Query         gi|254780789|ref|YP_003065202.1| hypothetical protein CLIBASIA_03400 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 192
No_of_seqs    121 out of 1003
Neff          5.7 
Searched_HMMs 23785
Date          Mon May 30 13:21:16 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780789.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 1ib8_A Conserved protein SP14. 100.0 3.9E-42       0  282.1  16.4  151   19-175     8-161 (164)
  2 3bw1_A SMX4 protein, U6 snRNA-  85.6     0.5 2.1E-05   25.5   3.0   47   94-147     3-50  (96)
  3 2rm4_A CG6311-PB, DM EDC3; enh  84.0     1.5 6.5E-05   22.5   5.0   61  110-173     8-70  (103)
  4 1ycy_A Conserved hypothetical   83.8     1.5 6.2E-05   22.6   4.8   59  105-168     7-65  (71)
  5 1y96_A Gemin6, SIP2, GEM-assoc  83.5     2.3 9.8E-05   21.4   5.8   74  104-185     7-84  (86)
  6 3cw1_G Small nuclear ribonucle  82.8     1.2 5.1E-05   23.1   4.0   37  106-146     6-43  (76)
  7 2vc8_A Enhancer of mRNA-decapp  82.1     2.4  0.0001   21.2   5.3   60  111-173     6-67  (84)
  8 2hbp_A Cytoskeleton assembly c  78.4    0.52 2.2E-05   25.4   0.9   63  117-188     5-67  (68)
  9 1n9r_A SMF, small nuclear ribo  76.8     2.9 0.00012   20.8   4.4   37  109-148    26-63  (93)
 10 1ljo_A Archaeal SM-like protei  76.4     2.7 0.00011   21.0   4.1   38  107-147     8-46  (77)
 11 3fb9_A Uncharacterized protein  76.2       4 0.00017   19.9   8.5   68  106-173    17-85  (90)
 12 3cw1_F Small nuclear ribonucle  76.0     3.3 0.00014   20.4   4.5   41  103-147     5-46  (86)
 13 2ckk_A KIN17; beta barrel, rib  75.9     2.3 9.7E-05   21.4   3.6   51  113-169    73-125 (127)
 14 3cw1_A Small nuclear ribonucle  74.5     4.4 0.00019   19.6   5.4   39  104-146     4-43  (174)
 15 1h64_1 SnRNP SM-like protein;   73.9     3.2 0.00014   20.5   4.0   41  100-147     3-44  (75)
 16 2e70_A Transcription elongatio  71.6     3.3 0.00014   20.4   3.6   50  109-168    16-65  (71)
 17 1nz9_A Transcription antitermi  71.3     5.2 0.00022   19.2   4.5   50  113-170     7-58  (58)
 18 1mgq_A SM-like protein; LSM, R  69.5       5 0.00021   19.3   4.1   49   92-147     4-55  (83)
 19 1i8f_A Putative snRNP SM-like   69.4     4.5 0.00019   19.6   3.9   38  106-147    13-51  (81)
 20 1d3b_B Protein (small nuclear   67.9     4.9 0.00021   19.3   3.8   35  109-147     9-44  (91)
 21 1i4k_A Putative snRNP SM-like   66.9     5.1 0.00021   19.2   3.7   40  101-147     4-44  (77)
 22 1d3b_A Protein (small nuclear   63.1     7.2  0.0003   18.3   3.9   35  109-147    10-45  (75)
 23 1th7_A SnRNP-2, small nuclear   58.1     9.4  0.0004   17.6   6.4   36  108-147    13-49  (81)
 24 2ej9_A Putative biotin ligase;  57.9     9.5  0.0004   17.6   4.3   42  103-148   181-222 (237)
 25 2e6z_A Transcription elongatio  54.7     9.9 0.00042   17.4   3.5   49  113-169    10-58  (59)
 26 3cw1_D Small nuclear ribonucle  52.9      11 0.00048   17.1   3.9   38  102-146     6-44  (126)
 27 3cw1_E Small nuclear ribonucle  52.5     9.2 0.00039   17.6   3.0   40  107-146    19-59  (92)
 28 2fwk_A U6 snRNA-associated SM-  50.8     7.4 0.00031   18.2   2.3   35  109-147    33-68  (121)
 29 1bia_A BIRA bifunctional prote  40.7      18 0.00074   15.9   3.9   44   98-146   257-300 (321)
 30 2jvv_A Transcription antitermi  40.1      18 0.00076   15.8   3.9   50  113-170   130-181 (181)
 31 2dgb_A Hypothetical protein PU  39.7      18 0.00077   15.8   5.6   69   18-96     13-81  (84)
 32 1m5q_A SMAP3, small nuclear ri  39.2      19 0.00078   15.7   5.3   58  107-169     3-61  (130)
 33 2pt7_G HP1451, hypothetical pr  36.6      20 0.00086   15.5   4.3   68   22-94      4-78  (152)
 34 3bpp_A 1510-N membrane proteas  34.4      22 0.00093   15.3   4.8   56   49-111     7-62  (230)
 35 1b34_A Protein (small nuclear   31.5      25   0.001   14.9   3.7   36  107-146     5-41  (119)
 36 2eay_A Biotin [acetyl-COA-carb  29.1      27  0.0011   14.7   3.8   46   98-149   172-217 (233)
 37 1tt9_A Formimidoyltransferase-  27.6      24   0.001   15.1   1.8   60   37-97     69-131 (541)
 38 2f5g_A Transposase, putative;   24.5      33  0.0014   14.2   8.4  102    6-115    18-127 (133)
 39 1msc_A Bacteriophage MS2 coat   24.1      22 0.00094   15.2   1.2   26   64-89     96-121 (129)
 40 1gtd_A MTH169; synthetase, FGA  23.5      34  0.0014   14.1   5.6   69   18-95     12-80  (85)
 41 2vjv_A Transposase ORFA; DNA-b  23.1      35  0.0015   14.0   8.8  103    6-116    26-138 (159)
 42 1dpg_A G6PD, glucose 6-phospha  22.2      36  0.0015   13.9   3.9   39   51-90    140-179 (485)
 43 1c1y_B Proto-onkogene serine/t  22.0      37  0.0016   13.9   2.8   53   63-121    21-76  (77)
 44 1wwj_A Circadian clock protein  20.4      40  0.0017   13.7   3.1   44   49-99      6-49  (105)
 45 2bh9_A G6PD, glucose-6-phospha  20.1      40  0.0017   13.6   4.0   34   52-86    138-171 (489)

No 1  
>1ib8_A Conserved protein SP14.3; nucleic acid binding protein, ribosomal protein, essential gene, structural genomics; NMR {Streptococcus pneumoniae} SCOP: b.38.2.1 d.52.4.1
Probab=100.00  E-value=3.9e-42  Score=282.10  Aligned_cols=151  Identities=26%  Similarity=0.490  Sum_probs=138.4

Q ss_pred             CCHHHHHHHHHHHHHHHCCCEEEEEEEEC-CCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHCC--CCCCCCCCEEEEE
Q ss_conf             12799999999999974797799999954-99868999996587787899999999998752021--1356765079997
Q gi|254780789|r   19 MGLAGDISSVIQPVIEEMSFRSVQISLLE-EKNLLLQIFVERDDGNMTLRDCEELSQAISPILDV--ENIIEGHYRLEVS   95 (192)
Q Consensus        19 ~~i~~~i~~li~p~v~~lG~eLv~v~~~~-~~~~~LrI~ID~~dg~i~iddC~~vSr~i~~~LD~--~d~i~~~Y~LEVS   95 (192)
                      ..+.+.|+++++|+++ .||+||+|++.+ +++++||||||+++| |++|||+.+||.|++.||+  +|+++++|+||||
T Consensus         8 ~~i~e~i~~li~p~~~-~g~eL~die~~~~~~~~~lrI~ID~~~g-v~iddC~~vSr~i~~~LD~~~~d~i~~~Y~LEVS   85 (164)
T 1ib8_A            8 ATIVELVREVVEPVIE-APFELVDIEYGKIGSDMILSIFVDKPEG-ITLNDTADLTEMISPVLDTIKPDPFPEQYFLEIT   85 (164)
T ss_dssp             HHHHHHHHHHHHHHHC-SSSEEEEEEEEEETTEEEEEEEEECSSC-CCHHHHHHHHHHHGGGTTTCCSCCCCSCEEEEEE
T ss_pred             HHHHHHHHHHHHHHHH-CCCEEEEEEEEECCCCEEEEEEEECCCC-CCHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEE
T ss_conf             9999999999899986-6988999999908996799999999999-4589999999999987535446667875799996


Q ss_pred             ECCCCCCCCCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCCEEEEEECCCCCCCCCCCEEEEEHHHHHHCCEECC
Q ss_conf             27887744578999987105688987226688078999985126975999963554567777269976887651725046
Q gi|254780789|r   96 SPGIDRPMVRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSETGFFLEKEKRGEKDMNELQIAISFDSLLSARLIVT  175 (192)
Q Consensus        96 SPGidRpL~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~~i~l~~~~~~~k~~~~~~v~ip~~~I~kAkLv~~  175 (192)
                      |||++|||++++||+||+|+.|+|+|+.+.+|+++|+|+|.+++++.++|.+..+..    ..+++|||++|++|||++.
T Consensus        86 SPGldRpL~~~~~f~r~~G~~v~V~l~~~~~~~k~~~G~L~~v~~~~i~l~~~~~~~----~~~~~I~~~~I~ka~l~ve  161 (164)
T 1ib8_A           86 SPGLERPLKTKDAVAGAVGKYIHVGLYQAIDKQKVFEGTLLAFEEDELTMEYMDKTR----KKTVQIPYSLVSKARLAVK  161 (164)
T ss_dssp             CCSSSSCCSSHHHHHHHCSEEEEEECSSCSSSCSEEEEEEEEEETTEEEEEEECSSC----EEEEEECSSCCSSCEEECS
T ss_pred             CCCCCCCCCCHHHHHHHCCCEEEEEEECCCCCCEEEEEEEEEEECCEEEEEEECCCC----CEEEEEEHHHCCEEEEEEE
T ss_conf             699885437979999865957999996476993899999999749989999923777----6599970698146999999


No 2  
>3bw1_A SMX4 protein, U6 snRNA-associated SM-like protein LSM3; RNA-binding protein, SM protein, ring, homomeric, octamer, cytoplasm; 2.50A {Saccharomyces cerevisiae}
Probab=85.57  E-value=0.5  Score=25.52  Aligned_cols=47  Identities=11%  Similarity=0.105  Sum_probs=35.1

Q ss_pred             EEECCCCCCCCCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEE
Q ss_conf             972788774457899998710568898722668807899998512697-599996
Q gi|254780789|r   94 VSSPGIDRPMVRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEK  147 (192)
Q Consensus        94 VSSPGidRpL~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~  147 (192)
                      .++.+++.||..   .+.++|+.|.|++++   | +.|.|+|.++|.. .++|..
T Consensus         3 ~~~~~me~Pl~l---L~~~l~k~V~V~lkd---g-~~~~G~L~~~D~~mNlvL~d   50 (96)
T 3bw1_A            3 HHHHHMETPLDL---LKLNLDERVYIKLRG---A-RTLVGTLQAFDSHCNIVLSD   50 (96)
T ss_dssp             ---CCCCCHHHH---HGGGTTSEEEEEEGG---G-CEEEEEEEEECTTCCEEEEE
T ss_pred             CCCCCCCCHHHH---HHHHCCCEEEEEECC---C-CEEEEEEEEECCCCCEEEEE
T ss_conf             521132387999---998789849999869---9-79999999997857779740


No 3  
>2rm4_A CG6311-PB, DM EDC3; enhancer of mRNA decapping, P-BODY component, SM-like protein,, protein binding; NMR {Drosophila melanogaster}
Probab=84.03  E-value=1.5  Score=22.47  Aligned_cols=61  Identities=16%  Similarity=0.157  Sum_probs=47.7

Q ss_pred             HHHHCCEEEEEEECCCCCEEEEEEEEEECCCCEEEEEECCCCCC--CCCCCEEEEEHHHHHHCCEE
Q ss_conf             98710568898722668807899998512697599996355456--77772699768876517250
Q gi|254780789|r  110 LRWNGHVVACEIVLSSGDKQKLIGKIMGTSETGFFLEKEKRGEK--DMNELQIAISFDSLLSARLI  173 (192)
Q Consensus       110 ~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~~i~l~~~~~~~k--~~~~~~v~ip~~~I~kAkLv  173 (192)
                      +.|+|..|.+++.+   +.-.|.|.+..++...|+|...-+...  +..-.++++.-.+|..-+|+
T Consensus         8 e~~IG~~VSi~C~d---~lgvyQG~I~~vs~q~Itl~~af~NGvPlk~~~~eVTLsa~DI~~LkiI   70 (103)
T 2rm4_A            8 QDWIGCAVSIACDE---VLGVFQGLIKQISAEEITIVRAFRNGVPLRKQNAEVVLKCTDIRSIDLI   70 (103)
T ss_dssp             GGGTTCEEEEEECT---TTCEEEEEEEEEETTEEEEEEEEETTEECSCSSSCEEEETTTEEEEEEE
T ss_pred             CCCEEEEEEEEECC---CCCEEEEEEEEECCCEEEEEEHHHCCCCCCCCCCEEEEEHHHCCCCEEE
T ss_conf             25020799999779---8737878999843444897323247876556883489882432110265


No 4  
>1ycy_A Conserved hypothetical protein; structural genomics, southeast collaboratory for structural genomics, secsg, protein structure initiative; 2.80A {Pyrococcus furiosus} SCOP: b.38.1.4
Probab=83.75  E-value=1.5  Score=22.60  Aligned_cols=59  Identities=19%  Similarity=0.289  Sum_probs=39.4

Q ss_pred             CHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCCEEEEEECCCCCCCCCCCEEEEEHHHHH
Q ss_conf             7899998710568898722668807899998512697599996355456777726997688765
Q gi|254780789|r  105 RKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSETGFFLEKEKRGEKDMNELQIAISFDSLL  168 (192)
Q Consensus       105 ~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~~i~l~~~~~~~k~~~~~~v~ip~~~I~  168 (192)
                      ..+-.++|.|++|.|.    +++...|+|+|..++++.+.+..--... ....+.+-+..++|.
T Consensus         7 LdktL~~WKg~kvAv~----vg~ehSFtGiledFDeEviLL~dV~D~~-GNk~k~liv~idDin   65 (71)
T 1ycy_A            7 LEKVLKEWKGHKVAVS----VGGDHSFTGTLEDFDEEVILLKDVVDVI-GNRGKQMLIGLEDIN   65 (71)
T ss_dssp             HHHHHHHHTTSEEEEE----EC----CEEEEEEECSSEEEEEEEEETT-EEEEEEEEEEGGGEE
T ss_pred             HHHHHHHHCCCEEEEE----ECCCCEEEEEHHHCCCCEEEHHHHHHHH-CCCCCEEEEEECCCE
T ss_conf             9999998479679999----6685215666545586367511568885-655231589853623


No 5  
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}
Probab=83.49  E-value=2.3  Score=21.37  Aligned_cols=74  Identities=14%  Similarity=0.087  Sum_probs=48.6

Q ss_pred             CCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCCEE--EE-EECCCCCCCCCCCEEEEEHHHHHHCCEECC-HHHH
Q ss_conf             5789999871056889872266880789999851269759--99-963554567777269976887651725046-9999
Q gi|254780789|r  104 VRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSETGF--FL-EKEKRGEKDMNELQIAISFDSLLSARLIVT-DELL  179 (192)
Q Consensus       104 ~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~~i--~l-~~~~~~~k~~~~~~v~ip~~~I~kAkLv~~-d~l~  179 (192)
                      +.|.+|+.|++++|+|++.+    .+.+.|..-.+|.-..  .| ...+.+    ......|+=-+|+...++-+ ++..
T Consensus         7 ~sP~~~~~yv~keV~vt~~d----~~~~~GwVyTvDPVS~SIVL~~~~e~~----~~~~~vVmGHAVk~Vevv~~~~~~~   78 (86)
T 1y96_A            7 KGPLEWQDYIYKEVRVTASE----KNEYKGWVLTTDPVSANIVLVNFLEDG----SMSVTGIMGHAVQTVETMNEGDHRV   78 (86)
T ss_dssp             SCHHHHHHTTTCEEEEEETT----TEEEEEEEEEECTTTCCEEEEEECTTS----CEEEEEECGGGEEEEEEEECCCHHH
T ss_pred             CCHHHHHHHHCCEEEEEECC----CCEEEEEEEEECCCCCEEEEEECCCCC----CCCEEEEECCCEEEEEEEECCCHHH
T ss_conf             79899998639789999825----987987999968874179996121047----6317999445044899982786999


Q ss_pred             HHHHHC
Q ss_conf             999960
Q gi|254780789|r  180 RASLNN  185 (192)
Q Consensus       180 ~~~~~~  185 (192)
                      ++-|.+
T Consensus        79 ~e~L~~   84 (86)
T 1y96_A           79 REKLMH   84 (86)
T ss_dssp             HHHHHT
T ss_pred             HHHHHH
T ss_conf             999985


No 6  
>3cw1_G Small nuclear ribonucleoprotein G; PRE-mRNA splicing, spliceosome, RNA-binding domain, SM fold, zinc finger, RNA recognition motif; 5.49A {Homo sapiens}
Probab=82.75  E-value=1.2  Score=23.13  Aligned_cols=37  Identities=5%  Similarity=0.202  Sum_probs=28.8

Q ss_pred             HHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEE
Q ss_conf             899998710568898722668807899998512697-59999
Q gi|254780789|r  106 KSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLE  146 (192)
Q Consensus       106 ~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~  146 (192)
                      |-+.++++|+.|.|++++   | +.|.|+|.++|.. .+.|.
T Consensus         6 p~~L~~~l~k~V~V~l~~---g-r~~~G~L~~~D~~mNlvL~   43 (76)
T 3cw1_G            6 PPELKKFMDKKLSLKLNG---G-RHVQGILRGFDPFMNLVID   43 (76)
T ss_pred             CHHHHHHCCCCEEEEECC---C-CEEEEEEEEECCCCCEEEC
T ss_conf             747998669919999889---9-1999999999772358980


No 7  
>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens}
Probab=82.07  E-value=2.4  Score=21.23  Aligned_cols=60  Identities=8%  Similarity=0.149  Sum_probs=48.2

Q ss_pred             HHHCCEEEEEEECCCCCEEEEEEEEEECC--CCEEEEEECCCCCCCCCCCEEEEEHHHHHHCCEE
Q ss_conf             87105688987226688078999985126--9759999635545677772699768876517250
Q gi|254780789|r  111 RWNGHVVACEIVLSSGDKQKLIGKIMGTS--ETGFFLEKEKRGEKDMNELQIAISFDSLLSARLI  173 (192)
Q Consensus       111 r~~G~~VkV~l~~~~~g~k~~~G~L~~v~--~~~i~l~~~~~~~k~~~~~~v~ip~~~I~kAkLv  173 (192)
                      .|+|+.|.|....   +.-.|.|.+..++  +..|+|...=....+....++++.-.+|..-+|+
T Consensus         6 ~~iG~~VSI~C~~---~lGvyQG~I~~v~~t~q~ItL~kaf~NGvp~~~~EVTl~a~DI~~Lkii   67 (84)
T 2vc8_A            6 DWLGSIVSINCGD---SLGVYQGRVSAVDQVSQTISLTRPFHNGVKCLVPEVTFRAGDITELKIL   67 (84)
T ss_dssp             TTTTCEEEEECCT---TTCEEEEEEEEEETTTTEEEEEEEEETTEECSSSEEEEEGGGCSEEEEE
T ss_pred             CCCCEEEEEEECC---CCCEEEEEEEEECCCCCEEEEEHHHHCCCCCCCCEEEEEEHHCCCCEEE
T ss_conf             1155489998579---8647888998825877679980263488878885599980322131389


No 8  
>2hbp_A Cytoskeleton assembly control protein SLA1; SHD1, NPFX(1,2)D, endocytosis, protein binding; NMR {Saccharomyces cerevisiae}
Probab=78.41  E-value=0.52  Score=25.44  Aligned_cols=63  Identities=19%  Similarity=0.288  Sum_probs=45.6

Q ss_pred             EEEEEECCCCCEEEEEEEEEECCCCEEEEEECCCCCCCCCCCEEEEEHHHHHHCCEECCHHHHHHHHHCCCC
Q ss_conf             889872266880789999851269759999635545677772699768876517250469999999960796
Q gi|254780789|r  117 VACEIVLSSGDKQKLIGKIMGTSETGFFLEKEKRGEKDMNELQIAISFDSLLSARLIVTDELLRASLNNYGS  188 (192)
Q Consensus       117 VkV~l~~~~~g~k~~~G~L~~v~~~~i~l~~~~~~~k~~~~~~v~ip~~~I~kAkLv~~d~l~~~~~~~~~~  188 (192)
                      .++++  -..|+-++.+.+.++.++.|.|...       +...+.+|++..+.+-+.+-+++.++++..+++
T Consensus         5 ~R~WT--d~~G~~~veA~fv~~~~~~V~L~~~-------~G~~i~vpl~~LS~~Dq~yve~~~~~sl~~~k~   67 (68)
T 2hbp_A            5 SRLWV--DRSGTFKVDAEFIGCAKGKIHLHKA-------NGVKIAVAADKLSNEDLAYVEKITGFSLEKFKA   67 (68)
T ss_dssp             SEEEE--BSSSCCEEEEEEEEEETTEEEEECT-------TSCEEEEETTSBCHHHHHHHHHHHSCCCGGGCC
T ss_pred             EEEEE--ECCCCEEEEEEEEEEECCEEEEEEC-------CCEEEEEEHHHCCHHHHHHHHHHHCCCCHHHCC
T ss_conf             06879--4899989999999961999999975-------997999474997998999999986376122226


No 9  
>1n9r_A SMF, small nuclear ribonucleoprotein F, snRNP-F, SM protein; heptamer, translation; 2.80A {Saccharomyces cerevisiae} SCOP: b.38.1.1 PDB: 1n9s_A
Probab=76.82  E-value=2.9  Score=20.75  Aligned_cols=37  Identities=14%  Similarity=0.199  Sum_probs=28.9

Q ss_pred             HHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEEC
Q ss_conf             998710568898722668807899998512697-5999963
Q gi|254780789|r  109 FLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEKE  148 (192)
Q Consensus       109 f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~~  148 (192)
                      .+.++|+.|.|+|+   .+...+.|+|.++|+- .+.|...
T Consensus        26 L~~~igk~V~V~Lk---~ng~~~~G~L~~~D~~mNlvL~d~   63 (93)
T 1n9r_A           26 LKGLVNHRVGVKLK---FNSTEYRGTLVSTDNYFNLQLNEA   63 (93)
T ss_dssp             CGGGTTSEEEEEES---STTEEEEEEEEECCTTTCEEEEEE
T ss_pred             HHHHCCCEEEEEEE---CCCEEEEEEEEEECCCCCEEEEEE
T ss_conf             98738986999994---299999999999848980599159


No 10 
>1ljo_A Archaeal SM-like protein AF-SM2; snRNP, core snRNP domain, RNA binding protein, unknown function; 1.95A {Archaeoglobus fulgidus} SCOP: b.38.1.1
Probab=76.40  E-value=2.7  Score=20.98  Aligned_cols=38  Identities=21%  Similarity=0.523  Sum_probs=29.4

Q ss_pred             HHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEE
Q ss_conf             99998710568898722668807899998512697-599996
Q gi|254780789|r  107 SDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEK  147 (192)
Q Consensus       107 ~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~  147 (192)
                      ...+.++|+.|.|+++   +|+..+.|+|.++|.. .+.|..
T Consensus         8 ~~L~~~~~~~V~V~Lk---~~~~~~~G~L~~~D~~mNivL~~   46 (77)
T 1ljo_A            8 QMVKSMVGKIIRVEMK---GEENQLVGKLEGVDDYMNLYLTN   46 (77)
T ss_dssp             HHHHHTTTSEEEEEET---TCSSEEEEEEEEECTTCCEEEEE
T ss_pred             HHHHHHCCCEEEEEEE---CCCEEEEEEEEEECCCCCEEEEE
T ss_conf             9998748997999996---89899999999995868879988


No 11 
>3fb9_A Uncharacterized protein; unknown function, structural genomics, MCSG, PSI2, protein structure initiative; 1.80A {Streptococcus pneumoniae TIGR4}
Probab=76.17  E-value=4  Score=19.89  Aligned_cols=68  Identities=16%  Similarity=0.304  Sum_probs=48.4

Q ss_pred             HHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCCEEEEEECCCC-CCCCCCCEEEEEHHHHHHCCEE
Q ss_conf             8999987105688987226688078999985126975999963554-5677772699768876517250
Q gi|254780789|r  106 KSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSETGFFLEKEKRG-EKDMNELQIAISFDSLLSARLI  173 (192)
Q Consensus       106 ~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~~i~l~~~~~~-~k~~~~~~v~ip~~~I~kAkLv  173 (192)
                      .+....++|+.|.++....=.....-.|+|.++=..-+++.++... ........++..|.+|---+..
T Consensus        17 K~~l~~~iG~~V~l~an~GRkK~~~r~GvL~etYPSvFvV~ld~~~~~~~~~~~rvSYSYsDvLT~~V~   85 (90)
T 3fb9_A           17 KEEIKAHEGQVVEMTLENGRKRQKNRLGKLIEVYPSLFIVEFGDVEGDKQVNVYVESFTYSDILTEKNL   85 (90)
T ss_dssp             HHHHHHTTTSEEEEEECCSSSCCSCEEEEEEEECSSEEEEEESCSTTSCCSSCEEEEEEHHHHHTTSEE
T ss_pred             HHHHHHHCCCEEEEEECCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCEEEEEEEEEEEECCCEE
T ss_conf             999997279889999638951279999999541562899997265677567548998886202316189


No 12 
>3cw1_F Small nuclear ribonucleoprotein F; PRE-mRNA splicing, spliceosome, RNA-binding domain, SM fold, zinc finger, RNA recognition motif; 5.49A {Homo sapiens}
Probab=75.95  E-value=3.3  Score=20.42  Aligned_cols=41  Identities=12%  Similarity=0.121  Sum_probs=29.4

Q ss_pred             CCCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEE
Q ss_conf             457899998710568898722668807899998512697-599996
Q gi|254780789|r  103 MVRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEK  147 (192)
Q Consensus       103 L~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~  147 (192)
                      +.-..-.+.++|+.|.|+|++    .+.+.|+|.++|+. .++|..
T Consensus         5 i~P~~~L~~~~~~~V~V~Lk~----g~~~~G~L~~~D~~mNlvL~~   46 (86)
T 3cw1_F            5 LNPKPFLNGLTGKPVMVKLKW----GMEYKGYLVSVDGYMNMQLAN   46 (86)
T ss_pred             CCHHHHHHHHCCCEEEEEECC----CCEEEEEEEECCCCCEEEEEE
T ss_conf             587999987289779999989----959999999846886079910


No 13 
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear protein; 1.45A {Homo sapiens}
Probab=75.89  E-value=2.3  Score=21.40  Aligned_cols=51  Identities=10%  Similarity=0.055  Sum_probs=33.4

Q ss_pred             HCCEEEEEEECCCCCEEEEEEEEEECCCCE--EEEEECCCCCCCCCCCEEEEEHHHHHH
Q ss_conf             105688987226688078999985126975--999963554567777269976887651
Q gi|254780789|r  113 NGHVVACEIVLSSGDKQKLIGKIMGTSETG--FFLEKEKRGEKDMNELQIAISFDSLLS  169 (192)
Q Consensus       113 ~G~~VkV~l~~~~~g~k~~~G~L~~v~~~~--i~l~~~~~~~k~~~~~~v~ip~~~I~k  169 (192)
                      .|..|.| +..+..|.   .|+|.+.+.+.  +.+.++..  .........+||++|.+
T Consensus        73 ~g~~V~V-v~G~~rG~---~g~L~~id~~~~~~~v~l~~~--~~~~~~v~~~~yddick  125 (127)
T 2ckk_A           73 PGKRILV-LNGGYRGN---EGTLESINEKTFSATIVIETG--PLKGRRVEGIQYEDISK  125 (127)
T ss_dssp             TTCEEEE-CSSTTTTC---EEEEEEEEGGGTEEEEEECSS--TTTTCEEEEEEGGGEEE
T ss_pred             CCCEEEE-EECCCCCC---EEEEEEEECCCCEEEEEECCC--CCCCCEEEECCHHHHHC
T ss_conf             9997999-84676785---899999934368899997158--87675897248899740


No 14 
>3cw1_A Small nuclear ribonucleoprotein-associated proteins B and B; PRE-mRNA splicing, spliceosome, RNA-binding domain, SM fold, zinc finger, RNA recognition motif; 5.49A {Homo sapiens}
Probab=74.49  E-value=4.4  Score=19.62  Aligned_cols=39  Identities=15%  Similarity=0.212  Sum_probs=28.0

Q ss_pred             CCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEE
Q ss_conf             57899998710568898722668807899998512697-59999
Q gi|254780789|r  104 VRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLE  146 (192)
Q Consensus       104 ~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~  146 (192)
                      .+......|+++.|+|++++   | +.|.|+|.++|.. +++|.
T Consensus         4 ~k~skL~~~InkrVrV~l~D---G-R~~vG~L~afD~~mNLVL~   43 (174)
T 3cw1_A            4 GKSSKMLQHIDYRMRCILQD---G-RIFIGTFKAFDKHMNLILC   43 (174)
T ss_pred             CCHHHHHHHCCCEEEEEEEC---C-EEEEEEEEEECCCCCEEEC
T ss_conf             73168998669979999809---9-4999999997674667624


No 15 
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*
Probab=73.94  E-value=3.2  Score=20.46  Aligned_cols=41  Identities=17%  Similarity=0.203  Sum_probs=30.3

Q ss_pred             CCCCCCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEE
Q ss_conf             774457899998710568898722668807899998512697-599996
Q gi|254780789|r  100 DRPMVRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEK  147 (192)
Q Consensus       100 dRpL~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~  147 (192)
                      ++||.   -.+.++|+.|.|++++    .+.+.|+|.++|.. .+.|..
T Consensus         3 ~~Pl~---lL~~~~~~~V~V~lk~----g~~~~G~L~~~D~~mNlvL~~   44 (75)
T 1h64_1            3 ERPLD---VIHRSLDKDVLVILKK----GFEFRGRLIGYDIHLNVVLAD   44 (75)
T ss_dssp             CCHHH---HHHTTTTSEEEEEETT----SEEEEEEEEEECTTCCEEEEE
T ss_pred             CCCHH---HHHHHCCCEEEEEECC----CCEEEEEEEEECCCCCEEEEE
T ss_conf             63379---9998689979999959----989999999997999879856


No 16 
>2e70_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=71.64  E-value=3.3  Score=20.41  Aligned_cols=50  Identities=16%  Similarity=0.075  Sum_probs=38.2

Q ss_pred             HHHHHCCEEEEEEECCCCCEEEEEEEEEECCCCEEEEEECCCCCCCCCCCEEEEEHHHHH
Q ss_conf             998710568898722668807899998512697599996355456777726997688765
Q gi|254780789|r  109 FLRWNGHVVACEIVLSSGDKQKLIGKIMGTSETGFFLEKEKRGEKDMNELQIAISFDSLL  168 (192)
Q Consensus       109 f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~~i~l~~~~~~~k~~~~~~v~ip~~~I~  168 (192)
                      ..+++|+.|+|+ ..|..|   +.|++..++++.+.+++....      ..+++|-+.+.
T Consensus        16 ~d~liGktV~I~-~GpyKG---~~G~Vkd~t~~~~rVELhs~~------K~V~V~r~~l~   65 (71)
T 2e70_A           16 DNELIGQTVRIS-QGPYKG---YIGVVKDATESTARVELHSTC------QTISVDRQRLT   65 (71)
T ss_dssp             TTSSTTSEEEEC-SSTTTT---CEEEEEEECSSCEEEEESSSC------CEEEECTTTEE
T ss_pred             CCCCCCCEEEEE-ECCCCC---EEEEEEECCCCEEEEEEECCC------EEEEEEHHHEE
T ss_conf             733358888996-637688---689999652887999981587------69998988804


No 17 
>1nz9_A Transcription antitermination protein NUSG; transcription elongation, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: b.34.5.4
Probab=71.29  E-value=5.2  Score=19.20  Aligned_cols=50  Identities=16%  Similarity=0.241  Sum_probs=36.7

Q ss_pred             HCCEEEEEEECCCCCEEEEEEEEEECCC--CEEEEEECCCCCCCCCCCEEEEEHHHHHHC
Q ss_conf             1056889872266880789999851269--759999635545677772699768876517
Q gi|254780789|r  113 NGHVVACEIVLSSGDKQKLIGKIMGTSE--TGFFLEKEKRGEKDMNELQIAISFDSLLSA  170 (192)
Q Consensus       113 ~G~~VkV~l~~~~~g~k~~~G~L~~v~~--~~i~l~~~~~~~k~~~~~~v~ip~~~I~kA  170 (192)
                      .|..|+| +..|..|   |.|++.+++.  ..+.+.++--++    +..+++++++|.||
T Consensus         7 ~Gd~V~V-~~GpF~g---~~g~V~~i~~~~~rv~Vll~ifGr----~t~vel~~~~veKA   58 (58)
T 1nz9_A            7 EGDQVRV-VSGPFAD---FTGTVTEINPERGKVKVMVTIFGR----ETPVELDFSQVVKA   58 (58)
T ss_dssp             TTCEEEE-CSGGGTT---CEEEEEEEETTTTEEEEEEESSSS----EEEEEECGGGEEEC
T ss_pred             CCCEEEE-ECCCCCC---CEEEEEEECCCCCEEEEEEEECCC----CCEEEECHHHEECC
T ss_conf             9999999-0368999---899999991889999999994499----82373698998709


No 18 
>1mgq_A SM-like protein; LSM, RNA-binding, archea, RNA binding protein; 1.70A {Methanothermobacterthermautotrophicus} SCOP: b.38.1.1 PDB: 1i81_A 1loj_A* 1jbm_A 1jri_A
Probab=69.50  E-value=5  Score=19.29  Aligned_cols=49  Identities=20%  Similarity=0.307  Sum_probs=34.1

Q ss_pred             EEEEECCC--CCCCCCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEE
Q ss_conf             99972788--774457899998710568898722668807899998512697-599996
Q gi|254780789|r   92 LEVSSPGI--DRPMVRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEK  147 (192)
Q Consensus        92 LEVSSPGi--dRpL~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~  147 (192)
                      +++||+=.  .+||..   .++++|+.|.|+|+   +| +.+.|+|.++|.. .+.|..
T Consensus         4 ~~~~~~~~~~~~Pl~~---L~~~~~k~V~V~Lk---~g-~~~~G~L~~~D~~mNlvL~~   55 (83)
T 1mgq_A            4 IDVSSQRVNVQRPLDA---LGNSLNSPVIIKLK---GD-REFRGVLKSFDLHMNLVLND   55 (83)
T ss_dssp             ------CCCTTCTTHH---HHHTTTSEEEEEET---TT-EEEEEEEEEECTTCCEEEEE
T ss_pred             EECCCCCCCCCCCHHH---HHHHCCCEEEEEEC---CC-CEEEEEEEEECCCCCEEEEE
T ss_conf             5324310135588899---99858997999987---99-99999999998999879845


No 19 
>1i8f_A Putative snRNP SM-like protein; beta barrel-like SMAP monomers form 35-stranded beta-sheet in the heptamer, structural genomics; 1.75A {Pyrobaculum aerophilum} SCOP: b.38.1.1 PDB: 1lnx_A*
Probab=69.38  E-value=4.5  Score=19.57  Aligned_cols=38  Identities=13%  Similarity=0.190  Sum_probs=29.3

Q ss_pred             HHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEE
Q ss_conf             899998710568898722668807899998512697-599996
Q gi|254780789|r  106 KSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEK  147 (192)
Q Consensus       106 ~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~  147 (192)
                      ..-.++++|+.|.|+|++   | +.+.|+|.++|.. .+.|..
T Consensus        13 ~~~L~~~l~k~V~V~lk~---g-~~~~G~L~~~D~~~NlvL~~   51 (81)
T 1i8f_A           13 GATLQDSIGKQVLVKLRD---S-HEIRGILRSFDQHVNLLLED   51 (81)
T ss_dssp             HHHHHTTTTSEEEEEEGG---G-EEEEEEEEEECTTCCEEEEE
T ss_pred             HHHHHHHCCCEEEEEECC---C-CEEEEEEEEECCCCCEEECC
T ss_conf             899998679979999889---9-59999999975756688637


No 20 
>1d3b_B Protein (small nuclear ribonucleoprotein associated protein B); snRNP, splicing, core snRNP domain, systemic lupus erythematosus, SLE; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1
Probab=67.86  E-value=4.9  Score=19.33  Aligned_cols=35  Identities=17%  Similarity=0.291  Sum_probs=27.0

Q ss_pred             HHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEE
Q ss_conf             998710568898722668807899998512697-599996
Q gi|254780789|r  109 FLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEK  147 (192)
Q Consensus       109 f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~  147 (192)
                      ..+|+|+.|.|++.    +.+.|.|+|.++|.. .+.|..
T Consensus         9 L~~~i~k~v~V~l~----dgR~~~G~L~~~D~~~NlVL~~   44 (91)
T 1d3b_B            9 MLQHIDYRMRCILQ----DGRIFIGTFKAFDKHMNLILCD   44 (91)
T ss_dssp             CGGGTTSEEEEEET----TCCEEEEEEEECCTTCCEEEEE
T ss_pred             HHHHCCCEEEEEEC----CCCEEEEEEEEECCCCCEEEEC
T ss_conf             89865997999987----9959999999998756888506


No 21 
>1i4k_A Putative snRNP SM-like protein; core snRNP domain, RNA binding protein; HET: CIT; 2.50A {Archaeoglobus fulgidus} SCOP: b.38.1.1 PDB: 1i5l_A*
Probab=66.93  E-value=5.1  Score=19.24  Aligned_cols=40  Identities=18%  Similarity=0.164  Sum_probs=29.1

Q ss_pred             CCCCCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEE
Q ss_conf             74457899998710568898722668807899998512697-599996
Q gi|254780789|r  101 RPMVRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEK  147 (192)
Q Consensus       101 RpL~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~  147 (192)
                      |||..   ...++|+.|.|++++   | +.+.|+|.++|.. .+.|..
T Consensus         4 ~Pl~~---L~~~~~k~V~V~lk~---g-~~~~G~L~~~D~~mNlvL~d   44 (77)
T 1i4k_A            4 RPLDV---LNRSLKSPVIVRLKG---G-REFRGTLDGYDIHMNLVLLD   44 (77)
T ss_dssp             CHHHH---HHTTTTSEEEEEETT---S-CEEEEEEEEECTTCCEEEEE
T ss_pred             CHHHH---HHHHCCCEEEEEECC---C-CEEEEEEEEECCCCCEEEEE
T ss_conf             65999---998589979999989---9-79999999997999769821


No 22 
>1d3b_A Protein (small nuclear ribonucleoprotein SM D3); snRNP, splicing, core snRNP domain, systemic lupus erythematosus, SLE; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1
Probab=63.07  E-value=7.2  Score=18.30  Aligned_cols=35  Identities=20%  Similarity=0.421  Sum_probs=27.1

Q ss_pred             HHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEE
Q ss_conf             998710568898722668807899998512697-599996
Q gi|254780789|r  109 FLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEK  147 (192)
Q Consensus       109 f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~  147 (192)
                      .+..+|+.|.|+|++    ...+.|+|.++|+. .+.|..
T Consensus        10 L~~~~g~~V~VeLk~----g~~~~G~L~~~D~~mNl~L~d   45 (75)
T 1d3b_A           10 LHEAEGHIVTCETNT----GEVYRGKLIEAEDNMNCQMSN   45 (75)
T ss_dssp             HHHTTTSEEEEEETT----SCEEEEEEEEECTTCCEEEEE
T ss_pred             HHHCCCCEEEEEECC----CCEEEEEEEEECCCEEEEEEE
T ss_conf             976689989999999----829999999886873899989


No 23 
>1th7_A SnRNP-2, small nuclear riboprotein protein; archaea, SM protein, SM fold, SS-SM1, RNA binding protein; 1.68A {Sulfolobus solfataricus} SCOP: b.38.1.1
Probab=58.05  E-value=9.4  Score=17.58  Aligned_cols=36  Identities=8%  Similarity=0.129  Sum_probs=27.6

Q ss_pred             HHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEE
Q ss_conf             9998710568898722668807899998512697-599996
Q gi|254780789|r  108 DFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEK  147 (192)
Q Consensus       108 ~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~  147 (192)
                      -...++|+.|.|+|++   | +.+.|+|.++|.. .+.|..
T Consensus        13 ~L~~~l~~~V~V~l~~---g-~~~~G~L~~~D~~mNlvL~~   49 (81)
T 1th7_A           13 VLAESLNNLVLVKLKG---N-KEVRGMLRSYDQHMNLVLSD   49 (81)
T ss_dssp             HHHHHTTSEEEEEETT---T-EEEEEEEEEECTTCCEEEEE
T ss_pred             HHHHHCCCEEEEEECC---C-CEEEEEEEEECCCCCEEECE
T ss_conf             9998779959999889---9-69999999995878439840


No 24 
>2ej9_A Putative biotin ligase; biotin biosynthesis, monomer, X-RAY diffraction, structural genomics, NPPSFA; HET: BTN; 2.00A {Methanocaldococcus jannaschii}
Probab=57.89  E-value=9.5  Score=17.56  Aligned_cols=42  Identities=17%  Similarity=0.251  Sum_probs=30.2

Q ss_pred             CCCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCCEEEEEEC
Q ss_conf             4578999987105688987226688078999985126975999963
Q gi|254780789|r  103 MVRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSETGFFLEKE  148 (192)
Q Consensus       103 L~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~~i~l~~~  148 (192)
                      +...+++..+.|+.|++.+.    +.+.+.|++.++++++..+..+
T Consensus       181 ~~~~~~~~~~~g~~v~v~~~----~~~~~~G~~~gI~~~G~Ll~~~  222 (237)
T 2ej9_A          181 LKKYKKYSITIGKQVKILLS----NNEIITGKVYDIDFDGIVLGTE  222 (237)
T ss_dssp             HHHHHHHBSSTTCEEEEEET----TSCEEEEEEEEECSSEEEEEET
T ss_pred             HHHHHHHHHHCCCEEEEEEC----CCEEEEEEEEEECCCCCEEEEC
T ss_conf             99999877667998999979----9919999999999998299979


No 25 
>2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=54.71  E-value=9.9  Score=17.43  Aligned_cols=49  Identities=16%  Similarity=0.175  Sum_probs=35.0

Q ss_pred             HCCEEEEEEECCCCCEEEEEEEEEECCCCEEEEEECCCCCCCCCCCEEEEEHHHHHH
Q ss_conf             105688987226688078999985126975999963554567777269976887651
Q gi|254780789|r  113 NGHVVACEIVLSSGDKQKLIGKIMGTSETGFFLEKEKRGEKDMNELQIAISFDSLLS  169 (192)
Q Consensus       113 ~G~~VkV~l~~~~~g~k~~~G~L~~v~~~~i~l~~~~~~~k~~~~~~v~ip~~~I~k  169 (192)
                      .|-.|.|--    ..++...|++.+++++.|++..+...-    ...+++|-.+.+|
T Consensus        10 ~GD~VeV~~----GEl~~l~G~V~~v~~d~Vti~p~~~~L----~~~l~fp~~~LrK   58 (59)
T 2e6z_A           10 PGDNVEVCE----GELINLQGKILSVDGNKITIMPKHEDL----KDMLEFPAQELRK   58 (59)
T ss_dssp             TTSEEEECS----STTTTCEEEECCCBTTEEEEEECCSSC----CSCEEEETTTEEE
T ss_pred             CCCEEEEEC----CEECCCEEEEEEECCCEEEEEECCCCC----CCCEEECHHHCCC
T ss_conf             999899922----676377999999729999997774035----8507607898734


No 26 
>3cw1_D Small nuclear ribonucleoprotein SM D3; PRE-mRNA splicing, spliceosome, RNA-binding domain, SM fold, zinc finger, RNA recognition motif; 5.49A {Homo sapiens}
Probab=52.91  E-value=11  Score=17.05  Aligned_cols=38  Identities=21%  Similarity=0.437  Sum_probs=28.3

Q ss_pred             CCCCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEE
Q ss_conf             4457899998710568898722668807899998512697-59999
Q gi|254780789|r  102 PMVRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLE  146 (192)
Q Consensus       102 pL~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~  146 (192)
                      ||+.   ....+|+.|.|+|+.    ...+.|+|.++|+. .++|.
T Consensus         6 Pl~l---L~~~~g~~V~VeLKn----g~~~~G~L~~~D~~MN~~L~   44 (126)
T 3cw1_D            6 PIKV---LHEAEGHIVTCETNT----GEVYRGKLIEAEDNMNCQMS   44 (126)
T ss_pred             HHHH---HHHHCCCEEEEEECC----CCEEEEEEEEECCCEEEEEE
T ss_conf             7999---997179989999899----84999999977285489997


No 27 
>3cw1_E Small nuclear ribonucleoprotein E; PRE-mRNA splicing, spliceosome, RNA-binding domain, SM fold, zinc finger, RNA recognition motif; 5.49A {Homo sapiens}
Probab=52.50  E-value=9.2  Score=17.64  Aligned_cols=40  Identities=18%  Similarity=0.256  Sum_probs=26.2

Q ss_pred             HHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEE
Q ss_conf             99998710568898722668807899998512697-59999
Q gi|254780789|r  107 SDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLE  146 (192)
Q Consensus       107 ~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~  146 (192)
                      .-..+|..+.+.|+..-...+.+++.|+|.++|+- .++|.
T Consensus        19 ~~l~k~l~~~~~v~V~v~~~~~~~i~G~L~g~D~~mNlvL~   59 (92)
T 3cw1_E           19 NLIFRYLQNRSRIQVWLYEQVNMRIEGCIIGFDEYMNLVLD   59 (92)
T ss_pred             HHHHHHHHHCCCEEEEEEECCCEEEEEEEEEEECCCEEEEE
T ss_conf             99999997278879999976991999999998034179981


No 28 
>2fwk_A U6 snRNA-associated SM-like protein LSM5; structural genomics, structural genomics consortium, SGC, DNA binding protein; 2.14A {Cryptosporidium parvum} SCOP: b.38.1.1
Probab=50.82  E-value=7.4  Score=18.23  Aligned_cols=35  Identities=14%  Similarity=0.215  Sum_probs=27.1

Q ss_pred             HHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEE
Q ss_conf             998710568898722668807899998512697-599996
Q gi|254780789|r  109 FLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEK  147 (192)
Q Consensus       109 f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~  147 (192)
                      ..+++|+.|.|+|++    .+.|.|+|.++|.. .+.|..
T Consensus        33 L~~~lgk~V~V~lkd----gr~~~G~L~~fD~~mNLvL~d   68 (121)
T 2fwk_A           33 IDKCIGNRIYVVMKG----DKEFSGVLRGFDEYVNMVLDD   68 (121)
T ss_dssp             HHHTBTSBCEEEETT----TEEECCEEEEECTTCCEEEES
T ss_pred             HHHHCCCEEEEEECC----CCEEEEEEEEECCCCCEEEEE
T ss_conf             998779879999879----989999999997768857852


No 29 
>1bia_A BIRA bifunctional protein; transcription regulation; 2.30A {Escherichia coli} SCOP: a.4.5.1 b.34.1.1 d.104.1.2 PDB: 1bib_A* 1hxd_A* 2ewn_A*
Probab=40.70  E-value=18  Score=15.87  Aligned_cols=44  Identities=18%  Similarity=0.253  Sum_probs=29.9

Q ss_pred             CCCCCCCCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCCEEEEE
Q ss_conf             8877445789999871056889872266880789999851269759999
Q gi|254780789|r   98 GIDRPMVRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSETGFFLE  146 (192)
Q Consensus        98 GidRpL~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~~i~l~  146 (192)
                      |...-+...+.+..+.|+.|.|..     +.+.+.|+..++++++-.+-
T Consensus       257 g~~~~~~~~~~~~~~~gk~V~v~~-----~~~~~~G~~~gId~~G~Liv  300 (321)
T 1bia_A          257 GLAPYLSRWEKLDNFINRPVKLII-----GDKEIFGISRGIDKQGALLL  300 (321)
T ss_dssp             TTGGGHHHHHHHBTTTTSEEEEEE-----TTEEEEEEEEEECTTSCEEE
T ss_pred             CHHHHHHHHHHHHCCCCCEEEEEE-----CCEEEEEEEEEECCCCEEEE
T ss_conf             969999999986332498699997-----99799999999998985999


No 30 
>2jvv_A Transcription antitermination protein NUSG; transcription factor, transcription regulation, transcription termination; NMR {Escherichia coli} PDB: 2k06_A 2kvq_G
Probab=40.13  E-value=18  Score=15.81  Aligned_cols=50  Identities=14%  Similarity=0.141  Sum_probs=35.7

Q ss_pred             HCCEEEEEEECCCCCEEEEEEEEEECCC--CEEEEEECCCCCCCCCCCEEEEEHHHHHHC
Q ss_conf             1056889872266880789999851269--759999635545677772699768876517
Q gi|254780789|r  113 NGHVVACEIVLSSGDKQKLIGKIMGTSE--TGFFLEKEKRGEKDMNELQIAISFDSLLSA  170 (192)
Q Consensus       113 ~G~~VkV~l~~~~~g~k~~~G~L~~v~~--~~i~l~~~~~~~k~~~~~~v~ip~~~I~kA  170 (192)
                      .|..|+| ...|..|   |.|.+..++.  ..+.+.++-=+    ....+++++++|.+|
T Consensus       130 ~Gd~V~I-~~GPf~g---~~g~v~~v~~~k~r~~V~l~i~G----r~~~v~v~~~~v~ka  181 (181)
T 2jvv_A          130 PGEMVRV-NDGPFAD---FNGVVEEVDYEKSRLKVSVSIFG----RATPVELDFSQVEKA  181 (181)
T ss_dssp             TTEEEEE-CSSTTTT---EEEEEEEEETTTTEEEEEEEETT----EEEEEEECTTTEEEC
T ss_pred             CCCEEEE-ECCCCCC---CEEEEEEEECCCCEEEEEEEECC----CCEEEEECHHHEEEC
T ss_conf             7988999-1368999---68999998077899999999679----956899878998809


No 31 
>2dgb_A Hypothetical protein PURS; purine, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.10A {Thermus thermophilus} PDB: 2cuw_A
Probab=39.69  E-value=18  Score=15.77  Aligned_cols=69  Identities=19%  Similarity=0.342  Sum_probs=43.9

Q ss_pred             CCCHHHHHHHHHHHHHHHCCCEEEEEEEECCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEE
Q ss_conf             4127999999999999747977999999549986899999658778789999999999875202113567650799972
Q gi|254780789|r   18 DMGLAGDISSVIQPVIEEMSFRSVQISLLEEKNLLLQIFVERDDGNMTLRDCEELSQAISPILDVENIIEGHYRLEVSS   96 (192)
Q Consensus        18 ~~~i~~~i~~li~p~v~~lG~eLv~v~~~~~~~~~LrI~ID~~dg~i~iddC~~vSr~i~~~LD~~d~i~~~Y~LEVSS   96 (192)
                      ++++-+.=-+.+...+..+||.+-+|.+-    +.+.+.++..+    -+++...-+.+...|  .+|+-+.|..||.+
T Consensus        13 K~gVlDPqG~aI~~aL~~lG~~v~~vr~G----K~iel~i~~~~----~e~a~~~~~~~~klL--aNpvIE~y~i~v~e   81 (84)
T 2dgb_A           13 KKGILDPQGRAVEGVLKDLGHPVEEVRVG----KVLEIVFPAEN----LLEAEEKAKAMGALL--ANPVMEVYALEALK   81 (84)
T ss_dssp             CTTSCCHHHHHHHHHHHHTTCCCSEEEEE----EEEEEEEECSS----HHHHHHHHHHHHHHH--SCTTTEEEEEEEEE
T ss_pred             CCCCCCCHHHHHHHHHHHCCCCCCEEEEE----EEEEEEECCCC----HHHHHHHHHHHHHHC--CCCCEEEEEEEEEE
T ss_conf             99772817999999999759985438976----69999985899----899999999998874--99734789999973


No 32 
>1m5q_A SMAP3, small nuclear ribonucleoprotein homolog, SM-like; OB-like fold, B-sheet toroid, 14-MER, cadmium-binding site, translation; 2.00A {Pyrobaculum aerophilum} SCOP: b.38.1.1
Probab=39.21  E-value=19  Score=15.73  Aligned_cols=58  Identities=9%  Similarity=0.135  Sum_probs=35.6

Q ss_pred             HHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEEECCCCCCCCCCCEEEEEHHHHHH
Q ss_conf             99998710568898722668807899998512697-5999963554567777269976887651
Q gi|254780789|r  107 SDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLEKEKRGEKDMNELQIAISFDSLLS  169 (192)
Q Consensus       107 ~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~~~~~~~k~~~~~~v~ip~~~I~k  169 (192)
                      ..+..++|+.|.|+|++    .+.+.|+|.++|+. .+.|......... .-..+-|-=+.|..
T Consensus         3 ~~L~~ligk~V~V~Lkn----G~~~~G~L~~~D~~mNlvL~~a~~~~~~-k~~~v~IRG~~I~~   61 (130)
T 1m5q_A            3 AELNNLLGREVQVVLSN----GEVYKGVLHAVDNQLNIVLANASNKAGE-KFNRVFIMYRYIVH   61 (130)
T ss_dssp             HHHHHTTTSEEEEEETT----SCEEEEEEEEECTTCCEEEEEEECTTCC-EEEEEEECGGGEEE
T ss_pred             HHHHHHCCCEEEEEECC----CCEEEEEEEEECCCCEEEEEEEEECCCC-CCCEEEEECCCEEE
T ss_conf             78887379879999989----9699999988669866899678986788-44449992783899


No 33 
>2pt7_G HP1451, hypothetical protein; ATPase, protein-protein complex, type IV secretion, hydrolase/protein binding complex; 2.40A {Helicobacter pylori 26695}
Probab=36.55  E-value=20  Score=15.47  Aligned_cols=68  Identities=12%  Similarity=0.117  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHHHHHCCCEEEEEEEECCCCCEEEEEEECCCC-------CCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEE
Q ss_conf             99999999999974797799999954998689999965877-------87899999999998752021135676507999
Q gi|254780789|r   22 AGDISSVIQPVIEEMSFRSVQISLLEEKNLLLQIFVERDDG-------NMTLRDCEELSQAISPILDVENIIEGHYRLEV   94 (192)
Q Consensus        22 ~~~i~~li~p~v~~lG~eLv~v~~~~~~~~~LrI~ID~~dg-------~i~iddC~~vSr~i~~~LD~~d~i~~~Y~LEV   94 (192)
                      .+.+.+.++.+++.+|+++--+++....+.++.+-++.++-       |=+|+...-+.+.+-..-  .   +...+|+|
T Consensus         4 i~evke~Le~lL~~mg~~~~~~~v~~~~~~~i~i~i~g~d~~~LIGk~G~tL~AlQ~L~~~~vn~~--~---~~~v~lDi   78 (152)
T 2pt7_G            4 LHEIKQELKDLFSHLPYKINKVEVSLYEPGVLLIDIDGEDSALLIGEKGYRYKALSYLLFNWIHPT--Y---GYSIRLEI   78 (152)
T ss_dssp             HHHHHHHHHHHTTTTTCCEEEEEEEEEETTEEEEEEEEGGGTTTTCGGGHHHHHHHHHHHHHHHHH--H---SCEEEEEE
T ss_pred             HHHHHHHHHHHHHHCCCCCEEEEEEECCCCEEEEEECCCCHHHHHCCCCCCHHHHHHHHHHHHHHC--C---CEEEEEEH
T ss_conf             999999999999977997269998633797799997687355463779643799999999998525--7---91699858


No 34 
>3bpp_A 1510-N membrane protease; specific for A stomatin homolog, archaea, thermostable, catalytic DYAD, hydrolase; 2.30A {Pyrococcus horikoshii} PDB: 2deo_A
Probab=34.41  E-value=22  Score=15.25  Aligned_cols=56  Identities=18%  Similarity=0.210  Sum_probs=35.3

Q ss_pred             CCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCCCCHHHHHH
Q ss_conf             986899999658778789999999999875202113567650799972788774457899998
Q gi|254780789|r   49 KNLLLQIFVERDDGNMTLRDCEELSQAISPILDVENIIEGHYRLEVSSPGIDRPMVRKSDFLR  111 (192)
Q Consensus        49 ~~~~LrI~ID~~dg~i~iddC~~vSr~i~~~LD~~d~i~~~Y~LEVSSPGidRpL~~~~~f~r  111 (192)
                      ++.+..|-|   +|.|+-..+..+.+.+...-|. +  ...-.|.|.|||-. +.-...=+..
T Consensus         7 ~~~V~vi~i---~G~I~~~~~~~i~~~l~~a~~~-~--~kaivL~IdSPGG~-v~~~~~I~~~   62 (230)
T 3bpp_A            7 KNIVYVAQI---KGQITSYTYDQFDRYITIAEQD-N--AEAIIIELDTPGGR-ADAMMNIVQR   62 (230)
T ss_dssp             CSEEEEEEE---ESSBCHHHHHHHHHHHHHHHHT-T--CSEEEEEEEBSCBC-HHHHHHHHHH
T ss_pred             CCEEEEEEE---EEEECHHHHHHHHHHHHHHHHC-C--CCEEEEEEECCCCC-HHHHHHHHHH
T ss_conf             897999998---7688869999999999999768-9--98699998598818-9999999999


No 35 
>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemic lupus erythematosus, SLE; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 3cw1_B
Probab=31.45  E-value=25  Score=14.95  Aligned_cols=36  Identities=17%  Similarity=0.260  Sum_probs=26.8

Q ss_pred             HHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCC-EEEEE
Q ss_conf             99998710568898722668807899998512697-59999
Q gi|254780789|r  107 SDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSET-GFFLE  146 (192)
Q Consensus       107 ~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~-~i~l~  146 (192)
                      +=+++..|+.|.|+|++   | ..+.|+|.++|+. .+.|.
T Consensus         5 ~fL~kl~g~~VtVELKn---G-~~~~G~L~~vD~~MNl~L~   41 (119)
T 1b34_A            5 RFLMKLSHETVTIELKN---G-TQVHGTITGVDVSMNTHLK   41 (119)
T ss_dssp             HHHHTCTTCEEEEEETT---C-CEEEEEEEEECTTCCEEEE
T ss_pred             HHHHHCCCCEEEEEECC---C-CEEEEEEEEECCCEEEEEE
T ss_conf             99986699869999889---9-6999999998598869998


No 36 
>2eay_A Biotin [acetyl-COA-carboxylase] ligase; biotin biosynthesis, dimer, X-RAY diffraction, structural genomics, NPPSFA; 1.95A {Aquifex aeolicus} PDB: 3efs_A* 3fjp_A 3efr_A*
Probab=29.10  E-value=27  Score=14.70  Aligned_cols=46  Identities=22%  Similarity=0.203  Sum_probs=29.4

Q ss_pred             CCCCCCCCHHHHHHHHCCEEEEEEECCCCCEEEEEEEEEECCCCEEEEEECC
Q ss_conf             8877445789999871056889872266880789999851269759999635
Q gi|254780789|r   98 GIDRPMVRKSDFLRWNGHVVACEIVLSSGDKQKLIGKIMGTSETGFFLEKEK  149 (192)
Q Consensus        98 GidRpL~~~~~f~r~~G~~VkV~l~~~~~g~k~~~G~L~~v~~~~i~l~~~~  149 (192)
                      |.+.-+....++-.++|+.|.|.      +...+.|++.++++++-.+-...
T Consensus       172 ~~~~i~~~~~~~~~~~gq~V~v~------~~~~i~G~~~GId~~G~Lil~~~  217 (233)
T 2eay_A          172 SFKEFKGKIESKMLYLGEEVKLL------GEGKITGKLVGLSEKGGALILTE  217 (233)
T ss_dssp             CGGGTHHHHHHHBTTTTSEEEET------TEEEEEEEEEEECTTSCEEEEET
T ss_pred             CHHHHHHHHHHHHHHCCCEEEEC------CCCEEEEEEEEECCCCCEEEEEC
T ss_conf             88999999999985479889996------69989999999989997899989


No 37 
>1tt9_A Formimidoyltransferase-cyclodeaminase (formiminotransferase- cyclodeaminase) (FTCD)...; hepatitis autoantigen, intermediate channeling; 3.42A {Rattus norvegicus} PDB: 2pfd_A
Probab=27.61  E-value=24  Score=15.06  Aligned_cols=60  Identities=8%  Similarity=0.076  Sum_probs=34.1

Q ss_pred             CCEEEEEEEECCCCCEE---EEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEC
Q ss_conf             97799999954998689---99996587787899999999998752021135676507999727
Q gi|254780789|r   37 SFRSVQISLLEEKNLLL---QIFVERDDGNMTLRDCEELSQAISPILDVENIIEGHYRLEVSSP   97 (192)
Q Consensus        37 G~eLv~v~~~~~~~~~L---rI~ID~~dg~i~iddC~~vSr~i~~~LD~~d~i~~~Y~LEVSSP   97 (192)
                      -+++.|++.+.+.++.+   -+.--.|=+++|+++|..+++.+...+-.+--+|- |.-+-+.+
T Consensus        69 A~~~IDm~~H~G~HPR~GavDv~pf~Pl~~~t~eec~~~A~~~~~~i~~~l~vPv-flYg~aa~  131 (541)
T 1tt9_A           69 ASQLIDMRKHKGEHPRMGALDVCPFIPVRGVSMDECVLCAKAFGQRLAEELNVPV-YLYGEAAQ  131 (541)
T ss_pred             HHHHCCCCCCCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHCCCCE-EEEHHHCC
T ss_conf             9985575557787998984252311228999999999999999999986269876-85253148


No 38 
>2f5g_A Transposase, putative; dimer, stem-loop binding, gene regulation; 1.70A {Sulfolobus solfataricus} SCOP: d.58.57.1 PDB: 2f4f_A 2ec2_A
Probab=24.54  E-value=33  Score=14.19  Aligned_cols=102  Identities=11%  Similarity=0.146  Sum_probs=65.1

Q ss_pred             HCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEEEECCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHH-HCCC-
Q ss_conf             01133376100141279999999999997479779999995499868999996587787899999999998752-0211-
Q gi|254780789|r    6 FLHSKYEPRIFGDMGLAGDISSVIQPVIEEMSFRSVQISLLEEKNLLLQIFVERDDGNMTLRDCEELSQAISPI-LDVE-   83 (192)
Q Consensus         6 ~~~~~~~~r~~~~~~i~~~i~~li~p~v~~lG~eLv~v~~~~~~~~~LrI~ID~~dg~i~iddC~~vSr~i~~~-LD~~-   83 (192)
                      .++++|-...+.. .+.+++.+++..+++..|++++.+++...-   +-+++.-+- .+++.++...=+..|.. +-.+ 
T Consensus        18 V~~tKyR~~vl~~-ei~~~l~~~i~~i~~~~~~~i~~~~~~~DH---VHllv~~~p-~~svs~~v~~lKg~Ssr~i~~~~   92 (133)
T 2f5g_A           18 VWIPKHRRNTLVN-EIAEYTKEVLKSIAEELGCEIIALEVMPDH---IHLFVNCPP-RYAPSYLANYFKGKSARLILKKF   92 (133)
T ss_dssp             EECBSSCTTCSCH-HHHHHHHHHHHHHHHHHTCEEEEEEEETTE---EEEEEECCT-TSCHHHHHHHHHHHHHHHHHHHC
T ss_pred             EEEECCCCHHCCH-HHHHHHHHHHHHHHHHCCCEEEEEEECCCE---EEEEEECCC-CCCHHHHHHHHHHHHHHHHHHHC
T ss_conf             9933464233287-899999999999998649278998752997---999995189-77999999985346579999978


Q ss_pred             ------CCCCCCCEEEEEECCCCCCCCCHHHHHHHHCC
Q ss_conf             ------35676507999727887744578999987105
Q gi|254780789|r   84 ------NIIEGHYRLEVSSPGIDRPMVRKSDFLRWNGH  115 (192)
Q Consensus        84 ------d~i~~~Y~LEVSSPGidRpL~~~~~f~r~~G~  115 (192)
                            ..-...|.  ++|-|- ..+-..++|.++.+.
T Consensus        93 p~l~~~~~W~~gy~--~~svg~-~~~~~i~~YI~~Q~~  127 (133)
T 2f5g_A           93 PQLNKGKLWTRSYF--VATAGN-VSSEVIKKYIEEQWR  127 (133)
T ss_dssp             GGGCSSCSBCSCEE--EEEEBC-CCHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCEE--EEECCC-CCHHHHHHHHHHHCC
T ss_conf             13237875468727--981689-999999999997283


No 39 
>1msc_A Bacteriophage MS2 coat protein; translation repressor, viral protein; 2.00A {Enterobacterio phage MS2} SCOP: d.85.1.1 PDB: 2bu1_A* 1u1y_A 1zdi_A 1zdj_A 1zdk_A 1zdh_A* 2c4q_A* 2c4y_A* 2c4z_A* 2c50_A 2c51_A 2iz8_A 2iz9_A* 2izm_A 2izn_A 2ms2_A 5msf_A 6msf_A 7msf_A 1aq3_A ...
Probab=24.07  E-value=22  Score=15.23  Aligned_cols=26  Identities=31%  Similarity=0.390  Sum_probs=20.3

Q ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             78999999999987520211356765
Q gi|254780789|r   64 MTLRDCEELSQAISPILDVENIIEGH   89 (192)
Q Consensus        64 i~iddC~~vSr~i~~~LD~~d~i~~~   89 (192)
                      -+-|||+-+++++...|..-+||+++
T Consensus        96 at~dd~~li~kal~glfk~gnpia~a  121 (129)
T 1msc_A           96 ATNSDCELIVKAMQGLLKDGNPIPSA  121 (129)
T ss_dssp             CCHHHHHHHHHHHHHHTCTTSHHHHH
T ss_pred             ECCCCHHHHHHHHHHHHHCCCCHHHH
T ss_conf             61886312799856675059863787


No 40 
>1gtd_A MTH169; synthetase, FGAM synthetase, purine synthesis pathway, PSI, protein structure initiative, NESG; 2.56A {Methanobacterium thermoautotrophicum} SCOP: d.284.1.1
Probab=23.45  E-value=34  Score=14.06  Aligned_cols=69  Identities=12%  Similarity=0.257  Sum_probs=41.1

Q ss_pred             CCCHHHHHHHHHHHHHHHCCCEEEEEEEECCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEE
Q ss_conf             412799999999999974797799999954998689999965877878999999999987520211356765079997
Q gi|254780789|r   18 DMGLAGDISSVIQPVIEEMSFRSVQISLLEEKNLLLQIFVERDDGNMTLRDCEELSQAISPILDVENIIEGHYRLEVS   95 (192)
Q Consensus        18 ~~~i~~~i~~li~p~v~~lG~eLv~v~~~~~~~~~LrI~ID~~dg~i~iddC~~vSr~i~~~LD~~d~i~~~Y~LEVS   95 (192)
                      ++++-+.--+.+...+..+||.+-+|...  +  .+.+.++.+    +-+.+..--..+...| -.+|+-+.|..++.
T Consensus        12 K~gVlDPqG~av~~aL~~lG~~v~~vr~g--K--~~~l~~~~~----~~e~a~~~v~~~c~~l-LaNpvIE~y~i~i~   80 (85)
T 1gtd_A           12 KKGMLNPEAATIERALALLGYEVEDTDTT--D--VITFTMDED----SLEAVEREVEDMCQRL-LCNPVIHDYDVSIN   80 (85)
T ss_dssp             CTTSCCHHHHHHHHHHHHHTCCCEEEEEE--E--EEEEEECCS----CHHHHHHHHHHHHHHT-TCCTTTEEEEEEEE
T ss_pred             CCCCCCCHHHHHHHHHHHCCCCCCEEEEE--E--EEEEEECCC----CHHHHHHHHHHHHHHH-CCCCCEEEEEEEEE
T ss_conf             99870837999999999759963048998--8--999997789----9899999999999986-39866578999999


No 41 
>2vjv_A Transposase ORFA; DNA-binding protein, protein-DNA complex, HUH motif, DNA stem loop, transposition; 1.90A {Helicobacter pylori} SCOP: d.58.57.1 PDB: 2vhg_A 2vic_A 2vju_A 2vih_A 2a6m_A 2a6o_A
Probab=23.15  E-value=35  Score=14.02  Aligned_cols=103  Identities=11%  Similarity=0.223  Sum_probs=66.5

Q ss_pred             HCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEEEECCCCCEEEEEEECCCCCCCHHHHHHHHHH-----HHHHH
Q ss_conf             0113337610014127999999999999747977999999549986899999658778789999999999-----87520
Q gi|254780789|r    6 FLHSKYEPRIFGDMGLAGDISSVIQPVIEEMSFRSVQISLLEEKNLLLQIFVERDDGNMTLRDCEELSQA-----ISPIL   80 (192)
Q Consensus         6 ~~~~~~~~r~~~~~~i~~~i~~li~p~v~~lG~eLv~v~~~~~~~~~LrI~ID~~dg~i~iddC~~vSr~-----i~~~L   80 (192)
                      .++++|-..++.. .+.+++.+++..+++..|++++.+++...-   +-++++-+- .+++-++...=+.     |-..+
T Consensus        26 V~~tKyR~~vl~~-~v~~~l~~~i~~i~~~~~~~i~~~~~~~DH---VHllv~~~p-~~sis~~v~~lKg~SSr~l~k~f  100 (159)
T 2vjv_A           26 VWCPKYRRKVLVG-AVEMRLKEIIQEVAKELRVEIIEMQTDKDH---IHILADIDP-SFGVMKFIKTAKGRSSRILRQEF  100 (159)
T ss_dssp             EECBGGGCCCCSH-HHHHHHHHHHHHHHHHTTCEEEEEEEETTE---EEEEEECCT-TTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             EEEECCCCHHCCH-HHHHHHHHHHHHHHHHCCCCEEECCCCCCE---EEEEEECCC-CCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             9930566432487-899999999999998609804662436982---799996188-74268999988608899999998


Q ss_pred             C----CCC-CCCCCCEEEEEECCCCCCCCCHHHHHHHHCCE
Q ss_conf             2----113-56765079997278877445789999871056
Q gi|254780789|r   81 D----VEN-IIEGHYRLEVSSPGIDRPMVRKSDFLRWNGHV  116 (192)
Q Consensus        81 D----~~d-~i~~~Y~LEVSSPGidRpL~~~~~f~r~~G~~  116 (192)
                      .    ... +-...|.  |+|-|- ..+-..++|..+.+..
T Consensus       101 p~l~~~~~~~Ws~gYf--~~SvG~-~~~e~Ik~YI~nQ~~~  138 (159)
T 2vjv_A          101 NHLKTKLPTLWTNSCF--ISTVGG-APLNVVKQYIENQQNS  138 (159)
T ss_dssp             HHHHHSCSCSBCSCEE--EEEECS-SCHHHHHHHHTC----
T ss_pred             HHHHHHHCCCCCCCEE--EEECCC-CCHHHHHHHHHHHCCC
T ss_conf             6777766064689778--992189-9899999999960520


No 42 
>1dpg_A G6PD, glucose 6-phosphate dehydrogenase; oxidoreductase, NADP/NAD, glucose metabolism, oxidoreductase (CHOH(D) - NAD(P)); 2.00A {Leuconostoc mesenteroides} SCOP: c.2.1.3 d.81.1.5 PDB: 1e7y_A* 1e7m_A* 1h93_A 1h94_A* 1h9a_A* 1e77_A* 1h9b_A 2dpg_A*
Probab=22.20  E-value=36  Score=13.90  Aligned_cols=39  Identities=18%  Similarity=0.346  Sum_probs=31.8

Q ss_pred             CEEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCC-CCCC
Q ss_conf             689999965877878999999999987520211356-7650
Q gi|254780789|r   51 LLLQIFVERDDGNMTLRDCEELSQAISPILDVENII-EGHY   90 (192)
Q Consensus        51 ~~LrI~ID~~dg~i~iddC~~vSr~i~~~LD~~d~i-~~~Y   90 (192)
                      ..-||.+++|-| -+++.|..+++.|...++++.++ -++|
T Consensus       140 ~~~RvviEKPfG-~dl~Sa~~Ln~~l~~~f~E~qIyRIDHY  179 (485)
T 1dpg_A          140 GYNRLMIEKPFG-TSYDTAAELQNDLENAFDDNQLFRIDHY  179 (485)
T ss_dssp             SCEEEEECSCCC-SSHHHHHHHHHHHTTTCCGGGEEECCGG
T ss_pred             CCEEEEEECCCC-CCCCCHHHHHHHHHHHCCHHHHCCCHHH
T ss_conf             753578624775-7731689999999976297760351122


No 43 
>1c1y_B Proto-onkogene serine/threonine protein kinase RAF-1; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: d.15.1.5 PDB: 1gua_B* 1rfa_A 3kud_B* 3kuc_B*
Probab=21.96  E-value=37  Score=13.87  Aligned_cols=53  Identities=21%  Similarity=0.344  Sum_probs=38.4

Q ss_pred             CCCHHHHHHHHHHHHHHHCCCCCCCCC---CEEEEEECCCCCCCCCHHHHHHHHCCEEEEEE
Q ss_conf             878999999999987520211356765---07999727887744578999987105688987
Q gi|254780789|r   63 NMTLRDCEELSQAISPILDVENIIEGH---YRLEVSSPGIDRPMVRKSDFLRWNGHVVACEI  121 (192)
Q Consensus        63 ~i~iddC~~vSr~i~~~LD~~d~i~~~---Y~LEVSSPGidRpL~~~~~f~r~~G~~VkV~l  121 (192)
                      |.++.||      ++..|+.-.+-.+.   |.+...+.|-+.|+--..|-....|+.+.|++
T Consensus        21 G~tlrd~------L~k~l~kRgl~~~~c~V~~~~~~~~g~~~~l~~d~d~s~L~g~El~Ve~   76 (77)
T 1c1y_B           21 GMSLHDC------LMKALKVRGLQPECCAVFRLLHEHKGKKARLDWNTDAASLIGEELQVDF   76 (77)
T ss_dssp             TCBHHHH------HHHHHHTTTCCGGGEEEEEEEGGGSSEEEEECTTSBGGGGTTCEEEEEE
T ss_pred             CCCHHHH------HHHHHHHCCCCHHHEEEEEECCCCCCCCCCCCCCCCCCCCCCCEEEEEE
T ss_conf             9899999------9999987599967889998424457887410247620111587799996


No 44 
>1wwj_A Circadian clock protein KAIB; 1.90A {Synechocystis SP} PDB: 1r5p_A 2qke_A 1vgl_A
Probab=20.38  E-value=40  Score=13.67  Aligned_cols=44  Identities=20%  Similarity=0.330  Sum_probs=29.2

Q ss_pred             CCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCC
Q ss_conf             986899999658778789999999999875202113567650799972788
Q gi|254780789|r   49 KNLLLQIFVERDDGNMTLRDCEELSQAISPILDVENIIEGHYRLEVSSPGI   99 (192)
Q Consensus        49 ~~~~LrI~ID~~dg~i~iddC~~vSr~i~~~LD~~d~i~~~Y~LEVSSPGi   99 (192)
                      +.++|+.|+.+.. .-+.....++.+.+...      .++.|.|||--..-
T Consensus         6 ~~y~L~LyVaG~t-p~S~~ai~nl~~ice~~------l~g~y~LeVIDv~~   49 (105)
T 1wwj_A            6 KTYVLKLYVAGNT-PNSVRALKMLKNILEQE------FQGVYALKVIDVLK   49 (105)
T ss_dssp             EEEEEEEEESSCC-HHHHHHHHHHHHHHHHH------HTTSEEEEEEETTT
T ss_pred             CCEEEEEEEECCC-HHHHHHHHHHHHHHHHH------CCCCEEEEEEECCC
T ss_conf             6369999980898-37899999999999986------69967999987333


No 45 
>2bh9_A G6PD, glucose-6-phosphate 1-dehydrogenase; oxidoreductase, oxidoreductase (CHOH(D)-NADP), carbohydrate metabolism, glucose metabolism; HET: NAP; 2.5A {Homo sapiens} PDB: 2bhl_A* 1qki_A*
Probab=20.08  E-value=40  Score=13.63  Aligned_cols=34  Identities=29%  Similarity=0.427  Sum_probs=29.3

Q ss_pred             EEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             89999965877878999999999987520211356
Q gi|254780789|r   52 LLQIFVERDDGNMTLRDCEELSQAISPILDVENII   86 (192)
Q Consensus        52 ~LrI~ID~~dg~i~iddC~~vSr~i~~~LD~~d~i   86 (192)
                      ..||.+++|=| -+++.+..+++.|...++++.++
T Consensus       138 ~~RvVvEKPFG-~Dl~SA~~ln~~l~~~f~E~qIy  171 (489)
T 2bh9_A          138 WNRIIVEKPFG-RDLQSSDRLSNHISSLFREDQIY  171 (489)
T ss_dssp             CEEEEECSCSC-SSHHHHHHHHHHHTTTSCGGGEE
T ss_pred             CCEEEEECCCC-CCHHHHHHHHHHHHHHCCCHHHC
T ss_conf             71488845877-86688999999999756913320


Done!