Query         gi|254780913|ref|YP_003065326.1| cold shock protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 78
No_of_seqs    112 out of 2159
Neff          6.0 
Searched_HMMs 13730
Date          Wed Jun  1 10:41:26 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780913.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d1mjca_ b.40.4.5 (A:) Major co  99.9   6E-23 4.3E-27  146.5   8.0   67    2-73      3-69  (69)
  2 d1c9oa_ b.40.4.5 (A:) Major co  99.9 5.2E-23 3.8E-27  146.8   7.6   66    2-73      1-66  (66)
  3 d1h95a_ b.40.4.5 (A:) Y-box pr  99.9 2.4E-22 1.8E-26  143.1   6.3   65    3-72      9-77  (79)
  4 d1g6pa_ b.40.4.5 (A:) Major co  99.8 5.3E-22 3.9E-26  141.2   6.3   66    3-74      1-66  (66)
  5 d1wfqa_ b.40.4.5 (A:) Cold sho  99.7   5E-18 3.6E-22  119.0   8.1   71    1-77     17-87  (89)
  6 d2ix0a2 b.40.4.5 (A:4-82) Exor  97.5 5.9E-05 4.3E-09   46.0   5.1   59    4-75     20-78  (79)
  7 d1a62a2 b.40.4.5 (A:48-125) Rh  96.1  0.0046 3.4E-07   35.5   5.2   59   13-74     12-73  (78)
  8 d2ix0a1 b.40.4.5 (A:83-172) Ex  94.2    0.17 1.3E-05   26.7   9.1   67    7-77      5-73  (90)
  9 d1sroa_ b.40.4.5 (A:) S1 RNA-b  86.7    0.29 2.1E-05   25.4   3.5   57    2-64      8-68  (76)
 10 d1kl9a2 b.40.4.5 (A:3-88) Euka  75.4     2.6 0.00019   20.1   6.1   54    3-61     17-75  (86)
 11 d1wi5a_ b.40.4.5 (A:) S1-domai  71.9     3.2 0.00023   19.6   6.3   59    1-64     23-86  (119)
 12 d2ahob2 b.40.4.5 (B:1-84) Euka  69.5       3 0.00022   19.8   4.2   55    2-61     14-73  (84)
 13 d2ba0a1 b.40.4.5 (A:53-135) S1  67.0     4.1  0.0003   19.0   5.7   56    3-64      9-69  (83)
 14 d2z0sa1 b.40.4.5 (A:60-147) S1  63.7     4.8 0.00035   18.6   5.0   62    3-73     11-80  (88)
 15 d1smxa_ b.40.4.5 (A:) S1-domai  62.8       5 0.00036   18.6   6.5   58    3-64      4-74  (87)
 16 d1e3pa2 b.40.4.5 (A:656-717) S  62.8     0.4 2.9E-05   24.7  -1.4   53    5-63      1-61  (62)
 17 d1go3e1 b.40.4.5 (E:79-184) C-  61.6     5.2 0.00038   18.4   6.0   51    3-60      7-72  (106)
 18 d2je6i1 b.40.4.5 (I:66-152) S1  61.4     4.9 0.00036   18.6   4.0   56    3-64     11-73  (87)
 19 d3bzka4 b.40.4.5 (A:637-730) T  55.9     6.6 0.00048   17.9   5.0   54    3-62     22-79  (94)
 20 d1gpra_ b.84.3.1 (A:) Glucose   46.4     9.5 0.00069   17.0   4.8   45    4-53     54-104 (158)
 21 d1y14b1 b.40.4.5 (B:81-171) C-  45.0      10 0.00073   16.9   6.0   49    4-59      8-70  (91)
 22 d2gpra_ b.84.3.1 (A:) Glucose   39.7      12 0.00089   16.4   4.2   45    4-53     52-102 (154)
 23 d2nn6g1 b.40.4.5 (G:107-194) S  38.8      13 0.00092   16.3   4.7   54    5-64     12-68  (88)
 24 d1wf2a_ d.58.7.1 (A:) Heteroge  35.1     9.8 0.00071   16.9   2.1   47    3-57     39-85  (98)
 25 d2nn6h1 b.40.4.5 (H:73-167) S1  33.3      16  0.0011   15.8   2.9   56    3-64     12-81  (95)
 26 d2c35b1 b.40.4.5 (B:78-171) C-  30.5      17  0.0013   15.5   4.9   48    4-58      9-72  (94)
 27 d2vnud1 b.40.4.5 (D:400-494) E  29.2      18  0.0013   15.4   7.1   60   11-78     17-77  (95)
 28 d2fura1 b.45.1.1 (A:16-208) Hy  28.8      13 0.00093   16.3   1.8   52    5-59     19-70  (193)
 29 d1uwva1 b.40.4.12 (A:15-74) rR  28.1      19  0.0014   15.3   4.0   55    6-77      6-60  (60)
 30 d1x4ga1 d.58.7.1 (A:8-103) Nuc  27.3      19  0.0014   15.3   2.6   19    5-23     43-63  (96)
 31 d1t9ha1 b.40.4.5 (A:1-67) Prob  25.2      22  0.0016   15.0   6.7   64    2-75      1-66  (67)
 32 d2f3ga_ b.84.3.1 (A:) Glucose-  22.0      25  0.0018   14.6   4.8   45    4-53     46-96  (150)
 33 d1x0fa1 d.58.7.1 (A:183-257) N  20.2      18  0.0013   15.4   1.3   13   11-23     38-50  (75)

No 1  
>d1mjca_ b.40.4.5 (A:) Major cold shock protein {Escherichia coli [TaxId: 562]}
Probab=99.87  E-value=6e-23  Score=146.50  Aligned_cols=67  Identities=39%  Similarity=0.720  Sum_probs=60.2

Q ss_pred             CCCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEEECCCCCCCCCEEEEEC
Q ss_conf             877627751468874658854887788379999500023588446899889999998699971110599963
Q gi|254780913|r    2 VHRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAGLFNLTEGQLVTYDYVQNDANGKYSAENLKLV   73 (78)
Q Consensus         2 m~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~~~l~~G~~V~F~i~~~~~~gk~~A~~v~~i   73 (78)
                      ..+|+|||||.+||||||+||   ++++|||||+|+|+..+++.|.+||+|+|++.+++++  ++|.||+.|
T Consensus         3 r~~G~Vk~f~~~kGfGFI~~d---~g~~diFvH~s~l~~~~~~~L~~G~~V~f~~~~~~~G--~~A~~V~~l   69 (69)
T d1mjca_           3 KMTGIVKWFNADKGFGFITPD---DGSKDVFVHFSAIQNDGYKSLDEGQKVSFTIESGAKG--PAAGNVTSL   69 (69)
T ss_dssp             CEEEEEEEEETTTTEEEEEET---TSCCCEEEEGGGBCCTTTCCCCTTCEEEEEEECCSSS--CEEEEEEEC
T ss_pred             CEEEEEEEEECCCCEEEEEEC---CCCCCEEEEHHHHCCCCCCCCCCCCEEEEEEEECCCC--CEEEEEEEC
T ss_conf             788999999399997999976---8983299995890522798689999999999959899--677879949


No 2  
>d1c9oa_ b.40.4.5 (A:) Major cold shock protein {Bacillus caldolyticus [TaxId: 1394]}
Probab=99.87  E-value=5.2e-23  Score=146.85  Aligned_cols=66  Identities=42%  Similarity=0.808  Sum_probs=59.9

Q ss_pred             CCCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEEECCCCCCCCCEEEEEC
Q ss_conf             877627751468874658854887788379999500023588446899889999998699971110599963
Q gi|254780913|r    2 VHRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAGLFNLTEGQLVTYDYVQNDANGKYSAENLKLV   73 (78)
Q Consensus         2 m~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~~~l~~G~~V~F~i~~~~~~gk~~A~~v~~i   73 (78)
                      |++|+|||||++||||||++|    +|+|||+|+|+|+.++++.|.+|++|+|++.+++++  ++|.+|+.|
T Consensus         1 M~~G~Vk~fn~~kGfGFI~~d----~g~DiF~H~s~l~~~~~~~L~~G~~V~f~~~~~~~G--~~A~~V~~l   66 (66)
T d1c9oa_           1 MQRGKVKWFNNEKGYGFIEVE----GGSDVFVHFTAIQGEGFKTLEEGQEVSFEIVQGNRG--PQAANVVKL   66 (66)
T ss_dssp             CEEEEEEEEETTTTEEEEEET----TEEEEEEEGGGBCSSSCCCCCTTCEEEEEEEEETTE--EEEEEEEEC
T ss_pred             CCCEEEEEEECCCCEEEEEEC----CCCEEEEEEHHCCCCCCCCCCCCCEEEEEEEECCCC--CEEEEEEEC
T ss_conf             998199999799998999866----993399990462613687689999999999989999--797888979


No 3  
>d1h95a_ b.40.4.5 (A:) Y-box protein 1 cold shock domain (YB1-CSD) {Human (Homo sapiens) [TaxId: 9606]}
Probab=99.85  E-value=2.4e-22  Score=143.09  Aligned_cols=65  Identities=32%  Similarity=0.695  Sum_probs=56.8

Q ss_pred             CCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCC----CCCCCCCCEEEEEEEECCCCCCCCCEEEEE
Q ss_conf             7762775146887465885488778837999950002358----844689988999999869997111059996
Q gi|254780913|r    3 HRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAG----LFNLTEGQLVTYDYVQNDANGKYSAENLKL   72 (78)
Q Consensus         3 ~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g----~~~l~~G~~V~F~i~~~~~~gk~~A~~v~~   72 (78)
                      .+|+|||||.+||||||+||   ++++|||||+|+|+..+    +++|.+||+|+|++.+++++  ++|.||+.
T Consensus         9 ~~G~VKwfn~~KGfGFI~~d---dg~~DvFvH~s~i~~~g~~~~~~~L~~G~~V~f~~~~~~~G--~~A~~Vtg   77 (79)
T d1h95a_           9 VLGTVKWFNVRNGYGFINRN---DTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDVVEGEKG--AEAANVTG   77 (79)
T ss_dssp             EEEEEEEEETTTTEEEEEEG---GGTEEEEEEGGGBCSCCCSCCSCSCCSSCEEEEEEEECSSS--EEEESBCC
T ss_pred             CCEEEEEECCCCCEEEEEEC---CCCCCEEEEHHHCCCCCCCCEEEECCCCCEEEEEEEECCCC--CEEEEEEC
T ss_conf             55799998199996999878---99864899916710479851151169999999999969999--76388767


No 4  
>d1g6pa_ b.40.4.5 (A:) Major cold shock protein {Thermotoga maritima [TaxId: 2336]}
Probab=99.85  E-value=5.3e-22  Score=141.20  Aligned_cols=66  Identities=41%  Similarity=0.806  Sum_probs=59.0

Q ss_pred             CCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEEECCCCCCCCCEEEEECC
Q ss_conf             776277514688746588548877883799995000235884468998899999986999711105999635
Q gi|254780913|r    3 HRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAGLFNLTEGQLVTYDYVQNDANGKYSAENLKLVP   74 (78)
Q Consensus         3 ~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~~~l~~G~~V~F~i~~~~~~gk~~A~~v~~i~   74 (78)
                      .+|+|||||++||||||+++    +|+|||+|+|+|+.+++++|.+|++|+|++.+++++  ++|.+|++|.
T Consensus         1 l~G~Vk~f~~~kGfGFI~~~----~g~diFvH~s~l~~~g~~~l~~G~~V~f~~~~~~~G--~~A~~V~~id   66 (66)
T d1g6pa_           1 MRGKVKWFDSKKGYGFITKD----EGGDVFVHWSAIEMEGFKTLKEGQVVEFEIQEGKKG--PQAAHVKVVE   66 (66)
T ss_dssp             CCEEEEEEETTTTEEEEEET----TSCBCBBCSSSSCCSSCCCCCSSSEEEEEEECSSSC--CEEEEEEEEC
T ss_pred             CEEEEEEEECCCCEEEEEEC----CCCEEEEEHHHHCCCCCCCCCCCCEEEEEEEECCCC--CEEEEEEECC
T ss_conf             91899999699986189766----996199993781324798689999999999989899--7999999549


No 5  
>d1wfqa_ b.40.4.5 (A:) Cold shock domain protein E1 (UNR) {Human (Homo sapiens) [TaxId: 9606]}
Probab=99.73  E-value=5e-18  Score=119.02  Aligned_cols=71  Identities=27%  Similarity=0.367  Sum_probs=61.9

Q ss_pred             CCCCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEEECCCCCCCCCEEEEECCCCC
Q ss_conf             98776277514688746588548877883799995000235884468998899999986999711105999635788
Q gi|254780913|r    1 MVHRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAGLFNLTEGQLVTYDYVQNDANGKYSAENLKLVPKSS   77 (78)
Q Consensus         1 mm~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~~~l~~G~~V~F~i~~~~~~gk~~A~~v~~i~~~~   77 (78)
                      ++.+|+|+||+  +|||||+++   ++++|||+|+|++. .+++.|.+||+|+|++.++++++|++|++|..++.-+
T Consensus        17 ~r~~G~I~~~~--~gfGFI~~~---~~~~dvF~H~s~~~-~~~~~l~~G~~VeF~v~~~~kg~k~~Av~V~~~~~p~   87 (89)
T d1wfqa_          17 LRETGVIEKLL--TSYGFIQCS---ERQARLFFHCSQYN-GNLQDLKVGDDVEFEVSSDRRTGKPIAVKLVKISGPS   87 (89)
T ss_dssp             CEEEEEEEEEC--SSEEEEEET---TTTEEEEEETTTCS-SCTTTCCTTCCEEEEEEECSSSCCEEEEEEEESSCCC
T ss_pred             CEEEEEEEEEC--CCCCEEEEC---CCCCEEEEEEEHHH-CCCCCCCCCCEEEEEEEECCCCCCEEEEEEEECCCCC
T ss_conf             06779998955--741048718---99845999952200-4678546787999999989989925889988788899


No 6  
>d2ix0a2 b.40.4.5 (A:4-82) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]}
Probab=97.52  E-value=5.9e-05  Score=46.05  Aligned_cols=59  Identities=22%  Similarity=0.376  Sum_probs=44.3

Q ss_pred             CCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEEECCCCCCCCCEEEEECCC
Q ss_conf             762775146887465885488778837999950002358844689988999999869997111059996357
Q gi|254780913|r    4 RGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAGLFNLTEGQLVTYDYVQNDANGKYSAENLKLVPK   75 (78)
Q Consensus         4 ~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~~~l~~G~~V~F~i~~~~~~gk~~A~~v~~i~~   75 (78)
                      +|++.-  ..+||||+.||+    ++|||+....+..     .-.|++|...+.  ..++|+.+.-+++|+.
T Consensus        20 ~G~i~~--~~~G~GFv~~d~----~~DifI~~~~~~~-----A~~GD~V~v~i~--~~~~r~eg~I~~ilE~   78 (79)
T d2ix0a2          20 EGVVKA--TEKGFGFLEVDA----QKSYFIPPPQMKK-----VMHGDRIIAVIH--SEKERESAEPEELVEP   78 (79)
T ss_dssp             EEEEEC--CC--CEEEEEET----TEEEEECHHHHTT-----CCTTCEEEEEEE--CC--CCEEEEEEEEEC
T ss_pred             EEEEEE--ECCCCEEEEECC----CCCEEECHHHHCC-----CCCCCEEEEEEE--ECCCCEEEEEEEEECC
T ss_conf             999999--579858998789----9748979799867-----889999999999--5799678999999657


No 7  
>d1a62a2 b.40.4.5 (A:48-125) Rho termination factor, RNA-binding domain {Escherichia coli [TaxId: 562]}
Probab=96.09  E-value=0.0046  Score=35.48  Aligned_cols=59  Identities=15%  Similarity=0.351  Sum_probs=39.9

Q ss_pred             CCCEEEEEE--CCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEEECCCCCC-CCCEEEEECC
Q ss_conf             887465885--4887788379999500023588446899889999998699971-1105999635
Q gi|254780913|r   13 DKGYGFITP--EGSTESGDDVFLHRSAVASAGLFNLTEGQLVTYDYVQNDANGK-YSAENLKLVP   74 (78)
Q Consensus        13 ~kGfGFI~~--d~~~d~g~DvFvH~s~i~~~g~~~l~~G~~V~F~i~~~~~~gk-~~A~~v~~i~   74 (78)
                      ..|||||..  .+..-+-.||||..|.|+..+   |+.|+.|+=.+.....+-| ++...|..+.
T Consensus        12 ~dGyGFLR~~~~~y~~~~~DiyVs~s~Irrfg---LR~GD~V~G~vr~p~~~ek~~~L~~V~~VN   73 (78)
T d1a62a2          12 QDGFGFLRSADSSYLAGPDDIYVSPSQIRRFN---LRTGDTISGKIRPPKEGERYFALLKVNEVN   73 (78)
T ss_dssp             TTSCEEEECGGGTTCCCTTCEEECHHHHHHTT---CCTTCEEEEEEECCCTTCCSEEEEEEEEET
T ss_pred             CCCCEEEECCCCCCCCCCCCEEECHHHHHHHC---CCCCCEEEEEEECCCCCCCCEEEEEEEEEC
T ss_conf             89828958886577988761677999999829---986758999888898888751058996467


No 8  
>d2ix0a1 b.40.4.5 (A:83-172) Exoribonuclease 2, RNB {Escherichia coli [TaxId: 562]}
Probab=94.16  E-value=0.17  Score=26.71  Aligned_cols=67  Identities=10%  Similarity=0.071  Sum_probs=47.1

Q ss_pred             EEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEEECC-CCCC-CCCEEEEECCCCC
Q ss_conf             775146887465885488778837999950002358844689988999999869-9971-1105999635788
Q gi|254780913|r    7 IKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAGLFNLTEGQLVTYDYVQND-ANGK-YSAENLKLVPKSS   77 (78)
Q Consensus         7 VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~~~l~~G~~V~F~i~~~~-~~gk-~~A~~v~~i~~~~   77 (78)
                      |=.|-..+|++|+.||+.. =..|||+--...   +....++||.|..++.+-+ ++.+ ++|.-+++|..+.
T Consensus         5 VGr~~~~~~~~fVvPd~~r-i~~~I~I~~~~~---~~~~ak~Gd~Vvvei~~~P~~~~~~~~g~I~evlG~~~   73 (90)
T d2ix0a1           5 VGKVQGKNDRLAIVPDHPL-LKDAIPCRAARG---LNHEFKEGDWAVAEMRRHPLKGDRSFYAELTQYITFGD   73 (90)
T ss_dssp             EEEEESCSSSEEEEESCTT-CCSCEEEEECTT---CCCCCCTTCEEEEEEEECGGGTCSSCEEEEEEECCCTT
T ss_pred             EEEEEEECCEEEEEECCCC-CCCCCCCCCCCC---CCCCCCCCCEEEEEEEECCCCCCCCCEEEEEEEEECCC
T ss_conf             9999996998999859985-366441264324---45567899799999976887789986589989873489


No 9  
>d1sroa_ b.40.4.5 (A:) S1 RNA-binding domain of polyribonucleotide phosphorylase, PNPase {Escherichia coli [TaxId: 562]}
Probab=86.73  E-value=0.29  Score=25.42  Aligned_cols=57  Identities=23%  Similarity=0.325  Sum_probs=39.8

Q ss_pred             CCCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCCC----CCCCCCCEEEEEEEECCCCCC
Q ss_conf             877627751468874658854887788379999500023588----446899889999998699971
Q gi|254780913|r    2 VHRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAGL----FNLTEGQLVTYDYVQNDANGK   64 (78)
Q Consensus         2 m~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~----~~l~~G~~V~F~i~~~~~~gk   64 (78)
                      ..+|+|+-..+   ||....-   .++.+-|+|.|.+.....    ..+..||.|++.+..-++.+|
T Consensus         8 iv~G~V~~v~~---~G~fV~l---~~~~~Glv~~sels~~~~~~~~~~~~~G~~v~v~Vi~id~~~r   68 (76)
T d1sroa_           8 VYTGKVTRIVD---FGAFVAI---GGGKEGLVHISQIADKRVEKVTDYLQMGQEVPVKVLEVDRQGR   68 (76)
T ss_dssp             EEEEEEEEEET---TEEEEEC---SSSCCCBCCTTSSCSSCCSCHHHHCCTTCEEEEEEEECCTTCC
T ss_pred             EEEEEEEEEEC---CEEEEEE---CCCCEEEEEHHHHCCCCCCCHHHCCCCCCEEEEEEEEECCCCC
T ss_conf             99999999967---6799995---7897899872772766547987812899999999999999998


No 10 
>d1kl9a2 b.40.4.5 (A:3-88) Eukaryotic initiation factor 2alpha, eIF2alpha, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}
Probab=75.44  E-value=2.6  Score=20.11  Aligned_cols=54  Identities=7%  Similarity=-0.013  Sum_probs=35.9

Q ss_pred             CCCEEEEEECCCCEE-EEEECCCCCCCCEEEEEEEECCCCC----CCCCCCCCEEEEEEEECCC
Q ss_conf             776277514688746-5885488778837999950002358----8446899889999998699
Q gi|254780913|r    3 HRGSIKWYNPDKGYG-FITPEGSTESGDDVFLHRSAVASAG----LFNLTEGQLVTYDYVQNDA   61 (78)
Q Consensus         3 ~~G~VKwfn~~kGfG-FI~~d~~~d~g~DvFvH~s~i~~~g----~~~l~~G~~V~F~i~~~~~   61 (78)
                      .+|+|.-..   -|| ||..+.  .++-+-|+|.|.|....    ...+..||.|...+..-+.
T Consensus        17 v~G~V~~i~---~~G~fV~l~~--~~~i~G~i~~sels~~~~~~~~~~~~~Gd~v~~kV~~vd~   75 (86)
T d1kl9a2          17 VMVNVRSIA---EMGAYVSLLE--YNNIEGMILLSELSRRRIRSINKLIRIGRNECVVVIRVDK   75 (86)
T ss_dssp             EEEEEEEEC---SSEEEEEETT--TTTEEEEEEGGGC------------CTTCEEEEEEEEEET
T ss_pred             EEEEEEEEE---CCEEEEEEEC--CCCEEEEEEEEECCCCCCCCCEEEEECCCEEEEEEEEEEC
T ss_conf             999999995---8858999833--7998999985110545455621775055479999999989


No 11 
>d1wi5a_ b.40.4.5 (A:) S1-domain of RRP5 protein homolog (PDCD11, KIAA0185) {Human (Homo sapiens) [TaxId: 9606]}
Probab=71.94  E-value=3.2  Score=19.62  Aligned_cols=59  Identities=20%  Similarity=0.271  Sum_probs=40.2

Q ss_pred             CCCCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCC-----CCCCCCCCCCEEEEEEEECCCCCC
Q ss_conf             9877627751468874658854887788379999500023-----588446899889999998699971
Q gi|254780913|r    1 MVHRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVAS-----AGLFNLTEGQLVTYDYVQNDANGK   64 (78)
Q Consensus         1 mm~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~-----~g~~~l~~G~~V~F~i~~~~~~gk   64 (78)
                      |..+|+|+-..   -||++..-+  ..+-+=|+|++.+..     .....+..||.|.+.+..-+...+
T Consensus        23 ~iv~G~V~~i~---~~G~~V~lg--~~~~~G~l~~~els~~~~~~~~~~~~~vGq~v~~~V~~vd~~~~   86 (119)
T d1wi5a_          23 MLLTGTVSSLE---DHGYLVDIG--VDGTRAFLPLLKAQEYIRQKNKGAKLKVGQYLNCIVEKVKGNGG   86 (119)
T ss_dssp             CEEEEEEEEEC---SSEEEEECC--CSSCEEEEEHHHHHHHHHHHSSSCCCCTTCEEEEEEEECCTTSC
T ss_pred             CEEEEEEEEEE---CCEEEEEEE--CCCCCEEEEHHHHCCCCCCCCHHHHCCCCEEEEEEEEEEECCCC
T ss_conf             88999999871---418999984--26655287699932121338987943454699999999808997


No 12 
>d2ahob2 b.40.4.5 (B:1-84) Eukaryotic initiation factor 2alpha, eIF2alpha, N-terminal domain {Sulfolobus solfataricus [TaxId: 2287]}
Probab=69.55  E-value=3  Score=19.78  Aligned_cols=55  Identities=24%  Similarity=0.218  Sum_probs=36.6

Q ss_pred             CCCCEEEEEECCCCEEE-EEECCCCCCCCEEEEEEEECCCCC----CCCCCCCCEEEEEEEECCC
Q ss_conf             87762775146887465-885488778837999950002358----8446899889999998699
Q gi|254780913|r    2 VHRGSIKWYNPDKGYGF-ITPEGSTESGDDVFLHRSAVASAG----LFNLTEGQLVTYDYVQNDA   61 (78)
Q Consensus         2 m~~G~VKwfn~~kGfGF-I~~d~~~d~g~DvFvH~s~i~~~g----~~~l~~G~~V~F~i~~~~~   61 (78)
                      ..+|+|+-..+   ||. |..+.  .++-+-|+|.|.+....    ...+..||.|.+.+..-+.
T Consensus        14 iv~G~V~~v~~---~G~fV~l~~--~~gi~Gli~~sels~~~~~~~~~~~~~G~~v~~kV~~vd~   73 (84)
T d2ahob2          14 ILIATVKQVFD---YGSYVSLDE--YGGLQAFLPWSEVSSKWVKNIRDVLKENRKVIVKVIRVDR   73 (84)
T ss_dssp             CCEEEEEEEET---TEEEEEETT--TTTEEEEECGGGCC-----CHHHHTCSSCEEECEEEEEET
T ss_pred             EEEEEEEEEEC---CEEEEEECC--CCCEEEEEECCCCCCCCCCCCCEEEECCCEEEEEEEEEEC
T ss_conf             99999999979---878999777--6987999974342542035640575113379999999989


No 13 
>d2ba0a1 b.40.4.5 (A:53-135) S1-domain of exosome complex RNA-binding protein 1, ECR1 {Archaeoglobus fulgidus [TaxId: 2234]}
Probab=67.01  E-value=4.1  Score=19.01  Aligned_cols=56  Identities=20%  Similarity=0.076  Sum_probs=36.7

Q ss_pred             CCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCC-----CCCCCCCCEEEEEEEECCCCCC
Q ss_conf             7762775146887465885488778837999950002358-----8446899889999998699971
Q gi|254780913|r    3 HRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAG-----LFNLTEGQLVTYDYVQNDANGK   64 (78)
Q Consensus         3 ~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g-----~~~l~~G~~V~F~i~~~~~~gk   64 (78)
                      -+|+|+--.+   ||....-   .++-+-|+|.|.+....     ...++.||.|...+..-++.++
T Consensus         9 V~G~V~~v~~---~g~~V~i---~~~~~g~l~~se~s~~~~~~~~~~~~~vGd~V~~kV~~vd~~~~   69 (83)
T d2ba0a1           9 VIGIIREVAA---NGWAVDI---YSPYQAFLPVSENPEMKPNKKPNEVLDIGDAIIAKVLNIDPKMK   69 (83)
T ss_dssp             EEEEEEEECS---SEEEEEC---SSSSCEEEEGGGCTTCCTTSCGGGTCCTTCEEEEEEEEECTTCC
T ss_pred             EEEEEEEEEC---CEEEEEC---CCCEEEEEECCCCCCCCCCCCHHHHCCCCCEEEEEEEEECCCCC
T ss_conf             9999999979---8899964---89946887620304633335733522456679999999999998


No 14 
>d2z0sa1 b.40.4.5 (A:60-147) S1-domain of exosome complex RNA-binding protein 1, ECR1 {Aeropyrum pernix [TaxId: 56636]}
Probab=63.68  E-value=4.8  Score=18.65  Aligned_cols=62  Identities=15%  Similarity=0.007  Sum_probs=39.7

Q ss_pred             CCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCC--------CCCCCCCCEEEEEEEECCCCCCCCCEEEEEC
Q ss_conf             7762775146887465885488778837999950002358--------8446899889999998699971110599963
Q gi|254780913|r    3 HRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAG--------LFNLTEGQLVTYDYVQNDANGKYSAENLKLV   73 (78)
Q Consensus         3 ~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g--------~~~l~~G~~V~F~i~~~~~~gk~~A~~v~~i   73 (78)
                      -.|+|+--.   .||+...=   .++.+-|+|.|++....        .+.+..||.|...+..-++.++   ..+++-
T Consensus        11 V~G~V~~v~---~~g~fV~i---~~~~~g~l~~se~~~~~~~~~~~~~~~~~~vGd~V~~kV~~vd~~~~---i~Ls~k   80 (88)
T d2z0sa1          11 VIGLIQSVG---IMNWFVDI---NSPYVAVLSVQDFLGRPFNPAVDDMQSLLKVGDYIKAKVVAFDKTRS---PLLTVQ   80 (88)
T ss_dssp             EEEEEEEEC---SSEEEEEC---SSSSCEEEEHHHHHTSCCCTTTTCCTTSSCTTCEEEEEEEEECTTSC---EEEECC
T ss_pred             EEEEEEEEE---CCEEEEEE---CCCEEEEEEHHHHCCCCCCCCCCCHHHHCCCCCEEEEEEEEECCCCC---EEEEEE
T ss_conf             999999997---98699996---89927787169927443332235604413567579999999999999---999975


No 15 
>d1smxa_ b.40.4.5 (A:) S1-domain of Ribonuclease E {Escherichia coli [TaxId: 562]}
Probab=62.85  E-value=5  Score=18.56  Aligned_cols=58  Identities=22%  Similarity=0.222  Sum_probs=43.5

Q ss_pred             CCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCC-------------CCCCCCCCEEEEEEEECCCCCC
Q ss_conf             7762775146887465885488778837999950002358-------------8446899889999998699971
Q gi|254780913|r    3 HRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAG-------------LFNLTEGQLVTYDYVQNDANGK   64 (78)
Q Consensus         3 ~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g-------------~~~l~~G~~V~F~i~~~~~~gk   64 (78)
                      ..|+|+-..+.-.==||...    .+++-|+|++++...-             ...|++||.|-.++...+.+.|
T Consensus         4 Y~G~V~~V~pgl~AAFVDiG----~~k~gFL~~~di~~~~~~~~~~~~~~~~i~~~l~~G~~ilVQV~Ke~~~~K   74 (87)
T d1smxa_           4 YKGKITRIEPSLEAAFVDYG----AERHGFLPLKEIAREYFPANYSAHGRPNIKDVLREGQEVIVQIDKEERGNK   74 (87)
T ss_dssp             EEEEEEEEEGGGTEEEEESS----SSSCEEEEGGGSCGGGCSSCCCSSSCCCGGGTCCTTCEEEEEEEECCBTTB
T ss_pred             EEEEEEEECCCCEEEEEEEC----CCCCCEEEECCCCEEEECCCCCCCCCCCHHHHCCCCCEEEEEEEECCCCCC
T ss_conf             79999781678508999708----876441570320034201364323332234320379738999844366788


No 16 
>d1e3pa2 b.40.4.5 (A:656-717) S1 RNA-binding domain of polyribonucleotide phosphorylase, PNPase {Streptomyces antibioticus [TaxId: 1890]}
Probab=62.77  E-value=0.4  Score=24.70  Aligned_cols=53  Identities=26%  Similarity=0.280  Sum_probs=32.1

Q ss_pred             CEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCC--------CCCCCCCCCEEEEEEEECCCCC
Q ss_conf             6277514688746588548877883799995000235--------8844689988999999869997
Q gi|254780913|r    5 GSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASA--------GLFNLTEGQLVTYDYVQNDANG   63 (78)
Q Consensus         5 G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~--------g~~~l~~G~~V~F~i~~~~~~g   63 (78)
                      |+|+-..   =||....   ..++.+-|+|+|.|...        -...+..||.|...+..-++.+
T Consensus         1 G~V~~i~---~fG~FV~---l~~g~~Glihiseis~~~~~~~v~~~~~~~~~G~~V~vkV~~iD~~~   61 (62)
T d1e3pa2           1 GSVVKTT---TFGAFVS---LLPGKDGLLHISQIRKLAGGKRVENVEDVLGVGQKVQVEIAEIDSRG   61 (62)
T ss_dssp             CBEEECC----CSCEEC---CC---CCCCC-------------------CCSSCBCCCCCCCCCSSC
T ss_pred             CEEEEEE---ECEEEEE---ECCCCEEEEEHHHCCCCCCCCCCCCHHHHCCCCCEEEEEEEEECCCC
T ss_conf             9999997---0228999---56993679998991634366410698882689999999999986899


No 17 
>d1go3e1 b.40.4.5 (E:79-184) C-terminal domain of RNA polymerase II subunit RBP7 (RpoE) {Archaeon Methanococcus jannaschii [TaxId: 2190]}
Probab=61.63  E-value=5.2  Score=18.43  Aligned_cols=51  Identities=18%  Similarity=0.099  Sum_probs=35.4

Q ss_pred             CCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCCC---------------CCCCCCCEEEEEEEECC
Q ss_conf             77627751468874658854887788379999500023588---------------44689988999999869
Q gi|254780913|r    3 HRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAGL---------------FNLTEGQLVTYDYVQND   60 (78)
Q Consensus         3 ~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~---------------~~l~~G~~V~F~i~~~~   60 (78)
                      ..|+|..-+   -|||.+.-    ++-|-|+|.|.|...-+               ..+..||.|...+..-+
T Consensus         7 ~~g~V~~v~---~~G~FVel----~~ieGlv~~s~l~~~~~~~~~~~~~~~~~~~~~~~~~Gd~v~vkV~~vd   72 (106)
T d1go3e1           7 IEGEVVDVV---EFGSFVRL----GPLDGLIHVSQIMDDYVSYDPKREAIIGKETGKVLEIGDYVRARIVAIS   72 (106)
T ss_dssp             EEEEEEEEE---TTEEEEEC----SSSEEEEEGGGSCSSCEEECCC--CEEETTTCCEECTTCEEEEEEEEEE
T ss_pred             EEEEEEEEE---EEEEEEEE----ECEEEEEEEECCCCCEEEECCCEEEEEECCCCCCEEECCEEEEEEEEEC
T ss_conf             999999996---03899996----0869899800036760650101157860456632230456999999984


No 18 
>d2je6i1 b.40.4.5 (I:66-152) S1-domain of exosome complex RNA-binding protein 1, ECR1 {Sulfolobus solfataricus [TaxId: 2287]}
Probab=61.40  E-value=4.9  Score=18.60  Aligned_cols=56  Identities=16%  Similarity=0.092  Sum_probs=36.7

Q ss_pred             CCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCC-------CCCCCCCCCEEEEEEEECCCCCC
Q ss_conf             776277514688746588548877883799995000235-------88446899889999998699971
Q gi|254780913|r    3 HRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASA-------GLFNLTEGQLVTYDYVQNDANGK   64 (78)
Q Consensus         3 ~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~-------g~~~l~~G~~V~F~i~~~~~~gk   64 (78)
                      -.|+|+--.   .||....-   .++-+-|+|.|.+...       -.+.+..||.|...+..-++.++
T Consensus        11 v~G~V~~i~---~~g~fV~i---~~~~~gll~~s~~~~~~~~~~~~~~~~~~~Gd~v~~kV~~vd~~~~   73 (87)
T d2je6i1          11 VIGLVEDVE---IYGWVVDI---KAPYKAYLPASNLLGRSINVGEDLRRYLDVGDYVIARIENFDRSID   73 (87)
T ss_dssp             EEEEEEEEC---SSEEEEEC---SSSSCEEEEHHHHHTSCCCTTCCCSSSCCTTCEEEEEEEEEETTEE
T ss_pred             EEEEEEEEE---CCEEEEEE---CCCEEEEEEHHHHCCCEECCCCCCCHHHCCCCEEEEEEEEECCCCC
T ss_conf             999999998---98899994---8997999866893772001344410100136569999999999998


No 19 
>d3bzka4 b.40.4.5 (A:637-730) Tex S1-domain {Pseudomonas aeruginosa [TaxId: 287]}
Probab=55.95  E-value=6.6  Score=17.87  Aligned_cols=54  Identities=17%  Similarity=0.186  Sum_probs=36.8

Q ss_pred             CCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCC----CCCCCCCCEEEEEEEECCCC
Q ss_conf             7762775146887465885488778837999950002358----84468998899999986999
Q gi|254780913|r    3 HRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAG----LFNLTEGQLVTYDYVQNDAN   62 (78)
Q Consensus         3 ~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g----~~~l~~G~~V~F~i~~~~~~   62 (78)
                      .+|+|+-...   ||.+..-   .++-+-|+|.+.+...-    ...+..||.|.+.+..-+..
T Consensus        22 v~g~V~~v~~---~G~~V~l---~~~i~G~i~~~~ls~~~~~~~~~~~~vGq~v~~~V~~id~~   79 (94)
T d3bzka4          22 LEGVVTNVTN---FGAFVDI---GVHQDGLVHISALSEKFVKDPYEVVKAGDIVKVKVMEVDIP   79 (94)
T ss_dssp             EEEEEEEEET---TEEEEEC---SSSSCEEEEGGGGCSSCCSCHHHHCCTTCEEEEEEEEEETT
T ss_pred             EEEEEEEEEC---CEEEEEE---CCCCEEEEEHHHHHCCCCCCHHHHHCCCCEEEEEEEEEECC
T ss_conf             9999999978---6799996---89946774433230232358336423575799999999899


No 20 
>d1gpra_ b.84.3.1 (A:) Glucose permease IIa domain, IIa-glc {Bacillus subtilis [TaxId: 1423]}
Probab=46.44  E-value=9.5  Score=17.00  Aligned_cols=45  Identities=22%  Similarity=0.459  Sum_probs=29.2

Q ss_pred             CCEEEEE-ECCCCEEEEEECCCCCCCCEEEEEEE----ECCCCCCC-CCCCCCEEE
Q ss_conf             7627751-46887465885488778837999950----00235884-468998899
Q gi|254780913|r    4 RGSIKWY-NPDKGYGFITPEGSTESGDDVFLHRS----AVASAGLF-NLTEGQLVT   53 (78)
Q Consensus         4 ~G~VKwf-n~~kGfGFI~~d~~~d~g~DvFvH~s----~i~~~g~~-~l~~G~~V~   53 (78)
                      .|+|.+- ...--||+-+     +.|-++++|+-    .|...++. .+++||+|.
T Consensus        54 ~G~I~~i~~T~HAigi~t-----~~G~evLiHiGiDTV~L~G~gF~~~v~~Gd~Vk  104 (158)
T d1gpra_          54 RGKILNVFPTKHAIGLQS-----DGGREILIHFGIDTVSLKGEGFTSFVSEGDRVE  104 (158)
T ss_dssp             SEEEEEECTTSSEEEEEE-----TTSCEEEEECSBSCGGGTTTTEEECCCTTCEEC
T ss_pred             CEEEEEECCCCCEEEEEE-----CCCEEEEEEEEECCCCCCCCCEEEEECCCCEEC
T ss_conf             859999837997999994-----897299999800520148960699986899996


No 21 
>d1y14b1 b.40.4.5 (B:81-171) C-terminal domain of RNA polymerase II subunit RBP7 (RpoE) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=44.98  E-value=10  Score=16.87  Aligned_cols=49  Identities=10%  Similarity=0.108  Sum_probs=31.3

Q ss_pred             CCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCC--------------CCCCCCCCCEEEEEEEEC
Q ss_conf             76277514688746588548877883799995000235--------------884468998899999986
Q gi|254780913|r    4 RGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASA--------------GLFNLTEGQLVTYDYVQN   59 (78)
Q Consensus         4 ~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~--------------g~~~l~~G~~V~F~i~~~   59 (78)
                      .|+|+--+ +.|+ |+..     +.-|.|+|.+.+...              .-+.+..|+.|.+.+..-
T Consensus         8 ~g~I~~v~-~~G~-fv~l-----g~~eg~i~~~~l~~~~~~d~~~~~~~~~~~~~~~~~Gd~VrvkV~~v   70 (91)
T d1y14b1           8 DGTVVSCS-QHGF-EVQV-----GPMKVFVTKHLMPQDLTFNAGSNPPSYQSSEDVITIKSRIRVKIEGC   70 (91)
T ss_dssp             EEEEEEEE-TTEE-EEEE-----TTEEEEEEGGGSCTTCEECC-----CEECSSCEECTTCEEEEEEEEE
T ss_pred             EEEEEEEE-EEEE-EEEE-----CCEEEEEEHHHCCCCEEECCCCCEEEECCCCEEEECCCEEEEEEEEE
T ss_conf             99999898-1689-9997-----58499999544476337815545168613674996899999999998


No 22 
>d2gpra_ b.84.3.1 (A:) Glucose permease IIa domain, IIa-glc {Mycoplasma capricolum [TaxId: 2095]}
Probab=39.65  E-value=12  Score=16.39  Aligned_cols=45  Identities=27%  Similarity=0.430  Sum_probs=28.1

Q ss_pred             CCEEEEEECC-CCEEEEEECCCCCCCCEEEEEEE----ECCCCCCC-CCCCCCEEE
Q ss_conf             7627751468-87465885488778837999950----00235884-468998899
Q gi|254780913|r    4 RGSIKWYNPD-KGYGFITPEGSTESGDDVFLHRS----AVASAGLF-NLTEGQLVT   53 (78)
Q Consensus         4 ~G~VKwfn~~-kGfGFI~~d~~~d~g~DvFvH~s----~i~~~g~~-~l~~G~~V~   53 (78)
                      .|+|.+--+. --||+-+     ++|-++++|+-    .|...++. .+++||+|.
T Consensus        52 dG~I~~i~~T~HAigi~t-----~~G~eiLIHiGidTV~L~G~gF~~~v~~Gd~V~  102 (154)
T d2gpra_          52 SGKLVTAFPTKHAFGIQT-----KSGVEILLHIGLDTVSLDGNGFESFVTQDQEVN  102 (154)
T ss_dssp             CEEEEECCTTCSEEEEEC-----TTSCEEEEECSSSGGGGTTCSEEECCCTTCEEC
T ss_pred             CEEEEEECCCCCEEEEEE-----CCCCEEEEEECCCCCCCCCCEEEEEECCCCEEC
T ss_conf             809999877896999991-----899899999763610158832689954899990


No 23 
>d2nn6g1 b.40.4.5 (G:107-194) S1-domain of exosome component 3 (RRP40) {Human (Homo sapiens) [TaxId: 9606]}
Probab=38.79  E-value=13  Score=16.31  Aligned_cols=54  Identities=19%  Similarity=0.207  Sum_probs=35.2

Q ss_pred             CEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCC---CCCCCCCCCEEEEEEEECCCCCC
Q ss_conf             6277514688746588548877883799995000235---88446899889999998699971
Q gi|254780913|r    5 GSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASA---GLFNLTEGQLVTYDYVQNDANGK   64 (78)
Q Consensus         5 G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~---g~~~l~~G~~V~F~i~~~~~~gk   64 (78)
                      |+|.-   ..++++...=+   ...+-++|+|++...   -...|..||.|...+..-++.++
T Consensus        12 G~V~~---~~~~~~~VdI~---s~~~a~L~~~~f~g~~k~~r~~l~~GD~V~arV~~v~~~~~   68 (88)
T d2nn6g1          12 GIVTA---KSGDIFKVDVG---GSEPASLSYLSFEGATKRNRPNVQVGDLIYGQFVVANKDME   68 (88)
T ss_dssp             EEEEE---EETTEEEEECS---SSSCCCEESCSSSCCSSCSSSSSCTTCEEEEEEEECCTTSC
T ss_pred             EEEEE---EECCEEEEECC---CCEEEEEEHHHCCCCCCCCCCCCCCCCEEEEEEEEECCCCC
T ss_conf             99999---96871999848---99069970888376532457604889999999999589997


No 24 
>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}
Probab=35.08  E-value=9.8  Score=16.92  Aligned_cols=47  Identities=23%  Similarity=0.342  Sum_probs=27.0

Q ss_pred             CCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEE
Q ss_conf             7762775146887465885488778837999950002358844689988999999
Q gi|254780913|r    3 HRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAGLFNLTEGQLVTYDYV   57 (78)
Q Consensus         3 ~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~~~l~~G~~V~F~i~   57 (78)
                      .-|.|+-..-.||||||+-+...    |.   ..||+...-..+ .|..+..++.
T Consensus        39 ~~G~i~~~~i~rg~aFV~f~~~~----~A---~~Ai~~lng~~~-~g~~l~V~~a   85 (98)
T d1wf2a_          39 KYGKIVGCSVHKGFAFVQYVNER----NA---RAAVAGEDGRMI-AGQVLDINLA   85 (98)
T ss_dssp             TSSCEEEEEEETEEEEEEESSHH----HH---HHHHHTTTTCEE-TTEECEEEET
T ss_pred             HCCCEEEEEEECCEEEEEECCHH----HH---HHHHHHCCCCEE-CCEEEEEEEC
T ss_conf             26987999970886899979999----99---999998199989-9988799977


No 25 
>d2nn6h1 b.40.4.5 (H:73-167) S1-domain of Ribosomal RNA-processing protein 4, RRP4 {Human (Homo sapiens) [TaxId: 9606]}
Probab=33.26  E-value=16  Score=15.80  Aligned_cols=56  Identities=23%  Similarity=0.157  Sum_probs=33.4

Q ss_pred             CCCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCC--------------CCCCCCCCEEEEEEEECCCCCC
Q ss_conf             7762775146887465885488778837999950002358--------------8446899889999998699971
Q gi|254780913|r    3 HRGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAG--------------LFNLTEGQLVTYDYVQNDANGK   64 (78)
Q Consensus         3 ~~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g--------------~~~l~~G~~V~F~i~~~~~~gk   64 (78)
                      -.|+|.--.   .||+...   .....|-|+|+|.+....              ...+.+||.|...+..-++.|+
T Consensus        12 V~G~V~~v~---~~g~~V~---I~~~~~g~l~is~i~~~~~~~rr~~~~~~~~~~~~~~~Gd~V~~kV~~v~~dg~   81 (95)
T d2nn6h1          12 VVGRITEVQ---QKRWKVE---TNSRLDSVLLLSSMNLPGGELRRRSAEDELAMRGFLQEGDLISAEVQAVFSDGA   81 (95)
T ss_dssp             CCEEEEEEE---TTEEEEE---CSSSSCEEEESSCCC-------------CHHHHHHSCSSCEECCEEEEEETTTE
T ss_pred             EEEEEEEEE---CCCEEEE---ECCCCEEEEEHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCEEEEEEEEECCCCC
T ss_conf             999999995---6709999---089913899877835666621114411233333210446589999999999998


No 26 
>d2c35b1 b.40.4.5 (B:78-171) C-terminal domain of RNA polymerase II subunit RBP7 (RpoE) {Human (Homo sapiens) [TaxId: 9606]}
Probab=30.49  E-value=17  Score=15.53  Aligned_cols=48  Identities=15%  Similarity=0.219  Sum_probs=30.8

Q ss_pred             CCEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCC-C---------------CCCCCCCEEEEEEEE
Q ss_conf             762775146887465885488778837999950002358-8---------------446899889999998
Q gi|254780913|r    4 RGSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAG-L---------------FNLTEGQLVTYDYVQ   58 (78)
Q Consensus         4 ~G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g-~---------------~~l~~G~~V~F~i~~   58 (78)
                      .|+|+--+   -||+-..-    +.-|.|+|.+.+...- +               +.+..|+.|.+.+..
T Consensus         9 ~g~V~~v~---~~G~fv~l----g~~~~~v~~~~l~~d~~y~~~~~~~~~~~~~~~~~~~~Gd~VrvkV~~   72 (94)
T d2c35b1           9 DAVVTQVN---KVGLFTEI----GPMSCFISRHSIPSEMEFDPNSNPPCYKTMDEDIVIQQDDEIRLKIVG   72 (94)
T ss_dssp             EEEEEEEE---TTEEEEEE----TTEEEEEEGGGSCTTEEEESSSSSCEEEETTSCSEEETTCEEEEEEEE
T ss_pred             EEEEEEEE---EEEEEEEE----CCCEEEEEHHHCCCCEEECCCCCCEEEECCCCEEEEECCCEEEEEEEE
T ss_conf             99999897---04899995----273688871466853266543353289726650899589989999999


No 27 
>d2vnud1 b.40.4.5 (D:400-494) Exosome complex exonuclease RRP44 {Saccharomyces cerevisiae [TaxId: 4932]}
Probab=29.20  E-value=18  Score=15.40  Aligned_cols=60  Identities=5%  Similarity=-0.085  Sum_probs=40.2

Q ss_pred             ECCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEEECCCC-CCCCCEEEEECCCCCC
Q ss_conf             4688746588548877883799995000235884468998899999986999-7111059996357889
Q gi|254780913|r   11 NPDKGYGFITPEGSTESGDDVFLHRSAVASAGLFNLTEGQLVTYDYVQNDAN-GKYSAENLKLVPKSSN   78 (78)
Q Consensus        11 n~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~~~l~~G~~V~F~i~~~~~~-gk~~A~~v~~i~~~~~   78 (78)
                      +..+.|+|++|++..  =+++|+..+..     ..+ .|++|..++..=+.. ..+.+.-+++|...++
T Consensus        17 ~~~~~~~~v~P~d~r--ip~i~I~~~~~-----~~~-~g~~Vvv~I~~w~~~~~~P~G~i~~vLG~~gd   77 (95)
T d2vnud1          17 SSSTQNVFVILMDKC--LPKVRIRTRRA-----AEL-LDKRIVISIDSWPTTHKYPLGHFVRDLGTIES   77 (95)
T ss_dssp             CCSCEEEEEEESSTT--SCCEEEEETTG-----GGG-TTEEEEEEEEECCTTCSSCEEEEEEEEEESSC
T ss_pred             CCCCCEEEEEECCCC--CCCEECCCCCH-----HHH-CCCEEEEEEEECCCCCCCCCEEEEEEECCCCC
T ss_conf             787556999789987--78614360224-----675-89899999901588888977899997469898


No 28 
>d2fura1 b.45.1.1 (A:16-208) Hypothetical protein Ta1372 {Thermoplasma acidophilum [TaxId: 2303]}
Probab=28.82  E-value=13  Score=16.28  Aligned_cols=52  Identities=21%  Similarity=0.333  Sum_probs=34.3

Q ss_pred             CEEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEEEC
Q ss_conf             6277514688746588548877883799995000235884468998899999986
Q gi|254780913|r    5 GSIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAGLFNLTEGQLVTYDYVQN   59 (78)
Q Consensus         5 G~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~~~l~~G~~V~F~i~~~   59 (78)
                      |++-..+  .|+=+++|-.-...+..+++|-+. .....+.|+.+.+|.|.+...
T Consensus        19 ~~la~~~--~g~PyvvP~~f~~~~~~ly~H~a~-~g~k~~~l~~np~V~~~v~~~   70 (193)
T d2fura1          19 CTVSFID--GGIPYAIPMMLASEGKTIYLHGSM-KSRIYGILKTGQLIAISLLEI   70 (193)
T ss_dssp             EEEEEEE--TTEEEEEEEECEEETTEEEEEEET-TSHHHHHHHTTCCEEEEEEEE
T ss_pred             EEEEEEE--CCEEEEEEEEEEEECCEEEEEECC-CCHHHHHHHCCCCEEEEEEEC
T ss_conf             9999961--994799999999917989998338-536899864499699999853


No 29 
>d1uwva1 b.40.4.12 (A:15-74) rRNA (Uracil-5-)-methyltransferase RumA, N-terminal domain {Escherichia coli [TaxId: 562]}
Probab=28.11  E-value=19  Score=15.29  Aligned_cols=55  Identities=15%  Similarity=0.201  Sum_probs=36.0

Q ss_pred             EEEEEECCCCEEEEEECCCCCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEEECCCCCCCCCEEEEECCCCC
Q ss_conf             277514688746588548877883799995000235884468998899999986999711105999635788
Q gi|254780913|r    6 SIKWYNPDKGYGFITPEGSTESGDDVFLHRSAVASAGLFNLTEGQLVTYDYVQNDANGKYSAENLKLVPKSS   77 (78)
Q Consensus         6 ~VKwfn~~kGfGFI~~d~~~d~g~DvFvH~s~i~~~g~~~l~~G~~V~F~i~~~~~~gk~~A~~v~~i~~~~   77 (78)
                      +|.-.+ ..|.|.-..|     |.=+||..          .-+|++|...+... ++.-..|.-++++..||
T Consensus         6 ~I~~l~-~~G~Gv~r~~-----g~vvfV~~----------alPGE~V~v~i~~~-~~~~~~a~~~eil~~SP   60 (60)
T d1uwva1           6 SVNDLD-SFGQGVARHN-----GKTLFIPG----------LLPQENAEVTVTED-KKQYARAKVVRRLSDSP   60 (60)
T ss_dssp             EEEEEC-TTSEEEEEET-----TEEEEEET----------CCTTCEEEEEEEEE-CSSEEEEEEEEECCCCT
T ss_pred             EEEECC-CCCCEEEEEC-----CEEEEECC----------CCCCCEEEEEEEEE-CCCEEEEEEEEEECCCC
T ss_conf             999888-9976999999-----99999799----------99998999999996-09848999999913899


No 30 
>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}
Probab=27.27  E-value=19  Score=15.25  Aligned_cols=19  Identities=37%  Similarity=0.651  Sum_probs=13.0

Q ss_pred             CEEE--EEECCCCEEEEEECC
Q ss_conf             6277--514688746588548
Q gi|254780913|r    5 GSIK--WYNPDKGYGFITPEG   23 (78)
Q Consensus         5 G~VK--wfn~~kGfGFI~~d~   23 (78)
                      |.|+  ....+||||||.-+.
T Consensus        43 G~i~~v~i~~~kg~afV~f~~   63 (96)
T d1x4ga1          43 GQIMEIRVFPEKGYSFVRFST   63 (96)
T ss_dssp             SCEEEEEEETTTTEEEEEESS
T ss_pred             CCCEEEEEEECCEEEEEEECC
T ss_conf             996699997013089999899


No 31 
>d1t9ha1 b.40.4.5 (A:1-67) Probable GTPase EngC (YjeQ), N-terminal domain {Bacillus subtilis [TaxId: 1423]}
Probab=25.23  E-value=22  Score=14.99  Aligned_cols=64  Identities=17%  Similarity=0.267  Sum_probs=33.9

Q ss_pred             CCCCEE-EEEECCCCEEEEEECCCCCCCCEEEEEEEE-CCCCCCCCCCCCCEEEEEEEECCCCCCCCCEEEEECCC
Q ss_conf             877627-751468874658854887788379999500-02358844689988999999869997111059996357
Q gi|254780913|r    2 VHRGSI-KWYNPDKGYGFITPEGSTESGDDVFLHRSA-VASAGLFNLTEGQLVTYDYVQNDANGKYSAENLKLVPK   75 (78)
Q Consensus         2 m~~G~V-Kwfn~~kGfGFI~~d~~~d~g~DvFvH~s~-i~~~g~~~l~~G~~V~F~i~~~~~~gk~~A~~v~~i~~   75 (78)
                      |.+|+| |.+   .+|=.+..|... +++-+-.+... ++..+.+.+ .||.|+|+.. +  .+  .+.-.+++|.
T Consensus         1 M~~G~Vik~~---~~~y~V~~e~~~-~g~~~~C~~RGk~r~~~~~p~-VGD~V~~~~~-~--~~--~g~I~~I~pR   66 (67)
T d1t9ha1           1 MPEGKIIKAL---SGFYYVLDESED-SDKVIQCRGRGIFRKNKITPL-VGDYVVYQAE-N--DK--EGYLMEIKER   66 (67)
T ss_dssp             CCEEEEEEEE---TTEEEEEECSSS-SCEEEEEESCSSCCSCCCCCC-BTCEEEEECC-T--TS--CEEEEEECCC
T ss_pred             CCCEEEEEEE---CCEEEEEECCCC-CCCEEEEEECEEEECCCCCCC-CCCEEEEEEC-C--CC--EEEEEEEECC
T ss_conf             9987999998---997999864568-996999997500805898657-0769999983-6--99--2999999268


No 32 
>d2f3ga_ b.84.3.1 (A:) Glucose-specific factor III (glsIII) {Escherichia coli [TaxId: 562]}
Probab=22.00  E-value=25  Score=14.63  Aligned_cols=45  Identities=24%  Similarity=0.428  Sum_probs=27.9

Q ss_pred             CCEEEEE-ECCCCEEEEEECCCCCCCCEEEEEEEE----CCCCCCC-CCCCCCEEE
Q ss_conf             7627751-468874658854887788379999500----0235884-468998899
Q gi|254780913|r    4 RGSIKWY-NPDKGYGFITPEGSTESGDDVFLHRSA----VASAGLF-NLTEGQLVT   53 (78)
Q Consensus         4 ~G~VKwf-n~~kGfGFI~~d~~~d~g~DvFvH~s~----i~~~g~~-~l~~G~~V~   53 (78)
                      .|+|.+- ...--||+-+     ++|-++++|+..    |...++. .+++||+|.
T Consensus        46 dG~V~~v~~T~HAigi~t-----~~G~eiLIHiGidTV~L~G~gF~~~v~~Gd~V~   96 (150)
T d2f3ga_          46 DGTIGKIFETNHAFSIES-----DSGVELFVHFGIDTVELKGEGFKRIAEEGQRVK   96 (150)
T ss_dssp             SEEEEEECTTSSEEEEEE-----TTSCEEEEECSBSGGGGTTTTEEECSCTTCEEC
T ss_pred             CEEEEEECCCCCEEEEEE-----CCCEEEEEEECCCHHHCCCCCEEEEECCCCEEC
T ss_conf             879999877898999992-----893399999764554248841489956899988


No 33 
>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}
Probab=20.19  E-value=18  Score=15.43  Aligned_cols=13  Identities=38%  Similarity=0.652  Sum_probs=9.5

Q ss_pred             ECCCCEEEEEECC
Q ss_conf             4688746588548
Q gi|254780913|r   11 NPDKGYGFITPEG   23 (78)
Q Consensus        11 n~~kGfGFI~~d~   23 (78)
                      ...||||||+-..
T Consensus        38 ~~~rG~~FV~f~~   50 (75)
T d1x0fa1          38 NKRRGFCFITFKE   50 (75)
T ss_dssp             CCTTCCEEEEESS
T ss_pred             CCCCCEEEEEECC
T ss_conf             5665289999788


Done!