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 13730
Date          Tue May 24 02:09:38 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780239.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d2uubm1 a.156.1.1 (M:2-126) Ri 100.0       0       0  304.1   6.0  121    2-122     1-121 (125)
  2 d2gy9m1 a.156.1.1 (M:1-114) Ri 100.0 7.1E-44       0  291.0   6.0  114    2-116     1-114 (114)
  3 d2hkja1 a.156.1.3 (A:229-306)   97.1 0.00018 1.3E-08   46.4   4.0   49   14-62     25-74  (78)
  4 d1k82a1 a.156.1.2 (A:129-216)   96.7 0.00093 6.8E-08   42.0   4.5   51   12-62     22-75  (88)
  5 d1r2za1 a.156.1.2 (A:135-228)   96.7 0.00098 7.1E-08   41.9   4.5   51   11-61     21-74  (94)
  6 d1tdza1 a.156.1.2 (A:132-219)   96.6   0.001 7.6E-08   41.7   4.4   49   13-61     23-74  (88)
  7 d1ee8a1 a.156.1.2 (A:122-210)   96.6  0.0011 7.7E-08   41.7   4.3   42   20-61     33-74  (89)
  8 d1k3xa1 a.156.1.2 (A:125-213)   96.6  0.0012 8.5E-08   41.4   4.3   51   11-61     25-78  (89)
  9 d1tdha1 a.156.1.2 (A:132-246)   90.7    0.02 1.5E-06   33.7  -0.2   49   12-60     27-78  (115)
 10 d2fmpa2 a.60.12.1 (A:92-148) D  89.2    0.11 8.1E-06   29.1   2.6   22   18-40      8-29  (57)
 11 d2i0za2 e.74.1.1 (A:193-361) F  85.5    0.57 4.1E-05   24.7   4.5   50   11-62    103-152 (169)
 12 d2a1jb1 a.60.2.5 (B:219-296) D  85.4    0.18 1.3E-05   27.8   2.0   40   14-55     16-55  (78)
 13 d1jmsa3 a.60.12.1 (A:243-302)   83.6    0.16 1.2E-05   28.2   1.0   23   17-40      8-30  (60)
 14 d2bcqa2 a.60.12.1 (A:329-385)   83.1    0.17 1.2E-05   28.0   1.0   42   15-57      6-50  (57)
 15 d1pzna1 a.60.4.1 (A:35-95) DNA  82.7    0.41   3E-05   25.6   2.8   59   18-84      2-60  (61)
 16 d2bgwa1 a.60.2.5 (A:160-229) D  82.6    0.27   2E-05   26.7   1.9   38   16-55     12-49  (70)
 17 d2i1qa1 a.60.4.1 (A:5-64) DNA   80.3    0.94 6.8E-05   23.4   3.9   58   19-84      1-58  (60)
 18 d1x2ia1 a.60.2.5 (A:2-69) ATP-  73.4     1.1 7.8E-05   23.0   2.6   37   16-54      9-45  (68)
 19 d1qyra_ c.66.1.24 (A:) High le  72.7     1.3 9.6E-05   22.5   3.0   32   31-62    219-250 (252)
 20 d1bvsa2 a.60.2.1 (A:64-134) DN  72.6    0.51 3.7E-05   25.0   0.8   43   13-57      5-47  (71)
 21 d1kfta_ a.60.2.3 (A:) Excinucl  70.3    0.46 3.4E-05   25.3   0.2   37   18-56      3-39  (56)
 22 d1ixra1 a.60.2.1 (A:63-135) DN  70.2    0.64 4.6E-05   24.4   0.9   27   13-39      6-32  (73)
 23 d2axtu1 a.60.12.2 (U:37-134) P  68.4     1.9 0.00014   21.5   3.0   54    9-62     19-75  (98)
 24 d2a1ja1 a.60.2.5 (A:837-898) D  67.4     1.7 0.00013   21.7   2.7   37   19-57      5-41  (62)
 25 d2gqfa2 e.74.1.1 (A:195-342) H  65.5     1.5 0.00011   22.0   2.1   50   10-62     84-133 (148)
 26 d1cuka2 a.60.2.1 (A:65-142) DN  64.0    0.91 6.6E-05   23.5   0.7   43   13-57      5-47  (78)
 27 d1pu6a_ a.96.1.5 (A:) 3-Methyl  63.3     4.2  0.0003   19.4   3.9   43   15-61    118-160 (217)
 28 d3bzka1 a.60.2.6 (A:474-563) T  52.7     5.9 0.00043   18.4   3.3   53    6-60     26-85  (90)
 29 d1b43a1 a.60.7.1 (A:220-339) F  50.1     5.2 0.00038   18.7   2.7   39   21-60     21-59  (120)
 30 d2duya1 a.60.2.7 (A:11-75) Unc  49.0     5.7 0.00042   18.5   2.7   49   12-60     12-63  (65)
 31 d2noha1 a.96.1.3 (A:136-325) 8  45.6       3 0.00022   20.2   0.9   40   16-58    102-141 (190)
 32 d1mpga1 a.96.1.3 (A:100-282) 3  44.4     3.2 0.00024   20.0   0.9   42   14-62    105-148 (183)
 33 d1gm5a2 b.40.4.9 (A:106-285) R  43.6     4.8 0.00035   19.0   1.6   26   14-40      7-32  (180)
 34 d2edua1 a.60.2.7 (A:8-98) KIF2  43.1     6.5 0.00048   18.2   2.3   42   18-59     34-82  (91)
 35 d1ul1x1 a.60.7.1 (X:218-357) F  40.0     6.9  0.0005   18.0   2.0   20   20-39     19-38  (140)
 36 d1jiha2 e.8.1.7 (A:1-389) DNA   38.3     3.8 0.00027   19.6   0.4   26   17-42    300-325 (389)
 37 d1rxwa1 a.60.7.1 (A:220-324) F  38.3     7.3 0.00054   17.8   1.9   19   20-38     19-37  (105)
 38 d1kg2a_ a.96.1.2 (A:) Catalyti  37.8     5.1 0.00037   18.8   1.0   40   17-60    109-148 (224)
 39 d1xo1a1 a.60.7.1 (A:186-290) T  36.3     8.4 0.00062   17.5   1.9   20   19-38     21-40  (105)
 40 d1keaa_ a.96.1.2 (A:) Thymine-  36.2     5.8 0.00042   18.5   1.1   39   16-58    112-150 (217)
 41 d1rrqa1 a.96.1.2 (A:9-229) Cat  35.2     5.9 0.00043   18.4   1.0   40   17-60    107-146 (221)
 42 d1a77a1 a.60.7.1 (A:209-316) F  34.3     8.1 0.00059   17.6   1.6   19   21-39     21-39  (108)
 43 d1xbpg1 a.4.7.1 (G:72-143) Rib  32.3      16  0.0012   15.7   3.9   51   27-78      1-57  (72)
 44 d1orna_ a.96.1.1 (A:) Endonucl  31.5     7.7 0.00056   17.7   1.1   47    7-60    103-149 (214)
 45 d2abka_ a.96.1.1 (A:) Endonucl  30.1     7.8 0.00057   17.7   0.9   22   17-38    109-130 (211)
 46 d1vqoi1 a.4.7.1 (I:71-140) Rib  29.4      18  0.0013   15.4   4.2   49   27-76      3-57  (70)
 47 d1jx4a2 e.8.1.7 (A:1-240) DinB  29.3      18  0.0013   15.4   3.4   40   17-60    178-217 (240)
 48 d1zeta2 e.8.1.7 (A:27-299) DNA  29.0      18  0.0013   15.4   2.7   21   19-40    210-230 (273)
 49 d1im4a_ e.8.1.7 (A:) DinB homo  25.6      15  0.0011   15.9   1.7   21   70-90    129-149 (209)
 50 d1ngna_ a.96.1.2 (A:) Mismatch  25.3      12 0.00087   16.5   1.2   20   18-37     94-113 (144)
 51 d1vmaa2 c.37.1.10 (A:82-294) G  23.9      16  0.0011   15.8   1.6   57    7-64      4-69  (213)
 52 d1dgsa1 a.60.2.2 (A:401-581) N  20.5      27  0.0019   14.4   2.3   37   17-56    108-144 (181)
 53 d1vdda_ e.49.1.1 (A:) Recombin  20.3      18  0.0013   15.5   1.2   74   15-95     10-108 (199)

No 1  
>d2uubm1 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus thermophilus [TaxId: 274]}
Probab=100.00  E-value=0  Score=304.10  Aligned_cols=121  Identities=59%  Similarity=0.915  Sum_probs=115.9

Q ss_pred             CEEECCCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             45516758998576664312007176899999998088821200227989999999861245643337889999999999
Q gi|254780239|r    2 ARIAGVNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQDYQVEGDLRRTVAMNIKRL   81 (122)
Q Consensus         2 vrI~g~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~~~~i~~~L~~~~~~~i~rl   81 (122)
                      +||+|+|||++|+|.+|||+|||||+++|.+||+.+||||++++++||++|+++|+++|+++|.+|+||++.+.+||+||
T Consensus         1 aRI~g~di~~~K~v~~ALt~I~GIG~~~A~~Ic~~lgId~~~k~~~Lt~~qi~~I~~~i~~~~~i~~~L~~~~~~dIkrl   80 (125)
T d2uubm1           1 ARIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRLREYVENTWKLEGELRAEVAANIKRL   80 (125)
T ss_dssp             CCCSTTCCCCSSBHHHHHTTSTTCCHHHHHHHHHTTTCCTTSBGGGCCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             92268669999788876320558189999999998299833333525699999999998411164778999999989999


Q ss_pred             HHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             73031001233179878770778776577776655423469
Q gi|254780239|r   82 MDLGCYRGLRHRRGLPVRGQRTHTNARTRKKFGKGGVARKR  122 (122)
Q Consensus        82 ~~i~syrG~RH~~gLpvRGQRT~tn~rt~k~~~~~~~~kkk  122 (122)
                      ++|+||||+||.+|||||||||||||||+|+..+++.++||
T Consensus        81 ~~i~~yRG~RH~~gLpvRGQRT~tN~rt~kg~~~~v~~kk~  121 (125)
T d2uubm1          81 MDIGCYRGLRHRRGLPVRGQRTRTNARTRKGPRKTVAGKKK  121 (125)
T ss_dssp             HHTTCHHHHHHHHTCCSSSCCCSSCCHHHHCSCCCCCCCSS
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             87610333432279987777787775466888542555667


No 2  
>d2gy9m1 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escherichia coli [TaxId: 562]}
Probab=100.00  E-value=7.1e-44  Score=290.99  Aligned_cols=114  Identities=55%  Similarity=0.862  Sum_probs=110.6

Q ss_pred             CEEECCCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             45516758998576664312007176899999998088821200227989999999861245643337889999999999
Q gi|254780239|r    2 ARIAGVNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQDYQVEGDLRRTVAMNIKRL   81 (122)
Q Consensus         2 vrI~g~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~~~~i~~~L~~~~~~~i~rl   81 (122)
                      +||+|+|||++|+|.+|||+|||||+++|.+||..+||||++++++||++|++.|+++|+ +|.+|+||++.+++||+||
T Consensus         1 aRI~g~dip~~K~v~~ALt~I~GIG~~~A~~Ic~~lgid~~~kv~~Lt~~qi~~l~~~i~-~~~i~~~L~~~~~~dI~rl   79 (114)
T d2gy9m1           1 ARIAGINIPDHKHAVIALTSIYGVGKTRSKAILAAAGIAEDVKISELSEGQIDTLRDEVA-KFVVEGDLRREISMSIKRL   79 (114)
T ss_dssp             CCCSSSCCCCSSBHHHHHTTSSSCCHHHHHHHHHHHTCCTTSBTTSCCHHHHHHHHHHHH-SSCCSHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHHH
T ss_conf             912586689997888872315684899999999981989531357456999999999987-1055889999999989999


Q ss_pred             HHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             73031001233179878770778776577776655
Q gi|254780239|r   82 MDLGCYRGLRHRRGLPVRGQRTHTNARTRKKFGKG  116 (122)
Q Consensus        82 ~~i~syrG~RH~~gLpvRGQRT~tn~rt~k~~~~~  116 (122)
                      ++|+||||+||.+|||||||||||||||+|+.+|+
T Consensus        80 ~~I~~yrG~RH~~gLpvRGQrT~tNart~k~~~k~  114 (114)
T d2gy9m1          80 MDLGCYRGLRHRRGLPVRGQRTKTNARTRKGPRKP  114 (114)
T ss_dssp             TTTTCHHHHHHHCCSCCCCCCSSSSCHHHHCSCCC
T ss_pred             HHHCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             87500102210479987877787776366899998


No 3  
>d2hkja1 a.156.1.3 (A:229-306) Topoisomerase VI-B subunit middle domain {Archaeon Sulfolobus shibatae [TaxId: 2286]}
Probab=97.14  E-value=0.00018  Score=46.40  Aligned_cols=49  Identities=18%  Similarity=0.398  Sum_probs=42.0

Q ss_pred             EEEEEEEE-EECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             76664312-00717689999999808882120022798999999986124
Q gi|254780239|r   14 RVVRALCY-IHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        14 ~i~~aLt~-I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      ++...|+. +-|||..+|..||..+||+|++++++|+++|+..|-+.|.+
T Consensus        25 k~~l~lq~~f~GvGn~~a~Eil~~agi~P~~~~~~L~~~e~~~L~~air~   74 (78)
T d2hkja1          25 TIKEFLVNEFQSIGDTTADKILELAGLKPNKKVKNLTEEEITRLVETFKK   74 (78)
T ss_dssp             BHHHHHHHHSSSCCHHHHHHHHHHHTCCTTSBGGGCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             59999888855668999999999807775660241999999999999860


No 4  
>d1k82a1 a.156.1.2 (A:129-216) DNA repair protein MutM (Fpg) {Escherichia coli [TaxId: 562]}
Probab=96.70  E-value=0.00093  Score=42.02  Aligned_cols=51  Identities=18%  Similarity=0.193  Sum_probs=42.7

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        22 ~~~ik~~LlDQ~~iaGiGN~y~~EiLf~a~I~P~~~~~~L~~~~~~~L~~~i~~   75 (88)
T d1k82a1          22 KTAIKPWLMDNKLVVGVGNIYASESLFAAGIHPDRLASSLSLAECELLARVIKA   75 (88)
T ss_dssp             CSBHHHHHTCTTTCSSCCHHHHHHHHHHHTCCTTSBGGGCCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCHHHHCCHHHHHHHHHHHHH
T ss_conf             851899997053335521189999999977885681877899999999999999


No 5  
>d1r2za1 a.156.1.2 (A:135-228) DNA repair protein MutM (Fpg) {Bacillus stearothermophilus [TaxId: 1422]}
Probab=96.68  E-value=0.00098  Score=41.88  Aligned_cols=51  Identities=18%  Similarity=0.251  Sum_probs=43.6

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        21 ~~~~ik~~LlDQ~~~aGiGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~L~~~~~   74 (94)
T d1r2za1          21 TKRSVKALLLDQTVVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMV   74 (94)
T ss_dssp             CCSBHHHHHHCTTTSSSCCHHHHHHHHHHHTCCTTSBGGGCCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             886289999836545786508999999999726641497866779999999999


No 6  
>d1tdza1 a.156.1.2 (A:132-219) DNA repair protein MutM (Fpg) {Lactococcus lactis [TaxId: 1358]}
Probab=96.64  E-value=0.001  Score=41.73  Aligned_cols=49  Identities=24%  Similarity=0.382  Sum_probs=41.5

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        23 ~~ik~~LldQ~~iaGIGNiy~~EiLf~a~I~P~~~~~~Ls~~~~~~L~~~i~   74 (88)
T d1tdza1          23 KKIKPYLLEQTLVAGLGNIYVDEVLWLAKIHPEKETNQLIESSIHLLHDSII   74 (88)
T ss_dssp             SBHHHHHHTSSSSSCCCHHHHHHHHHHTTCCTTCBGGGCCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCHHHHCCHHHHHHHHHHHH
T ss_conf             5089999855434785768999999999758256465769999999999999


No 7  
>d1ee8a1 a.156.1.2 (A:122-210) DNA repair protein MutM (Fpg) {Thermus thermophilus [TaxId: 274]}
Probab=96.61  E-value=0.0011  Score=41.67  Aligned_cols=42  Identities=19%  Similarity=0.286  Sum_probs=38.8

Q ss_pred             EEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             120071768999999980888212002279899999998612
Q gi|254780239|r   20 CYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        20 t~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      ..|-|||...+..||..++|+|..++++|+++|+..|-+.+.
T Consensus        33 ~~iaGiGN~y~~EiLf~a~I~P~~~~~~Ls~~e~~~L~~~i~   74 (89)
T d1ee8a1          33 RLAAGVGNIYADEALFRARLSPFRPARSLTEEEARRLYRALR   74 (89)
T ss_dssp             SSSTTCCHHHHHHHHHHTTCCSSSBGGGCCHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHCCCCCHHHHCCHHHHHHHHHHHH
T ss_conf             444777758999999999767135453599999999999999


No 8  
>d1k3xa1 a.156.1.2 (A:125-213) Endonuclease VIII {Escherichia coli [TaxId: 562]}
Probab=96.57  E-value=0.0012  Score=41.40  Aligned_cols=51  Identities=14%  Similarity=0.302  Sum_probs=43.6

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        25 ~~~~Ik~~LlDQ~~~aGIGN~~~~EiL~~a~i~P~~~~~~L~~~~~~~L~~~~~   78 (89)
T d1k3xa1          25 RNRQFAGLLLDQAFLAGLGNYLRVEILWQVGLTGNHKAKDLNAAQLDALAHALL   78 (89)
T ss_dssp             TTSCHHHHTTCTTTSBTCCHHHHHHHHHHHTCCSSCCGGGSCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHHHHH
T ss_conf             555299998468630354758999999996666047130199999999999999


No 9  
>d1tdha1 a.156.1.2 (A:132-246) Endonuclease VIII-like 1 (NEIL1) {Human (Homo sapiens) [TaxId: 9606]}
Probab=90.69  E-value=0.02  Score=33.71  Aligned_cols=49  Identities=22%  Similarity=0.363  Sum_probs=40.3

Q ss_pred             CCEEEEEE---EEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             85766643---12007176899999998088821200227989999999861
Q gi|254780239|r   12 AKRVVRAL---CYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAI   60 (122)
Q Consensus        12 ~K~i~~aL---t~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I   60 (122)
                      +++|.-+|   ..|-|||...+..||..++|+|..++.+|++++...+....
T Consensus        27 ~~~i~~~LldQ~~~aGiGN~~~~EiLf~a~i~P~~~~~~l~~~~~~~l~~~~   78 (115)
T d1tdha1          27 DRPICEALLDQRFFNGIGNYLRAEILYRLKIPPFEKARSVLEALQQHRPSPE   78 (115)
T ss_dssp             GSBHHHHTTCTTTSTTCCHHHHHHHHHHHTCCTTSBHHHHHGGGC-----CC
T ss_pred             CCCHHHHHHCCCHHCCCCHHHHHHHHHHCCCCCCCCHHHCCHHHHHHHHHHH
T ss_conf             8849999854643125138999999998489977704043899996777667


No 10 
>d2fmpa2 a.60.12.1 (A:92-148) DNA polymerase beta {Human (Homo sapiens) [TaxId: 9606]}
Probab=89.21  E-value=0.11  Score=29.14  Aligned_cols=22  Identities=23%  Similarity=0.430  Sum_probs=19.1

Q ss_pred             EEEEEECCCHHHHHHHHHHCCCC
Q ss_conf             43120071768999999980888
Q gi|254780239|r   18 ALCYIHGIGFKSSQDICNKLAIP   40 (122)
Q Consensus        18 aLt~I~GIG~~~A~~Ic~~lgId   40 (122)
                      .|+.|||||+++|..+... |+.
T Consensus         8 ~l~~I~GvGp~~A~~l~~~-Gi~   29 (57)
T d2fmpa2           8 FLTRVSGIGPSAARKFVDE-GIK   29 (57)
T ss_dssp             HHTTSTTCCHHHHHHHHHT-TCC
T ss_pred             HHHCCCCCCHHHHHHHHHH-CCC
T ss_conf             8853443149999999994-899


No 11 
>d2i0za2 e.74.1.1 (A:193-361) Flavoprotein BC4706 {Bacillus cereus [TaxId: 1396]}
Probab=85.51  E-value=0.57  Score=24.74  Aligned_cols=50  Identities=10%  Similarity=0.016  Sum_probs=38.7

Q ss_pred             CCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             9857666431200717689999999808882120022798999999986124
Q gi|254780239|r   11 RAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        11 ~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      +++.+.-.|..  -+-.+.+..+|..+|+++++++++|+.+++.+|...+.+
T Consensus       103 ~~~~~~~~l~~--~lp~~l~~~ll~~~~i~~~~~~~~ls~~~~~~L~~~Lk~  152 (169)
T d2i0za2         103 PKKGIKNVLKG--YVPERYFLFLLEKNEIDGSEQAGQVSHEKIRALVKDFKE  152 (169)
T ss_dssp             TTSBHHHHTTT--SSCHHHHHHHHHHTTCCTTSBGGGSCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHCCC--CCCHHHHHHHHHHCCCCCCCCHHHCCHHHHHHHHHHHHC
T ss_conf             41347664200--151578999999809962378777899999999999968


No 12 
>d2a1jb1 a.60.2.5 (B:219-296) DNA excision repair protein ERCC-1 {Human (Homo sapiens) [TaxId: 9606]}
Probab=85.43  E-value=0.18  Score=27.76  Aligned_cols=40  Identities=13%  Similarity=0.204  Sum_probs=28.4

Q ss_pred             EEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHH
Q ss_conf             766643120071768999999980888212002279899999
Q gi|254780239|r   14 RVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQ   55 (122)
Q Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~   55 (122)
                      .+..+|+.|.|||...|..++...|  .-..+-.-+.+++..
T Consensus        16 ~~~~~L~~I~gIg~~~a~~L~~~F~--s~~~i~~A~~eeL~~   55 (78)
T d2a1jb1          16 RVTECLTTVKSVNKTDSQTLLTTFG--SLEQLIAASREDLAL   55 (78)
T ss_dssp             HHHHHHTTSTTCCHHHHHHHHHHHS--SHHHHHSCCHHHHHT
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHC--CCHHHHHHHHHHHHH
T ss_conf             9999863899759999999999939--819988552788887


No 13 
>d1jmsa3 a.60.12.1 (A:243-302) Terminal deoxynucleotidyl transferase {Mouse (Mus musculus) [TaxId: 10090]}
Probab=83.63  E-value=0.16  Score=28.16  Aligned_cols=23  Identities=13%  Similarity=0.397  Sum_probs=19.6

Q ss_pred             EEEEEEECCCHHHHHHHHHHCCCC
Q ss_conf             643120071768999999980888
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNKLAIP   40 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~lgId   40 (122)
                      ..|+.|||||+++|...... |+.
T Consensus         8 ~~f~~I~GvGp~~A~~l~~~-Gi~   30 (60)
T d1jmsa3           8 KLFTSVFGVGLKTAEKWFRM-GFR   30 (60)
T ss_dssp             HHHHTSTTCCHHHHHHHHHT-TCC
T ss_pred             HHHHCCCCCCHHHHHHHHHH-CCC
T ss_conf             99861163229999999993-899


No 14 
>d2bcqa2 a.60.12.1 (A:329-385) DNA polymerase lambda {Human (Homo sapiens) [TaxId: 9606]}
Probab=83.13  E-value=0.17  Score=27.96  Aligned_cols=42  Identities=19%  Similarity=0.276  Sum_probs=26.3

Q ss_pred             EEEEEEEEECCCHHHHHHHHHHCCCCHHH---HHCCCCHHHHHHHH
Q ss_conf             66643120071768999999980888212---00227989999999
Q gi|254780239|r   15 VVRALCYIHGIGFKSSQDICNKLAIPPER---RVHQLVESEVIQIR   57 (122)
Q Consensus        15 i~~aLt~I~GIG~~~A~~Ic~~lgId~~~---kv~~Lt~~qi~~l~   57 (122)
                      +.-.++.|||||+++|...... |+..=.   .-.+||..|..-|.
T Consensus         6 ~l~~ft~I~GvGp~~A~~l~~~-Gi~ti~dLr~~~~Ln~~Q~iGLk   50 (57)
T d2bcqa2           6 VLELFSNIWGAGTKTAQMWYQQ-GFRSLEDIRSQASLTTQQAIGLK   50 (57)
T ss_dssp             HHHHHHTSTTCCHHHHHHHHHT-TCCSHHHHHHHCCCCHHHHHHHH
T ss_pred             HHHHHHCCCCCCHHHHHHHHHH-CCCCHHHHHHCCCCCHHHHHHHH
T ss_conf             9999862262239999999994-89889999756789999999699


No 15 
>d1pzna1 a.60.4.1 (A:35-95) DNA repair protein Rad51, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}
Probab=82.65  E-value=0.41  Score=25.59  Aligned_cols=59  Identities=7%  Similarity=0.145  Sum_probs=40.4

Q ss_pred             EEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHC
Q ss_conf             4312007176899999998088821200227989999999861245643337889999999999730
Q gi|254780239|r   18 ALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQDYQVEGDLRRTVAMNIKRLMDL   84 (122)
Q Consensus        18 aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~~~~i~~~L~~~~~~~i~rl~~i   84 (122)
                      +|..|-|||+.+|..+... |+..-..+-+.+.+++.++.-       ++..+-..+.+..+.+.++
T Consensus         2 ~L~~i~GIG~~~a~~L~~~-g~~sv~~l~~a~~~eL~~i~G-------i~~~~A~~i~~~ar~~~~~   60 (61)
T d1pzna1           2 SIEDLPGVGPATAEKLREA-GYDTLEAIAVASPIELKEVAG-------ISEGTALKIIQAARKAANL   60 (61)
T ss_dssp             CSSCCTTCCHHHHHHHHTT-TCCSHHHHHTCCHHHHHHHHC-------CCHHHHHHHHHHHHHHCST
T ss_pred             CCCCCCCCCHHHHHHHHHH-CCCCHHHHHHCCHHHHHHCCC-------CCHHHHHHHHHHHHHHCCC
T ss_conf             5021799799999999994-499999998599999977799-------9999999999999987269


No 16 
>d2bgwa1 a.60.2.5 (A:160-229) DNA repair endonuclease XPF {Aeropyrum pernix [TaxId: 56636]}
Probab=82.63  E-value=0.27  Score=26.71  Aligned_cols=38  Identities=18%  Similarity=0.329  Sum_probs=27.3

Q ss_pred             EEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHH
Q ss_conf             6643120071768999999980888212002279899999
Q gi|254780239|r   16 VRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQ   55 (122)
Q Consensus        16 ~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~   55 (122)
                      .++|+.|-|||+.+|..|+...| + -..+-.-+.+++.+
T Consensus        12 ~~~L~~IpgIG~~~a~~L~~~F~-s-~~~l~~As~eeL~~   49 (70)
T d2bgwa1          12 LYILQSFPGIGRRTAERILERFG-S-LERFFTASKAEISK   49 (70)
T ss_dssp             HHHHHTSTTCCHHHHHHHHHHHS-S-HHHHTTCCHHHHHH
T ss_pred             HHHHCCCCCCCHHHHHHHHHHHC-C-HHHHHHCCHHHHHC
T ss_conf             99980899957999999999829-8-89998869999975


No 17 
>d2i1qa1 a.60.4.1 (A:5-64) DNA repair protein Rad51, N-terminal domain {Archaeon Methanococcus voltae [TaxId: 2188]}
Probab=80.33  E-value=0.94  Score=23.39  Aligned_cols=58  Identities=16%  Similarity=0.260  Sum_probs=40.3

Q ss_pred             EEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHC
Q ss_conf             312007176899999998088821200227989999999861245643337889999999999730
Q gi|254780239|r   19 LCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQDYQVEGDLRRTVAMNIKRLMDL   84 (122)
Q Consensus        19 Lt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~~~~i~~~L~~~~~~~i~rl~~i   84 (122)
                      |+.|-|||+.++..+... |+..-..+-+.+.+++.++.-       ++..+-..+.+..+.+.+|
T Consensus         1 L~~IpGIG~~~a~~L~~~-G~~tv~~l~~a~~eeL~~i~G-------i~~~~A~~i~~~ar~~~d~   58 (60)
T d2i1qa1           1 LTDLPGVGPSTAEKLVEA-GYIDFMKIATATVGELTDIEG-------ISEKAAAKMIMGARDLCDL   58 (60)
T ss_dssp             CTTSTTCCHHHHHHHHHH-TCCSHHHHHTCCHHHHHTSTT-------CCHHHHHHHHHHHHHHTTC
T ss_pred             CCCCCCCCHHHHHHHHHC-CCCCHHHHHHCCHHHHHHCCC-------CCHHHHHHHHHHHHHHCCC
T ss_conf             978889899999999983-699999998599999987789-------8999999999999987189


No 18 
>d1x2ia1 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}
Probab=73.35  E-value=1.1  Score=23.02  Aligned_cols=37  Identities=8%  Similarity=0.080  Sum_probs=25.3

Q ss_pred             EEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHH
Q ss_conf             664312007176899999998088821200227989999
Q gi|254780239|r   16 VRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVI   54 (122)
Q Consensus        16 ~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~   54 (122)
                      .+.|+.|.|||+.+|..+....|  .-..+.+.+.+++.
T Consensus         9 ~~~L~~I~gIG~~~a~~L~~~f~--s~~~i~~As~eeL~   45 (68)
T d1x2ia1           9 RLIVEGLPHVSATLARRLLKHFG--SVERVFTASVAELM   45 (68)
T ss_dssp             HHHHTTSTTCCHHHHHHHHHHHC--SHHHHHHCCHHHHT
T ss_pred             HHHHCCCCCCCHHHHHHHHHHCC--CHHHHHHHHHHHHH
T ss_conf             99981899968999999999749--99999885899997


No 19 
>d1qyra_ c.66.1.24 (A:) High level kasugamycin resistance protein KsgA {Escherichia coli [TaxId: 562]}
Probab=72.67  E-value=1.3  Score=22.46  Aligned_cols=32  Identities=13%  Similarity=0.301  Sum_probs=28.5

Q ss_pred             HHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             99999808882120022798999999986124
Q gi|254780239|r   31 QDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        31 ~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      ..+...+||+|+.+..+||.+|+.+|.+.+++
T Consensus       219 ~~~l~~~~i~~~~R~e~Ls~~~~~~L~~~l~~  250 (252)
T d1qyra_         219 VEVLTGMGIDPAMRAENISVAQYCQMANYLAE  250 (252)
T ss_dssp             HHHHHHTTCCTTSBGGGSCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCCCCCHHHCCHHHHHHHHHHHHH
T ss_conf             99999779883329434999999999999984


No 20 
>d1bvsa2 a.60.2.1 (A:64-134) DNA helicase RuvA subunit, middle domain {Mycobacterium leprae [TaxId: 1769]}
Probab=72.58  E-value=0.51  Score=25.03  Aligned_cols=43  Identities=16%  Similarity=0.220  Sum_probs=28.2

Q ss_pred             CEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHH
Q ss_conf             576664312007176899999998088821200227989999999
Q gi|254780239|r   13 KRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIR   57 (122)
Q Consensus        13 K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~   57 (122)
                      +.++..|..|.|||+++|..|+..++  +..-+.-+.+.++..|.
T Consensus         5 r~~F~~Li~V~GIGpK~Al~iLs~~~--~~~l~~aI~~~D~~~L~   47 (71)
T d1bvsa2           5 RDLFLALLSVSGVGPRLAMATLAVHD--AAALRQALADSDVASLT   47 (71)
T ss_dssp             HHHHHHHHTSSSCCHHHHHHHHHHSC--HHHHHHHTTTTCHHHHH
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHCC--HHHHHHHHHCCCHHHHH
T ss_conf             99999985548817999999998499--99999999817988843


No 21 
>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain {Escherichia coli [TaxId: 562]}
Probab=70.34  E-value=0.46  Score=25.29  Aligned_cols=37  Identities=19%  Similarity=0.260  Sum_probs=29.2

Q ss_pred             EEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHH
Q ss_conf             431200717689999999808882120022798999999
Q gi|254780239|r   18 ALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQI   56 (122)
Q Consensus        18 aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l   56 (122)
                      .|..|.|||+.+|..++...|  .-..+.+-+.+++.++
T Consensus         3 ~L~~I~gVG~~~a~~L~~~F~--s~~~i~~As~eeL~~v   39 (56)
T d1kfta_           3 SLETIEGVGPKRRQMLLKYMG--GLQGLRNASVEEIAKV   39 (56)
T ss_dssp             GGGGCTTCSSSHHHHHHHHHS--CHHHHHHCCHHHHTTS
T ss_pred             CCCCCCCCCHHHHHHHHHHHC--CHHHHHHHHHHHHHHC
T ss_conf             753589800999999999939--9999998649999816


No 22 
>d1ixra1 a.60.2.1 (A:63-135) DNA helicase RuvA subunit, middle domain {Thermus thermophilus [TaxId: 274]}
Probab=70.17  E-value=0.64  Score=24.42  Aligned_cols=27  Identities=19%  Similarity=0.240  Sum_probs=20.7

Q ss_pred             CEEEEEEEEEECCCHHHHHHHHHHCCC
Q ss_conf             576664312007176899999998088
Q gi|254780239|r   13 KRVVRALCYIHGIGFKSSQDICNKLAI   39 (122)
Q Consensus        13 K~i~~aLt~I~GIG~~~A~~Ic~~lgI   39 (122)
                      +.++..|..|.|||+++|..|+..+..
T Consensus         6 r~lF~~Li~V~GIGpk~Al~iLs~~~~   32 (73)
T d1ixra1           6 LALFELLLSVSGVGPKVALALLSALPP   32 (73)
T ss_dssp             HHHHHHHHSSSCCCHHHHHHHHHHSCH
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHCCH
T ss_conf             999999865588079999999987368


No 23 
>d2axtu1 a.60.12.2 (U:37-134) Photosystem II 12 kDa extrinsic protein PsbU {Thermosynechococcus elongatus [TaxId: 146786]}
Probab=68.37  E-value=1.9  Score=21.54  Aligned_cols=54  Identities=15%  Similarity=0.158  Sum_probs=39.7

Q ss_pred             CCCCCEEEEEEEEEECCCHHHHHHHHHHCC---CCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             899857666431200717689999999808---882120022798999999986124
Q gi|254780239|r    9 IPRAKRVVRALCYIHGIGFKSSQDICNKLA---IPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus         9 i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lg---Id~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      ++=|.--...|..+.|||+..|..|...-.   ++.=..+.-+++.+++.|+++++.
T Consensus        19 idlN~As~~eL~~lpGIg~~~A~~Iv~~gpf~s~edL~~V~GIg~~~~e~lk~yl~~   75 (98)
T d2axtu1          19 IDLNNTNIAAFIQYRGLYPTLAKLIVKNAPYESVEDVLNIPGLTERQKQILRENLEH   75 (98)
T ss_dssp             EESSSSCGGGGTTSTTCTHHHHHHHHHSCCCSSGGGGGGCTTCCTTHHHHHHHHGGG
T ss_pred             EECCCCCHHHHHHHHHHCHHHHHHHHHCCCCCCHHHHHHCCCCCHHHHHHHHHHHHC
T ss_conf             636341699998732126999999997188288999963889998999999998724


No 24 
>d2a1ja1 a.60.2.5 (A:837-898) DNA repair endonuclease XPF {Human (Homo sapiens) [TaxId: 9606]}
Probab=67.44  E-value=1.7  Score=21.70  Aligned_cols=37  Identities=16%  Similarity=0.271  Sum_probs=31.4

Q ss_pred             EEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHH
Q ss_conf             312007176899999998088821200227989999999
Q gi|254780239|r   19 LCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIR   57 (122)
Q Consensus        19 Lt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~   57 (122)
                      |..|-|||...+..+....|  .-..+.+.|.+|+.++.
T Consensus         5 L~~iPGIg~~~~~~Ll~~f~--Si~~l~~As~~eL~~v~   41 (62)
T d2a1ja1           5 LLKMPGVNAKNCRSLMHHVK--NIAELAALSQDELTSIL   41 (62)
T ss_dssp             HHTSTTCCHHHHHHHHHHCS--SHHHHHTCCHHHHHHHH
T ss_pred             HHCCCCCCHHHHHHHHHHHC--CHHHHHHCCHHHHHHCC
T ss_conf             76699999999999999852--49999869999997785


No 25 
>d2gqfa2 e.74.1.1 (A:195-342) Hypothetical protein HI0933 {Haemophilus influenzae [TaxId: 727]}
Probab=65.47  E-value=1.5  Score=22.03  Aligned_cols=50  Identities=8%  Similarity=0.065  Sum_probs=38.0

Q ss_pred             CCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC
Q ss_conf             99857666431200717689999999808882120022798999999986124
Q gi|254780239|r   10 PRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        10 ~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~   62 (122)
                      .++|.+.-.|..+  +-.+.+..+|...++ ++.++.+|+.+++..|.+.+.+
T Consensus        84 ~~kk~i~~~L~~~--lPkrl~~~ll~~~~~-~~~~~~~lsk~~~~~L~~~Lk~  133 (148)
T d2gqfa2          84 SPKQMLKTILVRL--LPKKLVELWIEQGIV-QDEVIANISKVRVKNLVDFIHH  133 (148)
T ss_dssp             CTTSBHHHHHTTT--SCHHHHHHHHHTTSS-CCCBGGGCCHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHH--HHHHHHHHHHHHCCC-CCCHHHHCCHHHHHHHHHHHHC
T ss_conf             0125688887998--679999999997575-4320777899999999999858


No 26 
>d1cuka2 a.60.2.1 (A:65-142) DNA helicase RuvA subunit, middle domain {Escherichia coli [TaxId: 562]}
Probab=63.97  E-value=0.91  Score=23.46  Aligned_cols=43  Identities=19%  Similarity=0.279  Sum_probs=27.0

Q ss_pred             CEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHH
Q ss_conf             576664312007176899999998088821200227989999999
Q gi|254780239|r   13 KRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIR   57 (122)
Q Consensus        13 K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~   57 (122)
                      +.++-.|..|.|||++.|..|+..++  |..-+.-+.++++..|.
T Consensus         5 r~~F~~Li~V~GIGpK~Al~iLs~~~--~~~l~~aI~~~D~~~L~   47 (78)
T d1cuka2           5 RTLFKELIKTNGVGPKLALAILSGMS--AQQFVNAVEREEVGALV   47 (78)
T ss_dssp             HHHHHHHHHSSSCCHHHHHHHHHHSC--HHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHCC--HHHHHHHHHCCCHHHHH
T ss_conf             99999987668801999999998489--99999999806888712


No 27 
>d1pu6a_ a.96.1.5 (A:) 3-Methyladenine DNA glycosylase III (MagIII) {Helicobacter pylori [TaxId: 210]}
Probab=63.32  E-value=4.2  Score=19.37  Aligned_cols=43  Identities=16%  Similarity=0.068  Sum_probs=28.9

Q ss_pred             EEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             66643120071768999999980888212002279899999998612
Q gi|254780239|r   15 VVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIE   61 (122)
Q Consensus        15 i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~   61 (122)
                      ..-.|+.+.|||+.+|..|+....=.|..    .-|..+..+.+-+.
T Consensus       118 ~~~~L~~lpGIG~kTA~~vl~~~~~~~~~----~vD~hv~Rv~~Rlg  160 (217)
T d1pu6a_         118 TREWLLDQKGIGKESADAILCYACAKEVM----VVDKYSYLFLKKLG  160 (217)
T ss_dssp             CHHHHHTSTTCCHHHHHHHHHHTTCCSCC----CCCHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCEEE----ECCHHHHHHHHHHC
T ss_conf             99999987636569999999997288054----05748999999958


No 28 
>d3bzka1 a.60.2.6 (A:474-563) Transcriptional accessory factor Tex {Pseudomonas aeruginosa [TaxId: 287]}
Probab=52.71  E-value=5.9  Score=18.43  Aligned_cols=53  Identities=21%  Similarity=0.238  Sum_probs=35.6

Q ss_pred             CCCCCCCCEEEEEEEEEECCCHHHHHHHHHHC-------CCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             67589985766643120071768999999980-------88821200227989999999861
Q gi|254780239|r    6 GVNIPRAKRVVRALCYIHGIGFKSSQDICNKL-------AIPPERRVHQLVESEVIQIRQAI   60 (122)
Q Consensus         6 g~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~l-------gId~~~kv~~Lt~~qi~~l~~~I   60 (122)
                      |+||.  .--.-.|..+.|||+..|..|...-       .++.=.++..+++..++++..+|
T Consensus        26 gidiN--~As~~~L~~lpGig~~~A~~Iv~~R~~~G~f~s~edL~~v~gi~~k~~e~i~~~l   85 (90)
T d3bzka1          26 GVDVN--TASAALLARISGLNSTLAQNIVAHRDANGAFRTRDELKKVSRLGEKTFEQAAGFL   85 (90)
T ss_dssp             CEETT--TCCHHHHTTSTTCCHHHHHHHHHHHHHHCSCSSSGGGGGSTTCCHHHHHHHHTTE
T ss_pred             CEEHH--HCCHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCHHHHHHHCCCE
T ss_conf             65141--3989999677898999999999999986997889999507898999999826887


No 29 
>d1b43a1 a.60.7.1 (A:220-339) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyrococcus furiosus [TaxId: 2261]}
Probab=50.15  E-value=5.2  Score=18.74  Aligned_cols=39  Identities=21%  Similarity=0.372  Sum_probs=24.5

Q ss_pred             EEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             2007176899999998088821200227989999999861
Q gi|254780239|r   21 YIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAI   60 (122)
Q Consensus        21 ~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I   60 (122)
                      .|.|||+.+|..+.++.+= .........+.....++++.
T Consensus        21 gI~GIGpktAlklikk~~~-~~~~~~~~~~~~~~~~~~~f   59 (120)
T d1b43a1          21 GIKGIGLKKALEIVRHSKD-PLAKFQKQSDVDLYAIKEFF   59 (120)
T ss_dssp             CSTTCCHHHHHHHHHTCSS-GGGGTGGGCSSCHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHCC-HHHHHHHCCCCCHHHHHHHH
T ss_conf             6888677999999998379-99998860122628899986


No 30 
>d2duya1 a.60.2.7 (A:11-75) Uncharacterized protein TTHA1967 {Thermus thermophilus [TaxId: 274]}
Probab=48.96  E-value=5.7  Score=18.50  Aligned_cols=49  Identities=14%  Similarity=0.199  Sum_probs=33.2

Q ss_pred             CCEEEEEEEEEECCCHHHHHHHHHHCC---CCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             857666431200717689999999808---8821200227989999999861
Q gi|254780239|r   12 AKRVVRALCYIHGIGFKSSQDICNKLA---IPPERRVHQLVESEVIQIRQAI   60 (122)
Q Consensus        12 ~K~i~~aLt~I~GIG~~~A~~Ic~~lg---Id~~~kv~~Lt~~qi~~l~~~I   60 (122)
                      |.--..-|..+.|||...|..|...=.   ++.-..+..+++..+++|..+|
T Consensus        12 NtA~~~eL~~lpgig~~~A~~Iv~~R~f~s~edL~~v~gi~~~~~~~i~~~l   63 (65)
T d2duya1          12 NEASLEELMALPGIGPVLARRIVEGRPYARVEDLLKVKGIGPATLERLRPYL   63 (65)
T ss_dssp             TTCCHHHHTTSTTCCHHHHHHHHHTCCCSSGGGGGGSTTCCHHHHHHHGGGE
T ss_pred             CCCCHHHHHHCCCCCHHHHHHHHHCCCCCCHHHHHHCCCCCHHHHHHHHHHC
T ss_conf             2288999977789899999999984898999999758898999999999772


No 31 
>d2noha1 a.96.1.3 (A:136-325) 8-oxoguanine glycosylase {Human (Homo sapiens) [TaxId: 9606]}
Probab=45.56  E-value=3  Score=20.22  Aligned_cols=40  Identities=25%  Similarity=0.444  Sum_probs=25.5

Q ss_pred             EEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHH
Q ss_conf             6643120071768999999980888212002279899999998
Q gi|254780239|r   16 VRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQ   58 (122)
Q Consensus        16 ~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~   58 (122)
                      .-.|+.|.|||+.+|..++-..-=.|+.-.  + +..+..+-.
T Consensus       102 ~~~L~~l~GIG~wTA~~il~~~~~~~d~fp--v-D~~v~R~~~  141 (190)
T d2noha1         102 HKALCILPGVGTQVADCICLMALDKPQAVP--V-DVHMWHIAQ  141 (190)
T ss_dssp             HHHHTTSTTCCHHHHHHHHHHHSCCTTCCC--C-CHHHHHHHH
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHCCCCCEEE--E-CHHHHHHHH
T ss_conf             999987677518999999999769998675--4-499999999


No 32 
>d1mpga1 a.96.1.3 (A:100-282) 3-Methyladenine DNA glycosylase II (gene alkA or aidA) {Escherichia coli [TaxId: 562]}
Probab=44.42  E-value=3.2  Score=20.05  Aligned_cols=42  Identities=14%  Similarity=0.145  Sum_probs=26.4

Q ss_pred             EEEEEEEEEECCCHHHHHHHHH-HCCCCHHH-HHCCCCHHHHHHHHHHHCC
Q ss_conf             7666431200717689999999-80888212-0022798999999986124
Q gi|254780239|r   14 RVVRALCYIHGIGFKSSQDICN-KLAIPPER-RVHQLVESEVIQIRQAIEQ   62 (122)
Q Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~-~lgId~~~-kv~~Lt~~qi~~l~~~I~~   62 (122)
                      .+.-.|+.|.|||+.+|..|+- .+| +++. .++|+      .|++.+..
T Consensus       105 e~~~~L~~l~GIGpwTAd~illf~lg-~~dvfP~~D~------~lr~~~~~  148 (183)
T d1mpga1         105 QAMKTLQTFPGIGRWTANYFALRGWQ-AKDVFLPDDY------LIKQRFPG  148 (183)
T ss_dssp             HHHHHHTTSTTCCHHHHHHHHHHHSC-CSSCCCTTCH------HHHHHSTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHCC-CCCCCCCCHH------HHHHHHHH
T ss_conf             99999998645349999999986078-9984514069------99987341


No 33 
>d1gm5a2 b.40.4.9 (A:106-285) RecG "wedge" domain {Thermotoga maritima [TaxId: 2336]}
Probab=43.63  E-value=4.8  Score=19.00  Aligned_cols=26  Identities=23%  Similarity=0.488  Sum_probs=21.4

Q ss_pred             EEEEEEEEEECCCHHHHHHHHHHCCCC
Q ss_conf             766643120071768999999980888
Q gi|254780239|r   14 RVVRALCYIHGIGFKSSQDICNKLAIP   40 (122)
Q Consensus        14 ~i~~aLt~I~GIG~~~A~~Ic~~lgId   40 (122)
                      .+.-.|+.+.|||++.|..+ +++||+
T Consensus         7 ~l~~~i~~lkGvGpk~~~~L-~klgI~   32 (180)
T d1gm5a2           7 DLSTDIQYAKGVGPNRKKKL-KKLGIE   32 (180)
T ss_dssp             CSCCCSSSSSSCCHHHHHHH-HTTTCC
T ss_pred             CCCCCHHHCCCCCHHHHHHH-HHHCCC
T ss_conf             78997144388689999999-980999


No 34 
>d2edua1 a.60.2.7 (A:8-98) KIF22, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}
Probab=43.14  E-value=6.5  Score=18.15  Aligned_cols=42  Identities=21%  Similarity=0.189  Sum_probs=31.1

Q ss_pred             EEEEEECCCHHHHHHHHHHC-------CCCHHHHHCCCCHHHHHHHHHH
Q ss_conf             43120071768999999980-------8882120022798999999986
Q gi|254780239|r   18 ALCYIHGIGFKSSQDICNKL-------AIPPERRVHQLVESEVIQIRQA   59 (122)
Q Consensus        18 aLt~I~GIG~~~A~~Ic~~l-------gId~~~kv~~Lt~~qi~~l~~~   59 (122)
                      -|..+.|||+..|..|...=       .++.=.++..+++..+++|.+.
T Consensus        34 eL~~lpgig~~~A~~II~yR~~~G~f~sledL~~V~Gi~~k~~eki~k~   82 (91)
T d2edua1          34 DLRSLQRIGPKKAQLIVGWRELHGPFSQVEDLERVEGITGKQMESFLKA   82 (91)
T ss_dssp             HHHHSTTCCHHHHHHHHHHHHHHCCCSSGGGGGGSTTCCHHHHHHHHHH
T ss_pred             HHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHCCCCCCHHHHHHHHHC
T ss_conf             9964789899999999999998599788999800889899999999981


No 35 
>d1ul1x1 a.60.7.1 (X:218-357) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]}
Probab=40.00  E-value=6.9  Score=18.00  Aligned_cols=20  Identities=35%  Similarity=0.366  Sum_probs=17.2

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        19 pgv~gIG~ktA~kli~~~~~   38 (140)
T d1ul1x1          19 ESIRGIGPKRAVDLIQKHKS   38 (140)
T ss_dssp             CCCTTCCHHHHHHHHHHSSS
T ss_pred             CCCCCCCHHHHHHHHHHHCC
T ss_conf             89998239999999999399


No 36 
>d1jiha2 e.8.1.7 (A:1-389) DNA polymerase eta {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=38.33  E-value=3.8  Score=19.64  Aligned_cols=26  Identities=15%  Similarity=0.259  Sum_probs=22.3

Q ss_pred             EEEEEEECCCHHHHHHHHHHCCCCHH
Q ss_conf             64312007176899999998088821
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNKLAIPPE   42 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~lgId~~   42 (122)
                      ..+++|.|||..++.++++.+|+..-
T Consensus       300 lpi~ki~GIG~k~~kkL~~~lgi~t~  325 (389)
T d1jiha2         300 FEITSFWTLGGVLGKELIDVLDLPHE  325 (389)
T ss_dssp             CCGGGSGGGSSHHHHHHHHHTTCCSS
T ss_pred             CCHHHCCCCCHHHHHHHHHHHCCCCC
T ss_conf             87202078788999999998489761


No 37 
>d1rxwa1 a.60.7.1 (A:220-324) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
Probab=38.26  E-value=7.3  Score=17.83  Aligned_cols=19  Identities=16%  Similarity=0.312  Sum_probs=16.9

Q ss_pred             EEEECCCHHHHHHHHHHCC
Q ss_conf             1200717689999999808
Q gi|254780239|r   20 CYIHGIGFKSSQDICNKLA   38 (122)
Q Consensus        20 t~I~GIG~~~A~~Ic~~lg   38 (122)
                      ..|.|||+.+|..+..+.|
T Consensus        19 pGV~GIG~ktA~kli~~~g   37 (105)
T d1rxwa1          19 EGVKGVGVKKALNYIKTYG   37 (105)
T ss_dssp             CCCTTCCHHHHHHHHHHHS
T ss_pred             CCCCCCCHHHHHHHHHHHC
T ss_conf             8999937899999999939


No 38 
>d1kg2a_ a.96.1.2 (A:) Catalytic domain of MutY {Escherichia coli [TaxId: 562]}
Probab=37.82  E-value=5.1  Score=18.84  Aligned_cols=40  Identities=10%  Similarity=0.120  Sum_probs=25.1

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       109 ~~L~~LpGVG~kTA~~il~~a~~~~~~----~vD~~v~Rv~~Rl  148 (224)
T d1kg2a_         109 EEVAALPGVGRSTAGAILSLSLGKHFP----ILDGNVKRVLARC  148 (224)
T ss_dssp             HHHHTSTTCCHHHHHHHHHHHHCCSCC----CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCC----CCCCHHHHHHHHH
T ss_conf             999999820144568999876401001----1140199998896


No 39 
>d1xo1a1 a.60.7.1 (A:186-290) T5 5'-exonuclease {Bacteriophage T5 [TaxId: 10726]}
Probab=36.26  E-value=8.4  Score=17.46  Aligned_cols=20  Identities=25%  Similarity=0.431  Sum_probs=17.3

Q ss_pred             EEEEECCCHHHHHHHHHHCC
Q ss_conf             31200717689999999808
Q gi|254780239|r   19 LCYIHGIGFKSSQDICNKLA   38 (122)
Q Consensus        19 Lt~I~GIG~~~A~~Ic~~lg   38 (122)
                      +..|.|||+.+|..++...|
T Consensus        21 ipGV~GiG~KtA~kli~~~g   40 (105)
T d1xo1a1          21 IRGVEGIGAKRGYNIIREFG   40 (105)
T ss_dssp             BCCCTTCCHHHHHHHHHHHC
T ss_pred             CCCCCCCCHHHHHHHHHHCC
T ss_conf             76758847899999998702


No 40 
>d1keaa_ a.96.1.2 (A:) Thymine-DNA glycosylase {Archaeon Methanobacterium thermoformicicum [TaxId: 145262]}
Probab=36.21  E-value=5.8  Score=18.46  Aligned_cols=39  Identities=10%  Similarity=0.183  Sum_probs=24.9

Q ss_pred             EEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHH
Q ss_conf             6643120071768999999980888212002279899999998
Q gi|254780239|r   16 VRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQ   58 (122)
Q Consensus        16 ~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~   58 (122)
                      .-.|..+-|||+.+|..|+..+-=.|.    -.-+..+..+-.
T Consensus       112 ~~~L~~LpGVG~kTA~~il~~~~~~~~----~~vD~~v~Rv~~  150 (217)
T d1keaa_         112 RKAILDLPGVGKYTCAAVMCLAFGKKA----AMVDANFVRVIN  150 (217)
T ss_dssp             HHHHHTSTTCCHHHHHHHHHHTTCCCC----CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCC----CCCCCCHHHHHH
T ss_conf             588998876424666788987458732----000421101222


No 41 
>d1rrqa1 a.96.1.2 (A:9-229) Catalytic domain of MutY {Bacillus stearothermophilus [TaxId: 1422]}
Probab=35.24  E-value=5.9  Score=18.43  Aligned_cols=40  Identities=15%  Similarity=0.250  Sum_probs=25.4

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       107 ~~Ll~LpGIG~kTA~~il~~a~~~p~----~~VDt~v~Rv~~Rl  146 (221)
T d1rrqa1         107 DEFSRLKGVGPYTVGAVLSLAYGVPE----PAVNGNVMRVLSRL  146 (221)
T ss_dssp             HHHHTSTTCCHHHHHHHHHHHTCCCC----CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCC----CCCCCCHHHHHHHH
T ss_conf             99998887504788899999855864----35575087777776


No 42 
>d1a77a1 a.60.7.1 (A:209-316) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Methanococcus jannaschii [TaxId: 2190]}
Probab=34.31  E-value=8.1  Score=17.55  Aligned_cols=19  Identities=26%  Similarity=0.476  Sum_probs=16.4

Q ss_pred             EEECCCHHHHHHHHHHCCC
Q ss_conf             2007176899999998088
Q gi|254780239|r   21 YIHGIGFKSSQDICNKLAI   39 (122)
Q Consensus        21 ~I~GIG~~~A~~Ic~~lgI   39 (122)
                      .|.|||+.+|..+.++.|-
T Consensus        21 GV~GIGpktA~klIk~~g~   39 (108)
T d1a77a1          21 GVKGIGFKRAYELVRSGVA   39 (108)
T ss_dssp             CSTTCCHHHHHHHHHTTCH
T ss_pred             CCCCCCHHHHHHHHHHCCC
T ss_conf             8999178999999998388


No 43 
>d1xbpg1 a.4.7.1 (G:72-143) Ribosomal protein L11, C-terminal domain {Deinococcus radiodurans [TaxId: 1299]}
Probab=32.28  E-value=16  Score=15.71  Aligned_cols=51  Identities=18%  Similarity=0.107  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHCCCCH------HHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHH
Q ss_conf             689999999808882------1200227989999999861245643337889999999
Q gi|254780239|r   27 FKSSQDICNKLAIPP------ERRVHQLVESEVIQIRQAIEQDYQVEGDLRRTVAMNI   78 (122)
Q Consensus        27 ~~~A~~Ic~~lgId~------~~kv~~Lt~~qi~~l~~~I~~~~~i~~~L~~~~~~~i   78 (122)
                      |.+|..|.+.+|++.      ...++++|-+|+..|-+.-..+ +...||+..++.=+
T Consensus         1 Pp~s~ll~kaagi~kGs~~p~~~~vG~it~~~i~eIAk~K~~d-l~~~~l~~~~k~V~   57 (72)
T d1xbpg1           1 PPMSYLIRKAAGIGKGSSTPNKAKVGKLNWDQVLEIAKTKMPD-LNAGSVEAAANTVA   57 (72)
T ss_pred             CCHHHHHHHHHCCCCCCCCCCCCHHCCCCHHHHHHHHHHHHHH-CCCCCHHHHHHHHH
T ss_conf             9889999999786867899998311130899999999999886-38999999999978


No 44 
>d1orna_ a.96.1.1 (A:) Endonuclease III {Escherichia coli [TaxId: 562]}
Probab=31.48  E-value=7.7  Score=17.69  Aligned_cols=47  Identities=19%  Similarity=0.305  Sum_probs=27.2

Q ss_pred             CCCCCCCEEEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHH
Q ss_conf             758998576664312007176899999998088821200227989999999861
Q gi|254780239|r    7 VNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAI   60 (122)
Q Consensus         7 ~~i~~~K~i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I   60 (122)
                      -++|.+   .-.|..+-|||+.+|..|+..+-=-|    .-.-+..+..+-.-+
T Consensus       103 g~vp~~---~~~L~~LpGVG~kTA~~il~~a~~~~----~~~VDtnv~RV~~Rl  149 (214)
T d1orna_         103 GEVPRD---RDELMKLPGVGRKTANVVVSVAFGVP----AIAVDTHVERVSKRL  149 (214)
T ss_dssp             TSCCSC---HHHHTTSTTCCHHHHHHHHHHHHCCC----CCCCCHHHHHHHHHH
T ss_pred             CCCCCC---HHHHHHCCCCCCCHHHHHHHHHHCCC----CCCCCCHHHHHHHHH
T ss_conf             978888---99997186866326778999870587----555552388899998


No 45 
>d2abka_ a.96.1.1 (A:) Endonuclease III {Escherichia coli [TaxId: 562]}
Probab=30.09  E-value=7.8  Score=17.68  Aligned_cols=22  Identities=27%  Similarity=0.320  Sum_probs=18.1

Q ss_pred             EEEEEEECCCHHHHHHHHHHCC
Q ss_conf             6431200717689999999808
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNKLA   38 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~lg   38 (122)
                      -.|..+-|||+.+|..|+..+-
T Consensus       109 ~~L~~LpGVG~~TA~~Il~~a~  130 (211)
T d2abka_         109 AALEALPGVGRKTANVVLNTAF  130 (211)
T ss_dssp             HHHHHSTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCHHHHHHHHHHHH
T ss_conf             9999998605178999999985


No 46 
>d1vqoi1 a.4.7.1 (I:71-140) Ribosomal protein L11, C-terminal domain {Archaeon Haloarcula marismortui [TaxId: 2238]}
Probab=29.43  E-value=18  Score=15.41  Aligned_cols=49  Identities=20%  Similarity=0.152  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHCCCC-----H-HHHHCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHH
Q ss_conf             68999999980888-----2-12002279899999998612456433378899999
Q gi|254780239|r   27 FKSSQDICNKLAIP-----P-ERRVHQLVESEVIQIRQAIEQDYQVEGDLRRTVAM   76 (122)
Q Consensus        27 ~~~A~~Ic~~lgId-----~-~~kv~~Lt~~qi~~l~~~I~~~~~i~~~L~~~~~~   76 (122)
                      |.+|..|.+.+|++     | ...++++|-+|+..|-+.-. +.+...||...++.
T Consensus         3 Pp~s~ll~ka~gi~kGs~~p~~~~vg~it~~~i~eIAk~K~-~dl~~~~l~~~~k~   57 (70)
T d1vqoi1           3 PPTAELIKDEAGFETGSGEPQEDFVADLSVDQVKQIAEQKH-PDLLSYDLTNAAKE   57 (70)
T ss_dssp             CCHHHHHHHHTCCSSCCSSTTTSCCEEECHHHHHHHHHHCT-TTCCCSSHHHHHHH
T ss_pred             CCHHHHHHHHHCCCCCCCCCCCEEEEEECHHHHHHHHHHHH-HHCCCCCHHHHHHH
T ss_conf             97799999997889889999980532458999999999987-74179999999999


No 47 
>d1jx4a2 e.8.1.7 (A:1-240) DinB homolog (DBH) {Archaeon Sulfolobus solfataricus, DNA polymerase IV [TaxId: 2287]}
Probab=29.25  E-value=18  Score=15.39  Aligned_cols=40  Identities=20%  Similarity=0.357  Sum_probs=22.4

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       178 lpl~~l~GiG~~~~~~L-~~~Gi~---t~gdl~~~~~~~L~~~f  217 (240)
T d1jx4a2         178 LDIADVPGIGNITAEKL-KKLGIN---KLVDTLSIEFDKLKGMI  217 (240)
T ss_dssp             SBGGGSTTCCHHHHHHH-HTTTCC---BGGGGGSSCHHHHHHHH
T ss_pred             CCHHHCCCCCHHHHHHH-HHHCCC---CHHHHHCCCHHHHHHHH
T ss_conf             42534179977899999-993897---69998709999999997


No 48 
>d1zeta2 e.8.1.7 (A:27-299) DNA polymerase iota {Human (Homo sapiens) [TaxId: 9606]}
Probab=29.01  E-value=18  Score=15.38  Aligned_cols=21  Identities=33%  Similarity=0.596  Sum_probs=10.8

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       210 v~~l~GiG~~~~~~L-~~~GI~  230 (273)
T d1zeta2         210 IKEIPGIGYKTAKCL-EALGIN  230 (273)
T ss_dssp             GGGSTTCCHHHHHHH-HTTTCC
T ss_pred             HHHHCCCCHHHHHHH-HHHCCC
T ss_conf             677559778999999-990997


No 49 
>d1im4a_ e.8.1.7 (A:) DinB homolog (DBH) {Archaeon Sulfolobus solfataricus [TaxId: 2287]}
Probab=25.56  E-value=15  Score=15.89  Aligned_cols=21  Identities=19%  Similarity=0.251  Sum_probs=9.8

Q ss_pred             HHHHHHHHHHHHHHCCCCCCH
Q ss_conf             889999999999730310012
Q gi|254780239|r   70 LRRTVAMNIKRLMDLGCYRGL   90 (122)
Q Consensus        70 L~~~~~~~i~rl~~i~syrG~   90 (122)
                      +-+.++.+|...-.+-|-=|+
T Consensus       129 ~a~~ir~~I~~~~gl~~SiGI  149 (209)
T d1im4a_         129 LARKIKQEILEKEKITVTVGV  149 (209)
T ss_dssp             HHHHHHHHHHHHHCCCEEEEE
T ss_pred             HHHHHHHHHHHHCCCCEEECC
T ss_conf             999999999873487554430


No 50 
>d1ngna_ a.96.1.2 (A:) Mismatch-specific thymine glycosylase domain of the methyl-GpG binding protein mbd4 {Mouse (Mus musculus) [TaxId: 10090]}
Probab=25.27  E-value=12  Score=16.52  Aligned_cols=20  Identities=20%  Similarity=0.077  Sum_probs=13.8

Q ss_pred             EEEEEECCCHHHHHHHHHHC
Q ss_conf             43120071768999999980
Q gi|254780239|r   18 ALCYIHGIGFKSSQDICNKL   37 (122)
Q Consensus        18 aLt~I~GIG~~~A~~Ic~~l   37 (122)
                      .|.++.|||+.+|..++--+
T Consensus        94 ~l~~LpGVG~~tad~~~if~  113 (144)
T d1ngna_          94 YPIELHGIGKYGNDSYRIFC  113 (144)
T ss_dssp             SGGGSTTCCHHHHHHHHHHT
T ss_pred             HHHHCCCCCHHHHHHHHHHH
T ss_conf             67866985689999999998


No 51 
>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}
Probab=23.94  E-value=16  Score=15.77  Aligned_cols=57  Identities=12%  Similarity=0.196  Sum_probs=40.0

Q ss_pred             CCCCCCCEEEEEEEEEECCCHHHHHH-HHHHCCCCHHHHHCCCCH--------HHHHHHHHHHCCCC
Q ss_conf             75899857666431200717689999-999808882120022798--------99999998612456
Q gi|254780239|r    7 VNIPRAKRVVRALCYIHGIGFKSSQD-ICNKLAIPPERRVHQLVE--------SEVIQIRQAIEQDY   64 (122)
Q Consensus         7 ~~i~~~K~i~~aLt~I~GIG~~~A~~-Ic~~lgId~~~kv~~Lt~--------~qi~~l~~~I~~~~   64 (122)
                      -++|.++|..++|....|.|.++..+ +++.+ .....++.-++-        +|+....+.+.-++
T Consensus         4 l~~~~~~p~vi~lvGptGvGKTTTiAKLAa~~-~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   69 (213)
T d1vmaa2           4 LNVPPEPPFVIMVVGVNGTGKTTSCGKLAKMF-VDEGKSVVLAAADTFRAAAIEQLKIWGERVGATV   69 (213)
T ss_dssp             CCCCSSSCEEEEEECCTTSSHHHHHHHHHHHH-HHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEE
T ss_pred             CCCCCCCCEEEEEECCCCCCHHHHHHHHHHHH-HHCCCCEEEEEECCCCCCHHHHHHHHHHHCCCCC
T ss_conf             76799999899998999998899999999999-9779906999601334204678887764327641


No 52 
>d1dgsa1 a.60.2.2 (A:401-581) NAD+-dependent DNA ligase, domain 3 {Thermus filiformis [TaxId: 276]}
Probab=20.55  E-value=27  Score=14.37  Aligned_cols=37  Identities=19%  Similarity=0.362  Sum_probs=21.8

Q ss_pred             EEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHH
Q ss_conf             6431200717689999999808882120022798999999
Q gi|254780239|r   17 RALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQI   56 (122)
Q Consensus        17 ~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l   56 (122)
                      +||- |.|||..+|..++...+  ....+.+.+.+++.+|
T Consensus       108 ~aLG-I~~vG~~~Ak~La~~f~--sl~~l~~as~eeL~~I  144 (181)
T d1dgsa1         108 YALG-LPGVGEVLARNLARRFG--TMDRLLEASLEELIEV  144 (181)
T ss_dssp             HHTT-CSSCCHHHHHHHHHTTS--BHHHHTTCCHHHHHTS
T ss_pred             HHHH-HHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHC
T ss_conf             9987-54344778999998762--0025541278988610


No 53 
>d1vdda_ e.49.1.1 (A:) Recombination protein RecR {Deinococcus radiodurans [TaxId: 1299]}
Probab=20.25  E-value=18  Score=15.46  Aligned_cols=74  Identities=27%  Similarity=0.377  Sum_probs=45.3

Q ss_pred             EEEEEEEEECCCHHHHHHHHHHCCCCHHHHHCCCCHHHHHHHHHHHCC----C---------------------CCCCHH
Q ss_conf             666431200717689999999808882120022798999999986124----5---------------------643337
Q gi|254780239|r   15 VVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAIEQ----D---------------------YQVEGD   69 (122)
Q Consensus        15 i~~aLt~I~GIG~~~A~~Ic~~lgId~~~kv~~Lt~~qi~~l~~~I~~----~---------------------~~i~~~   69 (122)
                      +.-+|+++=|||+++|..+...+=-.+...+.+|.+.=. .+.+-|..    .                     ..+|+ 
T Consensus        10 LI~~l~kLPGIG~KsA~Rla~~LL~~~~~~~~~l~~~l~-~~~~~I~~C~~C~~l~e~~~C~iC~d~~Rd~~~iCVVE~-   87 (199)
T d1vdda_          10 LIRELSRLPGIGPKSAQRLAFHLFEQPREDIERLASALL-EAKRDLHVCPICFNITDAEKCDVCADPSRDQRTICVVEE-   87 (199)
T ss_dssp             HHHHHHTSTTCCHHHHHHHHHHHSSSCHHHHHHHHHHHH-HHHHHCEECSSSCCEESSSSCHHHHCSSSCTTEEEEESS-
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHH-HHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEC-
T ss_conf             999998789988999999999998399889999999999-999860989887704267774411476777646999966-


Q ss_pred             HHHHHHHHHHHHHHCCCCCCHHHHCC
Q ss_conf             88999999999973031001233179
Q gi|254780239|r   70 LRRTVAMNIKRLMDLGCYRGLRHRRG   95 (122)
Q Consensus        70 L~~~~~~~i~rl~~i~syrG~RH~~g   95 (122)
                           ..|+.-+=+.+.|+|+=|..|
T Consensus        88 -----~~Dl~~iE~t~~y~G~YhVL~  108 (199)
T d1vdda_          88 -----PGDVIALERSGEYRGLYHVLH  108 (199)
T ss_dssp             -----HHHHHHTTTTSSCCSEEEECS
T ss_pred             -----HHHHHHHHHCCCCHHHHHHHC
T ss_conf             -----899899985231000155415


Done!