Query         gi|254780239|ref|YP_003064652.1| 30S ribosomal protein S13 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 122
No_of_seqs    126 out of 1448
Neff          6.1 
Searched_HMMs 33803
Date          Tue May 24 02:46:37 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780239.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 >3bbn_M Ribosomal protein S13; 100.0 6.2E-37 1.8E-41  250.3  -2.8  100    1-112    46-145 (145)
  2 >2zkq_m 40S ribosomal protein   99.8   3E-21 8.8E-26  153.0   2.1   73    1-73     12-87  (88)
  3 >2vqe_M 30S ribosomal protein   99.8   4E-20 1.2E-24  146.1   1.8   64    1-64      1-64  (64)
  4 >3i1m_M 30S ribosomal protein   99.7   3E-19   9E-24  140.6   1.8   62    1-62      1-62  (63)
  5 >2zbk_B Type 2 DNA topoisomera  99.5 5.8E-16 1.7E-20  120.2  -1.3   68    1-72     13-80  (82)
  6 >1mu5_A Type II DNA topoisomer  97.0 0.00055 1.6E-08   45.8   3.6   43   20-62     32-74  (82)
  7 >1k82_A Formamidopyrimidine-DN  96.8  0.0018 5.2E-08   42.7   4.5   51   11-61     21-74  (97)
  8 >1tdz_A Formamidopyrimidine-DN  96.6   0.003 8.9E-08   41.3   4.4   49   13-61     19-70  (136)
  9 >3a46_A Formamidopyrimidine-DN  96.3  0.0053 1.6E-07   39.8   4.5   50   12-61     11-64  (146)
 10 >3gpu_A DNA glycosylase; DNA g  96.3  0.0051 1.5E-07   39.8   4.4   51   12-62     23-76  (124)
 11 >1ee8_A MUTM (FPG) protein; be  96.2  0.0059 1.7E-07   39.5   4.3   51   11-61     22-75  (99)
 12 >1k3x_A Endonuclease VIII; hyd  96.2  0.0065 1.9E-07   39.2   4.3   52   11-62     25-79  (138)
 13 >1tdh_A NEI endonuclease VIII-  95.0   0.004 1.2E-07   40.5  -0.4   49   14-62      5-56  (209)
 14 >2i0z_A NAD(FAD)-utilizing deh  91.7    0.28 8.2E-06   29.1   4.5   49   11-61     18-66  (67)
 15 >3fut_A Dimethyladenosine tran  88.8    0.73 2.2E-05   26.5   4.6   48   14-62     19-66  (68)
 16 >2nrt_A Uvrabc system protein   84.8    0.54 1.6E-05   27.3   2.1   43   14-58      9-51  (64)
 17 >1kft_A UVRC, excinuclease ABC  79.3    0.87 2.6E-05   26.0   1.5   44   11-56     18-61  (78)
 18 >1s5l_U Photosystem II 12 kDa   79.1     2.4 7.2E-05   23.2   3.7   53    9-61      8-63  (87)
 19 >2vf7_A UVRA2, excinuclease AB  76.1     2.5 7.4E-05   23.2   3.1   36   26-61     21-56  (88)
 20 >2bgw_A XPF endonuclease; hydr  74.8     2.1 6.2E-05   23.6   2.4   38   15-54     12-49  (49)
 21 >2a1j_A DNA repair endonucleas  74.5     2.4 7.1E-05   23.3   2.7   39   17-57      4-42  (63)
 22 >1z00_A DNA excision repair pr  73.2     1.1 3.4E-05   25.3   0.8   50   14-63     16-74  (89)
 23 >3fyd_A Probable dimethyladeno  71.3    0.37 1.1E-05   28.3  -2.1   51   12-62     20-80  (85)
 24 >3doa_A Fibrinogen binding pro  71.2     1.4   4E-05   24.8   0.8   33   14-46     24-57  (70)
 25 >1x2i_A HEF helicase/nuclease;  70.2     1.8 5.4E-05   24.0   1.2   38   14-53     11-48  (49)
 26 >3ftd_A Dimethyladenosine tran  69.8     3.3 9.7E-05   22.4   2.5   38   25-62    209-246 (249)
 27 >1z00_B DNA repair endonucleas  68.4     3.9 0.00012   21.9   2.6   44   12-57     13-56  (71)
 28 >3c1y_A DNA integrity scanning  67.4     1.2 3.7E-05   25.0  -0.1   45   10-56      5-49  (74)
 29 >3bz1_U Photosystem II 12 kDa   66.4     7.9 0.00023   20.1   3.9   50   12-61     28-80  (104)
 30 >3fhf_A Mjogg, N-glycosylase/D  66.4     2.6 7.6E-05   23.1   1.4   25   16-40     87-111 (113)
 31 >2ztd_A Holliday junction ATP-  64.7     2.2 6.6E-05   23.5   0.8   25   15-39      7-31  (75)
 32 >2duy_A Competence protein com  63.1       7 0.00021   20.4   3.1   52   10-61     20-74  (75)
 33 >2r6f_A Excinuclease ABC subun  62.6       9 0.00027   19.7   3.6   36   25-60     23-58  (82)
 34 >3e1s_A Exodeoxyribonuclease V  61.3     1.3   4E-05   24.8  -0.9   30   14-43     41-70  (149)
 35 >3i0w_A 8-oxoguanine-DNA-glyco  60.8       3 8.9E-05   22.7   0.9   24   13-36     29-52  (58)
 36 >1cuk_A RUVA protein; DNA repa  60.6     3.6 0.00011   22.2   1.3   26   14-39      5-30  (79)
 37 >1kg2_A A/G-specific adenine g  56.7     3.2 9.4E-05   22.5   0.4   21   17-37     23-43  (139)
 38 >2edu_A Kinesin-like protein K  55.5       8 0.00024   20.0   2.3   44   18-61     41-91  (98)
 39 >1ngn_A Methyl-CPG binding pro  54.9       5 0.00015   21.3   1.2   21   17-37    104-124 (129)
 40 >1qyr_A KSGA, high level kasug  54.8      14  0.0004   18.6   3.4   35   28-62    216-250 (252)
 41 >1orn_A Endonuclease III; DNA   51.9     5.2 0.00015   21.2   0.9   23   14-36     83-105 (110)
 42 >1ixr_A Holliday junction DNA   51.8     1.3 3.9E-05   24.9  -2.2   28   12-39     67-94  (191)
 43 >1pzn_A RAD51, DNA repair and   51.2      12 0.00037   18.8   2.7   45   13-58     31-75  (95)
 44 >3fsp_A A/G-specific adenine g  50.5     5.3 0.00016   21.1   0.7   22   15-36     83-104 (110)
 45 >3bzc_A TEX; helix-turn-helix,  50.4      14 0.00041   18.6   2.8   46   16-61      9-61  (70)
 46 >3c65_A Uvrabc system protein   50.3     3.9 0.00011   22.0   0.0   41   14-56    170-210 (226)
 47 >1dgs_A DNA ligase; AMP comple  48.4      16 0.00047   18.2   2.9   36   21-56     19-54  (116)
 48 >2gqf_A Hypothetical protein H  48.2      22 0.00066   17.3   3.7   33   27-60     29-61  (61)
 49 >2h56_A DNA-3-methyladenine gl  48.1     7.2 0.00021   20.3   1.1   32   17-48     61-93  (156)
 50 >2ihm_A POL MU, DNA polymerase  46.8     7.2 0.00021   20.3   0.9   36   17-52     61-96  (129)
 51 >2abk_A Endonuclease III; DNA-  46.8     6.4 0.00019   20.6   0.7   22   15-36     85-106 (111)
 52 >2i5h_A Hypothetical protein A  45.5       4 0.00012   21.9  -0.5   43    7-49    122-164 (205)
 53 >2jhn_A ALKA, 3-methyladenine   44.8     7.4 0.00022   20.2   0.7   22   13-34     27-48  (55)
 54 >1m3q_A 8-oxoguanine DNA glyco  44.2       8 0.00024   20.0   0.9   20   17-36    108-127 (133)
 55 >1kea_A Possible G-T mismatche  44.1     7.7 0.00023   20.1   0.7   19   17-35     87-105 (111)
 56 >2aq4_A DNA repair protein REV  42.6      20 0.00059   17.6   2.7   41   18-61      3-45  (67)
 57 >1a76_A Flap endonuclease-1 pr  40.3      16 0.00046   18.2   1.8   21   19-39     18-38  (65)
 58 >1pu6_A 3-methyladenine DNA gl  40.3     9.6 0.00028   19.5   0.7   11   45-55     50-60  (123)
 59 >3fhg_A Mjogg, N-glycosylase/D  40.2      14 0.00041   18.5   1.6   22   19-40     46-67  (69)
 60 >1rxw_A Flap structure-specifi  39.4      18 0.00052   17.9   2.0   21   19-39     17-37  (68)
 61 >1jx4_A DNA polymerase IV (fam  38.8      31 0.00093   16.4   3.8   34   22-56      1-34  (55)
 62 >2izo_A FEN1, flap structure-s  37.8      14 0.00042   18.5   1.3   21   19-39     18-38  (82)
 63 >1exn_A 5'-exonuclease, 5'-nuc  36.8      20  0.0006   17.5   1.9   20   20-39     25-44  (80)
 64 >1mpg_A ALKA, 3-methyladenine   35.8      13 0.00039   18.7   0.9   17   18-34    104-120 (127)
 65 >1ul1_X Flap endonuclease-1; p  32.9      25 0.00073   17.0   1.9   21   19-39     31-51  (89)
 66 >2bcq_A DNA polymerase lambda;  31.9       8 0.00024   20.0  -0.8   43   17-60     57-99  (128)
 67 >3i3w_A Phosphoglucosamine mut  31.5      31  0.0009   16.4   2.2   34    7-40     13-46  (104)
 68 >2w9m_A Polymerase X; SAXS, DN  31.2     9.9 0.00029   19.4  -0.4   49   13-61     53-101 (118)
 69 >1qyi_A ZR25, hypothetical pro  30.0      42  0.0013   15.5   2.7   25   36-60     23-47  (194)
 70 >2eo2_A Adult MALE hypothalamu  29.0      37  0.0011   15.9   2.2   26   33-59     36-61  (71)
 71 >1vdd_A Recombination protein   28.8      24  0.0007   17.1   1.2   34   15-48     10-43  (66)
 72 >2get_A Pantothenate kinase; h  26.7      39  0.0012   15.8   2.0   82    8-89     84-183 (248)
 73 >1b22_A DNA repair protein RAD  25.7      31 0.00092   16.4   1.4   40   16-56     24-63  (114)
 74 >2ze6_A Isopentenyl transferas  25.5      52  0.0015   15.0   2.5   41   25-66     48-88  (128)
 75 >1u5t_A Appears to BE function  25.0      33 0.00096   16.3   1.4   16   46-61     22-37  (77)
 76 >2ftc_E Mitochondrial ribosoma  24.2      48  0.0014   15.2   2.1   53    7-62      9-64  (72)
 77 >1szp_A DNA repair protein RAD  24.0      51  0.0015   15.0   2.2   41   18-60     13-53  (56)
 78 >1b43_A Protein (FEN-1); nucle  22.3      60  0.0018   14.6   4.2   41   19-59     28-70  (77)
 79 >1t94_A Polymerase (DNA direct  20.7      39  0.0012   15.8   1.1   40   17-60     12-51  (70)
 80 >1i4w_A Mitochondrial replicat  20.6      65  0.0019   14.4   2.9   47   12-62     18-67  (88)
 81 >1dd3_A 50S ribosomal protein   20.3      41  0.0012   15.6   1.1   55    8-62      8-63  (71)

No 1  
>>3bbn_M Ribosomal protein S13; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Oryza sativa} (M:)
Probab=100.00  E-value=6.2e-37  Score=250.33  Aligned_cols=100  Identities=48%  Similarity=0.735  Sum_probs=93.6

Q ss_pred             CCEEECCCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH
Q ss_conf             94551675899857666431200717689999999808882120022798999999986124564333788999999999
Q gi|254780239|r    1 MARIAGVNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQDYQVEGDLRRTVAMNIKR   80 (122)
Q Consensus         1 mvrI~g~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~~~~i~~~L~~~~~~~i~r   80 (122)
                      ||||+|+|||++|+|.+|||+|||||+++|.+||+++||||+. +++|+++|+..|.+..           +.+++||+|
T Consensus        46 mvrI~gt~i~~~K~i~~ALt~IyGIG~~~A~~Ic~~lGi~~~k-~~~Lt~~qi~~l~~L~-----------r~v~~dI~R  113 (145)
T 3bbn_M           46 CIRIGGVEIPNHKRVEYSLQYIHGIGRSRSRQILLDLNFDNKV-TKDLSEEEVIILRKEK-----------RFNRVAIER  113 (145)
T ss_dssp             -CCCSSSCCCCSSBTTTGGGGSTTCCSSTTTGGGTTTTCCSCB-TTSCCSSTTHHHHSSC-----------CCCSTTTHH
T ss_pred             EEEEECCCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHH-HHHCCHHHHHHHHHHH-----------HHHHHHHHH
T ss_conf             8999586379997889986537550899999999986985454-6543588999989999-----------988999999


Q ss_pred             HHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCC
Q ss_conf             97303100123317987877077877657777
Q gi|254780239|r   81 LMDLGCYRGLRHRRGLPVRGQRTHTNARTRKK  112 (122)
Q Consensus        81 l~~i~syrG~RH~~gLpvRGQRT~tn~rt~k~  112 (122)
                      |++|+||||+||.+|||||||||||||||+|+
T Consensus       114 l~~I~sYRG~RH~~GLPVRGQRTrTNart~kg  145 (145)
T 3bbn_M          114 LKEIRCYRGIRHKLGLPVRGQRTKNNCRTLKG  145 (145)
T ss_dssp             HHCCCCSCCTTTTTTCCSSSCCTTTCCCSSCC
T ss_pred             HHHHCCEEEHHHCCCCCCCCCCCCCCCCCCCC
T ss_conf             87523101013306998787778777546788


No 2  
>>2zkq_m 40S ribosomal protein S18E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 1s1h_M (m:1-88)
Probab=99.81  E-value=3e-21  Score=153.03  Aligned_cols=73  Identities=23%  Similarity=0.342  Sum_probs=70.1

Q ss_pred             CCEEECCCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCCCCCCCHH---HHHH
Q ss_conf             945516758998576664312007176899999998088821200227989999999861245643337---8899
Q gi|254780239|r    1 MARIAGVNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQDYQVEGD---LRRT   73 (122)
Q Consensus         1 mvrI~g~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~~~~i~~~---L~~~   73 (122)
                      ||||+|+|||++|+|.+|||+|||||+++|.+||+++||||++++++||++|+++|+++|+++|.+|+|   |+|.
T Consensus        12 mvrI~g~~l~~~K~i~~ALt~I~GIG~~~A~~Ic~~lgi~~~~k~~~Lt~~qi~~l~~~i~~~~~~e~p~w~l~R~   87 (88)
T 2zkq_m           12 ILRVLNTNIDGRRKIAFAITAIKGVGRRYAHVVLRKADIDLTKRAGELTEDEVERVITIMQNPRQYKIPDWFLNRQ   87 (88)
T ss_dssp             -CCCSTTCCCCSSBHHHHGGGSTTCCHHHHHHHHHHHTCCTTSBTTTSCHHHHHHHHHHHHTTCSCCSCCCSSCSS
T ss_pred             HHHCCCCCCCCCCEEEEEHHCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHCC
T ss_conf             2421384189996873603024662899999999982999543336399999999999984000203637776151


No 3  
>>2vqe_M 30S ribosomal protein S13, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} (M:1-64)
Probab=99.78  E-value=4e-20  Score=146.06  Aligned_cols=64  Identities=48%  Similarity=0.756  Sum_probs=63.1

Q ss_pred             CCEEECCCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCCCC
Q ss_conf             9455167589985766643120071768999999980888212002279899999998612456
Q gi|254780239|r    1 MARIAGVNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQDY   64 (122)
Q Consensus         1 mvrI~g~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~~~   64 (122)
                      ||||+|+|||++|++.+|||+|||||+++|.+||+++||||++++++||++|+++|+++|+++|
T Consensus         1 MvrI~g~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgi~~~~k~~~Lt~~qi~~i~~~i~~~y   64 (64)
T 2vqe_M            1 MARIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRLREYVENTW   64 (64)
T ss_dssp             -CCCSTTCCCCSSBHHHHHTTSSSCCSHHHHHHTTTTTCCTTSBGGGCCHHHHHHHHHHHHTTS
T ss_pred             CCEECCCCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHCCC
T ss_conf             9716375589996888873306581899999999982998332215135999999999873165


No 4  
>>3i1m_M 30S ribosomal protein S13; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_M* 3e1a_F 3e1c_F 1vs5_M 3i1o_M 3i1q_M 3i1s_M 3i1z_M 3i21_M 2qal_M* 1p6g_M 1p87_M 2aw7_M 2avy_M 2i2u_M 2i2p_M* 2qan_M* 2qb9_M* 2qbb_M* 2qbd_M ... (M:1-63)
Probab=99.74  E-value=3e-19  Score=140.55  Aligned_cols=62  Identities=35%  Similarity=0.553  Sum_probs=61.0

Q ss_pred             CCEEECCCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             94551675899857666431200717689999999808882120022798999999986124
Q gi|254780239|r    1 MARIAGVNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus         1 mvrI~g~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      ||||+|+|||++|+|.+|||+|||||+++|.+||+++||||++++++||++|+++|+++|++
T Consensus         1 MvrI~g~~i~~~K~v~~aLt~i~GIG~~~A~~Ic~~~gi~~~~k~~~Lt~~qi~~l~~~i~~   62 (63)
T 3i1m_M            1 MARIAGINIPDHKHAVIALTSIYGVGKTRSKAILAAAGIAEDVKISELSEGQIDTLRDEVAK   62 (63)
T ss_dssp             -CCCSSSCCCCSSCHHHHGGGSTTCCHHHHHHHHTTTTCCSSCCSTTCCHHHHHHHHTTSSS
T ss_pred             CCEECCCCCCCCCEEEEEEECEECCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             97364632799968888753445738999999999919896423463569999999988752


No 5  
>>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} (B:229-310)
Probab=99.52  E-value=5.8e-16  Score=120.21  Aligned_cols=68  Identities=15%  Similarity=0.221  Sum_probs=62.4

Q ss_pred             CCEEECCCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCCCCCCCHHHHH
Q ss_conf             945516758998576664312007176899999998088821200227989999999861245643337889
Q gi|254780239|r    1 MARIAGVNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQDYQVEGDLRR   72 (122)
Q Consensus         1 mvrI~g~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~~~~i~~~L~~   72 (122)
                      |+||+++|++++|++.+||++|||||+++|.+||+.+||||++++++||++|+++|.+.+.    +|+||++
T Consensus        13 ~~ri~~~~~~~~k~i~~aLt~i~GIG~~~A~~I~~~~gi~~~~~~~~Lt~~qi~~L~~~~~----~e~~lrr   80 (82)
T 2zbk_B           13 IKILINNLKRDYTIKEFLVNEFQSIGDTTADKILELAGLKPNKKVKNLTEEEITRLVETFK----KDEDFRS   80 (82)
T ss_dssp             HHHHHTTCSSCCBHHHHHHTTSTTCCHHHHHHHHHHTTCCSSCBSSCCCHHHHHHHHHHHH----HCCCCCC
T ss_pred             HHHHHHCCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHCCCC----CEEEECC
T ss_conf             7887750232101334551576467608777666552366334723336788876411010----1111023


No 6  
>>1mu5_A Type II DNA topoisomerase VI subunit B; GHKL ATPase, helix two-turns helix; 2.00A {Sulfolobus shibatae} (A:230-311)
Probab=97.03  E-value=0.00055  Score=45.84  Aligned_cols=43  Identities=19%  Similarity=0.404  Sum_probs=39.5

Q ss_pred             EEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             1200717689999999808882120022798999999986124
Q gi|254780239|r   20 CYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        20 t~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      +.+-|||..+|..||..+||+|++++++|+++|+..|-+.+.+
T Consensus        32 ~~~~GiGn~~a~EiL~~agi~P~~~~~~Ls~~e~~~L~~~~~~   74 (82)
T 1mu5_A           32 NEFQSIGDTTADKILELAGLKPNKKVKNLTEEEITRLVETFKK   74 (82)
T ss_dssp             TSSSSCCHHHHHHHHHHTTCCTTSBGGGCCTTHHHHHHHHHHH
T ss_pred             HHHCCCCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             6515557689999999718996667565999999999999986


No 7  
>>1k82_A Formamidopyrimidine-DNA glycosylase; protein-DNA complex, DNA repair, beta sandwich, zinc finger, helix two-turns helix, hydrolase/DNA complex; HET: PED; 2.10A {Escherichia coli} (A:129-225)
Probab=96.79  E-value=0.0018  Score=42.72  Aligned_cols=51  Identities=18%  Similarity=0.224  Sum_probs=42.9

Q ss_pred             CCCEEEEEEE---EEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             9857666431---20071768999999980888212002279899999998612
Q gi|254780239|r   11 RAKRVVRALC---YIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        11 ~~K~i~~aLt---~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      .+++|.-+|-   .|-|||...|..||..++|+|+.++++||++|+..|-..+.
T Consensus        21 ~~~~ik~~LlDQ~~iaGiGNiyadEiLf~a~I~P~~~~~~Ls~~~~~~L~~~i~   74 (97)
T 1k82_A           21 KKTAIKPWLMDNKLVVGVGNIYASESLFAAGIHPDRLASSLSLAECELLARVIK   74 (97)
T ss_dssp             CCSBHHHHHTCTTTCSSCCHHHHHHHHHHHTCCTTSBGGGCCHHHHHHHHHHHH
T ss_pred             CCCCCCEEEECCCCCCCCCHHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHHHHH
T ss_conf             555541378517612667588999999873789778120199999999999999


No 8  
>>1tdz_A Formamidopyrimidine-DNA glycosylase; DNA repair, FPG, MUTM, FAPY G, hydrolase/DNA complex; HET: FOX; 1.80A {Lactococcus lactis} (A:137-272)
Probab=96.57  E-value=0.003  Score=41.28  Aligned_cols=49  Identities=24%  Similarity=0.382  Sum_probs=41.7

Q ss_pred             CEEEEEE---EEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             5766643---120071768999999980888212002279899999998612
Q gi|254780239|r   13 KRVVRAL---CYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        13 K~i~~aL---t~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      .+|.-+|   +.|-|||...+..||..++|+|..++++|+++|+..|-+.+-
T Consensus        19 ~~Ik~~LlDQ~~iaGIGNiy~~EiLf~A~IhP~~~~~~Ls~~~~~~L~~~~~   70 (136)
T 1tdz_A           19 KKIKPYLLEQTLVAGLGNIYVDEVLWLAKIHPEKETNQLIESSIHLLHDSII   70 (136)
T ss_dssp             SBHHHHHHTSSSSSCCCHHHHHHHHHHTTCCTTCBGGGCCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCEECCCCCEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             1100167505255056767255576564432533222020100466787763


No 9  
>>3a46_A Formamidopyrimidine-DNA glycosylase; helix two turns helix, zinc-LESS finger, hydrolase, THF, glycosidase, lyase, multifunctional enzyme; HET: DNA 3DR; 2.20A {Acanthamoeba polyphaga mimivirus} PDB: 3a45_A* 3a42_A (A:144-289)
Probab=96.33  E-value=0.0053  Score=39.78  Aligned_cols=50  Identities=22%  Similarity=0.284  Sum_probs=42.1

Q ss_pred             CCEEEEEE--EE-E-ECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             85766643--12-0-071768999999980888212002279899999998612
Q gi|254780239|r   12 AKRVVRAL--CY-I-HGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        12 ~K~i~~aL--t~-I-~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      +.+|.-+|  +. | -|||.-.+..||..++|+|..++.+|+++|+..|-+.+.
T Consensus        11 ~~~Ik~~LlDQ~~i~AGIGNiy~dEiLf~A~IhP~~~~~~Ls~~~~~~L~~~i~   64 (146)
T 3a46_A           11 KQPIVALLMDQKKIGSGLGNYLVAEILYRAKIDPHKLGSNLTDQEIENLWYWIK   64 (146)
T ss_dssp             CSBHHHHHHCSSSSCBCCCHHHHHHHHHHTTBCTTCBGGGCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCEECCCCHHHHHHHHHHHHCCCCCHHCCCCHHHHHHHHHHHH
T ss_conf             022346644367366485389999999975048334011099999999999999


No 10 
>>3gpu_A DNA glycosylase; DNA glycosylase, DNA repair, damage search, base extrusion; HET: DNA 8OG; 1.62A {Geobacillus stearothermophilus} PDB: 3gpx_A* 3gq3_A* 2f5n_A 2f5o_A 2f5p_A 3gp1_A* 3gq4_A* 3gpy_A* 3gq5_A* 3gpp_A* 2f5q_A* 2f5s_A* 1l1z_A* 1l1t_A* 1l2b_A* 1l2c_A* 1l2d_A* 1r2z_A* 1r2y_A* 3jr5_A* ... (A:133-256)
Probab=96.32  E-value=0.0051  Score=39.84  Aligned_cols=51  Identities=18%  Similarity=0.251  Sum_probs=42.6

Q ss_pred             CCEEEEEE---EEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             85766643---1200717689999999808882120022798999999986124
Q gi|254780239|r   12 AKRVVRAL---CYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        12 ~K~i~~aL---t~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      +++|.-+|   +-|-|||.-.|..||..++|+|..++.+|+++|+..|-+.+.+
T Consensus        23 ~~~Ik~~LlDQ~~iaGiGNiya~EiLf~a~ihP~~~~~~Ls~~~~~~L~~~i~~   76 (124)
T 3gpu_A           23 KRSVKALLLDCTVVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVA   76 (124)
T ss_dssp             CSBHHHHHHCTTTSTTCCHHHHHHHHHHHTCCTTSBGGGCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHEECCCEEEECCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             755678501075263034125788998816884775655546667678999999


No 11 
>>1ee8_A MUTM (FPG) protein; beta sandwich, zinc finger, helix two-turns helix, riken structural genomics/proteomics initiative, RSGI; 1.90A {Thermus thermophilus HB8} (A:121-219)
Probab=96.24  E-value=0.0059  Score=39.49  Aligned_cols=51  Identities=20%  Similarity=0.277  Sum_probs=42.7

Q ss_pred             CCCEEEEEE---EEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             985766643---120071768999999980888212002279899999998612
Q gi|254780239|r   11 RAKRVVRAL---CYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        11 ~~K~i~~aL---t~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      .+.+|.-+|   +-|-|||.-+|..||..++|+|..++.+|+++|+..|-+.+.
T Consensus        22 ~~~~Ik~~LlDQ~viaGiGNiya~EiLf~a~I~P~~~~~~Ls~~~~~~L~~~i~   75 (99)
T 1ee8_A           22 SARPLKALLLDQRLAAGVGNIYADEALFRARLSPFRPARSLTEEEARRLYRALR   75 (99)
T ss_dssp             CCSBHHHHHHHSSSSTTCCHHHHHHHHHHTTCCSSSBGGGCCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHCCCEECCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             875288986158813156698999999974899778822189999999999999


No 12 
>>1k3x_A Endonuclease VIII; hydrolase/DNA; HET: BRU PED; 1.25A {Escherichia coli} (A:125-262)
Probab=96.19  E-value=0.0065  Score=39.20  Aligned_cols=52  Identities=13%  Similarity=0.307  Sum_probs=44.9

Q ss_pred             CCCEEEEEE---EEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             985766643---1200717689999999808882120022798999999986124
Q gi|254780239|r   11 RAKRVVRAL---CYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        11 ~~K~i~~aL---t~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      .+.+|.-+|   +-|-|||.-.|..|+..++|+|..++.+||++|+..|-+.+..
T Consensus        25 ~~~~ik~~LlDQ~~iaGiGNiy~dEiLf~a~ihP~~~~~~Ls~~~~~~L~~~i~~   79 (138)
T 1k3x_A           25 RNRQFAGLLLDQAFLAGLGNYLRVEILWQVGLTGNHKAKDLNAAQLDALAHALLE   79 (138)
T ss_dssp             TTSCHHHHTTCTTTSBTCCHHHHHHHHHHHTCCSSCCGGGSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCEEHEHHHHHHHHHHHHHHH
T ss_conf             0268999984277434656899999998600487661010027789999999999


No 13 
>>1tdh_A NEI endonuclease VIII-like 1; helix two turns helix, zinc-LESS finger, hydrolase; 2.10A {Homo sapiens} (A:156-364)
Probab=94.99  E-value=0.004  Score=40.51  Aligned_cols=49  Identities=22%  Similarity=0.328  Sum_probs=41.3

Q ss_pred             EEEEEE---EEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             766643---1200717689999999808882120022798999999986124
Q gi|254780239|r   14 RVVRAL---CYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        14 ~i~~aL---t~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      +|.-+|   +.|-|||...+..||..++|+|..++.+|+++|+..|-..|..
T Consensus         5 pIk~~LLDQ~~iaGIGN~~~dEILf~A~IhP~~~~~~L~~~~~~~L~~~i~~   56 (209)
T 1tdh_A            5 PICEALLDQRFFNGIGNYLRAEILYRLKIPPFEKARSVLEALQQHRPSPELT   56 (209)
T ss_dssp             BHHHHTTCTTTSTTCCHHHHHHHHHHHTCCTTSBHHHHHGGGC-----CCSC
T ss_pred             CHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCH
T ss_conf             2889984477015664348999999828996663123457664134421000


No 14 
>>2i0z_A NAD(FAD)-utilizing dehydrogenases; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; HET: FAD; 1.84A {Bacillus cereus} (A:302-368)
Probab=91.75  E-value=0.28  Score=29.10  Aligned_cols=49  Identities=10%  Similarity=0.022  Sum_probs=39.0

Q ss_pred             CCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             985766643120071768999999980888212002279899999998612
Q gi|254780239|r   11 RAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        11 ~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      ++|.+.-+|.  ..+-.+.+..+|..+|||+++++++||..++..|...+.
T Consensus        18 ~~k~i~n~l~--~~lP~rL~~~ll~~~gI~~~~~~~~ls~~~~~~L~~~lK   66 (67)
T 2i0z_A           18 PKKGIKNVLK--GYVPERYFLFLLEKNEIDGSEQAGQVSHEKIRALVKDFK   66 (67)
T ss_dssp             TTSBHHHHTT--TSSCHHHHHHHHHHTTCCTTSBGGGSCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHH--HHHHHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHH
T ss_conf             1001222221--000245689998750332011231078999999999875


No 15 
>>3fut_A Dimethyladenosine transferase; methyltransferase, dimethyltransferase, dual-specific methyltransferase, 16S rRNA methyltransferase; 1.52A {Thermus thermophilus HB8} PDB: 3fuu_A* 3fuv_A 3fuw_A* 3fux_A* (A:204-271)
Probab=88.77  E-value=0.73  Score=26.49  Aligned_cols=48  Identities=21%  Similarity=0.346  Sum_probs=37.2

Q ss_pred             EEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             7666431200717689999999808882120022798999999986124
Q gi|254780239|r   14 RVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      .+.-+|..+ +.+...+..++..+||||+.+..+||.+|...|.+.+++
T Consensus        19 ~L~n~L~~~-~~~k~~~~~~l~~~~i~~~~R~E~Ls~~~f~~L~~~l~~   66 (68)
T 3fut_A           19 TLLNALAAA-GYPKARVEEALRALGLPPRVRAEELDLEAFRRLREGLEG   66 (68)
T ss_dssp             CHHHHHHHT-TCCHHHHHHHHHHTTCCTTCCGGGCCHHHHHHHHHHHC-
T ss_pred             HHHHHHHHH-CCCHHHHHHHHHHCCCCCCCCHHHCCHHHHHHHHHHHHC
T ss_conf             999998763-588889999999869695549254999999999999865


No 16 
>>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A (A:157-220)
Probab=84.78  E-value=0.54  Score=27.29  Aligned_cols=43  Identities=12%  Similarity=0.190  Sum_probs=36.3

Q ss_pred             EEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHH
Q ss_conf             766643120071768999999980888212002279899999998
Q gi|254780239|r   14 RVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQ   58 (122)
Q Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~   58 (122)
                      .+.++|+.|.|||+.+|..+++..|  .-..+.+-|.+|+.++..
T Consensus         9 ~~~~~L~~I~gIG~~~a~~L~~~F~--s~~~i~~As~eeL~~v~g   51 (64)
T 2nrt_A            9 SLRSVLDNVPGIGPIRKKKLIEHFG--SLENIRSASLEEIARVIG   51 (64)
T ss_dssp             HHHHHHTTSTTCCHHHHHHHHHHHC--SHHHHHTSCHHHHHHHHT
T ss_pred             HHCCHHHCCCCCCHHHHHHHHHHCC--CHHHHHCCCHHHHHHCCC
T ss_conf             2015222053107999999999868--999997099999986879


No 17 
>>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} (A:)
Probab=79.35  E-value=0.87  Score=26.02  Aligned_cols=44  Identities=16%  Similarity=0.172  Sum_probs=31.8

Q ss_pred             CCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHH
Q ss_conf             9857666431200717689999999808882120022798999999
Q gi|254780239|r   11 RAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQI   56 (122)
Q Consensus        11 ~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l   56 (122)
                      +...+.++|+.|.|||+.+|..++...|=  -..+.+-+.+++.++
T Consensus        18 ~~~~~~~~L~~I~gIG~~~a~~L~~~Fgs--~~~i~~As~eeL~~v   61 (78)
T 1kft_A           18 GSHMNTSSLETIEGVGPKRRQMLLKYMGG--LQGLRNASVEEIAKV   61 (78)
T ss_dssp             -----CCGGGGCTTCSSSHHHHHHHHHSC--HHHHHHCCHHHHTTS
T ss_pred             CCCCCCCCCCCCCCCCHHHHHHHHHHCCC--HHHHHHCCHHHHHHC
T ss_conf             41203284656999479999999999099--899985789999738


No 18 
>>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis, oxygen-evolving, tetra- manganese, membrane; HET: CL1 PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus elongatus} (U:48-134)
Probab=79.07  E-value=2.4  Score=23.24  Aligned_cols=53  Identities=15%  Similarity=0.130  Sum_probs=41.9

Q ss_pred             CCCCCEEEEEEEEEECCCHHHHHHHHHHCCC---CHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             8998576664312007176899999998088---8212002279899999998612
Q gi|254780239|r    9 IPRAKRVVRALCYIHGIGFKSSQDICNKLAI---PPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus         9 i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgI---d~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      ++=|.--..-|..+-|||+..|..|+..=++   +.-.++..+++..++.|..++.
T Consensus         8 vdiN~A~~~~L~~ipGig~~~A~~Iv~~g~f~s~~dL~~v~gi~~~~~~~i~~~l~   63 (87)
T 1s5l_U            8 IDLNNTNIAAFIQYRGLYPTLAKLIVKNAPYESVEDVLNIPGLTERQKQILRENLE   63 (87)
T ss_dssp             EETTTSCGGGGGGSTTCTHHHHHHHHHTCCCSSGGGGGGCTTCCHHHHHHHHHHHT
T ss_pred             EECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHCCCCCCHHHHHHHHHHHC
T ss_conf             41640789999771034699999999827848799996177579999999998653


No 19 
>>2vf7_A UVRA2, excinuclease ABC, subunit A.; DNA-binding protein, nucleotide-binding, zinc-binding domain, SOS response, metal-binding; HET: ADP; 2.30A {Deinococcus radiodurans} PDB: 2vf8_A* (A:169-256)
Probab=76.10  E-value=2.5  Score=23.18  Aligned_cols=36  Identities=25%  Similarity=0.138  Sum_probs=29.3

Q ss_pred             CHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             768999999980888212002279899999998612
Q gi|254780239|r   26 GFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        26 G~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      ....-.++|..+|+|.++...+|++++.+.|-.=-+
T Consensus        21 ~~~~l~~~a~~~g~dld~P~~dL~~~~~~~ll~G~~   56 (88)
T 2vf7_A           21 GGQNQRDILVTLGIDVDVPWRELPEETRHWILFTDE   56 (88)
T ss_dssp             HHHHHHHHHHHTTCCSSSBGGGSCHHHHHHHHHCCC
T ss_pred             CHHHHHHHHHHCCCCCCCCHHHCCHHHHHHHHHCCC
T ss_conf             089999999974998676632356998889870688


No 20 
>>2bgw_A XPF endonuclease; hydrolase, structure specific endonuclease, nucleotide excision repair; 2.8A {Aeropyrum pernix} (A:149-197)
Probab=74.77  E-value=2.1  Score=23.63  Aligned_cols=38  Identities=18%  Similarity=0.302  Sum_probs=31.2

Q ss_pred             EEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHH
Q ss_conf             6664312007176899999998088821200227989999
Q gi|254780239|r   15 VVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVI   54 (122)
Q Consensus        15 i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~   54 (122)
                      ....|..|-|||+.++..++...|  .-..+..-|.+|+.
T Consensus        12 ~~s~L~~IpGIG~k~~~~LL~~Fg--Si~~i~~As~eeLa   49 (49)
T 2bgw_A           12 QLYILQSFPGIGRRTAERILERFG--SLERFFTASKAEIS   49 (49)
T ss_dssp             HHHHHHTSTTCCHHHHHHHHHHHS--SHHHHTTCCHHHHH
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHCC--CHHHHHHCCHHHHH
T ss_conf             888885356899789999999869--99999858999996


No 21 
>>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} (A:)
Probab=74.54  E-value=2.4  Score=23.28  Aligned_cols=39  Identities=15%  Similarity=0.235  Sum_probs=32.3

Q ss_pred             EEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHH
Q ss_conf             64312007176899999998088821200227989999999
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIR   57 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~   57 (122)
                      ..|..|-|||+..|..++...|  .=..+.+.+.+++.++.
T Consensus         4 s~L~~IpgVG~~~a~~Ll~~f~--Si~~i~~As~eeL~~i~   42 (63)
T 2a1j_A            4 DFLLKMPGVNAKNCRSLMHHVK--NIAELAALSQDELTSIL   42 (63)
T ss_dssp             HHHHTSTTCCHHHHHHHHHHCS--SHHHHHTCCHHHHHHHH
T ss_pred             HHHHCCCCCCHHHHHHHHHHHC--CHHHHHHCCHHHHHHCC
T ss_conf             8885199989999999999807--89999869999997785


No 22 
>>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} (A:)
Probab=73.15  E-value=1.1  Score=25.27  Aligned_cols=50  Identities=12%  Similarity=0.121  Sum_probs=33.5

Q ss_pred             EEEEEEEEEECCCHHHHHHHHHHCCCC---------HHHHHCCCCHHHHHHHHHHHCCC
Q ss_conf             766643120071768999999980888---------21200227989999999861245
Q gi|254780239|r   14 RVVRALCYIHGIGFKSSQDICNKLAIP---------PERRVHQLVESEVIQIRQAIEQD   63 (122)
Q Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~~lgId---------~~~kv~~Lt~~qi~~l~~~I~~~   63 (122)
                      .+.++|+.|.|||+..|..++...|=-         .=..+..+.+....+|.+++..+
T Consensus        16 ~~l~~L~~I~gIG~~~a~~L~~~F~s~~~i~~A~~~~L~~v~GiG~~~A~~i~~~~~~~   74 (89)
T 1z00_A           16 RVTECLTTVKSVNKTDSQTLLTTFGSLEQLIAASREDLALCPGLGPQKARRLFDVLHEP   74 (89)
T ss_dssp             HHHHHHTTSSSCCHHHHHHHHHHTCBHHHHHHCCHHHHHTSTTCCHHHHHHHHHHHHSC
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHCHHCCCCHHHHHHHHHHHHCH
T ss_conf             99998658997699999999999099478766547510000332799999999998183


No 23 
>>3fyd_A Probable dimethyladenosine transferase; rossman fold, rRNA methylase, ribosomal assembly, methyltransferase, RNA-binding; 1.75A {Methanocaldococcus jannaschii} PDB: 3fyc_A* (A:179-263)
Probab=71.30  E-value=0.37  Score=28.32  Aligned_cols=51  Identities=12%  Similarity=0.118  Sum_probs=37.6

Q ss_pred             CCEEEEEEEEEECCC----------HHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             857666431200717----------689999999808882120022798999999986124
Q gi|254780239|r   12 AKRVVRALCYIHGIG----------FKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        12 ~K~i~~aLt~I~GIG----------~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      .|.+.-+|...++..          .......+..+||||+.+..+||.+|+..|.+.+.+
T Consensus        20 RKtLrn~L~~~~~~~~~~~~~~~~~~~~~~~~l~~~gid~~~R~E~Ls~~ef~~La~~l~~   80 (85)
T 3fyd_A           20 NKSVRKALIDSSKELNYNKDEMKKILEDFLNTNSEIKNLINEKVFKLSVKDIVNLSNEFYR   80 (85)
T ss_dssp             TSBHHHHHHHTGGGGTCCHHHHHHHHHHHHTSCHHHHHHHHSBGGGSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCHHHCCHHHHHHHHHHHHH
T ss_conf             1679999886644406788999999985358544565553016554999999999999999


No 24 
>>3doa_A Fibrinogen binding protein; structural genomics, MCSG., PSI-2, protein structure initiative, midwest center for structural genomics; 2.81A {Staphylococcus aureus subsp} (A:166-235)
Probab=71.24  E-value=1.4  Score=24.80  Aligned_cols=33  Identities=9%  Similarity=0.179  Sum_probs=26.2

Q ss_pred             EEEEEE-EEEECCCHHHHHHHHHHCCCCHHHHHC
Q ss_conf             766643-120071768999999980888212002
Q gi|254780239|r   14 RVVRAL-CYIHGIGFKSSQDICNKLAIPPERRVH   46 (122)
Q Consensus        14 ~i~~aL-t~I~GIG~~~A~~Ic~~lgId~~~kv~   46 (122)
                      ++.-|| +.+-||++-.|..||..+|+|.+..+-
T Consensus        24 ~i~Kal~~~f~GiSPliA~EI~~RAgld~~~~L~   57 (70)
T 3doa_A           24 NIAKQLLNQFEGFSPLITNEIVSRRQFMTSSTLP   57 (70)
T ss_dssp             CHHHHHHHHBTTCCHHHHHHHHTTSSSCSTTHHH
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCHHH
T ss_conf             1999999873898989999999973999622499


No 25 
>>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} (A:1-49)
Probab=70.20  E-value=1.8  Score=24.04  Aligned_cols=38  Identities=11%  Similarity=0.065  Sum_probs=28.9

Q ss_pred             EEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHH
Q ss_conf             7666431200717689999999808882120022798999
Q gi|254780239|r   14 RVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEV   53 (122)
Q Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi   53 (122)
                      .+.++|..|-|||+.+|..++...|=  -..+..-+.+|+
T Consensus        11 ~~~~~L~~I~gVG~~~ak~Ll~~Fgs--i~~i~~As~eeL   48 (49)
T 1x2i_A           11 RQRLIVEGLPHVSATLARRLLKHFGS--VERVFTASVAEL   48 (49)
T ss_dssp             HHHHHHTTSTTCCHHHHHHHHHHHCS--HHHHHHCCHHHH
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHCCH--HHHHHHCCHHHH
T ss_conf             99999858999789999999997062--888862679888


No 26 
>>3ftd_A Dimethyladenosine transferase; KSGA, rossmann-like fold, RNA methyltransferase, mtase, antibiotic resistance, methyltransferase; 1.44A {Aquifex aeolicus VF5} PDB: 3ftc_A 3fte_A 3ftf_A* (A:)
Probab=69.82  E-value=3.3  Score=22.43  Aligned_cols=38  Identities=24%  Similarity=0.412  Sum_probs=32.3

Q ss_pred             CCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             17689999999808882120022798999999986124
Q gi|254780239|r   25 IGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        25 IG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      +-......++..+||+++.++.+||.+|+-.|-+.+.+
T Consensus       209 l~~~l~~~~~~~~~i~~~~R~~~l~~~~~~~L~~~~~~  246 (249)
T 3ftd_A          209 LRKKIPEELLKEAGINPDARVEQLSLEDFFKLYRLIED  246 (249)
T ss_dssp             GGGTSCHHHHHHTTCCTTCCGGGCCHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCCCCCCHHHCCHHHHHHHHHHHHH
T ss_conf             77878999999869598789367999999999999997


No 27 
>>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} (B:1-71)
Probab=68.35  E-value=3.9  Score=21.94  Aligned_cols=44  Identities=14%  Similarity=0.169  Sum_probs=33.9

Q ss_pred             CCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHH
Q ss_conf             8576664312007176899999998088821200227989999999
Q gi|254780239|r   12 AKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIR   57 (122)
Q Consensus        12 ~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~   57 (122)
                      +......|..|-|||+..+..++...|  .-..+.+.|.+|+..+.
T Consensus        13 ~~~~~~~L~~ipGIg~k~~~~Ll~~f~--si~~i~~As~eeL~~v~   56 (71)
T 1z00_B           13 NPGPQDFLLKMPGVNAKNCRSLMHHVK--NIAELAALSQDELTSIL   56 (71)
T ss_dssp             CHHHHHHHHTCSSCCHHHHHHHHHHSS--CHHHHHHSCHHHHHHHH
T ss_pred             CCHHHHHHHCCCCCCHHHHHHHHHHCC--CHHHHHHCCHHHHHHCC
T ss_conf             204999998089988999999999907--99999878999998875


No 28 
>>3c1y_A DNA integrity scanning protein DISA; DNA damage, DNA repair, DNA-binding, DNA binding protein; HET: DNA 2BA; 2.10A {Thermotoga maritima} PDB: 3c1z_A* 3c21_A* 3c23_A* (A:304-377)
Probab=67.36  E-value=1.2  Score=25.05  Aligned_cols=45  Identities=9%  Similarity=0.101  Sum_probs=32.0

Q ss_pred             CCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHH
Q ss_conf             99857666431200717689999999808882120022798999999
Q gi|254780239|r   10 PRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQI   56 (122)
Q Consensus        10 ~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l   56 (122)
                      ..+......|+.|.|||+..|..++...|=  -..+-+-+.+++..+
T Consensus         5 ~k~~~~~~~L~~I~giG~~~a~~L~~~fgs--l~~i~~as~~~L~~v   49 (74)
T 3c1y_A            5 LVSARGYRLLKTVARIPLSIGYNVVRMFKT--LDQISKASVEDLKKV   49 (74)
T ss_dssp             BCCCCSHHHHHHTSCCCHHHHHHHHHHHCS--HHHHTTCCHHHHTTS
T ss_pred             CCCCHHHHHHHCCCCCCHHHHHHHHHHHCC--HHHHHHCCHHHHHHC
T ss_conf             557316888733999989999999998538--999985799888544


No 29 
>>3bz1_U Photosystem II 12 kDa extrinsic protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 2axt_U* 3bz2_U* 3a0b_U* 3a0h_U* (U:)
Probab=66.42  E-value=7.9  Score=20.06  Aligned_cols=50  Identities=14%  Similarity=0.137  Sum_probs=40.3

Q ss_pred             CCEEEEEEEEEECCCHHHHHHHHHHCCCCHH---HHHCCCCHHHHHHHHHHHC
Q ss_conf             8576664312007176899999998088821---2002279899999998612
Q gi|254780239|r   12 AKRVVRALCYIHGIGFKSSQDICNKLAIPPE---RRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        12 ~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~---~kv~~Lt~~qi~~l~~~I~   61 (122)
                      |.--.--|..+-|||+..|..|++.=++..-   ..+..+++..++.|..++.
T Consensus        28 N~As~~~L~~ipGig~~~A~~Iv~~gpf~s~~dL~~v~gi~~~~~~~i~~~l~   80 (104)
T 3bz1_U           28 NNTNIAAFIQYRGLYPTLAKLIVKNAPYESVEDVLNIPGLTERQKQILRENLE   80 (104)
T ss_dssp             TSSCGGGGGGSTTTTHHHHHHHHHSCCCSSGGGGGGCTTCCHHHHHHHHHHGG
T ss_pred             CCCCHHHHHHCCCCCHHHHHHHHHCCCCCCHHHHHCCCCCCHHHHHHHHHHHC
T ss_conf             22899999777586999999999708978799996179989999999998761


No 30 
>>3fhf_A Mjogg, N-glycosylase/DNA lyase, DNA-; helix-hairpin-helix, 8-oxoguanine, 8-OXOG, DNA damage, DNA repair, glycosidase, hydrolase; 2.00A {Methanocaldococcus jannaschii} (A:38-150)
Probab=66.35  E-value=2.6  Score=23.09  Aligned_cols=25  Identities=20%  Similarity=0.340  Sum_probs=18.5

Q ss_pred             EEEEEEEECCCHHHHHHHHHHCCCC
Q ss_conf             6643120071768999999980888
Q gi|254780239|r   16 VRALCYIHGIGFKSSQDICNKLAIP   40 (122)
Q Consensus        16 ~~aLt~I~GIG~~~A~~Ic~~lgId   40 (122)
                      .-.|++|.|||+.+|..++.-+|.+
T Consensus        87 ~~~L~~l~GIG~~tA~~~l~f~~~~  111 (113)
T 3fhf_A           87 EFLVRNIKGIGYKEASHFLRNVGYD  111 (113)
T ss_dssp             HHHHHHSTTCCHHHHHHHHHHTTCC
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHCCC
T ss_conf             9999878583299999999996799


No 31 
>>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA; recombination, branch migration, DNA binding, oligomerization, acidic PIN; 2.40A {Mycobacterium tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A (A:80-154)
Probab=64.71  E-value=2.2  Score=23.45  Aligned_cols=25  Identities=12%  Similarity=0.127  Sum_probs=19.6

Q ss_pred             EEEEEEEEECCCHHHHHHHHHHCCC
Q ss_conf             6664312007176899999998088
Q gi|254780239|r   15 VVRALCYIHGIGFKSSQDICNKLAI   39 (122)
Q Consensus        15 i~~aLt~I~GIG~~~A~~Ic~~lgI   39 (122)
                      ++.-|..|.|||+++|..|+..++.
T Consensus         7 ~F~~L~~V~GIGpk~Al~iLs~~~~   31 (75)
T 2ztd_A            7 LFLTLLSVSGVGPRLAMAALAVHDA   31 (75)
T ss_dssp             HHHHHHTSTTCCHHHHHHHHHHSCH
T ss_pred             HHHHHHCCCCCCHHHHHHHHCCCCH
T ss_conf             9999854132236666232215776


No 32 
>>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus HB8} (A:)
Probab=63.08  E-value=7  Score=20.38  Aligned_cols=52  Identities=13%  Similarity=0.165  Sum_probs=40.2

Q ss_pred             CCCCEEEEEEEEEECCCHHHHHHHHHHCCCC---HHHHHCCCCHHHHHHHHHHHC
Q ss_conf             9985766643120071768999999980888---212002279899999998612
Q gi|254780239|r   10 PRAKRVVRALCYIHGIGFKSSQDICNKLAIP---PERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        10 ~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId---~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      +=|.--.-.|..+.|||+..|..|.+.=-+.   .-..+..|++..+++|..+|.
T Consensus        20 diNtA~~~~L~~lpGig~~~A~~Ii~~R~f~s~~dL~~v~gl~~~~~~~l~~~ir   74 (75)
T 2duy_A           20 SLNEASLEELXALPGIGPVLARRIVEGRPYARVEDLLKVKGIGPATLERLRPYLR   74 (75)
T ss_dssp             ETTTCCHHHHTTSTTCCHHHHHHHHHTCCCSSGGGGGGSTTCCHHHHHHHGGGEE
T ss_pred             ECCCCCHHHHHHCCCCCHHHHHHHHHCCCCCCHHHHHHCCCCCHHHHHHHHHHCC
T ss_conf             0612879999777898999999999868989899996188989999999986618


No 33 
>>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, ATP-binding cassette, cytoplasm; HET: ADP; 3.20A {Geobacillus stearothermophilus 10} (A:312-393)
Probab=62.65  E-value=9  Score=19.71  Aligned_cols=36  Identities=17%  Similarity=0.243  Sum_probs=29.2

Q ss_pred             CCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             176899999998088821200227989999999861
Q gi|254780239|r   25 IGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAI   60 (122)
Q Consensus        25 IG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I   60 (122)
                      --...-.++|+..|+|.++...+|++++.+.|-.=-
T Consensus        23 ~~~~~l~~~a~~~g~~l~~P~~~L~~~~~~~iLyG~   58 (82)
T 2r6f_A           23 YYPQLLEAVCRHYGIPXDVPVKDLPKEQLDKILYGS   58 (82)
T ss_dssp             CHHHHHHHHHHHHCCCSSCBGGGSCHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHCCCCCCCCHHHCCHHHHHHHHCCC
T ss_conf             577889999998599867762337699999997089


No 34 
>>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, hydrolase; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A* (A:1-149)
Probab=61.28  E-value=1.3  Score=24.83  Aligned_cols=30  Identities=17%  Similarity=0.287  Sum_probs=26.1

Q ss_pred             EEEEEEEEEECCCHHHHHHHHHHCCCCHHH
Q ss_conf             766643120071768999999980888212
Q gi|254780239|r   14 RVVRALCYIHGIGFKSSQDICNKLAIPPER   43 (122)
Q Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~   43 (122)
                      .=+|-|..|.|||+.+|..|..++|++++.
T Consensus        41 ~nPY~L~~i~gigF~~aD~iA~~~gi~~dd   70 (149)
T 3e1s_A           41 KDLFTLTEVEGIGFLTADKLWQARGGALDD   70 (149)
T ss_dssp             ---CGGGTSSSCCHHHHHTTC-------CC
T ss_pred             HCCCEEEECCCCCHHHHHHHHHHCCCCCCC
T ss_conf             499355415899959999999976989899


No 35 
>>3i0w_A 8-oxoguanine-DNA-glycosylase; OGG, cacogg, DNA, 8-OXOG, 8OXOG, glycosylase, cytosine, hydrolase,lyase/DNA complex; HET: 8OG; 1.73A {Clostridium acetobutylicum} PDB: 3i0x_A* 3f10_A* 3f0z_A (A:111-127,A:196-236)
Probab=60.83  E-value=3  Score=22.68  Aligned_cols=24  Identities=17%  Similarity=0.099  Sum_probs=18.5

Q ss_pred             CEEEEEEEEEECCCHHHHHHHHHH
Q ss_conf             576664312007176899999998
Q gi|254780239|r   13 KRVVRALCYIHGIGFKSSQDICNK   36 (122)
Q Consensus        13 K~i~~aLt~I~GIG~~~A~~Ic~~   36 (122)
                      ..+.-.|+.|.|||+.+|..+|--
T Consensus        29 eea~~~L~~i~GIGpwTAdciLLF   52 (58)
T 3i0w_A           29 NECHEELKKFMGVGPQVADCIMLF   52 (58)
T ss_dssp             HHHHHHHTTSTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             467899982688129999999998


No 36 
>>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA recombination, helicase; 1.90A {Escherichia coli} (A:66-144)
Probab=60.57  E-value=3.6  Score=22.15  Aligned_cols=26  Identities=19%  Similarity=0.309  Sum_probs=20.5

Q ss_pred             EEEEEEEEEECCCHHHHHHHHHHCCC
Q ss_conf             76664312007176899999998088
Q gi|254780239|r   14 RVVRALCYIHGIGFKSSQDICNKLAI   39 (122)
Q Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~~lgI   39 (122)
                      .++.-|..|.|||+++|..|+..++.
T Consensus         5 ~~F~~L~~V~GIGpk~Al~iLs~~~~   30 (79)
T 1cuk_A            5 TLFKELIKTNGVGPKLALAILSGMSA   30 (79)
T ss_dssp             HHHHHHHHSSSCCHHHHHHHHHHSCH
T ss_pred             HHHHHHHCCCCCCHHHHHHHHCCCCH
T ss_conf             99998734788489999999757999


No 37 
>>1kg2_A A/G-specific adenine glycosylase; DNA repair, hydrolase; 1.20A {Escherichia coli} (A:1-23,A:110-225)
Probab=56.69  E-value=3.2  Score=22.51  Aligned_cols=21  Identities=14%  Similarity=0.233  Sum_probs=18.6

Q ss_pred             EEEEEEECCCHHHHHHHHHHC
Q ss_conf             643120071768999999980
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNKL   37 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~l   37 (122)
                      -+|..+.|||+.+|..||.-.
T Consensus        23 ~eL~~LpGIG~ktAd~Illfa   43 (139)
T 1kg2_A           23 PEVAALPGVGRSTAGAILSLS   43 (139)
T ss_dssp             GHHHTSTTCCHHHHHHHHHHH
T ss_pred             CHHHCCCCCCHHHHHHHHHHH
T ss_conf             998628987278999999984


No 38 
>>2edu_A Kinesin-like protein KIF22; kinesin-like DNA binding domain, helix turn helix motif, structural genomics, NPPSFA; NMR {Homo sapiens} (A:)
Probab=55.47  E-value=8  Score=20.04  Aligned_cols=44  Identities=20%  Similarity=0.139  Sum_probs=35.0

Q ss_pred             EEEEEECCCHHHHHHHHHHC-------CCCHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             43120071768999999980-------888212002279899999998612
Q gi|254780239|r   18 ALCYIHGIGFKSSQDICNKL-------AIPPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        18 aLt~I~GIG~~~A~~Ic~~l-------gId~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      .|..+.|||+..|..|...=       .++.-..+..+++..++.|..++.
T Consensus        41 eL~~lpgig~~~A~~Ii~~R~~~G~f~siedL~~v~gi~~~~~~~l~~~~~   91 (98)
T 2edu_A           41 DLRSLQRIGPKKAQLIVGWRELHGPFSQVEDLERVEGITGKQMESFLKANI   91 (98)
T ss_dssp             HHHHSTTCCHHHHHHHHHHHHHHCCCSSGGGGGGSTTCCHHHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHCCCCCCHHHHHHHHHHCC
T ss_conf             997578989999999999999858958899982588989999999998283


No 39 
>>1ngn_A Methyl-CPG binding protein MBD4; mismacth repair in methylated DNA, DNA binding protein; 2.10A {Mus musculus} (A:1-129)
Probab=54.86  E-value=5  Score=21.29  Aligned_cols=21  Identities=24%  Similarity=0.148  Sum_probs=15.8

Q ss_pred             EEEEEEECCCHHHHHHHHHHC
Q ss_conf             643120071768999999980
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNKL   37 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~l   37 (122)
                      -.|+.+.|||+.+|..|+-..
T Consensus       104 ~~L~~l~GIG~~tA~~vll~~  124 (129)
T 1ngn_A          104 RYPIELHGIGKYGNDSYRIFC  124 (129)
T ss_dssp             SSGGGSTTCCHHHHHHHHHHT
T ss_pred             HHHHHCCCCCHHHHHHHHHHH
T ss_conf             665627996689999999997


No 40 
>>1qyr_A KSGA, high level kasugamycin resistance protein, S-; adenosine dimethyltransferase, rRNA modification, transferase, translation; 2.10A {Escherichia coli} (A:)
Probab=54.75  E-value=14  Score=18.59  Aligned_cols=35  Identities=14%  Similarity=0.249  Sum_probs=28.7

Q ss_pred             HHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             89999999808882120022798999999986124
Q gi|254780239|r   28 KSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        28 ~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      .....+...+||+|+.++++|+.+|..+|-+.+.+
T Consensus       216 ~~~~~~l~~~~i~~~~r~~~l~~~~~~~l~~~~~~  250 (252)
T 1qyr_A          216 LFSVEVLTGMGIDPAMRAENISVAQYCQMANYLAE  250 (252)
T ss_dssp             TCCHHHHHHTTCCTTSBGGGSCHHHHHHHHHHHHH
T ss_pred             HCCHHHHHHCCCCCCCCHHHCCHHHHHHHHHHHHH
T ss_conf             44099999779883349322999999999999984


No 41 
>>1orn_A Endonuclease III; DNA repair, DNA glycosylase, [4Fe-4S] cluster, iron-sulfur cluster, hydrolase/DNA complex; HET: PED; 1.70A {Geobacillus stearothermophilus} (A:28-137)
Probab=51.85  E-value=5.2  Score=21.20  Aligned_cols=23  Identities=22%  Similarity=0.309  Sum_probs=17.3

Q ss_pred             EEEEEEEEEECCCHHHHHHHHHH
Q ss_conf             76664312007176899999998
Q gi|254780239|r   14 RVVRALCYIHGIGFKSSQDICNK   36 (122)
Q Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~~   36 (122)
                      .+.-.|++|.|||+.+|..++-.
T Consensus        83 ~~~~~L~~l~GIG~~ta~~~llf  105 (110)
T 1orn_A           83 RDRDELMKLPGVGRKTANVVVSV  105 (110)
T ss_dssp             SCHHHHTTSTTCCHHHHHHHHHH
T ss_pred             CCHHHHHHCCCCCHHHHHHHHHH
T ss_conf             88999975879752589999999


No 42 
>>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric complex, octameric RUVA, AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ANP; 3.30A {Thermus thermophilus} (A:)
Probab=51.78  E-value=1.3  Score=24.90  Aligned_cols=28  Identities=18%  Similarity=0.228  Sum_probs=19.1

Q ss_pred             CCEEEEEEEEEECCCHHHHHHHHHHCCC
Q ss_conf             8576664312007176899999998088
Q gi|254780239|r   12 AKRVVRALCYIHGIGFKSSQDICNKLAI   39 (122)
Q Consensus        12 ~K~i~~aLt~I~GIG~~~A~~Ic~~lgI   39 (122)
                      .+.++.-|..|.|||+++|..|+..++.
T Consensus        67 er~~F~~L~~V~GIGpk~Al~iL~~~~~   94 (191)
T 1ixr_A           67 NLALFELLLSVSGVGPKVALALLSALPP   94 (191)
T ss_dssp             HHHHHHHHHSSSCCCHHHHHHHHHHSCH
T ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHCCCH
T ss_conf             9999999857588477889999855999


No 43 
>>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerization motif; HET: DNA; 2.85A {Pyrococcus furiosus} (A:1-95)
Probab=51.22  E-value=12  Score=18.84  Aligned_cols=45  Identities=9%  Similarity=0.236  Sum_probs=33.6

Q ss_pred             CEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHH
Q ss_conf             5766643120071768999999980888212002279899999998
Q gi|254780239|r   13 KRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQ   58 (122)
Q Consensus        13 K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~   58 (122)
                      ......|..|.|||..+|..++.. +++.-..+-+-+.+++.++..
T Consensus        31 ~~~~~~ll~I~gIG~~~a~~L~~~-~~~s~e~i~~As~e~L~~i~G   75 (95)
T 1pzn_A           31 EKIIRSIEDLPGVGPATAEKLREA-GYDTLEAIAVASPIELKEVAG   75 (95)
T ss_dssp             ----CCSSCCTTCCHHHHHHHHTT-TCCSHHHHHTCCHHHHHHHHC
T ss_pred             HHHHCCHHHCCCCCHHHHHHHHHC-CCCCHHHHHHCCHHHHHHHHC
T ss_conf             233214643799799999999985-997199998289999997549


No 44 
>>3fsp_A A/G-specific adenine glycosylase; protein-DNA complex, DNA glycosylase, transition state analog, DNA repair; HET: NRI; 2.20A {Geobacillus stearothermophilus} PDB: 3fsq_A* 1rrs_A* 1vrl_A* 1rrq_A* 3g0q_A* (A:34-143)
Probab=50.54  E-value=5.3  Score=21.12  Aligned_cols=22  Identities=9%  Similarity=0.134  Sum_probs=15.9

Q ss_pred             EEEEEEEEECCCHHHHHHHHHH
Q ss_conf             6664312007176899999998
Q gi|254780239|r   15 VVRALCYIHGIGFKSSQDICNK   36 (122)
Q Consensus        15 i~~aLt~I~GIG~~~A~~Ic~~   36 (122)
                      ..-.|+++.|||+.+|..++-.
T Consensus        83 ~~~~L~~lpGIG~~tA~~vll~  104 (110)
T 3fsp_A           83 DPDEFSRLKGVGPYTVGAVLSL  104 (110)
T ss_dssp             SHHHHHTSTTCCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHH
T ss_conf             8999951112689999999999


No 45 
>>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} (A:499-568)
Probab=50.37  E-value=14  Score=18.55  Aligned_cols=46  Identities=22%  Similarity=0.197  Sum_probs=35.1

Q ss_pred             EEEEEEEECCCHHHHHHHHHHC----C---CCHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             6643120071768999999980----8---88212002279899999998612
Q gi|254780239|r   16 VRALCYIHGIGFKSSQDICNKL----A---IPPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        16 ~~aLt~I~GIG~~~A~~Ic~~l----g---Id~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      .-.|..+.|||+..|..|.+.-    +   ++.=.++..+++..++.+..++.
T Consensus         9 ~~~L~~lpgig~~~A~~Ii~~R~~~G~f~s~~dL~~v~gl~~~~~~~l~~~i~   61 (70)
T 3bzc_A            9 AALLARISGLNSTLAQNIVAHRDANGAFRTRDELKKVSRLGEKTFEQAAGFLR   61 (70)
T ss_dssp             HHHHHTSTTCCHHHHHHHHHHHHHHCCCSSGGGGGGSTTCCHHHHHHHGGGEE
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCHHHHHHCCEEEE
T ss_conf             88886606978899999999999669957799998567888128987180898


No 46 
>>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus} (A:)
Probab=50.34  E-value=3.9  Score=22.00  Aligned_cols=41  Identities=17%  Similarity=0.233  Sum_probs=26.1

Q ss_pred             EEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHH
Q ss_conf             7666431200717689999999808882120022798999999
Q gi|254780239|r   14 RVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQI   56 (122)
Q Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l   56 (122)
                      ...+.+..|.|||+.+|..++...|  .-..+...|.+++.++
T Consensus       170 ~~~~~~~~I~~IG~~~a~~Ll~~Fg--sl~~i~~As~eeL~~v  210 (226)
T 3c65_A          170 MFHSVLDDIPGVGEKRKKALLNYFG--SVKKMKEATVEELQRA  210 (226)
T ss_dssp             -------------------------------------------
T ss_pred             HHCCHHHHHHHHCHHHHHHHHHHCC--CHHHHHHCCHHHHHHC
T ss_conf             4117688998747999999999858--9999983999999877


No 47 
>>1dgs_A DNA ligase; AMP complex, NAD+-dependent; HET: DNA AMP; 2.90A {Thermus filiformis} (A:427-542)
Probab=48.45  E-value=16  Score=18.16  Aligned_cols=36  Identities=17%  Similarity=0.244  Sum_probs=25.3

Q ss_pred             EEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHH
Q ss_conf             200717689999999808882120022798999999
Q gi|254780239|r   21 YIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQI   56 (122)
Q Consensus        21 ~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l   56 (122)
                      .|.|+|.....+....--|......-.|+.+++..+
T Consensus        19 ~i~glg~~~i~~~~~~~~i~~~~d~~~L~~~~~~~l   54 (116)
T 1dgs_A           19 DIEGLGEKLIERLLEKGLVRDVADLYHLRKEDLLGL   54 (116)
T ss_dssp             CCTTCCHHHHHHHHHTTSCSSGGGGGGGCCHHHHTT
T ss_pred             CCCCCCHHHHHHHHHCCCCCCHHHHHHCCHHHHHCC
T ss_conf             856659999999997688688799871899998346


No 48 
>>2gqf_A Hypothetical protein HI0933; structural genomics, FAD-utilizing protein, flavoprotein, PSI, protein structure initiative; HET: FAD; 2.70A {Haemophilus influenzae} (A:265-325)
Probab=48.25  E-value=22  Score=17.27  Aligned_cols=33  Identities=9%  Similarity=0.039  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             6899999998088821200227989999999861
Q gi|254780239|r   27 FKSSQDICNKLAIPPERRVHQLVESEVIQIRQAI   60 (122)
Q Consensus        27 ~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I   60 (122)
                      .+.|..+|...++ ++..++++|+.++..|.+.+
T Consensus        29 kRLa~~l~~~~~l-~~~pl~q~s~~~L~~la~~L   61 (61)
T 2gqf_A           29 KKLVELWIEQGIV-QDEVIANISKVRVKNLVDFI   61 (61)
T ss_dssp             HHHHHHHHHTTSS-CCCBGGGCCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHCCC-CCCHHHHCCHHHHHHHHHHH
T ss_conf             1011455554136-31000011466778899897


No 49 
>>2h56_A DNA-3-methyladenine glycosidase; 10174367, EC 3.2.2.-, structural genomics, PSI-2, protein structure initiative; 2.55A {Bacillus halodurans} (A:1-49,A:127-233)
Probab=48.13  E-value=7.2  Score=20.31  Aligned_cols=32  Identities=19%  Similarity=0.139  Sum_probs=23.6

Q ss_pred             EEEEEEECCCHHHHHHHHHHCCCCHHH-HHCCC
Q ss_conf             643120071768999999980888212-00227
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNKLAIPPER-RVHQL   48 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~lgId~~~-kv~~L   48 (122)
                      -.|+.+.|||+.+|..|+...-=.|+. -+.+.
T Consensus        61 ~~LlsLPGIGpkTA~~ILlfalgrpdvfpVdD~   93 (156)
T 2h56_A           61 EKLTAIKGIGQWTAEXFXXFSLGRLDVLSVGDV   93 (156)
T ss_dssp             HHHHTSTTCCHHHHHHHHHHTTCCSCCCCTTCH
T ss_pred             HHHHHCCCCCHHHHHHHHHHCCCCCCCCCCCCH
T ss_conf             888873897878999999851689977864579


No 50 
>>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus} (A:1-129)
Probab=46.76  E-value=7.2  Score=20.33  Aligned_cols=36  Identities=25%  Similarity=0.099  Sum_probs=22.8

Q ss_pred             EEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHH
Q ss_conf             643120071768999999980888212002279899
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESE   52 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~q   52 (122)
                      -.++.+.|||.+.|..|-..+.=..-..+.+|-.++
T Consensus        61 ~~~~~lpgIG~~ia~~I~E~l~tG~~~~le~l~~~~   96 (129)
T 2ihm_A           61 SQLHGLPYFGEHSTRVIQELLEHGTCEEVKQVRCSE   96 (129)
T ss_dssp             GGGTTCTTCCHHHHHHHHHHHHHSCCHHHHHHHHSH
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_conf             998359997789999999999709889999886320


No 51 
>>2abk_A Endonuclease III; DNA-repair, DNA glycosylase; 1.85A {Escherichia coli} (A:23-133)
Probab=46.75  E-value=6.4  Score=20.62  Aligned_cols=22  Identities=27%  Similarity=0.298  Sum_probs=16.4

Q ss_pred             EEEEEEEEECCCHHHHHHHHHH
Q ss_conf             6664312007176899999998
Q gi|254780239|r   15 VVRALCYIHGIGFKSSQDICNK   36 (122)
Q Consensus        15 i~~aLt~I~GIG~~~A~~Ic~~   36 (122)
                      ..-.|+.+.|||+.+|..++-.
T Consensus        85 ~~~~L~~l~GIG~~tA~~vll~  106 (111)
T 2abk_A           85 DRAALEALPGVGRKTANVVLNT  106 (111)
T ss_dssp             CHHHHHHSTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHH
T ss_conf             7999998986063599999999


No 52 
>>2i5h_A Hypothetical protein AF1531; PFAM:DUF655, PSI-2, structural genomics, protein structure initiative; 1.74A {Archaeoglobus fulgidus} (A:)
Probab=45.55  E-value=4  Score=21.89  Aligned_cols=43  Identities=14%  Similarity=0.132  Sum_probs=32.0

Q ss_pred             CCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCC
Q ss_conf             7589985766643120071768999999980888212002279
Q gi|254780239|r    7 VNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLV   49 (122)
Q Consensus         7 ~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt   49 (122)
                      ..+..+..+..+|..|.|||...|..|...-.-.|...+.||.
T Consensus       122 ~~~~~n~~i~~~L~~I~GiG~~~a~~Iie~Re~g~F~S~eDl~  164 (205)
T 2i5h_A          122 NKADSITTRMHQLELLPGVGKKMMWAIIEERKKRPFESFEDIA  164 (205)
T ss_dssp             C--CCBCSSSBGGGGSTTCCHHHHHHHHHHHHHSCCCSHHHHH
T ss_pred             CCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCHHHHH
T ss_conf             4678761878988744451589999999997548988999999


No 53 
>>2jhn_A ALKA, 3-methyladenine DNA-glycosylase; DNA repair, N1-methyladenine, N3-methylcytosine, hyperthermophiles, hydrolase; HET: MBO MES; 1.8A {Archaeoglobus fulgidus} PDB: 2jhj_A (A:112-130,A:199-234)
Probab=44.84  E-value=7.4  Score=20.24  Aligned_cols=22  Identities=18%  Similarity=0.220  Sum_probs=16.6

Q ss_pred             CEEEEEEEEEECCCHHHHHHHH
Q ss_conf             5766643120071768999999
Q gi|254780239|r   13 KRVVRALCYIHGIGFKSSQDIC   34 (122)
Q Consensus        13 K~i~~aLt~I~GIG~~~A~~Ic   34 (122)
                      ..+.-.|+.|.|||+.+|...+
T Consensus        27 eevi~~Lt~IkGIG~WTAem~L   48 (55)
T 2jhn_A           27 EEAYEYLTSFKGIGRWTAELVL   48 (55)
T ss_dssp             HHHHHHHHTSTTCCHHHHHHHH
T ss_pred             HHHHHHHHHCCCCCHHHHHHHH
T ss_conf             1678898753782899999999


No 54 
>>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} (A:123-255)
Probab=44.22  E-value=8  Score=20.02  Aligned_cols=20  Identities=40%  Similarity=0.796  Sum_probs=11.2

Q ss_pred             EEEEEEECCCHHHHHHHHHH
Q ss_conf             64312007176899999998
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNK   36 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~   36 (122)
                      -.|+.+.|||+.+|..||-.
T Consensus       108 ~~L~~lpGIG~~tA~~ill~  127 (133)
T 1m3q_A          108 KALCILPGVGTKVADCICLM  127 (133)
T ss_dssp             HHHTTSTTCCHHHHHHHHHH
T ss_pred             HHHHHCCCCCHHHHHHHHHH
T ss_conf             99984688379999999999


No 55 
>>1kea_A Possible G-T mismatches repair enzyme; DNA repair, DNA glycosylase, DNA mismatch, methylation, base twisting, hydrolase; 2.00A {Methanothermobacterthermautotrophicus} (A:29-139)
Probab=44.09  E-value=7.7  Score=20.12  Aligned_cols=19  Identities=16%  Similarity=0.312  Sum_probs=11.0

Q ss_pred             EEEEEEECCCHHHHHHHHH
Q ss_conf             6431200717689999999
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICN   35 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~   35 (122)
                      -.|+.|.|||+.+|..++-
T Consensus        87 ~~L~~l~GIG~~tA~~~ll  105 (111)
T 1kea_A           87 KAILDLPGVGKYTCAAVMC  105 (111)
T ss_dssp             HHHHTSTTCCHHHHHHHHH
T ss_pred             HHHHCCCCCCHHHHHHHHH
T ss_conf             6765089876168999999


No 56 
>>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop, transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces cerevisiae} PDB: 3bjy_A* (A:240-306)
Probab=42.60  E-value=20  Score=17.56  Aligned_cols=41  Identities=10%  Similarity=0.173  Sum_probs=29.2

Q ss_pred             EEEEEECCCHHHHHHHHHH-CCCCHHHHHCCCCH-HHHHHHHHHHC
Q ss_conf             4312007176899999998-08882120022798-99999998612
Q gi|254780239|r   18 ALCYIHGIGFKSSQDICNK-LAIPPERRVHQLVE-SEVIQIRQAIE   61 (122)
Q Consensus        18 aLt~I~GIG~~~A~~Ic~~-lgId~~~kv~~Lt~-~qi~~l~~~I~   61 (122)
                      .+..|.|||.+++..+... .||..   ++||.+ ...+.|.+.+.
T Consensus         3 pi~~i~GVG~~t~~kL~~~~~Gi~t---i~dL~~~~~~~~L~~~~G   45 (67)
T 2aq4_A            3 KLDDLPGVGHSTLSRLESTFDSPHS---LNDLRKRYTLDALKASVG   45 (67)
T ss_dssp             CGGGSTTCCHHHHHHHHHHTTCCCS---HHHHHHHCCHHHHHHHHC
T ss_pred             CCCCHHCCCHHHHHHHHHHHHCCCC---HHHHHHHHHHHHHHHHHC
T ss_conf             4230120278999999987743576---999998877778887502


No 57 
>>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanococcus jannaschii} (A:210-274)
Probab=40.33  E-value=16  Score=18.22  Aligned_cols=21  Identities=24%  Similarity=0.363  Sum_probs=17.7

Q ss_pred             EEEEECCCHHHHHHHHHHCCC
Q ss_conf             312007176899999998088
Q gi|254780239|r   19 LCYIHGIGFKSSQDICNKLAI   39 (122)
Q Consensus        19 Lt~I~GIG~~~A~~Ic~~lgI   39 (122)
                      +..|-|||+.+|..+..+.+=
T Consensus        18 ipGV~GIGpKtA~~li~~~~~   38 (65)
T 1a76_A           18 PGGVKGIGFKRAYELVRSGVA   38 (65)
T ss_dssp             TTTTTTCCHHHHHHHHHHTCH
T ss_pred             CCCCCCEEHHHHHHHHHHCCC
T ss_conf             555685629999999997299


No 58 
>>1pu6_A 3-methyladenine DNA glycosylase; helix-hairpin-helix, base excision repair, hydrolase; HET: KCX; 1.64A {Helicobacter pylori} (A:23-145)
Probab=40.30  E-value=9.6  Score=19.54  Aligned_cols=11  Identities=9%  Similarity=0.114  Sum_probs=3.9

Q ss_pred             HCCCCHHHHHH
Q ss_conf             02279899999
Q gi|254780239|r   45 VHQLVESEVIQ   55 (122)
Q Consensus        45 v~~Lt~~qi~~   55 (122)
                      +-+++++++..
T Consensus        50 l~~~~~~~l~~   60 (123)
T 1pu6_A           50 IAYIEFSKLAE   60 (123)
T ss_dssp             HHHSCHHHHHH
T ss_pred             HHCCCHHHHHH
T ss_conf             97799999999


No 59 
>>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} (A:1-28,A:102-142)
Probab=40.20  E-value=14  Score=18.53  Aligned_cols=22  Identities=23%  Similarity=0.400  Sum_probs=17.2

Q ss_pred             EEEEECCCHHHHHHHHHHCCCC
Q ss_conf             3120071768999999980888
Q gi|254780239|r   19 LCYIHGIGFKSSQDICNKLAIP   40 (122)
Q Consensus        19 Lt~I~GIG~~~A~~Ic~~lgId   40 (122)
                      |-.|+|||++-|...+...|+.
T Consensus        46 LvniKGiGyKEASHFLRNvG~~   67 (69)
T 3fhg_A           46 LLNIKGIGMQEASHFLRNVGYF   67 (69)
T ss_dssp             HTTSTTCCHHHHHHHHHHTTCC
T ss_pred             HHHCCCCHHHHHHHHHHHHCCC
T ss_conf             9967585399999999986699


No 60 
>>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase/DNA complex; 2.00A {Archaeoglobus fulgidus} (A:221-288)
Probab=39.37  E-value=18  Score=17.91  Aligned_cols=21  Identities=14%  Similarity=0.175  Sum_probs=18.0

Q ss_pred             EEEEECCCHHHHHHHHHHCCC
Q ss_conf             312007176899999998088
Q gi|254780239|r   19 LCYIHGIGFKSSQDICNKLAI   39 (122)
Q Consensus        19 Lt~I~GIG~~~A~~Ic~~lgI   39 (122)
                      +..|-|||+.+|..+..+.|=
T Consensus        17 ~pGV~GIG~ktA~~li~~~~s   37 (68)
T 1rxw_A           17 NEGVKGVGVKKALNYIKTYGD   37 (68)
T ss_dssp             BCCCTTCCHHHHHHHHHHHSS
T ss_pred             CCCCCCCCHHHHHHHHHHHCC
T ss_conf             589999578999999999499


No 61 
>>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family, transferase/DNA complex; HET: DNA MSE ADI; 1.70A {Sulfolobus solfataricus} (A:183-237)
Probab=38.76  E-value=31  Score=16.35  Aligned_cols=34  Identities=18%  Similarity=0.229  Sum_probs=23.9

Q ss_pred             EECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHH
Q ss_conf             00717689999999808882120022798999999
Q gi|254780239|r   22 IHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQI   56 (122)
Q Consensus        22 I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l   56 (122)
                      |.|||+.++..+ ..+||..-.-+..++++.+.+.
T Consensus         1 i~GIG~~t~~kL-~~~GI~ti~dl~~~~~~~L~~~   34 (55)
T 1jx4_A            1 VPGIGNITAEKL-KKLGINKLVDTLSIEFDKLKGX   34 (55)
T ss_dssp             STTCCHHHHHHH-HTTTCCBGGGGGSSCHHHHHHH
T ss_pred             CCCCCHHHHHHH-HHHCCCCCHHCCCCCHHHHHHH
T ss_conf             259966799999-9848968231213799999989


No 62 
>>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-binding, excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus} (A:219-300)
Probab=37.85  E-value=14  Score=18.51  Aligned_cols=21  Identities=29%  Similarity=0.237  Sum_probs=18.1

Q ss_pred             EEEEECCCHHHHHHHHHHCCC
Q ss_conf             312007176899999998088
Q gi|254780239|r   19 LCYIHGIGFKSSQDICNKLAI   39 (122)
Q Consensus        19 Lt~I~GIG~~~A~~Ic~~lgI   39 (122)
                      +..|-|||+.+|..+..+.|=
T Consensus        18 i~GV~GiG~ktA~~li~~~g~   38 (82)
T 2izo_A           18 PDGIRGIGPERALKIIKKYGK   38 (82)
T ss_dssp             TTCSTTCCHHHHHHHHHHSSC
T ss_pred             CCCCCCCCHHHHHHHHHHCCC
T ss_conf             334799448899999998399


No 63 
>>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} (A:182-261)
Probab=36.81  E-value=20  Score=17.54  Aligned_cols=20  Identities=25%  Similarity=0.338  Sum_probs=16.9

Q ss_pred             EEEECCCHHHHHHHHHHCCC
Q ss_conf             12007176899999998088
Q gi|254780239|r   20 CYIHGIGFKSSQDICNKLAI   39 (122)
Q Consensus        20 t~I~GIG~~~A~~Ic~~lgI   39 (122)
                      -.|.|||+.+|..+..+.|=
T Consensus        25 pGV~GIG~ktA~~Li~~~gs   44 (80)
T 1exn_A           25 RGVEGIGAKRGYNIIREFGN   44 (80)
T ss_dssp             CCCTTCCHHHHHHHHHHHCS
T ss_pred             CCCCCCCHHHHHHHHHHHCC
T ss_conf             99997679999999999599


No 64 
>>1mpg_A ALKA, 3-methyladenine DNA glycosylase II; DNA repair, base excision, methylation, hydrolase; 1.80A {Escherichia coli} (A:105-231)
Probab=35.76  E-value=13  Score=18.70  Aligned_cols=17  Identities=24%  Similarity=0.251  Sum_probs=7.3

Q ss_pred             EEEEEECCCHHHHHHHH
Q ss_conf             43120071768999999
Q gi|254780239|r   18 ALCYIHGIGFKSSQDIC   34 (122)
Q Consensus        18 aLt~I~GIG~~~A~~Ic   34 (122)
                      .|+.+.|||+.+|..++
T Consensus       104 ~L~~lpGIG~~tA~~vl  120 (127)
T 1mpg_A          104 TLQTFPGIGRWTANYFA  120 (127)
T ss_dssp             HHTTSTTCCHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHH
T ss_conf             99865897899999999


No 65 
>>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} (X:1-14,X:218-292)
Probab=32.89  E-value=25  Score=16.98  Aligned_cols=21  Identities=33%  Similarity=0.325  Sum_probs=17.7

Q ss_pred             EEEEECCCHHHHHHHHHHCCC
Q ss_conf             312007176899999998088
Q gi|254780239|r   19 LCYIHGIGFKSSQDICNKLAI   39 (122)
Q Consensus        19 Lt~I~GIG~~~A~~Ic~~lgI   39 (122)
                      +..|.|||+.+|..+..+.|=
T Consensus        31 ~pGV~GIG~KtA~kLI~~ygs   51 (89)
T 1ul1_X           31 CESIRGIGPKRAVDLIQKHKS   51 (89)
T ss_dssp             SCCCTTCCHHHHHHHHHHSSS
T ss_pred             CCCCCCCCHHHHHHHHHHCCC
T ss_conf             355788569999999998099


No 66 
>>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} (A:1-128)
Probab=31.86  E-value=8  Score=20.01  Aligned_cols=43  Identities=23%  Similarity=0.315  Sum_probs=29.8

Q ss_pred             EEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             64312007176899999998088821200227989999999861
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAI   60 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I   60 (122)
                      -.+..|.|||.+.|..|-..+.=..-..+.++.++.- .+..+.
T Consensus        57 ~~~~~lpgIG~~ia~~I~E~l~tG~~~~le~l~~~~~-~~~~~~   99 (128)
T 2bcq_A           57 QEACSIPGIGKRMAEKIIEILESGHLRKLDHISESVP-VLELFS   99 (128)
T ss_dssp             HHHHTSTTCCHHHHHHHHHHHHSSSCGGGGGCCTTHH-HHHHHH
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHCCCHHHHHHHCCCCC-HHHCCC
T ss_conf             9982799964899999999997397888874303366-133144


No 67 
>>3i3w_A Phosphoglucosamine mutase; csgid, IDP02164, isomerase, magnesium, metal-binding, phosphoprotein, structural genomics; HET: SEP; 2.30A {Francisella tularensis subsp} (A:153-256)
Probab=31.50  E-value=31  Score=16.42  Aligned_cols=34  Identities=12%  Similarity=0.046  Sum_probs=30.9

Q ss_pred             CCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCC
Q ss_conf             7589985766643120071768999999980888
Q gi|254780239|r    7 VNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIP   40 (122)
Q Consensus         7 ~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId   40 (122)
                      +|+..-+.+.+.+...+|.|......|+..+|++
T Consensus        13 id~~~~~~~kiv~d~~~G~~~~~~~~ll~~lg~~   46 (104)
T 3i3w_A           13 FAKFVNYKGKVVVDCAHGAASHNFEALLDKFGIN   46 (104)
T ss_dssp             HTTTCCCCSEEEEECTTSTTTTHHHHHHHHTTCE
T ss_pred             CCHHCCCCCEEEEECCCCCCCHHHHHHHHHCCCC
T ss_conf             2011046864999768885100124455303654


No 68 
>>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans} (A:1-118)
Probab=31.21  E-value=9.9  Score=19.44  Aligned_cols=49  Identities=6%  Similarity=-0.013  Sum_probs=31.6

Q ss_pred             CEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             5766643120071768999999980888212002279899999998612
Q gi|254780239|r   13 KRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        13 K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      .-..-.|+.+-|||.++|..|-.-+.=..-.++.+|..+-...|..+.+
T Consensus        53 ~~~~~~l~~lpGIG~~~a~kI~E~l~tG~~~~le~l~~~~~~~l~~l~~  101 (118)
T 2w9m_A           53 ELLAREFTGIPKVGKGIAAELSDFARSGTFAPLEAAAGQLPPGLLDLLG  101 (118)
T ss_dssp             ------CCSSTTCCHHHHHHHHHHHHHSSCHHHHHHHHHSCHHHHHHTT
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHCCCHHHHHHHHC
T ss_conf             7549886259998789999999999849828899987025178999857


No 69 
>>1qyi_A ZR25, hypothetical protein; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.50A {Staphylococcus aureus subsp} (A:13-206)
Probab=30.04  E-value=42  Score=15.54  Aligned_cols=25  Identities=20%  Similarity=0.337  Sum_probs=23.0

Q ss_pred             HCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             8088821200227989999999861
Q gi|254780239|r   36 KLAIPPERRVHQLVESEVIQIRQAI   60 (122)
Q Consensus        36 ~lgId~~~kv~~Lt~~qi~~l~~~I   60 (122)
                      -+|+++......|++++|..|+..+
T Consensus        23 yLGL~~~~~~~~l~d~~I~~IR~~V   47 (194)
T 1qyi_A           23 YLGLHSHIDWETLTDNDIQDIRNRI   47 (194)
T ss_dssp             TTCCSCCCCGGGCCHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHCC
T ss_conf             0365534443442276899998435


No 70 
>>2eo2_A Adult MALE hypothalamus cDNA, riken FULL-length enriched library, clone:A230045M11...; FTHFSDC1, structural genomics, NPPSFA; NMR {Mus musculus} (A:)
Probab=28.96  E-value=37  Score=15.89  Aligned_cols=26  Identities=27%  Similarity=0.247  Sum_probs=17.9

Q ss_pred             HHHHCCCCHHHHHCCCCHHHHHHHHHH
Q ss_conf             999808882120022798999999986
Q gi|254780239|r   33 ICNKLAIPPERRVHQLVESEVIQIRQA   59 (122)
Q Consensus        33 Ic~~lgId~~~kv~~Lt~~qi~~l~~~   59 (122)
                      =+.+|||++.- ..+||++|+.+..-.
T Consensus        36 RL~kLGI~Ktd-P~~LT~EEi~~F~RL   61 (71)
T 2eo2_A           36 RLKKLGIHKTD-PSTLTEEEVRKFARL   61 (71)
T ss_dssp             HHHHHTCCCCS-TTTCCHHHHHHHHHT
T ss_pred             HHHHCCCCCCC-HHHCCHHHHHHHHEE
T ss_conf             99992999999-145899998543310


No 71 
>>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} (A:1-66)
Probab=28.81  E-value=24  Score=17.09  Aligned_cols=34  Identities=32%  Similarity=0.516  Sum_probs=25.0

Q ss_pred             EEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCC
Q ss_conf             6664312007176899999998088821200227
Q gi|254780239|r   15 VVRALCYIHGIGFKSSQDICNKLAIPPERRVHQL   48 (122)
Q Consensus        15 i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~L   48 (122)
                      +.-+|.++=|||+++|..+...+=-.|...+.+|
T Consensus        10 LI~~l~~LPGIG~KsA~Rla~~lL~~~~~~~~~l   43 (66)
T 1vdd_A           10 LIRELSRLPGIGPKSAQRLAFHLFEQPREDIERL   43 (66)
T ss_dssp             HHHHHHTSTTCCHHHHHHHHHHHSSSCHHHHHHH
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHH
T ss_conf             9999967899889999999999972999999999


No 72 
>>2get_A Pantothenate kinase; homodimer, COA biosynthesis, nucleotide binding, transferase; HET: CME COK; 2.35A {Mycobacterium tuberculosis H37RV} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* (A:1-131,A:196-312)
Probab=26.72  E-value=39  Score=15.76  Aligned_cols=82  Identities=11%  Similarity=0.099  Sum_probs=55.1

Q ss_pred             CCCCCCEEEEEEEEEECCCHHHHHH-HHHHCC-CCHHHHHCCCCHHHHHH----------------HHHHHCCCCCCCHH
Q ss_conf             5899857666431200717689999-999808-88212002279899999----------------99861245643337
Q gi|254780239|r    8 NIPRAKRVVRALCYIHGIGFKSSQD-ICNKLA-IPPERRVHQLVESEVIQ----------------IRQAIEQDYQVEGD   69 (122)
Q Consensus         8 ~i~~~K~i~~aLt~I~GIG~~~A~~-Ic~~lg-Id~~~kv~~Lt~~qi~~----------------l~~~I~~~~~i~~~   69 (122)
                      ..+..++-.+++...-|+|.++... ++..+. .+...++.-.+-|..+-                +++.++-..-++.|
T Consensus        84 ~~~~~~p~VI~lvGptGVGKTTTiaKLA~~l~~~~~g~kV~Lit~DTFdiiiveGi~~l~~~~~~~l~~~~D~~ifvd~~  163 (248)
T 2get_A           84 NPDRPVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTDGFDILILEGLNVLQTGPTLMVSDLFDFSLYVDAR  163 (248)
T ss_dssp             TTTCCCCEEEEEEECTTSSHHHHHHHHHHHHHCSTTCCCEEEEEGGGGSEEEEECSSTTCCCSSCCGGGGCSEEEEEECC
T ss_pred             CCCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCEEEEEEEEEECCCCHHHCCCCCCEEEEEECC
T ss_conf             36889988999727988873899999999985207999659996556587999420132154011000006569999799


Q ss_pred             HHHHHHHHHHHHHHCCCCCC
Q ss_conf             88999999999973031001
Q gi|254780239|r   70 LRRTVAMNIKRLMDLGCYRG   89 (122)
Q Consensus        70 L~~~~~~~i~rl~~i~syrG   89 (122)
                      ......--|+|...-..++|
T Consensus       164 ~~~~~~~~i~R~~~~r~~~~  183 (248)
T 2get_A          164 IEDIEQWYVSRFLAMRTTAF  183 (248)
T ss_dssp             HHHHHHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHHHHHHHHC
T ss_conf             89999999999999888723


No 73 
>>1b22_A DNA repair protein RAD51; DNA binding, riken structural genomics/proteomics initiative, RSGI, structural genomics; HET: DNA; NMR {Homo sapiens} (A:)
Probab=25.70  E-value=31  Score=16.38  Aligned_cols=40  Identities=15%  Similarity=0.081  Sum_probs=29.0

Q ss_pred             EEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHH
Q ss_conf             66431200717689999999808882120022798999999
Q gi|254780239|r   16 VRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQI   56 (122)
Q Consensus        16 ~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l   56 (122)
                      ...|..|.|||+.++.. +..+||..-.-+-+.+.+++..+
T Consensus        24 ~~~l~~i~GVG~~~~~~-L~~~Gi~Tv~~la~~~~~~L~~i   63 (114)
T 1b22_A           24 PISRLEQCGINANDVKK-LEEAGFHTVEAVAYAPKKELINI   63 (114)
T ss_dssp             CHHHHHHTTCSHHHHHH-HHTTCCSSGGGBTSSBHHHHHTT
T ss_pred             CHHHHHHCCCCHHHHHH-HHHCCCCHHHHHHHCCHHHHHHH
T ss_conf             48999768999899999-99969853999985899999862


No 74 
>>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis, plasmid; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A (A:126-253)
Probab=25.49  E-value=52  Score=14.97  Aligned_cols=41  Identities=12%  Similarity=0.292  Sum_probs=30.3

Q ss_pred             CCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCCCCCC
Q ss_conf             176899999998088821200227989999999861245643
Q gi|254780239|r   25 IGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQDYQV   66 (122)
Q Consensus        25 IG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~~~~i   66 (122)
                      -|+..+...|.+-+|.|+. +-+++.+....|...|-+.|..
T Consensus        48 dGYR~~i~fa~~~~i~~d~-L~~ld~~~~~~Li~gIA~EY~~   88 (128)
T 2ze6_A           48 DGYRCAIRFARKHDLAISQ-LPNIDAGRHVELIEAIANEYLE   88 (128)
T ss_dssp             TTHHHHHHHHHHHTCCGGG-GGGCCTTHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHCCCHHH-HHHHHHHHHHHHHHHHHHHHHH
T ss_conf             2226899999871688778-8877657899999889999999


No 75 
>>1u5t_A Appears to BE functionally related to SNF7; SNF8P; ESCRT, endosomal, trafficking, protein complex, transport protein; 3.60A {Saccharomyces cerevisiae} (A:1-77)
Probab=24.97  E-value=33  Score=16.25  Aligned_cols=16  Identities=13%  Similarity=0.489  Sum_probs=7.7

Q ss_pred             CCCCHHHHHHHHHHHC
Q ss_conf             2279899999998612
Q gi|254780239|r   46 HQLVESEVIQIRQAIE   61 (122)
Q Consensus        46 ~~Lt~~qi~~l~~~I~   61 (122)
                      .+|.+.+++.+...++
T Consensus        22 ~~l~~~~~~~l~~QL~   37 (77)
T 1u5t_A           22 KTILEKQSVELRDQLM   37 (77)
T ss_dssp             SHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
T ss_conf             7689999999999999


No 76 
>>2ftc_E Mitochondrial ribosomal protein L7/12, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal RNA; 12.10A {Bos taurus} (E:66-137)
Probab=24.21  E-value=48  Score=15.17  Aligned_cols=53  Identities=17%  Similarity=0.372  Sum_probs=41.2

Q ss_pred             CCCCCCCEEE--EEEEE-EECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             7589985766--64312-00717689999999808882120022798999999986124
Q gi|254780239|r    7 VNIPRAKRVV--RALCY-IHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus         7 ~~i~~~K~i~--~aLt~-I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      +.+|..+++.  -++.. +-|+|..-|..++..+   |..--..++.++-+.+.+.++.
T Consensus         9 ~~~~~~kKi~vIK~vr~~~tglgL~eAK~lVe~~---P~~ike~v~keeAE~ik~~Le~   64 (72)
T 2ftc_E            9 TEAKPVDKVKLIKEIKNYVQGINLVQAKKLVESL---PQEIKANVAKAEAEKIKAALEA   64 (72)
T ss_pred             CCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHC---CHHHHCCCCHHHHHHHHHHHHH
T ss_conf             2477411457999999871799879999998708---8888708999999999999998


No 77 
>>1szp_A DNA repair protein RAD51; homologous recombination, asymmetry, RAD51 filament, DNA binding protein; HET: DNA; 3.25A {Saccharomyces cerevisiae} (A:26-81)
Probab=24.01  E-value=51  Score=15.04  Aligned_cols=41  Identities=17%  Similarity=0.162  Sum_probs=25.2

Q ss_pred             EEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             4312007176899999998088821200227989999999861
Q gi|254780239|r   18 ALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAI   60 (122)
Q Consensus        18 aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I   60 (122)
                      .|..|.||+-.+|..|...+.  .-..+|..|-.++..-++.+
T Consensus        13 ~L~~ikGisE~ka~KIi~aA~--kl~~~gF~Ta~e~~~~R~~v   53 (56)
T 1szp_A           13 DLLEIKGISEAKADKLLNEAA--RLVPMGFVTAADFHMRRSEL   53 (56)
T ss_dssp             HHHTSTTCCHHHHHHHHHHHH--HHSCCSCCCHHHHHHHHHSS
T ss_pred             HHHHHHCCCHHHHHHHHHHHH--HHHCCCCCCHHHHHHHCCCC
T ss_conf             998763999999999999999--87447996399999844798


No 78 
>>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication; 2.00A {Pyrococcus furiosus} (A:212-288)
Probab=22.26  E-value=60  Score=14.59  Aligned_cols=41  Identities=17%  Similarity=0.142  Sum_probs=26.4

Q ss_pred             EEEEECCCHHHHHHHHHHCCCCH--HHHHCCCCHHHHHHHHHH
Q ss_conf             31200717689999999808882--120022798999999986
Q gi|254780239|r   19 LCYIHGIGFKSSQDICNKLAIPP--ERRVHQLVESEVIQIRQA   59 (122)
Q Consensus        19 Lt~I~GIG~~~A~~Ic~~lgId~--~~kv~~Lt~~qi~~l~~~   59 (122)
                      +..|-|||+.+|..+.++.|==.  -..+.+++.....++.+.
T Consensus        28 i~GV~GiG~ktA~kli~~~gsle~i~~~~~~~~~~~~~~~~~~   70 (77)
T 1b43_A           28 PGGIKGIGLKKALEIVRHSKDPLAKFQKQSDVDLYAIKEFFLN   70 (77)
T ss_dssp             TTCSTTCCHHHHHHHHHTCSSGGGGTGGGCSSCHHHHHHHHHS
T ss_pred             CCCCCCCCHHHHHHHHHHHCCHHHHHCCCCCCCHHHHHHHHCC
T ss_conf             5658962499999999995999997522100168999998438


No 79 
>>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family DNA polymerase, translesion DNA synthesis, lesion bypass; 2.40A {Homo sapiens} (A:271-340)
Probab=20.69  E-value=39  Score=15.75  Aligned_cols=40  Identities=15%  Similarity=0.127  Sum_probs=26.1

Q ss_pred             EEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             64312007176899999998088821200227989999999861
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAI   60 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I   60 (122)
                      ..++.|.|||+.++.. +..+||..   ++||.......+....
T Consensus        12 lpi~~i~GIG~~~~~~-L~~~gI~t---i~dl~~~~~~~~~~~~   51 (70)
T 1t94_A           12 LPIRKVSGIGKVTEKM-LKALGIIT---CTELYQQRALLSLLFS   51 (70)
T ss_dssp             CBGGGCTTSCHHHHHH-HHHTTCCB---HHHHHHTHHHHHHHSC
T ss_pred             CCCCCCCCCCCCCHHH-HHHHCCCC---HHHHHHHHHHHHHHHH
T ss_conf             9714025763110045-45413586---9999986777888851


No 80 
>>1i4w_A Mitochondrial replication protein MTF1; mitochondrial transcription factor, transcription initiation; 2.60A {Saccharomyces cerevisiae} (A:266-353)
Probab=20.59  E-value=65  Score=14.37  Aligned_cols=47  Identities=13%  Similarity=0.142  Sum_probs=30.5

Q ss_pred             CCEEEEEEEEEECCCHHHHHHHHHHCCCC---HHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             85766643120071768999999980888---2120022798999999986124
Q gi|254780239|r   12 AKRVVRALCYIHGIGFKSSQDICNKLAIP---PERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        12 ~K~i~~aLt~I~GIG~~~A~~Ic~~lgId---~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      .|++.-+|.   ++++- |......++++   ++++..+||.+|+..|.+..++
T Consensus        18 RK~L~nsL~---~L~pg-a~~~l~~~~~~~~~~~kRpe~Ltveef~~La~~~~~   67 (88)
T 1i4w_A           18 RTPLNTVMD---SLGHG-GQQYFNSRITDKDLLKKCPIDLTNDEFIYLTKLFME   67 (88)
T ss_dssp             TSCTTTGGG---GSSTT-HHHHHTTTCCCCTTTSSCGGGCCHHHHHHHHHHHHT
T ss_pred             CCCHHHHHH---HHCCC-HHHHHHCCCCCHHHHHCCCCCCCCCHHHHHHHHHHH
T ss_conf             375277776---52355-166652336527688609966666235678899860


No 81 
>>1dd3_A 50S ribosomal protein L7/L12; dimer formation, flexibility, hinge region, four-helix- bundle, five-helix- bundle, alpha-beta structure; 2.00A {Thermotoga maritima} (A:58-128)
Probab=20.26  E-value=41  Score=15.64  Aligned_cols=55  Identities=22%  Similarity=0.423  Sum_probs=42.5

Q ss_pred             CCCCCC-EEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             589985-7666431200717689999999808882120022798999999986124
Q gi|254780239|r    8 NIPRAK-RVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus         8 ~i~~~K-~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      ++|++| .|.-++..+-|+|..-|..++..+.=.|..--..++.++.+.|.+.++.
T Consensus         8 ~~~~~Ki~vIK~Vr~itglgLkEAK~lVe~~P~~~~~ike~vskeeAE~iK~~Le~   63 (71)
T 1dd3_A            8 SFGQNKIQVIKVVREITGLGLKEAKDLVEKAGSPDAVIKSGVSKEEAEEIKKKLEE   63 (71)
T ss_dssp             ECTTCHHHHHHHHHHHHCCCHHHHHHHHTTTTSTTCEEEEEECHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHCCCCHHHHHHHHHCCCCCCHHHHCCCCHHHHHHHHHHHHH
T ss_conf             17764058999998855998899999997157872678538899999999999998


Done!