Query         gi|254780818|ref|YP_003065231.1| DNA polymerase III subunit epsilon [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 245
No_of_seqs    190 out of 3233
Neff          7.0 
Searched_HMMs 23785
Date          Mon May 30 12:56:46 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780818.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 2gui_A DNA polymerase III epsi 100.0 4.4E-40 1.8E-44  269.1   9.8  174    3-179     5-186 (194)
  2 2p1j_A POLIII, DNA polymerase  100.0 2.6E-39 1.1E-43  264.3   9.1  169    7-182    12-180 (186)
  3 2is3_A Ribonuclease T; RNAse,  100.0 2.4E-38   1E-42  258.2   8.2  175    5-181    15-204 (215)
  4 2ioc_B Three prime repair exon 100.0 4.4E-36 1.8E-40  244.1   4.2  169    4-176     8-213 (242)
  5 1y97_A Three prime repair exon 100.0 4.8E-35   2E-39  237.6   4.3  169    5-176     8-208 (238)
  6 2xri_A ERI1 exoribonuclease 3; 100.0 3.6E-34 1.5E-38  232.1   7.9  170    8-180    32-216 (224)
  7 3cg7_A CRN-4, cell death-relat 100.0 1.1E-33 4.7E-38  229.0   8.6  173    8-183    20-214 (308)
  8 1zbh_A 3'-5' exonuclease ERI1; 100.0 1.9E-33 8.1E-38  227.6   8.4  173    8-183    79-268 (299)
  9 1wlj_A Interferon stimulated g 100.0 4.7E-34   2E-38  231.4   5.1  158    8-175     6-166 (189)
 10 1zbu_A ERI-1 homolog, 3'-5' ex 100.0 1.1E-33 4.8E-38  229.0   5.3  173    9-184   130-319 (349)
 11 2qxf_A Exodeoxyribonuclease I; 100.0 9.5E-33   4E-37  223.2   7.8  173    1-176     1-199 (482)
 12 2f96_A Ribonuclease T; RNAse,  100.0 6.5E-32 2.7E-36  218.0   6.0  173   10-183    32-218 (224)
 13 1w0h_A 3'-5' exonuclease ERI1; 100.0 2.5E-30 1.1E-34  208.1   8.6  175    8-183    11-200 (204)
 14 2gbz_A Oligoribonuclease; ORN,  99.8 5.8E-22 2.5E-26  155.8   3.9  152    8-173    10-176 (194)
 15 2igi_A Oligoribonuclease; RNAs  99.8 3.7E-21 1.6E-25  150.8   3.0  157    8-174     6-173 (180)
 16 1x9m_A DNA polymerase; DNA plo  99.4 2.9E-13 1.2E-17  101.5   5.1  138   10-177     2-182 (698)
 17 2kfn_A Klenow fragment of DNA   99.2   4E-11 1.7E-15   88.1   7.2  117    7-149    26-143 (605)
 18 2hhv_A DNA polymerase I; DNA r  99.0 9.6E-10   4E-14   79.5   6.3  131    8-176    18-167 (580)
 19 2d5r_A CCR4-NOT transcription   98.8 9.8E-09 4.1E-13   73.2   5.6  169    8-178    25-235 (252)
 20 1yt3_A Ribonuclease D, RNAse D  98.6   6E-08 2.5E-12   68.3   6.7  136    7-180    22-172 (375)
 21 3d45_A Poly(A)-specific ribonu  98.6 7.8E-08 3.3E-12   67.6   7.1   88   88-176   273-390 (507)
 22 2a1r_A Poly(A)-specific ribonu  98.6 3.2E-07 1.3E-11   63.7   9.4   87   89-176   279-395 (430)
 23 2gv9_A DNA polymerase; polymer  98.5 7.8E-07 3.3E-11   61.3  10.0  167    6-174   319-550 (1193)
 24 1uoc_A POP2; hydrolase, DEDD n  98.5 1.6E-07 6.7E-12   65.6   5.4  167    7-176    38-263 (289)
 25 2p51_A SPCC18.06C protein; DED  98.3 6.7E-07 2.8E-11   61.7   5.9  168    7-176    45-254 (333)
 26 3iay_A DNA polymerase delta ca  98.3 1.1E-06 4.8E-11   60.3   6.9  157    6-173   248-464 (919)
 27 2hbj_A Exosome complex exonucl  98.3 1.5E-06 6.5E-11   59.5   7.1  133    6-176   105-252 (410)
 28 3cym_A Uncharacterized protein  98.1 3.9E-06 1.7E-10   56.9   5.1  129    9-176    40-185 (440)
 29 1qht_A Protein (DNA polymerase  98.0   2E-05 8.3E-10   52.5   7.3  150    5-174   133-326 (775)
 30 2py5_A DNA polymerase; protein  97.8 3.3E-05 1.4E-09   51.1   6.5  134    7-175     6-181 (575)
 31 3k59_A POL II, DNA polymerase   97.7 0.00023 9.5E-09   45.9   9.0  151    6-174   152-349 (786)
 32 2e6m_A Werner syndrome ATP-dep  97.6 0.00012   5E-09   47.7   6.4   88   83-176    88-193 (208)
 33 1s5j_A DNA polymerase I; repli  97.5 0.00021 8.9E-09   46.1   6.7  154    6-170   189-385 (847)
 34 3m8r_A DNA polymerase I, therm  97.2 0.00056 2.4E-08   43.5   5.4  125   14-176     2-126 (540)
 35 3nae_A DNA polymerase, GP43; R  96.5  0.0014   6E-08   40.9   3.4  164    5-174   106-338 (903)
 36 1vk0_A Hypothetical protein; h  95.9  0.0026 1.1E-07   39.3   2.0   90   80-175    97-204 (206)
 37 3ikm_A DNA polymerase subunit   94.0   0.014 5.9E-07   34.7   1.2   82   90-175   193-344 (1172)
 38 1noy_A Protein (DNA polymerase  93.5   0.065 2.7E-06   30.6   4.0  165    5-174   104-335 (388)
 39 1bgx_T TAQ DNA polymerase; DNA  92.3   0.078 3.3E-06   30.1   3.0   72   94-176   347-418 (832)
 40 2dfa_A Hypothetical UPF0271 pr  32.7      18 0.00077   15.3   2.0   38  138-175    91-132 (250)
 41 1v6t_A Hypothetical UPF0271 pr  28.2      18 0.00075   15.3   1.3   38  138-175    91-132 (255)
 42 2x5e_A UPF0271 protein PA4511;  28.0      21 0.00087   14.9   1.6   85   78-175    49-138 (252)
 43 1xw8_A UPF0271 protein YBGL; N  25.2      22 0.00092   14.8   1.3   39  137-175    85-127 (252)
 44 3dao_A Putative phosphatse; st  20.3      37  0.0016   13.3   1.8   24    1-24     15-38  (283)

No 1  
>2gui_A DNA polymerase III epsilon subunit; DNA polymerase proofreading domain, transferase; HET: DNA U5P; 1.60A {Escherichia coli} SCOP: c.55.3.5 PDB: 1j54_A* 1j53_A* 2ido_A*
Probab=100.00  E-value=4.4e-40  Score=269.05  Aligned_cols=174  Identities=44%  Similarity=0.782  Sum_probs=156.4

Q ss_pred             CCCCCCEEEEECCCCCCCCC-----CCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCC
Q ss_conf             66777589998467888888-----8889999999999998803137989858882288657242021012322485210
Q gi|254780818|r    3 RKNKMRKIVFDIETTGLDSK-----NDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFS   77 (245)
Q Consensus         3 ~~~~mr~iv~D~ETTGl~~~-----~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~   77 (245)
                      ...++|+||||||||||+|.     .|||||||||++.++..++++|+.+|+|. .++.+.+.++|||+++++.++|+|.
T Consensus         5 ~~~~~r~vv~D~ETTGl~~~~~~~~~drIieigav~~~~~~~~~~~~~~~v~P~-~~~~~~~~~i~gi~~e~~~~~~~~~   83 (194)
T 2gui_A            5 STAITRQIVLDTETTGMNQIGAHYEGHKIIEIGAVEVVNRRLTGNNFHVYLKPD-RLVDPEAFGVHGIADEFLLDKPTFA   83 (194)
T ss_dssp             ---CCEEEEEEEEESCCCSSSSTTTTCCEEEEEEEEEETTEECSCCEEEECCCS-SCCCHHHHHHHCCCHHHHTTSCCHH
T ss_pred             CCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEEEEEECCEEECEEEEEEECCC-CCCCHHHHHHHCCCHHHHHHHHHHH
T ss_conf             878883799997379998764567895499999999999999740789998999-8655778987075576643345589


Q ss_pred             HHHHHHHHHHHCCCCEEEEECCCCCCCEEEECHHCCCCCCCC---CCHHCCCHHCCCCCCCCCCCCHHHHHHHHCCCCCC
Q ss_conf             023447775300232023102322431121000001122221---00001100000001776422237899971875455
Q gi|254780818|r   78 SIFSEFWDFFNEQNAEWIAHNAKFDVGFINAELQRINKDPLD---PSRIIDTLSIARRKHPSSRNDLNSLCKRYGITISH  154 (245)
Q Consensus        78 ev~~~f~~fi~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~---~~~~iDTl~lar~~~p~~~~~L~~l~~~~~i~~~~  154 (245)
                      +++.+|.+|++  +.++|+||+.||..+++..+.+++.+...   .+.++|++.++|..+|+.+++|+.||.+|+++..+
T Consensus        84 ~v~~~~~~~l~--~~~~v~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~p~~~~~L~~l~~~~~i~~~~  161 (194)
T 2gui_A           84 EVADEFMDYIR--GAELVIHNAAFDIGFMDYEFSLLKRDIPKTNTFCKVTDSLAVARKMFPGKRNSLDALCARYEIDNSK  161 (194)
T ss_dssp             HHHHHHHHHHT--TSEEEETTHHHHHHHHHHHHHHTCSCCCCGGGTSEEEEHHHHHHHHSTTSCCSHHHHHHHTTCCCTT
T ss_pred             HHHHHHHHHHC--CCEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCCCCEEHHHHHHHHCCCCCCCHHHHHHHCCCCCCC
T ss_conf             98899998708--9738997851319999999998099976555442000199999997489878899999985999899


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCC
Q ss_conf             5666402699999999999973057
Q gi|254780818|r  155 RSKHGALLDSHLLSDVYIKMMVGGS  179 (245)
Q Consensus       155 r~~H~Al~Da~~~a~v~~~ll~g~~  179 (245)
                      +++|+||+||++|++||++|++|+.
T Consensus       162 ~~~H~Al~Da~~t~~l~~~m~~~~~  186 (194)
T 2gui_A          162 RTLHGALLDAQILAEVYLAMTGGQT  186 (194)
T ss_dssp             CSSCCHHHHHHHHHHHHHHHTC---
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCH
T ss_conf             9874889999999999999977855


No 2  
>2p1j_A POLIII, DNA polymerase III POLC-type; structural genomics, exonuclease, PSI-2, protein structure initiative; HET: DNA; 2.50A {Thermotoga maritima MSB8}
Probab=100.00  E-value=2.6e-39  Score=264.29  Aligned_cols=169  Identities=29%  Similarity=0.462  Sum_probs=151.1

Q ss_pred             CCEEEEECCCCCCCCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf             75899984678888888889999999999998803137989858882288657242021012322485210023447775
Q gi|254780818|r    7 MRKIVFDIETTGLDSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFSEFWDF   86 (245)
Q Consensus         7 mr~iv~D~ETTGl~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f~~f   86 (245)
                      .++||||+|||||+|.+|+|||||+|.+.++.++ ++|+.+|+|+ .++++.+.++|||+++++.++|+|.+++++|.+|
T Consensus        12 ~~yvviD~ETTGl~~~~~~Iieig~v~~~~~~i~-~~~~~~v~p~-~~~~~~~~~i~gi~~~~~~~~~~~~~~~~~~~~~   89 (186)
T 2p1j_A           12 ATFVVLDFETTGLDPQVDEIIEIGAVKIQGGQIV-DEYHTLIKPS-REISRKSSEITGITQEMLENKRSIEEVLPEFLGF   89 (186)
T ss_dssp             -CEEEEEEEESCSCTTTCCEEEEEEEEEETTEEE-EEEEEECBCS-SCCCHHHHHHHCCCHHHHTTCCBHHHHHHHHHHH
T ss_pred             CCEEEEEEECCCCCCCCCEEEEEEEEEEECCEEE-EEEEEEECCC-CCCCHHHHHHCCCCHHHCCCCCHHHHHHHHHHHH
T ss_conf             8499999872899999986899999999899687-7889986688-7689899987098756500212199999999974


Q ss_pred             HHCCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHH
Q ss_conf             30023202310232243112100000112222100001100000001776422237899971875455566640269999
Q gi|254780818|r   87 FNEQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPSSRNDLNSLCKRYGITISHRSKHGALLDSHL  166 (245)
Q Consensus        87 i~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~~~~~L~~l~~~~~i~~~~r~~H~Al~Da~~  166 (245)
                      ++  +.++||||+.||++||++++.+.+...+ .++++||+.+++.++|..+++|+++|++||++..  ++|+|+.||.+
T Consensus        90 ~~--~~~~v~hn~~fD~~~L~~~~~~~~~~~~-~~~~id~~~~~~~~~~~~~~~L~~l~~~~gi~~~--~~H~Al~Da~~  164 (186)
T 2p1j_A           90 LE--DSIIVAHNANFDYRFLRLWIKKVMGLDW-ERPYIDTLALAKSLLKLRSYSLDSVVEKLGLGPF--RHHRALDDARV  164 (186)
T ss_dssp             SS--SCEEEETTHHHHHHHHHHHHHHHHCCCC-CCCEEEHHHHHHHHTCCSCCSHHHHHHHTTCCST--TCCHHHHHHHH
T ss_pred             CC--CCEEEEECHHHHHHHHHHHHHHHCCCCC-CCCCCCHHHHHHHHCCCCCCCHHHHHHHCCCCCC--CCCCHHHHHHH
T ss_conf             69--9989997789879999999998449876-6762020999998656789889999998699989--89788999999


Q ss_pred             HHHHHHHHHHCCCCCC
Q ss_conf             9999999973057666
Q gi|254780818|r  167 LSDVYIKMMVGGSQIN  182 (245)
Q Consensus       167 ~a~v~~~ll~g~~q~~  182 (245)
                      |++||.+|+...++.|
T Consensus       165 t~~l~~~l~~~~k~~G  180 (186)
T 2p1j_A          165 TAQVFLRFVEMMKKEG  180 (186)
T ss_dssp             HHHHHHHHTTCC----
T ss_pred             HHHHHHHHHHHHHHCC
T ss_conf             9999999999998249


No 3  
>2is3_A Ribonuclease T; RNAse, exoribonuclease, exonuclease, hydrolase, stable RNA maturation, tRNA END-turnover; 3.10A {Escherichia coli K12}
Probab=100.00  E-value=2.4e-38  Score=258.24  Aligned_cols=175  Identities=25%  Similarity=0.383  Sum_probs=144.2

Q ss_pred             CCCCEEEEECCCCCCCCCCCEEEEEEEEEEEC----CEECCCEEEEEECC-CCCCCCHHHEEECCCCCCC-CCCCCCCCH
Q ss_conf             77758999846788888888899999999999----98803137989858-8822886572420210123-224852100
Q gi|254780818|r    5 NKMRKIVFDIETTGLDSKNDRIIEIGAVELLD----YSKTNRTFQVFLCP-NGRKNSPEALKLHGITDEF-LKDKPSFSS   78 (245)
Q Consensus         5 ~~mr~iv~D~ETTGl~~~~d~Iieigav~i~~----~~~~~~~f~~~i~P-~~~~i~~~~~~ihGIt~~~-l~~~p~f~e   78 (245)
                      .+++.||||+|||||+|..|+|||||||.+..    ....+++|+.+++| ...++++++.+||||+++. +.+++++.+
T Consensus        15 ~~~~~Vv~D~ETTGl~p~~d~IIeIgav~i~~~~~~~~~~~~~~~~~~~p~~~~~i~~~~~~i~gi~~~~~~~~~~~~~~   94 (215)
T 2is3_A           15 RGFYPVVIDVETAGFNAKTDALLEIAAITLKMDEQGWLMPDTTLHFHVEPFVGANLQPEALAFNGIDPNDPDRGAVSEYE   94 (215)
T ss_dssp             TTEEEEEEEEEESSSCTTTSCEEEEEEEEEEECTTSCEEEEEEEEEEBCCCTTCCCCHHHHHHHCCCTTCSTTCCBCHHH
T ss_pred             CCCCEEEEEEECCCCCCCCCCCEEEEEEEEEECCCCCEECCCEEEEEECCCCCCCCCHHHHHHHCCCHHHHHHCCCCHHH
T ss_conf             28985999837999999998328999999895688868335359998526889998856876025213878707986125


Q ss_pred             HHHHHHHHHH-------CCCCEEEEECCCCCCCEEEECHHCCCCCC--CCCCHHCCCHHCCCCCCCCCCCCHHHHHHHHC
Q ss_conf             2344777530-------02320231023224311210000011222--21000011000000017764222378999718
Q gi|254780818|r   79 IFSEFWDFFN-------EQNAEWIAHNAKFDVGFINAELQRINKDP--LDPSRIIDTLSIARRKHPSSRNDLNSLCKRYG  149 (245)
Q Consensus        79 v~~~f~~fi~-------~~~~~lVaHNa~FD~~fL~~el~r~~~~~--~~~~~~iDTl~lar~~~p~~~~~L~~l~~~~~  149 (245)
                      ++.++.+++.       ..++++||||++||++||++++.|+|.+.  +....++||+.+++..++  +++|+.+|.+||
T Consensus        95 ~~~~~~~~i~~~~~~~~~~~~~lVaHNa~FD~~fL~~~~~r~~l~~~~~~~~~~iDt~~~~~~~~~--~~~L~~l~~~~~  172 (215)
T 2is3_A           95 ALHEIFKVVRKGIKASGCNRAIMVAHNANFDHSFMMAAAERASLKRNPFHPFATFDTAALAGLALG--QTVLSKACQTAG  172 (215)
T ss_dssp             HHHHHHHHHHHHHHHHTCSEEEEEETTHHHHHHHHHHHHHHHTCTTCCEEEEEEEEHHHHHHHHHS--CCSHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHC--CCCHHHHHHHCC
T ss_conf             359999999999876314655010037687699999999983999886533016779999988736--324999999859


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             75455566640269999999999997305766
Q gi|254780818|r  150 ITISHRSKHGALLDSHLLSDVYIKMMVGGSQI  181 (245)
Q Consensus       150 i~~~~r~~H~Al~Da~~~a~v~~~ll~g~~q~  181 (245)
                      ++.+++++|+||+||++||+||.+|+...++.
T Consensus       173 i~~~~~~~H~Al~Da~~ta~lf~~l~~~~~~~  204 (215)
T 2is3_A          173 MDFDSTQAHSALYDTERTAVLFCEIVNRWKRL  204 (215)
T ss_dssp             CCCCTTTTTCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             99999976786999999999999999999975


No 4  
>2ioc_B Three prime repair exonuclease 1; proline helix, nucleotide complex, DNAQ family, hydrolase; HET: D5M; 2.10A {Mus musculus} SCOP: c.55.3.5 PDB: 3b6o_A* 2o4g_A* 3b6p_A* 2o4i_A 2oa8_A
Probab=100.00  E-value=4.4e-36  Score=244.10  Aligned_cols=169  Identities=20%  Similarity=0.282  Sum_probs=130.7

Q ss_pred             CCCCC-EEEEECCCCCCCCCCCEEEEEEEEEEECCEE------------------CCCEEEEEECCCCCCCCHHHEEECC
Q ss_conf             67775-8999846788888888899999999999988------------------0313798985888228865724202
Q gi|254780818|r    4 KNKMR-KIVFDIETTGLDSKNDRIIEIGAVELLDYSK------------------TNRTFQVFLCPNGRKNSPEALKLHG   64 (245)
Q Consensus         4 ~~~mr-~iv~D~ETTGl~~~~d~Iieigav~i~~~~~------------------~~~~f~~~i~P~~~~i~~~~~~ihG   64 (245)
                      ...|+ +||||||||||++.+|+|||||||.+.+...                  +.+.|+.+|||. ++|++++.+|||
T Consensus         8 ~~~~~t~v~~D~ETTGl~~~~~~Iieia~v~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~lv~P~-~~I~~~a~~ihG   86 (242)
T 2ioc_B            8 HGHMQTLIFLDLEATGLPSSRPEVTELCLLAVHRRALENTSISQGHPPPVPRPPRVVDKLSLCIAPG-KACSPGASEITG   86 (242)
T ss_dssp             CCCCSEEEEEEEEESSCGGGCCCEEEEEEEEEEHHHHHTSCCCCSSSCCCCCCCSSCEEEEEECCCS-SCCCHHHHHHHC
T ss_pred             CCCCCEEEEEEEECCCCCCCCCCEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHHHEECCC-CCCCHHHHHHCC
T ss_conf             9888859999988899699998768999999876753465222111113566541101233012889-979988998629


Q ss_pred             CCCCCCCCC--CCCCH----HHHHHHHHHHCCCCEEEEECC-CCCCCEEEECHHCCCCCCCC-CCHHCCCHHCCCCCCCC
Q ss_conf             101232248--52100----234477753002320231023-22431121000001122221-00001100000001776
Q gi|254780818|r   65 ITDEFLKDK--PSFSS----IFSEFWDFFNEQNAEWIAHNA-KFDVGFINAELQRINKDPLD-PSRIIDTLSIARRKHPS  136 (245)
Q Consensus        65 It~~~l~~~--p~f~e----v~~~f~~fi~~~~~~lVaHNa-~FD~~fL~~el~r~~~~~~~-~~~~iDTl~lar~~~p~  136 (245)
                      ||+++|.++  |.|.+    ++..|.++.. .+.++||||+ .||.+||++++.|+|..... ...++||+.++|.+++.
T Consensus        87 It~~~l~~~~~~~~~~~~~~~~~~f~~~~~-~~~~lVahN~~~FD~~~L~~~~~r~~~~~~~~~~~~iDtl~~~~~~~~~  165 (242)
T 2ioc_B           87 LSKAELEVQGRQRFDDNLAILLRAFLQRQP-QPCCLVAHNGDRYDFPLLQTELARLSTPSPLDGTFCVDSIAALKALEQA  165 (242)
T ss_dssp             CCHHHHHHTTCCCSCHHHHHHHHHHHHTSC-SSEEEEETTTTTTHHHHHHHHHHTSSSCCTTTTCEEEEHHHHHHHHHHT
T ss_pred             CCHHHHHHCCCCHHHHHHHHHHHHHHHHCC-CCCEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCEEEEHHHHHHHHHHC
T ss_conf             999999720155056899998999997416-8855998354788999999999985998887788687789999997032


Q ss_pred             ---------CCCCHHHHHHHH-CCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             ---------422237899971-8754555666402699999999999973
Q gi|254780818|r  137 ---------SRNDLNSLCKRY-GITISHRSKHGALLDSHLLSDVYIKMMV  176 (245)
Q Consensus       137 ---------~~~~L~~l~~~~-~i~~~~r~~H~Al~Da~~~a~v~~~ll~  176 (245)
                               .+++|++||++| |++..  ++|+|++||.+|++||+.+..
T Consensus       166 ~~~~~~~~~~~~~L~~l~~~~~g~~~~--~aH~Al~Da~~t~~l~~~~~~  213 (242)
T 2ioc_B          166 SSPSGNGSRKSYSLGSIYTRLYWQAPT--DSHTAEGDVLTLLSICQWKPQ  213 (242)
T ss_dssp             C-------CCCCCHHHHHHHHHSSCCS--STTSHHHHHHHHHHHHTSSHH
T ss_pred             CCCCCCCCCCCCCHHHHHHHHCCCCCC--CCCCHHHHHHHHHHHHHHHHH
T ss_conf             422246776685689999997499998--783889999999999999999


No 5  
>1y97_A Three prime repair exonuclease 2; TREX2, hydrolase; 2.50A {Homo sapiens} SCOP: c.55.3.5
Probab=100.00  E-value=4.8e-35  Score=237.59  Aligned_cols=169  Identities=24%  Similarity=0.318  Sum_probs=133.8

Q ss_pred             CCCCEEEEECCCCCCCCCCCEEEEEEEEEEECCE---------------ECCCEEEEEECCCCCCCCHHHEEECCCCCCC
Q ss_conf             7775899984678888888889999999999998---------------8031379898588822886572420210123
Q gi|254780818|r    5 NKMRKIVFDIETTGLDSKNDRIIEIGAVELLDYS---------------KTNRTFQVFLCPNGRKNSPEALKLHGITDEF   69 (245)
Q Consensus         5 ~~mr~iv~D~ETTGl~~~~d~Iieigav~i~~~~---------------~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~   69 (245)
                      +...+||||+||||+++..|+|||||||.+.+..               .+.+.|+.||+|. +++++.+.+|||||+++
T Consensus         8 ~~~~~vvlD~ETTGl~~~~~~Iiei~~v~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~v~P~-~~i~~~~~~i~git~~~   86 (238)
T 1y97_A            8 RAETFVFLDLEATGLPSVEPEIAELSLFAVHRSSLENPEHDESGALVLPRVLDKLTLCMCPE-RPFTAKASEITGLSSEG   86 (238)
T ss_dssp             CCSEEEEEEEEESSCGGGCCCEEEEEEEEEEHHHHTSCBC---CCCBCCSSCEEEEEECCCS-SCCCHHHHHHHCCCHHH
T ss_pred             CCCEEEEEEEECCCCCCCCCCEEEEEEEEEECCCCCCCCCCCCCCCCCCCEECCEEEEECCC-CCCCHHHHHHCCCCHHH
T ss_conf             89979999988189899998669999999989952223100002456662102135788889-98998899860899999


Q ss_pred             CCCCCC--CC----HHHHHHHHHHHCCCCEEEEECC-CCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCC-------
Q ss_conf             224852--10----0234477753002320231023-224311210000011222210000110000000177-------
Q gi|254780818|r   70 LKDKPS--FS----SIFSEFWDFFNEQNAEWIAHNA-KFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHP-------  135 (245)
Q Consensus        70 l~~~p~--f~----ev~~~f~~fi~~~~~~lVaHNa-~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p-------  135 (245)
                      |.+++.  +.    +++..|.+++. .+.++||||+ .||..||+++|.|+|..+.....++||+.++|.+.+       
T Consensus        87 l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~v~hn~~~FD~~~L~~~~~r~~~~~~~~~~~iDtl~~~~~l~~~~~~~~~  165 (238)
T 1y97_A           87 LARCRKAGFDGAVVRTLQAFLSRQA-GPICLVAHNGFDYDFPLLCAELRRLGARLPRDTVCLDTLPALRGLDRAHSHGTR  165 (238)
T ss_dssp             HHHTTCCCSCHHHHHHHHHHHTTSC-SSEEEEETTTTTTHHHHHHHHHHHHTCCCCTTCEEEEHHHHHHHHHHHC-----
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHCC-CCCEEEEECCHHHHHHHHHHHHHHHCCCCCCCCEEEEHHHHHHHHHHCCCCCCC
T ss_conf             9853153058999999999887416-882699965187789999999998089888898787789999997350754445


Q ss_pred             --C-CCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             --6-4222378999718754555666402699999999999973
Q gi|254780818|r  136 --S-SRNDLNSLCKRYGITISHRSKHGALLDSHLLSDVYIKMMV  176 (245)
Q Consensus       136 --~-~~~~L~~l~~~~~i~~~~r~~H~Al~Da~~~a~v~~~ll~  176 (245)
                        + .+.+|++||++|+... ..++|+|+.||++|++||++|..
T Consensus       166 ~~~~~~~~L~~l~~~~~~~~-~~~aH~Al~Da~~t~~i~~~l~~  208 (238)
T 1y97_A          166 ARGRQGYSLGSLFHRYFRAE-PSAAHSAEGDVHTLLLIFLHRAA  208 (238)
T ss_dssp             -----CCSHHHHHHHHHSSC-CC---CHHHHHHHHHHHHHHTHH
T ss_pred             CCCCCCCCHHHHHHHHCCCC-CCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             66668858999999964999-89788989999999999999999


No 6  
>2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {Homo sapiens}
Probab=100.00  E-value=3.6e-34  Score=232.12  Aligned_cols=170  Identities=16%  Similarity=0.237  Sum_probs=140.4

Q ss_pred             CEEEEECCCCCCCCCC--CEEEEEEEEEEEC-CEECCCEEEEEECCC-CCCCCHHHEEECCCCCCCCCCCCCCCHHHHHH
Q ss_conf             5899984678888888--8899999999999-988031379898588-82288657242021012322485210023447
Q gi|254780818|r    8 RKIVFDIETTGLDSKN--DRIIEIGAVELLD-YSKTNRTFQVFLCPN-GRKNSPEALKLHGITDEFLKDKPSFSSIFSEF   83 (245)
Q Consensus         8 r~iv~D~ETTGl~~~~--d~Iieigav~i~~-~~~~~~~f~~~i~P~-~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f   83 (245)
                      ++||+|+||||+++..  ++|||||||.+.+ ...+.++|++||+|. ..++++.+.++||||++++.++|+|.+|+++|
T Consensus        32 ~~vv~D~EtTg~~~~~~~~eIIEiGaV~~d~~~~~i~~~f~~~vkP~~~~~i~~~~~~itgIt~e~l~~a~~~~ev~~~f  111 (224)
T 2xri_A           32 YFLVLDFEATCDKPQIHPQEIIEFPILKLNGRTMEIESTFHMYVQPVVHPQLTPFCTELTGIIQAMVDGQPSLQQVLERV  111 (224)
T ss_dssp             EEEEECCEECCCC-CCSSCCEEEEEEEEEETTTCCEEEEEEEECCCSSSCSCCHHHHHHHCCCHHHHTTCCCHHHHHHHH
T ss_pred             EEEEEEEECCCCCCCCCCCCEEEEEEEEEECCCCEEEEEEEEEECCCCCCCCCHHHHEECCCCHHHCCCCCCHHHHHHHH
T ss_conf             89999983689999889781899999999899986988999999979888789678153011356511346377789999


Q ss_pred             HHHHHCCCCEEEEECC--------CCCCC-EEEECHHCCCCCCCC-CCHHCCCHHCCCCCCCCC-CCCHHHHHHHHCCCC
Q ss_conf             7753002320231023--------22431-121000001122221-000011000000017764-222378999718754
Q gi|254780818|r   84 WDFFNEQNAEWIAHNA--------KFDVG-FINAELQRINKDPLD-PSRIIDTLSIARRKHPSS-RNDLNSLCKRYGITI  152 (245)
Q Consensus        84 ~~fi~~~~~~lVaHNa--------~FD~~-fL~~el~r~~~~~~~-~~~~iDTl~lar~~~p~~-~~~L~~l~~~~~i~~  152 (245)
                      .+|++  +..+++||+        +||.. |+..++.+.+.+... ...++|+..+++..+|.. +++|+++|++|||+.
T Consensus       112 ~~~l~--~~~lv~~~~~~~~~~~~~fD~~~~l~~~~~~~~~~~p~~~~~~iD~~~~~~~~~~~~~~~~L~~l~~~~gi~~  189 (224)
T 2xri_A          112 DEWMA--KEGLLDPNVKSIFVTCGDWDLKVMLPGQCQYLGLPVADYFKQWINLKKAYSFAMGCWPKNGLLDMNKGLSLQH  189 (224)
T ss_dssp             HHHHH--HTTTTSTTSCEEEEESSSHHHHTHHHHHHHHHTCCCCGGGSCEEEHHHHHHHHHTSCCTTTHHHHHHHTTCCC
T ss_pred             HHHHC--CCEEEEECCEEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCEEEHHHHHHHHHHCCCCCCCHHHHHHHCCCCC
T ss_conf             99965--8859940552799965166657899999997499987434312349999999718777876999999869999


Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCC
Q ss_conf             5556664026999999999999730576
Q gi|254780818|r  153 SHRSKHGALLDSHLLSDVYIKMMVGGSQ  180 (245)
Q Consensus       153 ~~r~~H~Al~Da~~~a~v~~~ll~g~~q  180 (245)
                      .. ++|+|+.||.+||+||++|+..|..
T Consensus       190 ~~-~~H~Al~DA~~ta~l~~~Ll~~g~~  216 (224)
T 2xri_A          190 IG-RPHSGIDDCKNIANIMKTLAYRGFI  216 (224)
T ss_dssp             CS-CTTCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             CC-CCCCHHHHHHHHHHHHHHHHHCCCC
T ss_conf             99-8738599999999999999977982


No 7  
>3cg7_A CRN-4, cell death-related nuclease 4; hydrolase, apoptosis, 3'-5' exonuclease, deddh; 2.50A {Caenorhabditis elegans} PDB: 3cm5_A 3cm6_A
Probab=100.00  E-value=1.1e-33  Score=229.04  Aligned_cols=173  Identities=14%  Similarity=0.265  Sum_probs=137.0

Q ss_pred             CEEEEECCCCCCCCCCC---EEEEEEEEEEEC--C-EECCCEEEEEECCC-CCCCCHHHEEECCCCCCCCCCCCCCCHHH
Q ss_conf             58999846788888888---899999999999--9-88031379898588-82288657242021012322485210023
Q gi|254780818|r    8 RKIVFDIETTGLDSKND---RIIEIGAVELLD--Y-SKTNRTFQVFLCPN-GRKNSPEALKLHGITDEFLKDKPSFSSIF   80 (245)
Q Consensus         8 r~iv~D~ETTGl~~~~d---~Iieigav~i~~--~-~~~~~~f~~~i~P~-~~~i~~~~~~ihGIt~~~l~~~p~f~ev~   80 (245)
                      .+||||+||||+++..|   +|||||||.++.  + +....+|++||+|. ..++++.+.++||||+++|.++|+|.+|+
T Consensus        20 ~~vViD~ETTg~~~~~d~~~EIIEIgaV~vd~~~~~i~~~~~F~~~VkP~~~~~ls~~~~~ltGIt~e~v~~ap~f~evl   99 (308)
T 3cg7_A           20 TLLILDFETTSDAANQDYPCEVIQFAIVAYDVPNDKIREDISFNKYVKPVLNRTLTKNCVDFTGIPQRSIDTADTFDVVY   99 (308)
T ss_dssp             EEEEEEEEECCBTTBCSCCCCEEEEEEEEEETTTTEEEEEEEEEEECBCSSBCSCCHHHHHHHCCCHHHHHTSCBHHHHH
T ss_pred             EEEEEEEEECCCCCCCCCCCEEEEEEEEEEEECCCEEEECCEEEEEECCCCCCCCCHHHHHHCCCCHHHHHCCCHHHHHH
T ss_conf             18999976089987889996079999999980599897841888778988888679889987197989943110045668


Q ss_pred             HHHHHHHHCCCCEEEEE------CCCCCC-CEEEECHHCCCCCCCC-CCHHCCCHHCCCCCC-------CCCCCCHHHHH
Q ss_conf             44777530023202310------232243-1121000001122221-000011000000017-------76422237899
Q gi|254780818|r   81 SEFWDFFNEQNAEWIAH------NAKFDV-GFINAELQRINKDPLD-PSRIIDTLSIARRKH-------PSSRNDLNSLC  145 (245)
Q Consensus        81 ~~f~~fi~~~~~~lVaH------Na~FD~-~fL~~el~r~~~~~~~-~~~~iDTl~lar~~~-------p~~~~~L~~l~  145 (245)
                      ++|.+|++.  ..+++|      |+.||. .||++++.+.+++.+. ...++|+..+++..+       ++.+.+|+++|
T Consensus       100 ~~f~~~l~~--~~l~~~~~~f~~~~~~D~~~~L~~~~~~~~i~~P~~~~~~iDl~~~~~~~~~~~~~~~~~~~~~L~~l~  177 (308)
T 3cg7_A          100 EQFQQWLIT--LGLEEGKFAFVCDSRQDLWRIAQYQMKLSNIQMPAFFRQYINLYKIFTNEMDRMGPKELSATTNIGKMN  177 (308)
T ss_dssp             HHHHHHHHH--HCCCTTSEEEEESSSHHHHTHHHHHHHHTTCCCCGGGSEEEEHHHHHHHHHHHHCCCCCCCCSHHHHHH
T ss_pred             HHHHHHHHC--CCCCCEEEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCCEEEHHHHHHHHHHHHHHCCCCCCCCHHHHH
T ss_conf             899999736--773232899931545669999999999809998720132445999999999974322777777899999


Q ss_pred             HHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             97187545556664026999999999999730576666
Q gi|254780818|r  146 KRYGITISHRSKHGALLDSHLLSDVYIKMMVGGSQINF  183 (245)
Q Consensus       146 ~~~~i~~~~r~~H~Al~Da~~~a~v~~~ll~g~~q~~l  183 (245)
                      .+|||+.+. ++|+||.||++||+|+++|+..|-...+
T Consensus       178 ~~~gI~~~g-~aH~ALdDA~~tA~Il~kLl~~G~~~~~  214 (308)
T 3cg7_A          178 EYYDLPTIG-RAHDAMDDCLNIATILQRMINMGAKVTV  214 (308)
T ss_dssp             HHTTCCCCS-CTTCHHHHHHHHHHHHHHHHHTTCCCCC
T ss_pred             HHCCCCCCC-CCCCHHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             976999999-8968099999999999999977992586


No 8  
>1zbh_A 3'-5' exonuclease ERI1; histone mRNA 3'-END-specific recognition, structures of 3'- exonuclease and ITS RNA complex, hydrolase/RNA complex; HET: AMP; 3.00A {Homo sapiens}
Probab=100.00  E-value=1.9e-33  Score=227.57  Aligned_cols=173  Identities=20%  Similarity=0.288  Sum_probs=138.2

Q ss_pred             CEEEEECCCC---CCCC-CCCEEEEEEEEEEECC-EECCCEEEEEECCC-CCCCCHHHEEECCCCCCCCCCCCCCCHHHH
Q ss_conf             5899984678---8888-8888999999999999-88031379898588-822886572420210123224852100234
Q gi|254780818|r    8 RKIVFDIETT---GLDS-KNDRIIEIGAVELLDY-SKTNRTFQVFLCPN-GRKNSPEALKLHGITDEFLKDKPSFSSIFS   81 (245)
Q Consensus         8 r~iv~D~ETT---Gl~~-~~d~Iieigav~i~~~-~~~~~~f~~~i~P~-~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~   81 (245)
                      .+||||+|||   |..+ ..++|||||||.|..+ ..+.++|++||+|. ..++++++.++||||+++|.+||+|.+|++
T Consensus        79 ~~vv~D~EtTc~~~~~~~~~~EIIEIgaV~vd~~~~~i~d~F~~~VkP~~~~~ls~~~~~lTGIT~e~V~~Ap~f~evl~  158 (299)
T 1zbh_A           79 YICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLSDFCISLTGITQDQVDRADTFPQVLK  158 (299)
T ss_dssp             EEEEECCEECCCTTCCTTCCCCEEEEEEEEEETTTCCEEEEEEEEBCCSSSCSCCHHHHHHHCCCHHHHHTSBCHHHHHH
T ss_pred             EEEEEEEECCCCCCCCCCCCCEEEEEEEEEEECCCCEEEEEEEEEECCCCCCCCCHHHHHHCCCCHHHHHCCCCHHHHHH
T ss_conf             89999985368899988899748999889998568759658999999898986798898851948999746787999999


Q ss_pred             HHHHHHHCCCCEEEEE-------CCCCCCC-EEEECHHCCCCCCCC-CCHHCCCHHCCCCCCCC--CCCCHHHHHHHHCC
Q ss_conf             4777530023202310-------2322431-121000001122221-00001100000001776--42223789997187
Q gi|254780818|r   82 EFWDFFNEQNAEWIAH-------NAKFDVG-FINAELQRINKDPLD-PSRIIDTLSIARRKHPS--SRNDLNSLCKRYGI  150 (245)
Q Consensus        82 ~f~~fi~~~~~~lVaH-------Na~FD~~-fL~~el~r~~~~~~~-~~~~iDTl~lar~~~p~--~~~~L~~l~~~~~i  150 (245)
                      +|.+|++.  ..+++|       ++.||.. ||..++.+.+...+. ...++|+..+.+..++.  .+.+|+++|++|||
T Consensus       159 ~f~~~l~~--~~~~~~~~~~~~~~g~~D~~~fL~~~~~~~~i~~p~~~~~~iDl~~~~~~~~~~~~~~~~L~~l~~~~gi  236 (299)
T 1zbh_A          159 KVIDLMKL--KELGTKYKYSLLTDGSWDMSKFLNIQCQLSRLKYPPFAKKWINIRKSYGNFYKVPRSQTKLTIMLEKLGM  236 (299)
T ss_dssp             HHHHHHHH--TTBTTTBCEEEEESSSHHHHTHHHHHHHHTTBCCCGGGSEEEEHHHHHHHHHTCCGGGCSHHHHHHHTTC
T ss_pred             HHHHHHCC--CCCCCCCCEEEECCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEHHHHHHHHHCCCCCCCCHHHHHHHCCC
T ss_conf             99999705--8402466257750507669999999999708998743574776999999984687568799999998699


Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             545556664026999999999999730576666
Q gi|254780818|r  151 TISHRSKHGALLDSHLLSDVYIKMMVGGSQINF  183 (245)
Q Consensus       151 ~~~~r~~H~Al~Da~~~a~v~~~ll~g~~q~~l  183 (245)
                      +...+ +|+|+.||+.||+||++|+..|.+..+
T Consensus       237 ~~~G~-~H~AldDA~~tA~Il~klL~~g~~~~i  268 (299)
T 1zbh_A          237 DYDGR-PNCGLDDSKNIARIAVRMLQDGCELRI  268 (299)
T ss_dssp             CCCSC-TTCHHHHHHHHHHHHHHHHHTTCCCCC
T ss_pred             CCCCC-CCCHHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             98998-728399999999999999976986662


No 9  
>1wlj_A Interferon stimulated gene 20KDA; exoribonuclease, hydrolase; HET: U5P; 1.90A {Homo sapiens} SCOP: c.55.3.5
Probab=100.00  E-value=4.7e-34  Score=231.42  Aligned_cols=158  Identities=15%  Similarity=0.211  Sum_probs=133.2

Q ss_pred             CEEEEECCCCCCCCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             58999846788888888899999999999988031379898588822886572420210123224852100234477753
Q gi|254780818|r    8 RKIVFDIETTGLDSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFSEFWDFF   87 (245)
Q Consensus         8 r~iv~D~ETTGl~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f~~fi   87 (245)
                      ++|+||+|||||+|..|++|+++||...++..   .|++|++|. .+|++.+.++||||+++++++|+|.+++..|.+|+
T Consensus         6 ~~V~iD~ETtGl~~~~~~~i~~~aiv~~~g~~---v~~~~v~p~-~~i~~~~~~i~GIt~e~l~~~~~~~~v~~~~~~~~   81 (189)
T 1wlj_A            6 EVVAMDCEMVGLGPHRESGLARCSLVNVHGAV---LYDKFIRPE-GEITDYRTRVSGVTPQHMVGATPFAVARLEILQLL   81 (189)
T ss_dssp             CEEEEEEEEEEETTTTEEEEEEEEEECTTCCE---EEEEEEECS-SCEEECCHHHHCCCHHHHTTCEEHHHHHHHHHHHH
T ss_pred             CEEEEEEECCCCCCCCCCEEEEEEEEEECCCE---EEEEEECCC-CCCCHHHCCCCCCCHHHHHCCCCHHHHHHHHHHHH
T ss_conf             89999768088899998679999999837959---999986699-98983002488999789622784788899998763


Q ss_pred             HCCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCC-CCCCHHHHHHHH-CCCC-CCCCCCCCHHHH
Q ss_conf             0023202310232243112100000112222100001100000001776-422237899971-8754-555666402699
Q gi|254780818|r   88 NEQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPS-SRNDLNSLCKRY-GITI-SHRSKHGALLDS  164 (245)
Q Consensus        88 ~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~-~~~~L~~l~~~~-~i~~-~~r~~H~Al~Da  164 (245)
                      +  +.++||||+.||++||+.++.+.+.    ...++||+.+++..+|. .+.+|+.||+.| |++. .+.++|+|++||
T Consensus        82 ~--~~~lV~hn~~fD~~~L~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~L~~L~~~~l~~~i~~~~~~H~Al~DA  155 (189)
T 1wlj_A           82 K--GKLVVGHDLKHDFQALKEDMSGYTI----YDTSTDRLLWREAKLDHCRRVSLRVLSERLLHKSIQNSLLGHSSVEDA  155 (189)
T ss_dssp             T--TSEEEESSHHHHHHHTTCCCTTCEE----EEGGGCHHHHHHHTC-----CCHHHHHHHHTCCCCSCCTTCCCHHHHH
T ss_pred             C--CCEEEEECHHHHHHHHHHHCHHCCC----CCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHH
T ss_conf             1--3458973568789999986703266----584121699999873667788999999998098778999888819999


Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999999997
Q gi|254780818|r  165 HLLSDVYIKMM  175 (245)
Q Consensus       165 ~~~a~v~~~ll  175 (245)
                      ++|++||..+.
T Consensus       156 ~at~~l~~~~~  166 (189)
T 1wlj_A          156 RATMELYQISQ  166 (189)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999999


No 10 
>1zbu_A ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; HET: AMP; 3.00A {Homo sapiens}
Probab=99.98  E-value=1.1e-33  Score=228.99  Aligned_cols=173  Identities=21%  Similarity=0.283  Sum_probs=138.2

Q ss_pred             EEEEECCCC---CCCC-CCCEEEEEEEEEEECC-EECCCEEEEEECCCC-CCCCHHHEEECCCCCCCCCCCCCCCHHHHH
Q ss_conf             899984678---8888-8888999999999999-880313798985888-228865724202101232248521002344
Q gi|254780818|r    9 KIVFDIETT---GLDS-KNDRIIEIGAVELLDY-SKTNRTFQVFLCPNG-RKNSPEALKLHGITDEFLKDKPSFSSIFSE   82 (245)
Q Consensus         9 ~iv~D~ETT---Gl~~-~~d~Iieigav~i~~~-~~~~~~f~~~i~P~~-~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~   82 (245)
                      +||||+|||   |.++ ..++|||||||.|+.. ..+.++|++||+|.. ..++++++++||||.+||.+||+|.+|+++
T Consensus       130 ~vViD~EtTc~~g~~~~~~~EIIEIgaV~vd~~~~~i~d~F~syVkP~~~~~ls~~~~eLTGITqe~Vd~Ap~f~eVl~~  209 (349)
T 1zbu_A          130 ICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLSDFCISLTGITQDQVDRADTFPQVLKK  209 (349)
T ss_dssp             EEECCCEECCCTTCCTTCCCCEEECCEEEEETTTTEEEEEECCBEECSSSCSCCHHHHHHHCCCHHHHHTSEEHHHHHHH
T ss_pred             EEEEEEECCCCCCCCCCCCCEEEEEEEEEEECCCCEEEEEEEEEECCCCCCCCCHHHHHHHCCCHHHHHCCCCHHHHHHH
T ss_conf             99999843688999989997279998899986899496678868898889878988997729699998559879999999


Q ss_pred             HHHHHHCCCCEEEEEC-------CCCCC-CEEEECHHCCCCCCCC-CCHHCCCHHCCCCCCC--CCCCCHHHHHHHHCCC
Q ss_conf             7775300232023102-------32243-1121000001122221-0000110000000177--6422237899971875
Q gi|254780818|r   83 FWDFFNEQNAEWIAHN-------AKFDV-GFINAELQRINKDPLD-PSRIIDTLSIARRKHP--SSRNDLNSLCKRYGIT  151 (245)
Q Consensus        83 f~~fi~~~~~~lVaHN-------a~FD~-~fL~~el~r~~~~~~~-~~~~iDTl~lar~~~p--~~~~~L~~l~~~~~i~  151 (245)
                      |.+|++  +..+|+||       ..||+ .||..++.+.++.... ...++|+..+++..+.  ..+.+|+++|++|||+
T Consensus       210 f~~~l~--~~~lv~~~~~~fv~~g~~Dl~~fL~~~~~~~~i~~p~~~~~~iDl~~~~~~~~~~~~~~~~L~~l~e~lgI~  287 (349)
T 1zbu_A          210 VIDLMK--LKELGTKYKYSLLTDGSWDMSKFLNIQCQLSRLKYPPFAKKWINIRKSYGNFYKVPRSQTKLTIMLEKLGMD  287 (349)
T ss_dssp             HHHHHH--HTTBTTTBCEEEEESSSHHHHTHHHHHHHHTTBCCCGGGSEEEEHHHHHHHHHTCCGGGGSHHHHHHHTTCC
T ss_pred             HHHHHH--HCCCCCCCCEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCEEEHHHHHHHHHCCCCCCCCHHHHHHHCCCC
T ss_conf             999985--243455660688705388899999999999589986325766659999999856887898999999976999


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             455566640269999999999997305766665
Q gi|254780818|r  152 ISHRSKHGALLDSHLLSDVYIKMMVGGSQINFG  184 (245)
Q Consensus       152 ~~~r~~H~Al~Da~~~a~v~~~ll~g~~q~~l~  184 (245)
                      ...+ +|+||.||++||+||++|+..|.+..++
T Consensus       288 ~eG~-~H~ALdDA~~tA~Il~~LL~~g~~l~i~  319 (349)
T 1zbu_A          288 YDGR-PHCGLDDSKNIARIAVRMLQDGCELRIN  319 (349)
T ss_dssp             CCSC-TTCHHHHHHHHHHHHHHHHHTTCCCCCC
T ss_pred             CCCC-CCCHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             9998-8096999999999999999778867744


No 11 
>2qxf_A Exodeoxyribonuclease I; alpha-beta domain, DNAQ superfamily, SH3-like domain, product bound structure, DNA damage, DNA repair, exonuclease; HET: TMP; 1.50A {Escherichia coli K12} SCOP: c.55.3.5 PDB: 1fxx_A* 3c94_A 3c95_A 3hl8_A* 3hp9_A*
Probab=99.97  E-value=9.5e-33  Score=223.24  Aligned_cols=173  Identities=21%  Similarity=0.234  Sum_probs=134.3

Q ss_pred             CCCCC--CCCEEEEECCCCCCCCCCCEEEEEEEEEEEC-CEECCCEEEE-EECCC-CCCCCHHHEEECCCCCCCCCCCC-
Q ss_conf             98667--7758999846788888888899999999999-9880313798-98588-82288657242021012322485-
Q gi|254780818|r    1 MIRKN--KMRKIVFDIETTGLDSKNDRIIEIGAVELLD-YSKTNRTFQV-FLCPN-GRKNSPEALKLHGITDEFLKDKP-   74 (245)
Q Consensus         1 ~~~~~--~mr~iv~D~ETTGl~~~~d~Iieigav~i~~-~~~~~~~f~~-~i~P~-~~~i~~~~~~ihGIt~~~l~~~p-   74 (245)
                      |.+.+  +..+|++|+||||++|..|+|||+|||.+.. +.++ ++++. +++|. +...+|.|..|||||++++.++| 
T Consensus         1 ~~~~~~~~~~~v~~D~ETTGl~~~~d~iiq~~ai~~d~~~~~~-~~~~~~~~~~~~~~~p~~~a~~v~gi~~~~~~~~~~   79 (482)
T 2qxf_A            1 MMNDGKQQSTFLFHDYETFGTHPALDRPAQFAAIRTDSEFNVI-GEPEVFYCKPADDYLPQPGAVLITGITPQEARAKGE   79 (482)
T ss_dssp             ------CCCEEEEEEEEESSSCTTTSCEEEEEEEEECTTSCBC-SCCEEEEBCCCTTCCCCHHHHHHHCCCHHHHHHHCB
T ss_pred             CCCCCCCCCCEEEEEEECCCCCCCCCCEEEEEEEEECCCCCEE-EEEEEEEECCCCCCCCCHHHHHHHCCCHHHHHCCCC
T ss_conf             9877786897899998878979999822899999998998585-145677634799999887896884949999973999


Q ss_pred             CCCHHHHHHHHHHHCCCCEEEEEC-CCCCCCEEEECHHCCCCCCC-----CCCHHCCCHHCCCCC---------CC----
Q ss_conf             210023447775300232023102-32243112100000112222-----100001100000001---------77----
Q gi|254780818|r   75 SFSSIFSEFWDFFNEQNAEWIAHN-AKFDVGFINAELQRINKDPL-----DPSRIIDTLSIARRK---------HP----  135 (245)
Q Consensus        75 ~f~ev~~~f~~fi~~~~~~lVaHN-a~FD~~fL~~el~r~~~~~~-----~~~~~iDTl~lar~~---------~p----  135 (245)
                      ++.+++.++.+|+...++++|||| +.||..||+.+|.|.+.++.     ..+...|++.+++..         +|    
T Consensus        80 ~~~e~~~~i~~~~~~~~~~~vg~N~~~FD~~~l~~~~~r~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~~  159 (482)
T 2qxf_A           80 NEAAFAARIHSLFTVPKTCILGYNNVRFDDEVTRNIFYRNFYDPYAWSWQHDNSRWDLLDVMRACYALRPEGINWPENDD  159 (482)
T ss_dssp             CHHHHHHHHHHHHTSTTEEEEESSTTTTHHHHHHHHHHHTTSCSSGGGTGGGCEEEEHHHHHHHHHHHCCTTSCCCBCTT
T ss_pred             CHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHCCCCCHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf             99999999999984489769996763347999999988744785012202687502568888888640442212432346


Q ss_pred             C-CCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             6-4222378999718754555666402699999999999973
Q gi|254780818|r  136 S-SRNDLNSLCKRYGITISHRSKHGALLDSHLLSDVYIKMMV  176 (245)
Q Consensus       136 ~-~~~~L~~l~~~~~i~~~~r~~H~Al~Da~~~a~v~~~ll~  176 (245)
                      | .+.+|+++|.++|++..  ++|+|++||.+|++|+..+..
T Consensus       160 ~~~~~kL~~l~~~~~i~~~--~aHdA~~D~~~t~~l~~~l~~  199 (482)
T 2qxf_A          160 GLPSFRLEHLTKANGIEHS--NAHDAMADVYATIAMAKLVKT  199 (482)
T ss_dssp             SSBCCCHHHHHHHTTCCCC-----CTTHHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHCCCCCC--CCCCHHHHHHHHHHHHHHHHH
T ss_conf             8664669999998199877--886635517999999999987


No 12 
>2f96_A Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolase, SAD, PSI, MCSG, protein structure initiative; 2.09A {Pseudomonas aeruginosa PAO1} SCOP: c.55.3.5
Probab=99.97  E-value=6.5e-32  Score=218.01  Aligned_cols=173  Identities=23%  Similarity=0.393  Sum_probs=135.9

Q ss_pred             EEEECCCCCCCCCCCEEEEEEEEEEE-C---CEECCCEEEEEECC-CCCCCCHHHEEECCCCCCCCC-----CCCCCCHH
Q ss_conf             99984678888888889999999999-9---98803137989858-882288657242021012322-----48521002
Q gi|254780818|r   10 IVFDIETTGLDSKNDRIIEIGAVELL-D---YSKTNRTFQVFLCP-NGRKNSPEALKLHGITDEFLK-----DKPSFSSI   79 (245)
Q Consensus        10 iv~D~ETTGl~~~~d~Iieigav~i~-~---~~~~~~~f~~~i~P-~~~~i~~~~~~ihGIt~~~l~-----~~p~f~ev   79 (245)
                      ||||+|||||||..|+|||||||.+. +   ....+.+++.++.| ...+++++++.+|||+++++.     ..+.|.+.
T Consensus        32 Vv~D~ETTGl~~~~d~IIeIgAV~v~~d~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~  111 (224)
T 2f96_A           32 VVVDVETGGFNSATDALLEIAATTVGMDEKGFLFPEHTYFFRIEPFEGANIEPAALEFTGIKLDHPLRMAVQEEAALTEI  111 (224)
T ss_dssp             EEEEEEESSSCTTTBCEEEEEEEEEEECTTSCEEEEEEEEEEBCCCTTCBCCHHHHHHHTCCTTCTTCCCBCHHHHHHHH
T ss_pred             EEEEEECCCCCCCCCCEEEEEEEEEEECCCCCEECCEEEEEEECCCCCCCCCCCEEEECCCCHHHHHHHCCCHHHHHHHH
T ss_conf             79998689989878846899999998524782610124668736866778985036512101256554032103779999


Q ss_pred             HHHHHHHHHC---CCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCC-CCCCHHHHHHHHCCCCCCC
Q ss_conf             3447775300---23202310232243112100000112222100001100000001776-4222378999718754555
Q gi|254780818|r   80 FSEFWDFFNE---QNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPS-SRNDLNSLCKRYGITISHR  155 (245)
Q Consensus        80 ~~~f~~fi~~---~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~-~~~~L~~l~~~~~i~~~~r  155 (245)
                      +..+.+|+..   ....+|+||+.||..||++.+.+++..+.. ...+|++...+..++. ...+|+.+|++|||+.+++
T Consensus       112 ~~~~~~~~~~~~~~~~~~v~~n~~fd~~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~L~~l~~~~gi~~~~~  190 (224)
T 2f96_A          112 FRGIRKALKANGCKRAILVGHNSSFDLGFLNAAVARTGIKRNP-FHPFSSFDTATLAGLAYGQTVLAKACQAAGMEFDNR  190 (224)
T ss_dssp             HHHHHHHHHHTTCSEEEEEETTHHHHHHHHHHHHHHHTCCCCC-EEEEEEEEHHHHHHHHHSCCSHHHHHHHTTCCCCTT
T ss_pred             HHHHHHHHHHHCCCCCEECCCCHHHHHHHHHHHHHHHCCCCCC-CCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCC
T ss_conf             9999988764045543221534788999999999981999886-411358999999875479643999999829999989


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             6664026999999999999730576666
Q gi|254780818|r  156 SKHGALLDSHLLSDVYIKMMVGGSQINF  183 (245)
Q Consensus       156 ~~H~Al~Da~~~a~v~~~ll~g~~q~~l  183 (245)
                      ++|+||+||++||+||++|+..+++.+-
T Consensus       191 ~aH~Al~Da~~ta~l~~kl~~~~~~~~~  218 (224)
T 2f96_A          191 EAHSARYDTEKTAELFCGIVNRWKEMGG  218 (224)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             7678899999999999999999998189


No 13 
>1w0h_A 3'-5' exonuclease ERI1; nuclease domain, hydrolase; HET: AMP; 1.59A {Homo sapiens} SCOP: c.55.3.5
Probab=99.96  E-value=2.5e-30  Score=208.08  Aligned_cols=175  Identities=19%  Similarity=0.256  Sum_probs=138.2

Q ss_pred             CEEEEECCCC----CCCCCCCEEEEEEEEEEEC-CEECCCEEEEEECCC-CCCCCHHHEEECCCCCCCCCCCCCCCHHHH
Q ss_conf             5899984678----8888888899999999999-988031379898588-822886572420210123224852100234
Q gi|254780818|r    8 RKIVFDIETT----GLDSKNDRIIEIGAVELLD-YSKTNRTFQVFLCPN-GRKNSPEALKLHGITDEFLKDKPSFSSIFS   81 (245)
Q Consensus         8 r~iv~D~ETT----Gl~~~~d~Iieigav~i~~-~~~~~~~f~~~i~P~-~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~   81 (245)
                      ++||+|+|||    |.++..++|||||||.+.+ ...++++|+.+|+|+ ..++++.+.++||||++++.++|++.++++
T Consensus        11 ~~vviD~ETT~~~~~~~~~~~~Iieigav~~d~~~~~~~~~f~~~i~p~~~~~i~~~~~~i~git~e~~~~~~~~~ev~~   90 (204)
T 1w0h_A           11 YICIIDFEATCEEGNPPEFVHEIIEFPVVLLNTHTLEIEDTFQQYVRPEINTQLSDFCISLTGITQDQVDRADTFPQVLK   90 (204)
T ss_dssp             EEEECCCEECCCTTCCTTSCCCEEEEEEEEEETTTCSEEEEEEEEBCCSSSCSCCHHHHHHHCCCHHHHHTSBCHHHHHH
T ss_pred             EEEEEEECCCCCCCCCCCCCCEEEEEEEEEEECCCCEEEEEEEEEECCCCCCCCCHHHHHHCCCCHHHHHCCCCHHHHHH
T ss_conf             28999960788889999999808999999998899779899999970677986898999872998789850885899999


Q ss_pred             HHHHHHHCC-----CCEEEEECCCCC-CCEEEECHHCCCCCCC-CCCHHCCCHHCCCCCCC--CCCCCHHHHHHHHCCCC
Q ss_conf             477753002-----320231023224-3112100000112222-10000110000000177--64222378999718754
Q gi|254780818|r   82 EFWDFFNEQ-----NAEWIAHNAKFD-VGFINAELQRINKDPL-DPSRIIDTLSIARRKHP--SSRNDLNSLCKRYGITI  152 (245)
Q Consensus        82 ~f~~fi~~~-----~~~lVaHNa~FD-~~fL~~el~r~~~~~~-~~~~~iDTl~lar~~~p--~~~~~L~~l~~~~~i~~  152 (245)
                      +|.+|+...     +..++++|+.|| ..||+..+.+.+.+++ ....++|+....+..++  ..+.+|+++|++|||+.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~l~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~kL~~l~~~~gi~~  170 (204)
T 1w0h_A           91 KVIDWMKLKELGTKYKYSLLTDGSWDMSKFLNIQCQLSRLKYPPFAKKWINIRKSYGNFYKVPRSQTKLTIMLEKLGMDY  170 (204)
T ss_dssp             HHHHHHHHTTBTTTBCEEEEESSTTTTHHHHHHHHHHHTCCCCGGGSEEEEHHHHHHHHHTCCGGGCSHHHHHHHTTCCC
T ss_pred             HHHHHHHCCCEEECCHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEHHHHHHHHHCCCCCCCCHHHHHHHCCCCC
T ss_conf             99987522412223223221103564899999999981899864245167688888887503457889999999869999


Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             5556664026999999999999730576666
Q gi|254780818|r  153 SHRSKHGALLDSHLLSDVYIKMMVGGSQINF  183 (245)
Q Consensus       153 ~~r~~H~Al~Da~~~a~v~~~ll~g~~q~~l  183 (245)
                      .. ++|+||+||.+||+||.+|+..+.+..+
T Consensus       171 ~~-~aH~Al~Da~~ta~i~~~ll~~~~~~~i  200 (204)
T 1w0h_A          171 DG-RPHCGLDDSKNIARIAVRMLQDGCELRI  200 (204)
T ss_dssp             CS-CTTCHHHHHHHHHHHHHHHHHTTCCCCC
T ss_pred             CC-CCCCHHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             99-8848799999999999999987897788


No 14 
>2gbz_A Oligoribonuclease; ORN, deddh, structural genomics, X-RAY diffraction, hydrolase; 2.30A {Xanthomonas campestris PV}
Probab=99.84  E-value=5.8e-22  Score=155.83  Aligned_cols=152  Identities=20%  Similarity=0.212  Sum_probs=102.2

Q ss_pred             CEEEEECCCCCCCCCCCEEEEEEEEEEECC-EECCCEEEEEECCCCC-------CCCHHHEEECCCCCCCCCCCCCCCHH
Q ss_conf             589998467888888888999999999999-8803137989858882-------28865724202101232248521002
Q gi|254780818|r    8 RKIVFDIETTGLDSKNDRIIEIGAVELLDY-SKTNRTFQVFLCPNGR-------KNSPEALKLHGITDEFLKDKPSFSSI   79 (245)
Q Consensus         8 r~iv~D~ETTGl~~~~d~Iieigav~i~~~-~~~~~~f~~~i~P~~~-------~i~~~~~~ihGIt~~~l~~~p~f~ev   79 (245)
                      ++|++|+|||||||..|+|||||||++... ....+. ..++.|...       .++......+++...+....+.+.+.
T Consensus        10 ~lV~lD~ETTGLdp~~d~IIEIaaV~~d~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (194)
T 2gbz_A           10 RLIWIDLEMTGLDTDRDSIIEIATIVTDAQLNVLAEG-PELAIAHSLETLEAMDEWNRNQHRRSGLWQRVLDSQVTHAQA   88 (194)
T ss_dssp             EEEEEEEEESCSCTTTCCEEEEEEEEEETTCCEEEEC-CCEECCCCHHHHHTSCSHHHHHHHHHTHHHHHHHCCCCHHHH
T ss_pred             CEEEEEEECCCCCCCCCEEEEEEEEEECCCCEEECCC-CEEEECCCHHHCCCCCCCCCEEEECCCHHHHHHCCCCCHHHH
T ss_conf             9899987789999999837999999982896050125-432014751102433345411331231134301356579999


Q ss_pred             HHHHHHHHH----CCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCC---CCCCCCCCHHHHHHHHCCCC
Q ss_conf             344777530----02320231023224311210000011222210000110000000---17764222378999718754
Q gi|254780818|r   80 FSEFWDFFN----EQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARR---KHPSSRNDLNSLCKRYGITI  152 (245)
Q Consensus        80 ~~~f~~fi~----~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~---~~p~~~~~L~~l~~~~~i~~  152 (245)
                      ...+..+..    ....++++||+.||..|++..+.+.+..+  ..+.+|++.+++.   .+|.         .+.|+..
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~fD~~~l~~~~~~~~~~~--~~~~iD~~~~~~~~~~~~~~---------~~~~~~~  157 (194)
T 2gbz_A           89 EAQTVAFLGEWIRAGASPMCGNSICQDRRFLHRQMSRLERYF--HYRNLDVSTIKELARRWAPA---------VASGFAK  157 (194)
T ss_dssp             HHHHHHHHTTTCCTTSSCEEESSHHHHHHHHHHHCHHHHHHS--CSCEEEHHHHHHHHHHHCGG---------GGTTCCC
T ss_pred             HHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHCHH---------HHHCCCC
T ss_conf             999998766404689741113421330999999999861104--89731089999998875914---------3407999


Q ss_pred             CCCCCCCCHHHHHHHHHHHHH
Q ss_conf             555666402699999999999
Q gi|254780818|r  153 SHRSKHGALLDSHLLSDVYIK  173 (245)
Q Consensus       153 ~~r~~H~Al~Da~~~a~v~~~  173 (245)
                        +++|+|++|+++|.+++..
T Consensus       158 --~~aHrAl~Dv~aTi~llk~  176 (194)
T 2gbz_A          158 --SSAHTALSDVRDSIDELRH  176 (194)
T ss_dssp             --CSCCSHHHHHHHHHHHHHH
T ss_pred             --CCCCCCHHHHHHHHHHHHH
T ss_conf             --8984878999999999999


No 15 
>2igi_A Oligoribonuclease; RNAse, exoribonuclease, exonuclease, hydrolase, mRNA decay; 1.70A {Escherichia coli K12} SCOP: c.55.3.5 PDB: 1yta_A 1j9a_A
Probab=99.81  E-value=3.7e-21  Score=150.81  Aligned_cols=157  Identities=15%  Similarity=0.106  Sum_probs=95.5

Q ss_pred             CEEEEECCCCCCCCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCH-------HHEEECCCCCCCCCCCCCCCHHH
Q ss_conf             58999846788888888899999999999988031379898588822886-------57242021012322485210023
Q gi|254780818|r    8 RKIVFDIETTGLDSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSP-------EALKLHGITDEFLKDKPSFSSIF   80 (245)
Q Consensus         8 r~iv~D~ETTGl~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~-------~~~~ihGIt~~~l~~~p~f~ev~   80 (245)
                      +.|++|+|||||||..|+|||||||.+.+.......+..+..+.....++       .....++..+......+......
T Consensus         6 ~lv~lD~ETTGL~p~~D~IIeIaaV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (180)
T 2igi_A            6 NLIWIDLEMTGLDPERDRIIEIATLVTDANLNILAEGPTIAVHQSDEQLALMDDWNVRTHTASGLVERVKASTMGDREAE   85 (180)
T ss_dssp             CEEEEEEEESSSCTTTCCEEEEEEEEECTTCCEEEEEEEEECCCCHHHHTTCCHHHHHHHHHTTHHHHHHHCCCCHHHHH
T ss_pred             CEEEEEEECCCCCCCCCEEEEEEEEEEECCCEEEEECCEEECCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCHHHHH
T ss_conf             78999867899999998479999999989953654133000122212466434667301025533010234542399999


Q ss_pred             HHHHHHHH----CCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCCCCCCHHHHHHHHCCCCCCCC
Q ss_conf             44777530----02320231023224311210000011222210000110000000177642223789997187545556
Q gi|254780818|r   81 SEFWDFFN----EQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPSSRNDLNSLCKRYGITISHRS  156 (245)
Q Consensus        81 ~~f~~fi~----~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~~~~~L~~l~~~~~i~~~~r~  156 (245)
                      ..+..++.    .....+++||+.||..|+++.+.+.... + ..+.+|+..+.+...      +...+.++|++.  .+
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~fD~~~l~~~~~~~~~~-~-~~~~lD~~~~~~~~~------~~~~~~~~~~~~--~~  155 (180)
T 2igi_A           86 LATLEFLKQWVPAGKSPICGNSIGQDRRFLFKYMPELEAY-F-HYRYLDVSTLKELAR------RWKPEILDGFTK--QG  155 (180)
T ss_dssp             HHHHHHHTTTSCTTTSCEEESSHHHHHHHHHHHCHHHHHH-S-CSCEEETHHHHHHHH------HHCGGGGGGSCC--CC
T ss_pred             HHHHHHHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHCCC-C-CCCEECHHHHHHHHH------HHCHHHHCCCCC--CC
T ss_conf             9899988751257872564575401699999889973001-5-885132677999998------649787729999--99


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q ss_conf             664026999999999999
Q gi|254780818|r  157 KHGALLDSHLLSDVYIKM  174 (245)
Q Consensus       157 ~H~Al~Da~~~a~v~~~l  174 (245)
                      +|+||+|+++|.+++..+
T Consensus       156 aHrAl~Dv~~ti~~l~~~  173 (180)
T 2igi_A          156 THQAMDDIRESVAELAYY  173 (180)
T ss_dssp             CCCHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHH
T ss_conf             718589999999999999


No 16 
>1x9m_A DNA polymerase; DNA ploymerase, N-2-acetylaminofluorene, replication block, mutagenesis, transferase/electron transport/DNA complex; HET: DNA 2DT 8FG; 2.10A {Enterobacteria phage T7} SCOP: c.55.3.5 e.8.1.1 PDB: 1skr_A* 1skw_A* 1sl0_A* 1sks_A* 1sl2_A* 1t7p_A* 1t8e_A* 1tk0_A* 1tk5_A* 1tk8_A* 1tkd_A* 1sl1_A* 1x9s_A* 1x9w_A* 1zyq_A* 2ajq_A*
Probab=99.38  E-value=2.9e-13  Score=101.52  Aligned_cols=138  Identities=21%  Similarity=0.239  Sum_probs=86.4

Q ss_pred             EEEECCCCCCCCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHHHHHHHHHC
Q ss_conf             99984678888888889999999999998803137989858882288657242021012322485210023447775300
Q gi|254780818|r   10 IVFDIETTGLDSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFSEFWDFFNE   89 (245)
Q Consensus        10 iv~D~ETTGl~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f~~fi~~   89 (245)
                      ||||+|||||++..+.|.-|++   .+. .+++ +..| +|..                       +.+.++.+..++. 
T Consensus         2 ~v~DiET~gL~~~~~~i~~i~~---~d~-~~~~-~~~~-~~~~-----------------------~~~~~~~l~~~l~-   51 (698)
T 1x9m_A            2 IVSDIEANALLESVTKFHCGVI---YDY-STAE-YVSY-RPSD-----------------------FGAYLDALEAEVA-   51 (698)
T ss_dssp             EEEEEEESSCGGGCCCEEEEEE---EET-TTTE-EEEE-CGGG-----------------------HHHHHHHHHHHHH-
T ss_pred             EEEECCCCCCCCCCCEEEEEEE---EEC-CCCE-EEEE-CCCC-----------------------HHHHHHHHHHHHH-
T ss_conf             8999168997756787999999---978-9972-8984-7654-----------------------0579999999985-


Q ss_pred             CCCEEEEECC-CCCCCEEEECHHC-CCC-CCCCCCHHCCCHHCCCCCCCC-------------CCCCHHHHHHHHCCCCC
Q ss_conf             2320231023-2243112100000-112-222100001100000001776-------------42223789997187545
Q gi|254780818|r   90 QNAEWIAHNA-KFDVGFINAELQR-INK-DPLDPSRIIDTLSIARRKHPS-------------SRNDLNSLCKRYGITIS  153 (245)
Q Consensus        90 ~~~~lVaHNa-~FD~~fL~~el~r-~~~-~~~~~~~~iDTl~lar~~~p~-------------~~~~L~~l~~~~~i~~~  153 (245)
                      +...+|+||+ .||+.+|++-+.. .+. -..+...++|||.++|...|.             .++||++++.++|....
T Consensus        52 ~~~~lVgHN~~~FD~~~L~k~~g~~~~~~~~~~~~~v~DTmi~s~ll~p~~~~~~~~~~~~~~~~hsL~a~g~rlg~~K~  131 (698)
T 1x9m_A           52 RGGLIVFHNGHKYDVPALTKLAKLQLNREFHLPRENCIDTLVLSRLIHSNLKDTDMGLLRSGKLPGALEAWGYRLGEMKG  131 (698)
T ss_dssp             TTCCEEESSTTTTHHHHHHHHHHHHHCCCCCCCGGGEEEHHHHHHHHTTTSCCCTTTTSCGGGSCSCCCHHHHHHHHHHH
T ss_pred             CCCEEEECCCHHCCHHHHHHHHCCCCCCCCCCCCCCEEEHHHHHHHHCCCCCCCCCHHHHCCCCCCCHHHHHHHHCCCCC
T ss_conf             59969975723208999988738742334566778750277887663998644431122026678788999998586543


Q ss_pred             ---------------------------CCCCCCCHHHHHHHHHHHHHHHHC
Q ss_conf             ---------------------------556664026999999999999730
Q gi|254780818|r  154 ---------------------------HRSKHGALLDSHLLSDVYIKMMVG  177 (245)
Q Consensus       154 ---------------------------~r~~H~Al~Da~~~a~v~~~ll~g  177 (245)
                                                 ..-.+-|..|+.+|..+|..|...
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~em~~Ya~~Dv~iT~~L~~~l~~~  182 (698)
T 1x9m_A          132 EYKDDFKRMLEEQGEEYVDGMEWWNFNEEMMDYNVQDVVVTKALLEKLLSD  182 (698)
T ss_dssp             HHHHHHHHHHHHTTCCCCTTGGGTSCCHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHCCCCCCCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             137776432221022334413343348999999998999999999999998


No 17 
>2kfn_A Klenow fragment of DNA polymerase I; complex (polymerase/DNA), exonuclease, transferase, transferase/DNA complex; HET: US1; 2.03A {Escherichia coli} SCOP: c.55.3.5 e.8.1.1 PDB: 1d9f_A* 1d9d_A* 1krp_A* 1ksp_A* 1qsl_A* 1kfs_A* 2kfz_A* 2kzm_A* 2kzz_A* 1dpi_A* 1kfd_A* 1kln_A* 1d8y_A*
Probab=99.19  E-value=4e-11  Score=88.14  Aligned_cols=117  Identities=19%  Similarity=0.288  Sum_probs=76.2

Q ss_pred             CCEEEEECCCCCCCCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf             75899984678888888889999999999998803137989858882288657242021012322485210023447775
Q gi|254780818|r    7 MRKIVFDIETTGLDSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFSEFWDF   86 (245)
Q Consensus         7 mr~iv~D~ETTGl~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f~~f   86 (245)
                      ...++||||||||||..++|+-|+. ...+    +..|  || |    +.      |....  ..+.-.-.++++.+.++
T Consensus        26 ~~~~a~D~ETt~ld~~~~~ivgis~-s~~~----~~~~--yi-p----i~------h~~~~--~~~~~~~~~vl~~Lk~~   85 (605)
T 2kfn_A           26 APVFAFDTETDSLDNISANLVGLSF-AIEP----GVAA--YI-P----VA------HDYLD--APDQISRERALELLKPL   85 (605)
T ss_dssp             SSSEEEEEEESCSCTTTCCEEEEEE-EEET----TEEE--EE-E----CC------CCSTT--CCCCCCHHHHHHHHHHH
T ss_pred             CCEEEEEEECCCCCCCCCEEEEEEE-ECCC----CEEE--EE-E----EC------CCCCC--CCCCCCHHHHHHHHHHH
T ss_conf             9949998317999836574999999-8249----8599--99-8----22------66677--75558999999999999


Q ss_pred             HHCCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCCCC-CCHHHHHHHHC
Q ss_conf             3002320231023224311210000011222210000110000000177642-22378999718
Q gi|254780818|r   87 FNEQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPSSR-NDLNSLCKRYG  149 (245)
Q Consensus        87 i~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~~~-~~L~~l~~~~~  149 (245)
                      +...+.+.|+||+.||+.||.    ++|...  .+.+.||+.+++...|+.+ ..++.++.++.
T Consensus        86 l~~~~i~kV~HNakFD~~~L~----~~Gi~l--~~~~~DTmiaa~ll~~~~~~~~l~~~~~~~l  143 (605)
T 2kfn_A           86 LEDEKALKVGQNLKYDRGILA----NYGIEL--RGIAFDTMLESYILNSVAGRHDMDSLAERWL  143 (605)
T ss_dssp             HTCTTSCEEESSHHHHHHHHH----TTTCCC--CCEEEEHHHHHHHHCTTSSCCSHHHHHHHHS
T ss_pred             HHCCCCCEEEECHHHHHHHHH----HCCCCC--CCCHHHHHHHHHHHCCCCCCCCHHHHHHHHC
T ss_conf             818999799972699999999----779988--9840207778777256555565899999863


No 18 
>2hhv_A DNA polymerase I; DNA replication, klenow fragment, protein- DNA complex, O6-methyl-guanine, transferase/DNA complex; HET: DNA 6OG SUC; 1.55A {Geobacillus stearothermophilus} SCOP: c.55.3.5 e.8.1.1 PDB: 2hhs_A* 2hht_A* 2hhu_A* 2hhq_A* 2hhx_A* 2hw3_A* 1nk4_A* 1l3t_A* 1l3u_A* 1l3v_A* 1l5u_A* 1njw_A* 1l3s_A* 1njy_A* 1njz_A* 1nk0_A* 1njx_A* 1nk5_A* 1nk6_A* 1nk7_A* ...
Probab=98.96  E-value=9.6e-10  Score=79.50  Aligned_cols=131  Identities=15%  Similarity=0.150  Sum_probs=88.8

Q ss_pred             CEEEEECCCCCCCCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             58999846788888888899999999999988031379898588822886572420210123224852100234477753
Q gi|254780818|r    8 RKIVFDIETTGLDSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFSEFWDFF   87 (245)
Q Consensus         8 r~iv~D~ETTGl~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f~~fi   87 (245)
                      ..++|||||||+|+..++|+-|+.- ..+    +. +  |+-|.      ..     .             ..+.|..|+
T Consensus        18 ~~~a~~~e~~~~~~~~~~ivGis~~-~~~----~~-~--~y~p~------~~-----~-------------~~~~l~~~l   65 (580)
T 2hhv_A           18 DKAALVVEVVEENYHDAPIVGIAVV-NEH----GR-F--FLRPE------TA-----L-------------ADPQFVAWL   65 (580)
T ss_dssp             SEEEEEEECCSSSCTTCCCCEEEEE-ETT----EE-E--EECHH------HH-----T-------------TCHHHHHHH
T ss_pred             CCCEEEEECCCCCCCCCEEEEEEEE-ECC----CE-E--EEECC------CC-----C-------------CHHHHHHHH
T ss_conf             8847999769997350728999999-669----77-9--99453------54-----6-------------648999996


Q ss_pred             HCCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCCC-CCCHHHHHHHHCCCCC-C----------C
Q ss_conf             00232023102322431121000001122221000011000000017764-2223789997187545-5----------5
Q gi|254780818|r   88 NEQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPSS-RNDLNSLCKRYGITIS-H----------R  155 (245)
Q Consensus        88 ~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~~-~~~L~~l~~~~~i~~~-~----------r  155 (245)
                      ...+...|+||+.||+.+|    .++|...  ...++||+..+..+.|+. +++|+.++.+|+.... .          .
T Consensus        66 ~d~~~~ki~hN~k~D~~~L----~~~Gi~l--~g~~~DTmiaa~ll~~~~~~~~L~~l~~~~~~~~~~~~~~~~gk~~~~  139 (580)
T 2hhv_A           66 GDETKKKSMFDSKRAAVAL----KWKGIEL--CGVSFDLLLAAYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYGKGAKR  139 (580)
T ss_dssp             HCTTSEEEESSHHHHHHHH----HTTTCCC--CCEEEEHHHHHHHHCGGGCCCSHHHHHHTTTCCSSCCHHHHHCSGGGC
T ss_pred             CCCCCCEEEEEHHHHHHHH----HHCCCCC--CCCEEHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCHHHHHCCCCCCC
T ss_conf             6999865885279999999----9788827--997328999999759999988899999986799878488751877100


Q ss_pred             -------CCCCCHHHHHHHHHHHHHHHH
Q ss_conf             -------666402699999999999973
Q gi|254780818|r  156 -------SKHGALLDSHLLSDVYIKMMV  176 (245)
Q Consensus       156 -------~~H~Al~Da~~~a~v~~~ll~  176 (245)
                             -..-|..||.+|.++|..|..
T Consensus       140 ~~~~~~~~~~Ya~~Da~~t~~L~~~l~~  167 (580)
T 2hhv_A          140 AVPDEPVLAEHLVRKAAAIWELERPFLD  167 (580)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             2632799999999999999999999999


No 19 
>2d5r_A CCR4-NOT transcription complex subunit 7; poly(A) deadenylase, antiproliferative protein, transcription; 2.50A {Homo sapiens} SCOP: c.55.3.9
Probab=98.75  E-value=9.8e-09  Score=73.20  Aligned_cols=169  Identities=15%  Similarity=0.186  Sum_probs=102.3

Q ss_pred             CEEEEECCCCCCCCC-----CC----------------EEEEEEEEEEECC--EECC-CE--EEEEECCCCCCCCHHHEE
Q ss_conf             589998467888888-----88----------------8999999999999--8803-13--798985888228865724
Q gi|254780818|r    8 RKIVFDIETTGLDSK-----ND----------------RIIEIGAVELLDY--SKTN-RT--FQVFLCPNGRKNSPEALK   61 (245)
Q Consensus         8 r~iv~D~ETTGl~~~-----~d----------------~Iieigav~i~~~--~~~~-~~--f~~~i~P~~~~i~~~~~~   61 (245)
                      .+|.+|||-||+-.+     .+                .|||+|..-....  .... .+  |..+.+|......+++++
T Consensus        25 ~fvAiDtEfpGl~~~~~~~~~~~~~~~Y~~lr~nv~~~~iiQlGlt~~~~~g~~~~~~~~w~FNf~f~~~~d~~~~~Si~  104 (252)
T 2d5r_A           25 NYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCNVDLLKIIQLGLTFMNEQGEYPPGTSTWQFNFKFNLTEDMYAQDSIE  104 (252)
T ss_dssp             CEEEEEEECCCCCCCCCSCCSSHHHHHHHHHHHHHTTCCCCEEEEEEECTTSCCCSSCCEEEEEBCCCTTTSCCCHHHHH
T ss_pred             CEEEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHCCEEEEEEEEEECCCCCCCCCCEEEEEEEECCCCCCCCHHHHH
T ss_conf             98999867068457887655799899999999877540303789898624787788861277998777976653778999


Q ss_pred             ---ECCCCCCCC-CCCCCCCHHHHHHHH--HHHCCCCEEEEECCCCCCCEEEECHHCCCCCC----------CCCCHHCC
Q ss_conf             ---202101232-248521002344777--53002320231023224311210000011222----------21000011
Q gi|254780818|r   62 ---LHGITDEFL-KDKPSFSSIFSEFWD--FFNEQNAEWIAHNAKFDVGFINAELQRINKDP----------LDPSRIID  125 (245)
Q Consensus        62 ---ihGIt~~~l-~~~p~f~ev~~~f~~--fi~~~~~~lVaHNa~FD~~fL~~el~r~~~~~----------~~~~~~iD  125 (245)
                         =||+.-..+ ..+-++.+-.+.+..  .+..++.++|+||..||+.||-..|.-..+|.          .-...++|
T Consensus       105 fL~~~GfDF~k~~~~GI~~~~f~ell~~s~~~~~~~v~wv~f~g~yD~~~L~k~l~g~~LP~~~~~F~~~~~~~Fp~~yD  184 (252)
T 2d5r_A          105 LLTTSGIQFKKHEEEGIETQYFAELLMTSGVVLCEGVKWLSFHSGYDFGYLIKILTNSNLPEEELDFFEILRLFFPVIYD  184 (252)
T ss_dssp             HHHHHTCCHHHHHHHCBCHHHHHHHHHTTTSSSSSSCEEEESSCHHHHHHHHHHHHTSCCCSSHHHHHHHHHHHCSCEEE
T ss_pred             HHHHCCCCHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCHHEE
T ss_conf             99986997789998097389999988861143258973787134578999999980999997789999999997734604


Q ss_pred             CHHCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHCC
Q ss_conf             00000001776422237899971875455566640269999999999997305
Q gi|254780818|r  126 TLSIARRKHPSSRNDLNSLCKRYGITISHRSKHGALLDSHLLSDVYIKMMVGG  178 (245)
Q Consensus       126 Tl~lar~~~p~~~~~L~~l~~~~~i~~~~r~~H~Al~Da~~~a~v~~~ll~g~  178 (245)
                      |-.+++.. ++.+.+|..+++.++++--. .+|.|-+||.+|+.+|.+|....
T Consensus       185 ~K~i~~~~-~~~~~~L~~la~~L~v~r~g-~~H~AG~DSllT~~~F~~l~~~~  235 (252)
T 2d5r_A          185 VKYLMKSC-KNLKGGLQEVAEQLELERIG-PQHQAGSDSLLTGMAFFKMREMF  235 (252)
T ss_dssp             HHHHGGGC-TTCCSSHHHHHHHHTCCCCS-STTSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHC-CCCCCHHHHHHHHCCCCCCC-CCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             69898445-66576499999976999879-87653678999999999999997


No 20 
>1yt3_A Ribonuclease D, RNAse D; exoribonuclease, exonuclease, hydrolase, tRNA processing, hydrolase,translation; 1.60A {Escherichia coli} SCOP: a.60.8.3 a.60.8.3 c.55.3.5
Probab=98.63  E-value=6e-08  Score=68.26  Aligned_cols=136  Identities=19%  Similarity=0.234  Sum_probs=86.7

Q ss_pred             CCEEEEECCCCCCCCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf             75899984678888888889999999999998803137989858882288657242021012322485210023447775
Q gi|254780818|r    7 MRKIVFDIETTGLDSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFSEFWDF   86 (245)
Q Consensus         7 mr~iv~D~ETTGl~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f~~f   86 (245)
                      .+.|.|||||+++++...++   +.|.+..    ++. ..+|.|.  .++               +       +..+.+.
T Consensus        22 ~~~ia~DtE~~~~~ty~~~l---~LiQi~~----~~~-~~liD~l--~~~---------------~-------~~~L~~l   69 (375)
T 1yt3_A           22 FPAIALDTEFVRTRTYYPQL---GLIQLFD----GEH-LALIDPL--GIT---------------D-------WSPLKAI   69 (375)
T ss_dssp             SSEEEEEEEEECCSCSSCEE---EEEEEEC----SSC-EEEECGG--GCS---------------C-------CHHHHHH
T ss_pred             CCEEEEECCCCCCCCCCCEE---EEEEEEE----CCE-EEEEECC--CCC---------------C-------HHHHHHH
T ss_conf             99089979848988888878---9999876----892-7999658--987---------------7-------8999999


Q ss_pred             HHCCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCCCCCCHHHHHHH-HCCCCCC-----------
Q ss_conf             3002320231023224311210000011222210000110000000177642223789997-1875455-----------
Q gi|254780818|r   87 FNEQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPSSRNDLNSLCKR-YGITISH-----------  154 (245)
Q Consensus        87 i~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~~~~~L~~l~~~-~~i~~~~-----------  154 (245)
                      +...+...|+||+.||+.+|.+.+   |..   +..++||+..++..-.+.+++|+.++.+ +|+++..           
T Consensus        70 l~~~~i~kv~h~~~~D~~~L~~~~---~~~---~~~~fDt~ia~~~~~~~~~~~l~~l~~~~l~~~l~K~~~~sdW~~rP  143 (375)
T 1yt3_A           70 LRDPSITKFLHAGSEDLEVFLNVF---GEL---PQPLIDTQILAAFCGRPMSWGFASMVEEYSGVTLDKSESRTDWLARP  143 (375)
T ss_dssp             HHCTTSEEEESSCHHHHHHHHHHH---SSC---CSSEEEHHHHHHHTTCCTTCCHHHHHHHHHCCCCCCTTTTSCTTSSS
T ss_pred             HHCCCCEEEEECHHHHHHHHHHHC---CCC---CCCEEECHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHCCCCC
T ss_conf             819886199725586799999964---988---88716638889883875067888999998645033055452225666


Q ss_pred             ---CCCCCCHHHHHHHHHHHHHHHHCCCC
Q ss_conf             ---56664026999999999999730576
Q gi|254780818|r  155 ---RSKHGALLDSHLLSDVYIKMMVGGSQ  180 (245)
Q Consensus       155 ---r~~H~Al~Da~~~a~v~~~ll~g~~q  180 (245)
                         .+.+-|..|+..|.++|..|.....+
T Consensus       144 Ls~~ql~YAa~Dv~~l~~l~~~l~~~L~~  172 (375)
T 1yt3_A          144 LTERQCEYAAADVWYLLPITAKLMVETEA  172 (375)
T ss_dssp             CCHHHHHHHHHHHHTHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHCCCEEHHHHHHHHHHHHHH
T ss_conf             87899999840732379999999987763


No 21 
>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, cytoplasm, exonuclease, hydrolase, magnesium, metal-binding, nonsense- mediated mRNA decay; HET: 7MG GDP; 3.00A {Mus musculus}
Probab=98.62  E-value=7.8e-08  Score=67.56  Aligned_cols=88  Identities=20%  Similarity=0.149  Sum_probs=57.4

Q ss_pred             HCCCCEEEEECCCCCCCEEEECHHCCCCCC--------C--CCCHHCCCHHCCCCCC--C-CCCCCHHHHHHHHCCCC--
Q ss_conf             002320231023224311210000011222--------2--1000011000000017--7-64222378999718754--
Q gi|254780818|r   88 NEQNAEWIAHNAKFDVGFINAELQRINKDP--------L--DPSRIIDTLSIARRKH--P-SSRNDLNSLCKRYGITI--  152 (245)
Q Consensus        88 ~~~~~~lVaHNa~FD~~fL~~el~r~~~~~--------~--~~~~~iDTl~lar~~~--p-~~~~~L~~l~~~~~i~~--  152 (245)
                      .....++||||.-+|+-||-.-|-. .+|.        +  -...++||--|+....  + ...-+|..|+..++...  
T Consensus       273 ~~~kkpiVgHN~~~Dl~~l~~~F~g-pLP~~~~eFk~~v~~lFP~i~DTK~la~~~~~~~~~~~t~L~~l~~~l~~~~~~  351 (507)
T 3d45_A          273 ANSGKLVVGHNMLLDVMHTIHQFYC-PLPADLNEFKEMAICVFPRLLDTKLMASTQPFKDIINNTSLAELEKRLKETPFD  351 (507)
T ss_dssp             HHHCCEEEESSCHHHHHHHHHHHTC-SCCSSHHHHHHHHHHHCSCEEEHHHHTTSTTHHHHCCCCCHHHHHHHTTSTTCC
T ss_pred             HHCCCEEEEECCHHHHHHHHHHHCC-CCCCCHHHHHHHHHHHCCCCEEHHHHHHCCCCCCCCCCCCHHHHHHHHHCCCCC
T ss_conf             7259839992438889999998428-899679999999999777505888776316744467787699999998325789


Q ss_pred             ---------------CCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             ---------------555666402699999999999973
Q gi|254780818|r  153 ---------------SHRSKHGALLDSHLLSDVYIKMMV  176 (245)
Q Consensus       153 ---------------~~r~~H~Al~Da~~~a~v~~~ll~  176 (245)
                                     ....+|.|-.||.+|+.||+.|..
T Consensus       352 ~~~i~~~~~~~~~~~~~~~~HeAGyDA~mTg~vF~~l~~  390 (507)
T 3d45_A          352 PPKVESAEGFPSYDTASEQLHEAGYDAYITGLCFISMAN  390 (507)
T ss_dssp             CCCEEECTTSCCCC----CCCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             983422656665556788873538889999999999999


No 22 
>2a1r_A Poly(A)-specific ribonuclease PARN; DEDD, nuclease domain, hydrolase/RNA complex; 2.60A {Homo sapiens} PDB: 2a1s_A
Probab=98.59  E-value=3.2e-07  Score=63.75  Aligned_cols=87  Identities=22%  Similarity=0.156  Sum_probs=56.0

Q ss_pred             CCCCEEEEECCCCCCCEEEECHHCCCCCC--------C--CCCHHCCCHHCCCCC--C-CCCCCCHHHHHHHHCCCC---
Q ss_conf             02320231023224311210000011222--------2--100001100000001--7-764222378999718754---
Q gi|254780818|r   89 EQNAEWIAHNAKFDVGFINAELQRINKDP--------L--DPSRIIDTLSIARRK--H-PSSRNDLNSLCKRYGITI---  152 (245)
Q Consensus        89 ~~~~~lVaHNa~FD~~fL~~el~r~~~~~--------~--~~~~~iDTl~lar~~--~-p~~~~~L~~l~~~~~i~~---  152 (245)
                      ..+.++||||.-+|+-|+-..|-. .+|.        +  ....++||--++...  - ....-+|..+...++-..   
T Consensus       279 ~~~kpiVgHN~~~Dl~~~~~~f~~-~LP~~~~eFk~~v~~~FP~i~DTK~l~~~~~~~~~~~~t~L~~l~~~l~~~~~~~  357 (430)
T 2a1r_A          279 NSGKLVIGHNMLLDVMHTVHQFYC-PLPADLSEFKEMTTCVFPRLLDTKLMASTQPFKDIINNTSLAELEKRLKETPFNP  357 (430)
T ss_dssp             HHCCEEEESSCHHHHHHHHHHHTC-CCCSSHHHHHHHHHHHCSSEEEHHHHHTSTTTTTTCSCCSHHHHHHHTTSTTCCC
T ss_pred             HCCCCEEECCHHHHHHHHHHHCCC-CCCCCHHHHHHHHHHHCCCEEEHHHHHHCCCCCCCCCCCCHHHHHHHHHCCCCCC
T ss_conf             659977866428889999987158-9997899999999987673004376531366446788866899999972067899


Q ss_pred             --------------CCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             --------------555666402699999999999973
Q gi|254780818|r  153 --------------SHRSKHGALLDSHLLSDVYIKMMV  176 (245)
Q Consensus       153 --------------~~r~~H~Al~Da~~~a~v~~~ll~  176 (245)
                                    ....+|.|-.||.+|+.||+.|..
T Consensus       358 p~i~~~~~~~~~~~~~~~~HeAGyDA~mTG~vF~~l~~  395 (430)
T 2a1r_A          358 PKVESAEGFPSYDTASEQLHEAGYDAYITGLCFISMAN  395 (430)
T ss_dssp             CCEEECTTCCCC-----CCCCHHHHHHHHHHHHHHHHH
T ss_pred             CCEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             83433766665568899861708899999999999999


No 23 
>2gv9_A DNA polymerase; polymerase alpha fold, transferase; HET: DNA; 2.68A {Human herpesvirus 1 strain kos} PDB: 1dml_B*
Probab=98.52  E-value=7.8e-07  Score=61.32  Aligned_cols=167  Identities=21%  Similarity=0.226  Sum_probs=97.1

Q ss_pred             CCCEEEEECCCC-------CC-CCC--CCEEEEEEEEEEECCEECCCEEEEEE-CCCCCCCCHHH---EEECCCCCCCCC
Q ss_conf             775899984678-------88-888--88899999999999988031379898-58882288657---242021012322
Q gi|254780818|r    6 KMRKIVFDIETT-------GL-DSK--NDRIIEIGAVELLDYSKTNRTFQVFL-CPNGRKNSPEA---LKLHGITDEFLK   71 (245)
Q Consensus         6 ~mr~iv~D~ETT-------Gl-~~~--~d~Iieigav~i~~~~~~~~~f~~~i-~P~~~~i~~~~---~~ihGIt~~~l~   71 (245)
                      ..|...||+||.       |+ +|.  .|.||+|+++-...+...  ..+.++ .....+.+...   ..-.++.+-.+.
T Consensus       319 plrvlsfDIE~~s~~~~~~~FP~a~~~~D~Ii~IS~~~~~~g~~~--~~~~~l~tl~~~~~~~~~~~~~~~~~~~~~~V~  396 (1193)
T 2gv9_A          319 AYKLMCFDIECKAGGEDELAFPVAGHPEDLVIQISCLLYDLSTTA--LEHVLLFSLGSCDLPESHLNELAARGLPTPVVL  396 (1193)
T ss_dssp             CCEEEEEEEEEECCSSCTTSCCCTTSTTSEEEEEEEEEEETTTCC--EEEEEEEEESCCCCCHHHHHHHHHTTCCCCEEE
T ss_pred             CCEEEEEEEEECCCCCCCCCCCCCCCCCCCEEEEEEEEEECCCCC--CCEEEEEECCCCCCCCCCCCCCCCCCCCCCEEE
T ss_conf             977999987867798888889898888982899999998768876--645999944775555332234444578986799


Q ss_pred             CCCCCCHHHHHHHHHHHCCC-CEEEEECC-CCCCCEEEECHHCCCCCC------------------------------CC
Q ss_conf             48521002344777530023-20231023-224311210000011222------------------------------21
Q gi|254780818|r   72 DKPSFSSIFSEFWDFFNEQN-AEWIAHNA-KFDVGFINAELQRINKDP------------------------------LD  119 (245)
Q Consensus        72 ~~p~f~ev~~~f~~fi~~~~-~~lVaHNa-~FD~~fL~~el~r~~~~~------------------------------~~  119 (245)
                      .-++-.+.+..|.+++...+ .++++||. .||+.||..-+..++...                              +.
T Consensus       397 ~f~sE~eLL~~F~~~i~~~dPDIItGYNi~~FDlpYL~~Ra~~l~~~~~~~~gR~~~~~~~~~~~~~~~~~~~~~~~~i~  476 (1193)
T 2gv9_A          397 EFDSEFEMLLAFMTLVKQYGPEFVTGYNIINFDWPFLLAKLTDIYKVPLDGYGRMNGRGVFRVWDIGQSHFQKRSKIKVN  476 (1193)
T ss_dssp             EESSHHHHHHHHHHHHHHHCCSEEEESSTTTTHHHHHHHHHHHTTCCCCTTTSSBSSSCCEEECC----------CEEET
T ss_pred             EECCHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHCCCCHHHHCCCCCCCCCEECCCCCCCCCCCCEEEEC
T ss_conf             80999999999999976539988997255477478999999997799878827557656620203566655654046234


Q ss_pred             CCHHCCCHHCCCCCCCCCCCCHHHHHHHHC-CC---CCCCC---------------CCCCHHHHHHHHHHHHHH
Q ss_conf             000011000000017764222378999718-75---45556---------------664026999999999999
Q gi|254780818|r  120 PSRIIDTLSIARRKHPSSRNDLNSLCKRYG-IT---ISHRS---------------KHGALLDSHLLSDVYIKM  174 (245)
Q Consensus       120 ~~~~iDTl~lar~~~p~~~~~L~~l~~~~~-i~---~~~r~---------------~H~Al~Da~~~a~v~~~l  174 (245)
                      .--++|.+.+++..+.-.+++|+++++.+- ..   ++..+               +.-.+.||.++.+++.++
T Consensus       477 Gri~iDl~~~~k~~~kL~sY~L~~Va~~~Lg~~K~dv~~~~i~~~~~~~~~~~~~l~~Y~l~Da~lv~~L~~kl  550 (1193)
T 2gv9_A          477 GMVNIDMYGIITDKIKLSSYKLNAVAEAVLKDKKKDLSYRDIPAYYATGPAQRGVIGEYCIQDSLLVGQLFFKF  550 (1193)
T ss_dssp             TBEEEEHHHHHTTTCCCSCCCHHHHHHHTSCCCCCCCCTTTHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CEEEEEHHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             66998437887663046668899999997277776668888888876567789999999988799999999998


No 24 
>1uoc_A POP2; hydrolase, DEDD nuclease, mRNA degradation, poly(A) tail, transcription regulation, repressor, phosphorylation.; 2.3A {Saccharomyces cerevisiae} SCOP: c.55.3.9
Probab=98.47  E-value=1.6e-07  Score=65.63  Aligned_cols=167  Identities=16%  Similarity=0.149  Sum_probs=99.6

Q ss_pred             CCEEEEECCCCCCCCC-----CC----------------EEEEEEEEEEEC-C-EE----CCCEEEEEECCCCCCCCHHH
Q ss_conf             7589998467888888-----88----------------899999999999-9-88----03137989858882288657
Q gi|254780818|r    7 MRKIVFDIETTGLDSK-----ND----------------RIIEIGAVELLD-Y-SK----TNRTFQVFLCPNGRKNSPEA   59 (245)
Q Consensus         7 mr~iv~D~ETTGl~~~-----~d----------------~Iieigav~i~~-~-~~----~~~~f~~~i~P~~~~i~~~~   59 (245)
                      =.+|.+|+|-||+..+     .+                .|||+|..-... + ..    ..-.|..+..|......+++
T Consensus        38 ~~fVAiD~Ef~Gi~~~~~~~~~~t~~~rY~~lk~nv~~~~iiQlGlt~f~~~g~~~~~~~~~w~FNf~~~~~~~~~~~~S  117 (289)
T 1uoc_A           38 YNHVSISTEFVGTLARPIGTFRSKVDYHYQTMRANVDFLNPIQLGLSLSDANGNKPDNGPSTWQFNFEFDPKKEIMSTES  117 (289)
T ss_dssp             SCEEEEEEEEEC----------CHHHHHHHHHHHHHTTCEEEEEEEEEECTTCCCCSSSCSEEEEEBCCCTTCCCCCHHH
T ss_pred             CCEEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCEEEEEEEEEECCCCCCCCCCEEEEEEEECCCCCCCCCHHH
T ss_conf             99899962517845788866689999999999986643632469999870488768887147899774486202325778


Q ss_pred             EE---ECCCCCCCC-CCCCCCCHHHHHHHH--HHHCCCCEEEEECCCCCCCEEEECHHCCCCC------------CCCCC
Q ss_conf             24---202101232-248521002344777--5300232023102322431121000001122------------22100
Q gi|254780818|r   60 LK---LHGITDEFL-KDKPSFSSIFSEFWD--FFNEQNAEWIAHNAKFDVGFINAELQRINKD------------PLDPS  121 (245)
Q Consensus        60 ~~---ihGIt~~~l-~~~p~f~ev~~~f~~--fi~~~~~~lVaHNa~FD~~fL~~el~r~~~~------------~~~~~  121 (245)
                      ++   -||+.-... ..+-++..-.+.+..  .+...+.++|+||..+|+.+|-.-|.-..+|            .+  .
T Consensus       118 i~fL~~~G~DFnk~~~~GI~~~~f~~~~~~s~l~~~~~~~wv~f~g~yD~~yl~k~l~~~~LP~~~~~F~~~~~~~F--p  195 (289)
T 1uoc_A          118 LELLRKSGINFEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGFLINILMNDSMPNNKEDFEWWVHQYM--P  195 (289)
T ss_dssp             HHHHHHTTCCHHHHHHHCBCHHHHHHHHHTSSCSSCTTSEEEESSTTHHHHHHHHHHTTSCCCSSHHHHHHHHHHHC--S
T ss_pred             HHHHHHCCCCHHHHHHCCCCHHHHHHHHHHCCHHHCCCCEEEEECCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHC--C
T ss_conf             99999859986899971998888889987500442478628960435579999999718989999999999999987--6


Q ss_pred             HHCCCHHCCCCC---CC-----------CCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             001100000001---77-----------64222378999718754555666402699999999999973
Q gi|254780818|r  122 RIIDTLSIARRK---HP-----------SSRNDLNSLCKRYGITISHRSKHGALLDSHLLSDVYIKMMV  176 (245)
Q Consensus       122 ~~iDTl~lar~~---~p-----------~~~~~L~~l~~~~~i~~~~r~~H~Al~Da~~~a~v~~~ll~  176 (245)
                      .++||-.+++..   ..           ..+.+|..+++.+++.... .+|.|-+||.+|+.||++|..
T Consensus       196 ~iyDtK~~~~~~~~l~~~~~~~~~~~~~~~~~~L~~va~~l~v~r~g-~~HeAG~DS~lTg~~F~~l~~  263 (289)
T 1uoc_A          196 NFYDLNLVYKIIQEFKNPQLQQSSQQQQQQQYSLTTLADELGLPRFS-IFTTTGGQSLLMLLSFCQLSK  263 (289)
T ss_dssp             SEEEHHHHHHHHTTTCC-------------CCSHHHHHHHTTCCCCG-GGGSHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCC-CCCCCHHHHHHHHHHHHHHHH
T ss_conf             26139999986213357543433221012348888999872998778-886607899999999999999


No 25 
>2p51_A SPCC18.06C protein; DEDD nuclease fold, hydrolase, gene regulation; 1.40A {Schizosaccharomyces pombe} PDB: 3g0z_A 3g10_A
Probab=98.34  E-value=6.7e-07  Score=61.74  Aligned_cols=168  Identities=14%  Similarity=0.201  Sum_probs=99.9

Q ss_pred             CCEEEEECCCCCCCC--CC---C----------------EEEEEEEEEEEC-C-EECC---CEEEEEECCCCCCCCHHHE
Q ss_conf             758999846788888--88---8----------------899999999999-9-8803---1379898588822886572
Q gi|254780818|r    7 MRKIVFDIETTGLDS--KN---D----------------RIIEIGAVELLD-Y-SKTN---RTFQVFLCPNGRKNSPEAL   60 (245)
Q Consensus         7 mr~iv~D~ETTGl~~--~~---d----------------~Iieigav~i~~-~-~~~~---~~f~~~i~P~~~~i~~~~~   60 (245)
                      =.+|.+|||-+|+-.  .+   +                .|||+|.--... + ....   -.|..+.+|......++++
T Consensus        45 ~~fVAiDtEFpGiv~~p~~~~~~t~d~rY~~lr~nVd~l~iIQlGLt~~~~~g~~p~~~~twqFNF~f~~~~d~~~~~SI  124 (333)
T 2p51_A           45 YPVVSMDTEFPGVVARPLGVFKSSDDYHYQTLRANVDSLKIIQIGLALSDEEGNAPVEACTWQFNFTFNLQDDMYAPESI  124 (333)
T ss_dssp             SCEEEEEEECCCCCCCCCSCCSSSHHHHHHHHHHHHHHSCCCEEEEEEECTTSCCCTTCSEEEEEBCCCTTTSCCCHHHH
T ss_pred             CCEEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCEEEEEEEEEECCCCCCCCCEEEEEEEEECCCCCCCCHHHH
T ss_conf             99899953317725678766689789999999975421451479999772588878886379998797786655047899


Q ss_pred             E---ECCCCCCCC-CCCCCCCHHHHHHHH--HHHCCCCEEEEECCCCCCCEEEECHHCCCCCC----------CCCCHHC
Q ss_conf             4---202101232-248521002344777--53002320231023224311210000011222----------2100001
Q gi|254780818|r   61 K---LHGITDEFL-KDKPSFSSIFSEFWD--FFNEQNAEWIAHNAKFDVGFINAELQRINKDP----------LDPSRII  124 (245)
Q Consensus        61 ~---ihGIt~~~l-~~~p~f~ev~~~f~~--fi~~~~~~lVaHNa~FD~~fL~~el~r~~~~~----------~~~~~~i  124 (245)
                      +   =|||.-..+ +++-.+.+-.+-+..  .+...+..+|.|+..||+++|-.-|.-..+|.          .....++
T Consensus       125 ~fL~~~G~DF~k~~~~GI~~~~F~ell~~sglv~~~~v~Wvtfhg~yD~~yLlk~l~g~~LP~~~~eF~~~l~~~FP~vY  204 (333)
T 2p51_A          125 ELLTKSGIDFKKHQEVGIEPADFAELLIGSGLVLQEEVTWITFHSGYDFAYLLKAMTQIPLPAEYEEFYKILCIYFPKNY  204 (333)
T ss_dssp             HHHHHTTCCHHHHHHHCBCHHHHHHHHHTTTSSSCTTCEEEESSCHHHHHHHHHHHHCSCCCSSHHHHHHHHHHHSSSEE
T ss_pred             HHHHHCCCCHHHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCHHH
T ss_conf             99997496778898609988888999985055416887399806616799999997088788678999999999776287


Q ss_pred             CCHHCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             1000000017764222378999718754555666402699999999999973
Q gi|254780818|r  125 DTLSIARRKHPSSRNDLNSLCKRYGITISHRSKHGALLDSHLLSDVYIKMMV  176 (245)
Q Consensus       125 DTl~lar~~~p~~~~~L~~l~~~~~i~~~~r~~H~Al~Da~~~a~v~~~ll~  176 (245)
                      ||--|++.. .+.+.+|..|++.+++.--. ..|-|-+||.+|++||.+|..
T Consensus       205 D~Kyia~~~-~~~~~gL~~lA~~L~v~r~g-~~HqAGsDSllT~~~F~kl~~  254 (333)
T 2p51_A          205 DIKYIMKSV-LNNSKGLQDIADDLQIHRIG-PQHQAGSDALLTARIFFEIRS  254 (333)
T ss_dssp             EHHHHHTTT-TCCCCCHHHHHHHTTCCCCS-CTTSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHC-CCCCCCHHHHHHHCCCCCCC-CCCCCHHHHHHHHHHHHHHHH
T ss_conf             189999761-56676599999974998767-764530589999999999999


No 26 
>3iay_A DNA polymerase delta catalytic subunit; protein-DNA complex, DNA replication, DNA- binding, DNA-directed DNA polymerase, exonuclease; HET: DNA DOC DCP; 2.00A {Saccharomyces cerevisiae}
Probab=98.33  E-value=1.1e-06  Score=60.30  Aligned_cols=157  Identities=19%  Similarity=0.253  Sum_probs=91.8

Q ss_pred             CCCEEEEECCCCCC-----CCCCCEEEEEEEEEEECCEECCCEEEE-EECCCCCCCCHHHEEECCCCCCCCCCCCCCCHH
Q ss_conf             77589998467888-----888888999999999999880313798-985888228865724202101232248521002
Q gi|254780818|r    6 KMRKIVFDIETTGL-----DSKNDRIIEIGAVELLDYSKTNRTFQV-FLCPNGRKNSPEALKLHGITDEFLKDKPSFSSI   79 (245)
Q Consensus         6 ~mr~iv~D~ETTGl-----~~~~d~Iieigav~i~~~~~~~~~f~~-~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev   79 (245)
                      .+|.+.||+||++-     +|..|.|++|+++.-..+.......+. ..++. .+++          ...+...++-.+.
T Consensus       248 plrilsfDIE~~~~~g~fp~~~~d~ii~I~~~~~~~g~~~~~~~~~~~~~~~-~~~~----------~~~v~~~~sE~eL  316 (919)
T 3iay_A          248 PLRIMSFDIECAGRIGVFPEPEYDPVIQIANVVSIAGAKKPFIRNVFTLNTC-SPIT----------GSMIFSHATEEEM  316 (919)
T ss_dssp             CCEEEEEEEEECCCTTSCCCTTTCCEEEEEEEEEETTCSSCSEEEEEEESCC-CCBT----------TBEEEEESSHHHH
T ss_pred             CCEEEEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCCCEEEEEECCCCC-CCCC----------CCEEEEECCHHHH
T ss_conf             8279999999786899886433451124678762267766426413415776-7889----------9679981999999


Q ss_pred             HHHHHHHHHCCC-CEEEEECC-CCCCCEEEECHHCCCCCCC---------------------------------CCCHHC
Q ss_conf             344777530023-20231023-2243112100000112222---------------------------------100001
Q gi|254780818|r   80 FSEFWDFFNEQN-AEWIAHNA-KFDVGFINAELQRINKDPL---------------------------------DPSRII  124 (245)
Q Consensus        80 ~~~f~~fi~~~~-~~lVaHNa-~FD~~fL~~el~r~~~~~~---------------------------------~~~~~i  124 (245)
                      +..|.+|+...| .+++|||. .||+.+|..-...+|.+.+                                 ..--.+
T Consensus       317 L~~F~~~i~~~DPDII~GyNi~~FDlpYL~~Ra~~l~i~~~~~~gr~~~~~~~~~~~~~~~~~~g~~~~~~~~i~Gr~~i  396 (919)
T 3iay_A          317 LSNWRNFIIKVDPDVIIGYNTTNFDIPYLLNRAKALKVNDFPYFGRLKTVKQEIKESVFSSKAYGTRETKNVNIDGRLQL  396 (919)
T ss_dssp             HHHHHHHHHHHCCSEEEESSTTTTHHHHHHHHHHHTTCTTCSCCSSBTTCCCCBCCEEEEETTTEEEEECCBCCTTCEEE
T ss_pred             HHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCEEEE
T ss_conf             99999998662998798757857537999999998587514331765776644565643454335644228987378998


Q ss_pred             CCHHCCCCCCCCCCCCHHHHHHHH-CCCCCC---C---------------CCCCCHHHHHHHHHHHHH
Q ss_conf             100000001776422237899971-875455---5---------------666402699999999999
Q gi|254780818|r  125 DTLSIARRKHPSSRNDLNSLCKRY-GITISH---R---------------SKHGALLDSHLLSDVYIK  173 (245)
Q Consensus       125 DTl~lar~~~p~~~~~L~~l~~~~-~i~~~~---r---------------~~H~Al~Da~~~a~v~~~  173 (245)
                      |++.+++..+.-.+++|+++|.+| |.....   .               -+--.+.||.++.+++.+
T Consensus       397 Dl~~~~~~~~kl~sy~L~~Va~~~lg~~K~dv~~~~i~~~~~~~~e~~~~l~~Y~l~Da~l~~~L~~k  464 (919)
T 3iay_A          397 DLLQFIQREYKLRSYTLNAVSAHFLGEQKEDVHYSIISDLQNGDSETRRRLAVYCLKDAYLPLRLMEK  464 (919)
T ss_dssp             EHHHHHHHHCCCSCCCHHHHHHHHHCCC------CCHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EHHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             77999987565672328999987715887643044435777535267999999985436889999999


No 27 
>2hbj_A Exosome complex exonuclease RRP6; RNA metabolism, RNA surveillance, RNA processing, hydrolase, gene regulation; 2.10A {Saccharomyces cerevisiae} SCOP: a.60.8.4 c.55.3.5 PDB: 2hbk_A 2hbl_A* 2hbm_A*
Probab=98.30  E-value=1.5e-06  Score=59.45  Aligned_cols=133  Identities=18%  Similarity=0.260  Sum_probs=80.9

Q ss_pred             CCCEEEEECCCCCCCCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf             77589998467888888888999999999999880313798985888228865724202101232248521002344777
Q gi|254780818|r    6 KMRKIVFDIETTGLDSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFSEFWD   85 (245)
Q Consensus         6 ~mr~iv~D~ETTGl~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f~~   85 (245)
                      ..+.|.|||||++.+....++.   .|.+..    ++. ..+|.|.  .+...           +       ..+.++  
T Consensus       105 ~~~~iavDtE~~~~~t~~~~l~---LiQi~t----~~~-~~liD~l--~l~~~-----------l-------~~L~~l--  154 (410)
T 2hbj_A          105 NTKEIAVDLEHHDYRSYYGIVC---LMQIST----RER-DYLVDTL--KLREN-----------L-------HILNEV--  154 (410)
T ss_dssp             TCSEEEEEEEEECSSSSSCEEE---EEEEEC----SSC-EEEEETT--TTTTT-----------G-------GGGHHH--
T ss_pred             CCCEEEEEEEECCCCCCCCCEE---EEEEEE----CCC-CEEEEEC--CCCCC-----------H-------HHHHHH--
T ss_conf             5991999704778851677068---999981----897-7898501--45335-----------8-------999999--


Q ss_pred             HHHCCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCCCCCCHHHHHHHH-CCCCCC----------
Q ss_conf             530023202310232243112100000112222100001100000001776422237899971-875455----------
Q gi|254780818|r   86 FFNEQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPSSRNDLNSLCKRY-GITISH----------  154 (245)
Q Consensus        86 fi~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~~~~~L~~l~~~~-~i~~~~----------  154 (245)
                       +...+-.-|+||+.||+.+|.+.+   |..   ...++||...++.+- ..+.+|++|+.+| |+.+..          
T Consensus       155 -l~d~~I~KV~H~~~~Dl~~L~~~~---g~~---~~~~fDT~ia~~~l~-~~~~sL~~L~~~~l~~~l~K~~q~sDW~~R  226 (410)
T 2hbj_A          155 -FTNPSIVKVFHGAFMDIIWLQRDL---GLY---VVGLFDTYHASKAIG-LPRHSLAYLLENFANFKTSKKYQLADWRIR  226 (410)
T ss_dssp             -HTCTTSEEEESSCHHHHHHHHHHH---CCC---CSSEEEHHHHHHHHT-CSCCSHHHHHHHHSCCCCCCTTTTSCTTCS
T ss_pred             -HCCCCCEEEEECHHHHHHHHHHHC---CCC---CCCCCCHHHHHHHCC-CCCCCHHHHHHHHHCCCCCCCHHHHHHCCC
T ss_conf             -749994299955787799999845---756---787202699999809-887569999998736665641334200455


Q ss_pred             ----CCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             ----5666402699999999999973
Q gi|254780818|r  155 ----RSKHGALLDSHLLSDVYIKMMV  176 (245)
Q Consensus       155 ----r~~H~Al~Da~~~a~v~~~ll~  176 (245)
                          .+.+-|..||..|-.+|-.|..
T Consensus       227 PL~~~qi~YAa~Dv~~Ll~ly~~L~~  252 (410)
T 2hbj_A          227 PLSKPMTAAARADTHFLLNIYDQLRN  252 (410)
T ss_dssp             SCCHHHHHHHHHHHHTHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             58799999998537889999999999


No 28 
>3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown function, ribonuclease D, exonuclease; 2.10A {Bifidobacterium adolescentis ATCC15703}
Probab=98.07  E-value=3.9e-06  Score=56.92  Aligned_cols=129  Identities=22%  Similarity=0.289  Sum_probs=79.9

Q ss_pred             EEEEECCCCCCCCCCCE--EEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf             89998467888888888--9999999999998803137989858882288657242021012322485210023447775
Q gi|254780818|r    9 KIVFDIETTGLDSKNDR--IIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFSEFWDF   86 (245)
Q Consensus         9 ~iv~D~ETTGl~~~~d~--Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f~~f   86 (245)
                      .|.|||||++++....+  +|||+.   .+     .. ..+|.|.  .+..              ..+    .+..+.+.
T Consensus        40 ~iavDtE~~~~~~y~~~~~LvQi~~---~g-----~~-~~liDp~--~~~~--------------~~~----~~~~L~~~   90 (440)
T 3cym_A           40 SLAADAERASGFRYGHEDWLVQFKR---DG-----AG-IGLLDPQ--ALAA--------------AGA----DWNDFNRA   90 (440)
T ss_dssp             EEEEEEEECTTTSSSCCEEEEEEEE---ET-----TE-EEEECHH--HHHH--------------TTC----CHHHHHHH
T ss_pred             CEEEECCCCCCCCCCCEEEEEEEEE---CC-----CC-EEEEECC--CCCC--------------CCC----HHHHHHHH
T ss_conf             1899798678880687478999867---89-----88-7998055--5565--------------553----17999998


Q ss_pred             HHCCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCCCCCCHHHHHHHH-CCCCCC---------C-
Q ss_conf             30023202310232243112100000112222100001100000001776422237899971-875455---------5-
Q gi|254780818|r   87 FNEQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPSSRNDLNSLCKRY-GITISH---------R-  155 (245)
Q Consensus        87 i~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~~~~~L~~l~~~~-~i~~~~---------r-  155 (245)
                      +.  +...|+||+.||+.+|    .++|..+   .+++||+..++..- ..+.+|+.||+.| |+.+..         | 
T Consensus        91 l~--~i~kv~H~~~~Dl~~l----~~~g~~~---~~~fDTqiAa~~lg-~~~~gl~~l~~~~lg~~l~K~~~~sdW~~rP  160 (440)
T 3cym_A           91 VG--DAVWILHDSLQDLPGF----DELGMEP---QRLFDTEIAARLLG-LKRFGLAAVTEHFLGLTLAKEHSAADWSYRP  160 (440)
T ss_dssp             HT--TCEEEESSHHHHHHHH----HHHTCCC---CEEEEHHHHHHHTT-CSSCSHHHHHHHHHCEECCCCCTTCCTTCSS
T ss_pred             HC--CCEEEEECCHHHHHHH----HHCCCCC---CCCHHHHHHHHHCC-CCCCCHHHHHHHHHCCCCCHHHHHHHHCCCC
T ss_conf             67--9819997747899999----9878812---88122999998728-8877799999999476656388887617877


Q ss_pred             ----CCCCCHHHHHHHHHHHHHHHH
Q ss_conf             ----666402699999999999973
Q gi|254780818|r  156 ----SKHGALLDSHLLSDVYIKMMV  176 (245)
Q Consensus       156 ----~~H~Al~Da~~~a~v~~~ll~  176 (245)
                          +..-|..|+..|-++|-.|..
T Consensus       161 Ls~~q~~YAa~Dv~~L~~l~~~l~~  185 (440)
T 3cym_A          161 LPRDWRNYAALDVELLIELETKMRA  185 (440)
T ss_dssp             CCHHHHHHHHHHHHTHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             8889999998606778999999999


No 29 
>1qht_A Protein (DNA polymerase); archaea, hyperthermostable, family B polymerase, POL alpha family polymerase, transferase; 2.10A {Thermococcus SP} SCOP: c.55.3.5 e.8.1.1 PDB: 1tgo_A 2vwj_A* 2vwk_A* 1wns_A* 1wn7_A 1qqc_A* 3a2f_A* 2jgu_A* 1d5a_A
Probab=97.98  E-value=2e-05  Score=52.53  Aligned_cols=150  Identities=13%  Similarity=0.171  Sum_probs=89.5

Q ss_pred             CCCCEEEEECCCCCC---CCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHH
Q ss_conf             777589998467888---88888899999999999988031379898588822886572420210123224852100234
Q gi|254780818|r    5 NKMRKIVFDIETTGL---DSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFS   81 (245)
Q Consensus         5 ~~mr~iv~D~ETTGl---~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~   81 (245)
                      ..+|.+.||+||+..   ++..|.|++|++.  .+.    . -..+..   +.++          .+.+.--++-.+.+.
T Consensus       133 ~~l~i~s~DIE~~~~~~~~~~~d~I~~Is~~--~~~----~-~~vi~~---~~~d----------~~~v~~~~~E~~LL~  192 (775)
T 1qht_A          133 EELTMLAFAIATLYHEGEEFGTGPILMISYA--DGS----E-ARVITW---KKID----------LPYVDVVSTEKEMIK  192 (775)
T ss_dssp             CCCCEEEEEEEECCCTTCCTTCSCEEEEEEE--CSS----C-EEEEES---SCCC----------CSSEEECSCHHHHHH
T ss_pred             CCCEEEEEEEEECCCCCCCCCCCCEEEEEEE--CCC----C-CEEEEC---CCCC----------CCEEEECCCHHHHHH
T ss_conf             9836999998757876888777988999996--389----7-079967---7878----------762787199999999


Q ss_pred             HHHHHHHCCC-CEEEEECC-CCCCCEEEECHHCCCCCC---------------------CCCCHHCCCHHCCCCCCCCCC
Q ss_conf             4777530023-20231023-224311210000011222---------------------210000110000000177642
Q gi|254780818|r   82 EFWDFFNEQN-AEWIAHNA-KFDVGFINAELQRINKDP---------------------LDPSRIIDTLSIARRKHPSSR  138 (245)
Q Consensus        82 ~f~~fi~~~~-~~lVaHNa-~FD~~fL~~el~r~~~~~---------------------~~~~~~iDTl~lar~~~p~~~  138 (245)
                      .|.+++...| .+++|||. .||+.+|..-..++|.+.                     +..--++|++.++++.+.-.+
T Consensus       193 ~F~~~i~~~dPDII~GyN~~~FDlpyL~~R~~~l~i~~~~~r~~~~~~~~~~~~~~~~~i~Gri~iDl~~~~~~~~~l~s  272 (775)
T 1qht_A          193 RFLRVVREKDPDVLITYNGDNFDFAYLKKRCEELGIKFTLGRDGSEPKIQRMGDRFAVEVKGRIHFDLYPVIRRTINLPT  272 (775)
T ss_dssp             HHHHHHHHHCCSEEEESSTTTTHHHHHHHHHHHTTCCCCCSTTSCCCEEEEETTEEEEECTTSEEEEHHHHHHHHSCCSC
T ss_pred             HHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHCCCCEECCCCCCCCEEECCCEEEEEECCEEEEEHHHHHHHHCCCCC
T ss_conf             99999987199889870887752999999999829810103568876543448668998879899983999976466766


Q ss_pred             CCHHHHHHHH-CCCCCC----------C---C----CCCCHHHHHHHHHHHHHH
Q ss_conf             2237899971-875455----------5---6----664026999999999999
Q gi|254780818|r  139 NDLNSLCKRY-GITISH----------R---S----KHGALLDSHLLSDVYIKM  174 (245)
Q Consensus       139 ~~L~~l~~~~-~i~~~~----------r---~----~H~Al~Da~~~a~v~~~l  174 (245)
                      ++|+++++.+ |.....          +   +    ..-.+.||.++.+++..+
T Consensus       273 y~L~~Va~~~lg~~K~d~~~~~i~~~~~~~~~~~~~~~Y~~~D~~lv~~L~~kl  326 (775)
T 1qht_A          273 YTLEAVYEAVFGKPKEKVYAEEIAQAWESGEGLERVARYSMEDAKVTYELGREF  326 (775)
T ss_dssp             CCHHHHHHHHHCCCCCCCCHHHHHHHHTTTCSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             668999999849975556999999987526329999999699999999998878


No 30 
>2py5_A DNA polymerase; protein-DNA complex, replication, transferase/DNA complex; HET: DNA; 1.60A {Bacillus phage PHI29} SCOP: c.55.3.5 e.8.1.1 PDB: 1xhz_A* 1xhx_A* 2ex3_A* 1xi1_A* 2pyj_A* 2pyl_A* 2pzs_A*
Probab=97.84  E-value=3.3e-05  Score=51.13  Aligned_cols=134  Identities=16%  Similarity=0.177  Sum_probs=75.8

Q ss_pred             CCEEEEECCCCCCCCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf             75899984678888888889999999999998803137989858882288657242021012322485210023447775
Q gi|254780818|r    7 MRKIVFDIETTGLDSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFSEFWDF   86 (245)
Q Consensus         7 mr~iv~D~ETTGl~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f~~f   86 (245)
                      ++-.++|+||+ .+...+++-.+|+....+   . ..|.  +                            .+.+++|+++
T Consensus         6 ~~~~~~D~Et~-~~~~~~~~~~~~~~~~~~---~-~~~~--~----------------------------~~~l~~f~~~   50 (575)
T 2py5_A            6 RKMYSCAFETT-TKVEDCRVWAYGYMNIED---H-SEYK--I----------------------------GNSLDEFMAW   50 (575)
T ss_dssp             CCEEEEEEEEC-CBTTBCCEEEEEEEESSC---T-TCEE--E----------------------------ESCHHHHHHH
T ss_pred             CEEEEEEEEEC-CCCCCCEEEEEEEEECCC---C-EEEE--H----------------------------HHHHHHHHHH
T ss_conf             51799999706-897773147999971798---4-0777--0----------------------------8999999999


Q ss_pred             HHCCCCEEEEECCCCCCCEEEECHHCCCCCCCC----C--------CHHCCCHHC-------------CCCCCCCCCCCH
Q ss_conf             300232023102322431121000001122221----0--------000110000-------------000177642223
Q gi|254780818|r   87 FNEQNAEWIAHNAKFDVGFINAELQRINKDPLD----P--------SRIIDTLSI-------------ARRKHPSSRNDL  141 (245)
Q Consensus        87 i~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~----~--------~~~iDTl~l-------------ar~~~p~~~~~L  141 (245)
                      +...+..+++||.+||..||...+.+.+.....    .        ...+-.+..             .+.-+.-.+.||
T Consensus        51 i~~~dpdi~~hNl~FD~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~DS~~l~~~SL  130 (575)
T 2py5_A           51 VLKVQADLYFHNLKFAGAFIINWLERNGFKWSADGLPNTYNTIISRMGQWYMIDICLGYKGKRKIHTVIYDSLKKLPFPV  130 (575)
T ss_dssp             HHHHCCEEEETTHHHHHHHHHHHHHHTTCEECTTCCTTEEEEEEBTTCCEEEEEEEEEEETTEEEEEEEEEHHHHSCSCH
T ss_pred             HHHCCCCEEEECCCCCHHHHHHHHHHCCCCCEECCCCCCCCCEEEECCEEEEEEEEEEECCEEEEEEEEEECCCCCCCCH
T ss_conf             98659979998875799999999997098620324676665226735457999899960330136899984214484479


Q ss_pred             HHHHHHHCCCCCCCC-C----------------CCCHHHHHHHHHHHHHHH
Q ss_conf             789997187545556-6----------------640269999999999997
Q gi|254780818|r  142 NSLCKRYGITISHRS-K----------------HGALLDSHLLSDVYIKMM  175 (245)
Q Consensus       142 ~~l~~~~~i~~~~r~-~----------------H~Al~Da~~~a~v~~~ll  175 (245)
                      +.+++.|+++..... .                --++.||.+|++++..+.
T Consensus       131 ~~va~~f~l~~~K~~~~~~~~~~~~~~~~~~~~~Y~~~Dv~ll~~i~~~~~  181 (575)
T 2py5_A          131 KKIAKDFKLTVLKGDIDYHKERPVGYKITPEEYAYIKNDIQIIAEALLIQF  181 (575)
T ss_dssp             HHHHHHTTCCCCSSCCCTTSCCCTTCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCCCCCCCHHHCCHHHHHCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999987374545564774441022332329899999999999999999999


No 31 
>3k59_A POL II, DNA polymerase II; protein-DNA complex, DNA damage, DNA repair, DNA-binding; HET: DNA DOC DCP; 1.92A {Escherichia coli k-12} PDB: 3k57_A* 3k58_A* 3k5l_A* 3k5m_A* 3k5n_A* 3k5o_A* 3maq_A* 1q8i_A*
Probab=97.71  E-value=0.00023  Score=45.94  Aligned_cols=151  Identities=19%  Similarity=0.233  Sum_probs=84.4

Q ss_pred             CCCEEEEECCCCCCCCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf             77589998467888888888999999999999880313798985888228865724202101232248521002344777
Q gi|254780818|r    6 KMRKIVFDIETTGLDSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFSEFWD   85 (245)
Q Consensus         6 ~mr~iv~D~ETTGl~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f~~   85 (245)
                      ..|.+.||+||++    .+.|..||.   .+   .++..-..+.|........     +   -.+...++..+.+..|.+
T Consensus       152 pl~vlsfDIE~~~----~~~i~~I~~---~~---~~~~~v~~~~~~~~~~~~~-----~---~~v~~~~sE~~LL~~F~~  213 (786)
T 3k59_A          152 PLKWVSIDIETTR----HGELYCIGL---EG---CGQRIVYMLGPENGDASSL-----D---FELEYVASRPQLLEKLNA  213 (786)
T ss_dssp             CCCEEEEEEEECT----TSCEEEEEE---EE---TTEEEEEEESSCCSCCTTC-----S---SEEEEESSHHHHHHHHHH
T ss_pred             CCEEEEEEEEECC----CCCEEEEEE---EC---CCCCEEEEEECCCCCCCCC-----C---EEEEEECCHHHHHHHHHH
T ss_conf             8148999889758----898899998---56---9983899994677777777-----5---389996999999999999


Q ss_pred             HHHCCC-CEEEEECC-CCCCCEEEECHHCCCCCC------------------------CCCCHHCCCHHCCCCCC-CCCC
Q ss_conf             530023-20231023-224311210000011222------------------------21000011000000017-7642
Q gi|254780818|r   86 FFNEQN-AEWIAHNA-KFDVGFINAELQRINKDP------------------------LDPSRIIDTLSIARRKH-PSSR  138 (245)
Q Consensus        86 fi~~~~-~~lVaHNa-~FD~~fL~~el~r~~~~~------------------------~~~~~~iDTl~lar~~~-p~~~  138 (245)
                      ++...| .+++|||. .||+.+|..-..++|.+.                        +..--++|.+...+..+ .-.+
T Consensus       214 ~i~~~DPDII~GyNi~~FDlpyL~~Ra~~~~i~~~lgr~~~~~~~~~~~~~~~~~~~~i~Gr~~iD~~~~~~~~~~~~~s  293 (786)
T 3k59_A          214 WFANYDPDVIIGWNVVQFDLRMLQKHAERYRLPLRLGRDNSELEWREHGFKNGVFFAQAKGRLIIDGIEALKSAFWNFSS  293 (786)
T ss_dssp             HHHHHCCSEEEESSTTTTHHHHHHHHHHHHTCCCCCBTTTBCCEEEECSSSTTCEEEECTTCEEEEHHHHHHHTTCCCSC
T ss_pred             HHHHCCCCEEEECCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCEEEHHHHHHHHHHHHCCCC
T ss_conf             99970999999728868679999999998189730267675023001343465378710768808999999997525543


Q ss_pred             CCHHHHHHHH-CCCCCCCC-------------------CCCCHHHHHHHHHHHHHH
Q ss_conf             2237899971-87545556-------------------664026999999999999
Q gi|254780818|r  139 NDLNSLCKRY-GITISHRS-------------------KHGALLDSHLLSDVYIKM  174 (245)
Q Consensus       139 ~~L~~l~~~~-~i~~~~r~-------------------~H~Al~Da~~~a~v~~~l  174 (245)
                      ++|+++++.+ |-......                   +.-.+-||.++.+++.++
T Consensus       294 y~L~~va~~~L~~~k~~~~~~~~~~~~~~~~~~~~~~~~~Y~~~D~~L~~~L~~kl  349 (786)
T 3k59_A          294 FSLETVAQELLGEGKSIDNPWDRMDEIDRRFAEDKPALATYNLKNCELVTQIFHKT  349 (786)
T ss_dssp             CSHHHHHHHHHCCCCC-CCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             78899999975788666786775345542461458899999988899999999985


No 32 
>2e6m_A Werner syndrome ATP-dependent helicase homolog; APO form, hydrolase; 2.00A {Mus musculus} PDB: 2e6l_A 2fby_A 2fbv_A 2fbx_A 2fbt_A 2fc0_A*
Probab=97.61  E-value=0.00012  Score=47.66  Aligned_cols=88  Identities=15%  Similarity=0.079  Sum_probs=58.5

Q ss_pred             HHHHHHCCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCC-CCCCCHHHHHHHH-CCCCCC------
Q ss_conf             77753002320231023224311210000011222210000110000000177-6422237899971-875455------
Q gi|254780818|r   83 FWDFFNEQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHP-SSRNDLNSLCKRY-GITISH------  154 (245)
Q Consensus        83 f~~fi~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p-~~~~~L~~l~~~~-~i~~~~------  154 (245)
                      +..++....-+.|+||+.+|..+|...   .|..   ...++|+..+++.... ..+.+|.++|..| |+....      
T Consensus        88 L~~lL~~~~i~Kvg~~~~~D~~~L~~~---~~~~---~~~~~d~~~~~~~~~~~~~~~~l~~l~~~~l~~~~~k~k~~q~  161 (208)
T 2e6m_A           88 LKMLLENKSIKKAGVGIEGDQWKLLRD---FDVK---LESFVELTDVANEKLKCAETWSLNGLVKHVLGKQLLKDKSIRC  161 (208)
T ss_dssp             HHHHHTCTTSEEEESSHHHHHHHHHHH---HCCC---CCSEEEHHHHHHHHTTCCCCCCHHHHHHHHHSCBCCCCHHHHT
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHC---CCCC---CCCCCCCHHHHHHHHCCCCCCCHHHHHHHHCCEECCCHHHHHC
T ss_conf             999976998230343375189998430---2234---5731215389999815876535999999982932142075534


Q ss_pred             ----------CCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             ----------5666402699999999999973
Q gi|254780818|r  155 ----------RSKHGALLDSHLLSDVYIKMMV  176 (245)
Q Consensus       155 ----------r~~H~Al~Da~~~a~v~~~ll~  176 (245)
                                .+-+-|-.||.++..+|.+|..
T Consensus       162 s~W~~rpLt~~qi~YAA~Da~~~~~l~~~L~~  193 (208)
T 2e6m_A          162 SNWSNFPLTEDQKLYAATDAYAGLIIYQKLGN  193 (208)
T ss_dssp             SCTTSSSCCHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             77765889999999999999999999999986


No 33 
>1s5j_A DNA polymerase I; replication, disulfide bonds, transferase; HET: DNA; 2.40A {Sulfolobus solfataricus} SCOP: c.55.3.5 e.8.1.1
Probab=97.53  E-value=0.00021  Score=46.11  Aligned_cols=154  Identities=20%  Similarity=0.262  Sum_probs=79.6

Q ss_pred             CCCEEEEECCCC-----CC-CCCCC--EEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCC
Q ss_conf             775899984678-----88-88888--89999999999998803137989858882288657242021012322485210
Q gi|254780818|r    6 KMRKIVFDIETT-----GL-DSKND--RIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFS   77 (245)
Q Consensus         6 ~mr~iv~D~ETT-----Gl-~~~~d--~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~   77 (245)
                      .+|.+.||+||.     |+ +|..|  .||+|+++- .++   .+... .++..  ........+-|.+   +...++-.
T Consensus       189 ~lrilsfDIE~~s~~~~~fPdp~~~~~~ii~I~~~~-~~~---~~~~~-~~~~~--~~~~~~~~~~~~~---v~~f~sEk  258 (847)
T 1s5j_A          189 KIKRVAIDIEVYTPVKGRIPDSQKAEFPIISIALAG-SDG---LKKVL-VLNRN--DVNEGSVKLDGIS---VERFNTEY  258 (847)
T ss_dssp             CCCEEEEEEEECCSSSSCCCCTTTCCSCEEEEEEEE-TTS---CEEEE-EECSS--CCCCCCEEETTEE---EEEESSHH
T ss_pred             CCEEEEEEEEECCCCCCCCCCCCCCCCEEEEEEEEE-CCC---CEEEE-EEECC--CCCCCCCCCCCCE---EEEECCHH
T ss_conf             844999998878888899989434774289999995-689---98999-98167--7776654579958---99989899


Q ss_pred             HHHHHHHHHHHCCCCEEEEECC-CCCCCEEEECHHCCCCCCC----CC----------CHHCCCH--------HCCCCCC
Q ss_conf             0234477753002320231023-2243112100000112222----10----------0001100--------0000017
Q gi|254780818|r   78 SIFSEFWDFFNEQNAEWIAHNA-KFDVGFINAELQRINKDPL----DP----------SRIIDTL--------SIARRKH  134 (245)
Q Consensus        78 ev~~~f~~fi~~~~~~lVaHNa-~FD~~fL~~el~r~~~~~~----~~----------~~~iDTl--------~lar~~~  134 (245)
                      +.+..|.+++.+ -.+++|||. .||+.+|..-..++|....    ..          ...+|..        ...+...
T Consensus       259 eLL~~F~~~i~d-pDII~GyNi~~FDlpYL~~Ra~~lg~~~~~~~~~~~g~~~~~~~~~~~~d~~~~~~~d~~~~~~~~~  337 (847)
T 1s5j_A          259 ELLGRFFDILLE-YPIVLTFNGDDFDLPYIYFRALKLGYFPEEIPIDVAGKDEAKYLAGLHIDLYKFFFNKAVRNYAFEG  337 (847)
T ss_dssp             HHHHHHHHHHTT-CSEEEESSTTTTHHHHHHHHHHTTTCCGGGCSEECCSTTCCEETTSEEEEHHHHHTSHHHHHHTSTT
T ss_pred             HHHHHHHHHCCC-CCEEEEEECCCCCHHHHHHHHHHCCCCCCCCEEECCCCEEEEEEEEEEEEEEEEEHHHHHHHHHHHC
T ss_conf             999999974228-9979883105665899999999809983204253057323578620688653357598999987641


Q ss_pred             CCCCCCHHHHHHHH-CCCCCCC-----------CCCCCHHHHHHHHHH
Q ss_conf             76422237899971-8754555-----------666402699999999
Q gi|254780818|r  135 PSSRNDLNSLCKRY-GITISHR-----------SKHGALLDSHLLSDV  170 (245)
Q Consensus       135 p~~~~~L~~l~~~~-~i~~~~r-----------~~H~Al~Da~~~a~v  170 (245)
                      .-.+++|+++|+.+ |......           -..-.+-||.++..+
T Consensus       338 ~l~sy~L~~Va~~~Lg~~K~~~~~~~~~~d~~~l~~Y~~~D~~l~~~L  385 (847)
T 1s5j_A          338 KYNEYNLDAVAKALLGTSKVKVDTLISFLDVEKLIEYNFRDAEITLQL  385 (847)
T ss_dssp             CCSSCSHHHHHHHHHCCCCC--SSCTTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             302077999999983888422222020100688988875556888899


No 34 
>3m8r_A DNA polymerase I, thermostable; DNA polymerase, DNA replication, nucleotides, modified nucleotide, artificial nucleotide; HET: DNA DOC HXZ 15P; 2.00A {Thermus aquaticus} PDB: 1jxe_A* 3ktq_A* 3lwl_A* 3lwm_A* 3m8s_A* 1ktq_A* 5ktq_A* 4ktq_A* 1qtm_A* 2ktq_A* 1qss_A* 1qsy_A*
Probab=97.16  E-value=0.00056  Score=43.46  Aligned_cols=125  Identities=11%  Similarity=0.080  Sum_probs=75.9

Q ss_pred             CCCCCCCCCCCEEEEEEEEEEECCEECCCEEEEEECCCCCCCCHHHEEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCCE
Q ss_conf             46788888888899999999999988031379898588822886572420210123224852100234477753002320
Q gi|254780818|r   14 IETTGLDSKNDRIIEIGAVELLDYSKTNRTFQVFLCPNGRKNSPEALKLHGITDEFLKDKPSFSSIFSEFWDFFNEQNAE   93 (245)
Q Consensus        14 ~ETTGl~~~~d~Iieigav~i~~~~~~~~~f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p~f~ev~~~f~~fi~~~~~~   93 (245)
                      +|||+++|....|+-|+.   -.. ..+  +..|+-.   ..+.         ...+...|   +....+      .+..
T Consensus         2 ~e~~~~~p~~~~~vG~~~---~~~-~~~--~~~~~~~---~~~~---------~~~~~~~~---~~~~~~------~~~~   54 (540)
T 3m8r_A            2 LEEAPWPPPEGAFVGFVL---SRK-EPM--WADLLAL---AAAR---------GGRVHRAP---EPYKAL------RDLK   54 (540)
T ss_dssp             CEEECSSCCTTCEEEEEE---SSS-CTT--TCCEEEE---EEEE---------TTEEEECS---SHHHHG------GGCS
T ss_pred             CCCCCCCCCCCEEEEEEE---EEC-CCC--EEEEEEC---CCCC---------CCCHHHHH---HHHHHH------HHHH
T ss_conf             887899988841899999---855-887--3786401---2234---------45322225---799863------4346


Q ss_pred             EEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             23102322431121000001122221000011000000017764222378999718754555666402699999999999
Q gi|254780818|r   94 WIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPSSRNDLNSLCKRYGITISHRSKHGALLDSHLLSDVYIK  173 (245)
Q Consensus        94 lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~~~~~L~~l~~~~~i~~~~r~~H~Al~Da~~~a~v~~~  173 (245)
                      -+.||..||+.+|.   .++|....   ++.||+.+|..+-|+ +++|++|+++|.=.    ..--|-.||.+|.++|..
T Consensus        55 ~~~~~~~~d~~~l~---~~~Gi~~~---~~~Dtmlaa~ll~~~-~~~l~~la~~~l~~----~~~YA~~Da~~t~~L~~~  123 (540)
T 3m8r_A           55 EARGLLAKDLSVLA---LREGLGLP---PGDDPMLLAYLLDPS-NTTPEGVARRYGGE----WTEEAGERAALSERLFAN  123 (540)
T ss_dssp             CBCSTTHHHHHHHH---HHTTCCCC---BCCCHHHHHHHHCTT-CCCHHHHHHHHTCC----CCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH---HHCCCCCC---CCCHHHHHHHHHCCC-CCCHHHHHHHHCCC----CHHHHHHHHHHHHHHHHH
T ss_conf             77756888799999---96799889---977189999983998-99869999997752----158899999999999999


Q ss_pred             HHH
Q ss_conf             973
Q gi|254780818|r  174 MMV  176 (245)
Q Consensus       174 ll~  176 (245)
                      |..
T Consensus       124 l~~  126 (540)
T 3m8r_A          124 LWG  126 (540)
T ss_dssp             HHH
T ss_pred             HHH
T ss_conf             999


No 35 
>3nae_A DNA polymerase, GP43; RB69 DNA polymerase; HET: DNA G35 DOC DTP; 2.00A {Enterobacteria phage RB69} PDB: 3lzi_A* 3lzj_A* 1ig9_A* 1q9x_A* 2atq_A* 2dy4_A* 2oyq_A* 2ozm_A* 2ozs_A* 2p5g_A* 2p5o_A* 1q9y_A* 3l8b_A* 3lds_A* 3cq8_A* 1ih7_A* 1clq_A* 1waf_A* 1waj_A* 3cfr_A* ...
Probab=96.54  E-value=0.0014  Score=40.93  Aligned_cols=164  Identities=18%  Similarity=0.262  Sum_probs=82.8

Q ss_pred             CCCCEEEEECCCC---CC-CCC--CCEEEEEEEEEEECCEECCCEEEEEE---CCCCCCCCHH----HEEEC--CC---C
Q ss_conf             7775899984678---88-888--88899999999999988031379898---5888228865----72420--21---0
Q gi|254780818|r    5 NKMRKIVFDIETT---GL-DSK--NDRIIEIGAVELLDYSKTNRTFQVFL---CPNGRKNSPE----ALKLH--GI---T   66 (245)
Q Consensus         5 ~~mr~iv~D~ETT---Gl-~~~--~d~Iieigav~i~~~~~~~~~f~~~i---~P~~~~i~~~----~~~ih--GI---t   66 (245)
                      .+.|.+.||+||+   |+ +|.  .|.|++|+++--.+     +.+..+.   .|.. .....    .....  |.   .
T Consensus       106 ~~l~i~sfDIE~~s~~gFP~p~~~~d~Ii~Is~~~~~~-----~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  179 (903)
T 3nae_A          106 TKIRVANFDIEVTSPDGFPEPSQAKHPIDAITHYDSID-----DRFYVFDLLNSPYG-NVEEWSIEIAAKLQEQGGDEVP  179 (903)
T ss_dssp             GGSCEEEEEEEECCTTSSCCTTTCCSCEEEEEEEETTT-----TEEEEEEECEETTE-ECCCCCHHHHHSCGGGTCCCCC
T ss_pred             CCCCEEEEEEEECCCCCCCCCCCCCCCEEEEEEEECCC-----CEEEEEECCCCCCC-CCCCCCCCCCCCCCCCCCCCCC
T ss_conf             63518999976788999998344789489999996379-----82899842576766-5211023445432223445565


Q ss_pred             -----CCCCCCCCCCCHHHHHHHHHHHCCC-CEEEEECC-CCCCCEEEECHHCCC-------CCC---------------
Q ss_conf             -----1232248521002344777530023-20231023-224311210000011-------222---------------
Q gi|254780818|r   67 -----DEFLKDKPSFSSIFSEFWDFFNEQN-AEWIAHNA-KFDVGFINAELQRIN-------KDP---------------  117 (245)
Q Consensus        67 -----~~~l~~~p~f~ev~~~f~~fi~~~~-~~lVaHNa-~FD~~fL~~el~r~~-------~~~---------------  117 (245)
                           +-.+...++-.+.+.+|++++...+ .+++|||. .||+.+|..-+.+.+       +.+               
T Consensus       180 ~~~~~~v~~~~~~sE~eLL~~F~~~i~~~dPDII~GyN~~~FD~pYL~~R~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  259 (903)
T 3nae_A          180 SEIIDKIIYMPFDNEKELLMEYLNFWQQKTPVILTGWNVESFAIPYVYNRIKNIFGESTAKRLSPHRKTRVKVIENMYGS  259 (903)
T ss_dssp             HHHHTTEEEEEESSHHHHHHHHHHHHHHTCCSEEECSSTTTTHHHHHHHHHHHHHCHHHHGGGSTTSCEEEEEEEETTEE
T ss_pred             CCCCCCEEEEECCCHHHHHHHHHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEECCCC
T ss_conf             33468628996599999999999862505998999689877679999999998557632211254567652100002355


Q ss_pred             -----CCCCHHCCCHHCCCCC--CCCCCCCHHHHHHHH-CCCCCCC--C------------CCCCHHHHHHHHHHHHHH
Q ss_conf             -----2100001100000001--776422237899971-8754555--6------------664026999999999999
Q gi|254780818|r  118 -----LDPSRIIDTLSIARRK--HPSSRNDLNSLCKRY-GITISHR--S------------KHGALLDSHLLSDVYIKM  174 (245)
Q Consensus       118 -----~~~~~~iDTl~lar~~--~p~~~~~L~~l~~~~-~i~~~~r--~------------~H~Al~Da~~~a~v~~~l  174 (245)
                           +....++|.+.+.+..  ....+++|+.++..+ |......  .            .--.+.||.++.+++..+
T Consensus       260 ~~~~~i~G~~~lD~~~l~~k~~~~~~~sy~Ld~va~~~Lg~~k~~~~~~~~~~~~~~~~~~~~Y~~~D~~L~~~L~~kl  338 (903)
T 3nae_A          260 REIITLFGISVLDYIDLYKKFSFTNQPSYSLDYISEFELNVGKLKYDGPISKLRESNHQRYISYNIIAVYRVLQIDAKR  338 (903)
T ss_dssp             EEEEEETTCEECCHHHHHHHHSCCCCSCCCHHHHHHHHHCCCCCCCSSCGGGHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CEEEEEECEEEEEHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             3146660436752899999987602011239999999728887644210323304678889887432799999999998


No 36 
>1vk0_A Hypothetical protein; homohexamer, AT5G06450, structural genomics, protein structure initiative, center for eukaryotic structural genomics; 2.10A {Arabidopsis thaliana} SCOP: c.55.3.5 PDB: 2q3s_A
Probab=95.91  E-value=0.0026  Score=39.26  Aligned_cols=90  Identities=11%  Similarity=0.208  Sum_probs=61.0

Q ss_pred             HHHHHHHHHCCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCC---CCCCHHHHHHHH-CCCCCC-
Q ss_conf             344777530023202310232243112100000112222100001100000001776---422237899971-875455-
Q gi|254780818|r   80 FSEFWDFFNEQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPS---SRNDLNSLCKRY-GITISH-  154 (245)
Q Consensus        80 ~~~f~~fi~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~---~~~~L~~l~~~~-~i~~~~-  154 (245)
                      .+.+.+|+....-+.||||+..|+..|.+.   +|..   ...++|+-.++......   .+.+|..|++.+ |+.+.. 
T Consensus        97 ~~~L~~~L~~~~i~KVG~~i~~D~~~L~~~---~gi~---~~~~vDl~~~a~~~~~~~~~~~~~l~~L~~~~lg~~l~K~  170 (206)
T 1vk0_A           97 LKDLYRFFASKFVTFVGVQIEEDLDLLREN---HGLV---IRNAINVGKLAAEARGTLVLEFLGTRELAHRVLWSDLGQL  170 (206)
T ss_dssp             GHHHHHHHTCSSSEEEESSCHHHHHHHHHH---HCCC---CSSEEEHHHHHHHHHTCGGGGGCCHHHHHHHHHCCCCHHH
T ss_pred             HHHHHHHHCCCCEEEEEECHHHHHHHHHHH---CCCC---CCCEEECHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCCC
T ss_conf             799999965998159996269889998512---4976---5535525699998732544131009999999769867867


Q ss_pred             -------------CCCCCCHHHHHHHHHHHHHHH
Q ss_conf             -------------566640269999999999997
Q gi|254780818|r  155 -------------RSKHGALLDSHLLSDVYIKMM  175 (245)
Q Consensus       155 -------------r~~H~Al~Da~~~a~v~~~ll  175 (245)
                                   .+-+-|-.||.++-++|.+|.
T Consensus       171 ~~~~s~W~~pLs~~Qi~YAA~DA~~~~~iy~~L~  204 (206)
T 1vk0_A          171 DSIEAKWEKAGPEEQLEAAAIEGWLIVNVWDQLS  204 (206)
T ss_dssp             HHHHHTGGGSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             6521487688999999999998999999999985


No 37 
>3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase, disease mutation, DNA replication, DNA-binding, DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo sapiens}
Probab=93.96  E-value=0.014  Score=34.73  Aligned_cols=82  Identities=22%  Similarity=0.290  Sum_probs=51.3

Q ss_pred             CCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCC----------CCCC-------------------------
Q ss_conf             23202310232243112100000112222100001100000----------0017-------------------------
Q gi|254780818|r   90 QNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIA----------RRKH-------------------------  134 (245)
Q Consensus        90 ~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~la----------r~~~-------------------------  134 (245)
                      +..++||||++||...+..+..   +.. ...+++|||.|-          |.+|                         
T Consensus       193 ~~rlVVGHNVsyDRaRi~EeY~---l~~-s~~rFlDTMSLHvavsGm~S~QR~~w~~~kk~~~~~~~~~~~~~~~~~~~~  268 (1172)
T 3ikm_A          193 QEQLVVGHNVSFDRAHIREQYL---IQG-SRMRFLDTMSMHMAISGLSSFQRSLWIAAKQGKHKVQPPTKQGQKSQRKAR  268 (1172)
T ss_dssp             SCCCCBCBCSSSSTTGGGTSSC---SSC-CCCCCCBTTHHHHHHSCCCHHHHHHHHHHHHC-------------------
T ss_pred             CCCEEEECCCCCCHHHHHHHHH---HCC-CCCEEEEHHHHHHHCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             7637985675510888888873---145-676322103465540256624268998742313220012333332133321


Q ss_pred             ----------CC-C---CCCHHHHHHHHC--CCCCC--CCC-----------------CCCHHHHHHHHHHHHHHH
Q ss_conf             ----------76-4---222378999718--75455--566-----------------640269999999999997
Q gi|254780818|r  135 ----------PS-S---RNDLNSLCKRYG--ITISH--RSK-----------------HGALLDSHLLSDVYIKMM  175 (245)
Q Consensus       135 ----------p~-~---~~~L~~l~~~~~--i~~~~--r~~-----------------H~Al~Da~~~a~v~~~ll  175 (245)
                                -. .   .|||.++++.|-  ++++.  |+.                 --+..|+.+|.+||..+.
T Consensus       269 ~~~~~~~~~W~~~sS~~~NSL~dV~~lhcg~~~ldK~~Rd~Fv~~~~~dI~~~fq~Lm~YCA~DV~aT~~V~~kl~  344 (1172)
T 3ikm_A          269 RGPAISSWDWLDISSVNSNSLAEVHRLYVGGPPLEKEPRELFVKGTMKDIRENFQDLMQYCAQDVWATHEVFQQQL  344 (1172)
T ss_dssp             -------CCCCCCCCTTSHHHHHHHTCSSCSCS--SCSSSSTTTTCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCHHHCCCCCCCCHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             2652234330002344536499999974799877877888885299999999899999999988999999999877


No 38 
>1noy_A Protein (DNA polymerase (E.C.2.7.7.7)); exonuclease, DNA-binding, complex (nucleotidyltransferase/DNA); HET: DNA; 2.20A {Enterobacteria phage T4} SCOP: c.55.3.5 PDB: 1noz_A*
Probab=93.52  E-value=0.065  Score=30.56  Aligned_cols=165  Identities=18%  Similarity=0.167  Sum_probs=80.2

Q ss_pred             CCCCEEEEECCCCCCC---C--CCCEEEEEEEEEEECCEECCCEEEEEECC---CCC--CCCHHHEE------ECCCC--
Q ss_conf             7775899984678888---8--88889999999999998803137989858---882--28865724------20210--
Q gi|254780818|r    5 NKMRKIVFDIETTGLD---S--KNDRIIEIGAVELLDYSKTNRTFQVFLCP---NGR--KNSPEALK------LHGIT--   66 (245)
Q Consensus         5 ~~mr~iv~D~ETTGl~---~--~~d~Iieigav~i~~~~~~~~~f~~~i~P---~~~--~i~~~~~~------ihGIt--   66 (245)
                      .+++...+|+||++-+   |  ..+.|++|++..-.+.     .+.++.-.   ...  +.+.....      ..++.  
T Consensus       104 ~~i~i~~~die~~~~~~~~~~~~~~~i~~I~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (388)
T 1noy_A          104 KFVRVANCDIEVTGDKFPDPMKAEYEIDAITHYDSIDD-----RFYVFDLLNSMYGSVSKWDAKLAAKLDCEGGDEVPQE  178 (388)
T ss_dssp             GGCCEEEEEEEECCSSCCCTTTCCSCEEEEEEEETTTT-----EEEEEEECCCSSCCCCCCCHHHHHSCGGGTCCCCCHH
T ss_pred             CCCEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCC-----EEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             33079888787436676786310021004788864798-----5999985154456666655555543223345565545


Q ss_pred             -CCC--CCCCCCCCHHHHHHHHHHHCCC-CEEEEECC-CCCCCEEEECHHCCCCCC------------------------
Q ss_conf             -123--2248521002344777530023-20231023-224311210000011222------------------------
Q gi|254780818|r   67 -DEF--LKDKPSFSSIFSEFWDFFNEQN-AEWIAHNA-KFDVGFINAELQRINKDP------------------------  117 (245)
Q Consensus        67 -~~~--l~~~p~f~ev~~~f~~fi~~~~-~~lVaHNa-~FD~~fL~~el~r~~~~~------------------------  117 (245)
                       .+.  +....+-.+.+..|++++...+ .+++|||. .||+..|-.-+.+.+...                        
T Consensus       179 ~~d~v~~~~~~~E~~LL~~F~~~i~~~dPDiI~G~N~~~FD~pYL~~R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  258 (388)
T 1noy_A          179 ILDRVIYMPFDNERDMLMEYINLWEQKRPAIFTGWNIEGFDVPYIMNRVKMILGERSMKRFSPIGRVKSKLLQNMYGSKE  258 (388)
T ss_dssp             HHTTEEEEEESCHHHHHHHHHHHHHHSCCSEEECSSTTTTHHHHHHHHHHHHHHHHHHGGGSTTSCEEEEECCGGGCSCE
T ss_pred             CCCCEEEEEECCHHHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEECCCCCE
T ss_conf             67886999839999999999999987388889870678851789999999852642101137567664225540256522


Q ss_pred             ---CCCCHHCCCHHCCCCCC--CCCCCCHHHHHHHHCCCCC---CCCC------------CCCHHHHHHHHHHHHHH
Q ss_conf             ---21000011000000017--7642223789997187545---5566------------64026999999999999
Q gi|254780818|r  118 ---LDPSRIIDTLSIARRKH--PSSRNDLNSLCKRYGITIS---HRSK------------HGALLDSHLLSDVYIKM  174 (245)
Q Consensus       118 ---~~~~~~iDTl~lar~~~--p~~~~~L~~l~~~~~i~~~---~r~~------------H~Al~Da~~~a~v~~~l  174 (245)
                         ......+|.+.+.+...  ...+++|+..+..+.-...   ....            .-.+-||.++.+++.+|
T Consensus       259 ~~~~~g~~~~d~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~d~~kli~Yn~~D~~l~~~L~~kl  335 (388)
T 1noy_A          259 IYSIDGVSILDYLDLYKKFAFTNLPSFSLESVAQHETKKGKLPYDGPINKLRETNHQRYISYNIIDVESVQAIDKIR  335 (388)
T ss_dssp             EEEETTSEECCHHHHHHHHTCCCCSCCSHHHHHHHHHSCCCCCCSSCGGGHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             56421421678999999763034232028889998668876672566666654189999999999999999999997


No 39 
>1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition, helix-coil dynamics, inhibitor design, complex (polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP: a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A* 1taq_A*
Probab=92.29  E-value=0.078  Score=30.08  Aligned_cols=72  Identities=15%  Similarity=0.079  Sum_probs=53.1

Q ss_pred             EEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             23102322431121000001122221000011000000017764222378999718754555666402699999999999
Q gi|254780818|r   94 WIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRKHPSSRNDLNSLCKRYGITISHRSKHGALLDSHLLSDVYIK  173 (245)
Q Consensus        94 lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~~~~~L~~l~~~~~i~~~~r~~H~Al~Da~~~a~v~~~  173 (245)
                      -+.||..||+.+|.   .+.|...   ..+.||+.++...-|+ +++++.+.++|.-..    ..-|..||.+|.++|..
T Consensus       347 k~~~~lk~d~~vl~---~~~gi~~---~~~~DtmiaayLl~p~-~~~~~~l~~~~~~e~----~eYa~~Da~~t~~L~~~  415 (832)
T 1bgx_T          347 EARGLLAKDLSVLA---LREGLGL---PPGDDPMLLAYLLDPS-NTTPEGVARRYGGEW----TEEAGERAALSERLFAN  415 (832)
T ss_dssp             SBCBTTHHHHHHHH---HHHTCCC---CBCCCHHHHHHHHCTT-CCSTTHHHHHHSCCC----CSSHHHHHHHHHHHHHH
T ss_pred             HHHCCCCCCHHHHH---HHHHHCC---CHHHHHHHHHHHHCCC-CCCHHHHHHHHCCCC----HHHHHHHHHHHHHHHHH
T ss_conf             86244300399986---4101124---4002599999986477-868067777625441----57799999999999999


Q ss_pred             HHH
Q ss_conf             973
Q gi|254780818|r  174 MMV  176 (245)
Q Consensus       174 ll~  176 (245)
                      |..
T Consensus       416 L~~  418 (832)
T 1bgx_T          416 LWG  418 (832)
T ss_dssp             HHH
T ss_pred             HHH
T ss_conf             999


No 40 
>2dfa_A Hypothetical UPF0271 protein TTHB195; lactam utilization protein, structural genomics, NPPSFA; 1.90A {Thermus thermophilus HB8} SCOP: c.6.2.5
Probab=32.72  E-value=18  Score=15.26  Aligned_cols=38  Identities=21%  Similarity=0.248  Sum_probs=26.8

Q ss_pred             CCCHHHHHHHHCCCCCCCCCCCCHHHHH----HHHHHHHHHH
Q ss_conf             2223789997187545556664026999----9999999997
Q gi|254780818|r  138 RNDLNSLCKRYGITISHRSKHGALLDSH----LLSDVYIKMM  175 (245)
Q Consensus       138 ~~~L~~l~~~~~i~~~~r~~H~Al~Da~----~~a~v~~~ll  175 (245)
                      -..|..+|+..|..+.|=+.|+||+-.-    .+|+.+.+.+
T Consensus        91 i~al~~~a~~~g~~l~hVKpHGALYn~~~~d~~la~ai~~ai  132 (250)
T 2dfa_A           91 IGALSAFLKAEGLPLHHVKPHGALYLKACRDRETARAIALAV  132 (250)
T ss_dssp             HHHHHHHHHHTTCCCCCBCCCHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999819975220502789999986599999999999


No 41 
>1v6t_A Hypothetical UPF0271 protein PH0986; TIM-barrel, lactam utilization protein, structural genomics; 1.70A {Pyrococcus horikoshii OT3} SCOP: c.6.2.5
Probab=28.22  E-value=18  Score=15.33  Aligned_cols=38  Identities=26%  Similarity=0.447  Sum_probs=27.0

Q ss_pred             CCCHHHHHHHHCCCCCCCCCCCCHHHHHH----HHHHHHHHH
Q ss_conf             22237899971875455566640269999----999999997
Q gi|254780818|r  138 RNDLNSLCKRYGITISHRSKHGALLDSHL----LSDVYIKMM  175 (245)
Q Consensus       138 ~~~L~~l~~~~~i~~~~r~~H~Al~Da~~----~a~v~~~ll  175 (245)
                      -..|..+|+..|..+.|=+.|+||+-.-+    +|+.+...+
T Consensus        91 i~al~~~a~~~g~~l~hVKPHGALYN~~~~D~~lA~ai~~ai  132 (255)
T 1v6t_A           91 VGALYAFAKAEGLELQHVKPHGALYNAMVKEEDLARAVIEGI  132 (255)
T ss_dssp             HHHHHHHHHHTTCCEEEECCCHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCEEEEECCCHHHHHHHHCCHHHHHHHHHHH
T ss_conf             999999999839902442312788888862999999999999


No 42 
>2x5e_A UPF0271 protein PA4511; unknown function; HET: CIT; 2.30A {Pseudomonas aeruginosa}
Probab=28.05  E-value=21  Score=14.92  Aligned_cols=85  Identities=18%  Similarity=0.232  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHCCCCEEEEECCCCCC-CEEEECHHCCCCCCCCCCHHCCCHHCCCCCCCCCCCCHHHHHHHHCCCCCCCC
Q ss_conf             02344777530023202310232243-11210000011222210000110000000177642223789997187545556
Q gi|254780818|r   78 SIFSEFWDFFNEQNAEWIAHNAKFDV-GFINAELQRINKDPLDPSRIIDTLSIARRKHPSSRNDLNSLCKRYGITISHRS  156 (245)
Q Consensus        78 ev~~~f~~fi~~~~~~lVaHNa~FD~-~fL~~el~r~~~~~~~~~~~iDTl~lar~~~p~~~~~L~~l~~~~~i~~~~r~  156 (245)
                      ++..+.+......|-.+=||=.==|. +|     .|-.++. +...+.+.+.       -|-..|..+|+..|..+.|=+
T Consensus        49 ~~m~~tv~lA~~~~V~IGAHPsypD~~gF-----GRr~~~~-s~~el~~~v~-------~Qi~al~~~a~~~g~~l~hVK  115 (252)
T 2x5e_A           49 LTMRRAVELAVRHGVSIGAHPAYPDLSGF-----GRRSLAC-SAEEVHAMVL-------YQIGALDAFCRSLGTQVAYVK  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCEEEEECCCSCTTTT-----TCSCCCC-CHHHHHHHHH-------HHHHHHHHHHHHTTCCCCEEC
T ss_pred             HHHHHHHHHHHHCCCEEECCCCCCCCCCC-----CCCCCCC-CHHHHHHHHH-------HHHHHHHHHHHHCCCEEEEEC
T ss_conf             99999999999859978368998765789-----9998899-9999999999-------999999999998499103653


Q ss_pred             CCCCHHHH----HHHHHHHHHHH
Q ss_conf             66402699----99999999997
Q gi|254780818|r  157 KHGALLDS----HLLSDVYIKMM  175 (245)
Q Consensus       157 ~H~Al~Da----~~~a~v~~~ll  175 (245)
                      .|+||+-.    ..+|+.+.+.+
T Consensus       116 pHGALYn~~~~D~~lA~ai~~ai  138 (252)
T 2x5e_A          116 PHGALYNDLVGDDELLRAVLDAC  138 (252)
T ss_dssp             CCHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             13999999986199999999999


No 43 
>1xw8_A UPF0271 protein YBGL; NESG, northeast structural genomics consortium, structural genomics, protein structure initiative, PSI, X-RAY; 2.00A {Escherichia coli} SCOP: c.6.2.5
Probab=25.19  E-value=22  Score=14.78  Aligned_cols=39  Identities=21%  Similarity=0.365  Sum_probs=27.2

Q ss_pred             CCCCHHHHHHHHCCCCCCCCCCCCHHHH----HHHHHHHHHHH
Q ss_conf             4222378999718754555666402699----99999999997
Q gi|254780818|r  137 SRNDLNSLCKRYGITISHRSKHGALLDS----HLLSDVYIKMM  175 (245)
Q Consensus       137 ~~~~L~~l~~~~~i~~~~r~~H~Al~Da----~~~a~v~~~ll  175 (245)
                      |-..|..+|+..|..+.+=+.|+||+-.    .-+|+.+.+.+
T Consensus        85 Qi~al~~~a~~~g~~l~hVKpHGALYn~a~~d~~lA~~i~~ai  127 (252)
T 1xw8_A           85 QIGALATIARAQGGVMRHVKPHGMLYNQAAKEAQLADAIARAV  127 (252)
T ss_dssp             HHHHHHHHHHHTTCCEEEECCCHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCCCEECCCHHHHHHHHCCHHHHHHHHHHH
T ss_conf             9999999999849963102503699987513799999999999


No 44 
>3dao_A Putative phosphatse; structural genomics, joint center for S genomics, JCSG, protein structure initiative, PSI-2, hydrol; HET: MSE 1PE CIT; 1.80A {Eubacterium rectale}
Probab=20.32  E-value=37  Score=13.34  Aligned_cols=24  Identities=17%  Similarity=0.160  Sum_probs=19.0

Q ss_pred             CCCCCCCCEEEEECCCCCCCCCCC
Q ss_conf             986677758999846788888888
Q gi|254780818|r    1 MIRKNKMRKIVFDIETTGLDSKND   24 (245)
Q Consensus         1 ~~~~~~mr~iv~D~ETTGl~~~~d   24 (245)
                      |.+++|+|.|++|+-=|=+++.+.
T Consensus        15 ~~~~~MiKli~~DlDGTLl~~~~~   38 (283)
T 3dao_A           15 LYFQGMIKLIATDIDGTLVKDGSL   38 (283)
T ss_dssp             ----CCCCEEEECCBTTTBSTTCS
T ss_pred             HHHHCCEEEEEEECCCCCCCCCCC
T ss_conf             866282089999768777689998


Done!