIAKDIKEIGLSNQRAEQLKELARVVIN  104 (221)
T ss_dssp             HHHHHHHHHTTTSCHHHHHHHHHHHHHHCCSHHHHHHSCHHHHHHHTGGGSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf             999999999821959999999999999788999998299999999999878999999999999999988


No 20 
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} SCOP: a.96.1.1
Probab=93.83  E-value=0.038  Score=33.25  Aligned_cols=89  Identities=9%  Similarity=-0.009  Sum_probs=52.8

Q ss_pred             CHHHHHHHHHHCCCC---CCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHH----------HH
Q ss_conf             989999999733799---89889999999973799789850997899737898899999975499999----------99
Q 537021.9.peg.8   38 AYYEILELILFRLIP---RKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLVSVAS----------QR  104 (148)
Q Consensus        38 sD~ELLallL~~g~~---~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~El~----------rR  104 (148)
                      +..||.+++=+.|..   -...+.+|+.+.++|||   -+--+.++|.++||||+..|.-+.+. ..+          +|
T Consensus        68 ~~~~l~~~i~~~G~y~~Ka~~l~~~a~~i~~~~~g---~~p~~~~~L~~LpGVG~kTA~~il~~-a~~~~~~~VDtnv~R  143 (211)
T 2abk_A           68 GVEGVKTYIKTIGLYNSKAENIIKTCRILLEQHNG---EVPEDRAALEALPGVGRKTANVVLNT-AFGWPTIAVDTHIFR  143 (211)
T ss_dssp             HHHHHHHHHTTSTTHHHHHHHHHHHHHHHHHHTTT---SCCSCHHHHHHSTTCCHHHHHHHHHH-HHCCCCCCCCHHHHH
T ss_pred             CHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCC---CCCCCHHHHHHCCCCCHHHHHHHHHH-HHCCCCCCCCCCHHH
T ss_conf             99999999986217999999999999999998489---99832999871788736999999998-735886214622778


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHCC
Q ss_conf             9998764067788989999999998459
Q 537021.9.peg.8  105 ILKANWSIKKFLTPGQPCLISVERHYPM  132 (148)
Q Consensus       105 ~~~~~~~~~~~l~s~~~v~~yl~~~l~~  132 (148)
                      ++.- ..- ..-.++.++...+...+..
T Consensus       144 v~~R-~g~-~~~~~~~~~~~~~~~~~p~  169 (211)
T 2abk_A          144 VCNR-TQF-APGKNVEQVEEKLLKVVPA  169 (211)
T ss_dssp             HHHH-HCS-SCCSSHHHHHHHHHHHSCG
T ss_pred             HHHH-HCC-CCCCCHHHHHHHHHHCCCC
T ss_conf             9998-576-7899889999998721760


No 21 
>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} SCOP: a.96.1.2 PDB: 1kg3_A 1muy_A 1kg6_A 1kg5_A 1mun_A 1mud_A 1kg4_A 1weg_A 1wei_A* 1wef_A* 1kg7_A 1kqj_A
Probab=93.64  E-value=0.12  Score=30.10  Aligned_cols=73  Identities=19%  Similarity=0.281  Sum_probs=55.1

Q ss_pred             HCCHHHC------C-HHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCC-HHHHHHHHHHHHH
Q ss_conf             2392218------9-899999997337998988999999997379978985099789973-78988-9999997549999
Q 537021.9.peg.8   31 QKGENAL------A-YYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIG-KRVALELKLVSVA  101 (148)
Q Consensus        31 ~~G~~~L------s-D~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG-~aka~~l~a~~El  101 (148)
                      .+|-..|      + -.-|++.+|..-|+...|.....+|+++|.+...+..|+.+++.+ |+|+| ..++..   +.++
T Consensus        16 ~~~~~~lPWr~~~~p~~vlV~~iLsqqT~~~~v~~~~~~l~~~~~t~~~la~a~~~el~~~i~~~gy~~ka~~---l~~~   92 (225)
T 1kg2_A           16 KYGRKTLPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLGYYARARN---LHKA   92 (225)
T ss_dssp             HHCCCCSGGGSSCCHHHHHHHHHHHTSSCHHHHHHHHHHHHHHCSSHHHHHHSCHHHHHHHHTTSCCTHHHHH---HHHH
T ss_pred             HCCCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHCCHHHHHHHHHCCCCHHHHHH---HHHH
T ss_conf             8299879999999869999999997328599999999999998789999972289999999861673277999---9999


Q ss_pred             HHHHH
Q ss_conf             99999
Q 537021.9.peg.8  102 SQRIL  106 (148)
Q Consensus       102 ~rR~~  106 (148)
                      ++.+.
T Consensus        93 a~~i~   97 (225)
T 1kg2_A           93 AQQVA   97 (225)
T ss_dssp             HHHHH
T ss_pred             HHHHH
T ss_conf             99999


No 22 
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA glycosylase, transition state analog, DNA repair; HET: NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A* 1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A*
Probab=93.57  E-value=0.062  Score=31.89  Aligned_cols=50  Identities=14%  Similarity=0.258  Sum_probs=27.7

Q ss_pred             HHHH-HHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCC
Q ss_conf             8999-99997337998988999999997379978985099789973-78988
Q 537021.9.peg.8   39 YYEI-LELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIG   88 (148)
Q Consensus        39 D~EL-LallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG   88 (148)
                      -|++ ++-+|-.-|+...|.+.-.+++++|+++..|..|+.+|+.+ ++|+|
T Consensus        39 py~vlvseil~qqT~~~~v~~~~~~~~~~~pt~~~la~a~~~ev~~~~~~lG   90 (369)
T 3fsp_A           39 PYKVWVSEVMLQQTRVETVIPYFEQFIDRFPTLEALADADEDEVLKAWEGLG   90 (369)
T ss_dssp             HHHHHHHHHHTTTSCHHHHHHHHHHHHHHCCSHHHHHTSCHHHHHHTTTTSS
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHCC
T ss_conf             7999999998610878899999999999778999997789999999987468


No 23 
>3n5n_X A/G-specific adenine DNA glycosylase; alpha-helices, helix-hairpin-helix motif, iron-sulfur cluste hydrolase; 2.30A {Homo sapiens}
Probab=93.57  E-value=0.15  Score=29.43  Aligned_cols=47  Identities=11%  Similarity=0.208  Sum_probs=37.0

Q ss_pred             HHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCC
Q ss_conf             999997337998988999999997379978985099789973-78988
Q 537021.9.peg.8   42 ILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIG   88 (148)
Q Consensus        42 LLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG   88 (148)
                      |++-++-.-|+-..|.+.-.+++++|.++..|..|+.+++.+ +.|+|
T Consensus        53 lvseimlqQT~~~~V~~~~~~~~~r~Pt~~~LA~A~~~ev~~~~~glG  100 (287)
T 3n5n_X           53 WVSEVMLQQTQVATVINYYTGWMQKWPTLQDLASASLEEVNQLWAGLG  100 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHHHCCSHHHHHTSCHHHHHHHHTTSS
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHCC
T ss_conf             999999811869999999999999877999997679999999998563


No 24 
>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA glycosylase, transition state analog, DNA repair; HET: NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A* 1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A*
Probab=93.07  E-value=0.21  Score=28.45  Aligned_cols=61  Identities=8%  Similarity=-0.007  Sum_probs=45.9

Q ss_pred             HHCCHHHHHHHHHHCCCCC--CCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             2189899999997337998--988999999997379978985099789973789889999997549
Q 537021.9.peg.8   35 NALAYYEILELILFRLIPR--KDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV   98 (148)
Q Consensus        35 ~~LsD~ELLallL~~g~~~--~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~   98 (148)
                      ...+..|+++++=+.|..+  .+....|+.+..+|||   -+-.+.++|.+++|||+..|.-|.+.
T Consensus        75 a~a~~~ev~~~~~~lGyy~ra~~l~~~a~~i~~~~~g---~~P~~~~~L~~LpGVG~~TA~ail~~  137 (369)
T 3fsp_A           75 ADADEDEVLKAWEGLGYYSRVRNLHAAVKEVKTRYGG---KVPDDPDEFSRLKGVGPYTVGAVLSL  137 (369)
T ss_dssp             HTSCHHHHHHTTTTSSCTHHHHHHHHHHHHHHHHHTT---CCCCSHHHHHTSTTCCHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHCCHHHHHHHHHHCCCCEEECCCC---CCCCCHHHHHHCCCHHHHHHHHHHHH
T ss_conf             7789999999987468899999998521227600489---99987999852422588999999998


No 25 
>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} SCOP: a.96.1.1 PDB: 1orp_A* 1p59_A*
Probab=92.97  E-value=0.21  Score=28.53  Aligned_cols=64  Identities=17%  Similarity=0.286  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCCH--HHHHHHHHHHHHH
Q ss_conf             899999997337998988999999997379978985099789973-789889--9999975499999
Q 537021.9.peg.8   39 YYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIGK--RVALELKLVSVAS  102 (148)
Q Consensus        39 D~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG~--aka~~l~a~~El~  102 (148)
                      -.-|++.+|..-|+...|.....+++++|++...+..++.+|+.. +.|+|-  .||..|+.+.+..
T Consensus        34 ~~vLVs~iLsqqT~~~~v~~~~~~l~~~~p~~~~la~a~~~el~~~i~~~g~y~~ka~~i~~~a~~i  100 (226)
T 1orn_A           34 FELLIAVVLSAQCTDALVNKVTKRLFEKYRTPHDYIAVPLEELEQDIRSIGLYRNKARNIQKLCAML  100 (226)
T ss_dssp             HHHHHHHHHHTTSCHHHHHHHHHHHHHHCCSHHHHHSSCHHHHHHHTGGGSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHH
T ss_conf             9999999998408599999999999871399999863899899898874221999999999999999


No 26 
>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} SCOP: a.96.1.1
Probab=92.96  E-value=0.1  Score=30.45  Aligned_cols=64  Identities=11%  Similarity=0.070  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH-CCCCCH--HHHHHHHHHHHHH
Q ss_conf             899999997337998988999999997379978985099789973-789889--9999975499999
Q 537021.9.peg.8   39 YYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE-INRIGK--RVALELKLVSVAS  102 (148)
Q Consensus        39 D~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~-i~GIG~--aka~~l~a~~El~  102 (148)
                      -.-|++.+|..-++..+|...-.+|.++|++...+..++.+++.+ |+|+|-  .||..|+.+....
T Consensus        30 ~~ili~~iLsqqT~~~~v~~~~~~L~~~~~t~~~la~a~~~~l~~~i~~~G~y~~Ka~~l~~~a~~i   96 (211)
T 2abk_A           30 FELLIAVLLSAQATDVSVNKATAKLYPVANTPAAMLELGVEGVKTYIKTIGLYNSKAENIIKTCRIL   96 (211)
T ss_dssp             HHHHHHHHHTTTSCHHHHHHHHHHHTTTCCSHHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHH
T ss_conf             9999999997408689999999999987589999862799999999986217999999999999999


No 27 
>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
Probab=91.57  E-value=0.25  Score=27.95  Aligned_cols=90  Identities=9%  Similarity=-0.061  Sum_probs=53.8

Q ss_pred             CCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCH----HHHHHCCCCCHHHHHHHHHHHHHH----------
Q ss_conf             898999999973379989889999999973799789850997----899737898899999975499999----------
Q 537021.9.peg.8   37 LAYYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPL----HLLQEINRIGKRVALELKLVSVAS----------  102 (148)
Q Consensus        37 LsD~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~----~eL~~i~GIG~aka~~l~a~~El~----------  102 (148)
                      +++.+|-+  ++.|.+-+-...+|+.+.+.-.++..+...+.    ++|++++|||+..|-.+. .+.++          
T Consensus       167 ~~~e~lr~--~g~g~Ra~yI~~~A~~i~~g~~~l~~l~~~~~~e~~~~L~~i~GIG~wtAd~il-Lf~lg~~d~fPvD~~  243 (290)
T 3i0w_A          167 FTEKDFEE--CTAGFRAKYLKDTVDRIYNGELNLEYIKSLNDNECHEELKKFMGVGPQVADCIM-LFSMQKYSAFPVDTW  243 (290)
T ss_dssp             CCHHHHHH--TTCGGGHHHHHHHHHHHHTTSSCHHHHHHSCHHHHHHHHTTSTTCCHHHHHHHH-HHHHCCTTCCCCCHH
T ss_pred             CCHHHHHH--CCHHHHHHHHHHHHHHHHCCCCCHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHH-HHHCCCCCEEEEEHH
T ss_conf             99999986--275989999999999884385228887437706799999867994889999999-996799996763499


Q ss_pred             -HHHHHHHHHHCCCCCCHHHHHHHHHHHHC
Q ss_conf             -99999876406778898999999999845
Q 537021.9.peg.8  103 -QRILKANWSIKKFLTPGQPCLISVERHYP  131 (148)
Q Consensus       103 -rR~~~~~~~~~~~l~s~~~v~~yl~~~l~  131 (148)
                       +|....--  ...-.++.++.+++....+
T Consensus       244 i~r~~~~~y--~~~~~~~~~~~~~~~e~~g  271 (290)
T 3i0w_A          244 VKKAMMSLY--VAPDVSLKKIRDFGREKFG  271 (290)
T ss_dssp             HHHHHHHHT--SCTTCCHHHHHHHHHHHHG
T ss_pred             HHHHHHHHC--CCCCCCHHHHHHHHHHHCC
T ss_conf             999999965--9999999999999998632


No 28 
>1vq8_Y 50S ribosomal protein L32E; ribosome 50S, protein-protein complex, RNA-RNA complex, protein-RNA complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.9.2.1 PDB: 1vq4_Y* 1vq5_Y* 1vq6_Y* 1vq7_Y* 1s72_Y* 1vq9_Y* 1vqk_Y* 1vql_Y* 1vqm_Y* 1vqn_Y* 1vqo_Y* 1vqp_Y* 1yhq_Y* 1yi2_Y* 1yij_Y* 1yit_Y* 1yj9_Y* 1yjn_Y* 1yjw_Y* 2otj_Y* ...
Probab=91.07  E-value=0.033  Score=33.66  Aligned_cols=44  Identities=25%  Similarity=0.303  Sum_probs=36.7

Q ss_pred             HHHHHHHH-CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             99999973-799789850997899737898899999975499999
Q 537021.9.peg.8   59 IAKALLKR-FATLGGVFGAPLHLLQEINRIGKRVALELKLVSVAS  102 (148)
Q Consensus        59 lA~~lL~~-fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~El~  102 (148)
                      .|+.|++. |.++..++++++++|.+++|||+..|..|....+-.
T Consensus        27 ~~~~l~~~g~~~~~~i~~~~~~~L~~~~g~g~k~a~~i~~~i~~~   71 (241)
T 1vq8_Y           27 KAESLREAGFESVEDVRGADQSALADVSGIGNALAARIKADVGGL   71 (241)
T ss_dssp             ---------------------------------------------
T ss_pred             HHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHHHC
T ss_conf             999999768999999986999999746895799999999998650


No 29 
>1m3q_A 8-oxoguanine DNA glycosylase; DNA repair, END product, HOGG, 8-aminoguanine, RE-ligation, hydrolase/DNA complex; HET: DRZ ANG; 1.90A {Homo sapiens} SCOP: a.96.1.3 d.129.1.2 PDB: 1m3h_A* 1n39_A* 1lwy_A* 1hu0_A* 1lwv_A* 1lww_A* 1fn7_A* 1n3a_A* 1n3c_A* 1ebm_A* 1ko9_A 2noe_A* 2noh_A* 2nol_A* 3ktu_A* 1yqk_A 2noz_A* 2nof_A* 1yqr_A* 1yql_A* ...
Probab=89.78  E-value=0.21  Score=28.48  Aligned_cols=55  Identities=16%  Similarity=0.094  Sum_probs=38.1

Q ss_pred             HHCCCCCCCHHHHHHHHHHHCCCHH---HHHCCCH----HHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             7337998988999999997379978---9850997----899737898899999975499999
Q 537021.9.peg.8   47 LFRLIPRKDTKSIAKALLKRFATLG---GVFGAPL----HLLQEINRIGKRVALELKLVSVAS  102 (148)
Q Consensus        47 L~~g~~~~~~~~lA~~lL~~fGsL~---~ll~as~----~eL~~i~GIG~aka~~l~a~~El~  102 (148)
                      ++.|.+......+|+.+++..++..   .+.+.+.    ++|++++|||+..|-.+. .+.++
T Consensus       191 ~g~g~Ra~~i~~~a~~~~~~~~g~~~l~~l~~~~~~e~~~~L~~l~GIG~wtAd~il-Lf~lg  252 (317)
T 1m3q_A          191 LGLGYRARYVSASARAILEEQGGLAWLQQLRESSYEEAHKALCILPGVGTKVADCIC-LMALD  252 (317)
T ss_dssp             TTCTTHHHHHHHHHHHHHHTSCSHHHHHHTTTSCHHHHHHHHTTSTTCCHHHHHHHH-HHHSC
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHCCHHHHHHHHHHCCCCCHHHHHHHH-HHHCC
T ss_conf             263689999999999998534440469988535579999999854894889999999-98579


No 30 
>1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: a.60.4.1
Probab=89.44  E-value=0.22  Score=28.39  Aligned_cols=41  Identities=27%  Similarity=0.180  Sum_probs=34.3

Q ss_pred             HHHHHHH-HCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             9999997-3799789850997899737898899999975499
Q 537021.9.peg.8   59 IAKALLK-RFATLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        59 lA~~lL~-~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      .++.|-+ .|.++..+..+++++|..|+|||+.+|..|..+.
T Consensus        37 ~i~KL~~aG~~Tv~~Ia~~t~~eL~~i~Gi~e~~A~KIi~aa   78 (114)
T 1b22_A           37 DVKKLEEAGFHTVEAVAYAPKKELINIKGISEAKADKILAEA   78 (114)
T ss_dssp             HHHHHHTTCCSSGGGBTSSBHHHHHTTTTCSTTHHHHHHHHH
T ss_pred             HHHHHHHCCCCHHHHHHHCCHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             999999969744999984899999766698899999999999


No 31 
>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, structural genomics, PSI-2, protein structure initiative; 2.55A {Bacillus halodurans}
Probab=89.32  E-value=0.7  Score=25.11  Aligned_cols=43  Identities=16%  Similarity=0.137  Sum_probs=26.5

Q ss_pred             CCHHHHHHHHHHHCCCHHHHHCCCHH----HHHHCCCCCHHHHHHHH
Q ss_conf             98899999999737997898509978----99737898899999975
Q 537021.9.peg.8   54 KDTKSIAKALLKRFATLGGVFGAPLH----LLQEINRIGKRVALELK   96 (148)
Q Consensus        54 ~~~~~lA~~lL~~fGsL~~ll~as~~----eL~~i~GIG~aka~~l~   96 (148)
                      .-...+|+.+...-.++..+.+.+.+    +|++|+|||+..|-.+.
T Consensus       109 ~~i~~la~~~~~g~~~~~~l~~~~~~e~~~~L~~ikGIGpWTA~~il  155 (233)
T 2h56_A          109 EYIRHVCEHVESGRLDFTELEGAEATTVIEKLTAIKGIGQWTAEMFM  155 (233)
T ss_dssp             HHHHHHHHHHHTTSSCHHHHTTSCHHHHHHHHHTSTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             99999999998177520010126888999998806884878999999


No 32 
>3n5n_X A/G-specific adenine DNA glycosylase; alpha-helices, helix-hairpin-helix motif, iron-sulfur cluste hydrolase; 2.30A {Homo sapiens}
Probab=89.05  E-value=0.19  Score=28.82  Aligned_cols=62  Identities=11%  Similarity=0.039  Sum_probs=43.3

Q ss_pred             HHHCCHHHHHHHHHHCCCC--CCCHHHHHHHHHHHCCCHHHHHCCCHHHH-HHCCCCCHHHHHHHHHH
Q ss_conf             2218989999999733799--89889999999973799789850997899-73789889999997549
Q 537021.9.peg.8   34 ENALAYYEILELILFRLIP--RKDTKSIAKALLKRFATLGGVFGAPLHLL-QEINRIGKRVALELKLV   98 (148)
Q Consensus        34 ~~~LsD~ELLallL~~g~~--~~~~~~lA~~lL~~fGsL~~ll~as~~eL-~~i~GIG~aka~~l~a~   98 (148)
                      ....+..|+++++=+.|..  ..+-...|+.++.+||+-  + --+..++ ..++|||+..|.-|.+.
T Consensus        84 LA~A~~~ev~~~~~glGyy~ra~~l~~~a~~i~~~~~g~--~-p~~~~e~l~~LPGVG~kTA~aIl~~  148 (287)
T 3n5n_X           84 LASASLEEVNQLWAGLGYYSRGRRLQEGARKVVEELGGH--M-PRTAETLQQLLPGVGRYTAGAIASI  148 (287)
T ss_dssp             HHTSCHHHHHHHHTTSSCHHHHHHHHHHHHHHHHHSTTC--C-CSSHHHHHHHSTTCCHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCC--C-CCCHHHHCCCCCCCCHHHHHHHHHH
T ss_conf             976799999999985638999999999998888984798--8-7621544046887568999999998


No 33 
>3fhg_A Mjogg, N-glycosylase/DNA lyase, DNA-; helix-hairpin-helix, 8-oxoguanine, 8-OXOG, ssogg, DNA damage, DNA repair, glycosidase, hydrolase; 1.90A {Sulfolobus solfataricus}
Probab=88.77  E-value=0.65  Score=25.30  Aligned_cols=64  Identities=13%  Similarity=-0.040  Sum_probs=37.7

Q ss_pred             HHHCCHHHHHHHHHHCCCCCC-----CHHHHHHHHHHHCC-CHHHHHCCCH----HHHHHCCCCCHHHHHHHHH
Q ss_conf             221898999999973379989-----88999999997379-9789850997----8997378988999999754
Q 537021.9.peg.8   34 ENALAYYEILELILFRLIPRK-----DTKSIAKALLKRFA-TLGGVFGAPL----HLLQEINRIGKRVALELKL   97 (148)
Q Consensus        34 ~~~LsD~ELLallL~~g~~~~-----~~~~lA~~lL~~fG-sL~~ll~as~----~eL~~i~GIG~aka~~l~a   97 (148)
                      ....+..||.+.+=..|....     .....|+.+.+.++ .+..+...+.    ++|++++|||+..|..++.
T Consensus        62 ~~~~~~~~l~~~lk~~g~~f~~~ka~~i~~~a~~i~~~~~~~~~~l~~~~~~e~~~~L~~l~GIG~ktA~~~L~  135 (207)
T 3fhg_A           62 IYYANEEEIRNILKSCKYRFYNLKAKYIIMAREKVYGRLKEEIKPLADEDQQLARERLLNIKGIGMQEASHFLR  135 (207)
T ss_dssp             GGTCCHHHHHHHHHHTTCTTHHHHHHHHHHHHHHHTTTHHHHHHHHHHHCHHHHHHHHTTSTTCCHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHCCHHHHHHHHHHCCCCCHHHHHHHHH
T ss_conf             85499999999999837606888999999999999987378406666178799999999878872999999999


No 34 
>1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription regulation, disulfide stress; 1.50A {Bacillus subtilis} SCOP: a.60.3.1 PDB: 3ihq_B
Probab=87.28  E-value=1.1  Score=23.83  Aligned_cols=42  Identities=17%  Similarity=0.171  Sum_probs=34.6

Q ss_pred             HHHHHHHH--CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf             99999973--7997898509978997378988999999754999
Q 537021.9.peg.8   59 IAKALLKR--FATLGGVFGAPLHLLQEINRIGKRVALELKLVSV  100 (148)
Q Consensus        59 lA~~lL~~--fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~E  100 (148)
                      -+.+.|.+  .-.++.|...+.++|.+++|+|+....+|+....
T Consensus        19 R~~N~L~~~~I~tv~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~   62 (73)
T 1z3e_B           19 RSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLE   62 (73)
T ss_dssp             HHHHHHHHTTCCBHHHHHTSCHHHHHTSTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf             99999989489679999868999997478986605999999999


No 35 
>1u9l_A Transcription elongation protein NUSA; escherichia coli NUSA, phage lambda protein N, regulation of RNA binding, transcription antitermination, X-RAY crystallography; 1.90A {Escherichia coli} SCOP: a.60.4.2 PDB: 1wcl_A
Probab=85.75  E-value=1.3  Score=23.40  Aligned_cols=40  Identities=25%  Similarity=0.345  Sum_probs=34.4

Q ss_pred             HHHHHHHH-HCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf             99999997-37997898509978997378988999999754
Q 537021.9.peg.8   58 SIAKALLK-RFATLGGVFGAPLHLLQEINRIGKRVALELKL   97 (148)
Q Consensus        58 ~lA~~lL~-~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a   97 (148)
                      .+|+-|.. .|.|+..+..++.++|..|.|+-.-.+..|+.
T Consensus        17 ~iA~lLv~EGF~siEeIAy~~~~eL~~IegfDee~a~eL~~   57 (70)
T 1u9l_A           17 DFATVLVEEGFSTLEELAYVPMKELLEIEGLDEPTVEALRE   57 (70)
T ss_dssp             HHHHHHHHTTCCCHHHHHHSCHHHHTTSTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH
T ss_conf             99999998655979998759999997631558999999999


No 36 
>3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex, cytoplasm, redox-active center, stress response, transcription; 2.30A {Bacillus subtilis}
Probab=84.61  E-value=1.2  Score=23.53  Aligned_cols=41  Identities=17%  Similarity=0.168  Sum_probs=34.0

Q ss_pred             HHHHHHHC--CCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf             99999737--997898509978997378988999999754999
Q 537021.9.peg.8   60 AKALLKRF--ATLGGVFGAPLHLLQEINRIGKRVALELKLVSV  100 (148)
Q Consensus        60 A~~lL~~f--GsL~~ll~as~~eL~~i~GIG~aka~~l~a~~E  100 (148)
                      +.+.|.+.  -.++.|...+.++|.+++|+|.....+|+.+..
T Consensus        27 ~~n~L~~~gI~tv~dL~~~s~~dLl~i~n~G~kSl~EI~~~L~   69 (79)
T 3gfk_B           27 SYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLE   69 (79)
T ss_dssp             HHHHHHHTTCCBHHHHTTCCHHHHTTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf             9999989289679999868899997578986737999999999


No 37 
>3k4g_A DNA-directed RNA polymerase subunit alpha; bacterial transcription regulation, DNA-directed RNA polymer nucleotidyltransferase; HET: MLY; 2.05A {Escherichia coli k-12} PDB: 1lb2_B* 1xs9_D
Probab=84.33  E-value=1.8  Score=22.45  Aligned_cols=40  Identities=15%  Similarity=0.116  Sum_probs=32.9

Q ss_pred             HHHHHHH--CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             9999973--799789850997899737898899999975499
Q 537021.9.peg.8   60 AKALLKR--FATLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        60 A~~lL~~--fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      |.+.|.+  +..++.|+..+.++|.+++|+|......|+-..
T Consensus        23 ~~N~Lk~~gI~tvgdLv~~se~dLl~i~NfG~kSl~EI~~~L   64 (86)
T 3k4g_A           23 SANCLXAEAIHYIGDLVQRTEVELLXTPNLGXXSLTEIXDVL   64 (86)
T ss_dssp             HHHHHHHTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHHH
T ss_pred             HHHHHCCCCCCCHHHHHHCCHHHHCCCCCCCHHHHHHHHHHH
T ss_conf             998725543937999984899998178898772699999999


No 38 
>3bz1_U Photosystem II 12 kDa extrinsic protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 2axt_U* 3bz2_U* 3kzi_U* 3a0b_U* 3a0h_U*
Probab=84.22  E-value=0.14  Score=29.57  Aligned_cols=34  Identities=6%  Similarity=-0.032  Sum_probs=25.0

Q ss_pred             HHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHH
Q ss_conf             9973799789850997899737898899999975
Q 537021.9.peg.8   63 LLKRFATLGGVFGAPLHLLQEINRIGKRVALELK   96 (148)
Q Consensus        63 lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~   96 (148)
                      +-..+|.--.|-.|+..+|++++|||++.|..|.
T Consensus        17 ~~~~~~~kidlN~As~~eL~~lpGig~~~A~~Iv   50 (104)
T 3bz1_U           17 LGTAYGEKIDLNNTNIAAFIQYRGLYPTLAKLIV   50 (104)
T ss_dssp             TTSSBTTBEETTSSCGGGGGGSTTTTHHHHHHHH
T ss_pred             HHCCCCCCEECCCCCHHHHHHCCCCCHHHHHHHH
T ss_conf             5304688357840899999658997999999999


No 39 
>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*
Probab=83.87  E-value=2.4  Score=21.69  Aligned_cols=46  Identities=24%  Similarity=0.065  Sum_probs=36.6

Q ss_pred             CCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             8988999999997379978985099789973789889999997549
Q 537021.9.peg.8   53 RKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV   98 (148)
Q Consensus        53 ~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~   98 (148)
                      +-++.++.+--=..|-++..|+.+++.+|++++||+..+|..|...
T Consensus        90 gi~~~~i~kL~~aG~~t~~~i~~~~~~~L~~~~g~s~~~a~ki~~~  135 (400)
T 3lda_A           90 GITMADVKKLRESGLHTAEAVAYAPRKDLLEIKGISEAKADKLLNE  135 (400)
T ss_dssp             TCCHHHHHHHHHTTCCBHHHHHHSCHHHHHTSTTCCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHCCCCCHHHHHCCCHHHHHHHCCCCHHHHHHHHHH
T ss_conf             9998999999986985199997179999987239999999999999


No 40 
>3bz1_U Photosystem II 12 kDa extrinsic protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 2axt_U* 3bz2_U* 3kzi_U* 3a0b_U* 3a0h_U*
Probab=83.20  E-value=0.67  Score=25.24  Aligned_cols=36  Identities=19%  Similarity=0.182  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             999999997379978985099789973789889999997549
Q 537021.9.peg.8   57 KSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV   98 (148)
Q Consensus        57 ~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~   98 (148)
                      ..+|+++++ +|.+.     +.+||.+|+|||+.+...|+.-
T Consensus        43 ~~~A~~Iv~-~gpf~-----s~~dL~~V~Gig~~~~e~ik~y   78 (104)
T 3bz1_U           43 PTLAKLIVK-NAPYE-----SVEDVLNIPGLTERQKQILREN   78 (104)
T ss_dssp             HHHHHHHHH-SCCCS-----SGGGGGGCTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHH-CCCCC-----CHHHHHCCCCCCHHHHHHHHHH
T ss_conf             999999997-49979-----8999963899899999999986


No 41 
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} SCOP: a.60.2.1 b.40.4.2
Probab=82.69  E-value=2.4  Score=21.68  Aligned_cols=104  Identities=17%  Similarity=0.214  Sum_probs=64.4

Q ss_pred             HCCHHHCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCC--CHH-HHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             23922189899999997337998988999999997379--978-985099789973789889999997549999999999
Q 537021.9.peg.8   31 QKGENALAYYEILELILFRLIPRKDTKSIAKALLKRFA--TLG-GVFGAPLHLLQEINRIGKRVALELKLVSVASQRILK  107 (148)
Q Consensus        31 ~~G~~~LsD~ELLallL~~g~~~~~~~~lA~~lL~~fG--sL~-~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~  107 (148)
                      -||-.+..+.++...++.  .++--. -.|-.+|..+.  .|. .+.+-+...|.++||||+..|-+|.  .||--++..
T Consensus        59 LyGF~~~~Er~lF~~Li~--V~GIGp-K~Al~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtAerIi--lELk~K~~~  133 (191)
T 1ixr_A           59 LYGFPDEENLALFELLLS--VSGVGP-KVALALLSALPPRLLARALLEGDARLLTSASGVGRRLAERIA--LELKGKVPP  133 (191)
T ss_dssp             EEEESSHHHHHHHHHHHS--SSCCCH-HHHHHHHHHSCHHHHHHHHHTTCHHHHTTSTTCCHHHHHHHH--HHHTTTSCS
T ss_pred             EECCCCHHHHHHHHHHHC--CCCCCH-HHHHHHHHCCCHHHHHHHHHCCCHHHHHCCCCCCHHHHHHHH--HHHHHHCCC
T ss_conf             771182899999999857--688377-889888725999999999983999995018884688999999--999864342


Q ss_pred             HHHHHCCC-CCCHHHHHHHHHHHHCCCCEEEEEE
Q ss_conf             87640677-8898999999999845978000252
Q 537021.9.peg.8  108 ANWSIKKF-LTPGQPCLISVERHYPMKNANNFAY  140 (148)
Q Consensus       108 ~~~~~~~~-l~s~~~v~~yl~~~l~~~~~E~F~v  140 (148)
                      ........ -+..+++..=|. .+|+.+.|.-.+
T Consensus       134 ~~~~~~~~~~~~~~ea~~AL~-~LGy~~~ea~~a  166 (191)
T 1ixr_A          134 HLLAGEKVESEAAEEAVMALA-ALGFKEAQARAV  166 (191)
T ss_dssp             CC--------------------------------
T ss_pred             CCCCCCCCCCCCHHHHHHHHH-HCCCCHHHHHHH
T ss_conf             100112334556899999999-859999999999


No 42 
>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.60.2.7
Probab=82.38  E-value=1.4  Score=23.10  Aligned_cols=19  Identities=11%  Similarity=0.156  Sum_probs=9.3

Q ss_pred             CHHHHHHCCCCCHHHHHHH
Q ss_conf             9789973789889999997
Q 537021.9.peg.8   77 PLHLLQEINRIGKRVALEL   95 (148)
Q Consensus        77 s~~eL~~i~GIG~aka~~l   95 (148)
                      +.+||.+|+|||+.+...|
T Consensus        68 sledL~~v~Gi~~k~~eki   86 (98)
T 2edu_A           68 QVEDLERVEGITGKQMESF   86 (98)
T ss_dssp             SGGGGGGSTTCCHHHHHHH
T ss_pred             CHHHHHCCCCCCHHHHHHH
T ss_conf             8999844899899999999


No 43 
>2e1f_A Werner syndrome ATP-dependent helicase; HRDC domain, hydrolase; 2.00A {Homo sapiens} SCOP: a.60.8.1 PDB: 2e1e_A
Probab=81.79  E-value=2.6  Score=21.42  Aligned_cols=49  Identities=8%  Similarity=0.099  Sum_probs=34.9

Q ss_pred             HHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             7898509978997378988999999754999999999987640677889
Q 537021.9.peg.8   70 LGGVFGAPLHLLQEINRIGKRVALELKLVSVASQRILKANWSIKKFLTP  118 (148)
Q Consensus        70 L~~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~~~~~~~~~l~s  118 (148)
                      +....=.+.++|..|+|||+.++...--..++.+.+...+.-....+..
T Consensus        48 ia~~~P~t~~eL~~I~G~g~~k~~ryG~~l~~I~~~~~~~~~~~~~~~~   96 (103)
T 2e1f_A           48 MAKMRPTTVENVKRIDGVSEGKAAMLAPLLEVIKHFCQTNSVQTDLFSS   96 (103)
T ss_dssp             HHHHCCCSHHHHTTSTTCCHHHHHHTHHHHHHHHHHHHHTTCCCCCCCC
T ss_pred             HHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             9987899999993789989999999989999999999984998765677


No 44 
>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis, oxygen-evolving, tetra- manganese, membrane; HET: CL1 PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus elongatus}
Probab=81.65  E-value=0.31  Score=27.38  Aligned_cols=31  Identities=3%  Similarity=-0.032  Sum_probs=25.6

Q ss_pred             HCCCHHHHHCCCHHHHHHCCCCCHHHHHHHH
Q ss_conf             3799789850997899737898899999975
Q 537021.9.peg.8   66 RFATLGGVFGAPLHLLQEINRIGKRVALELK   96 (148)
Q Consensus        66 ~fGsL~~ll~as~~eL~~i~GIG~aka~~l~   96 (148)
                      .+|.--++-.|+..+|++++|||+++|..|.
T Consensus        50 ~~g~kidlN~A~~~eL~~lpGig~~~A~~Iv   80 (134)
T 1s5l_U           50 AYGEKIDLNNTNIAAFIQYRGLYPTLAKLIV   80 (134)
T ss_dssp             TSTTSEETTTSCGGGGGGSTTCTHHHHHHHH
T ss_pred             CCCCEEECCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             3477041640789999771034699999999


No 45 
>1d8b_A SGS1 RECQ helicase; five helices, three-helical bundle flanked by two helices, DNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.60.8.1
Probab=81.41  E-value=2  Score=22.18  Aligned_cols=39  Identities=5%  Similarity=0.124  Sum_probs=28.5

Q ss_pred             HHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             789850997899737898899999975499999999998
Q 537021.9.peg.8   70 LGGVFGAPLHLLQEINRIGKRVALELKLVSVASQRILKA  108 (148)
Q Consensus        70 L~~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~~  108 (148)
                      +....=.+.++|.+|+|||+.++..-..-.....++.++
T Consensus        39 iA~~~P~t~~eL~~I~Gvg~~k~~kY~~F~~~i~~~~~~   77 (81)
T 1d8b_A           39 MAAILPMNDSAFATLGTVEDKYRRRFKYFKATIADLSKK   77 (81)
T ss_dssp             HHHHCCCSHHHHGGGSCCCHHHHHHGGGTHHHHHHHHHH
T ss_pred             HHHHCCCCHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             998689999998279999989999999999999999997


No 46 
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3
Probab=81.08  E-value=0.37  Score=26.90  Aligned_cols=51  Identities=14%  Similarity=0.058  Sum_probs=36.0

Q ss_pred             CHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCC---CCC--HHHHHHHHH
Q ss_conf             978997378988999999754999999999987640677---889--899999999
Q 537021.9.peg.8   77 PLHLLQEINRIGKRVALELKLVSVASQRILKANWSIKKF---LTP--GQPCLISVE  127 (148)
Q Consensus        77 s~~eL~~i~GIG~aka~~l~a~~El~rR~~~~~~~~~~~---l~s--~~~v~~yl~  127 (148)
                      ....|..|+|||+.++..|..-+.-...+..+...+-..   +..  .+.+++||+
T Consensus        22 ~~S~L~~IpGIG~k~ak~Ll~~F~si~~i~~As~eeL~~v~GIg~~~A~~I~~~l~   77 (78)
T 1kft_A           22 NTSSLETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKIFWSLK   77 (78)
T ss_dssp             -CCGGGGCTTCSSSHHHHHHHHHSCHHHHHHCCHHHHTTSSSTTSHHHHHHHHHHT
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHCHHHHHCCCCCCHHHHHHHHHHHC
T ss_conf             33826569993299999999992994999883799998079989999999999966


No 47 
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA binding, oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A
Probab=80.39  E-value=2.4  Score=21.70  Aligned_cols=103  Identities=14%  Similarity=0.032  Sum_probs=63.1

Q ss_pred             HCCHHHCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCC--CHH-HHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             23922189899999997337998988999999997379--978-985099789973789889999997549999999999
Q 537021.9.peg.8   31 QKGENALAYYEILELILFRLIPRKDTKSIAKALLKRFA--TLG-GVFGAPLHLLQEINRIGKRVALELKLVSVASQRILK  107 (148)
Q Consensus        31 ~~G~~~LsD~ELLallL~~g~~~~~~~~lA~~lL~~fG--sL~-~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~  107 (148)
                      -||-....+.++...|+.  .++--. -.|-.+|..++  .|. .+.+-+...|+++||||+..|-.|.  .||--++..
T Consensus        75 LyGF~~~~Er~lF~~Li~--VsGIGP-K~AL~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtAeRIi--lELkdKl~~  149 (212)
T 2ztd_A           75 LYGFPDGETRDLFLTLLS--VSGVGP-RLAMAALAVHDAPALRQVLADGNVAALTRVPGIGKRGAERMV--LELRDKVGV  149 (212)
T ss_dssp             EEEESSHHHHHHHHHHHT--STTCCH-HHHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHH--HHHTTTCC-
T ss_pred             EECCCCHHHHHHHHHHHH--CCCCCH-HHHHHHHHCCCHHHHHHHHHHCCHHHHHHCCCCCHHHHHHHH--HHHHHHHCC
T ss_conf             656599899999999983--489774-678788854999999999980899998517782488899999--999754313


Q ss_pred             HHH---HHCCCCCCHHHHHHHHHHHHCCCCEEEEE
Q ss_conf             876---40677889899999999984597800025
Q 537021.9.peg.8  108 ANW---SIKKFLTPGQPCLISVERHYPMKNANNFA  139 (148)
Q Consensus       108 ~~~---~~~~~l~s~~~v~~yl~~~l~~~~~E~F~  139 (148)
                      ...   .....-+..+++..=|.. |++.+.|.-.
T Consensus       150 ~~~~~~~~~~~~~~~~e~~~AL~~-LGy~~~ea~~  183 (212)
T 2ztd_A          150 AATGGALSTNGHAVRSPVVEALVG-LGFAAKQAEE  183 (212)
T ss_dssp             ------------CCHHHHHHHHHH-TTCCHHHHHH
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHH-CCCCHHHHHH
T ss_conf             334554345664317899999998-5999899999


No 48 
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerization motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11
Probab=80.31  E-value=2.7  Score=21.35  Aligned_cols=47  Identities=21%  Similarity=0.196  Sum_probs=35.6

Q ss_pred             CCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             98988999999997379978985099789973789889999997549
Q 537021.9.peg.8   52 PRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV   98 (148)
Q Consensus        52 ~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~   98 (148)
                      |+.+...+.+--=..|.++.+|..+++.+|.++.||+..+|..|..+
T Consensus        41 ~gv~~~~~~kL~~aG~~t~~~l~~~~~~~L~~~~gis~~~a~kii~~   87 (349)
T 1pzn_A           41 PGVGPATAEKLREAGYDTLEAIAVASPIELKEVAGISEGTALKIIQA   87 (349)
T ss_dssp             TTCCHHHHHHHHTTTCCSHHHHHTCCHHHHHHHHCCCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHCCCHHHHHHHHHH
T ss_conf             99699999999986997299997089999998649899999999999


No 49 
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus HB8} SCOP: a.60.2.7
Probab=79.71  E-value=1.1  Score=23.83  Aligned_cols=27  Identities=22%  Similarity=0.150  Sum_probs=19.2

Q ss_pred             HHHCCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             985099789973789889999997549
Q 537021.9.peg.8   72 GVFGAPLHLLQEINRIGKRVALELKLV   98 (148)
Q Consensus        72 ~ll~as~~eL~~i~GIG~aka~~l~a~   98 (148)
                      ++-.||.++|..++|||+..|..|..-
T Consensus        20 diN~As~~eL~~lpGig~~~A~~Iv~~   46 (75)
T 2duy_A           20 SLNEASLEELMALPGIGPVLARRIVEG   46 (75)
T ss_dssp             ETTTCCHHHHTTSTTCCHHHHHHHHHT
T ss_pred             ECCCCCHHHHHHCCCCCHHHHHHHHHC
T ss_conf             071287999977789899999999985


No 50 
>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} PDB: 3knt_A*
Probab=75.31  E-value=4.4  Score=19.94  Aligned_cols=61  Identities=21%  Similarity=0.073  Sum_probs=33.0

Q ss_pred             HHHCCHHHHHHHHHHCCCC--CC---CHHHHH-----HHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHH
Q ss_conf             2218989999999733799--89---889999-----9999737997898509978997378988999999754
Q 537021.9.peg.8   34 ENALAYYEILELILFRLIP--RK---DTKSIA-----KALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKL   97 (148)
Q Consensus        34 ~~~LsD~ELLallL~~g~~--~~---~~~~lA-----~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a   97 (148)
                      ...++..||-+++=..|..  +.   ..+.+|     +.+...|++--   ..+.++|+++||||+..|..++.
T Consensus        73 ~~~~~~eel~~~ik~~G~~f~~~KAk~I~~~a~~~~~~~l~~~~~~~~---~~~~~~L~~l~GIG~ktA~~~L~  143 (214)
T 3fhf_A           73 FLTLPREELEEKLKNLGHRFYRKRAEYIVLARRFKNIKDIVESFENEK---VAREFLVRNIKGIGYKEASHFLR  143 (214)
T ss_dssp             HHHSCHHHHHHHHHHTTCTTHHHHHHHHHHHGGGCCHHHHHHHSSSHH---HHHHHHHHHSTTCCHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC---CCHHHHHHHCCCCCHHHHHHHHH
T ss_conf             986999999999999464567999999999999999988889739989---87399997488876999999999


No 51 
>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl transferase; NMR {Escherichia coli K12} SCOP: a.60.3.1 PDB: 2jzb_A
Probab=73.84  E-value=4.6  Score=19.84  Aligned_cols=40  Identities=23%  Similarity=0.228  Sum_probs=31.9

Q ss_pred             HHHHHHH--CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             9999973--799789850997899737898899999975499
Q 537021.9.peg.8   60 AKALLKR--FATLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        60 A~~lL~~--fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      +.+.|.+  .-.++.|...+.++|.+++|+|......|+-..
T Consensus        35 s~N~L~~~gI~tvgdLv~~se~dLl~~~n~G~KSl~EIk~~L   76 (98)
T 1coo_A           35 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVL   76 (98)
T ss_dssp             THHHHHTTTCCBHHHHHTSCHHHHTTSTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCCHHHHHHCCHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             999873817938999985799999758897687899999999


No 52 
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination, helicase; 1.90A {Escherichia coli} SCOP: a.5.1.1 a.60.2.1 b.40.4.2 PDB: 1hjp_A 1bdx_A* 1c7y_A 1d8l_A
Probab=73.34  E-value=3  Score=21.03  Aligned_cols=104  Identities=15%  Similarity=0.096  Sum_probs=62.3

Q ss_pred             HCCHHHCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCC--CH-HHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             23922189899999997337998988999999997379--97-8985099789973789889999997549999999999
Q 537021.9.peg.8   31 QKGENALAYYEILELILFRLIPRKDTKSIAKALLKRFA--TL-GGVFGAPLHLLQEINRIGKRVALELKLVSVASQRILK  107 (148)
Q Consensus        31 ~~G~~~LsD~ELLallL~~g~~~~~~~~lA~~lL~~fG--sL-~~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~  107 (148)
                      -||-....+.++...++.  .++--.+ .|-.+|..+.  .| ..+.+-+...|.++||||+..|-+|.  .||--++..
T Consensus        60 LyGF~~~~Er~lF~~Li~--VsGIGPK-~AL~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi--lELkdK~~~  134 (203)
T 1cuk_A           60 LYGFNNKQERTLFKELIK--TNGVGPK-LALAILSGMSAQQFVNAVEREEVGALVKLPGIGKKTAERLI--VEMKDRFKG  134 (203)
T ss_dssp             EEEESSHHHHHHHHHHHH--SSSCCHH-HHHHHHHHSCHHHHHHHHHTTCHHHHHTSTTCCHHHHHHHH--HHHHHHGGG
T ss_pred             EEECCCHHHHHHHHHHHC--CCCCCHH-HHHHHHHCCCHHHHHHHHHHCCHHHHHCCCCCCHHHHHHHH--HHHHHHHHH
T ss_conf             886194699999999857--6885756-68888612798999999871899886069987799999999--999999876


Q ss_pred             HHHHH-------------CCC-CCCHHHHHHHHHHHHCCCCEEEEEE
Q ss_conf             87640-------------677-8898999999999845978000252
Q 537021.9.peg.8  108 ANWSI-------------KKF-LTPGQPCLISVERHYPMKNANNFAY  140 (148)
Q Consensus       108 ~~~~~-------------~~~-l~s~~~v~~yl~~~l~~~~~E~F~v  140 (148)
                      -....             .+. -+..+++..-|. .||+.+.|...+
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~AL~-~LGy~~~ea~~a  180 (203)
T 1cuk_A          135 LHGDLFTPAADLVLTSPASPATDDAEQEAVARLV-ALGYKPQEASRM  180 (203)
T ss_dssp             CCSTTTCC-------------CCHHHHHHHHHHH-HHTCCHHHHHHH
T ss_pred             HCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH-HCCCCHHHHHHH
T ss_conf             3012246542212357777666605899999999-879999999999


No 53 
>2rhf_A DNA helicase RECQ; HRDC, D. radiodurans, ATP-binding, hydrolase, nucleotide-binding; HET: DNA; 1.10A {Deinococcus radiodurans R1}
Probab=72.72  E-value=5.1  Score=19.53  Aligned_cols=34  Identities=18%  Similarity=0.133  Sum_probs=23.3

Q ss_pred             HHHHHCCCHHHHHHCCCCCHHHHHHH-HHHHHHHH
Q ss_conf             78985099789973789889999997-54999999
Q 537021.9.peg.8   70 LGGVFGAPLHLLQEINRIGKRVALEL-KLVSVASQ  103 (148)
Q Consensus        70 L~~ll~as~~eL~~i~GIG~aka~~l-~a~~El~r  103 (148)
                      +....=.+.++|.+|+|||+.|+... ..+.++.+
T Consensus        38 ia~~~P~t~~eL~~I~Gig~~k~~~yG~~il~~I~   72 (77)
T 2rhf_A           38 LAARQPRTLAELAEVPGLGEKRIEAYGERILDAIN   72 (77)
T ss_dssp             HHHHCCCSHHHHTTSTTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             99839789999807999799999999999999999


No 54 
>1wud_A ATP-dependent DNA helicase RECQ; DNA-binding domain, HRDC, hydrolase; 2.20A {Escherichia coli} SCOP: a.60.8.1
Probab=72.20  E-value=4.3  Score=19.99  Aligned_cols=38  Identities=11%  Similarity=0.097  Sum_probs=26.8

Q ss_pred             HHHHHCCCHHHHHHCCCCCHHHHHHH-HHHHHHHHHHHH
Q ss_conf             78985099789973789889999997-549999999999
Q 537021.9.peg.8   70 LGGVFGAPLHLLQEINRIGKRVALEL-KLVSVASQRILK  107 (148)
Q Consensus        70 L~~ll~as~~eL~~i~GIG~aka~~l-~a~~El~rR~~~  107 (148)
                      +....=.+.++|.+|+|||+.++..- ..+.++.+.+..
T Consensus        46 ia~~~P~t~~eL~~I~Gvg~~k~~~yG~~iL~ii~~~~~   84 (89)
T 1wud_A           46 MAEQMPITASEMLSVNGVGMRKLERFGKPFMALIRAHVD   84 (89)
T ss_dssp             HHHHCCCSHHHHHTSTTCCHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHCCCCHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             999788999998079998999999999999999999985


No 55 
>3maj_A DNA processing chain A; MCSG, PSI-2, structural genomics, protein structure initiati midwest center for structural genomics; HET: DNA; 2.05A {Rhodopseudomonas palustris}
Probab=68.43  E-value=5.2  Score=19.46  Aligned_cols=56  Identities=11%  Similarity=0.164  Sum_probs=42.3

Q ss_pred             HHHHHCCHHHCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHC
Q ss_conf             9998239221898999999973379989889999999973799789850997899737
Q 537021.9.peg.8   27 DRFLQKGENALAYYEILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEI   84 (148)
Q Consensus        27 Erll~~G~~~LsD~ELLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i   84 (148)
                      ||--..|...+||.|.++.+--+-.++--.+. .++|+++|||...++.+.. ++...
T Consensus         7 ~~~~~~~~~~~t~~e~l~wl~L~~~~giG~~~-~~~Ll~~fgs~~~~~~~~~-~~~~~   62 (382)
T 3maj_A            7 ERSSDQGTTVLTEAQRIDWMRLIRAENVGPRT-FRSLINHFGSARAALERLP-ELARR   62 (382)
T ss_dssp             ------CCCCSCHHHHHHHHHHHTSTTCCHHH-HHHHHHHHSSHHHHHHHHH-HHHHH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHCCCCCCHHH-HHHHHHHHCCHHHHHHCCH-HHHHH
T ss_conf             54677788889999999999998289964999-9999998399999997799-99987


No 56 
>2rrd_A BLM HRDC domain, HRDC domain from bloom syndrome protein; DNA helicase, RECQ family, HRDC DOMA binding protein; NMR {Homo sapiens}
Probab=67.16  E-value=6.7  Score=18.77  Aligned_cols=41  Identities=12%  Similarity=0.050  Sum_probs=29.1

Q ss_pred             HHHHHCCCHHHHHHCCCCCHHHHHHH-HHHHHHHHHHHHHHH
Q ss_conf             78985099789973789889999997-549999999999876
Q 537021.9.peg.8   70 LGGVFGAPLHLLQEINRIGKRVALEL-KLVSVASQRILKANW  110 (148)
Q Consensus        70 L~~ll~as~~eL~~i~GIG~aka~~l-~a~~El~rR~~~~~~  110 (148)
                      +....=.+.++|.+|+|||+.++... ..+.++.+.+.....
T Consensus        55 ia~~~P~t~~eL~~I~Gv~~~k~~~yG~~il~~I~~~~e~~~   96 (101)
T 2rrd_A           55 LAESLSSDPEVLLQIDGVTEDKLEKYGAEVISVLQKYSEWTS   96 (101)
T ss_dssp             HHHHCCCCHHHHHTSTTCCHHHHHHTHHHHHHHHHHHHHHHS
T ss_pred             HHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             998685999998267787999999999999999999976108


No 57 
>2kp7_A Crossover junction endonuclease MUS81; helix-hairpin-helix, tumour suppressor, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; NMR {Mus musculus}
Probab=64.42  E-value=7.5  Score=18.44  Aligned_cols=54  Identities=17%  Similarity=0.035  Sum_probs=38.4

Q ss_pred             HHHHHHHHCCCCCCCHHHHHHHHHHHCC-CHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             9999997337998988999999997379-9789850997899737898899999975499
Q 537021.9.peg.8   41 EILELILFRLIPRKDTKSIAKALLKRFA-TLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        41 ELLallL~~g~~~~~~~~lA~~lL~~fG-sL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      |+....-..|.++.-+..-|.+-|..+. -+     .+..++..++|||+.-+..|.=..
T Consensus        24 e~~~~~~~k~~k~~~aY~kA~~sLk~~p~~I-----~s~~~l~~l~GIG~~i~~ki~e~L   78 (87)
T 2kp7_A           24 EWRDEAASRGRHTRFVFQKALRSLQRYPLPL-----RSGKEAKILQHFGDRLCRMLDEKL   78 (87)
T ss_dssp             HHHHHHHHHTCTTHHHHHHHHHHHHHCCSCC-----CSHHHHHTCTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHCCCCC-----CCHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             9999998707357999999999999789988-----889999727997789999999999


No 58 
>2dgz_A Werner syndrome protein variant; HRDC domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.60.8.1
Probab=61.86  E-value=3.9  Score=20.28  Aligned_cols=45  Identities=9%  Similarity=0.055  Sum_probs=32.5

Q ss_pred             HHHHHCCCHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             789850997899737898899999975499999999998764067
Q 537021.9.peg.8   70 LGGVFGAPLHLLQEINRIGKRVALELKLVSVASQRILKANWSIKK  114 (148)
Q Consensus        70 L~~ll~as~~eL~~i~GIG~aka~~l~a~~El~rR~~~~~~~~~~  114 (148)
                      +....=.+.++|.+|.|||..++...-..++..+++..+......
T Consensus        55 la~~~P~t~~eL~~I~G~~~~k~~~yG~~l~~I~~~~~~~~~~~~   99 (113)
T 2dgz_A           55 MAKMRPTTVENVKRIDGVSEGKAAMLAPLWEVIKHFCQTNSVQTD   99 (113)
T ss_dssp             HHHHCCCSHHHHHHSSSCCTTGGGGGHHHHHHHHHHHHTTTCCCC
T ss_pred             HHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             999789999999479998999999998999999999998389877


No 59 
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus}
Probab=61.34  E-value=4.5  Score=19.89  Aligned_cols=41  Identities=17%  Similarity=0.259  Sum_probs=23.6

Q ss_pred             CHHHHHHHHHHHCCCHHHHH---CC----CHHHHHHCCCCCHHHHHHHH
Q ss_conf             88999999997379978985---09----97899737898899999975
Q 537021.9.peg.8   55 DTKSIAKALLKRFATLGGVF---GA----PLHLLQEINRIGKRVALELK   96 (148)
Q Consensus        55 ~~~~lA~~lL~~fGsL~~ll---~a----s~~eL~~i~GIG~aka~~l~   96 (148)
                      ...+--.++++ -|++..+-   ..    ...+|++|+||||.+|..+-
T Consensus        72 ~i~~kI~e~l~-tG~~~~le~l~~~~~~~~l~~l~~i~GvGpk~a~~l~  119 (360)
T 2ihm_A           72 HSTRVIQELLE-HGTCEEVKQVRCSERYQTMKLFTQVFGVGVKTANRWY  119 (360)
T ss_dssp             HHHHHHHHHHH-HSCCHHHHHHHHSHHHHHHHHHHTSTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             99999999995-3868999988622157999999757787899999999


No 60 
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=59.77  E-value=9.1  Score=17.91  Aligned_cols=19  Identities=21%  Similarity=0.170  Sum_probs=14.0

Q ss_pred             HHHHHHCCCCCHHHHHHHH
Q ss_conf             7899737898899999975
Q 537021.9.peg.8   78 LHLLQEINRIGKRVALELK   96 (148)
Q Consensus        78 ~~eL~~i~GIG~aka~~l~   96 (148)
                      ..+|++|+||||.+|.+|-
T Consensus        96 ~~~l~~I~GvGpk~A~~l~  114 (578)
T 2w9m_A           96 LLDLLGVRGLGPKKIRSLW  114 (578)
T ss_dssp             HHHHTTSTTCCHHHHHHHH
T ss_pred             HHHHHCCCCCCHHHHHHHH
T ss_conf             9998478986899999999


No 61 
>2jhn_A ALKA, 3-methyladenine DNA-glycosylase; DNA repair, N1-methyladenine, N3-methylcytosine, hyperthermophiles, hydrolase; HET: MBO MES; 1.8A {Archaeoglobus fulgidus} PDB: 2jhj_A
Probab=59.28  E-value=8.6  Score=18.08  Aligned_cols=28  Identities=18%  Similarity=0.076  Sum_probs=15.6

Q ss_pred             CHHHHHCCCHH----HHHHCCCCCHHHHHHHH
Q ss_conf             97898509978----99737898899999975
Q 537021.9.peg.8   69 TLGGVFGAPLH----LLQEINRIGKRVALELK   96 (148)
Q Consensus        69 sL~~ll~as~~----eL~~i~GIG~aka~~l~   96 (148)
                      ++..+-.++.+    .|++|+|||+..|-.+.
T Consensus       196 ~~~~l~~~~~~e~~~~L~~i~GIGpWTA~~il  227 (295)
T 2jhn_A          196 NLEELKEWGEEEAYEYLTSFKGIGRWTAELVL  227 (295)
T ss_dssp             SGGGGGGSCHHHHHHHHHTSTTCCHHHHHHHH
T ss_pred             CHHHHCCCCHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             55654128858888899845994889999999


No 62 
>1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1kdh_A* 1kej_A*
Probab=59.25  E-value=5.1  Score=19.52  Aligned_cols=19  Identities=16%  Similarity=0.263  Sum_probs=14.0

Q ss_pred             HHHHHHCCCCCHHHHHHHH
Q ss_conf             7899737898899999975
Q 537021.9.peg.8   78 LHLLQEINRIGKRVALELK   96 (148)
Q Consensus        78 ~~eL~~i~GIG~aka~~l~   96 (148)
                      ..+|++|+||||.+|..+.
T Consensus       120 l~~l~~I~GiGpk~a~~l~  138 (381)
T 1jms_A          120 FKLFTSVFGVGLKTAEKWF  138 (381)
T ss_dssp             HHHHHTSTTCCHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHH
T ss_conf             8998737787899999999


No 63 
>1jei_A Emerin; membrane protein; NMR {Synthetic} SCOP: a.140.1.1 PDB: 2odc_I 2odg_C
Probab=51.84  E-value=3.5  Score=20.61  Aligned_cols=32  Identities=19%  Similarity=0.147  Sum_probs=27.1

Q ss_pred             HHHCCHHHHHHHHHHCCCCCCCHHHHHHHHHH
Q ss_conf             22189899999997337998988999999997
Q 537021.9.peg.8   34 ENALAYYEILELILFRLIPRKDTKSIAKALLK   65 (148)
Q Consensus        34 ~~~LsD~ELLallL~~g~~~~~~~~lA~~lL~   65 (148)
                      -..|||.||.+++=.+|++.-.+.+.-+.+-+
T Consensus         3 y~~lSd~El~~lL~~y~I~HGPvVdstr~lyE   34 (53)
T 1jei_A            3 YADLSDTELTTLLRRYNIPHGPVVGSTRRLYE   34 (53)
T ss_dssp             TTTCCHHHHHHHHSSSCCSCCCCCSGGGHHHH
T ss_pred             HHHHCHHHHHHHHHHHCCCCCCCCCCHHHHHH
T ss_conf             65616899999999929998880061399999


No 64 
>2r4f_A 3-hydroxy-3-methylglutaryl-coenzyme A reductase; oxidoreductase, cholesterol, biocynthesis, HMG-COA, NADPH, statin, alternative splicing; HET: RIE; 1.70A {Homo sapiens} PDB: 2q1l_A* 2q6c_A* 2q6b_A* 3bgl_A* 3cct_A* 3ccw_A* 3ccz_A* 3cd0_A* 3cd5_A* 3cd7_A* 3cda_A* 3cdb_A* 1dqa_A* 1dq9_A* 1dq8_A* 1hw8_A* 1hw9_A* 1hwi_A* 1hwj_A* 1hwk_A* ...
Probab=50.80  E-value=8  Score=18.26  Aligned_cols=51  Identities=31%  Similarity=0.369  Sum_probs=32.8

Q ss_pred             CCCCHHHHHHHHHHH------CCHHHCCHHHHHHHHHHCCCCCC----------CHHHHHHHHHHHC
Q ss_conf             300165019999982------39221898999999973379989----------8899999999737
Q 537021.9.peg.8   17 DYIGHHNRLRDRFLQ------KGENALAYYEILELILFRLIPRK----------DTKSIAKALLKRF   67 (148)
Q Consensus        17 ~~~ghr~R~RErll~------~G~~~LsD~ELLallL~~g~~~~----------~~~~lA~~lL~~f   67 (148)
                      ||.-|.-||-|-+++      .|++.|||.|++..+...-.+-+          .+..+-+.+|.+.
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~d~e~~~~~~~~~~~~~~le~~~~~~~~a~~irr~~~~~~   68 (441)
T 2r4f_A            2 HHHHHEPRPNEECLQILGNAEKGAKFLSDAEIIQLVNAKHIPAYKLETLIETHERGVSIRRQLLSKK   68 (441)
T ss_dssp             -----CCCCHHHHHHHHHSTTTGGGSSCHHHHHHHHHTTSSCGGGHHHHSSSHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHCCHHHHHHHHHHHHHHH
T ss_conf             8666899999999998607454677799899999997599871557876078688999999999986


No 65 
>1mpg_A ALKA, 3-methyladenine DNA glycosylase II; DNA repair, base excision, methylation, hydrolase; 1.80A {Escherichia coli} SCOP: a.96.1.3 d.129.1.2 PDB: 1diz_A 1pvs_A* 3cvs_A* 3cvt_A* 3cw7_A* 3cwa_A* 3cws_A* 3cwt_A* 3cwu_A* 3d4v_A*
Probab=49.60  E-value=13  Score=16.85  Aligned_cols=62  Identities=13%  Similarity=0.087  Sum_probs=33.0

Q ss_pred             CHHHHH-HHHHHCCCCCCCHHHHHHHHHHHCCC-------------HHHHHCCCHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf             989999-99973379989889999999973799-------------7898509978997378988999999754999
Q 537021.9.peg.8   38 AYYEIL-ELILFRLIPRKDTKSIAKALLKRFAT-------------LGGVFGAPLHLLQEINRIGKRVALELKLVSV  100 (148)
Q Consensus        38 sD~ELL-allL~~g~~~~~~~~lA~~lL~~fGs-------------L~~ll~as~~eL~~i~GIG~aka~~l~a~~E  100 (148)
                      +-+|.| -.|++.-..-.-+..+..+|...||.             -..+..++.++|..+ |+...|+..|+.+.+
T Consensus       112 d~fE~lvraIlgQQvS~~aA~~i~~rL~~~~G~~~~~~~~~~~fPtp~~la~~~~~~Lr~~-Gls~~ka~~i~~lA~  187 (282)
T 1mpg_A          112 DAFEQGVRAILGQLVSVAMAAKLTARVAQLYGERLDDFPEYICFPTPQRLAAADPQALKAL-GMPLKRAEALIHLAN  187 (282)
T ss_dssp             CHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHCCBCSSCTTCBCCCCHHHHHTCCHHHHHHT-TSCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHCCCHHHHHHC-CCCCHHHHHHHHHHH
T ss_conf             9999999999827451999999999999986887776765457777999974999999654-886047999999999


No 66 
>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A
Probab=48.25  E-value=3.1  Score=20.96  Aligned_cols=54  Identities=15%  Similarity=0.144  Sum_probs=38.6

Q ss_pred             HHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             999997337998988999999997379978985099789973789889999997549
Q 537021.9.peg.8   42 ILELILFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELKLV   98 (148)
Q Consensus        42 LLallL~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~   98 (148)
                      .++.+-..|..-.|+.-|-.   ..|.++.+|..+++.+|++++|++++++..+...
T Consensus        26 ~~~~~~~~gi~~~~~~kL~~---~g~~t~~~~~~~~~~~l~~~~g~~~~~~~~~~~~   79 (343)
T 1v5w_A           26 DIDLLQKHGINVADIKKLKS---VGICTIKGIQMTTRRALCNVKGLSEAKVDKIKEA   79 (343)
T ss_dssp             ---------------------------------------------------------
T ss_pred             CHHHHHHCCCCHHHHHHHHH---CCCCHHHHHHCCCHHHHHHHHCCCHHHHHHHHHH
T ss_conf             35899868999899999998---0843699986359888887328679999999999


No 67 
>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ewa_A* 3ew9_A* 3etl_A* 2gdj_A*
Probab=46.76  E-value=15  Score=16.57  Aligned_cols=46  Identities=15%  Similarity=0.233  Sum_probs=36.6

Q ss_pred             CCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHH
Q ss_conf             9989889999999973799789850997899737898899999975
Q 537021.9.peg.8   51 IPRKDTKSIAKALLKRFATLGGVFGAPLHLLQEINRIGKRVALELK   96 (148)
Q Consensus        51 ~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~   96 (148)
                      .|+.+...+.+-.=..|.++..++.+++.||.++.|+...++..|.
T Consensus         8 ~~g~~~~~~~kL~~ag~~t~~~l~~~~~~~l~~~~~~~~~~~~~i~   53 (322)
T 2i1q_A            8 LPGVGPSTAEKLVEAGYIDFMKIATATVGELTDIEGISEKAAAKMI   53 (322)
T ss_dssp             STTCCHHHHHHHHHHTCCSHHHHHTCCHHHHHTSTTCCHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHCCCCCHHHHHCCCHHHHHHHHCCCHHHHHHHH
T ss_conf             7998999999999869960999973999999987499999999999


No 68 
>2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1bpx_A* 1bpz_A* 1mq2_A* 1mq3_A* 1bpy_A* 1tva_A* 1zjm_A* 1zjn_A* 1zqa_A* 1zqb_A* 1zqc_A* 1zqd_A* 1zqe_A* 1zqf_A* 1zqg_A* 1zqh_A* 1zqi_A* 1zqj_A* 1zqk_A* 1zql_A* ...
Probab=44.58  E-value=16  Score=16.36  Aligned_cols=18  Identities=22%  Similarity=0.412  Sum_probs=12.0

Q ss_pred             HHHHHCCCCCHHHHHHHH
Q ss_conf             899737898899999975
Q 537021.9.peg.8   79 HLLQEINRIGKRVALELK   96 (148)
Q Consensus        79 ~eL~~i~GIG~aka~~l~   96 (148)
                      ..|++|+||||.+|..+.
T Consensus        98 ~~l~~I~GvGpk~a~~l~  115 (335)
T 2fmp_A           98 NFLTRVSGIGPSAARKFV  115 (335)
T ss_dssp             HHHTTSTTCCHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHH
T ss_conf             998745687989999999


No 69 
>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} SCOP: e.49.1.1 PDB: 2v1c_A
Probab=42.39  E-value=14  Score=16.74  Aligned_cols=19  Identities=26%  Similarity=0.398  Sum_probs=15.4

Q ss_pred             HHHHHHCCCCCHHHHHHHH
Q ss_conf             7899737898899999975
Q 537021.9.peg.8   78 LHLLQEINRIGKRVALELK   96 (148)
Q Consensus        78 ~~eL~~i~GIG~aka~~l~   96 (148)
                      ++.|.++||||+..|..+.
T Consensus        11 I~~l~kLPGIG~KsA~RlA   29 (228)
T 1vdd_A           11 IRELSRLPGIGPKSAQRLA   29 (228)
T ss_dssp             HHHHHTSTTCCHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHH
T ss_conf             9999668999889999999


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 3jyv_M*
Probab=40.49  E-value=14  Score=16.60  Aligned_cols=24  Identities=17%  Similarity=0.191  Sum_probs=19.4

Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             899737898899999975499999
Q 537021.9.peg.8   79 HLLQEINRIGKRVALELKLVSVAS  102 (148)
Q Consensus        79 ~eL~~i~GIG~aka~~l~a~~El~  102 (148)
                      -.|+.|.|||+..|.+|.....+.
T Consensus        28 ~aLt~I~GIG~~~A~~Ic~~lgI~   51 (152)
T 2zkq_m           28 FAITAIKGVGRRYAHVVLRKADID   51 (152)
T ss_dssp             HHGGGSTTCCHHHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCC
T ss_conf             650021065899999999993899


No 71 
>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ...
Probab=40.31  E-value=18  Score=15.94  Aligned_cols=19  Identities=26%  Similarity=0.274  Sum_probs=14.1

Q ss_pred             HHHHHHCCCCCHHHHHHHH
Q ss_conf             7899737898899999975
Q 537021.9.peg.8   78 LHLLQEINRIGKRVALELK   96 (148)
Q Consensus        78 ~~eL~~i~GIG~aka~~l~   96 (148)
                      ..+|++|+||||.+|..+.
T Consensus        95 ~~~l~~I~GvGpk~a~~l~  113 (335)
T 2bcq_A           95 LELFSNIWGAGTKTAQMWY  113 (335)
T ss_dssp             HHHHHTSTTCCHHHHHHHH
T ss_pred             HHHHHCCCCCCHHHHHHHH
T ss_conf             5665118876889999999


No 72 
>2ziu_A MUS81 protein; helix-hairpin-helix, alternative splicing, DNA damage, DNA recombination, DNA repair, hydrolase, magnesium; 2.70A {Danio rerio} PDB: 2ziv_A 2ziw_A
Probab=38.40  E-value=19  Score=15.80  Aligned_cols=21  Identities=14%  Similarity=0.048  Sum_probs=17.5

Q ss_pred             HHHHHHCCCCCHHHHHHHHHH
Q ss_conf             789973789889999997549
Q 537021.9.peg.8   78 LHLLQEINRIGKRVALELKLV   98 (148)
Q Consensus        78 ~~eL~~i~GIG~aka~~l~a~   98 (148)
                      ...|++|||||+.+|..|...
T Consensus       236 ~~~L~qIpGIs~~~A~~I~~~  256 (311)
T 2ziu_A          236 ARQLMQISGVSGDKAAAVLEH  256 (311)
T ss_dssp             HHHHTTBTTCCHHHHHHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHHH
T ss_conf             999982799999999999997


No 73 
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, hydrolase; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*
Probab=38.09  E-value=6.3  Score=18.95  Aligned_cols=56  Identities=20%  Similarity=0.075  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHCCCCCCCHHHHHHHHHHHCC-CHHHHHCCCHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             899999997337998988999999997379-978985099789973789889999997549
Q 537021.9.peg.8   39 YYEILELILFRLIPRKDTKSIAKALLKRFA-TLGGVFGAPLHLLQEINRIGKRVALELKLV   98 (148)
Q Consensus        39 D~ELLallL~~g~~~~~~~~lA~~lL~~fG-sL~~ll~as~~eL~~i~GIG~aka~~l~a~   98 (148)
                      +.++++.|-..|.+    -.+|.++.+.|| ..-.++..+|-.|+.|+|||-.+|-.|...
T Consensus         7 ~~~~~~~l~~~g~~----~~~a~~i~~~~g~~~~~~i~~nPy~l~~i~gi~f~~aD~ia~~   63 (574)
T 3e1s_A            7 ERRLLAGLQGLGLT----INQAQRAVKHFGADALDRLEKDLFTLTEVEGIGFLTADKLWQA   63 (574)
T ss_dssp             -----------------------------------------CGGGTSSSCCHHHHHTTC--
T ss_pred             HHHHHHHHHHCCCC----HHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHHHHHH
T ss_conf             99999999877999----9999999999848999999849912312588995899999997


No 74 
>3lu0_A DNA-directed RNA polymerase subunit alpha; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_A
Probab=37.09  E-value=5.8  Score=19.17  Aligned_cols=40  Identities=23%  Similarity=0.228  Sum_probs=32.0

Q ss_pred             HHHHHHH--CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             9999973--799789850997899737898899999975499
Q 537021.9.peg.8   60 AKALLKR--FATLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        60 A~~lL~~--fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      |.+.|++  ...++.|+..+.+||.++++.|....-+|+...
T Consensus       266 s~NcLkra~I~ti~dLv~~s~~dLl~ikNfGkKSl~EI~~kL  307 (329)
T 3lu0_A          266 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVL  307 (329)
T ss_dssp             ------------------------------------------
T ss_pred             HHHHHHHCCCCCHHHHHHCCHHHHHCCCCCCCCCHHHHHHHH
T ss_conf             886575718918999764799999558997620099999999


No 75 
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular switch, RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus P2} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*
Probab=34.91  E-value=6.6  Score=18.81  Aligned_cols=32  Identities=16%  Similarity=0.058  Sum_probs=25.7

Q ss_pred             HHCCCHHHHHCCCHHHHHHCCCCCHHHHHHHH
Q ss_conf             73799789850997899737898899999975
Q 537021.9.peg.8   65 KRFATLGGVFGAPLHLLQEINRIGKRVALELK   96 (148)
Q Consensus        65 ~~fGsL~~ll~as~~eL~~i~GIG~aka~~l~   96 (148)
                      ..|.+...++.+++.+|.++.|+...+|..+.
T Consensus        31 ~g~~t~~~l~~~~~~~L~~~~gls~~~a~kil   62 (324)
T 2z43_A           31 AGYSSLETLAVASPQDLSVAAGIPLSTAQKII   62 (324)
T ss_dssp             --------------------------------
T ss_pred             CCCCCHHHHHCCCHHHHHHHHCCCHHHHHHHH
T ss_conf             69961999971899999987498999999999


No 76 
>3ofp_M 30S ribosomal protein S13; protein biosynthesis, ribosomes, RNA, tRNA, transfer, eryThr ketolide, macrolide, antibiotic, EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_M* 2wwl_M 2qal_M* 1p6g_M 1p87_M 2aw7_M 2avy_M 2i2u_M 2i2p_M* 2qan_M* 2qb9_M* 2qbb_M* 2qbd_M 2qbf_M 2qbh_M* 2qbj_M* 2qou_M* 2qow_M* 2qoy_M* 2qp0_M* ...
Probab=32.94  E-value=11  Score=17.50  Aligned_cols=24  Identities=17%  Similarity=0.138  Sum_probs=19.4

Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             899737898899999975499999
Q 537021.9.peg.8   79 HLLQEINRIGKRVALELKLVSVAS  102 (148)
Q Consensus        79 ~eL~~i~GIG~aka~~l~a~~El~  102 (148)
                      -.|..|.|||+..|.+|.....+.
T Consensus        16 ~ALt~I~GIG~~~A~~Ic~~lgi~   39 (113)
T 3ofp_M           16 IALTSIYGVGKTRSKAILAAAGIA   39 (113)
T ss_dssp             HHHTSSSSCCSSHHHHGGGTTTCC
T ss_pred             EEEECEECCCHHHHHHHHHHCCCC
T ss_conf             550143474899999999984989


No 77 
>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} SCOP: a.156.1.1 PDB: 1gix_P* 1hnw_M* 1hnx_M* 1hnz_M* 1hr0_M 1ibk_M* 1ibl_M* 1ibm_M 1j5e_M 1jgo_P* 1jgp_P* 1jgq_P* 1mj1_P* 1ml5_P* 1n32_M* 1n33_M* 1n34_M 1n36_M 1xmo_M* 1xmq_M* ...
Probab=32.00  E-value=15  Score=16.54  Aligned_cols=24  Identities=29%  Similarity=0.076  Sum_probs=17.7

Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             899737898899999975499999
Q 537021.9.peg.8   79 HLLQEINRIGKRVALELKLVSVAS  102 (148)
Q Consensus        79 ~eL~~i~GIG~aka~~l~a~~El~  102 (148)
                      -.|..|.|||+..|.+|.....+.
T Consensus        17 ~aLt~I~GIG~~~A~~Ic~~lGId   40 (126)
T 2vqe_M           17 VALTYIYGIGKARAKEALEKTGIN   40 (126)
T ss_dssp             HHHTTSSSCCSHHHHHHTTTTTCC
T ss_pred             EEECCEECCCHHHHHHHHHHCCCC
T ss_conf             762043483899999999985979


No 78 
>2a6h_A DNA-directed RNA polymerase alpha chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: d.74.3.1 d.181.1.1 PDB: 1smy_A* 1zyr_A* 1iw7_A* 2a69_A* 2a6e_A 2a68_A* 2be5_A* 2cw0_A 2o5i_A 2o5j_A* 2ppb_A* 3dxj_A* 3eql_A* 1i6v_A* 1ynj_A* 1l9z_A 1l9u_A* 1ynn_A* 2gho_A 1hqm_A ...
Probab=29.05  E-value=9.5  Score=17.79  Aligned_cols=39  Identities=26%  Similarity=0.292  Sum_probs=29.7

Q ss_pred             HHHHHH--CCCHHHHHCCCHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             999973--799789850997899737898899999975499
Q 537021.9.peg.8   61 KALLKR--FATLGGVFGAPLHLLQEINRIGKRVALELKLVS   99 (148)
Q Consensus        61 ~~lL~~--fGsL~~ll~as~~eL~~i~GIG~aka~~l~a~~   99 (148)
                      .+.|++  ...++.|+..+.++|.+++++|+...-.|+...
T Consensus       266 ~NcLk~a~I~ti~dLv~~s~~eLl~i~N~G~KSl~EI~ekL  306 (315)
T 2a6h_A          266 LHSLKEEGIESVRALLALNLKDLKNIPGIGERSLEEIKEAL  306 (315)
T ss_dssp             -----------------------------------------
T ss_pred             HHHHHHCCCCCHHHHHHCCHHHHHCCCCCCCCCHHHHHHHH
T ss_conf             86787859948999873999998479998510399999999


No 79 
>2dla_A 397AA long hypothetical protein; helix bundle, twisted beta-sheet, replication; 2.90A {Pyrococcus horikoshii OT3}
Probab=28.48  E-value=13  Score=16.83  Aligned_cols=18  Identities=39%  Similarity=0.560  Sum_probs=14.4

Q ss_pred             HHHHHHHHCCCHHHHHCC
Q ss_conf             999999737997898509
Q 537021.9.peg.8   59 IAKALLKRFATLGGVFGA   76 (148)
Q Consensus        59 lA~~lL~~fGsL~~ll~a   76 (148)
                      -|++|++.|||+...+++
T Consensus        11 kAk~LlkeFG~in~fLe~   28 (222)
T 2dla_A           11 KAKELLKGFGSINDFMDA   28 (222)
T ss_dssp             HHHHHTTTTSSHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHH
T ss_conf             999999985059999987


No 80 
>5csm_A Chorismate mutase; chorismate pyruvatemutase, allosteric protein, complex (isomerase/peptide), transition state analog; HET: TRP; 2.00A {Saccharomyces cerevisiae} SCOP: a.130.1.2 PDB: 3csm_A* 2csm_A* 4csm_A* 1csm_A*
Probab=25.10  E-value=23  Score=15.36  Aligned_cols=36  Identities=11%  Similarity=0.090  Sum_probs=27.7

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHCCC-CCCHHH
Q ss_conf             988999999754999999999987640677-889899
Q 537021.9.peg.8   86 RIGKRVALELKLVSVASQRILKANWSIKKF-LTPGQP  121 (148)
Q Consensus        86 GIG~aka~~l~a~~El~rR~~~~~~~~~~~-l~s~~~  121 (148)
                      .-|.+.++-+.|...++||++..+..-... .++|+.
T Consensus       139 NyGSta~cDi~cLQALSRRIHyGKFVAEaKF~~~p~~  175 (256)
T 5csm_A          139 NFGSVATRDIECLQSLSRRIHFGKFVAEAKFQSDIPL  175 (256)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHTCHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHH
T ss_conf             2267999999999999888553236658787409999


No 81 
>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein LOLD; structural genomics, NPPSFA; 1.70A {Aquifex aeolicus VF5} PDB: 2pcl_A
Probab=23.35  E-value=35  Score=14.11  Aligned_cols=48  Identities=23%  Similarity=0.194  Sum_probs=36.6

Q ss_pred             HHCCHHHHHHHH-HHCCCCCCCHHHHHHHHHHHCCCHHHHHCCCHHHHHH
Q ss_conf             218989999999-7337998988999999997379978985099789973
Q 537021.9.peg.8   35 NALAYYEILELI-LFRLIPRKDTKSIAKALLKRFATLGGVFGAPLHLLQE   83 (148)
Q Consensus        35 ~~LsD~ELLall-L~~g~~~~~~~~lA~~lL~~fGsL~~ll~as~~eL~~   83 (148)
                      ..+|=+|=+++- ...|.++......++++|+.+| |...++..+.+|..
T Consensus        95 ~~ltv~eNi~~~l~~~g~~~~~~~~~~~~~l~~~g-l~~~~~~~p~~LSG  143 (224)
T 2pcj_A           95 PELTALENVIVPMLKMGKPKKEAKERGEYLLSELG-LGDKLSRKPYELSG  143 (224)
T ss_dssp             TTSCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTT-CTTCTTCCGGGSCH
T ss_pred             CCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC-CHHHHHCCCCCCCH
T ss_conf             89819999967998849999999999999998779-96676189500898


No 82 
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A 3mab_A
Probab=23.08  E-value=19  Score=15.91  Aligned_cols=21  Identities=33%  Similarity=0.400  Sum_probs=14.8

Q ss_pred             CHHHHHHCCCCCHHHHHHHHH
Q ss_conf             978997378988999999754
Q 537021.9.peg.8   77 PLHLLQEINRIGKRVALELKL   97 (148)
Q Consensus        77 s~~eL~~i~GIG~aka~~l~a   97 (148)
                      +..+|..+|+||++.+..+..
T Consensus         2 ~m~~L~~LPNig~~~e~~L~~   22 (93)
T 3bqs_A            2 SLANLSELPNIGKVLEQDLIK   22 (93)
T ss_dssp             CCSCGGGSTTCCHHHHHHHHH
T ss_pred             CHHHHHHCCCCCHHHHHHHHH
T ss_conf             767772489999999999999


No 83 
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-binding, excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus}
Probab=20.90  E-value=39  Score=13.81  Aligned_cols=16  Identities=13%  Similarity=0.395  Sum_probs=7.6

Q ss_pred             HHHHHHHCCCHHHHHC
Q ss_conf             9999973799789850
Q 537021.9.peg.8   60 AKALLKRFATLGGVFG   75 (148)
Q Consensus        60 A~~lL~~fGsL~~ll~   75 (148)
                      |..|+.+|||+.+++.
T Consensus       247 A~kli~~~~sle~i~~  262 (346)
T 2izo_A          247 ALKIIKKYGKIEKAME  262 (346)
T ss_dssp             HHHHHHHSSCC-----
T ss_pred             HHHHHHHHCCHHHHHH
T ss_conf             9999999399999999


Done!