Query         gi|254780353|ref|YP_003064766.1| DNA topoisomerase IV subunit A [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 753
No_of_seqs    247 out of 2778
Neff          6.2 
Searched_HMMs 23785
Date          Mon May 30 10:22:30 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780353.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 1zvu_A Topoisomerase IV subuni 100.0       0       0 1690.1  49.5  699   39-751     1-712 (716)
  2 2wl2_A GYRA, DNA gyrase subuni 100.0       0       0 1247.3  33.6  481   13-500     3-521 (522)
  3 2inr_A DNA topoisomerase 4 sub 100.0       0       0 1204.4  28.7  481   13-500    24-507 (514)
  4 2nov_A DNA topoisomerase 4 sub 100.0       0       0 1147.6  26.1  483   15-504     2-487 (496)
  5 3ilw_A DNA gyrase subunit A; D 100.0       0       0 1137.1  32.0  459   35-500     3-469 (470)
  6 2xcs_B DNA gyrase subunit B, D 100.0       0       0 1131.8  35.1  483   11-500   204-690 (692)
  7 2xkj_E Topoisomerase IV; type  100.0       0       0 1114.0  36.6  498   10-518   266-766 (767)
  8 3l4j_A DNA topoisomerase 2; to 100.0       0       0  890.3  24.4  449   10-488   240-748 (757)
  9 1wp5_A Topoisomerase IV; broke 100.0       0       0  377.4  23.5  239  514-752     1-250 (323)
 10 3l6v_A GYRA, DNA gyrase subuni 100.0       0       0  371.0  24.7  241  513-753     2-291 (370)
 11 1suu_A DNA gyrase subunit A; t 100.0       0       0  364.1  24.0  242  511-753     1-258 (312)
 12 1zi0_A DNA gyrase subunit A; b 100.0 1.4E-45       0  361.6  23.1  236  517-753     2-252 (307)
 13 1zvt_A Topoisomerase IV subuni 100.0 2.4E-43       0  343.8  21.1  232  518-750     2-241 (256)
 14 3ku8_A GYRA14, DNA gyrase subu 100.0   2E-29 8.3E-34  239.2   5.5  110  361-470    10-156 (156)
 15 1suu_A DNA gyrase subunit A; t  99.9 1.1E-21 4.6E-26  181.0  20.8  182  517-701   113-308 (312)
 16 3l6v_A GYRA, DNA gyrase subuni  99.9 4.9E-21   2E-25  176.1  21.0  183  517-702   112-342 (370)
 17 1zi0_A DNA gyrase subunit A; b  99.9 1.1E-20 4.7E-25  173.4  20.1  175  519-696   110-297 (307)
 18 1wp5_A Topoisomerase IV; broke  99.9 4.6E-20 1.9E-24  168.8  19.8  174  519-695   107-296 (323)
 19 1zvu_A Topoisomerase IV subuni  99.4   3E-10 1.3E-14   94.9  23.3  180  517-700   513-713 (716)
 20 1zvt_A Topoisomerase IV subuni  99.2 3.1E-09 1.3E-13   87.3  15.9  176  516-694    42-237 (256)
 21 3l4j_A DNA topoisomerase 2; to  94.6    0.26 1.1E-05   27.7   9.1   25  270-295   418-442 (757)
 22 1t3j_A Mitofusin 1; coiled coi  83.1     2.2 9.1E-05   20.8   6.4   53  434-486    39-94  (96)
 23 2q6t_A DNAB replication FORK h  79.9     1.1 4.8E-05   22.9   3.1   21  268-288   202-222 (444)
 24 2r6a_A DNAB helicase, replicat  74.0     2.2 9.1E-05   20.8   3.1   22  267-288   204-225 (454)
 25 1b4u_A LIGA, LIGB, protocatech  69.2     3.7 0.00015   19.1   3.4   32  413-444    56-87  (139)
 26 3cnf_A VP1; cytoplasmic polyhe  61.1     6.9 0.00029   17.1   3.8  138  224-375   791-963 (1333)
 27 3ghg_B Fibrinogen beta chain;   56.0     8.3 0.00035   16.4   8.4   37  453-489   160-196 (461)
 28 3a7m_A Flagellar protein FLIT;  52.1     8.5 0.00036   16.4   2.8   59  455-520    62-120 (122)
 29 1zbt_A RF-1, peptide chain rel  50.2      10 0.00042   15.8   3.7   44  444-487    58-104 (371)
 30 3dm0_A Maltose-binding peripla  49.3      10 0.00044   15.7  11.6   16  517-532   394-409 (694)
 31 1m1j_B Fibrinogen beta chain;   49.0      11 0.00044   15.7  10.1   38  452-489   164-201 (464)
 32 2dq3_A Seryl-tRNA synthetase;   45.1      12  0.0005   15.3   7.3   35  428-462    29-64  (425)
 33 1m1j_C Fibrinogen gamma chain;  44.4      12 0.00051   15.2  12.2  119  351-489    19-138 (409)
 34 3ghg_C Fibrinogen gamma chain;  43.9      12 0.00052   15.1  13.5  119  351-489    19-138 (411)
 35 1dkg_A Nucleotide exchange fac  41.1      14 0.00057   14.8   3.9   14  518-531   167-180 (197)
 36 3lss_A Seryl-tRNA synthetase;   35.7      16 0.00069   14.2   7.1   48  432-486    94-141 (484)
 37 3nkz_A Flagellar protein FLIT;  34.8      17 0.00071   14.1   3.9   58  455-519    65-122 (123)
 38 3hnw_A Uncharacterized protein  33.4      18 0.00074   14.0   7.6   43  361-409    33-76  (138)
 39 3gc3_B Arrestin beta-1, clathr  33.1      18 0.00075   13.9  11.9   34  647-680   258-292 (363)
 40 1x67_A Drebrin-like protein; c  32.7      18 0.00076   13.9   3.4   91  177-278     2-97  (146)
 41 3kjd_A Poly [ADP-ribose] polym  29.6      19 0.00081   13.7   1.6   12  281-292    69-80  (368)
 42 1bpo_A Protein (clathrin); cla  29.2      21 0.00086   13.5  13.1   31  647-677   258-289 (494)
 43 1muk_A Minor core protein lamb  28.4      19 0.00079   13.8   1.4  139  236-386   279-452 (1267)
 44 1xi4_A Clathrin heavy chain; a  28.0      21  0.0009   13.3  11.7   25  355-381   544-568 (1630)
 45 2kz5_A Transcription factor NF  27.5      22 0.00092   13.3   2.0   37  401-440    38-74  (91)
 46 3fv6_A YQZB protein; CBS domai  27.5      16 0.00067   14.3   0.9   39   79-119    19-60  (159)
 47 3h3m_A Flagellar protein FLIT;  27.4      22 0.00092   13.3   3.9   36  454-489    74-109 (126)
 48 1fzc_C Fibrin; blood coagulati  27.1      22 0.00094   13.2   2.3   42  446-487     8-49  (319)
 49 2w9m_A Polymerase X; SAXS, DNA  26.6     7.8 0.00033   16.6  -0.8   58  270-332    59-116 (578)
 50 1a92_A Delta antigen; leucine   26.1      23 0.00097   13.1   5.3   33  358-392     3-35  (50)
 51 2r5u_A Replicative DNA helicas  25.6      24 0.00099   13.0   2.6   36  190-226    25-60  (200)
 52 3oc4_A Oxidoreductase, pyridin  24.9      14 0.00057   14.9   0.2   10  559-568   270-279 (452)
 53 1l1q_A Adenine phosphoribosylt  23.7      17 0.00071   14.1   0.5   29  261-292   114-142 (186)
 54 1ldd_A APC2WHB, anaphase promo  23.7      25  0.0011   12.8   2.2   23  185-207    14-36  (74)
 55 2x5e_A UPF0271 protein PA4511;  23.3      26  0.0011   12.7   1.7   48   71-123    32-82  (252)
 56 2o16_A Acetoin utilization pro  23.2      19 0.00078   13.8   0.6   13  354-366   123-135 (160)
 57 2db1_A Heterogeneous nuclear r  22.7      27  0.0011   12.6   1.7   24  265-288    17-40  (118)
 58 1zn8_A APRT, adenine phosphori  22.7      18 0.00078   13.8   0.5   22  228-253    66-87  (180)
 59 1b79_A DNAB helicase; hexamer,  22.0      27  0.0011   12.6   2.7   36  190-226    15-50  (119)
 60 3ghg_A Fibrinogen alpha chain;  21.5      28  0.0012   12.5   8.6   12  352-363    46-57  (562)
 61 2cdu_A NADPH oxidase; flavoenz  21.4      28  0.0012   12.5   1.8   10  559-568   273-282 (452)
 62 3fxd_A Protein ICMQ; helix bun  21.3      28  0.0012   12.5   1.7   45  422-488     4-48  (57)
 63 2dy0_A APRT, adenine phosphori  21.2      26  0.0011   12.7   1.0   46  196-253    48-93  (190)
 64 1fxl_A Paraneoplastic encephal  21.1      28  0.0012   12.4   5.6   62  265-329    88-150 (167)
 65 1v6t_A Hypothetical UPF0271 pr  20.6      29  0.0012   12.4   1.8   47   71-122    26-75  (255)
 66 3l4f_A RHO guanine nucleotide   20.4      29  0.0012   12.3   4.8   45  445-489    10-54  (61)
 67 2yqu_A 2-oxoglutarate dehydrog  20.3      23 0.00097   13.1   0.6   14  106-119    24-37  (455)
 68 2hgl_A HNRPF protein, heteroge  20.1      30  0.0013   12.3   1.9   24  264-287    43-66  (136)

No 1  
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling, decatenation, DNA binding, DNA topology; 3.00A {Escherichia coli}
Probab=100.00  E-value=0  Score=1690.12  Aligned_cols=699  Identities=37%  Similarity=0.691  Sum_probs=653.5

Q ss_pred             HHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHCCCCCCCCCCCC
Q ss_conf             51047641128970468999999986899989803540536665427688747899999996100132166132678870
Q gi|254780353|r   39 KERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNF  118 (753)
Q Consensus        39 ~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~~~~~pli~g~Gnf  118 (753)
                      .+|||||+|||||||||||||||+++|+.++++|+||||+||+|||+||||||+|+|||||||||+|+|||||+||||||
T Consensus         1 l~RalP~~~DGlKpvqRril~~m~~~~~~~~~~~~k~a~~vg~v~g~yhpHGd~s~~~a~v~maq~~~~~~pl~~~~Gnf   80 (716)
T 1zvu_A            1 MDRALPFIGDGLKPVQRRIVYAMSELGLNASAKFKKSARTVGDVLGKYHPHGDSACYEAMVLMAQPFSYRYPLVDGQGNW   80 (716)
T ss_dssp             -CCCCCBTTTCCCHHHHHHHHHHSTTCC----------CCHHHHHTTTSCTTCHHHHHHHHHHTSTTSCSSCSEEECSCC
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCEEECCCCC
T ss_conf             98778972238857888999999862898999854435479887418889759999999999835323046216478987


Q ss_pred             CCCCCC-CCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHHHCCCCCHHHHHHHHCCCCCHH
Q ss_conf             886779-7100246899855999999842187861752167996324223123452676426650467777516777889
Q gi|254780353|r  119 GNIDGD-SAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQ  197 (753)
Q Consensus       119 Gs~~~d-~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL~Ng~~GIavG~at~ipphnl~  197 (753)
                      ||++|+ +||||||||||||++++.||+|+|++||||+|||||+++||+|||++|||||||||+|||||||||||||||+
T Consensus        81 Gs~~~~~~~Aa~RY~e~rls~~~~~~~~~~~~~~~~~~~n~Dg~~~EP~~lp~~~P~lLvNG~~GIavG~aT~IpphNl~  160 (716)
T 1zvu_A           81 GAPDDPKSFAAMRYTESRLSKYSELLLSELGQGTADWVPNFDGTLQEPKMLPARLPNILLNGTTGIAVGMATDIPPHNLR  160 (716)
T ss_dssp             SSSSSCCCTTSSCGGGEEECGGGHHHHTTTTSSCSCEEECTTSSSEEESSCCCSSCHHHHHCCCSCCSSCSCBCCCBCHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCHHHHHCCCCCCHH
T ss_conf             89999965465667873557999998764065744766388987458730266564776357765456765277663368


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEEEECCCCCEEEEEECCCCCC
Q ss_conf             99999999872865320134432036778877601069889998985033415999999986437884079995242002
Q gi|254780353|r  198 EICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVVTEIPYQV  277 (753)
Q Consensus       198 ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~~~e~~~~~~~~ivIteiPy~v  277 (753)
                      ||++||+++|++|++++++||++||||||||||.|+.+++++.++|+||||+|++||+|++|+     ++|||||||||+
T Consensus       161 ev~~a~~~~i~~~~~~~~~l~~~i~gPdfptgg~i~~~~~~i~~~y~tG~G~i~~r~~~~~e~-----~~ivItEiPy~~  235 (716)
T 1zvu_A          161 EVAQAAIALIDQPKTTLDQLLDIVQGPDYPTEAEIITSRAEIRKIYENGRGSVRMRAVWKKED-----GAVVISALPHQV  235 (716)
T ss_dssp             HHHHHHHHHHHCTTCCHHHHTTTCCSBCCSSSSEECSCTTHHHHHHHHTEEEEEEECEEEEET-----TEEEEEECCTTC
T ss_pred             HHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCEEECCHHHHHHHHHCCCEEEEEEEEEECCC-----CEEEEEECCCCC
T ss_conf             888778998629987889996137789989856697684888876526985999999982448-----749999788545


Q ss_pred             CHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCE-EE-EEEEECCCCCHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCC
Q ss_conf             16899999999864022213457764067660-58-89850454588999998754200001223311333126897220
Q gi|254780353|r  278 QKSRLIEKIAELIIAKRIPLLEDIRDESAEDV-RI-VLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVM  355 (753)
Q Consensus       278 ~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~-~~-vi~~~~r~~~~~~vl~~Lyk~T~Lq~sf~~N~~~l~~~~~P~~~  355 (753)
                      |+++++|+|++++++||+++|+|+|||||+++ ++ |+++++++++++.+|++|||+|+||+||++||+++..+++|+++
T Consensus       236 ~~~~lie~i~~lv~~kki~~i~d~~DeSd~~~~~~vv~~~~~~~~~~e~vl~~Lyk~T~Lq~s~~~N~~~i~~~g~P~~~  315 (716)
T 1zvu_A          236 SGARVLEQIAAQMRNKKLPMVDDLRDESDHENPTRLVIVPRSNRVDMDQVMNHLFATTDLEKSYRINLNMIGLDGRPAVK  315 (716)
T ss_dssp             CHHHHHHHHHHHHHTTSCTTEEEEEECCCSSSTTCEEEEESSSSCCHHHHHHHHHHHSTTEEEEEEECEEECTTSCEEEC
T ss_pred             CHHHHHHHHHHHHHCCCCCCCCEEECCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHCHHHHHCCCCEEEEEECCCCCCC
T ss_conf             67889999998876489662000111356667579995055568899999999998442344313045788309964505


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             49999998999989999999999999999999999999986410789999752000011000000257757788998878
Q gi|254780353|r  356 PLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILNLR  435 (753)
Q Consensus       356 ~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~~~k~~L~~~f~lse~QA~aIL~mr  435 (753)
                      +|+++|++|++||.++++||++|+|+++++|+||||||++|+.+||+||++||+|++|+.+||++|+|||.||+|||+||
T Consensus       316 ~l~eiL~~f~~~R~evi~rR~~~~L~k~~~rl~ilegl~~a~~~iD~vI~iIr~s~~~~~~l~~~f~~se~Qa~aIL~mr  395 (716)
T 1zvu_A          316 NLLEILSEWLVFRRDTVRRRLNYRLEKVLKRLHILEGLLVAFLNIDEVIEIIRNEDEPKPALMSRFGLTETQAEAILELK  395 (716)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHSSSHHHHHHHSTTCCTTHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             79999999999999999999999999999999999829999983999999996588558999985599989999999757


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEECCCHHHHHHHHCCC
Q ss_conf             99998899997666789999887765442039788789999999999874177433455542000011000000110024
Q gi|254780353|r  436 LRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMI  515 (753)
Q Consensus       436 L~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~~~~RRT~iie~~~~~~~~~~EdlI  515 (753)
                      |||||+||++|+++|+++|.++|++|++||+|+++++++|++||.+++++||++     |||.+.+. +.......+++|
T Consensus       396 L~~Lt~le~~kl~~E~~~l~~~i~~l~~IL~s~~~l~~~I~~EL~elkkkfgd~-----RRT~i~~~-~~~~~~~~edli  469 (716)
T 1zvu_A          396 LRHLAKLEEMKIRGEQSELEKERDQLQGILASERKMNNLLKKELQADAQAYGDD-----RRSPLQER-EEAKAMSEHDML  469 (716)
T ss_dssp             GGGGSHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHCCC-----CCSCBCCC-CCCCCCCSSTTS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCC-----CCCCCCCC-CCCCCCCHHHHC
T ss_conf             878778889999999999999999997420488898999998999999971898-----87422145-322457887807


Q ss_pred             CCCCCEEEEECCCEEECCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCCCCCCCCCCCCCC
Q ss_conf             56670599871010202565544553223455555401211114781789806882787551121212344442222357
Q gi|254780353|r  516 EKEPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLID  595 (753)
Q Consensus       516 ~~E~v~V~LS~~GyIKr~k~~~~~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~~~kG~pI~~ll~  595 (753)
                      ++|+++|++|++||||+++++++..++.++|++|.+.+++.|+|||+++|||+.|++|++++|+||+++++|+|+.++++
T Consensus       470 ~~e~v~V~ls~~GyIkr~~~~~~~~~~~~~k~~D~~~~~~~~~t~d~ll~fT~~Grvy~l~v~~lP~~~~kG~pi~~~l~  549 (716)
T 1zvu_A          470 PSEPVTIVLSQMGWVRSAKGHDIDAPGLNYKAGDSFKAAVKGKSNQPVVFVDSTGRSYAIDPITLPSARGQGEPLTGKLT  549 (716)
T ss_dssp             CCCCCCEEEETTTEEEECCC---------------CCEEECCCSSSCEEEEETTSEEEEECTTTSCCCC---CBSTTTSC
T ss_pred             CCCCEEEEECCCCEEEECCCCCCCCCCCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCC
T ss_conf             67650688636876862367765544542323665347899715764068835882799741457677678865434104


Q ss_pred             CCCCCEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECCCCCEEEEEECCC--CEEEEEECCCCEEEE
Q ss_conf             676530789998579985999974897899638874023335627885368980568896189--809999569938995
Q gi|254780353|r  596 LNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTG--DHVAVVGENRKLLIF  673 (753)
Q Consensus       596 l~~~EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D~li~v~~~~~--d~iiliT~~Gk~LrF  673 (753)
                      ++++|+|++++.++++.+++++|++|++|++.+++|.+++++|+.+++|+++|+++.+..+++  |+++++|++|++|||
T Consensus       550 l~~~E~I~~i~~~~~d~~lll~T~~G~~K~~~l~~~~~~~k~Gk~aikLke~Deli~~~~~~~~~d~vl~vT~~Gk~lrF  629 (716)
T 1zvu_A          550 LPPGATVDHMLMESDDQKLLMASDAGYGFVCTFNDLVARNRAGKALITLPENAHVMPPVVIEDASDMLLAITQAGRMLMF  629 (716)
T ss_dssp             CCTTCCEEEEECCCTTCEEEEEBTTSEEEEEEGGGGCCCSTTCEECBCCCTTCCBCCCEECCCTTCEEEEEETTSEEEEE
T ss_pred             CCCCCEEEEEEECCCCCEEEEEECCCCEEEEEHHHHCCCCCCCCEEEEECCCCEEEEEEEECCCCCEEEEECCCCEEEEE
T ss_conf             79998489987327886799997589589985136105475773778768998899899965999889998889829997


Q ss_pred             EHHHCCCCCHHHCCEEEECCCC-------CEEEEEEEECCCCCEEEEECCCCCCC-CCHHHHCCCCCCCCCCCCCCCCCC
Q ss_conf             5787783361214133421878-------75689997338883699941775664-511432254441366602755267
Q gi|254780353|r  674 SIDQIPEMSRGKGVRLQSYKDG-------GISDVICFKICEGLTWIDSAGRSYNR-SENDLLGWLGKRGGVGSLVPKGFP  745 (753)
Q Consensus       674 ~~~eIr~~gRgkGVk~i~Lkd~-------~~~~~~~~~~~e~~~il~~t~~g~~k-~~~~~~~~~~~RggkG~~~~k~~~  745 (753)
                      ++++||.||||+||++|+|+++       .++.+.++...+ . ++..+++++++ +..+.+++.++||++|++++ .++
T Consensus       630 ~~~ev~~~grg~GVkgikL~~~~~~~~~d~v~~~~v~~~~~-~-llv~t~~g~~k~~~~~~~~~~~~Rg~kG~~~~-~~~  706 (716)
T 1zvu_A          630 PVSDLPQLSKGKGNKIINIPSAEAARGEDGLAQLYVLPPQS-T-LTIHVGKRKIKLRPEELQKVTGERGRRGTLMR-GLQ  706 (716)
T ss_dssp             ESTTSCBCSSBSCEESSCCCHHHHHTTSSCEEEEEEECSSC-C-EEEEETTEEEEECHHHHTTSBCCTTSCCEECT-TCC
T ss_pred             EHHHCCCCCCCCCCCEEECCCCCCCCCCCEEEEEEEECCCC-E-EEEEECCCEEEECHHHHHHHCCCCCCCCCCCC-CCC
T ss_conf             88998865754771207306555556785599999977998-6-99998898078587883020178788887997-776


Q ss_pred             CCCCEE
Q ss_conf             768610
Q gi|254780353|r  746 RSGKFL  751 (753)
Q Consensus       746 K~gklV  751 (753)
                      |.+++-
T Consensus       707 k~D~~e  712 (716)
T 1zvu_A          707 RIDRVE  712 (716)
T ss_dssp             SCCEEE
T ss_pred             CCCCEE
T ss_conf             678378


No 2  
>2wl2_A GYRA, DNA gyrase subunit A; isomerase, aminocoumarin antibiotic, drug target, protein-ligand complex; HET: DNA SM8; 2.62A {Escherichia coli} PDB: 1ab4_A 1x75_A*
Probab=100.00  E-value=0  Score=1247.32  Aligned_cols=481  Identities=46%  Similarity=0.754  Sum_probs=461.6

Q ss_pred             CCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHH
Q ss_conf             42456653199999988888889998510476411289704689999999868999898035405366654276887478
Q gi|254780353|r   13 VEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQ   92 (753)
Q Consensus        13 ~~~~i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~   92 (753)
                      +.++|++++|+++|++|||+||||||++|||||+|||||||||||||||+++|++++++|.|||++||+|||+||||||+
T Consensus         3 ~~~~~~~~~~~~~~~~~~l~Ya~~vi~~RaiP~~~DGlKP~qRkil~~~~~~~l~~~~~~~K~a~l~G~v~~~yHpHGe~   82 (522)
T 2wl2_A            3 LAREITPVNIEEELKSSYLDYAMSVIVGRALPDVRDGLKPVHRRVLYAMNVLGNDWNKAYKKSARVVGDVIGKYHPHGDS   82 (522)
T ss_dssp             -------------------CHHHHHHHHHHCCBTTTCCCHHHHHHHHHHHHTTCCTTSCCEEHHHHHHHHHHHTCCSSCT
T ss_pred             CCCCCEEECHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEHHHHHHHCCCCCCHH
T ss_conf             43345461289999999999999999851378622488488989999998627888988425310299887436888689


Q ss_pred             HHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCC
Q ss_conf             99999996100132166132678870886779710024689985599999984218786175216799632422312345
Q gi|254780353|r   93 SVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKF  172 (753)
Q Consensus        93 s~y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~  172 (753)
                      |+|+|||||||+||+|+||++|||||||++||+||||||||||||++|..||.++|+++|+|+|||||+..||.|||++|
T Consensus        83 sl~~tiv~maQ~fs~n~~l~~~qg~fgs~~g~~~Aa~RYi~trLs~~~~~l~~~~d~~~l~~~~n~Dg~~~EP~~~pp~i  162 (522)
T 2wl2_A           83 AVYDTIVRMAQPFSLRYMLVDGQGNFGSIDGDSAAAMRYTEIRLAKIAHELMADLEKETVDFVDNYDGTEKIPDVMPTKI  162 (522)
T ss_dssp             HHHHHHHHTTCTTTCSSCSEEEESCBCCTTCCCBCCTTTCEEEECHHHHHHTTTTTSSCSCEEECTTSSSEEESSCCCSS
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEECCCC
T ss_conf             99999999966402047031588999999998643230688888799999986232254376738898631670451357


Q ss_pred             CHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEE
Q ss_conf             26764266504677775167778899999999987286532013443203677887760106988999898503341599
Q gi|254780353|r  173 PNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRV  252 (753)
Q Consensus       173 P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~  252 (753)
                      ||||||||+|||||||||||||||+|||+||+++|++|++++.+||++||||||||||.+ .|.+|+.++|.||+|+|++
T Consensus       163 P~vLvNGa~GIgtG~sT~IP~hNp~evi~~~~~~i~~~~~~~~~l~~~i~gPdfP~g~~~-~g~~~~~~~~~~G~g~~~~  241 (522)
T 2wl2_A          163 PNLLVNGSSGIAVGMATNIPPHNLTEVINGCLAYIDDEDISIEGLMEHIPGPDFPTAAII-NGRRGIEEAYRTGRGKVYI  241 (522)
T ss_dssp             CHHHHHCEECTTTTCCCEECCCCHHHHHHHHHHHHHCTTCCHHHHHHHCCSCCCTTCCEE-CCSHHHHHHHHHSEEEEEE
T ss_pred             CHHHHCCCCCEEHHHHHCCCCCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCEE-CCCCHHHHHHHCCCEEEEE
T ss_conf             489865786321343316899998999999999852765217889851889988876620-1761078886379707999


Q ss_pred             EEEEEEEECC-CCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHH
Q ss_conf             9999986437-884079995242002168999999998640222134577640676605889850454588999998754
Q gi|254780353|r  253 RARWCVEEVG-RGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFM  331 (753)
Q Consensus       253 r~k~~~e~~~-~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk  331 (753)
                      ||+|++|... .|+++|+||||||++|+++++|+|++++++||+++|+|+|||||+++.++++.++++++++.+++.|||
T Consensus       242 r~~~~ie~~~~~~~~~i~ITELP~~~~t~~~~e~i~~lv~~kki~~i~d~~d~s~~~~vr~vI~lk~~~~~~~~~~~L~k  321 (522)
T 2wl2_A          242 RARAEVEVDAKTGRETIIVHEIPYQVNKARLIEKIAELVKEKRVEGISALRDESDKDGMRIVIEVKRDAVGEVVLNNLYS  321 (522)
T ss_dssp             ECEEEEEECTTTCCEEEEEEECCTTCCHHHHHHHHHHHHHTTSSCSEEEEEECCCSSCCCEEEEECTTSCHHHHHHHHHT
T ss_pred             EEEEEEEECCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             98899983145885479998269857799999999999975997754101135788760899967876788999999986


Q ss_pred             HCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             20000122331133312689722049999998999989999999999999999999999999986410789999752000
Q gi|254780353|r  332 LSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNED  411 (753)
Q Consensus       332 ~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~  411 (753)
                      +|+||+||++||+++.++ .|+++++++||++|++||.++++||++|+|+++++|+|+|+|+++++.+||++|++||+++
T Consensus       322 ~tkL~ts~s~n~~~l~d~-~pk~~sl~eIL~~f~~~R~e~~~kR~~~~L~kl~~rl~il~~~~~~i~~Id~ii~iir~sk  400 (522)
T 2wl2_A          322 QTQLQVSFGINMVALHHG-QPKIMNLKDIIAAFVRHRREVVTRRTIFELRKARDRAHILEALAVALANIDPIIELIRHAP  400 (522)
T ss_dssp             TSTTEEEEEEECEEEETT-EEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHCS
T ss_pred             HHHHHHCCCCEEEEEECC-EEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             432762023038998689-6258329999999999999999999999999999999887608999983478899987068


Q ss_pred             C---CCCCCCCC----------------------------------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0---11000000----------------------------------2577577889988789999889999766678999
Q gi|254780353|r  412 K---PKPVMVSR----------------------------------FSLTENQVDAILNLRLRSLRKLEEYQIKSELDNL  454 (753)
Q Consensus       412 ~---~k~~L~~~----------------------------------f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL  454 (753)
                      +   ++..|+++                                  |.|||.||+|||+|||++||++|++|+++|+++|
T Consensus       401 ~~~~ak~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LSe~QadyIL~M~L~~LT~~e~~KL~~E~~~l  480 (522)
T 2wl2_A          401 TPAEAKTALVANPWQLGNVAAMLERAGDDAARPEWLEPEFGVRDGLYYLTEQQAQAILDLRLQKLTGLEHEKLLDEYKEL  480 (522)
T ss_dssp             SHHHHHHHHHHSCEECTTTHHHHC----CCCSCTTCCTTSEESSSEEECCHHHHHHHHHCBGGGGSTHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             76999998764013430099999872242114310120005556765579999999996499997676599999999999


Q ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEE
Q ss_conf             9887765442039788789999999999874177433455542000
Q gi|254780353|r  455 LAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFC  500 (753)
Q Consensus       455 ~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~~~~RRT~ii  500 (753)
                      ++++++|++||+|++.+|+++++||.+++++||++     |||.|+
T Consensus       481 ~~ei~eL~~iL~s~~~l~~~i~~EL~elk~ky~~~-----RrT~I~  521 (522)
T 2wl2_A          481 LDQIAELLRILGSADRLMEVIREELELVREQFGDK-----RRTEIT  521 (522)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHCCC-----CCSEEC
T ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCC-----CCCCCC
T ss_conf             99999999996899999999999999999982898-----788614


No 3  
>2inr_A DNA topoisomerase 4 subunit A; topoisomerase II fold; HET: DNA; 2.80A {Staphylococcus aureus}
Probab=100.00  E-value=0  Score=1204.36  Aligned_cols=481  Identities=37%  Similarity=0.644  Sum_probs=467.5

Q ss_pred             CCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHH
Q ss_conf             42456653199999988888889998510476411289704689999999868999898035405366654276887478
Q gi|254780353|r   13 VEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQ   92 (753)
Q Consensus        13 ~~~~i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~   92 (753)
                      ..+.|.+++++++|+++|++||||||.+|||||++||||||||||||||+++|++++++|+|||++||+|||+||||||+
T Consensus        24 ~~~~i~~~~~~~~~~~~~~~Ya~~vi~~RaiP~~~DGLKP~qRkIL~~~~~~~l~~~~~~~K~A~~vg~v~~~YHpHGe~  103 (514)
T 2inr_A           24 VSEIIQDLSLEDVLGDRFGRYSKYIIQERALPDVRDGLKPVQRRILYAMYSSGNTHDKNFRKSAKTVGDVIGQYHPHGDS  103 (514)
T ss_dssp             -----------------------------CCCBTTTCCCHHHHHHHHHHHHHTCCSSSCCEEHHHHHHHHHHHTCC---C
T ss_pred             CCCCEEECCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEHHHHHHHHHHCCCCCHH
T ss_conf             02641534499999999998788987730277422488489999999999707888988210078999988653798488


Q ss_pred             HHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCC
Q ss_conf             99999996100132166132678870886779710024689985599999984218786175216799632422312345
Q gi|254780353|r   93 SVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKF  172 (753)
Q Consensus        93 s~y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~  172 (753)
                      |+|+|||||||+|++++||++|||||||++|++||||||||||||++|..||.|+|+++|+|+|||||+.+||+|||++|
T Consensus       104 Sl~~tiv~mAQ~f~~~~~L~~~~G~fGs~~~~~~Aa~RYi~trLs~~a~~if~~~d~~~l~~~~n~Dg~~~EP~~y~pii  183 (514)
T 2inr_A          104 SVYEAMVRLSQDWKLRHVLIEMHGNNGSIDNDPPAAMRYTEAKLSLLAEELLRDINKETVSFIPNYDDTTLEPMVLPSRF  183 (514)
T ss_dssp             HHHHHHHHTTCTTTCSSCSEEEESCCCCTTCCCCCCTTTCEEEECTTHHHHSTTTTSSCSCEEECTTSSSEEESSCCCSS
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEECCCCCCCCC
T ss_conf             99999999855400565351578999999998511477999887689999976437574267668899731774025767


Q ss_pred             CHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEE
Q ss_conf             26764266504677775167778899999999987286532013443203677887760106988999898503341599
Q gi|254780353|r  173 PNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRV  252 (753)
Q Consensus       173 P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~  252 (753)
                      ||||||||+||||||||+||||||.|||+||+++|++|++++++|++++|||||||||.|. +.+|+.++|+||+|+|++
T Consensus       184 P~vLvNGs~GIgtG~sT~IPphNp~evi~~~~~~l~~~~~~~~el~~~~~GPdFptGg~I~-~~~~~~~~y~~G~G~i~~  262 (514)
T 2inr_A          184 PNLLVNGSTGISAGYATDIPPHNLAEVIQATLKYIDNPDITVNQLMKYIKGPDFPTGGIIQ-GIDGIKKAYESGKGRIIV  262 (514)
T ss_dssp             CHHHHHCEECC--CCCCEECCBCHHHHHHHHHHHHHCTTCCHHHHTTTCCSBCCTTCCEEE-CHHHHHHHHHHSEEEEEE
T ss_pred             CHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCEEE-CCCHHHHHHHCCCEEEEE
T ss_conf             3898736776223200377998999999999999649999879996207799899984687-761178886268369998


Q ss_pred             EEEEEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHH
Q ss_conf             99999864378840799952420021689999999986402221345776406766058898504545889999987542
Q gi|254780353|r  253 RARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFML  332 (753)
Q Consensus       253 r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~  332 (753)
                      |+++++|+.+.|+++|+||||||++|+++++++|+++++++|+++|+|++|+||+++.++++..+++++++.++++|||+
T Consensus       263 ~~~~~ie~~~~g~~~i~ItElP~~~~~~~~~~~i~~l~~~~ki~~i~d~~d~s~~~~i~ivi~~~~~~~~~~~~~~L~k~  342 (514)
T 2inr_A          263 RSKVEEETLRNGRKQLIITEIPYEVNKSSLVKRIDELRADKKVDGIVEVRDETDRTGLRIAIELKKDVNSESIKNYLYKN  342 (514)
T ss_dssp             ECEEEECC----CCEEEEEECCTTCCHHHHHHHHHHHHHHTSCC---CEEECCBTTBCCEEEEC------CHHHHHHTTS
T ss_pred             EEEEEEEECCCCCEEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCEEEEEECCCCCCHHHHHHHHHHC
T ss_conf             44899997379826899984355456778999999998559878700303246887329999805762078888899850


Q ss_pred             CCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-
Q ss_conf             0000122331133312689722049999998999989999999999999999999999999986410789999752000-
Q gi|254780353|r  333 SDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNED-  411 (753)
Q Consensus       333 T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~-  411 (753)
                      |+||+||++|++++.+ +.|+++++.+||+.|++||.++++||++|+|+++++|+|+++|++.++.++|++|++||+|+ 
T Consensus       343 t~l~st~~~n~~~l~~-~~pk~~~l~eIL~~f~~~R~~~y~kR~~~~L~k~e~rl~il~~~i~~i~~id~vi~iIr~sk~  421 (514)
T 2inr_A          343 SDLQISYNFNMVAISD-GRPKLMGIRQIIDSYLNHQIEVVANRTKFELDNAEKRMHIVEGLIKALSILDKVIELIRSSKN  421 (514)
T ss_dssp             STTEEEEEEECEEEET-TEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHCCS
T ss_pred             CCCCCCCCEEEEEECC-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHCCCCHHHHHHCCCC
T ss_conf             6310122236898339-914667789999999999999999999999999999997753231277542214442221799


Q ss_pred             --CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             --011000000257757788998878999988999976667899998877654420397887899999999998741774
Q gi|254780353|r  412 --KPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS  489 (753)
Q Consensus       412 --~~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~  489 (753)
                        +++..|++.|+|||.||+|||+|||++||+++++||++|+++|++++++|+++|+|++.+|+++++||.+++++||++
T Consensus       422 ~~e~~~~L~k~f~~se~qadyLL~M~L~~LT~eei~kL~~E~~el~~ei~eL~~iL~s~~~l~~~i~~EL~el~kky~~~  501 (514)
T 2inr_A          422 KRDAKENLIEVYEFTEEQAEAIVMLQLYRLTNTDIVALEGEHKELEALIKQLRHILDNHDALLNVIKEELNEIKKKFKSE  501 (514)
T ss_dssp             HHHHHHHHHTTSSCCHHHHHHHHTCCGGGGSTTHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             89999998874599999999998278998706899999999999999999999986899999999999999999983898


Q ss_pred             CCCCCCCCCEE
Q ss_conf             33455542000
Q gi|254780353|r  490 TDLGRRRTTFC  500 (753)
Q Consensus       490 ~~~~~RRT~ii  500 (753)
                           |||.|.
T Consensus       502 -----RrT~I~  507 (514)
T 2inr_A          502 -----RLSLIE  507 (514)
T ss_dssp             -----CCCEEE
T ss_pred             -----CCCCCC
T ss_conf             -----861342


No 4  
>2nov_A DNA topoisomerase 4 subunit A; protein, PARC, TOPO IV, GRAM-positive bacteria, quinolone target, DNA binding, DNA cleavage; HET: DNA; 2.67A {Streptococcus pneumoniae} PDB: 3foe_A* 3fof_A* 3k9f_A* 3ksa_A* 3ksb_A* 3ltn_A*
Probab=100.00  E-value=0  Score=1147.62  Aligned_cols=483  Identities=35%  Similarity=0.669  Sum_probs=466.5

Q ss_pred             CCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHH
Q ss_conf             45665319999998888888999851047641128970468999999986899989803540536665427688747899
Q gi|254780353|r   15 ENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSV   94 (753)
Q Consensus        15 ~~i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~   94 (753)
                      .+|.+++|++++.++|++||||||.+|||||++||||||||||||||++++++++++|.|||++||+|||+||||||+|+
T Consensus         2 ~~~~~~~~~~~~~~~~~~ya~~~i~~RaiP~~~DGLKp~qRkiL~~~~~~~l~~~~~~~KvA~~~g~v~~~yHpHGe~Sl   81 (496)
T 2nov_A            2 SNIQNMSLEDIMGERFGRYSKYIIQDRALPDIRDGLKPVQRRILYSMNKDSNTFDKSYRKSAKSVGNIMGNFHPHGDSSI   81 (496)
T ss_dssp             ---------------------------CCCCTTTCCCHHHHHHHHHHHHTTCCTTSCCEEHHHHHHHHHHHTCCSCSTTT
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEHHHHHHHHHCCCCCCHHHH
T ss_conf             98723669999999999888898661148842148848998999998862788898802426379988741588778899


Q ss_pred             HHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCH
Q ss_conf             99999610013216613267887088677971002468998559999998421878617521679963242231234526
Q gi|254780353|r   95 YDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPN  174 (753)
Q Consensus        95 y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~  174 (753)
                      |+|||+|||+|++|+||++|||||||++|++|||||||||||++++..+|.++|.++|+|.+||||+..||++||++||+
T Consensus        82 ~~tiv~mAq~fsnn~~Ll~~~G~FGsr~~~~~Aa~RYi~~~l~~~~~~lf~~~d~~~~~~~~~~dg~~~EP~~y~piiP~  161 (496)
T 2nov_A           82 YDAMVRMSQNWKNREILVEMHGNNGSMDGDPPAAMRYTEARLSEIAGYLLQDIEKKTVPFAWNFDDTEKEPTVLPAAFPN  161 (496)
T ss_dssp             HHHHHHTTCTTTSSSCSEEEESCSCCSSSCCCCCTTTCEEEECHHHHTTSTTCCCCCSCEEECSSSSSEEESSCCCSSCH
T ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCEECCCCCH
T ss_conf             99999997874247644037788788899704468889998888798752564423234655888862277000465758


Q ss_pred             HHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEE
Q ss_conf             76426650467777516777889999999998728653201344320367788776010698899989850334159999
Q gi|254780353|r  175 LLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRA  254 (753)
Q Consensus       175 lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~  254 (753)
                      ||||||+||||||||+||||||.|||+|++++|++|++++++|++++|||||||||+| .+.+++.++|++|+|+|++||
T Consensus       162 vLvNG~~GIgtG~sT~IP~~Np~evi~~~~~~l~~~~~~~~~l~~~~~~pdfptGg~i-~~~~~~~~~y~~g~G~i~~~~  240 (496)
T 2nov_A          162 LLVNGSTGISAGYATDIPPHNLAEVIDAAVYMIDHPTAKIDKLMEFLPGPDFPTGAII-QGRDEIKKAYETGKGRVVVRS  240 (496)
T ss_dssp             HHHHCEECCC-CCCCEECCCCHHHHHHHHHHHHHCTTCCHHHHTTTCCSCCCTTCCEE-CCHHHHHHHHHHSEEECCEEC
T ss_pred             HHHCCCCCEEEEHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCCCCCEE-ECCHHHHHHHHCCCCEEEEEE
T ss_conf             8754777624200105777788999999999850999998999863788989987455-471667999856994399966


Q ss_pred             EEEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHCC
Q ss_conf             99986437884079995242002168999999998640222134577640676605889850454588999998754200
Q gi|254780353|r  255 RWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSD  334 (753)
Q Consensus       255 k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~  334 (753)
                      +|++|....|+++|+||||||++|+++++++|++|++++|+++|+|++|+|++++.++++.++++.+++.++++|||+|+
T Consensus       241 ~~~~e~~~~~~~~i~ITELP~g~~t~~~~e~l~~l~~~~ki~~i~d~~Des~~~~v~i~I~lk~~~~~~~~~~~l~k~t~  320 (496)
T 2nov_A          241 KTEIEKLKGGKEQIVITEIPYEINKANLVKKIDDVRVNNKVAGIAEVRDESDRDGLRIAIELKKDANTELVLNYLFKYTD  320 (496)
T ss_dssp             EEEEEECSTTCEEEEEEECCTTCCHHHHHHHTTHHHHTTSCC---CCEEC-----CCEEC----CCCCTTHHHHHHHSST
T ss_pred             EEEEEECCCCCEEEEEEEECCCCCHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCEEEEEEECCCCCHHHHHHHHHHCEE
T ss_conf             78999726983489999706656577899999987643876770121444788850899981532246778999986101


Q ss_pred             CCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---
Q ss_conf             00122331133312689722049999998999989999999999999999999999999986410789999752000---
Q gi|254780353|r  335 METRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNED---  411 (753)
Q Consensus       335 Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~---  411 (753)
                      ||++|++||+++. ++.|++++++|||+.|++||.++++||.+|+|+++++|+|+|+|+++++.+||++|.+||+++   
T Consensus       321 l~st~~~n~~~~~-~~~pk~~sv~eIL~~f~~~R~~~~~rR~~~~l~~~e~rl~il~~~~~fi~~i~~~i~~ir~~k~~~  399 (496)
T 2nov_A          321 LQINYNFNMVAID-NFTPRQVGIVPILSSYIAHRREVILARSRFDKEKAEKRLHIVEGLIRVISILDEVIALIRASENKA  399 (496)
T ss_dssp             TEECCEEECEEEE-TTEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHTTSSSHH
T ss_pred             EEEEHHHHHHHHH-CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHH
T ss_conf             0010565555553-058840569999999899999999999999999999999998628999985656788887179879


Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             01100000025775778899887899998899997666789999887765442039788789999999999874177433
Q gi|254780353|r  412 KPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTD  491 (753)
Q Consensus       412 ~~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~  491 (753)
                      +++..|++.|++||.||+|||+|||++||++|++|+++|+++|++++++|+++|+|++.+++++++||.+++++||++  
T Consensus       400 ~~~~~l~~~f~lse~q~dyLL~M~L~~LT~~e~~kL~~E~~~l~~ei~~L~~il~~~~~l~~~~~~eL~~l~~k~~~~--  477 (496)
T 2nov_A          400 DAKENLKVSYDFTEEQAEAIVTLQLYRLTNTDVVVLQEEEAELREKIAMLAAIIGDERTMYNLMKKELREVKKKFATP--  477 (496)
T ss_dssp             HHHSSCCC-CCCCHHHHHHHHTCBGGGGSSHHHHHHHHHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHHCCC--
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCC--
T ss_conf             999999986599999999999758999758999999999999999999999996899999999999999999983898--


Q ss_pred             CCCCCCCEEECCC
Q ss_conf             4555420000110
Q gi|254780353|r  492 LGRRRTTFCEVSR  504 (753)
Q Consensus       492 ~~~RRT~iie~~~  504 (753)
                         |||.|.+..+
T Consensus       478 ---RrT~i~~~~~  487 (496)
T 2nov_A          478 ---RLSSLEDTAK  487 (496)
T ss_dssp             ---CCSBC-----
T ss_pred             ---CCCCCCCCHH
T ss_conf             ---8860748676


No 5  
>3ilw_A DNA gyrase subunit A; DNA topology, topoisomerase, antibiotic resistance, breakage-reunion domain, struct genomics; HET: DNA; 1.60A {Mycobacterium tuberculosis} PDB: 3ifz_A*
Probab=100.00  E-value=0  Score=1137.15  Aligned_cols=459  Identities=39%  Similarity=0.679  Sum_probs=441.7

Q ss_pred             HHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHCCCCCCCC
Q ss_conf             99985104764112897046899999998689998980354053666542768874789999999610013216613267
Q gi|254780353|r   35 LSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISG  114 (753)
Q Consensus        35 ~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~~~~~pli~g  114 (753)
                      -|||++|||||++||||||||||||||+++++.++.++.|||++||+|||+||||||+|+|+|||+|||+||||+||++|
T Consensus         3 ~svi~~RaiP~~~DGLKp~qRkil~~~~~~~l~~~~k~~k~a~~v~e~~~~YHpHGe~Sl~~tiv~mAQ~fsnn~~Ll~~   82 (470)
T 3ilw_A            3 ASVIVGRALPEVRDGLKPVHRRVLYAMFDSGFRPDRSHAKSARSVAETMGNYHPHGDASIYDSLVRMAQPWSLRYPLVDG   82 (470)
T ss_dssp             ----CTTTSCBTTTCCCHHHHHHHHHHHHHTCCTTSCCEEHHHHHHHHHHHTCCCCSTHHHHHHHHHHCTTTCSSCSEEE
T ss_pred             CCEEHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             63120044775213885899999999997289889861011568997501468886889999999985610204634147


Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCCHHHHCCCCCHHHHHHHHCCCC
Q ss_conf             88708867797100246899855999999842187861752167996324223123452676426650467777516777
Q gi|254780353|r  115 QGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSH  194 (753)
Q Consensus       115 ~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~~~P~lL~Ng~~GIavG~at~ipph  194 (753)
                      ||||||++||+||||||||||||++|..||.++|.++|+|++||||++.||+|||++||+||||||+||||||||+||||
T Consensus        83 ~G~FGs~~g~~aAa~RYi~t~Ls~~~~~if~~~d~~~l~~~~n~Dg~~~EP~~y~piiP~vLvNG~~GIgtG~sT~IP~~  162 (470)
T 3ilw_A           83 QGNFGSPGNDPPAAMRYTEARLTPLAMEMLREIDEETVDFIPNYDGRVQEPTVLPSRFPNLLANGSGGIAVGMATNIPPH  162 (470)
T ss_dssp             ESCCCCSSSCCCCCTTSCEEEECHHHHHHHTTGGGTCSCEEECTTSSSEEESSCCCSSCHHHHHCEECSSTTCSCEECCC
T ss_pred             CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCEEEEECCCCCCC
T ss_conf             89999999997644136887441899999734320410467565786458720164362998637775253000367760


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHH----HHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEEEECCCCCEEEEE
Q ss_conf             8899999999987286532013----443203677887760106988999898503341599999998643788407999
Q gi|254780353|r  195 NVQEICEAALALIDNPEISIEK----LLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVV  270 (753)
Q Consensus       195 nl~ev~~a~~~~i~~~~~~~~~----l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r~k~~~e~~~~~~~~ivI  270 (753)
                      ||.|||+||+++|++|+++..+    ++++++||||||||.|+ |..|..++|+||+|++++|++|++|+...|+++++|
T Consensus       163 Np~evi~~~~~~l~~~~~~~~~~~~~~~~~~~gPdfp~g~~i~-g~~~~~~~y~~G~g~~~~~~~~~iee~~~gk~~i~I  241 (470)
T 3ilw_A          163 NLRELADAVFWALENHDADEEETLAAVMGRVKGPDFPTAGLIV-GSQGTADAYKTGRGSIRMRGVVEVEEDSRGRTSLVI  241 (470)
T ss_dssp             CHHHHHHHHHHHHHTTTCCHHHHHHHHHHHCCSCCCTTCCEEE-CSHHHHHHHHHSEEEEEEECEEEEEECTTCCEEEEE
T ss_pred             CHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCEEE-CCCCHHHHHHCCCCEEEEEEEEEEEECCCCCEEEEE
T ss_conf             1567999999986477421035589986157789989876676-662446674259824999879999975798258999


Q ss_pred             ECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCC-CCCEEEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCEEEEECC
Q ss_conf             52420021689999999986402221345776406-76605889850454588999998754200001223311333126
Q gi|254780353|r  271 TEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDES-AEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMG  349 (753)
Q Consensus       271 teiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeS-d~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq~sf~~N~~~l~~~  349 (753)
                      |||||++++++++++|++++.++|+++|+|++|+| ++.+.++++..+++++++.+++.|||+|+||+||++||+||.++
T Consensus       242 tElP~~~~~~~~~e~i~~~~~~kk~~~i~di~de~s~~~~vrivI~lk~~~~~~~~~~~L~k~tkL~ts~s~n~~~l~d~  321 (470)
T 3ilw_A          242 TELPYQVNHDNFITSIAEQVRDGKLAGISNIEDQSSDRVGLRIVIEIKRDAVAKVVINNLYKHTQLQTSFGANMLAIVDG  321 (470)
T ss_dssp             EECCTTCCHHHHHHHHHHHHHTTSCTTEEEEEECCBTTTBCCEEEEECTTSCHHHHHHHHHHHSTTEEEEEEECEEEETT
T ss_pred             EEECCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCEEEEEEECCCCCHHHHHHHHHHHCCEEEEECCEEEEEECC
T ss_conf             86214454889999999997568867734302034777654899852687778999999998558066650369999899


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---CCCCCCCCCCCCCHH
Q ss_conf             89722049999998999989999999999999999999999999986410789999752000---011000000257757
Q gi|254780353|r  350 RVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNED---KPKPVMVSRFSLTEN  426 (753)
Q Consensus       350 ~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~---~~k~~L~~~f~lse~  426 (753)
                       .|+++++++||+.|++||.++++||++|+|+++++|+|+|+|+++++.+||++|.++|+++   .++..|++.|++||.
T Consensus       322 -~pk~~~~~eIL~~f~~~R~~~y~kR~~~~L~k~~~rl~il~~~~~~i~~id~~i~iir~s~~~~~~k~~l~k~~~lse~  400 (470)
T 3ilw_A          322 -VPRTLRLDQLIRYYVDHQLDVIVRRTTYRLRKANERAHILRGLVKALDALDEVIALIRASETVDIARAGLIELLDIDEI  400 (470)
T ss_dssp             -EEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHCSSHHHHHHHHHHHHTCCHH
T ss_pred             -EEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHH
T ss_conf             -7147379999999999999999999999999999999999759999970277788887158889999987774399999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEE
Q ss_conf             78899887899998899997666789999887765442039788789999999999874177433455542000
Q gi|254780353|r  427 QVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFC  500 (753)
Q Consensus       427 QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~~~~RRT~ii  500 (753)
                      ||+|||+|||++||++|++++++|+++|++++++|++||+|++.+|+++++||.+++++||+|     |||.|+
T Consensus       401 qadyLL~M~L~~LT~ee~~kL~~E~~~l~~ei~~L~~il~~~~~l~~~i~~EL~~l~~k~~~~-----RrT~I~  469 (470)
T 3ilw_A          401 QAQAILDMQLRRLAALERQRIIDDLAKIEAEIADLEDILAKPERQRGIVRDELAEIVDRHGDD-----RRTRII  469 (470)
T ss_dssp             HHHHHHTCBGGGGSHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHCCC-----CCSEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCC-----CCCCCC
T ss_conf             999998519998716889999999999999999999996899999999999999999982898-----788437


No 6  
>2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus aureus} PDB: 2xcr_B* 2xcq_A* 2xco_A*
Probab=100.00  E-value=0  Score=1131.75  Aligned_cols=483  Identities=43%  Similarity=0.758  Sum_probs=464.7

Q ss_pred             CCCCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCCH
Q ss_conf             65424566531999999888888899985104764112897046899999998689998980354053666542768874
Q gi|254780353|r   11 TLVEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHG   90 (753)
Q Consensus        11 ~~~~~~i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPHG   90 (753)
                      ...++++..+++.++|.++|++||||+|.+|||||++||||||||||||||+++++.++++|+|||++||+|+|+|||||
T Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Raip~~~DGlKp~qRkil~~~~~~~~~~~~~~~k~a~~~g~v~~~~~~HG  283 (692)
T 2xcs_B          204 ELPQSRINERNITSEMRESFLDYAMSVIVARALPDVRDGLKPVHRRILYGLNEQGMTPDKSYKKSARIVGDVMGKYHPHG  283 (692)
T ss_dssp             --------EEEHHHHHHHHHHHHHHHHHHHTSSCBTTTCCCHHHHHHHHHHHHTTCCTTSCCEEHHHHHHHHHHHTCCSC
T ss_pred             HCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHHHHHHHHHHHHCCCCCCCEEEEHHHHHHHHHHCCCCC
T ss_conf             34610355341899888999999998877404751421765789999999998567888876763165898886508885


Q ss_pred             HHHHHHHHHHHCCHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECC
Q ss_conf             78999999961001321661326788708867797100246899855999999842187861752167996324223123
Q gi|254780353|r   91 DQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPS  170 (753)
Q Consensus        91 d~s~y~a~v~maq~~~~~~pli~g~GnfGs~~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~lp~  170 (753)
                      |+|+|+|||+|||+|++|+||++|||||||++||+|||||||||||++++..+|.++++++|+|++||||+..||++||+
T Consensus       284 e~sl~~tiv~maq~~~~n~~ll~~~G~fGs~~g~~~aa~RYi~~~l~~~~~~~~~~~~~~~~~~~~~~dg~~~EP~~~~p  363 (692)
T 2xcs_B          284 DSSIYEAMVRMAQDFSYRYPLVDGQGNFGSMDGDGAAAMRFTEARMTKITLELLRDINKDTIDFIDNYDGNEREPSVLPA  363 (692)
T ss_dssp             HHHHHHHHHHHHCTTTCSSCSEEEESCCCCTTCCCCCCTTTCEEEECHHHHHHHTTTTTTCSCEEECTTSSCEEESSCCC
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCHHHHHHHHCCCCCHHHHHHCCCCCCCCCCCCCC
T ss_conf             67787889998643521665300158878999996300216877517768876422365356555302555468744786


Q ss_pred             CCCHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEE
Q ss_conf             45267642665046777751677788999999999872865320134432036778877601069889998985033415
Q gi|254780353|r  171 KFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGF  250 (753)
Q Consensus       171 ~~P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i  250 (753)
                      ++|++||||++||||||||+||||||.|||+|++++|++|+++.++|++++|||||||||.|. |.+|+.++|.||+|++
T Consensus       364 ~iP~~LvNG~~GIgtG~sT~IP~hNp~eVi~~i~~~l~~~~~~~~el~~~i~gPdfPtgg~i~-g~~g~~~~y~tGrg~~  442 (692)
T 2xcs_B          364 RFPNLLANGASGIAVGMATNIPPHNLTELINGVLSLSKNPDISIAELMEDIEGPDFPTAGLIL-GKSGIRRAYETGRGSI  442 (692)
T ss_dssp             SSCHHHHHCEEEECSSCEEEECCBCHHHHHHHHHHHHTCTTCCHHHHTTTCCSBCCTTCCEEE-CSHHHHHHHHHSEEEE
T ss_pred             CCCHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCCCCCCEEE-CCCCEEEHHCCCCCCE
T ss_conf             563888736875226763156788989999999998549853589998428889899876587-7754000221787515


Q ss_pred             EEEEEEEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCC-CCEEEEEEEECCCCCHHHHHHHH
Q ss_conf             99999998643788407999524200216899999999864022213457764067-66058898504545889999987
Q gi|254780353|r  251 RVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESA-EDVRIVLFPKNRSLDPDLLMESI  329 (753)
Q Consensus       251 ~~r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd-~~~~~vi~~~~r~~~~~~vl~~L  329 (753)
                      ++|+++.+++..+|+++|+||||||++|+++++|+|++++++||+++|+|++|||+ +.+.++++..+++.+++.+++.|
T Consensus       443 ~~~~~~~~~~~~~~k~~I~ITELP~g~wt~~yke~L~~lv~~kki~~i~d~~des~~~~~vrivi~~k~~~~~~~~~~~L  522 (692)
T 2xcs_B          443 QMRSRAVIEERGGGRQRIVVTEIPFQVNKARMIEKIAELVRDKKIDGITDLRDETSLRTGVRVVIDVRKDANASVILNNL  522 (692)
T ss_dssp             EEECEEEEEEEETTEEEEEEEECCTTCCHHHHHHHHHHHHHTTCSCCEEEEEECCBTTTBSCEEEEECTTSCHHHHHHHH
T ss_pred             EEEEEEEEEEECCCCEEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCEEECCCCCCCCEEEEEEEECCCCCHHHHHHHH
T ss_conf             89999999994499659999825887778999999999997599776055114566652179999826887889999878


Q ss_pred             HHHCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             54200001223311333126897220499999989999899999999999999999999999999864107899997520
Q gi|254780353|r  330 FMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRN  409 (753)
Q Consensus       330 yk~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~  409 (753)
                      |++|+||+|||+||+++.+| .|+++++.+||+.|++||.+++.||.+|+|+++++|+|||+|+++++.+||+||++||+
T Consensus       523 ~k~tkL~tsis~N~~~l~dg-~pk~~~~~eIL~~f~~~Rle~y~KRkey~L~kle~rl~iLegl~~~i~~ID~vIkiIr~  601 (692)
T 2xcs_B          523 YKQTPLQTSFGVNMIALVNG-RPKLINLKEALVHYLEHQKTVVRRRTQYNLRKAKDRAHILEGLRIALDHIDEIISTIRE  601 (692)
T ss_dssp             HHHSTTEEEEEEECEEEETT-EEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHT
T ss_pred             HHHCCCEEEECCEEEEEECC-EEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             87577322102069999889-36893259999999999999999999999999999999998099999849999999982


Q ss_pred             CCC---CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHC
Q ss_conf             000---11000000257757788998878999988999976667899998877654420397887899999999998741
Q gi|254780353|r  410 EDK---PKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIF  486 (753)
Q Consensus       410 s~~---~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkf  486 (753)
                      |++   ++..|+++|++|+.||+|||+|||++||++|++|+++|+++|++++++|++||+|++.+|+++++||.+++++|
T Consensus       602 sk~~~~a~~~L~~~f~lse~QadyLL~M~L~~LT~eeieKL~~E~~el~~ei~eL~~iL~s~~~l~~~i~~EL~~lkkky  681 (692)
T 2xcs_B          602 SDTDKVAMESLQQRFKLSEKQAQAILDMRLRRLTGLERDKIEAEYNELLNYISELETILADEEVLLQLVRDELTEIRDRF  681 (692)
T ss_dssp             CSSHHHHHHHHHHHHTCCHHHHHHHHTCBGGGGSTTHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH
T ss_conf             99989999999986599999999999709999757799999999999999999999986899999999999999999982


Q ss_pred             CCCCCCCCCCCCEE
Q ss_conf             77433455542000
Q gi|254780353|r  487 SKSTDLGRRRTTFC  500 (753)
Q Consensus       487 gd~~~~~~RRT~ii  500 (753)
                      |++     |||.|.
T Consensus       682 ~~~-----RRT~Ie  690 (692)
T 2xcs_B          682 GDD-----RRTEIQ  690 (692)
T ss_dssp             CCC-----CCSEEE
T ss_pred             CCC-----CCCCCC
T ss_conf             898-----786215


No 7  
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter baumannii} PDB: 2xkk_A*
Probab=100.00  E-value=0  Score=1113.97  Aligned_cols=498  Identities=42%  Similarity=0.727  Sum_probs=476.4

Q ss_pred             CCCCCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCC
Q ss_conf             66542456653199999988888889998510476411289704689999999868999898035405366654276887
Q gi|254780353|r   10 NTLVEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPH   89 (753)
Q Consensus        10 ~~~~~~~i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPH   89 (753)
                      ..+.+....++++.+.+.+.|+.||||+|.+|||||++||||||||||||+|+++++.++.++.|||++||+|+|+||||
T Consensus       266 ~~~~~~~~~~~~~~~~~~~~~~~ys~~~~~~R~iP~~~DGLKp~QRkIL~~~~k~~l~~~~k~~k~a~~vg~v~~~~yhH  345 (767)
T 2xkj_E          266 TSLAHHATENRSVAEFTEQAYLNYAMYVIMDRALPHISDGLKPVQRRIVYAMSELGLKSSGKPKKSARTVGDVLGKYHPH  345 (767)
T ss_dssp             --------CEEEHHHHHHHHHHHHHHHHHHHHTCCBTTTSCCHHHHHHHHHHHHTTCCTTSCCEEHHHHHHHHHHHTCCS
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCC
T ss_conf             55565454564299999999987777766640256154405588899999999874057741788887889886233888


Q ss_pred             HHHHHHHHHHHHCCHHHCCCCCCCCCCCCCCCC-CCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEE
Q ss_conf             478999999961001321661326788708867-7971002468998559999998421878617521679963242231
Q gi|254780353|r   90 GDQSVYDSLVRLAQPFVQRYPLISGQGNFGNID-GDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVF  168 (753)
Q Consensus        90 Gd~s~y~a~v~maq~~~~~~pli~g~GnfGs~~-~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP~~l  168 (753)
                      ||+|+|+|||+|||+|+||+||++|||||||++ |++||||||||||||+++..+|.++|.++++|++||||+..||++|
T Consensus       346 Ge~Sl~~tiv~MAQ~fsnNipLl~p~GqFGsr~gg~daAa~RYI~t~Ls~~~~~if~~~D~~~l~y~~~~d~~~~eP~~y  425 (767)
T 2xkj_E          346 GDSACYEAMVLMAQPFSYRYPLIEGQGNWGSPDDPKSFAAMRYTEAKLSAYSELLLSELGQGTSEWQDNFDGSLKEPITL  425 (767)
T ss_dssp             CHHHHHHHHHHHHCTTTCSSCSEECSSCCCBTTBTTCCCCTTTCEEEECGGGHHHHTTTTTTCSCEEECTTSSSEEESSC
T ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHCEECCCCCEECCCCC
T ss_conf             61577788999724543187650114576766899444557888736788899861055731330311789826677522


Q ss_pred             CCCCCHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCC
Q ss_conf             23452676426650467777516777889999999998728653201344320367788776010698899989850334
Q gi|254780353|r  169 PSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRG  248 (753)
Q Consensus       169 p~~~P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G  248 (753)
                      |++||+|||||++|||||||||||||||.|||++|+++|++++++.+++++++|||||||||.++.+.+++.++|.||+|
T Consensus       426 ~piIPmvLVNG~~GIgtG~ST~IP~hNp~eII~~i~~~l~~~~~~~e~~~~~~p~p~~p~g~~i~~~~~~~~~~~~~g~G  505 (767)
T 2xkj_E          426 PARVPNILLNGTTGIAVGMATDIPPHNLREVVKGTIALIRNPQTSDEKLAEYIPAPDLPTKAEIITPPEELLKIQTTGRG  505 (767)
T ss_dssp             CCSSCHHHHHCEEEEETTEEEEECCCCHHHHHHHHHHHHHCTTCCHHHHHHHCCSCCCSSSCEECCCHHHHHHHHHHSEE
T ss_pred             CCCCHHHHHCCCCCEEHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHCCCCCCCCCCCEEECCHHHHHHHHHCCCC
T ss_conf             65353998647864102443177987789999999999728655646786215789899874796688888887762897


Q ss_pred             EEEEEEEEEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCC--EEEEEEEECCCCCHHHHH
Q ss_conf             159999999864378840799952420021689999999986402221345776406766--058898504545889999
Q gi|254780353|r  249 GFRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAED--VRIVLFPKNRSLDPDLLM  326 (753)
Q Consensus       249 ~i~~r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~--~~~vi~~~~r~~~~~~vl  326 (753)
                      ++.+||+++++     +++|+||||||++|+++++++|.++++++|++++.|++|+|+..  .+++++.+.+..+++.++
T Consensus       506 ~~~~r~~~~i~-----~~~I~ITELPig~wt~~yke~L~~li~~kki~~i~di~D~s~~~~~irivi~~k~~~~~~e~~~  580 (767)
T 2xkj_E          506 SYRMRAVYTIE-----KNEIVITELPYQVSGSKVITQIADQMQAKKLPLVVDVRDESDHENPTRLVIVLRSNRIDAEAVM  580 (767)
T ss_dssp             EEEEECEEEEE-----TTEEEEEECCTTCCHHHHHHHHHHHHHTTCCTTEEEEEECCCSSCSSCEEEEESCTTSCHHHHH
T ss_pred             CEEEEEEEEEC-----CCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCEEEEEECCCCCCCHHHHH
T ss_conf             17874368970-----6549999528725677799999999975997764212332567786699994476647999999


Q ss_pred             HHHHHHCCCCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             98754200001223311333126897220499999989999899999999999999999999999999864107899997
Q gi|254780353|r  327 ESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAI  406 (753)
Q Consensus       327 ~~Lyk~T~Lq~sf~~N~~~l~~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~i  406 (753)
                      +.||++|+||++|++||+++..++.|+++++.|||++|++||.+++.||.+|+|+++++|+|||+||++++.+||+||++
T Consensus       581 ~~L~k~t~L~~s~s~N~~~i~~~g~~Ky~s~~EIL~eF~~~Rl~~y~KRkey~L~kle~rl~iLegli~~~~~iD~vI~i  660 (767)
T 2xkj_E          581 SHLFATTDLESSYRVNLNMIGEDGRPQVKSIRRILLEWIEIRKKTVTRRLQYHLNRIEKRLHILAGLLIAYLDIDTVIRI  660 (767)
T ss_dssp             HHHHHHSTTEEEEEEECEEECTTSCEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHH
T ss_pred             HHHHHHHCCCCCCCHHHHHHHCCCCCEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99986401012110468998559974667899999999999999999999999999999999998299999829999999


Q ss_pred             HHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHC
Q ss_conf             52000011000000257757788998878999988999976667899998877654420397887899999999998741
Q gi|254780353|r  407 IRNEDKPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIF  486 (753)
Q Consensus       407 IR~s~~~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkf  486 (753)
                      ||++++|+..|+++|++||.||+|||+|||++||++|++++++|+++|++++++|+++|+|++.+++++++||.+++++|
T Consensus       661 Ir~s~~~k~~L~~~f~l~e~qadyLL~M~L~~LTk~e~~kL~~E~~el~~ei~eL~~iL~s~~~l~~~i~~EL~el~kky  740 (767)
T 2xkj_E          661 IREEDQPKPVLMEHFNIDEIQAEAILELKLRHLAKLEEMEIRHEQDELSAKAAIIREQLENPESLKNLIISELKEDAKKF  740 (767)
T ss_dssp             HHHCSSHHHHHHHHHTCCHHHHHHHHHSCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH
T ss_conf             98278468999986599999999999869998452479999999999999999999997899999999999999999981


Q ss_pred             CCCCCCCCCCCCEEECCCHHHHHHHHCCCCCC
Q ss_conf             77433455542000011000000110024566
Q gi|254780353|r  487 SKSTDLGRRRTTFCEVSRADKATLQQAMIEKE  518 (753)
Q Consensus       487 gd~~~~~~RRT~iie~~~~~~~~~~EdlI~~E  518 (753)
                      |+|     |||.|.+..+ ..++..|++|++|
T Consensus       741 g~~-----RrT~I~~~~e-~~~~~~e~~i~~e  766 (767)
T 2xkj_E          741 GDE-----RRSPIVARAE-AVQIKEQDLMPAE  766 (767)
T ss_dssp             CCC-----CSSCBCCCCC-CCCC---------
T ss_pred             CCC-----CCCEEECCCC-CCCCCHHHCCCCC
T ss_conf             898-----8732126654-3567653357778


No 8  
>3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently linked comple supercoiling; HET: DNA PTR TSP; 2.48A {Saccharomyces cerevisiae} PDB: 3l4k_A* 1bjt_A 1bgw_A 2rgr_A*
Probab=100.00  E-value=0  Score=890.31  Aligned_cols=449  Identities=21%  Similarity=0.335  Sum_probs=381.5

Q ss_pred             CCCCCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHCCCCCC
Q ss_conf             66542456653199999988888889998510476411289704689999999868999898035405366654276887
Q gi|254780353|r   10 NTLVEENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPH   89 (753)
Q Consensus        10 ~~~~~~~i~~~~i~~~~~~~y~~ya~~vi~~Ralpd~~DGlKpvqRril~~m~~~~~~~~~~~~K~ar~vg~v~gkyhPH   89 (753)
                      ....+.++.++++++++..+|+.||+|++. |||||++||||||||||||+|+++++.++.++.|||++||+|+| || |
T Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~-RaiP~~~DGlKp~qRkil~~~~~~~~~~~~k~~~~a~~v~~~~~-yh-H  316 (757)
T 3l4j_A          240 GTVLDPTLKEIPISDFINKELILFSLADNI-RSIPNVLDGFKPGQRKVLYGCFKKNLKSELKVAQLAPYVSECTA-YH-H  316 (757)
T ss_dssp             TCCCCSSCSEECHHHHHHHTHHHHHHHHHH-HHSCBTTTCCCHHHHHHHHHHHHTTTTSCEEHHHHHHHHHHHTT-CC-S
T ss_pred             CCEECCCCCEEEHHHHHHHHHHHHHHHHHH-HHCCCHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHC-CC-C
T ss_conf             401048865233899888989998798898-61762331355899999999986189976771442421134306-88-8


Q ss_pred             HHHHHHHHHHHHCCHH--HCCCCCCCCCCCCCCC--CCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEE
Q ss_conf             4789999999610013--2166132678870886--77971002468998559999998421878617521679963242
Q gi|254780353|r   90 GDQSVYDSLVRLAQPF--VQRYPLISGQGNFGNI--DGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYNEEDSEP  165 (753)
Q Consensus        90 Gd~s~y~a~v~maq~~--~~~~pli~g~GnfGs~--~~d~~Aa~RYte~rl~~~~~~ll~di~~~~v~~~~n~D~~~~EP  165 (753)
                      ||+|+|+|||+|||+|  ++|+||++|||||||+  +|++||||||||||||+++..||.++|+++|+|++| ||...||
T Consensus       317 Ge~Sl~~aiv~maQ~~~gsnn~pLl~~~GnFGsr~~~g~~~AA~RYi~~rls~~~~~lf~~~D~~~l~y~~~-dg~~~EP  395 (757)
T 3l4j_A          317 GEQSLAQTIIGLAQNFVGSNNIYLLLPNGAFGTRATGGKDAAAARYIYTELNKLTRKIFHPADDPLYKYIQE-DEKTVEP  395 (757)
T ss_dssp             CHHHHHHHHHHHHCCSTTSCSSCSBCCBSCCCCTTTTTTTCCCTTTCEECBCTTHHHHSCGGGGGGSCEEEC-SSSEEEE
T ss_pred             CCHHHHHHHHHHHHHHHHCCCEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEECCCC-CCCEECC
T ss_conf             841678999998611130576200036788566678898644578999863053675503356660113568-8762256


Q ss_pred             EEECCCCCHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHC
Q ss_conf             23123452676426650467777516777889999999998728653201344320367788776010698899989850
Q gi|254780353|r  166 VVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRL  245 (753)
Q Consensus       166 ~~lp~~~P~lL~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~t  245 (753)
                      .+||++|||||||||+|||||||||||||||.|||+||+++|++|++  .+++.+++||++++.              .+
T Consensus       396 ~~y~p~iP~lLvNGa~GIavG~aTnIPphNp~eVi~~~~~~i~~~~~--~~~~p~~~Gf~g~i~--------------~~  459 (757)
T 3l4j_A          396 EWYLPILPMILVNGAEGIGTGWSTYIPPFNPLEIIKNIRHLMNDEEL--EQMHPWFRGWTGTIE--------------EI  459 (757)
T ss_dssp             SCCCCSSCHHHHHCEEEECSSCEEEECCCCHHHHHHHHHHHHTTCCC--CCCCCCCTTCCSEEE--------------EE
T ss_pred             CCCCCCCHHHHHHCCCCCCHHHHCCCCCCCHHHHHHHHHHHHCCCHH--HHCCCCCCCCCCCCC--------------CC
T ss_conf             30232016888741456004641377898868999999998187145--431787578877521--------------01


Q ss_pred             CCCEEEEEEEEEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHHHH-HCCC-HHHHHHHHCCCCCEEEEEEEECCCCCHH
Q ss_conf             3341599999998643788407999524200216899999999864-0222-1345776406766058898504545889
Q gi|254780353|r  246 GRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELII-AKRI-PLLEDIRDESAEDVRIVLFPKNRSLDPD  323 (753)
Q Consensus       246 G~G~i~~r~k~~~e~~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~-~~ki-~gi~dirDeSd~~~~~vi~~~~r~~~~~  323 (753)
                      +.|++.++|+++.    .|+++|+|||||||+|+++++|+|++++. ++|+ +.|.+++|+|+.++++++.++ ++.+++
T Consensus       460 ~~g~~~~~g~~e~----~~~~~I~ITELP~gv~t~~~~e~i~~~l~~~~Ki~~~i~d~~d~s~~~Vr~vI~lk-~~~~~~  534 (757)
T 3l4j_A          460 EPLRYRMYGRIEQ----IGDNVLEITELPARTWTSTIKEYLLLGLSGNDKIKPWIKDMEEQHDDNIKFIITLS-PEEMAK  534 (757)
T ss_dssp             ETTEEEEECEEEE----EETTEEEEEECCTTCCHHHHHHHHHHHHHCCSSSCCCCSEEEECCSSSCCEEEECC-HHHHHH
T ss_pred             CCCEEEEEEEEEE----CCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCHHCCCCCCCCEEEEEEEC-CCCCHH
T ss_conf             4416999999997----27635999836731448899999987650245455530001145676227999981-666517


Q ss_pred             HHHHHHHHHCCCCCCCCC-CEEEEE-CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHH
Q ss_conf             999987542000012233-113331-26897220499999989999899999999999999999999999-------999
Q gi|254780353|r  324 LLMESIFMLSDMETRFPL-NMNVLS-MGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILK-------GLL  394 (753)
Q Consensus       324 ~vl~~Lyk~T~Lq~sf~~-N~~~l~-~~~~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIle-------Gl~  394 (753)
                      .+++.||++|+||++|++ ||++++ +|+.|+++++++||++|++||.+++.||.+|.|++++.++|+++       +++
T Consensus       535 ~~~~~l~k~~kL~ss~s~~Nm~l~d~~g~i~k~~sl~eIL~~f~~~Rl~~y~kRk~~ll~~l~~eL~~l~~k~rFI~~vi  614 (757)
T 3l4j_A          535 TRKIGFYERFKLISPISLMNMVAFDPHGKIKKYNSVNEILSEFYYVRLEYYQKRKDHMSERLQWEVEKYSFQVKFIKMII  614 (757)
T ss_dssp             HHHHCHHHHTTCEEEEECSCCEEECTTSCEEECSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEEECCCCCEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             77653665432112352567999848897620189999999999999999999999999999999999872899997754


Q ss_pred             HH-----HHHHHHHHHHHHCCCCCCC----------------------------------------CCCCCCCCCHHHHH
Q ss_conf             86-----4107899997520000110----------------------------------------00000257757788
Q gi|254780353|r  395 IA-----YLNIDEIIAIIRNEDKPKP----------------------------------------VMVSRFSLTENQVD  429 (753)
Q Consensus       395 ~a-----~~~ID~vI~iIR~s~~~k~----------------------------------------~L~~~f~lse~QA~  429 (753)
                      -.     -...|+||+++++++.++.                                        ..++.+..++.|++
T Consensus       615 ~~~I~I~~~~k~eIi~~L~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~yd  694 (757)
T 3l4j_A          615 EKELTVTNKPRNAIIQELENLGFPRFNKEGKPYYGSPNDEIAEQINDVKGATSDEEDEESSHEDTENVINGPEELYGTYE  694 (757)
T ss_dssp             TTSCCCSSSCHHHHHHHHHHTTCCEECSSCCEECCC------------------------------------CTTTCBSH
T ss_pred             HCEEEECCCCHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHH
T ss_conf             11133016888999999996799334466654302304667766543100111210000002344443201001345687


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             99887899998899997666789999887765442039788789999999999874177
Q gi|254780353|r  430 AILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSK  488 (753)
Q Consensus       430 aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd  488 (753)
                      |||+|||++||++++++|++|++++++++++|++.  +.+.+|   .+||.+++++|.+
T Consensus       695 YLL~M~L~~LT~eevekL~~E~~~l~~Ei~~L~~~--t~~~lW---~~DL~~l~~e~~k  748 (757)
T 3l4j_A          695 YLLGMRIWSLTKERYQKLLKQKQEKETELENLLKL--SAKDIW---NTDLKAFEVGYQE  748 (757)
T ss_dssp             HHHTSCGGGGSHHHHHHHHHHHHHHHHHHHHHHTC--CHHHHH---HHHHHHHHHHHHH
T ss_pred             HHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CHHHHH---HHHHHHHHHHHHH
T ss_conf             99838588877999999999999999999999868--999999---9999999999999


No 9  
>1wp5_A Topoisomerase IV; broken beta-propeller, hairpin-invaded beta-propeller, six- bladed beta-propeller; 1.79A {Geobacillus stearothermophilus} SCOP: b.68.10.1
Probab=100.00  E-value=0  Score=377.41  Aligned_cols=239  Identities=18%  Similarity=0.215  Sum_probs=215.0

Q ss_pred             CCCCCCCEEEEECCCEEECCCCCCC---CCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCC--CCCCC
Q ss_conf             2456670599871010202565544---553223455555401211114781789806882787551121212--34444
Q gi|254780353|r  514 MIEKEPITVVISNRGWIRSLKSHSV---DLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSG--RGHGE  588 (753)
Q Consensus       514 lI~~E~v~V~LS~~GyIKr~k~~~~---~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~--~~kG~  588 (753)
                      ||++|+|+|++|++|||||++..++   +..+..+|++|++.+++.|+|||+||||||.||+|++++|+||.+  +++|.
T Consensus         1 LI~~E~vvV~lS~~GyIKr~~~~~~~~~~~~~~~~k~~D~v~~~~~~~t~d~ll~fT~~Grvy~i~v~eiP~~~~~~~G~   80 (323)
T 1wp5_A            1 MVASEDVIVTVTKDGYVKRTSLRSYAASNGQDFAMKDTDRLLAMLEMNTKDVLLLFTNKGNYLYCPVHELPDIRWKDLGQ   80 (323)
T ss_dssp             CCSCCEEEEEEETTCEEEEEEHHHHHHTTTCCCCCCTTCCEEEEEEEETTSEEEEEETTSEEEEEEGGGSCBCCTTSCCE
T ss_pred             CCCCCCEEEEEECCCEEEEEEHHHHCCCCCCCCCCCCCCEEEEEEEECCCCEEEEEECCCEEEEEEEEECCCCCCCCCCC
T ss_conf             98888789999379858980679931147887865788438999998589879999389879999905287753335783


Q ss_pred             CCCCCCCCCCCCEEEEEEEEC---CCCEEEEEECCCCEEEEEHHHHHCCCC-CCEEEEEECCCCCEEEEEECCC-CEEEE
Q ss_conf             222235767653078999857---998599997489789963887402333-5627885368980568896189-80999
Q gi|254780353|r  589 AIQLLIDLNHNQDIVTAFVYD---STCKLLVVSSKGNAFIVEESEIIANTR-KGKTFLKVSSEEKMKLVVKVTG-DHVAV  663 (753)
Q Consensus       589 pI~~ll~l~~~EkIv~~~~~~---~~~~lll~Tk~G~ikr~~l~~~~~~~k-~Gk~~ikLk~~D~li~v~~~~~-d~iil  663 (753)
                      ||.++++++++|+|+++++.+   ++.+++|+|++|++||+++++|.++++ +|+.+++|+++|+++++..+.+ +++++
T Consensus        81 ~i~nll~l~~~e~ii~~~~~~~~~~~~~ll~~Tk~G~iKr~~l~e~~~~~~~~g~~~i~L~~~D~l~~v~~~~~~~~i~l  160 (323)
T 1wp5_A           81 HIANIIPIDRDEEIIKAIPINDFELNGYFLFVTRNGMVKKTELKHYKAQRYSKPLTGINLKNDDQVVDVHLTDGMNELFL  160 (323)
T ss_dssp             EGGGTSCCCTTCCEEEEEEESCTTSSCEEEEEETTSEEEEEEGGGGCCSCCSSCEECSCCCTTCCEEEEEEECSCSEEEE
T ss_pred             CCCCCCCCCCCCCEEEECCCCCCCCCCEEEEEECCCCEEEEEHHHHCCCCCCCHHEEEECCCCCCCCCEEECCCCEEEEE
T ss_conf             12122566667635650344545567469999888823386556610112333000243366555551684389848997


Q ss_pred             EECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEEEEEEECCCCCEEEEECCCCCCCCCHHHHCCCCCCCCCCCCCCC
Q ss_conf             95699389955787783361-21413342187875689997338883699941775664511432254441366602755
Q gi|254780353|r  664 VGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISDVICFKICEGLTWIDSAGRSYNRSENDLLGWLGKRGGVGSLVPK  742 (753)
Q Consensus       664 iT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~~~~~~~~e~~~il~~t~~g~~k~~~~~~~~~~~RggkG~~~~k  742 (753)
                      +|++|++|||++++||+||| ++||++|+|++++.+..+++..+++..++..+++|++|+++..+|+.++||++|+++++
T Consensus       161 ~t~~G~~lrf~~~~vr~~gr~a~GVk~i~L~~~D~vv~~~~v~~~~~~ll~iT~~G~gKr~~~~e~~~~~Rg~kGv~~~k  240 (323)
T 1wp5_A          161 VTHNGYALWFDESEVSIVGVRAAGVKGMNLKEGDYIVSGQLITSKDESIVVATQRGAVKKMKLTEFEKATRAKRGVVILR  240 (323)
T ss_dssp             EETTSEEEEEEGGGSCBCCSSCCCEECCCCCTTCCEEEEEEECCTTCEEEEEETTSEEEEEEGGGSCCCCTTSCCEECSC
T ss_pred             EECCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEECCCEEEEEECCCCEEECCHHHHHHCCCCCCCEEEEC
T ss_conf             40498289703454234687656730202478988999999960572699985088147511456331155788706101


Q ss_pred             CCCCCCCEEC
Q ss_conf             2677686104
Q gi|254780353|r  743 GFPRSGKFLS  752 (753)
Q Consensus       743 ~~~K~gklV~  752 (753)
                      .++++|.+|+
T Consensus       241 ~~k~~~~~v~  250 (323)
T 1wp5_A          241 ELKANPHRIS  250 (323)
T ss_dssp             CCSSSCCCEE
T ss_pred             CCCCCCCEEE
T ss_conf             3356782488


No 10 
>3l6v_A GYRA, DNA gyrase subunit A; gyrase A C-terminal domain, GYRA C-terminal domain, DNA wrapping, beta-strand-bearing proline, ATP-binding; HET: DNA; 2.19A {Xanthomonas campestris PV}
Probab=100.00  E-value=0  Score=371.00  Aligned_cols=241  Identities=19%  Similarity=0.238  Sum_probs=219.1

Q ss_pred             CCCCCCCCEEEEECCCEEECC--------CCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCC-
Q ss_conf             024566705998710102025--------65544553223455555401211114781789806882787551121212-
Q gi|254780353|r  513 AMIEKEPITVVISNRGWIRSL--------KSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSG-  583 (753)
Q Consensus       513 dlI~~E~v~V~LS~~GyIKr~--------k~~~~~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~-  583 (753)
                      |||++|+|+|+||++|||||+        ++++.+.+++++|++|++.+++.|+|||+|+|||++|++|++++|+||.+ 
T Consensus         2 dlI~~e~v~V~lT~~GyiKR~~~~~~~~q~rg~~g~~~~~~k~~D~~~~~~~~~t~d~ll~fT~~G~vy~l~v~~iP~~~   81 (370)
T 3l6v_A            2 DLIAPEDVVVTLSHAGYAKRQPVSAYRAQRRGGRGRSAASTKEEDFIDQLWLVNTHDTLLTFTSSGKVFWLPVHQLPEAG   81 (370)
T ss_dssp             CCCCCCCEEEEEESSCEEEEEEHHHHHHTCCCCCCSEEEECSCCCCEEEEEEECTTCEEEEEETTSEEEEEEGGGSCBCC
T ss_pred             CCCCCCCEEEEEECCCEEEEEEHHHHHHHCCCCCCCCCCCCCCCCEEEEEEEECCCCEEEEEECCCEEEEEECCCCCCCC
T ss_conf             86778888999958986897317996420268988323625788538999998089879999389779999830176778


Q ss_pred             -CCCCCCCCCCCCCCCCCEEEEEEEEC---CCCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECCCCCEEEEEECCC-
Q ss_conf             -34444222235767653078999857---9985999974897899638874023335627885368980568896189-
Q gi|254780353|r  584 -RGHGEAIQLLIDLNHNQDIVTAFVYD---STCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTG-  658 (753)
Q Consensus       584 -~~kG~pI~~ll~l~~~EkIv~~~~~~---~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D~li~v~~~~~-  658 (753)
                       +++|.|+.++++++++|+|+++++..   ++.+++|+|++|++||+++++|.+.+++|+.+++|+++|+++++..+.+ 
T Consensus        82 ~~~~G~~l~~ll~~~~~e~i~~~~~~~~~~~~~~lv~~T~~G~iKr~~l~~f~~~~~~g~~aikLk~~Delv~v~~~~~~  161 (370)
T 3l6v_A           82 SNARGRPIINWIPLESGERVQAVLPVREYADNRYVFMATRNGTVKKTPLSEFAFRLARGKIAINLDEGDALVGVALTDGD  161 (370)
T ss_dssp             TTSCCEEGGGSCCCCTTCCEEEEEEESCCCTTCEEEEEETTSEEEEEEGGGGCSCCTTCEESSCCCTTCCEEEEEEECSC
T ss_pred             CCCCCCEEEECCCCCCCCCEEEEEEECCCCCCCEEEEEECCCCEEECCHHHHHHCCCCCCEEEECCCCCEEEEEEEECCC
T ss_conf             66668160001355778616899990446777669999789858966579941113354078984899879978974598


Q ss_pred             CEEEEEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEEEEEEECC-------------------------------
Q ss_conf             8099995699389955787783361-21413342187875689997338-------------------------------
Q gi|254780353|r  659 DHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISDVICFKIC-------------------------------  706 (753)
Q Consensus       659 d~iiliT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~~~~~~~~-------------------------------  706 (753)
                      ++|+++|++|++|||++++||+||| ++||++|+|++++.+..+++..+                               
T Consensus       162 ~~i~l~T~~G~~lrf~~~~v~~~gr~a~GVk~i~L~~~d~vv~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (370)
T 3l6v_A          162 RDVLLFASNGKTVRFGESTVRSMGRTATGVRGIRLAKGEEVVSLIVSERAGGVEDEVEDESAEEVVETTDGAEPAVIDVA  241 (370)
T ss_dssp             CEEEEEETTSEEEEEEGGGSCBCCTTCCCEECCCCCTTCCEEEEEEECCC------------------------------
T ss_pred             EEEEEEECCCEEEEEEECEECCCCCCCCCEEEEEECCCCEEEEEEEECCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCC
T ss_conf             13999931651899860113236876564366770899989998964155543211002200110013454431000001


Q ss_pred             ---CCCEEEEECCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCEECC
Q ss_conf             ---88369994177566451143225444136660275526776861049
Q gi|254780353|r  707 ---EGLTWIDSAGRSYNRSENDLLGWLGKRGGVGSLVPKGFPRSGKFLSS  753 (753)
Q Consensus       707 ---e~~~il~~t~~g~~k~~~~~~~~~~~RggkG~~~~k~~~K~gklV~A  753 (753)
                         +...++.+|++|++|+++..+|+.++||++|+++++..+++|++|+|
T Consensus       242 ~~~~~~~ll~vT~~G~~Kr~~~~e~~~~~Rg~~G~~~~k~~~~~d~lv~~  291 (370)
T 3l6v_A          242 DNGDVAYILTATENGYGKRTPLAEYPRKGRGTQGVIGIQTTERNGKLVRA  291 (370)
T ss_dssp             -----CEEEEEETTSEEEEEEGGGSCCBCTTSCCEESSCCCTTTCSEEEE
T ss_pred             CCCCCEEEEEECCCCCEEECCHHHCCCCCCCCCCEEEEEECCCCCEEEEE
T ss_conf             36785079997168842767777657335886651666874787349999


No 11 
>1suu_A DNA gyrase subunit A; topoisomerase,DNA gyrase, beta-propeller, beta-pinwheel; HET: DNA; 1.75A {Borrelia burgdorferi} SCOP: b.68.10.1
Probab=100.00  E-value=0  Score=364.07  Aligned_cols=242  Identities=21%  Similarity=0.330  Sum_probs=217.8

Q ss_pred             HHCCCCCCCCEEEEECCCEEECC--------CCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCC
Q ss_conf             10024566705998710102025--------6554455322345555540121111478178980688278755112121
Q gi|254780353|r  511 QQAMIEKEPITVVISNRGWIRSL--------KSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLS  582 (753)
Q Consensus       511 ~EdlI~~E~v~V~LS~~GyIKr~--------k~~~~~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips  582 (753)
                      .||||++|+|+|++|++|||||+        ++++.+.+++++|++|.+.+.+.|+|||+|+|||+.|++|++++|+||.
T Consensus         1 ~EdlI~~e~v~v~lT~~GyiKR~~~~~~~~q~rgg~g~~~~~~ke~D~~~~~~~~~t~d~ll~fT~~G~~y~i~v~~Ip~   80 (312)
T 1suu_A            1 MSDLMQKENIVVMLTKKGFLKRLSQNEYKLQGTGGKGLSSFDLNDGDEIVIALCVNTHDYLFMISNEGKLYLINAYEIKD   80 (312)
T ss_dssp             -------CEEEEEEETTCBEEEEEGGGSCBCCSSCCCEECCCCCTTCCEEEEEEEETTCEEEEEETTSEEEEEEGGGSCC
T ss_pred             CCCCCCCCCEEEEEECCCEEEECCHHHHHHCCCCCCCCCCCCCCCCCEEEEEEEECCCCEEEEECCCCCEEEEEEEECCC
T ss_conf             96556888889999689878874079975114788873345146896799999953886389987888499988453000


Q ss_pred             C--CCCCCCCCCCCCCCCCCEEEEEEEE---CCCCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECCCCCEEEEEECC
Q ss_conf             2--3444422223576765307899985---7998599997489789963887402333562788536898056889618
Q gi|254780353|r  583 G--RGHGEAIQLLIDLNHNQDIVTAFVY---DSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVT  657 (753)
Q Consensus       583 ~--~~kG~pI~~ll~l~~~EkIv~~~~~---~~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D~li~v~~~~  657 (753)
                      .  +++|+||.++++++++|+|++++..   +++++++|+|++|++||+++++|...+++|+.+++|+++|+++++..+.
T Consensus        81 ~~~~~~G~~i~~ll~l~~~e~ii~~~~~~~~~~~~~lvl~Tk~G~iKr~~l~~~~~~~~~g~~a~kL~~~D~lv~v~~~~  160 (312)
T 1suu_A           81 SSRASKGQNISELINLGDQEEILTIKNSKDLTDDAYLLLTTASGKIARFESTDFKAVKSRGVIVIKLNDKDFVTSAEIVF  160 (312)
T ss_dssp             -------CBGGGTSCCCTTCCEEEEEEESCCCTTCEEEEEETTSEEEEEEGGGGCC----CEECBCCCTTCCEEEEEEEC
T ss_pred             CCCCCCCCEEEEECCCCCCCEEEECCCCCCCCCCCEEEEEECCCCEEEEEHHHHHHHCCCCEEEECCCCCCEEEEEEEEC
T ss_conf             57133780801333788763177603674314301599995067155662588310140211663168997788899907


Q ss_pred             C-CEEEEEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEEEEEEECCCCCEEEEECCCCCCCCCHHHHCCCCCCCC
Q ss_conf             9-8099995699389955787783361-2141334218787568999733888369994177566451143225444136
Q gi|254780353|r  658 G-DHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISDVICFKICEGLTWIDSAGRSYNRSENDLLGWLGKRGG  735 (753)
Q Consensus       658 ~-d~iiliT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~~~~~~~~e~~~il~~t~~g~~k~~~~~~~~~~~Rgg  735 (753)
                      + ++++++|++|+++||+++++|++|| ++||++|+|++++.+..+. ...++..++.+|++|++|+++..+|+.++||+
T Consensus       161 ~~~~i~i~t~~G~~lrf~~~ei~~~gr~a~GVk~i~L~~~d~v~~~~-~~~~~~~ll~iT~~G~gKr~~~~e~~~~~Rg~  239 (312)
T 1suu_A          161 KDEKVICLSKKGSAFIFNSRDVRLTNRGTQGVCGMKLKEGDLFVKVL-SVKENPYLLIVSENGYGKRLNMSKISELKRGA  239 (312)
T ss_dssp             TTCEEEEEETTSEEEEEEGGGSCBCCTTBCCEECCCCCTTCCEEEEE-ECTTCSEEEEEETTSEEEEEEGGGSCBCCTTC
T ss_pred             CCCEEEEECCCCCEEEEEHHCCCCCCCCCCCCCCEEECCCCEEEEEE-EECCCCEEEEEECCCCEEECCCHHHHCCCCCC
T ss_conf             98347875478706984033065458776782024726998599999-73588629888369966984623420025577


Q ss_pred             CCCCCCCCCC-CCCCEECC
Q ss_conf             6602755267-76861049
Q gi|254780353|r  736 VGSLVPKGFP-RSGKFLSS  753 (753)
Q Consensus       736 kG~~~~k~~~-K~gklV~A  753 (753)
                      +|+++++..+ ++|++|++
T Consensus       240 ~Gv~~~k~~~~~~~~vv~~  258 (312)
T 1suu_A          240 TGYTSYKKSDKKAGSVVDA  258 (312)
T ss_dssp             CCEECSCTTCTTTCSEEEE
T ss_pred             CCEEEEEECCCCCCCEEEE
T ss_conf             7659898047888748999


No 12 
>1zi0_A DNA gyrase subunit A; beta pinwheel, topoisomerase, spiralling beta pinwheel, DNA wrapping, isomerase, DNA bindng protein; HET: DNA; 2.60A {Escherichia coli}
Probab=100.00  E-value=1.4e-45  Score=361.57  Aligned_cols=236  Identities=20%  Similarity=0.251  Sum_probs=214.5

Q ss_pred             CCCCEEEEECCCEEECC--------CCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCC--CCC
Q ss_conf             66705998710102025--------65544553223455555401211114781789806882787551121212--344
Q gi|254780353|r  517 KEPITVVISNRGWIRSL--------KSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSG--RGH  586 (753)
Q Consensus       517 ~E~v~V~LS~~GyIKr~--------k~~~~~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~--~~k  586 (753)
                      +|+|+|++|++|||||+        ++++.+.++.++|++|++.+++.|+|||+|+||||.|++|++++|+||..  +++
T Consensus         2 eEdv~V~ls~~GyiKR~~~~~y~~q~rgg~g~~~~~~ke~D~~~~~~~~~t~d~ll~fTn~G~~~~~~v~eIp~~~~~~~   81 (307)
T 1zi0_A            2 QEDVVVTLSHQGYVKYQPLSEYEAQRRGGKGKSAARIKEEDFIDRLLVANTHDHILCFSSRGRVYSMKVYQLPEATRGAR   81 (307)
T ss_dssp             CCEEEEEEETTSEEEEEECC--------------------CCEEEEEEEETTCEEEEEETTSEEEEEEGGGSCCCCSSSC
T ss_pred             CCCEEEEEECCCEEEEEEHHHHHHCCCCCCCCCCCCCCCCCEEEEEEEECCCCEEEEEECCCEEEEEECCCCCCCCCCCC
T ss_conf             76799999689868874289975214689983345037895589999971898799992797599999202742123467


Q ss_pred             CCCCCCCCCCCCCCEEEEEEEEC---CCCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECCCCCEEEEEECCC-CEEE
Q ss_conf             44222235767653078999857---9985999974897899638874023335627885368980568896189-8099
Q gi|254780353|r  587 GEAIQLLIDLNHNQDIVTAFVYD---STCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTG-DHVA  662 (753)
Q Consensus       587 G~pI~~ll~l~~~EkIv~~~~~~---~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D~li~v~~~~~-d~ii  662 (753)
                      |.||.+++++.++|+|+++++.+   ++.+++++|++|++||+++++|...+++|+.+++|+++|+|++|..+.+ ++++
T Consensus        82 G~~i~~ll~l~~~E~i~~~~~~~~~~~~~~l~~~T~~G~iKr~~l~~f~~~r~~g~~ai~L~~~Delv~v~~~~~~~~v~  161 (307)
T 1zi0_A           82 GRPIVNLLPLEQDERITAILPVTEFEEGVKVFMATANGTVKKTVLTEFNRLRTAGKVAIKLVDGDELIGVDLTSGEDEVM  161 (307)
T ss_dssp             CEEGGGTSCCCTTCCEEEEEEESCCCTTCEEEEEETTSEEEEEEGGGGTTCCTTCEESSCCCTTCCEEEEEEECTTCEEE
T ss_pred             CCCHHEEECCCCCCEEEEEECCCCCCCCCEEEEEECCCCEEEEECCCCCCCCCCCCEEEECCCCCEEEEEEEECCCCEEE
T ss_conf             82855040688885489998123356674499996787178730310257673570877558999999999947997399


Q ss_pred             EEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEEEEEEECCCCCEEEEECCCCCCCCCHHHHCCCCCCCCCCCCCC
Q ss_conf             995699389955787783361-2141334218787568999733888369994177566451143225444136660275
Q gi|254780353|r  663 VVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISDVICFKICEGLTWIDSAGRSYNRSENDLLGWLGKRGGVGSLVP  741 (753)
Q Consensus       663 liT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~~~~~~~~e~~~il~~t~~g~~k~~~~~~~~~~~RggkG~~~~  741 (753)
                      ++|++|+++||++++||++|| ++||++|+|++++.+..+. ..+++..++..+++|++|+++..+|+.++||++|++++
T Consensus       162 l~T~~G~~lrf~~~~v~~~gr~a~GV~gi~L~~~d~vv~~~-~~~~~~~ll~~T~~G~~Kr~~~~e~~~~~Rg~~Gv~~~  240 (307)
T 1zi0_A          162 LFSAEGKVVRFKESSVRAMGCNTTGVRGIRLGEGDKVVSLI-VPRGDGAILTATQNGYGKRTAVAEYPTKSRATKGVISI  240 (307)
T ss_dssp             EEETTSEEEEEEGGGSCBCCTTCCCEECCCCCTTCCEEEEE-CCCSSCEEEEEETTSEEEEECGGGSCCCCTTSCCEESS
T ss_pred             EEECCCEEEEEECCCCCCCCCCCCCEEEEECCCCCEEEEEE-ECCCCCEEEEEECCCEEEEECCCEEEEECCCCCCCEEE
T ss_conf             99838748986033000378888776705708999999998-61387169987448605994021431204565571422


Q ss_pred             CCCCCCCCEECC
Q ss_conf             526776861049
Q gi|254780353|r  742 KGFPRSGKFLSS  753 (753)
Q Consensus       742 k~~~K~gklV~A  753 (753)
                      +..++++.+|++
T Consensus       241 k~~~~~~~~v~~  252 (307)
T 1zi0_A          241 KVTERNGLVVGA  252 (307)
T ss_dssp             CCCTTTCSEEEE
T ss_pred             ECCCCCCCEEEE
T ss_conf             025667738999


No 13 
>1zvt_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling, decatenation, DNA binding, DNA topology; 1.70A {Escherichia coli}
Probab=100.00  E-value=2.4e-43  Score=343.81  Aligned_cols=232  Identities=25%  Similarity=0.477  Sum_probs=202.7

Q ss_pred             CCCEEEEECCCEEECCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCCCCCCCCCCCCCCCC
Q ss_conf             67059987101020256554455322345555540121111478178980688278755112121234444222235767
Q gi|254780353|r  518 EPITVVISNRGWIRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLIDLN  597 (753)
Q Consensus       518 E~v~V~LS~~GyIKr~k~~~~~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~~~kG~pI~~ll~l~  597 (753)
                      |||+|+||++||||++++|+.+.+++++|+||++.+++.|+|||+|||||+.|++|++++|+||+++++|+|+.+++.++
T Consensus         2 E~vtV~lS~~G~Ir~~kg~~~~~~~~~~Ke~D~~~~~~~~~t~d~ll~FTn~G~~y~~~v~~ip~~~~~~~~~~~~~~~~   81 (256)
T 1zvt_A            2 EPVTIVLSQMGWVRSAKGHDIDAPGLNYKAGDSFKAAVKGKSNQPVVFVDSTGRSYAIDPITLPSARGQGEPLTGKLTLP   81 (256)
T ss_dssp             CEEEEEEETTSEEEEEESSCCCSTTSCCCTTCCEEEEEEEETTSCEEEEETTSEEEEECGGGSCCSSSCCEEGGGTCCCC
T ss_pred             CCEEEEECCCCEEEEECCCCCCCCCCCCCCCCEEEEEEEECCCCEEEEEECCCEEEEEECCCCCCCCCCCCCCCCCCCCC
T ss_conf             89799992897388004888881217457888116999985898899994898799997600411124567844434344


Q ss_pred             CCCEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEECCCCCEEEEEECCC--CEEEEEECCCCEEEEEH
Q ss_conf             6530789998579985999974897899638874023335627885368980568896189--80999956993899557
Q gi|254780353|r  598 HNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTG--DHVAVVGENRKLLIFSI  675 (753)
Q Consensus       598 ~~EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk~~D~li~v~~~~~--d~iiliT~~Gk~LrF~~  675 (753)
                      .++.++.+..++++.+++++|++|++||+++++|.+.+++|+.+++++++|+++.+..+.+  ++++++|++|++|||+.
T Consensus        82 ~~~~~i~~~~~~~~~~ll~~T~~G~ikr~~l~~~~~~~~~Gk~~~~l~~~d~~i~~~~v~~~~~~i~l~t~~G~~l~f~~  161 (256)
T 1zvt_A           82 PGATVDHMLMESDDQKLLMASDAGYGFVCTFNDLVARNRAGKALITLPENAHVMPPVVIEDASDMLLAITQAGRMLMFPV  161 (256)
T ss_dssp             TTCCEEEEECCCTTCEEEEEBTTSEEEEEEGGGGCCCSTTCEECBCCCTTCCBCCCEECCCTTCEEEEEETTSEEEEEEG
T ss_pred             CCCCEEEEEEECCCCEEEEEECCCEEEEEEHHHHCCCCCCCCCCCCCCCCCCEEEEEEECCCCEEEEEECCCCCEEEEEH
T ss_conf             45531345540688429999689779998725500502357500225778832555996488549999868992898566


Q ss_pred             HHCCCCCHHHCCEEEECCC------CCEEEEEEEECCCCCEEEEECCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             8778336121413342187------8756899973388836999417756645114322544413666027552677686
Q gi|254780353|r  676 DQIPEMSRGKGVRLQSYKD------GGISDVICFKICEGLTWIDSAGRSYNRSENDLLGWLGKRGGVGSLVPKGFPRSGK  749 (753)
Q Consensus       676 ~eIr~~gRgkGVk~i~Lkd------~~~~~~~~~~~~e~~~il~~t~~g~~k~~~~~~~~~~~RggkG~~~~k~~~K~gk  749 (753)
                      +++|.++||+||++|++++      ++.+..+.+...+...++...+++...+..++++|+++||++|++ ++.+.|.++
T Consensus       162 ~ev~~~~rg~Gv~~~~l~~~~~~~~dd~v~~~~v~~~~~~l~v~~~~~~~~~k~~~l~~~~~~R~~kG~~-~~~~~ki~~  240 (256)
T 1zvt_A          162 SDLPQLSKGKGNKIINIPSAEAARGEDGLAQLYVLPPQSTLTIHVGKRKIKLRPEELQKVTGERGRRGTL-MRGLQRIDR  240 (256)
T ss_dssp             GGSCBCSSBSCEESSCCCHHHHHTTSSCEEEEEEEC-CCEEEEEETTEEEEECHHHHHTTBCCTTSCCEE-CTTCCSCCE
T ss_pred             HHCCCCCCCCCCCCEEECCCCCCCCCCEEEEEEEECCCCEEEEEECCCEEECCHHHHHHHHHHCCCCCCC-CCCCCCCCE
T ss_conf             8844245888842471064224567747999888589976999989950532899989986542358877-777724772


Q ss_pred             E
Q ss_conf             1
Q gi|254780353|r  750 F  750 (753)
Q Consensus       750 l  750 (753)
                      +
T Consensus       241 ~  241 (256)
T 1zvt_A          241 V  241 (256)
T ss_dssp             E
T ss_pred             E
T ss_conf             8


No 14 
>3ku8_A GYRA14, DNA gyrase subunit A; alpha+beta, SH3 domain, topoisomerase, toxin-isomerase compl; HET: DNA; 1.93A {Escherichia coli} PDB: 1x75_A* 3kua_A*
Probab=99.95  E-value=2e-29  Score=239.21  Aligned_cols=110  Identities=34%  Similarity=0.497  Sum_probs=103.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC---CCCCCCCC-----------------
Q ss_conf             9989999899999999999999999999999999864107899997520000---11000000-----------------
Q gi|254780353|r  361 LKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDK---PKPVMVSR-----------------  420 (753)
Q Consensus       361 l~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~~---~k~~L~~~-----------------  420 (753)
                      -..|+.||.+||+|||+|+|+|+++|+||||||++|++|||+||+|||+|++   |+..||.+                 
T Consensus        10 ~s~~l~~R~~vItRRt~f~L~Ka~eR~HILeGL~iAl~nID~VI~IIR~S~d~~eAk~~L~~~~w~~~~~~~~~~~~~~~   89 (156)
T 3ku8_A           10 HSSGLVPRGSHMTRRTIFELRKARDRAHILEALAVALANIDPIIELIRHAPTPAEAKTALVANPWQLGNVAAMLERAGDD   89 (156)
T ss_dssp             ------------CCHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHCSSHHHHHHHHHHSCEECTTHHHHGGGSSTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCHHHHHHHHHHCCH
T ss_conf             05477776668788679779999998999999999999499999999828982689999998530202168999982330


Q ss_pred             -----------------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHH
Q ss_conf             -----------------25775778899887899998899997666789999887765442039788
Q gi|254780353|r  421 -----------------FSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQ  470 (753)
Q Consensus       421 -----------------f~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~  470 (753)
                                       |+||+.||+|||+|||+|||+||++++.+|+++|.++|++|++||+|+++
T Consensus        90 ~~~~~~~~~~~~~~~~~y~LSe~QA~AILemrL~rLT~LE~ekl~~E~~eL~~~I~~l~~IL~~~~r  156 (156)
T 3ku8_A           90 AARPEWLEPEFGVRDGLYYLTEQQAQAILDLRLQKLTGLEHEKLLDEYKELLDQIAELLRILGSADR  156 (156)
T ss_dssp             TTSCTTCCTTSEEETTEEECCHHHHHHHHTCBGGGGSHHHHHHHHHHHHHHHHHHHHHHHTCCSCC-
T ss_pred             HHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             0020002310034455453799999999996999998778999999999999999999998768888


No 15 
>1suu_A DNA gyrase subunit A; topoisomerase,DNA gyrase, beta-propeller, beta-pinwheel; HET: DNA; 1.75A {Borrelia burgdorferi} SCOP: b.68.10.1
Probab=99.90  E-value=1.1e-21  Score=180.98  Aligned_cols=182  Identities=15%  Similarity=0.246  Sum_probs=127.6

Q ss_pred             CCCCEEEEECCCEEECCCCCCC------CCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCC--CCCCC
Q ss_conf             6670599871010202565544------553223455555401211114781789806882787551121212--34444
Q gi|254780353|r  517 KEPITVVISNRGWIRSLKSHSV------DLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSG--RGHGE  588 (753)
Q Consensus       517 ~E~v~V~LS~~GyIKr~k~~~~------~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~--~~kG~  588 (753)
                      .+..++++|++|+||+.+...+      +...++++++|.+.....++..+.++++|+.|+++.+++.++|..  .++|.
T Consensus       113 ~~~~lvl~Tk~G~iKr~~l~~~~~~~~~g~~a~kL~~~D~lv~v~~~~~~~~i~i~t~~G~~lrf~~~ei~~~gr~a~GV  192 (312)
T 1suu_A          113 DDAYLLLTTASGKIARFESTDFKAVKSRGVIVIKLNDKDFVTSAEIVFKDEKVICLSKKGSAFIFNSRDVRLTNRGTQGV  192 (312)
T ss_dssp             TTCEEEEEETTSEEEEEEGGGGCC----CEECBCCCTTCCEEEEEEECTTCEEEEEETTSEEEEEEGGGSCBCCTTBCCE
T ss_pred             CCCEEEEEECCCCEEEEEHHHHHHHCCCCEEEECCCCCCEEEEEEEECCCCEEEEECCCCCEEEEEHHCCCCCCCCCCCC
T ss_conf             30159999506715566258831014021166316899778889990798347875478706984033065458776782


Q ss_pred             CCCCCCCCCCCCEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCCCEEEEEEC----CCCCEEEEEECCC-CEEEE
Q ss_conf             222235767653078999857998599997489789963887402333562788536----8980568896189-80999
Q gi|254780353|r  589 AIQLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVS----SEEKMKLVVKVTG-DHVAV  663 (753)
Q Consensus       589 pI~~ll~l~~~EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk~~ikLk----~~D~li~v~~~~~-d~iil  663 (753)
                      .   -+.|.++++++++...+++.+++++|++|++||+++++|...+|.|+.+..++    .++.++.+..+.+ |++++
T Consensus       193 k---~i~L~~~d~v~~~~~~~~~~~ll~iT~~G~gKr~~~~e~~~~~Rg~~Gv~~~k~~~~~~~~vv~~~~v~~~d~i~l  269 (312)
T 1suu_A          193 C---GMKLKEGDLFVKVLSVKENPYLLIVSENGYGKRLNMSKISELKRGATGYTSYKKSDKKAGSVVDAIAVSEDDEILL  269 (312)
T ss_dssp             E---CCCCCTTCCEEEEEECTTCSEEEEEETTSEEEEEEGGGSCBCCTTCCCEECSCTTCTTTCSEEEEEEECTTCEEEE
T ss_pred             C---CEEECCCCEEEEEEEECCCCEEEEEECCCCEEECCCHHHHCCCCCCCCEEEEEECCCCCCCEEEEEEECCCCEEEE
T ss_conf             0---2472699859999973588629888369966984623420025577765989804788874899999689998999


Q ss_pred             EECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEEEE
Q ss_conf             95699389955787783361-214133421878756899
Q gi|254780353|r  664 VGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISDVI  701 (753)
Q Consensus       664 iT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~~~  701 (753)
                      +|++|+++||++++||.+|| ++||++|+|++++++.+.
T Consensus       270 ~T~~g~~ir~~~~~i~~~gR~~~Gv~~~~l~~d~~v~v~  308 (312)
T 1suu_A          270 VSKRSKALRTVAGKVSEQGKDARGIQVLFLDNDSLVSVS  308 (312)
T ss_dssp             EETTCEEEEEEGGGSCBCCTTCCCEECSCCSSCCEEEEE
T ss_pred             EECCCEEEEEEHHHCCCCCCCCCCEEEEECCCCCEEEEE
T ss_conf             958998999984354777877898488988999799999


No 16 
>3l6v_A GYRA, DNA gyrase subunit A; gyrase A C-terminal domain, GYRA C-terminal domain, DNA wrapping, beta-strand-bearing proline, ATP-binding; HET: DNA; 2.19A {Xanthomonas campestris PV}
Probab=99.89  E-value=4.9e-21  Score=176.11  Aligned_cols=183  Identities=17%  Similarity=0.250  Sum_probs=151.0

Q ss_pred             CCCCEEEEECCCEEECCCCCCC------CCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCC--CCCCC
Q ss_conf             6670599871010202565544------553223455555401211114781789806882787551121212--34444
Q gi|254780353|r  517 KEPITVVISNRGWIRSLKSHSV------DLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSG--RGHGE  588 (753)
Q Consensus       517 ~E~v~V~LS~~GyIKr~k~~~~------~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~--~~kG~  588 (753)
                      ++...+++|++|++|+.+...+      +...++++++|.+..+..+...+.++++|+.|++.+++..++|..  .++|.
T Consensus       112 ~~~~lv~~T~~G~iKr~~l~~f~~~~~~g~~aikLk~~Delv~v~~~~~~~~i~l~T~~G~~lrf~~~~v~~~gr~a~GV  191 (370)
T 3l6v_A          112 DNRYVFMATRNGTVKKTPLSEFAFRLARGKIAINLDEGDALVGVALTDGDRDVLLFASNGKTVRFGESTVRSMGRTATGV  191 (370)
T ss_dssp             TTCEEEEEETTSEEEEEEGGGGCSCCTTCEESSCCCTTCCEEEEEEECSCCEEEEEETTSEEEEEEGGGSCBCCTTCCCE
T ss_pred             CCCEEEEEECCCCEEECCHHHHHHCCCCCCEEEECCCCCEEEEEEEECCCEEEEEEECCCEEEEEEECEECCCCCCCCCE
T ss_conf             77669999789858966579941113354078984899879978974598139999316518998601132368765643


Q ss_pred             CCCCCCCCCCCCEEEEEEEEC-----------------------------------CCCEEEEEECCCCEEEEEHHHHHC
Q ss_conf             222235767653078999857-----------------------------------998599997489789963887402
Q gi|254780353|r  589 AIQLLIDLNHNQDIVTAFVYD-----------------------------------STCKLLVVSSKGNAFIVEESEIIA  633 (753)
Q Consensus       589 pI~~ll~l~~~EkIv~~~~~~-----------------------------------~~~~lll~Tk~G~ikr~~l~~~~~  633 (753)
                      .   .+.|.++++|+++...+                                   ++.+++++|++|++||+++++|..
T Consensus       192 k---~i~L~~~d~vv~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~vT~~G~~Kr~~~~e~~~  268 (370)
T 3l6v_A          192 R---GIRLAKGEEVVSLIVSERAGGVEDEVEDESAEEVVETTDGAEPAVIDVADNGDVAYILTATENGYGKRTPLAEYPR  268 (370)
T ss_dssp             E---CCCCCTTCCEEEEEEECCC-----------------------------------CEEEEEETTSEEEEEEGGGSCC
T ss_pred             E---EEEECCCCEEEEEEEECCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEECCHHHCCC
T ss_conf             6---6770899989998964155543211002200110013454431000001367850799971688427677776573


Q ss_pred             CCC--CCEEEEEEC-CCCCEEEEEECCC-CEEEEEECCCCEEEEEHHHCCCCCH-HHCCEEEECCCCCEEEEEE
Q ss_conf             333--562788536-8980568896189-8099995699389955787783361-2141334218787568999
Q gi|254780353|r  634 NTR--KGKTFLKVS-SEEKMKLVVKVTG-DHVAVVGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDGGISDVIC  702 (753)
Q Consensus       634 ~~k--~Gk~~ikLk-~~D~li~v~~~~~-d~iiliT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~~~~~~~  702 (753)
                      ..|  +|..++++. .+|+++.+..+.. |+++++|+.|+++||+.++||.+|| ++||++|+|++++.+.++.
T Consensus       269 ~~Rg~~G~~~~k~~~~~d~lv~~~~v~~~d~ill~T~~G~~~r~~~~~I~~~gR~t~Gv~~i~L~~~d~v~sv~  342 (370)
T 3l6v_A          269 KGRGTQGVIGIQTTERNGKLVRAVLLGSTDEVMLISDGGTLVRTRGSEISRVGRNTQGVTLIRLSKGEKLQAVE  342 (370)
T ss_dssp             BCTTSCCEESSCCCTTTCSEEEEEEECTTCEEEEEETTCCEEEEEGGGSCBCCSSSCCEESSCCCTTCCEEEEE
T ss_pred             CCCCCCCEEEEEECCCCCEEEEEEEECCCCEEEEEECCCEEEEEEHHHCCCCCCCCCCEEEEECCCCCEEEEEE
T ss_conf             35886651666874787349999992699759999589989998934547678878984768889999999999


No 17 
>1zi0_A DNA gyrase subunit A; beta pinwheel, topoisomerase, spiralling beta pinwheel, DNA wrapping, isomerase, DNA bindng protein; HET: DNA; 2.60A {Escherichia coli}
Probab=99.88  E-value=1.1e-20  Score=173.40  Aligned_cols=175  Identities=18%  Similarity=0.233  Sum_probs=84.7

Q ss_pred             CCEEEEECCCEEECCCCCCC------CCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCC--CCCCCCCC
Q ss_conf             70599871010202565544------55322345555540121111478178980688278755112121--23444422
Q gi|254780353|r  519 PITVVISNRGWIRSLKSHSV------DLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLS--GRGHGEAI  590 (753)
Q Consensus       519 ~v~V~LS~~GyIKr~k~~~~------~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips--~~~kG~pI  590 (753)
                      .-.+++|++|.||+.....+      +...++++++|.+..+..++..+.++++|+.|++...++.++|.  +.++|.  
T Consensus       110 ~~l~~~T~~G~iKr~~l~~f~~~r~~g~~ai~L~~~Delv~v~~~~~~~~v~l~T~~G~~lrf~~~~v~~~gr~a~GV--  187 (307)
T 1zi0_A          110 VKVFMATANGTVKKTVLTEFNRLRTAGKVAIKLVDGDELIGVDLTSGEDEVMLFSAEGKVVRFKESSVRAMGCNTTGV--  187 (307)
T ss_dssp             CEEEEEETTSEEEEEEGGGGTTCCTTCEESSCCCTTCCEEEEEEECTTCEEEEEETTSEEEEEEGGGSCBCCTTCCCE--
T ss_pred             CEEEEEECCCCEEEEECCCCCCCCCCCCEEEECCCCCEEEEEEEECCCCEEEEEECCCEEEEEECCCCCCCCCCCCCE--
T ss_conf             449999678717873031025767357087755899999999994799739999838748986033000378888776--


Q ss_pred             CCCCCCCCCCEEEEEEEECCCCEEEEEECCCCEEEEEHHHHHCCCCCCE--EEEEECCC-CCEEEEEECCC-CEEEEEEC
Q ss_conf             2235767653078999857998599997489789963887402333562--78853689-80568896189-80999956
Q gi|254780353|r  591 QLLIDLNHNQDIVTAFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGK--TFLKVSSE-EKMKLVVKVTG-DHVAVVGE  666 (753)
Q Consensus       591 ~~ll~l~~~EkIv~~~~~~~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk--~~ikLk~~-D~li~v~~~~~-d~iiliT~  666 (753)
                       .-+.|.++++|+++...+++.+++++|.+|++||+++++|....+.|+  ..+++.+. +.++.+..+.+ |+++++|+
T Consensus       188 -~gi~L~~~d~vv~~~~~~~~~~ll~~T~~G~~Kr~~~~e~~~~~Rg~~Gv~~~k~~~~~~~~v~~~~v~~~d~ill~T~  266 (307)
T 1zi0_A          188 -RGIRLGEGDKVVSLIVPRGDGAILTATQNGYGKRTAVAEYPTKSRATKGVISIKVTERNGLVVGAVQVDDCDQIMMITD  266 (307)
T ss_dssp             -ECCCCCTTCCEEEEECCCSSCEEEEEETTSEEEEECGGGSCCCCTTSCCEESSCCCTTTCSEEEEEEECTTCEEEEEES
T ss_pred             -EEEECCCCCEEEEEEECCCCCEEEEEECCCEEEEECCCEEEEECCCCCCCEEEECCCCCCCEEEEEECCCCCEEEEEEC
T ss_conf             -7057089999999986138716998744860599402143120456557142202566773899998289987999918


Q ss_pred             CCCEEEEEHHHCCCCCH-HHCCEEEECCCCC
Q ss_conf             99389955787783361-2141334218787
Q gi|254780353|r  667 NRKLLIFSIDQIPEMSR-GKGVRLQSYKDGG  696 (753)
Q Consensus       667 ~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~~  696 (753)
                      +|+++||+.++||.+|| ++||++|+|++++
T Consensus       267 ~G~~ir~~~~~i~~~gR~t~Gv~li~L~~~d  297 (307)
T 1zi0_A          267 AGTLVRTRVSEISIVGRNTQGVILIRTAEDE  297 (307)
T ss_dssp             SCCEEEEEGGGSCBCCSSCCCEECSCCCTTC
T ss_pred             CCEEEEEEHHHCCCCCCCCCCEEEEECCCCC
T ss_conf             9979998854656678889987979879999


No 18 
>1wp5_A Topoisomerase IV; broken beta-propeller, hairpin-invaded beta-propeller, six- bladed beta-propeller; 1.79A {Geobacillus stearothermophilus} SCOP: b.68.10.1
Probab=99.87  E-value=4.6e-20  Score=168.76  Aligned_cols=174  Identities=14%  Similarity=0.208  Sum_probs=80.7

Q ss_pred             CCEEEEECCCEEECCCCCCC-------CCCCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCC--CCCCCC
Q ss_conf             70599871010202565544-------553223455555401211114781789806882787551121212--344442
Q gi|254780353|r  519 PITVVISNRGWIRSLKSHSV-------DLSALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSG--RGHGEA  589 (753)
Q Consensus       519 ~v~V~LS~~GyIKr~k~~~~-------~~~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~--~~kG~p  589 (753)
                      .-.+++|++|++|+.+...+       +...++++++|.+..+..++..+.+++.|+.|++...+..++|..  +++|. 
T Consensus       107 ~~ll~~Tk~G~iKr~~l~e~~~~~~~~g~~~i~L~~~D~l~~v~~~~~~~~i~l~t~~G~~lrf~~~~vr~~gr~a~GV-  185 (323)
T 1wp5_A          107 GYFLFVTRNGMVKKTELKHYKAQRYSKPLTGINLKNDDQVVDVHLTDGMNELFLVTHNGYALWFDESEVSIVGVRAAGV-  185 (323)
T ss_dssp             CEEEEEETTSEEEEEEGGGGCCSCCSSCEECSCCCTTCCEEEEEEECSCSEEEEEETTSEEEEEEGGGSCBCCSSCCCE-
T ss_pred             CEEEEEECCCCEEEEEHHHHCCCCCCCHHEEEECCCCCCCCCEEECCCCEEEEEEECCCEEEEECCCCCCCCCCCCCCC-
T ss_conf             4699998888233865566101123330002433665555516843898489974049828970345423468765673-


Q ss_pred             CCCCCCCCCCCEEEEEEEE-CCCCEEEEEECCCCEEEEEHHHHHCCCCCCE--EEEEECC--CCCEEEEEECCC-CEEEE
Q ss_conf             2223576765307899985-7998599997489789963887402333562--7885368--980568896189-80999
Q gi|254780353|r  590 IQLLIDLNHNQDIVTAFVY-DSTCKLLVVSSKGNAFIVEESEIIANTRKGK--TFLKVSS--EEKMKLVVKVTG-DHVAV  663 (753)
Q Consensus       590 I~~ll~l~~~EkIv~~~~~-~~~~~lll~Tk~G~ikr~~l~~~~~~~k~Gk--~~ikLk~--~D~li~v~~~~~-d~iil  663 (753)
                        ..+.|.++++|+++... +++.+++++|++|++||+++++|...+|.|+  .++++.+  ++.+..+..+++ |++++
T Consensus       186 --k~i~L~~~D~vv~~~~v~~~~~~ll~iT~~G~gKr~~~~e~~~~~Rg~kGv~~~k~~k~~~~~v~~~~v~~~~d~i~i  263 (323)
T 1wp5_A          186 --KGMNLKEGDYIVSGQLITSKDESIVVATQRGAVKKMKLTEFEKATRAKRGVVILRELKANPHRISGFVVAQDSDTIYL  263 (323)
T ss_dssp             --ECCCCCTTCCEEEEEEECCTTCEEEEEETTSEEEEEEGGGSCCCCTTSCCEECSCCCSSSCCCEEEEEEECTTCEEEE
T ss_pred             --CCCCCCCCCEEEEEEEEEECCCEEEEEECCCCEEECCHHHHHHCCCCCCCEEEECCCCCCCCEEEEEEECCCCCEEEE
T ss_conf             --020247898899999996057269998508814751145633115578870610133567824889997689988999


Q ss_pred             EECCCCEEEEEHHHCCCCCH-HHCCEEEECCCC
Q ss_conf             95699389955787783361-214133421878
Q gi|254780353|r  664 VGENRKLLIFSIDQIPEMSR-GKGVRLQSYKDG  695 (753)
Q Consensus       664 iT~~Gk~LrF~~~eIr~~gR-gkGVk~i~Lkd~  695 (753)
                      +|+.|+++||++++||.+|| ++||++|+|+++
T Consensus       264 ~T~~g~~~r~~~~~i~~~gR~~~Gv~li~l~~~  296 (323)
T 1wp5_A          264 QTEKSFIETIKVGDIRFSDRYSNGSFVLDEEEN  296 (323)
T ss_dssp             EETTSCEEEEEGGGSCBCCSSSCCEESSCHHHH
T ss_pred             EECCCEEEEEECCCCCCCCCCCCCEEEEECCCC
T ss_conf             959988999870026767886888797988999


No 19 
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling, decatenation, DNA binding, DNA topology; 3.00A {Escherichia coli}
Probab=99.43  E-value=3e-10  Score=94.92  Aligned_cols=180  Identities=16%  Similarity=0.305  Sum_probs=126.9

Q ss_pred             CCCCEEEEECCCEEECCCCCCC------CC---CCCCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCCCCCC
Q ss_conf             6670599871010202565544------55---32234555554012111147817898068827875511212123444
Q gi|254780353|r  517 KEPITVVISNRGWIRSLKSHSV------DL---SALHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGHG  587 (753)
Q Consensus       517 ~E~v~V~LS~~GyIKr~k~~~~------~~---~~~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~~~kG  587 (753)
                      ..+-.+.+|..|-+..++.+..      |.   .-+.+.++..+..++......+++++|..|.++..+..++.+.+..|
T Consensus       513 t~d~ll~fT~~Grvy~l~v~~lP~~~~kG~pi~~~l~l~~~E~I~~i~~~~~d~~lll~T~~G~~K~~~l~~~~~~~k~G  592 (716)
T 1zvu_A          513 SNQPVVFVDSTGRSYAIDPITLPSARGQGEPLTGKLTLPPGATVDHMLMESDDQKLLMASDAGYGFVCTFNDLVARNRAG  592 (716)
T ss_dssp             SSSCEEEEETTSEEEEECTTTSCCCC---CBSTTTSCCCTTCCEEEEECCCTTCEEEEEBTTSEEEEEEGGGGCCCSTTC
T ss_pred             CCCCEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCEEEEEHHHHCCCCCCC
T ss_conf             57640688358827997414576776788654341047999848998732788679999758958998513610547577


Q ss_pred             CCCCCCCCCCCCCEEEEEEEEC-CCCEEEEEECCCCEEEEEHHHHHCC-CCCCEEEEEECC------CCCEEEEEECCCC
Q ss_conf             4222235767653078999857-9985999974897899638874023-335627885368------9805688961898
Q gi|254780353|r  588 EAIQLLIDLNHNQDIVTAFVYD-STCKLLVVSSKGNAFIVEESEIIAN-TRKGKTFLKVSS------EEKMKLVVKVTGD  659 (753)
Q Consensus       588 ~pI~~ll~l~~~EkIv~~~~~~-~~~~lll~Tk~G~ikr~~l~~~~~~-~k~Gk~~ikLk~------~D~li~v~~~~~d  659 (753)
                      ..+   +++.+|++++++...+ ++..++++|++|+..+.+.+++... +.+|...|+|++      +|.++++..++.+
T Consensus       593 k~a---ikLke~Deli~~~~~~~~~d~vl~vT~~Gk~lrF~~~ev~~~grg~GVkgikL~~~~~~~~~d~v~~~~v~~~~  669 (716)
T 1zvu_A          593 KAL---ITLPENAHVMPPVVIEDASDMLLAITQAGRMLMFPVSDLPQLSKGKGNKIINIPSAEAARGEDGLAQLYVLPPQ  669 (716)
T ss_dssp             EEC---BCCCTTCCBCCCEECCCTTCEEEEEETTSEEEEEESTTSCBCSSBSCEESSCCCHHHHHTTSSCEEEEEEECSS
T ss_pred             CEE---EEECCCCEEEEEEEECCCCCEEEEECCCCEEEEEEHHHCCCCCCCCCCCEEECCCCCCCCCCCEEEEEEEECCC
T ss_conf             377---87689988998999659998899988898299978899886575477120730655555678559999997799


Q ss_pred             -EEEEEECCCCEEEEEHHH-CCCC-CHH-HCCEEEECCCCCEEEE
Q ss_conf             -099995699389955787-7833-612-1413342187875689
Q gi|254780353|r  660 -HVAVVGENRKLLIFSIDQ-IPEM-SRG-KGVRLQSYKDGGISDV  700 (753)
Q Consensus       660 -~iiliT~~Gk~LrF~~~e-Ir~~-gRg-kGVk~i~Lkd~~~~~~  700 (753)
                       .++++|..|.. .....+ -+.. .|| +|+.+++++..+-+.+
T Consensus       670 ~~llv~t~~g~~-k~~~~~~~~~~~~Rg~kG~~~~~~~k~D~~ev  713 (716)
T 1zvu_A          670 STLTIHVGKRKI-KLRPEELQKVTGERGRRGTLMRGLQRIDRVEI  713 (716)
T ss_dssp             CCEEEEETTEEE-EECHHHHTTSBCCTTSCCEECTTCCSCCEEEE
T ss_pred             CEEEEEECCCEE-EECHHHHHHHCCCCCCCCCCCCCCCCCCCEEE
T ss_conf             869999889807-85878830201787888879977766783782


No 20 
>1zvt_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling, decatenation, DNA binding, DNA topology; 1.70A {Escherichia coli}
Probab=99.16  E-value=3.1e-09  Score=87.29  Aligned_cols=176  Identities=15%  Similarity=0.329  Sum_probs=123.6

Q ss_pred             CCCCCEEEEECCCEEECCCCCCC--------CCCC-CCCCCCCCCEEEEEECCCCCEEEEECCCEEEEEEHHHCCCCCCC
Q ss_conf             56670599871010202565544--------5532-23455555401211114781789806882787551121212344
Q gi|254780353|r  516 EKEPITVVISNRGWIRSLKSHSV--------DLSA-LHFKEGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGH  586 (753)
Q Consensus       516 ~~E~v~V~LS~~GyIKr~k~~~~--------~~~~-~~~KegD~l~~~~~~~t~d~LLffTs~GkvY~l~a~~Ips~~~k  586 (753)
                      ...+-++++|+.|.+-.++.+..        +... ..+.+++.+..........+++|.|..|.++..+..++...+..
T Consensus        42 ~t~d~ll~FTn~G~~y~~~v~~ip~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~ll~~T~~G~ikr~~l~~~~~~~~~  121 (256)
T 1zvt_A           42 KSNQPVVFVDSTGRSYAIDPITLPSARGQGEPLTGKLTLPPGATVDHMLMESDDQKLLMASDAGYGFVCTFNDLVARNRA  121 (256)
T ss_dssp             ETTSCEEEEETTSEEEEECGGGSCCSSSCCEEGGGTCCCCTTCCEEEEECCCTTCEEEEEBTTSEEEEEEGGGGCCCSTT
T ss_pred             CCCCEEEEEECCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCEEEEEECCCEEEEEEHHHHCCCCCC
T ss_conf             58988999948987999976004111245678444343444553134554068842999968977999872550050235


Q ss_pred             CCCCCCCCCCCCCCEEEEEE-EECCCCEEEEEECCCCEEEEEHHHHHCC-CCCCEEEEEECC------CCCEEEEEECCC
Q ss_conf             44222235767653078999-8579985999974897899638874023-335627885368------980568896189
Q gi|254780353|r  587 GEAIQLLIDLNHNQDIVTAF-VYDSTCKLLVVSSKGNAFIVEESEIIAN-TRKGKTFLKVSS------EEKMKLVVKVTG  658 (753)
Q Consensus       587 G~pI~~ll~l~~~EkIv~~~-~~~~~~~lll~Tk~G~ikr~~l~~~~~~-~k~Gk~~ikLk~------~D~li~v~~~~~  658 (753)
                      |.-+   +.+.+++.++.+. ..+++..++++|++|++-+.+.+++... +..|..++++++      +|.+..+...++
T Consensus       122 Gk~~---~~l~~~d~~i~~~~v~~~~~~i~l~t~~G~~l~f~~~ev~~~~rg~Gv~~~~l~~~~~~~~dd~v~~~~v~~~  198 (256)
T 1zvt_A          122 GKAL---ITLPENAHVMPPVVIEDASDMLLAITQAGRMLMFPVSDLPQLSKGKGNKIINIPSAEAARGEDGLAQLYVLPP  198 (256)
T ss_dssp             CEEC---BCCCTTCCBCCCEECCCTTCEEEEEETTSEEEEEEGGGSCBCSSBSCEESSCCCHHHHHTTSSCEEEEEEEC-
T ss_pred             CCCC---CCCCCCCCEEEEEEECCCCEEEEEECCCCCEEEEEHHHCCCCCCCCCCCCEEECCCCCCCCCCEEEEEEEECC
T ss_conf             7500---2257788325559964885499998689928985668844245888842471064224567747999888589


Q ss_pred             CEEEEEECCCCEEEEEHHHCC--CCCHH-HCCEEEECCC
Q ss_conf             809999569938995578778--33612-1413342187
Q gi|254780353|r  659 DHVAVVGENRKLLIFSIDQIP--EMSRG-KGVRLQSYKD  694 (753)
Q Consensus       659 d~iiliT~~Gk~LrF~~~eIr--~~gRg-kGVk~i~Lkd  694 (753)
                      ++.++++..++..++..+++.  .+.|| +|..++.++.
T Consensus       199 ~~~l~v~~~~~~~~~k~~~l~~~~~~R~~kG~~~~~~~k  237 (256)
T 1zvt_A          199 QSTLTIHVGKRKIKLRPEELQKVTGERGRRGTLMRGLQR  237 (256)
T ss_dssp             CCEEEEEETTEEEEECHHHHHTTBCCTTSCCEECTTCCS
T ss_pred             CCEEEEEECCCEEECCHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             976999989950532899989986542358877777724


No 21 
>3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently linked comple supercoiling; HET: DNA PTR TSP; 2.48A {Saccharomyces cerevisiae} PDB: 3l4k_A* 1bjt_A 1bgw_A 2rgr_A*
Probab=94.61  E-value=0.26  Score=27.74  Aligned_cols=25  Identities=24%  Similarity=0.351  Sum_probs=16.6

Q ss_pred             EECCCCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             95242002168999999998640222
Q gi|254780353|r  270 VTEIPYQVQKSRLIEKIAELIIAKRI  295 (753)
Q Consensus       270 IteiPy~v~k~~~ie~I~~lv~~~ki  295 (753)
                      =|.||+ -|...+++-+..++++..+
T Consensus       418 aTnIPp-hNp~eVi~~~~~~i~~~~~  442 (757)
T 3l4j_A          418 STYIPP-FNPLEIIKNIRHLMNDEEL  442 (757)
T ss_dssp             EEEECC-CCHHHHHHHHHHHHTTCCC
T ss_pred             HCCCCC-CCHHHHHHHHHHHHCCCHH
T ss_conf             137789-8868999999998187145


No 22 
>1t3j_A Mitofusin 1; coiled coil antiparallel, dimer, membrane protein; 2.50A {Mus musculus} SCOP: h.4.16.1
Probab=83.12  E-value=2.2  Score=20.82  Aligned_cols=53  Identities=21%  Similarity=0.364  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH---HHHHHHHHHHHHC
Q ss_conf             7899998899997666789999887765442039788789---9999999998741
Q gi|254780353|r  434 LRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWN---QIACEIREVKEIF  486 (753)
Q Consensus       434 mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~---iI~~EL~eikkkf  486 (753)
                      =||.+..-.-...+++|+++|..+|..|+.|-+.-+.|++   .+..||....+.|
T Consensus        39 aRLc~qVd~t~~eLeeEI~~L~~eI~~LE~iqs~aK~LRNKA~~Le~eL~~F~~~f   94 (96)
T 1t3j_A           39 ARLCQQVDMTQKHLEEEIARLSKEIDQLEKMQNNSKLLRNKAVQLESELENFSKQF   94 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999998899999999999999999999999999999878988999999999987


No 23 
>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}
Probab=79.94  E-value=1.1  Score=22.91  Aligned_cols=21  Identities=14%  Similarity=0.151  Sum_probs=13.2

Q ss_pred             EEEECCCCCCCHHHHHHHHHH
Q ss_conf             999524200216899999999
Q gi|254780353|r  268 IVVTEIPYQVQKSRLIEKIAE  288 (753)
Q Consensus       268 ivIteiPy~v~k~~~ie~I~~  288 (753)
                      ++|=-=++++.|+.+.-.++.
T Consensus       202 l~vi~a~pg~GKT~~~~~~a~  222 (444)
T 2q6t_A          202 LNIIAARPAMGKTAFALTIAQ  222 (444)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEEEECCCCCHHHHHHHHH
T ss_conf             899983046662188887899


No 24 
>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A
Probab=74.02  E-value=2.2  Score=20.83  Aligned_cols=22  Identities=18%  Similarity=0.229  Sum_probs=14.8

Q ss_pred             EEEEECCCCCCCHHHHHHHHHH
Q ss_conf             7999524200216899999999
Q gi|254780353|r  267 CIVVTEIPYQVQKSRLIEKIAE  288 (753)
Q Consensus       267 ~ivIteiPy~v~k~~~ie~I~~  288 (753)
                      .++|--=++++.|+.+.-.++.
T Consensus       204 ~l~vi~a~pg~GKT~~~~~~a~  225 (454)
T 2r6a_A          204 DLIIVAARPSVGKTAFALNIAQ  225 (454)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
T ss_conf             7799995677653299998997


No 25 
>1b4u_A LIGA, LIGB, protocatechuate 4,5-dioxygenase; extradiol type dioxygenase, non-heme iron protein; HET: DHB; 2.20A {Sphingomonas paucimobilis} SCOP: a.88.1.1 PDB: 1bou_A
Probab=69.18  E-value=3.7  Score=19.13  Aligned_cols=32  Identities=13%  Similarity=0.170  Sum_probs=25.9

Q ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             11000000257757788998878999988999
Q gi|254780353|r  413 PKPVMVSRFSLTENQVDAILNLRLRSLRKLEE  444 (753)
Q Consensus       413 ~k~~L~~~f~lse~QA~aIL~mrL~rLt~le~  444 (753)
                      ...+++.+|+||++|.+||++.-..+|-.+-.
T Consensus        56 De~Ayl~~~~LTeEqr~AV~~rD~~~Li~lGg   87 (139)
T 1b4u_A           56 DESAYLDEWNLTPAAKAAVLARDYNAMIDEGG   87 (139)
T ss_dssp             CHHHHHHTTTCCHHHHHHHHHTCHHHHHHTTC
T ss_pred             CHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCC
T ss_conf             99999870799999999998201999999378


No 26 
>3cnf_A VP1; cytoplasmic polyhedrosis virus, capsid protein, turret protein, polyhedrin-binding domain, guanylyltransferase domain; 3.88A {Bombyx mori cypovirus 1}
Probab=61.14  E-value=6.9  Score=17.06  Aligned_cols=138  Identities=10%  Similarity=0.056  Sum_probs=65.8

Q ss_pred             CCCCCCCCCCCCHHHHHHHHHC-------------CCCEEEEEEEEEEEE----------------CCCCCEEEEEECCC
Q ss_conf             7788776010698899989850-------------334159999999864----------------37884079995242
Q gi|254780353|r  224 PDFPTGGIIVESRESIVESYRL-------------GRGGFRVRARWCVEE----------------VGRGSWCIVVTEIP  274 (753)
Q Consensus       224 PDFPTGG~i~~~~~~i~~~y~t-------------G~G~i~~r~k~~~e~----------------~~~~~~~ivIteiP  274 (753)
                      +=||||+.++...-.+.++...             |--++.+|.+ ++|-                ++.=+.+|+|+.+|
T Consensus       791 iv~p~~~~~~~~~~~~~~~~~~~~~pd~~~~~ilsg~~~~~~~~~-~~e~d~~~d~~~~~~~y~~~ls~~~erl~i~~~~  869 (1333)
T 3cnf_A          791 IVYPDPSTTLSQSLSVAQVLSKLTLPDAFINMILSGGDSVVMRTY-QTEADDDLDEGIRMTTYDQYLSHIRERLHITNVP  869 (1333)
T ss_pred             EECCCCCCCCCCCHHHHHHHHHCCCCCHHEEEEECCCCEEEEEEE-EEECCCCCCCCEEEEEHHHHHHHHHHHEEECCCC
T ss_conf             113895112362389999764024741213688326624665335-6411324466268865676544466631001367


Q ss_pred             --CCCCHHHHHHHHHHHHHHCCCHHH----HHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCEEEEEC
Q ss_conf             --002168999999998640222134----57764067660588985045458899999875420000122331133312
Q gi|254780353|r  275 --YQVQKSRLIEKIAELIIAKRIPLL----EDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSM  348 (753)
Q Consensus       275 --y~v~k~~~ie~I~~lv~~~ki~gi----~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~T~Lq~sf~~N~~~l~~  348 (753)
                        ..+.++.-.++|+++++.-. .+|    .++-     .+.-+.-+  +..+|-+++-.+|.-.+--..  ++.-.+  
T Consensus       870 ~~~~~~~~~t~~~i~~~l~~~~-~~~~~~~~~~~-----~~~~~~~~--~~~~~~i~~~~~y~v~s~~~~--~~~~~~--  937 (1333)
T 3cnf_A          870 DPIYITGASTPDQIAASVQATH-VAVVLYQSGVI-----NGPASTYL--RENEVLVVMPDYYDVVSRFAN--ANLQMN--  937 (1333)
T ss_pred             CCCCCCCCCCHHHHHHHHCCCC-EEEECCCHHHC-----CCCHHHHH--HCCCCEEECCCCCHHHHHHCC--CCCCCC--
T ss_conf             6200013475899999851653-02421511111-----44023333--315850421440001233125--673134--


Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             689722049999998999989999999
Q gi|254780353|r  349 GRVPQVMPLDGILKEWLAHRREVLFRR  375 (753)
Q Consensus       349 ~~~P~~~~l~eil~~f~~~R~~vi~rr  375 (753)
                      |. -...+..++++.|+..+..-+.+.
T Consensus       938 ~n-~~~~~~~~~~~~~~~~~~~~~~~~  963 (1333)
T 3cnf_A          938 NN-RYHESVLEIADIFDQADFIQTSDA  963 (1333)
T ss_pred             CC-CHHHHHHHHHHHHHHHHHHHCCHH
T ss_conf             65-102233102455655444202567


No 27 
>3ghg_B Fibrinogen beta chain; triple-stranded coiled coil, beta sheets, alpha helices, alternative splicing, amyloid, amyloidosis, blood coagulation, coiled coil; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_B* 1deq_B 2a45_H*
Probab=55.98  E-value=8.3  Score=16.45  Aligned_cols=37  Identities=11%  Similarity=0.219  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             9998877654420397887899999999998741774
Q gi|254780353|r  453 NLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS  489 (753)
Q Consensus       453 eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~  489 (753)
                      ++.+++..|+.++.+.......+.+++.....+...+
T Consensus       160 qles~I~~LQ~~i~~l~~kIq~Leq~Isq~e~kcq~~  196 (461)
T 3ghg_B          160 NIPTNLRVLRSILENLRSKIQKLESDVSAQMEYCRTP  196 (461)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSB
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             8999999999999999999999999998888751365


No 28 
>3a7m_A Flagellar protein FLIT; UP-DOWN helix bundle, bacterial flagellum biogenesis, chaper cytoplasm, repressor, transcription; 3.20A {Salmonella typhimurium}
Probab=52.06  E-value=8.5  Score=16.38  Aligned_cols=59  Identities=12%  Similarity=0.070  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEECCCHHHHHHHHCCCCCCCC
Q ss_conf             988776544203978878999999999987417743345554200001100000011002456670
Q gi|254780353|r  455 LAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKEPI  520 (753)
Q Consensus       455 ~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~~~~RRT~iie~~~~~~~~~~EdlI~~E~v  520 (753)
                      .....-|+.||.++..++.++...+.++....+..     +|..-+.  ..-..+....+.|++|.
T Consensus        62 ~~~~~lL~~IL~nd~eIr~Ll~~rmdeL~~li~~~-----~rq~~l~--~aYg~~~g~~l~p~~p~  120 (122)
T 3a7m_A           62 DMVAGYIKQTLDNEQLLKGLLQQRLDELSSLIGQS-----TRQKSLN--NAYGRLSGMLLVPDAPG  120 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-----HHHHHHH--HHHHHHHTCCCCC----
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHH--HHHHCCCCCCCCCCCCC
T ss_conf             99999999999769999999999999999999987-----8668999--99974788714899988


No 29 
>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor 1 (RF-1), structural genomics, joint center for structural genomics, JCSG; 2.34A {Streptococcus mutans}
Probab=50.17  E-value=10  Score=15.80  Aligned_cols=44  Identities=7%  Similarity=0.089  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCC---HHHHHHHHHHHHHHHHHHCC
Q ss_conf             997666789999887765442039---78878999999999987417
Q gi|254780353|r  444 EYQIKSELDNLLAEKEKIDSLLNS---GKQQWNQIACEIREVKEIFS  487 (753)
Q Consensus       444 ~~kl~~E~~eL~~~i~~L~~IL~s---~~~l~~iI~~EL~eikkkfg  487 (753)
                      ....-+++..+.++++++..++++   +..+.....+|+.++.++..
T Consensus        58 ~v~~~~~l~~~~~dl~el~eLl~e~~~D~el~ela~eEl~~~~~~l~  104 (371)
T 1zbt_A           58 TVAVYREYKQVVQNIADAQEMIKDASGDPELEEMAKEELKNSKVAKE  104 (371)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-------CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999987999999985136885799999999987554589


No 30 
>3dm0_A Maltose-binding periplasmic protein fused with RACK1; MBP RACK1A, receptor for activiated protein C-kinase 1, beta-propeller WD40 repeat; HET: GLC; 2.40A {Escherichia coli}
Probab=49.27  E-value=10  Score=15.70  Aligned_cols=16  Identities=25%  Similarity=0.052  Sum_probs=11.9

Q ss_pred             CCCCEEEEECCCEEEC
Q ss_conf             6670599871010202
Q gi|254780353|r  517 KEPITVVISNRGWIRS  532 (753)
Q Consensus       517 ~E~v~V~LS~~GyIKr  532 (753)
                      +-++.++-|.+|-||.
T Consensus       394 ~~~~l~Tgs~D~tv~v  409 (694)
T 3dm0_A          394 NADIIVSASRDKSIIL  409 (694)
T ss_dssp             CCSEEEEEETTSEEEE
T ss_pred             CCCEEEEEECCCEEEE
T ss_conf             9989999936993999


No 31 
>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B*
Probab=48.98  E-value=11  Score=15.67  Aligned_cols=38  Identities=8%  Similarity=0.186  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             99998877654420397887899999999998741774
Q gi|254780353|r  452 DNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS  489 (753)
Q Consensus       452 ~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~  489 (753)
                      .++.+++..|+..+.+......-+.+++....++...+
T Consensus       164 ~~ie~qi~~Lq~~l~elq~kIq~LE~qI~q~~ek~~~~  201 (464)
T 1m1j_B          164 NNIPSSLRVLRAVIDSLHKKIQKLENAIATQTDYCRSP  201 (464)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSB
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             99999999999999999999999999998788750566


No 32 
>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 3.00A {Aquifex aeolicus VF5}
Probab=45.14  E-value=12  Score=15.26  Aligned_cols=35  Identities=29%  Similarity=0.295  Sum_probs=15.8

Q ss_pred             HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8899887-8999988999976667899998877654
Q gi|254780353|r  428 VDAILNL-RLRSLRKLEEYQIKSELDNLLAEKEKID  462 (753)
Q Consensus       428 A~aIL~m-rL~rLt~le~~kl~~E~~eL~~~i~~L~  462 (753)
                      .+.|+++ .-+|-...+.++++.|.+++.++|..+.
T Consensus        29 id~il~Ld~~~r~l~~e~e~Lr~erN~iSKeIg~~k   64 (425)
T 2dq3_A           29 VDKVLELDKRRREIIKRLEALRSERNKLSKEIGKLK   64 (425)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999999999999999999999998


No 33 
>1m1j_C Fibrinogen gamma chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_C
Probab=44.45  E-value=12  Score=15.18  Aligned_cols=119  Identities=8%  Similarity=0.069  Sum_probs=65.2

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCCCCCCCCCCCCHHHHH
Q ss_conf             972204999999899998999999999999999999999999998641078999975200-0011000000257757788
Q gi|254780353|r  351 VPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNE-DKPKPVMVSRFSLTENQVD  429 (753)
Q Consensus       351 ~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s-~~~k~~L~~~f~lse~QA~  429 (753)
                      .|..+.|++.|.....- .+--....+-+++.+++++.-++..          |+-+... .+.+..|.+.        .
T Consensus        19 Cpt~c~l~d~L~kqe~~-ld~eI~~Le~~l~el~~~l~ele~~----------Iq~Lq~ql~~~~~~Lqq~--------~   79 (409)
T 1m1j_C           19 CPTTCGIADFFNKYRLT-TDGELLEIEGLLQQATNSTGSIEYL----------IQHIKTIYPSEKQTLPQS--------I   79 (409)
T ss_dssp             EECTTHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHSCSSTTCCSSC--------H
T ss_pred             CCCCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHH--------H
T ss_conf             88841577999999988-8999999999999999999999999----------999999999999999999--------9


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             998878999988999976667899998877654420397887899999999998741774
Q gi|254780353|r  430 AILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS  489 (753)
Q Consensus       430 aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~  489 (753)
                      .-+.-.+..|. -++.+++++..++.++|.+|+..+.........+.+++.++..+...+
T Consensus        80 e~l~q~~~el~-eei~~lk~~I~~~e~qI~eLq~~l~~~~~~I~~LkqkI~qLeqq~qe~  138 (409)
T 1m1j_C           80 EQLTQKSKKII-EEIIRYENTILAHENTIQQLTDMHIMNSNKITQLKQKIAQLESHCQEP  138 (409)
T ss_dssp             HHHHHHHHHHH-HHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCSC
T ss_pred             HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf             99999999999-999999999999998999999999877765567999999999875011


No 34 
>3ghg_C Fibrinogen gamma chain; triple-stranded coiled coil, beta sheets, alpha helices, alternative splicing, amyloid, amyloidosis, blood coagulation, coiled coil; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 1deq_C
Probab=43.87  E-value=12  Score=15.12  Aligned_cols=119  Identities=10%  Similarity=0.147  Sum_probs=64.1

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-CCCCCCCCCCHHHHH
Q ss_conf             9722049999998999989999999999999999999999999986410789999752000011-000000257757788
Q gi|254780353|r  351 VPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKPK-PVMVSRFSLTENQVD  429 (753)
Q Consensus       351 ~P~~~~l~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~s~~~k-~~L~~~f~lse~QA~  429 (753)
                      .|..+.+.+.|..+..-        .+-++++.++.+.-++   .....+.+.++-++..-... ..+.+.        .
T Consensus        19 Cpt~ceLqd~L~kq~~e--------lqk~iqqLe~~l~el~---~~~~elk~~i~~le~~l~e~e~ql~~~--------i   79 (411)
T 3ghg_C           19 CPTTCGIADFLSTYQTK--------VDKDLQSLEDILHQVE---NKTSEVKQLIKAIQLTYNPDESSKPNM--------I   79 (411)
T ss_dssp             EECSHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHCTTTCCCTTC--------H
T ss_pred             CCCCCHHHHHHHHHHHH--------HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHH--------H
T ss_conf             66602689999999999--------9999999999999999---999999999999999999999999999--------9


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             998878999988999976667899998877654420397887899999999998741774
Q gi|254780353|r  430 AILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS  489 (753)
Q Consensus       430 aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~  489 (753)
                      .-+.....+|. -+..+++....++.++|..|+..+........-+.+++.++.++...+
T Consensus        80 ~~l~~~~~eL~-eei~~le~~i~~~e~qI~qLq~~l~~l~~~i~~lk~~I~qLeek~~~~  138 (411)
T 3ghg_C           80 DAATLKSRKML-EEIMKYEASILTHDSSIRYLQEIYNSNNQKIVNLKEKVAQLEAQCQEP  138 (411)
T ss_dssp             HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCSC
T ss_pred             HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             99999999999-999999999998887777777788999989899999999999764355


No 35 
>1dkg_A Nucleotide exchange factor GRPE; HSP70, GRPE, nucleotide exchange factor, coiled-coil, complex (HSP24/HSP70); 2.80A {Escherichia coli} SCOP: b.73.1.1 h.1.9.1
Probab=41.09  E-value=14  Score=14.82  Aligned_cols=14  Identities=14%  Similarity=0.181  Sum_probs=10.4

Q ss_pred             CCCEEEEECCCEEE
Q ss_conf             67059987101020
Q gi|254780353|r  518 EPITVVISNRGWIR  531 (753)
Q Consensus       518 E~v~V~LS~~GyIK  531 (753)
                      +..+|-+-+.||.-
T Consensus       167 ~~~Vv~v~q~GY~l  180 (197)
T 1dkg_A          167 PGNVLGIMQKGYTL  180 (197)
T ss_dssp             TTBEEEEEECEEEE
T ss_pred             CCEEEEEEECCCEE
T ss_conf             19589996679087


No 36 
>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase, AARS, serrs, translation, ATP-binding, nucleotide-binding, structural genomics; HET: ATP; 1.95A {Trypanosoma brucei} PDB: 3lsq_A*
Probab=35.67  E-value=16  Score=14.23  Aligned_cols=48  Identities=15%  Similarity=0.056  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHC
Q ss_conf             8878999988999976667899998877654420397887899999999998741
Q gi|254780353|r  432 LNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIF  486 (753)
Q Consensus       432 L~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkf  486 (753)
                      ....-..+..++..++.++.++|.++++.+++-+.       .+.+++.++.-.-
T Consensus        94 ~~~~~~~~~~~~~~~Lk~~~k~Lk~~i~~le~~l~-------ele~~l~~lll~I  141 (484)
T 3lss_A           94 GTLKGEQVEQLCVLQLKQLSKDLSDQVAGLAKEAQ-------QLEEERDKLMLNV  141 (484)
T ss_dssp             -----------CHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHC
T ss_conf             00000012244699999999999999999999999-------9999999999728


No 37 
>3nkz_A Flagellar protein FLIT; structural genomics, PSI-2, protein structure initiative, MC midwest center for structural genomics; HET: MSE PG4; 2.11A {Yersinia enterocolitica subsp}
Probab=34.76  E-value=17  Score=14.13  Aligned_cols=58  Identities=10%  Similarity=0.145  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEECCCHHHHHHHHCCCCCCC
Q ss_conf             98877654420397887899999999998741774334555420000110000001100245667
Q gi|254780353|r  455 LAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRTTFCEVSRADKATLQQAMIEKEP  519 (753)
Q Consensus       455 ~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~~~~~~RRT~iie~~~~~~~~~~EdlI~~E~  519 (753)
                      .....-|+.||.++..++.++...+.++.+..+..     +|..-+...  -..+....+.|.||
T Consensus        65 ~~~~~lL~~IL~ndaeIr~Ll~~rmd~L~~li~q~-----~~q~~l~~a--Ygqf~~~~l~~~~~  122 (123)
T 3nkz_A           65 DLLREKLRAILDNEIEIKRLLQLRLDRLSDLVGQS-----TKQQAVNNT--YGQFPDHALLLGET  122 (123)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHH--HHCCCCCCCCCCCC
T ss_conf             99999999999679999999999999999999988-----877899988--85789985789999


No 38 
>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative; 2.20A {Eubacterium eligens atcc 27750}
Probab=33.38  E-value=18  Score=13.97  Aligned_cols=43  Identities=16%  Similarity=0.204  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             998999989999999999-9999999999999999864107899997520
Q gi|254780353|r  361 LKEWLAHRREVLFRRSSF-RMQAIDRRVEILKGLLIAYLNIDEIIAIIRN  409 (753)
Q Consensus       361 l~~f~~~R~~vi~rr~~~-~L~k~~~RlhIleGl~~a~~~ID~vI~iIR~  409 (753)
                      +-.|++.+..-+..+..+ .|  -..|+.+|-+|-+|    |+..+.-+.
T Consensus        33 ~A~~vd~k~~~i~~~~~~~~l--~~~~~avlaaLnia----Del~~~~~~   76 (138)
T 3hnw_A           33 VASYINNKITEFNKEESYRRM--SAELRTDMMYLNIA----DDYFKAKKM   76 (138)
T ss_dssp             HHHHHHHHHHHHTTCHHHHTS--CHHHHHHHHHHHHH----HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCCCC--CHHHHHHHHHHHHH----HHHHHHHHH
T ss_conf             999999999999830688889--99999999999889----999988878


No 39 
>3gc3_B Arrestin beta-1, clathrin heavy chain 1; protein-protein complex, alternative splicing, phosphoprotein, sensory transduction, acetylation, coated PIT; 2.20A {Bos taurus} PDB: 1utc_A 3gd1_I 1c9i_A 1c9l_A
Probab=33.13  E-value=18  Score=13.94  Aligned_cols=34  Identities=6%  Similarity=0.027  Sum_probs=21.2

Q ss_pred             CCCEEEEEECCC-CEEEEEECCCCEEEEEHHHCCC
Q ss_conf             980568896189-8099995699389955787783
Q gi|254780353|r  647 EEKMKLVVKVTG-DHVAVVGENRKLLIFSIDQIPE  680 (753)
Q Consensus       647 ~D~li~v~~~~~-d~iiliT~~Gk~LrF~~~eIr~  680 (753)
                      +|..+++...+. +-+.++|+.|.+..|++..--.
T Consensus       258 ~DFPVamqvs~kygviyviTK~G~i~lyDleTgt~  292 (363)
T 3gc3_B          258 NDFPVAMQISEKHDVVFLITKYGYIHLYDLETGTC  292 (363)
T ss_dssp             TCCEEEEEEETTTTEEEEEETTSEEEEEETTTCCE
T ss_pred             CCCEEEEEECCCCCEEEEEECCCEEEEEECCCCEE
T ss_conf             78567898426668899994675899998576627


No 40 
>1x67_A Drebrin-like protein; cell-free protein synthesis, actin-binding protein, SH3P7, MABP1, T-cell lymphocyte signaling and regulation; NMR {Homo sapiens}
Probab=32.72  E-value=18  Score=13.90  Aligned_cols=91  Identities=19%  Similarity=0.230  Sum_probs=49.1

Q ss_pred             HCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCC---CCC-CCCCCCCCHHHHHHHHHCCCCEEEE
Q ss_conf             426650467777516777889999999998728653201344320367---788-7760106988999898503341599
Q gi|254780353|r  177 ANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLEYIIGP---DFP-TGGIIVESRESIVESYRLGRGGFRV  252 (753)
Q Consensus       177 ~Ng~~GIavG~at~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gP---DFP-TGG~i~~~~~~i~~~y~tG~G~i~~  252 (753)
                      .+|++|.+|.++||=     .||.+|...+..+..-+---+++|-.-+   ++. +|+   .+.+.+.+......-.+-+
T Consensus         2 ~~~~~gm~~~~~~~~-----~ei~~a~~~v~~~~~~~~wvi~~~~~~~~~i~v~~~g~---~~~~e~~~~L~~~~~~Y~~   73 (146)
T 1x67_A            2 SSGSSGMAANLSRNG-----PALQEAYVRVVTEKSPTDWALFTYEGNSNDIRVAGTGE---GGLEEMVEELNSGKVMYAF   73 (146)
T ss_dssp             CSSSSSSCCCCCTTH-----HHHHHHHHHHHCSSSSCSEEEEEESSSSSCEEEEEEES---SCHHHHHHHCCTTSEEEEE
T ss_pred             CCCCCCEEEECCCCC-----HHHHHHHHHHHCCCCCCCEEEEEEECCCCEEEEECCCC---CCHHHHHHHCCCCCEEEEE
T ss_conf             988773266526897-----79999999998589997589999828974899962688---9999999767855627999


Q ss_pred             EEEEEEEECCCCC-EEEEEECCCCCCC
Q ss_conf             9999986437884-0799952420021
Q gi|254780353|r  253 RARWCVEEVGRGS-WCIVVTEIPYQVQ  278 (753)
Q Consensus       253 r~k~~~e~~~~~~-~~ivIteiPy~v~  278 (753)
                         +.++.....+ +-+.|+=.|-+++
T Consensus        74 ---~r~~~~~~~~~K~vfI~w~p~~~~   97 (146)
T 1x67_A           74 ---CRVKDPNSGLPKFVLINWTGEGVN   97 (146)
T ss_dssp             ---EEEECSSSCSEEEEEEEEECTTSC
T ss_pred             ---EEEECCCCCCCCEEEEEECCCCCC
T ss_conf             ---999538986222899996576799


No 41 
>3kjd_A Poly [ADP-ribose] polymerase 2; transferase, enzyme-inhibitor complex, catalytic fragment, structural genomics, structural genomics consortium, SGC; HET: 78P; 1.95A {Homo sapiens} PDB: 3kcz_A* 1gs0_A
Probab=29.56  E-value=19  Score=13.70  Aligned_cols=12  Identities=33%  Similarity=0.440  Sum_probs=5.3

Q ss_pred             HHHHHHHHHHHH
Q ss_conf             999999998640
Q gi|254780353|r  281 RLIEKIAELIIA  292 (753)
Q Consensus       281 ~~ie~I~~lv~~  292 (753)
                      .++.+|.+++++
T Consensus        69 ~iL~~i~~~l~~   80 (368)
T 3kjd_A           69 QSLKKIEDCIRA   80 (368)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHC
T ss_conf             999999999855


No 42 
>1bpo_A Protein (clathrin); clathrin endocytosis beta-propeller coated-PITS, membrane protein; 2.60A {Rattus norvegicus} SCOP: a.118.1.4 b.69.6.1
Probab=29.20  E-value=21  Score=13.48  Aligned_cols=31  Identities=6%  Similarity=0.109  Sum_probs=13.7

Q ss_pred             CCCEEEEEECCC-CEEEEEECCCCEEEEEHHH
Q ss_conf             980568896189-8099995699389955787
Q gi|254780353|r  647 EEKMKLVVKVTG-DHVAVVGENRKLLIFSIDQ  677 (753)
Q Consensus       647 ~D~li~v~~~~~-d~iiliT~~Gk~LrF~~~e  677 (753)
                      +|..+++...+. +-+.++|+.|.+..|++..
T Consensus       258 ~DFPVamqvs~kygviyviTK~G~i~lyDleT  289 (494)
T 1bpo_A          258 NDFPVAMQISEKHDVVFLITKYGYIHLYDLET  289 (494)
T ss_dssp             TCCEEEEEEETTTTEEEEEETTSEEEEEETTT
T ss_pred             CCCEEEEEEECCCCEEEEEECCCEEEEEECCC
T ss_conf             78665898605568899995674899998566


No 43 
>1muk_A Minor core protein lambda 3; single subunit polymerase fold, fingers, PALM, thumb, right hand configuration, viral protein; 2.50A {Reovirus SP} SCOP: e.8.1.4 PDB: 1mwh_A* 1n1h_A* 1n35_A* 1n38_A* 1uon_A* 2cse_1
Probab=28.43  E-value=19  Score=13.77  Aligned_cols=139  Identities=13%  Similarity=0.224  Sum_probs=59.2

Q ss_pred             HHHHHHHHHCCCCEEEEEEEEEEEECCCCCEE---EEEECCCCC------CCHHHHHH------------HHHHHHHHCC
Q ss_conf             88999898503341599999998643788407---999524200------21689999------------9999864022
Q gi|254780353|r  236 RESIVESYRLGRGGFRVRARWCVEEVGRGSWC---IVVTEIPYQ------VQKSRLIE------------KIAELIIAKR  294 (753)
Q Consensus       236 ~~~i~~~y~tG~G~i~~r~k~~~e~~~~~~~~---ivIteiPy~------v~k~~~ie------------~I~~lv~~~k  294 (753)
                      ...+..+|++|-|.+.=.-.|. |  .+.+++   +=++.|--+      ++..+..+            .|....++-.
T Consensus       279 ~~sLHsMYR~~~gG~~P~ieW~-E--PRskY~F~~~Gv~~l~~~~~~~~p~~d~~~~~~~~~ygL~dv~~~i~~~~~~~~  355 (1267)
T 1muk_A          279 QNTLHSMYESLEGGYCPNLEWL-E--PRSDYKFMYMGVMPLSAKYARSAPSNDKKARELGEKYGLSSVVGELRKRTKTYV  355 (1267)
T ss_dssp             HTTGGGCCSSCCEEEEEEEEEC-S--SGGGCBEEEEEEEECCGGGSCCSCCCHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCHHHHHHHHCCCCCCCCEEEC-C--CCCCCEEEEEEEEECCCCCCCCCCCCCHHHHHHHHHHCHHHHHHHHHHHHCCCC
T ss_conf             1029999872468756611323-7--665544899514763545456898763789999987286999999999860476


Q ss_pred             ---CHHHHHHHHCCC-CCEEEEEEEECCCCCHHHHHHHHHHHCCC-CCCCC--------CCEEEEECCCCCCCCCHHHHH
Q ss_conf             ---213457764067-66058898504545889999987542000-01223--------311333126897220499999
Q gi|254780353|r  295 ---IPLLEDIRDESA-EDVRIVLFPKNRSLDPDLLMESIFMLSDM-ETRFP--------LNMNVLSMGRVPQVMPLDGIL  361 (753)
Q Consensus       295 ---i~gi~dirDeSd-~~~~~vi~~~~r~~~~~~vl~~Lyk~T~L-q~sf~--------~N~~~l~~~~~P~~~~l~eil  361 (753)
                         -.-+.-|||--. -.|+.++    |. -.+.||. =|..++. +.-+.        -|.-.|- +.  .....+-+-
T Consensus       356 ~H~~dSvr~VRDvMa~TSg~flV----R~-pTesVL~-EYsQ~P~Ik~PIp~s~wtgpIGnvRyL~-~~--~~~pa~~Ly  426 (1267)
T 1muk_A          356 KHDFASVRYIRDAMACTSGIFLV----RT-PTETVLQ-EYTQSPEIKVPIPQKDWTGPIGEIRILK-DT--TSSIARYLY  426 (1267)
T ss_dssp             EESHHHHHHHHHHHTSSCCCBCC----CC-HHHHHHH-HSSCCCCCSSCCCGGGEEEEETTEEEEC-TT--CCSTHHHHH
T ss_pred             CCCCHHHHHHHHHHHHCCCEEEE----CC-CHHHHHH-HHCCCCCCCCCCCHHHCCCCCCCEEEEC-CC--CCCHHHHHH
T ss_conf             66605889999988643641686----28-6089999-7357985458898676468766367614-56--786479999


Q ss_pred             HHHHHHHHHHHHHHHHHH-HHHHHHH
Q ss_conf             989999899999999999-9999999
Q gi|254780353|r  362 KEWLAHRREVLFRRSSFR-MQAIDRR  386 (753)
Q Consensus       362 ~~f~~~R~~vi~rr~~~~-L~k~~~R  386 (753)
                      +.|.+--.++..+..-+| |.++--|
T Consensus       427 ~~Wr~AA~~v~~~p~t~DpL~QaImr  452 (1267)
T 1muk_A          427 RTWYLAAARMAAQPRTWDPLFQAIMR  452 (1267)
T ss_dssp             HHHHHHHHHHHHCGGGGCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHH
T ss_conf             99999999997097655778999877


No 44 
>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis/exocytosis complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A
Probab=28.00  E-value=21  Score=13.34  Aligned_cols=25  Identities=8%  Similarity=0.291  Sum_probs=10.3

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             049999998999989999999999999
Q gi|254780353|r  355 MPLDGILKEWLAHRREVLFRRSSFRMQ  381 (753)
Q Consensus       355 ~~l~eil~~f~~~R~~vi~rr~~~~L~  381 (753)
                      .++-++.+.|+.+.  -++.-|.|.|+
T Consensus       544 ~Di~~IvD~F~~~n--~iqe~TsfLLd  568 (1630)
T 1xi4_A          544 ADITQIVDVFMEYN--LIQQCTAFLLD  568 (1630)
T ss_pred             CCHHHHHHHHHHHC--HHHHHHHHHHH
T ss_conf             68999999999605--49899999999


No 45 
>2kz5_A Transcription factor NF-E2 45 kDa subunit; structural genomics, northeast structural genomics consortiu PSI-2, protein structure initiative; NMR {Homo sapiens}
Probab=27.54  E-value=22  Score=13.28  Aligned_cols=37  Identities=24%  Similarity=0.428  Sum_probs=23.4

Q ss_pred             HHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             8999975200001100000025775778899887899998
Q gi|254780353|r  401 DEIIAIIRNEDKPKPVMVSRFSLTENQVDAILNLRLRSLR  440 (753)
Q Consensus       401 D~vI~iIR~s~~~k~~L~~~f~lse~QA~aIL~mrL~rLt  440 (753)
                      ++||..   +-+.-..+++++.|||.|...|=|+|=|-=.
T Consensus        38 e~Iv~l---pv~eF~elL~~~~Lte~Ql~lirDIRRRGKN   74 (91)
T 2kz5_A           38 DKIVNL---PVDDFNELLARYPLTESQLALVRDIRRRGKN   74 (91)
T ss_dssp             HHHHHS---CHHHHHHHHHHSCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHC---CHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC
T ss_conf             999868---7999999998479999999999999980223


No 46 
>3fv6_A YQZB protein; CBS domain dimer, metabolism regulator, central glycolytic gene regulator, transcription; 1.95A {Bacillus subtilis} PDB: 3fwr_A* 3fws_A*
Probab=27.45  E-value=16  Score=14.33  Aligned_cols=39  Identities=18%  Similarity=0.201  Sum_probs=27.3

Q ss_pred             HHHHHCCCCCC---HHHHHHHHHHHHCCHHHCCCCCCCCCCCCC
Q ss_conf             66654276887---478999999961001321661326788708
Q gi|254780353|r   79 VGEVIGKLHPH---GDQSVYDSLVRLAQPFVQRYPLISGQGNFG  119 (753)
Q Consensus        79 vg~v~gkyhPH---Gd~s~y~a~v~maq~~~~~~pli~g~GnfG  119 (753)
                      |+++|-  +|-   .|+++++|+-.|.+.---..|.+|..|.|.
T Consensus        19 v~dims--~pv~V~~~~tv~ea~~~m~~~~~~~l~Vvd~~~~~~   60 (159)
T 3fv6_A           19 VKDFQS--IPVVIHENVSVYDAICTMFLEDVGTLFVVDRDAVLV   60 (159)
T ss_dssp             GGGSCB--CCCEEETTSBHHHHHHHHHHHTCSEEEEECTTSCEE
T ss_pred             HHHHCC--CCEEECCCCCHHHHHHHHHHCCCCEEEEEECCCEEE
T ss_conf             999578--995999929799999999974996899996997399


No 47 
>3h3m_A Flagellar protein FLIT; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.50A {Bordetella bronchiseptica}
Probab=27.41  E-value=22  Score=13.26  Aligned_cols=36  Identities=3%  Similarity=0.065  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             998877654420397887899999999998741774
Q gi|254780353|r  454 LLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS  489 (753)
Q Consensus       454 L~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~  489 (753)
                      ......-++.||.++..++.++...+.++...++..
T Consensus        74 ~~~k~~lL~~IL~nDaeIR~Ll~prldeL~~l~~~~  109 (126)
T 3h3m_A           74 RGMKFDLLVRILENDAAVRDLALPQLARLSDLLGRM  109 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999869999999999999999999888


No 48 
>1fzc_C Fibrin; blood coagulation, plasma protein, crosslinking; HET: NAG MAN; 2.30A {Homo sapiens} SCOP: d.171.1.1 h.1.8.1 PDB: 1fzb_C* 1fza_C* 1fze_C* 1fzf_C* 1fzg_C* 3e1i_C* 2hlo_C* 1n8e_C 1n86_C* 2q9i_C* 2z4e_C* 2h43_C* 2hod_C* 2hpc_C* 3h32_C* 1re3_C* 1ltj_C* 1lt9_C* 1re4_C* 2ffd_C* ...
Probab=27.08  E-value=22  Score=13.22  Aligned_cols=42  Identities=7%  Similarity=0.116  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf             766678999988776544203978878999999999987417
Q gi|254780353|r  446 QIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFS  487 (753)
Q Consensus       446 kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfg  487 (753)
                      +++.+......+|..|+..|.........+.+++.++..+-.
T Consensus         8 ~~e~~i~~~~~~i~~l~~~~~~~~~~i~~l~~~i~~l~~~~~   49 (319)
T 1fzc_C            8 KYEASILTHDSSIRYLQEIYNSNNQKIVNLKEKVAQLEAQCQ   49 (319)
T ss_dssp             --CTTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999876999999999999999999999999999999874


No 49 
>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}
Probab=26.64  E-value=7.8  Score=16.64  Aligned_cols=58  Identities=19%  Similarity=0.301  Sum_probs=31.6

Q ss_pred             EECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHH
Q ss_conf             952420021689999999986402221345776406766058898504545889999987542
Q gi|254780353|r  270 VTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFML  332 (753)
Q Consensus       270 IteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~~vi~~~~r~~~~~~vl~~Lyk~  332 (753)
                      +++|| ++. .++.++|.+++++|+++.+.+++.+......- + ..=.+.-|... .+||+.
T Consensus        59 l~~ip-GIG-~~i~~kI~Eil~TG~l~~le~l~~~~~~~~~~-l-~~I~GvGpk~A-~~l~~~  116 (578)
T 2w9m_A           59 FTGIP-KVG-KGIAAELSDFARSGTFAPLEAAAGQLPPGLLD-L-LGVRGLGPKKI-RSLWLA  116 (578)
T ss_dssp             CCSST-TCC-HHHHHHHHHHHHHSSCHHHHHHHHHSCHHHHH-H-TTSTTCCHHHH-HHHHHT
T ss_pred             HHCCC-CCC-HHHHHHHHHHHHHCCCHHHHHHHCCCCHHHHH-H-HCCCCCCHHHH-HHHHHH
T ss_conf             73699-976-89999999999869868999986346177999-8-47898689999-999980


No 50 
>1a92_A Delta antigen; leucine zipper, coiled-coil, oligomerization, HDV; 1.80A {Hepatitis delta virus} SCOP: h.4.6.1 PDB: 1by0_A
Probab=26.06  E-value=23  Score=13.09  Aligned_cols=33  Identities=15%  Similarity=0.550  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999899998999999999999999999999999
Q gi|254780353|r  358 DGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKG  392 (753)
Q Consensus       358 ~eil~~f~~~R~~vi~rr~~~~L~k~~~RlhIleG  392 (753)
                      .++|..|++-|...  ...+-+|.|+++.+.-||-
T Consensus         3 EeiLeqWV~~Rk~~--eelEr~lRk~kkkikkLEd   35 (50)
T 1a92_A            3 EDILEQWVSGRKKL--EELERDLRKLKKKIKKLEE   35 (50)
T ss_dssp             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHC
T ss_conf             88999999988769--9999999999988887511


No 51 
>2r5u_A Replicative DNA helicase; DNAB, primase, replication, ATP-binding, autocatalytic cleavage, DNA replication, DNA-binding, endonuclease; 1.90A {Mycobacterium tuberculosis}
Probab=25.56  E-value=24  Score=13.03  Aligned_cols=36  Identities=17%  Similarity=0.241  Sum_probs=20.3

Q ss_pred             HCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCC
Q ss_conf             1677788999999999872865320134432036778
Q gi|254780353|r  190 SIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDF  226 (753)
Q Consensus       190 ~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDF  226 (753)
                      .+||||+.-=-.-+-.++.+|++ ..+.+..+.-=||
T Consensus        25 ~~~P~~~eaEkaVLg~lL~~~~~-~~~i~~~L~~edF   60 (200)
T 2r5u_A           25 RQPPQDLAAEQSVLGGMLLSKDA-IADVLERLRPGDF   60 (200)
T ss_dssp             -CCSCCHHHHHHHHHHHHHCHHH-HHHHHTTCCTTCC
T ss_pred             CCCCCCHHHHHHHHHHHHCCHHH-HHHHHHHCCHHHC
T ss_conf             99999899999999999949407-9999975799877


No 52 
>3oc4_A Oxidoreductase, pyridine nucleotide-disulfide FAM; structural genomics, PSI-2, protein structure initiative; HET: FAD; 2.60A {Enterococcus faecalis}
Probab=24.93  E-value=14  Score=14.85  Aligned_cols=10  Identities=0%  Similarity=0.275  Sum_probs=3.5

Q ss_pred             CCCCEEEEEC
Q ss_conf             4781789806
Q gi|254780353|r  559 TTDRILLLST  568 (753)
Q Consensus       559 t~d~LLffTs  568 (753)
                      +.+.+...-+
T Consensus       270 s~~~IyA~GD  279 (452)
T 3oc4_A          270 SVPNVFAIGD  279 (452)
T ss_dssp             SSTTEEECGG
T ss_pred             CCCCEEEEEC
T ss_conf             9899999979


No 53 
>1l1q_A Adenine phosphoribosyltransferase; aprtase, giardia lamblia, purine metabolism, catalytic loop; HET: 9DA; 1.85A {Giardia intestinalis} SCOP: c.61.1.1 PDB: 1l1r_A*
Probab=23.68  E-value=17  Score=14.11  Aligned_cols=29  Identities=10%  Similarity=0.170  Sum_probs=17.2

Q ss_pred             CCCCCEEEEEECCCCCCCHHHHHHHHHHHHHH
Q ss_conf             37884079995242002168999999998640
Q gi|254780353|r  261 VGRGSWCIVVTEIPYQVQKSRLIEKIAELIIA  292 (753)
Q Consensus       261 ~~~~~~~ivIteiPy~v~k~~~ie~I~~lv~~  292 (753)
                      +.+|.+.++|..+   +.+..=+....+++++
T Consensus       114 l~~G~rVLIVDDv---l~TGgT~~a~~~ll~~  142 (186)
T 1l1q_A          114 LGPHDVVLLHDDV---LATGGTLLAAIELCET  142 (186)
T ss_dssp             CCTTCCEEEEEEE---ESSSHHHHHHHHHHHH
T ss_pred             CCCCCEEEEEEEH---HHHCHHHHHHHHHHHH
T ss_conf             3789989999534---3316489999999998


No 54 
>1ldd_A APC2WHB, anaphase promoting complex; ubiquitin, ligase, ubiquitination, ring finger, winged-helix; 2.00A {Saccharomyces cerevisiae} SCOP: a.4.5.34
Probab=23.66  E-value=25  Score=12.78  Aligned_cols=23  Identities=17%  Similarity=0.226  Sum_probs=16.3

Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf             77775167778899999999987
Q gi|254780353|r  185 VGMATSIPSHNVQEICEAALALI  207 (753)
Q Consensus       185 vG~at~ipphnl~ev~~a~~~~i  207 (753)
                      +||-||.++-.+.-+..-+..++
T Consensus        14 ~GMLtN~~slpleRIh~mLkmfv   36 (74)
T 1ldd_A           14 EGMLTNLGAMKLHKIHSFLKITV   36 (74)
T ss_dssp             HHHHHHHCSEEHHHHHHHHHHHS
T ss_pred             HHHHHCCCCCCHHHHHHHHHHHC
T ss_conf             99997678787999999999875


No 55 
>2x5e_A UPF0271 protein PA4511; unknown function; HET: CIT; 2.30A {Pseudomonas aeruginosa}
Probab=23.32  E-value=26  Score=12.73  Aligned_cols=48  Identities=23%  Similarity=0.285  Sum_probs=34.4

Q ss_pred             CEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHCCC---CCCCCCCCCCCCCC
Q ss_conf             803540536665427688747899999996100132166---13267887088677
Q gi|254780353|r   71 AFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRY---PLISGQGNFGNIDG  123 (753)
Q Consensus        71 ~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~~~~~---pli~g~GnfGs~~~  123 (753)
                      ||.-||+|.-   | +| -||..+....|++|.......   |=.--.-|||-+.-
T Consensus        32 p~I~saNIAC---G-~H-AGD~~~m~~tv~lA~~~~V~IGAHPsypD~~gFGRr~~   82 (252)
T 2x5e_A           32 PLVDQANLAC---G-FH-AGDPLTMRRAVELAVRHGVSIGAHPAYPDLSGFGRRSL   82 (252)
T ss_dssp             GGCSEEEEEC---S-SS-SCCHHHHHHHHHHHHHTTCEEEEECCCSCTTTTTCSCC
T ss_pred             HHHHHHHHHC---C-CC-CCCHHHHHHHHHHHHHCCCEEECCCCCCCCCCCCCCCC
T ss_conf             6752588850---6-25-67999999999999985997836899876578999988


No 56 
>2o16_A Acetoin utilization protein ACUB, putative; structural genomics, unknown function, PSI-2, protein structure initiative; 1.90A {Vibrio cholerae} SCOP: d.37.1.1
Probab=23.20  E-value=19  Score=13.82  Aligned_cols=13  Identities=0%  Similarity=0.038  Sum_probs=7.2

Q ss_pred             CCCHHHHHHHHHH
Q ss_conf             2049999998999
Q gi|254780353|r  354 VMPLDGILKEWLA  366 (753)
Q Consensus       354 ~~~l~eil~~f~~  366 (753)
                      +.+..++|+.+.+
T Consensus       123 iVt~~Dil~~~~~  135 (160)
T 2o16_A          123 IITDSDFVTIAIN  135 (160)
T ss_dssp             EECHHHHHHHHHH
T ss_pred             EEEHHHHHHHHHH
T ss_conf             9999999999987


No 57 
>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}
Probab=22.70  E-value=27  Score=12.65  Aligned_cols=24  Identities=4%  Similarity=0.328  Sum_probs=18.4

Q ss_pred             CEEEEEECCCCCCCHHHHHHHHHH
Q ss_conf             407999524200216899999999
Q gi|254780353|r  265 SWCIVVTEIPYQVQKSRLIEKIAE  288 (753)
Q Consensus       265 ~~~ivIteiPy~v~k~~~ie~I~~  288 (753)
                      ..+|-|.-|||.++...|.+....
T Consensus        17 ~~~v~v~nLP~~~te~dI~~~F~~   40 (118)
T 2db1_A           17 GYVVKLRGLPWSCSIEDVQNFLSD   40 (118)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCCHHHHHHHHHH
T ss_conf             679999298985979999999874


No 58 
>1zn8_A APRT, adenine phosphoribosyltransferase; glycosyltransferase, polymorphism, purine salvage; HET: AMP; 1.76A {Homo sapiens} SCOP: c.61.1.1 PDB: 1ore_A* 1zn7_A* 1zn9_A*
Probab=22.66  E-value=18  Score=13.83  Aligned_cols=22  Identities=23%  Similarity=0.357  Sum_probs=10.7

Q ss_pred             CCCCCCCCHHHHHHHHHCCCCEEEEE
Q ss_conf             77601069889998985033415999
Q gi|254780353|r  228 TGGIIVESRESIVESYRLGRGGFRVR  253 (753)
Q Consensus       228 TGG~i~~~~~~i~~~y~tG~G~i~~r  253 (753)
                      ++|+++ +   ..=++..|.+-+.+|
T Consensus        66 ~~Gi~l-a---~~lA~~l~~p~v~~R   87 (180)
T 1zn8_A           66 SRGFLF-G---PSLAQELGLGCVLIR   87 (180)
T ss_dssp             TTHHHH-H---HHHHHHHTCEEEEEE
T ss_pred             CCCEEE-H---HHHHHHCCCCEEEEE
T ss_conf             664360-1---688997299828999


No 59 
>1b79_A DNAB helicase; hexamer, DNA replication, hydrolase; 2.30A {Escherichia coli} SCOP: a.81.1.1 PDB: 1jwe_A
Probab=22.01  E-value=27  Score=12.55  Aligned_cols=36  Identities=19%  Similarity=0.367  Sum_probs=22.6

Q ss_pred             HCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCCCC
Q ss_conf             1677788999999999872865320134432036778
Q gi|254780353|r  190 SIPSHNVQEICEAALALIDNPEISIEKLLEYIIGPDF  226 (753)
Q Consensus       190 ~ipphnl~ev~~a~~~~i~~~~~~~~~l~~~i~gPDF  226 (753)
                      +.||||+.-=-.-+-+++-+|++ ..++..++..-||
T Consensus        15 r~pP~~~eAE~~vLG~lL~~p~~-~~~v~~~l~~edF   50 (119)
T 1b79_A           15 KVPPHSIEAEQSVLGGLMLDNER-WDDVAERVVADDF   50 (119)
T ss_dssp             --CCCHHHHHHHHHHHHHHCGGG-HHHHHTTCCGGGS
T ss_pred             CCCCCCHHHHHHHHHHHHCCCCH-HHHHHHCCCHHHC
T ss_conf             79999889999999999918518-9999960499871


No 60 
>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, alternative splicing, amyloid, amyloidosis, blood coagulation, coiled coil; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*
Probab=21.53  E-value=28  Score=12.48  Aligned_cols=12  Identities=25%  Similarity=0.620  Sum_probs=4.4

Q ss_pred             CCCCCHHHHHHH
Q ss_conf             722049999998
Q gi|254780353|r  352 PQVMPLDGILKE  363 (753)
Q Consensus       352 P~~~~l~eil~~  363 (753)
                      |-=|-|+++|+.
T Consensus        46 ~~~c~~~~~~~~   57 (562)
T 3ghg_A           46 PSGCRMKGLIDE   57 (562)
T ss_dssp             ECHHHHHHHHHH
T ss_pred             CCCHHHHHHHHH
T ss_conf             861015678988


No 61 
>2cdu_A NADPH oxidase; flavoenzyme, oxidoreductase; HET: FAD ADP; 1.8A {Lactobacillus sanfranciscensis}
Probab=21.42  E-value=28  Score=12.47  Aligned_cols=10  Identities=10%  Similarity=0.182  Sum_probs=3.6

Q ss_pred             CCCCEEEEEC
Q ss_conf             4781789806
Q gi|254780353|r  559 TTDRILLLST  568 (753)
Q Consensus       559 t~d~LLffTs  568 (753)
                      +++.+...-+
T Consensus       273 s~~~IyA~GD  282 (452)
T 2cdu_A          273 SNRDIFAAGD  282 (452)
T ss_dssp             SSTTEEECST
T ss_pred             CCCCEEEECC
T ss_conf             9999999337


No 62 
>3fxd_A Protein ICMQ; helix bundle, helix-turn-helix, unknown function; 2.10A {Legionella pneumophila str} PDB: 3fxe_A
Probab=21.34  E-value=28  Score=12.46  Aligned_cols=45  Identities=20%  Similarity=0.198  Sum_probs=29.1

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             5775778899887899998899997666789999887765442039788789999999999874177
Q gi|254780353|r  422 SLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSK  488 (753)
Q Consensus       422 ~lse~QA~aIL~mrL~rLt~le~~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd  488 (753)
                      .||+.|++|||.-                   |.+-|+   .===+++.-+++|-+-|.++.+.|..
T Consensus         4 ~l~~eq~~aILka-------------------LdeaIe---~GPWe~SnFLRvIGKnL~eIRd~F~~   48 (57)
T 3fxd_A            4 QLSDEQKETILKA-------------------LNDAIE---KGPWDKSNFLRVIGKKLIAIRDRFLK   48 (57)
T ss_dssp             CCCHHHHHHHHHH-------------------HHHHHH---HSCTTSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-------------------HHHHHH---CCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             4329999999999-------------------999998---29834888999998889999999999


No 63 
>2dy0_A APRT, adenine phosphoribosyltransferase; structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.25A {Escherichia coli K12}
Probab=21.15  E-value=26  Score=12.71  Aligned_cols=46  Identities=20%  Similarity=0.229  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEEE
Q ss_conf             8999999999872865320134432036778877601069889998985033415999
Q gi|254780353|r  196 VQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVR  253 (753)
Q Consensus       196 l~ev~~a~~~~i~~~~~~~~~l~~~i~gPDFPTGG~i~~~~~~i~~~y~tG~G~i~~r  253 (753)
                      +.++++.+...+.+.++      .+|-|  .+++|+++    +-.=++..|.+-+.+|
T Consensus        48 ~~~v~~~la~~~~~~~~------D~Iv~--~e~~Gi~l----a~~lA~~l~~p~v~~R   93 (190)
T 2dy0_A           48 YALSIDLLVERYKNAGI------TKVVG--TEARGFLF----GAPVALGLGVGFVPVR   93 (190)
T ss_dssp             HHHHHHHHHHHHTTTTC------CEEEE--ETTHHHHH----HHHHHHHHTCEEEEEB
T ss_pred             HHHHHHHHHHHHCCCCC------CEEEE--CCCCCCHH----HHHHHHHCCCCEEEEE
T ss_conf             99999999998406899------99997--35343120----6899997599869875


No 64 
>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A
Probab=21.13  E-value=28  Score=12.43  Aligned_cols=62  Identities=11%  Similarity=0.190  Sum_probs=28.2

Q ss_pred             CEEEEEECCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHCCCCCEE-EEEEEECCCCCHHHHHHHH
Q ss_conf             4079995242002168999999998640222134577640676605-8898504545889999987
Q gi|254780353|r  265 SWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDVR-IVLFPKNRSLDPDLLMESI  329 (753)
Q Consensus       265 ~~~ivIteiPy~v~k~~~ie~I~~lv~~~ki~gi~dirDeSd~~~~-~vi~~~~r~~~~~~vl~~L  329 (753)
                      ...|.|..||+.++...+.+--..   -+.+.-+.=.+|..+...+ ..++.-....+++..++.|
T Consensus        88 ~~~i~v~nl~~~~~~~~i~~~f~~---~G~i~~~~i~~~~~~~~~~g~afV~F~~~~~A~~A~~~l  150 (167)
T 1fxl_A           88 DANLYVSGLPKTMTQKELEQLFSQ---YGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL  150 (167)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGG---GSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHH---CCCCCEEEEEECCCCCCCCCCEEEEECCHHHHHHHHHHH
T ss_conf             867999477787999999999987---598242788404888985785699979999999999997


No 65 
>1v6t_A Hypothetical UPF0271 protein PH0986; TIM-barrel, lactam utilization protein, structural genomics; 1.70A {Pyrococcus horikoshii OT3} SCOP: c.6.2.5
Probab=20.61  E-value=29  Score=12.35  Aligned_cols=47  Identities=30%  Similarity=0.328  Sum_probs=34.4

Q ss_pred             CEEEEEHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHCCC---CCCCCCCCCCCCC
Q ss_conf             803540536665427688747899999996100132166---1326788708867
Q gi|254780353|r   71 AFKKSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRY---PLISGQGNFGNID  122 (753)
Q Consensus        71 ~~~K~ar~vg~v~gkyhPHGd~s~y~a~v~maq~~~~~~---pli~g~GnfGs~~  122 (753)
                      ||.-||+|.-   | +| -||..+....|++|..+....   |=..-.-|||-+.
T Consensus        26 p~I~saNIAC---G-~H-AGD~~~m~~tv~lA~~~~V~IGAHPsypD~~gFGRr~   75 (255)
T 1v6t_A           26 KYITSANVAC---G-WH-AGDPLVMRKTVRLAKENDVQVGAHPGYPDLMGFGRRY   75 (255)
T ss_dssp             TTCSEEEEEC---S-SS-SCCHHHHHHHHHHHHHTTCEEEEECCCSCTTTTTCSC
T ss_pred             HHHHHHHHHC---C-CC-CCCHHHHHHHHHHHHHCCCEEECCCCCCCCCCCCCCC
T ss_conf             6753588850---7-35-6779999999999998498782689977657999998


No 66 
>3l4f_A RHO guanine nucleotide exchange factor 7; coiled-coil, PDZ, guanine-nucleotide releasing factor, phosphoprotein, SH3 domain; 2.80A {Rattus norvegicus}
Probab=20.40  E-value=29  Score=12.32  Aligned_cols=45  Identities=18%  Similarity=0.359  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             976667899998877654420397887899999999998741774
Q gi|254780353|r  445 YQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS  489 (753)
Q Consensus       445 ~kl~~E~~eL~~~i~~L~~IL~s~~~l~~iI~~EL~eikkkfgd~  489 (753)
                      -.+.+|..+|+++-+.++.-|.++.+-++-+-.-+..+.+.+.+|
T Consensus        10 YaLkDqV~eL~~e~krlkk~leeEqkARk~LE~~vrk~lk~~~d~   54 (61)
T 3l4f_A           10 YALKDEVQELRQDNKKMKKSLEEEQRARKDLEKLVRKVLKNMNDP   54 (61)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             999999999999999999888899999999999999999870678


No 67 
>2yqu_A 2-oxoglutarate dehydrogenase E3 component; lipoamide dehydrogenase, 2-oxoglutarate dehydrogenase complex; HET: FAD; 1.70A {Thermus thermophilus HB8} PDB: 2eq7_A*
Probab=20.30  E-value=23  Score=13.10  Aligned_cols=14  Identities=7%  Similarity=0.207  Sum_probs=5.9

Q ss_pred             HCCCCCCCCCCCCC
Q ss_conf             21661326788708
Q gi|254780353|r  106 VQRYPLISGQGNFG  119 (753)
Q Consensus       106 ~~~~pli~g~GnfG  119 (753)
                      ..+..||+.+..+|
T Consensus        24 g~~V~liEk~~~~G   37 (455)
T 2yqu_A           24 GMKVGVVEKEKALG   37 (455)
T ss_dssp             TCCEEEEESSSSSS
T ss_pred             CCCEEEEECCCCCC
T ss_conf             89099996489966


No 68 
>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A
Probab=20.10  E-value=30  Score=12.27  Aligned_cols=24  Identities=4%  Similarity=0.278  Sum_probs=18.7

Q ss_pred             CCEEEEEECCCCCCCHHHHHHHHH
Q ss_conf             840799952420021689999999
Q gi|254780353|r  264 GSWCIVVTEIPYQVQKSRLIEKIA  287 (753)
Q Consensus       264 ~~~~ivIteiPy~v~k~~~ie~I~  287 (753)
                      ..+.|.|.-|||.++...+.+-..
T Consensus        43 ~~~~v~V~nLp~~~t~~dl~~~F~   66 (136)
T 2hgl_A           43 EGFVVKLRGLPWSCSVEDVQNFLS   66 (136)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCCHHHHHHHHH
T ss_conf             716999959897599999999974


Done!