Query         gi|254780868|ref|YP_003065281.1| birA bifunctional protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 252
No_of_seqs    159 out of 2775
Neff          8.1 
Searched_HMMs 13730
Date          Wed Jun  1 10:28:31 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780868.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 d1biaa3 d.104.1.2 (A:64-270) B 100.0       0       0  337.6  12.9  188   13-204    15-206 (207)
  2 d2zgwa2 d.104.1.2 (A:1-188) Bi 100.0       0       0  311.9  15.8  179   11-205     8-187 (188)
  3 d1biaa2 b.34.1.1 (A:271-317) B  98.5 7.2E-08 5.2E-12   65.8   6.1   45  206-251     1-45  (47)
  4 d2zgwa1 b.34.1.1 (A:189-235) B  97.3 0.00024 1.7E-08   43.8   6.0   41  209-250     2-42  (47)
  5 d2p0la1 d.104.1.3 (A:4-272) Li  97.3 0.00027   2E-08   43.5   6.1  138   39-184    52-243 (269)
  6 d1vqza2 d.104.1.3 (A:1-241) Lp  97.3  0.0012 8.9E-08   39.4   9.2  123   54-187    70-212 (241)
  7 d2p5ia1 d.104.1.3 (A:14-278) H  96.8  0.0014   1E-07   39.1   5.9  122   54-184    79-234 (265)
  8 d1x2ga2 d.104.1.3 (A:1-246) Tw  96.5   0.018 1.3E-06   32.1   9.8  120   52-185    70-212 (246)
  9 d2c8ma1 d.104.1.3 (A:1-256) Li  96.0   0.023 1.6E-06   31.5   8.3  123   52-185    72-223 (256)
 10 d1w66a1 d.104.1.3 (A:1-216) Li  95.2   0.049 3.6E-06   29.4   7.7  123   53-185    75-212 (216)
 11 d2ddza1 d.104.1.4 (A:3-190) Un  91.2    0.18 1.3E-05   25.8   5.2   91   84-185    85-175 (188)
 12 d1d3bb_ b.38.1.1 (B:) B core S  87.7    0.43 3.2E-05   23.5   4.9   35  203-237     3-38  (81)
 13 d1h641_ b.38.1.1 (1:) Archaeal  84.9    0.98 7.1E-05   21.3   5.5   46  205-251     9-59  (71)
 14 d1i4k1_ b.38.1.1 (1:) Archaeal  83.4    0.94 6.8E-05   21.4   4.8   46  205-251    10-60  (72)
 15 d1th7a1 b.38.1.1 (A:3-78) Arch  82.5     1.2 8.8E-05   20.7   5.2   45  205-251    14-64  (76)
 16 d1i8fa_ b.38.1.1 (A:) Archaeal  82.1     1.1 8.2E-05   20.9   4.8   34  205-238     9-43  (71)
 17 d1mgqa_ b.38.1.1 (A:) Archaeal  81.0     1.5 0.00011   20.2   6.8   46  205-251    13-63  (74)
 18 d1d3ba_ b.38.1.1 (A:) D3 core   76.8       2 0.00014   19.4   6.8   45  205-251     9-59  (72)
 19 d1ljoa_ b.38.1.1 (A:) Archaeal  75.8     2.1 0.00015   19.3   7.0   47  205-251    12-63  (75)
 20 d2fwka1 b.38.1.1 (A:24-115) U6  72.7       2 0.00014   19.4   3.9   34  206-239    13-47  (92)
 21 d2qqra2 b.34.9.1 (A:956-1011)   71.5     1.8 0.00013   19.6   3.4   46  207-252     4-50  (56)
 22 d1b34a_ b.38.1.1 (A:) D1 core   66.5     3.4 0.00025   17.9   5.5   45  205-251     8-58  (80)
 23 d1n9ra_ b.38.1.1 (A:) Small nu  65.1     3.6 0.00026   17.8   5.0   34  205-238     3-38  (68)
 24 d1m5q1_ b.38.1.1 (1:) Sm-Like   51.8       6 0.00044   16.4   6.3   31  206-236     8-39  (127)
 25 d1o5ua_ b.82.1.8 (A:) Hypothet  47.5       4 0.00029   17.5   1.7   22  230-251    44-65  (88)
 26 d2d6fa1 b.38.3.1 (A:2-73) Glut  40.6       9 0.00065   15.3   5.3   51  195-245     5-58  (72)
 27 d1b34b_ b.38.1.1 (B:) D2 core   31.8      12  0.0009   14.4   5.6   34  205-238    11-45  (93)
 28 d1ib8a1 b.38.2.1 (A:91-164) Hy  21.7      19  0.0014   13.3   6.1   35  201-236     7-46  (74)

No 1  
>d1biaa3 d.104.1.2 (A:64-270) Biotin repressor/biotin holoenzyme synthetase, catalytic (central) domain {Escherichia coli [TaxId: 562]}
Probab=100.00  E-value=0  Score=337.63  Aligned_cols=188  Identities=28%  Similarity=0.435  Sum_probs=166.8

Q ss_pred             CEEEEEEECCCCHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCHHCCCHHHHHHHH
Q ss_conf             7049998164856899999997399997899982446783679985316633-334132235322400021013779999
Q gi|254780868|r   13 SFRYEFFDTISSTNDECMKRALSGDLGNLWIVASCQTAGRGRRDNKWISDKG-NLYASLLLIDSISKDSLTLLSFAIAVA   91 (252)
Q Consensus        13 ~~~i~~~~~~~STn~~~~~~~~~~~~~~~~v~A~~Qt~GrGr~gr~W~s~~G-~l~~S~~~~~~~~~~~~~~l~~~~~~a   91 (252)
                      ++++.+||++||||+++++++.+. +++++|+|++||+||||+||.|+||+| +||+|++++++.+....+.+++++|+|
T Consensus        15 ~~~i~~~~~i~STn~~~~~~~~~~-~~~~vv~A~~QT~GrGR~gr~W~S~~G~~l~~S~~~~~~~~~~~~~~l~~~~~la   93 (207)
T d1biaa3          15 GGSVAVLPVIDSTNQYLLDRIGEL-KSGDACIAEYQQAGRGRRGRKWFSPFGANLYLSMFWRLEQGPAAAIGLSLVIGIV   93 (207)
T ss_dssp             SSCEEECSSBSCHHHHHHTTGGGC-CTTCEEEESCBTTC---------CCTTSEEEEEEEEEECC-CCCTHHHHHHHHHH
T ss_pred             CCCEEEEECCCCHHHHHHHHHHCC-CCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             985899802484999999861437-9984999893456788699824466566654122100246704431034577888


Q ss_pred             HHHHHHHHCCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCC--CC-CCCCCCCCCCCCCC
Q ss_conf             9999997445421024621465067102211222233232258326765215444446422--33-65321002367789
Q gi|254780868|r   92 MRSVIASTLPVGTDVKIKWPNDILVFQRKIAGILIETLNLKNGLQAVVVGIGLNVKHCPVD--TP-YPVTSLQREGGCID  168 (252)
Q Consensus        92 i~~~l~~~~~~~~~~~iKWPNDi~~~~kKi~GIL~E~~~~~~~~~~~viGiGiNi~~~~~~--~~-~~~tsL~~~~~~~~  168 (252)
                      ++++++.+.  +.++++|||||||+++||+||||+|+....+...++|||||||++..+.+  .+ .+++++.+.+..++
T Consensus        94 v~~~l~~~~--~~~~~iKWPNDIl~~~kKi~GIL~E~~~~~~~~~~vviGiGiNv~~~~~~~~~~~~~~s~l~~~~~~i~  171 (207)
T d1biaa3          94 MAEVLRKLG--ADKVRVKWPNDLYLQDRKLAGILVELTGKTGDAAQIVIGAGINMAMRRVEESVVNQGWITLQEAGINLD  171 (207)
T ss_dssp             HHHHHHHTT--CTTCEEETTTEEEETTEEEEEEEEEEEC----CEEEEEEEEEECCC-----------CCCTTTTTCCCC
T ss_pred             HHHHHHHCC--CCEEEEEECHHHHCCCCCCCCCEEEEEECCCCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHHHCCCCC
T ss_conf             888876314--530335533155458875104147777516872113541033323688860001012578998689999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf             789998777999999998730355648899999875
Q gi|254780868|r  169 LKDIFSLLFQDVARVLDLWKKDTGREEIMNLWRCFA  204 (252)
Q Consensus       169 ~~~l~~~l~~~l~~~~~~~~~~~~~~~i~~~~~~~~  204 (252)
                      ++++++.++.++..+++.|.+ .+|++++++|++++
T Consensus       172 ~~~l~~~ll~~l~~~l~~~~~-~gf~~~~~~w~~~D  206 (207)
T d1biaa3         172 RNTLAAMLIRELRAALELFEQ-EGLAPYLSRWEKLD  206 (207)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH-HTTGGGHHHHHHHB
T ss_pred             HHHHHHHHHHHHHHHHHHHHH-CCHHHHHHHHHHHC
T ss_conf             999999999999999999997-39899999999743


No 2  
>d2zgwa2 d.104.1.2 (A:1-188) Biotin--[acetyl-CoA-carboxylase] ligase catalytic domain {Archaeon Pyrococcus horikoshii [TaxId: 53953]}
Probab=100.00  E-value=0  Score=311.88  Aligned_cols=179  Identities=32%  Similarity=0.455  Sum_probs=155.8

Q ss_pred             CCCEEEEEEECCCCHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHCCCHHHHHHH
Q ss_conf             99704999816485689999999739999789998244678367998531663333413223532240002101377999
Q gi|254780868|r   11 PYSFRYEFFDTISSTNDECMKRALSGDLGNLWIVASCQTAGRGRRDNKWISDKGNLYASLLLIDSISKDSLTLLSFAIAV   90 (252)
Q Consensus        11 p~~~~i~~~~~~~STn~~~~~~~~~~~~~~~~v~A~~Qt~GrGr~gr~W~s~~G~l~~S~~~~~~~~~~~~~~l~~~~~~   90 (252)
                      ..+.+++|||+++||||+|++.   ..+++++|+|++||+||||+||.|+||+|++|+|++++++.+...++.+++++|+
T Consensus         8 ~iG~~i~~~~~v~STn~~a~~~---~~~~~~vv~a~~Qt~GrGR~gr~W~sp~g~l~~S~~~~~~~~~~~~~~l~~~~~~   84 (188)
T d2zgwa2           8 IIGRRVIYFQEITSTNEFAKTS---YLEEGTVIVADKQTMGHGALNRKWESPEGGLWLSIVLSPKVPQKDLPKIVFLGAV   84 (188)
T ss_dssp             STTSEEEEESSBSCHHHHHHHS---CCCTTCEEEESCBSSCBCGGGCBCCCCTTSEEEEEEECCCSCTTTGGGHHHHHHH
T ss_pred             HHCCEEEEECCCCCHHHHHHHC---CCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHH
T ss_conf             6378699948678879999860---9989809998965778877998786985221317886213312455556677777


Q ss_pred             HHHHHHHHHCCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCC-CCCCCCH
Q ss_conf             999999974454210246214650671022112222332322583267652154444464223365321002-3677897
Q gi|254780868|r   91 AMRSVIASTLPVGTDVKIKWPNDILVFQRKIAGILIETLNLKNGLQAVVVGIGLNVKHCPVDTPYPVTSLQR-EGGCIDL  169 (252)
Q Consensus        91 ai~~~l~~~~~~~~~~~iKWPNDi~~~~kKi~GIL~E~~~~~~~~~~~viGiGiNi~~~~~~~~~~~tsL~~-~~~~~~~  169 (252)
                      +++++++.+   +.++++|||||||+++||+||||+|+..     .++|||||||+++.+   +.++||+.. .+..+++
T Consensus        85 av~~~l~~~---~~~~~iKWPNDI~~~~kKi~GILiE~~~-----~~~iiGiGiNvn~~~---~~~atsl~~~~~~~~~~  153 (188)
T d2zgwa2          85 GVVETLKEF---SIDGRIKWPNDVLVNYKAIAGVLVEGKG-----DKIVLGIGLNVNNKV---PNGATSMKLELGSEVPL  153 (188)
T ss_dssp             HHHHHHHHT---TCCCEEETTTEEEETTEEEEEEEEEESS-----SCEEEEEEECSSSCC---CTTCCCHHHHHSSCCCH
T ss_pred             HHHHHHHHC---CCCEEEEECCHHEECCCCEEEEEEECCC-----CEEEEEEEEECCCCC---CCCCCCHHHHHCCCCCH
T ss_conf             788764310---4102678742212688723799871346-----659998876548879---98750099986899999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             899987779999999987303556488999998752
Q gi|254780868|r  170 KDIFSLLFQDVARVLDLWKKDTGREEIMNLWRCFAC  205 (252)
Q Consensus       170 ~~l~~~l~~~l~~~~~~~~~~~~~~~i~~~~~~~~~  205 (252)
                      +++++.++..+.+.+..|.++ +++ +++.|++++.
T Consensus       154 ~~l~~~l~~~l~~~~~~~~~~-~~~-~~~~~~~~~l  187 (188)
T d2zgwa2         154 LSVFRSLITNLDRLYLNFLKN-PMD-ILNLVRDNMI  187 (188)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTH-HHHHHHHTBC
T ss_pred             HHHHHHHHHHHHHHHHHHHCC-CHH-HHHHHHHHHC
T ss_conf             999999999999999999838-947-9999998506


No 3  
>d1biaa2 b.34.1.1 (A:271-317) Biotin repressor/biotin holoenzyme synthetase, C-terminal domain {Escherichia coli [TaxId: 562]}
Probab=98.53  E-value=7.2e-08  Score=65.75  Aligned_cols=45  Identities=27%  Similarity=0.365  Sum_probs=42.0

Q ss_pred             CCCCEEEEEECCEEEEEEEEEECCCCCEEEECCCCCEEEEEEEEEC
Q ss_conf             3897799997993899999987698748999699989999963110
Q gi|254780868|r  206 GIGDLITIKLSYGSILGRFVGVDDFGYLLLEEKKGCVRQIFTGDIF  251 (252)
Q Consensus       206 ~~gk~V~i~~~~~~~~G~~~gId~~G~L~i~~~~G~~~~i~sGeI~  251 (252)
                      ++||+|++..++++++|++.|||++|+|+|++++| ++.|+||||-
T Consensus         1 f~gk~V~v~~g~~~i~G~a~gId~~G~Lll~t~~g-~~~~~sGEVS   45 (47)
T d1biaa2           1 FINRPVKLIIGDKEIFGISRGIDKQGALLLEQDGI-IKPWMGGEIS   45 (47)
T ss_dssp             TTTSEEEEEETTEEEEEEEEEECTTSCEEEEETTE-EEEESSCEEE
T ss_pred             CCCCEEEEEECCEEEEEEEEEECCCCCEEEEECCC-EEEEEEEEEE
T ss_conf             98989999979969999995399997499997998-8999999899


No 4  
>d2zgwa1 b.34.1.1 (A:189-235) Biotin--[acetyl-CoA-carboxylase] ligase C-terminal domain {Archaeon Pyrococcus horikoshii [TaxId: 53953]}
Probab=97.31  E-value=0.00024  Score=43.81  Aligned_cols=41  Identities=34%  Similarity=0.575  Sum_probs=36.5

Q ss_pred             CEEEEEECCEEEEEEEEEECCCCCEEEECCCCCEEEEEEEEE
Q ss_conf             779999799389999998769874899969998999996311
Q gi|254780868|r  209 DLITIKLSYGSILGRFVGVDDFGYLLLEEKKGCVRQIFTGDI  250 (252)
Q Consensus       209 k~V~i~~~~~~~~G~~~gId~~G~L~i~~~~G~~~~i~sGeI  250 (252)
                      -.|++ .++++++|++.+||+.|+|+++.++|..+++..|||
T Consensus         2 v~vki-l~dg~~egiaedide~grli~rl~~g~vkki~ygdv   42 (47)
T d2zgwa1           2 VRVKI-LGDGSFEGIAEDIDDFGRLIIRLDSGEVKKVIYGDV   42 (47)
T ss_dssp             SEEEE-ESSSEEEEEEEEECTTSCEEEECTTSCEEEECSSSC
T ss_pred             CCEEE-ECCCCEECHHHHHHHHCEEEEEECCCCEEEEEEEEE
T ss_conf             70799-548725015450664401899924893889998227


No 5  
>d2p0la1 d.104.1.3 (A:4-272) Lipoate-protein ligase A {Streptococcus agalactiae [TaxId: 1311]}
Probab=97.29  E-value=0.00027  Score=43.49  Aligned_cols=138  Identities=17%  Similarity=0.130  Sum_probs=80.7

Q ss_pred             CCEEEEECCCCC-------------------CCCCCCCCCCCCCCCCCCCCCCCCCCCCH-HCCCHHHHHHHHHHHHHHH
Q ss_conf             978999824467-------------------83679985316633334132235322400-0210137799999999997
Q gi|254780868|r   39 GNLWIVASCQTA-------------------GRGRRDNKWISDKGNLYASLLLIDSISKD-SLTLLSFAIAVAMRSVIAS   98 (252)
Q Consensus        39 ~~~~v~A~~Qt~-------------------GrGr~gr~W~s~~G~l~~S~~~~~~~~~~-~~~~l~~~~~~ai~~~l~~   98 (252)
                      ++++++-.+|+.                   =|-+.|..=+-.+|+|.+|++++...... .....-...+-.+.++++.
T Consensus        52 ~ptvvlG~~q~~~~~~e~~~~~~~~~gi~vvRR~sGGgaV~hd~G~l~~s~i~p~~~~~~~~i~~~y~~~~~~i~~~L~~  131 (269)
T d2p0la1          52 TKTVILGMLDRELPHLELAKKEIISRGYEPVVRNFGGLAVVADEGILNFSLVIPDVFERKLSISDGYLIMVDFIRSIFSD  131 (269)
T ss_dssp             SSEEEECTTGGGCTTHHHHHHHHHTTTCEEEECTTCCSCEEESTTEEEEEEEEESCC---CCHHHHHHHHHHHHHHHTTT
T ss_pred             CCEEEECCCCCCCCHHHHHHHHHHHCCCCEEEECCCCCEEEECCCCEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             99899898767682188889999985995899657986699889967999997055335899999999999999999997


Q ss_pred             HCCCCCEEEEEEC--------CCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCC-----------------C--
Q ss_conf             4454210246214--------650671022112222332322583267652154444464-----------------2--
Q gi|254780868|r   99 TLPVGTDVKIKWP--------NDILVFQRKIAGILIETLNLKNGLQAVVVGIGLNVKHCP-----------------V--  151 (252)
Q Consensus        99 ~~~~~~~~~iKWP--------NDi~~~~kKi~GIL~E~~~~~~~~~~~viGiGiNi~~~~-----------------~--  151 (252)
                      +   |+++...-+        |||.++++|++|.=- ....    ..+..+..|+++...                 .  
T Consensus       132 l---Gi~a~~~~~~~~~c~g~~Dl~v~grKi~G~Aq-r~~r----~~~l~hgtllv~~d~~~~~~ll~~~~~~~~~~~~~  203 (269)
T d2p0la1         132 F---YQPIEHFEVETSYCPGKFDLSINGKKFAGLAQ-RRIK----NGIAVSIYLSVCGDQKGRSQMISDFYKIGLGDTGS  203 (269)
T ss_dssp             S---CSCCEECCCTTSSSCCTTCEEETTEEEEEEEE-EEET----TEEEEEEEEECSSCHHHHHHHHHHHHHHHHTTTCC
T ss_pred             C---CCCEEEECCCCCCCCCCEEEEECCEEEEEEEE-EEEC----CEEEEEEEEEEECCHHHHHHHHHHHHHHCCCCCCC
T ss_conf             5---97368713567778775357744727998767-8988----88999999997078899999987777630464454


Q ss_pred             ------CCCCCCCCCCC-CCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             ------23365321002-3677897899987779999999
Q gi|254780868|r  152 ------DTPYPVTSLQR-EGGCIDLKDIFSLLFQDVARVL  184 (252)
Q Consensus       152 ------~~~~~~tsL~~-~~~~~~~~~l~~~l~~~l~~~~  184 (252)
                            -.+...|+|.+ .+..++.+++...++..|....
T Consensus       204 ~~~~~~~~~~~vtsL~~~L~~~~s~e~v~~~l~~~f~~~~  243 (269)
T d2p0la1         204 PIAYPNVDPEIMANLSDLLDCPMTVEDVIDRMLISLKQVG  243 (269)
T ss_dssp             SSCCCCCCTTSBCCHHHHTTCCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCCCHHHEEEHHHHCCCCCCHHHHHHHHHHHHHHHC
T ss_conf             3335765501213599873999999999999999999972


No 6  
>d1vqza2 d.104.1.3 (A:1-241) LplA-like protein SP1160, N-terminal domain {Streptococcus pneumoniae [TaxId: 1313]}
Probab=97.26  E-value=0.0012  Score=39.37  Aligned_cols=123  Identities=14%  Similarity=0.045  Sum_probs=76.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCHHCCCHHHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCC
Q ss_conf             79985316633334132235322400021013779999999999744542102462146506710221122223323225
Q gi|254780868|r   54 RRDNKWISDKGNLYASLLLIDSISKDSLTLLSFAIAVAMRSVIASTLPVGTDVKIKWPNDILVFQRKIAGILIETLNLKN  133 (252)
Q Consensus        54 r~gr~W~s~~G~l~~S~~~~~~~~~~~~~~l~~~~~~ai~~~l~~~~~~~~~~~iKWPNDi~~~~kKi~GIL~E~~~~~~  133 (252)
                      +.|..=+-.+|++.+|++++.+.+...   .-....-+++++++.+   +.++...=+||+.+++||++|+-.-.   ..
T Consensus        70 tGGgaV~h~~g~~~~s~i~~~~~~~~~---~~~~~~~~i~~al~~~---g~~a~~~~~~d~~v~g~Ki~G~aq~~---~~  140 (241)
T d1vqza2          70 SGGGAVYHDLNNLNYTIISKEDENKAF---DFKSFSTPVINTLAQL---GVKAEFTGRNDLEIDGKKFCGNAQAY---IN  140 (241)
T ss_dssp             SCSCCEEECTTEEEEEEEEECCTTCCC---SHHHHHHHHHHHHHHT---TCCEEEETTTEEEETTEEEEEEEEEE---ET
T ss_pred             CCCCEEEECCCCEEEEEEECCCCCHHH---HHHHHHHHHHHHHHHH---CCCEEEECCCCEEECCEEEEEEEEEE---EC
T ss_conf             898638977997489999637654377---8999999999999984---46608822587798787876678998---68


Q ss_pred             CCEEEEEECCCCCCCCCC-----------CC--------CCCCCCCCC-CCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             832676521544444642-----------23--------365321002-3677897899987779999999987
Q gi|254780868|r  134 GLQAVVVGIGLNVKHCPV-----------DT--------PYPVTSLQR-EGGCIDLKDIFSLLFQDVARVLDLW  187 (252)
Q Consensus       134 ~~~~~viGiGiNi~~~~~-----------~~--------~~~~tsL~~-~~~~~~~~~l~~~l~~~l~~~~~~~  187 (252)
                        ..++.+.-|++...++           ..        ....|+|.. .+..++.+++.+.+++.+.+.+..+
T Consensus       141 --~~~l~hgsll~~~d~~~~~~~l~~~~~~~~~~~~~s~~~~v~~l~~~l~~~~~~e~~~~~l~~~f~~~~~~~  212 (241)
T d1vqza2         141 --GRIMHHGCLLFDVDLSVLANALKVSKDKFESKGVKSVRARVTNIINELPKKITVEKFRDLLLEYMKKEYPEM  212 (241)
T ss_dssp             --TEEEEEEEEESSCCTTHHHHHBCCCSSCCEECSCCCCCCCBCCGGGTCSSCCCHHHHHHHHHHHHHHHCTTC
T ss_pred             --CEEEEEEEEEECCCHHHHHHHHCCCCCCCHHHCCCCCHHHCCCHHHHHCCCCCHHHHHHHHHHHHHHHCCCC
T ss_conf             --839999898715999999998488964331214522032111658771899999999999999999974888


No 7  
>d2p5ia1 d.104.1.3 (A:14-278) Hypothetical protein BH3822 {Bacillus halodurans [TaxId: 86665]}
Probab=96.78  E-value=0.0014  Score=39.06  Aligned_cols=122  Identities=18%  Similarity=0.090  Sum_probs=68.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCHHCCCHHHHHHHHHHHHHHHHCCCCCEEEEE--------ECCCEEEECCCCCCCC
Q ss_conf             79985316633334132235322400021013779999999999744542102462--------1465067102211222
Q gi|254780868|r   54 RRDNKWISDKGNLYASLLLIDSISKDSLTLLSFAIAVAMRSVIASTLPVGTDVKIK--------WPNDILVFQRKIAGIL  125 (252)
Q Consensus        54 r~gr~W~s~~G~l~~S~~~~~~~~~~~~~~l~~~~~~ai~~~l~~~~~~~~~~~iK--------WPNDi~~~~kKi~GIL  125 (252)
                      +.|..=+-.+|++.+|++++.+.+.. ....--.++-.+.++++.+   |+++.++        =.|||.++++||+|+=
T Consensus        79 tGGgaV~hd~g~l~~s~i~~~~~~~~-~~~~y~~~~~~i~~~l~~l---Gi~a~~~~~~~~~c~g~~Dl~v~g~Ki~G~A  154 (265)
T d2p5ia1          79 SGGLAVVLDSGILNLSLVLKEEKGFS-IDDGYELMYELICSMFQDH---REQIEAREIVGSYCPGSYDLSIDGKKFAGIS  154 (265)
T ss_dssp             SCCCCEEECTTEEEEEEEEECCTTCC-HHHHHHHHHHHHHHHTC------CCCEECCCTTSSSCCTTCEEETTEEEEEEE
T ss_pred             CCCCEEEECCCCCEEEEEECCCCCCC-HHHHHHHHHHHHHHHHHHC---CCCEEECCCCCCCCCCCCCEEECCEEEEEEE
T ss_conf             89955997699818999974344531-7899999999999999972---9742774666777988774688888999876


Q ss_pred             CCCCCCCCCCEEEEEECCCCCCCC----------C---------------CCCCCCCCCCCC-CCCCCCHHHHHHHHHHH
Q ss_conf             233232258326765215444446----------4---------------223365321002-36778978999877799
Q gi|254780868|r  126 IETLNLKNGLQAVVVGIGLNVKHC----------P---------------VDTPYPVTSLQR-EGGCIDLKDIFSLLFQD  179 (252)
Q Consensus       126 ~E~~~~~~~~~~~viGiGiNi~~~----------~---------------~~~~~~~tsL~~-~~~~~~~~~l~~~l~~~  179 (252)
                      - ....+    .+...--|.+...          |               ...+...|+|.+ .+..++.+++...++..
T Consensus       155 q-~~~~~----~~l~hgsll~~~d~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vtsL~~~l~~~~~~~~v~~~l~~~  229 (265)
T d2p5ia1         155 Q-RRIRG----GVAVQIYLCVSGSGAERAKMIRTFYDKAVAGQPTKFVYPRIKPETMASLSELLGQPHNVSDVLLKALMT  229 (265)
T ss_dssp             E-EEETT----EEEEEEEEECSSCHHHHHHHHHHHHHHHHTTSCCSSCCCCCCGGGBCCHHHHHTSCCCHHHHHHHHHHH
T ss_pred             E-EEECC----EEEEEEEEEECCCHHHHHHHHHCCCHHHHCCCCCCCCCCCCCHHHCCCHHHHHCCCCCHHHHHHHHHHH
T ss_conf             7-89888----899998999648989999997123222211356433456642220276999848999999999999999


Q ss_pred             HHHHH
Q ss_conf             99999
Q gi|254780868|r  180 VARVL  184 (252)
Q Consensus       180 l~~~~  184 (252)
                      |....
T Consensus       230 f~~~~  234 (265)
T d2p5ia1         230 LQQHG  234 (265)
T ss_dssp             HHHTT
T ss_pred             HHHHC
T ss_conf             99856


No 8  
>d1x2ga2 d.104.1.3 (A:1-246) Two-domain LplA, N-terminal domain {Escherichia coli [TaxId: 562]}
Probab=96.46  E-value=0.018  Score=32.10  Aligned_cols=120  Identities=13%  Similarity=0.038  Sum_probs=71.8

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCHHCCCHHHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEE----CCCCCCCCCC
Q ss_conf             367998531663333413223532240002101377999999999974454210246214650671----0221122223
Q gi|254780868|r   52 RGRRDNKWISDKGNLYASLLLIDSISKDSLTLLSFAIAVAMRSVIASTLPVGTDVKIKWPNDILVF----QRKIAGILIE  127 (252)
Q Consensus        52 rGr~gr~W~s~~G~l~~S~~~~~~~~~~~~~~l~~~~~~ai~~~l~~~~~~~~~~~iKWPNDi~~~----~kKi~GIL~E  127 (252)
                      |-+.|..=+-.+|++.+|++.+.+..      ......-.+.++++.+   +.++.++=-||++++    +|||+|+=.-
T Consensus        70 R~tGGgaV~hd~g~~~~s~i~~~~~~------~~~~~~~~i~~~l~~l---gi~a~~~~~~~~~~~~~~~gkKi~G~aq~  140 (246)
T d1x2ga2          70 RSSGGGAVFHDLGNTCFTFMAGKPEY------DKTISTSIVLNALNAL---GVSAEASGRNDLVVKTVEGDRKVSGSAYR  140 (246)
T ss_dssp             CSSCCCCEEECTTEEEEEEEEETTTC------CHHHHHHHHHHHHHHT---TCCEEEETTTEEEECCTTCCEEEEEEEEE
T ss_pred             ECCCCCEEEECCCCEEEEEEECCCHH------HHHHHHHHHHHHHHHC---CCCEEECCCCCEEEECCCCCEEEEEEEEE
T ss_conf             76887279967999899997557246------1999999999988861---88336668554367314686179767799


Q ss_pred             CCCCCCCCEEEEEECCCCCCCCCC-----------CC--------CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             323225832676521544444642-----------23--------36532100236778978999877799999999
Q gi|254780868|r  128 TLNLKNGLQAVVVGIGLNVKHCPV-----------DT--------PYPVTSLQREGGCIDLKDIFSLLFQDVARVLD  185 (252)
Q Consensus       128 ~~~~~~~~~~~viGiGiNi~~~~~-----------~~--------~~~~tsL~~~~~~~~~~~l~~~l~~~l~~~~~  185 (252)
                      .. .    ..++.+.-|++...++           ..        ....|+|.+....++.+++.+.|++.+...+.
T Consensus       141 ~~-~----~~~l~hgsi~~~~d~~~~~~~l~~~~~~~~~~~~~s~~~~vt~l~e~~~~i~~e~~~~~l~~~f~~~~~  212 (246)
T d1x2ga2         141 ET-K----DRGFHHGTLLLNADLSRLANYLNPDKKKLAAKGITSVRSRVTNLTELLPGITHEQVCEAITEAFFAHYG  212 (246)
T ss_dssp             EC-S----SEEEEEEEEESSCCSSGGGGGBCCCHHHHHCCC------CBCCGGGTCTTCCHHHHHHHHHHHHHHHHT
T ss_pred             EE-C----CEEEEECEEEECCCHHHHHHHCCCCCCCHHHHCCCCHHHHCCCHHHHCCCCCHHHHHHHHHHHHHHHHC
T ss_conf             98-9----999990788656997897765088941113310343266476799967999999999999999999848


No 9  
>d2c8ma1 d.104.1.3 (A:1-256) Lipoate-protein ligase A {Thermoplasma acidophilum [TaxId: 2303]}
Probab=95.98  E-value=0.023  Score=31.49  Aligned_cols=123  Identities=15%  Similarity=0.064  Sum_probs=70.6

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCHHCCCHHHHHHHHHHHHHHHHCCCCCEEEEE----------ECCCEEEECCCC
Q ss_conf             3679985316633334132235322400021013779999999999744542102462----------146506710221
Q gi|254780868|r   52 RGRRDNKWISDKGNLYASLLLIDSISKDSLTLLSFAIAVAMRSVIASTLPVGTDVKIK----------WPNDILVFQRKI  121 (252)
Q Consensus        52 rGr~gr~W~s~~G~l~~S~~~~~~~~~~~~~~l~~~~~~ai~~~l~~~~~~~~~~~iK----------WPNDi~~~~kKi  121 (252)
                      |-+.|..=+-.+|++.+|++++.+-.  .....--.+.-++.++++.+.   +++.+.          =++|+.++++|+
T Consensus        72 R~tGGgaV~hd~g~l~~s~i~~~~~~--~~~~~y~~~~~~i~~~l~~lG---i~a~~~~~~~~~~~~~~~~di~~~~~Ki  146 (256)
T d2c8ma1          72 RYTGGGAVYHDLGDLNFSVVRSSDDM--DITSMFRTMNEAVVNSLRILG---LDARPGELNDVSIPVNKKTDIMAGEKKI  146 (256)
T ss_dssp             CSSCSCCEEECTTEEEEEEEEECSSC--CHHHHHHHHHHHHHHHHHHTT---CCCEECCBCCTTSSSSBTTSEEETTEEE
T ss_pred             EECCCCEEEECCCCEEEEEEECCCCC--CHHHHHHHHHHHHHHHHHHCC---CEEEECCCCCEEEEECCCCCCCCCCCEE
T ss_conf             70698628978998499999715899--999999999999999876528---0378868587089820477654554334


Q ss_pred             CCCCCCCCCCCCCCEEEEEECCCCCCCCC-----------CCC--------CCCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             12222332322583267652154444464-----------223--------36532100236778978999877799999
Q gi|254780868|r  122 AGILIETLNLKNGLQAVVVGIGLNVKHCP-----------VDT--------PYPVTSLQREGGCIDLKDIFSLLFQDVAR  182 (252)
Q Consensus       122 ~GIL~E~~~~~~~~~~~viGiGiNi~~~~-----------~~~--------~~~~tsL~~~~~~~~~~~l~~~l~~~l~~  182 (252)
                      +|.-.-..   .  ..++.+..|+++...           ...        ....|+|... ..++.+++...+++.|.+
T Consensus       147 ~G~a~~~~---~--~~~l~hgtll~~~d~~~l~~~L~~~~~~~~~~~~~s~~~~vt~L~~~-~~~~~e~~~~~l~~~f~~  220 (256)
T d2c8ma1         147 MGAAGAMR---K--GAKLWHAAMLVHTDLDMLSAVLKVPDEKFRDKIAKSTRERVANVTDF-VDVSIDEVRNALIRGFSE  220 (256)
T ss_dssp             EEEEEEEE---T--TEEEEEEEEESSCCHHHHHHHTC---------------CCBCCGGGT-SCCCHHHHHHHHHHHHHH
T ss_pred             CCCCCCCC---C--CEEEEEEEEECCCCHHHHHHHHCCCCCCHHHHCCCCHHHHCCCHHHC-CCCCHHHHHHHHHHHHHH
T ss_conf             03222213---5--17999867403799999998758895010320355447533048762-898999999999999999


Q ss_pred             HHH
Q ss_conf             999
Q gi|254780868|r  183 VLD  185 (252)
Q Consensus       183 ~~~  185 (252)
                      .+.
T Consensus       221 ~~~  223 (256)
T d2c8ma1         221 TLH  223 (256)
T ss_dssp             HHT
T ss_pred             HHC
T ss_conf             858


No 10 
>d1w66a1 d.104.1.3 (A:1-216) Lipoyltransferase LipB {Mycobacterium tuberculosis [TaxId: 1773]}
Probab=95.20  E-value=0.049  Score=29.38  Aligned_cols=123  Identities=18%  Similarity=0.165  Sum_probs=76.1

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCHHCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEC--CCEEEECC---CCCCCCCC
Q ss_conf             67998531663333413223532240002101377999999999974454210246214--65067102---21122223
Q gi|254780868|r   53 GRRDNKWISDKGNLYASLLLIDSISKDSLTLLSFAIAVAMRSVIASTLPVGTDVKIKWP--NDILVFQR---KIAGILIE  127 (252)
Q Consensus        53 Gr~gr~W~s~~G~l~~S~~~~~~~~~~~~~~l~~~~~~ai~~~l~~~~~~~~~~~iKWP--NDi~~~~k---Ki~GIL~E  127 (252)
                      .|.|...+-.||.|-+-.++....... ....--..--++.++++.+   +.+.. +-|  ..++++++   |||-|=+.
T Consensus        75 dRGG~vTyHGPGQlV~Ypil~l~~~~~-~~~~v~~le~~ii~~l~~~---gi~~~-~~~~~~GVwv~~~~~~KIasiGv~  149 (216)
T d1w66a1          75 DRGGKITWHGPGQLVGYPIIGLAEPLD-VVNYVRRLEESLIQVCADL---GLHAG-RVDGRSGVWLPGRPARKVAAIGVR  149 (216)
T ss_dssp             SSSSSEEEECTTEEEEEEECBBCSSCC-HHHHHHHHHHHHHHHHHHT---TCCCE-EETTEEEEEECSSSCEEEEEEEEE
T ss_pred             CCCCEEEEECCCCEEEEEEECCCCCCC-HHHHHHHHHHHHHHHHHHC---CCCCC-CCCCCCCEEEECCHHHHHHHHHHH
T ss_conf             788527774377456677761211221-3566777889999998751---44211-224677501211015678899977


Q ss_pred             CCCCCCCCEEEEEECCCCCCCCCC--------CC-CCCCCCCCC-CCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             323225832676521544444642--------23-365321002-36778978999877799999999
Q gi|254780868|r  128 TLNLKNGLQAVVVGIGLNVKHCPV--------DT-PYPVTSLQR-EGGCIDLKDIFSLLFQDVARVLD  185 (252)
Q Consensus       128 ~~~~~~~~~~~viGiGiNi~~~~~--------~~-~~~~tsL~~-~~~~~~~~~l~~~l~~~l~~~~~  185 (252)
                      ..   ..+  .-=|+.||++.+..        .+ +..+|||+. .+..++.+++...+...|.+.++
T Consensus       150 v~---~~v--t~HG~alNv~~dL~~f~~I~pCGl~~~~vtSl~~~lg~~v~~~ev~~~l~~~~~~~f~  212 (216)
T d1w66a1         150 VS---RAT--TLHGFALNCDCDLAAFTAIVPCGISDAAVTSLSAELGRTVTVDEVRATVAAAVCAALD  212 (216)
T ss_dssp             EE---TTE--EEEEEEEESSCCCGGGGGSCGGGCSSSEECCHHHHHTSCCCHHHHHHHHHHHHHHHHT
T ss_pred             HC---CCE--EECCEEEECCCCHHHCCEEECCCCCCCCEEEEHHHHCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             50---362--5213578525775546907857999992664179968999899999999999999861


No 11 
>d2ddza1 d.104.1.4 (A:3-190) Uncharacterized protein PH0223 {Pyrococcus horikoshii [TaxId: 53953]}
Probab=91.25  E-value=0.18  Score=25.82  Aligned_cols=91  Identities=19%  Similarity=0.233  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             13779999999999744542102462146506710221122223323225832676521544444642233653210023
Q gi|254780868|r   84 LSFAIAVAMRSVIASTLPVGTDVKIKWPNDILVFQRKIAGILIETLNLKNGLQAVVVGIGLNVKHCPVDTPYPVTSLQRE  163 (252)
Q Consensus        84 l~~~~~~ai~~~l~~~~~~~~~~~iKWPNDi~~~~kKi~GIL~E~~~~~~~~~~~viGiGiNi~~~~~~~~~~~tsL~~~  163 (252)
                      .+-+....+++.|.+.   +.++. +==-|||++++|+.=-..-     .+.....+=.|||+...-.-.+-++.+|.+.
T Consensus        85 ~QRLl~~~~~evL~~~---g~~~~-r~GDDLyv~~~KlSVSIA~-----~s~~s~~iH~GINV~~~g~p~~v~a~~L~d~  155 (188)
T d2ddza1          85 LQKLLIARLVELLWNY---GIEAS-RRGDDIYVNGRKLSISIAT-----VSPVSIKIHIGLNVKTVGVPPGVDAIGLEEL  155 (188)
T ss_dssp             HHHHHHHHHHHHHHTT---TCCEE-EETTEEEETTEECEEEEEE-----ECSSCEEEEEEEESCCSSCCSSSCBCCHHHH
T ss_pred             HHHHHHHHHHHHHHHC---CCCEE-ECCCEEEECCCEEEEEEEE-----ECCCCEEEEEEEEEECCCCCCCCCEECHHHC
T ss_conf             9999999999999973---98537-6278379839778999996-----0688248898788761674787512016432


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             6778978999877799999999
Q gi|254780868|r  164 GGCIDLKDIFSLLFQDVARVLD  185 (252)
Q Consensus       164 ~~~~~~~~l~~~l~~~l~~~~~  185 (252)
                      +.  +.+++...+...+..-++
T Consensus       156 g~--d~~~fm~~v~~~y~~E~~  175 (188)
T d2ddza1         156 GI--DPTEFMERSAKALVEEIE  175 (188)
T ss_dssp             TC--CHHHHHHHHHHHHHHHHH
T ss_pred             CC--CHHHHHHHHHHHHHHHHH
T ss_conf             88--999999999999999988


No 12 
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]}
Probab=87.74  E-value=0.43  Score=23.49  Aligned_cols=35  Identities=23%  Similarity=0.266  Sum_probs=30.4

Q ss_pred             HHHCCCCEEEEEECCE-EEEEEEEEECCCCCEEEEC
Q ss_conf             7523897799997993-8999999876987489996
Q gi|254780868|r  203 FACGIGDLITIKLSYG-SILGRFVGVDDFGYLLLEE  237 (252)
Q Consensus       203 ~~~~~gk~V~i~~~~~-~~~G~~~gId~~G~L~i~~  237 (252)
                      ...+++++|.+...++ .+.|++.+.|..+.|++.+
T Consensus         3 L~~~l~~rv~V~l~dgR~~~G~L~~~D~~~NlvL~~   38 (81)
T d1d3bb_           3 MLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCD   38 (81)
T ss_dssp             CGGGTTSEEEEEETTCCEEEEEEEECCTTCCEEEEE
T ss_pred             HHHHCCCEEEEEECCCCEEEEEEEEECCCCCEEECC
T ss_conf             498789979999849989999999987866889858


No 13 
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon Pyrococcus abyssi [TaxId: 29292]}
Probab=84.93  E-value=0.98  Score=21.28  Aligned_cols=46  Identities=22%  Similarity=0.287  Sum_probs=34.2

Q ss_pred             HCCCCEEEEEECCE-EEEEEEEEECCCCCEEEECC----CCCEEEEEEEEEC
Q ss_conf             23897799997993-89999998769874899969----9989999963110
Q gi|254780868|r  205 CGIGDLITIKLSYG-SILGRFVGVDDFGYLLLEEK----KGCVRQIFTGDIF  251 (252)
Q Consensus       205 ~~~gk~V~i~~~~~-~~~G~~~gId~~G~L~i~~~----~G~~~~i~sGeI~  251 (252)
                      ..+|+.|.+...++ .+.|++.+.|+...|.+++.    ++. +....|.+|
T Consensus         9 ~~~~~~V~V~lk~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~-~~~~l~~~~   59 (71)
T d1h641_           9 RSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGE-VVKRYGKIV   59 (71)
T ss_dssp             TTTTSEEEEEETTSEEEEEEEEEECTTCCEEEEEEEEEETTE-EEEEEEEEE
T ss_pred             HHCCCEEEEEECCCCEEEEEEEEECCCCCEEEEEEEEEECCC-CEEECCCEE
T ss_conf             868997999996999999999999899994992599994688-372957199


No 14 
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]}
Probab=83.36  E-value=0.94  Score=21.40  Aligned_cols=46  Identities=20%  Similarity=0.247  Sum_probs=33.8

Q ss_pred             HCCCCEEEEEECCE-EEEEEEEEECCCCCEEEECC----CCCEEEEEEEEEC
Q ss_conf             23897799997993-89999998769874899969----9989999963110
Q gi|254780868|r  205 CGIGDLITIKLSYG-SILGRFVGVDDFGYLLLEEK----KGCVRQIFTGDIF  251 (252)
Q Consensus       205 ~~~gk~V~i~~~~~-~~~G~~~gId~~G~L~i~~~----~G~~~~i~sGeI~  251 (252)
                      ..+|+.|.+...++ .+.|++.+.|+...+.+++.    .+. +.-.-|.+|
T Consensus        10 ~~~~~~V~V~lk~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~-~~~~~g~~~   60 (72)
T d1i4k1_          10 RSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGE-VVRKVGSVV   60 (72)
T ss_dssp             TTTTSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEEEESSSS-EEEEEEEEE
T ss_pred             HHCCCEEEEEECCCCEEEEEEEEECCCCCEEEEEEEEEECCC-EEEECCEEE
T ss_conf             868987999988999999999999599985993499991697-185946199


No 15 
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein {Sulfolobus solfataricus [TaxId: 2287]}
Probab=82.55  E-value=1.2  Score=20.71  Aligned_cols=45  Identities=22%  Similarity=0.348  Sum_probs=33.4

Q ss_pred             HCCCCEEEEEECCE-EEEEEEEEECCCCCEEEEC-----CCCCEEEEEEEEEC
Q ss_conf             23897799997993-8999999876987489996-----99989999963110
Q gi|254780868|r  205 CGIGDLITIKLSYG-SILGRFVGVDDFGYLLLEE-----KKGCVRQIFTGDIF  251 (252)
Q Consensus       205 ~~~gk~V~i~~~~~-~~~G~~~gId~~G~L~i~~-----~~G~~~~i~sGeI~  251 (252)
                      ..+|+.|.+...++ .+.|++.+.|+...+++++     .+++.+  .-|.+|
T Consensus        14 ~~~~~~V~V~lk~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~--~~~~v~   64 (76)
T d1th7a1          14 ESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGSGK--KLGTIV   64 (76)
T ss_dssp             HHTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEECSSSCEE--EEEEEE
T ss_pred             HHCCCEEEEEECCCCEEEEEEEEECCCCCEEEEEEEEEECCCCCC--CCCEEE
T ss_conf             867987999988999999999999799987985799993689621--914599


No 16 
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}
Probab=82.12  E-value=1.1  Score=20.92  Aligned_cols=34  Identities=32%  Similarity=0.409  Sum_probs=29.3

Q ss_pred             HCCCCEEEEEECCE-EEEEEEEEECCCCCEEEECC
Q ss_conf             23897799997993-89999998769874899969
Q gi|254780868|r  205 CGIGDLITIKLSYG-SILGRFVGVDDFGYLLLEEK  238 (252)
Q Consensus       205 ~~~gk~V~i~~~~~-~~~G~~~gId~~G~L~i~~~  238 (252)
                      ..+|++|.+...++ .+.|++.+.|+...+.+++.
T Consensus         9 ~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNivL~~~   43 (71)
T d1i8fa_           9 DSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDA   43 (71)
T ss_dssp             TTTTSEEEEEEGGGEEEEEEEEEECTTCCEEEEEE
T ss_pred             HHCCCEEEEEECCCCEEEEEEEEECCCCCEEECCE
T ss_conf             75798799999799999999999978700499109


No 17 
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}
Probab=81.00  E-value=1.5  Score=20.21  Aligned_cols=46  Identities=20%  Similarity=0.218  Sum_probs=34.1

Q ss_pred             HCCCCEEEEEECCE-EEEEEEEEECCCCCEEEECC----CCCEEEEEEEEEC
Q ss_conf             23897799997993-89999998769874899969----9989999963110
Q gi|254780868|r  205 CGIGDLITIKLSYG-SILGRFVGVDDFGYLLLEEK----KGCVRQIFTGDIF  251 (252)
Q Consensus       205 ~~~gk~V~i~~~~~-~~~G~~~gId~~G~L~i~~~----~G~~~~i~sGeI~  251 (252)
                      ..+|+.|.+...++ .+.|++.+.|+...+.+++.    .+. +....|++|
T Consensus        13 ~~~~k~V~V~lk~g~~~~G~L~~~D~~mNl~L~~~~e~~~~~-~~~~~~~~~   63 (74)
T d1mgqa_          13 NSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGE-VTRRLGTVL   63 (74)
T ss_dssp             HTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEETTE-EEEEEEEEE
T ss_pred             HHCCCEEEEEECCCCEEEEEEEEECCCCCEEEEEEEEEECCC-EEEECCEEE
T ss_conf             858986999987999999999999799985993499993798-082846099


No 18 
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]}
Probab=76.77  E-value=2  Score=19.41  Aligned_cols=45  Identities=16%  Similarity=0.257  Sum_probs=34.0

Q ss_pred             HCCCCEEEEEECCE-EEEEEEEEECCCCCEEEECC-----CCCEEEEEEEEEC
Q ss_conf             23897799997993-89999998769874899969-----9989999963110
Q gi|254780868|r  205 CGIGDLITIKLSYG-SILGRFVGVDDFGYLLLEEK-----KGCVRQIFTGDIF  251 (252)
Q Consensus       205 ~~~gk~V~i~~~~~-~~~G~~~gId~~G~L~i~~~-----~G~~~~i~sGeI~  251 (252)
                      ...|+.|.++..++ ++.|+..++|+.-.+.+++.     +|+.  ...+++|
T Consensus         9 ~~~g~~V~VeLkng~~~~G~L~~~D~~mNi~L~~~~~~~~~~~~--~~~~~v~   59 (72)
T d1d3ba_           9 EAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRV--AQLEQVY   59 (72)
T ss_dssp             HTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECTTSCE--EEEEEEE
T ss_pred             HCCCCEEEEEECCCEEEEEEEEEECCCEEEEEEEEEEECCCCCE--EECCEEE
T ss_conf             60899999998998399998999948725899799998689847--3948699


No 19 
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}
Probab=75.85  E-value=2.1  Score=19.25  Aligned_cols=47  Identities=28%  Similarity=0.514  Sum_probs=34.0

Q ss_pred             HCCCCEEEEEEC-CE-EEEEEEEEECCCCCEEEECC---CCCEEEEEEEEEC
Q ss_conf             238977999979-93-89999998769874899969---9989999963110
Q gi|254780868|r  205 CGIGDLITIKLS-YG-SILGRFVGVDDFGYLLLEEK---KGCVRQIFTGDIF  251 (252)
Q Consensus       205 ~~~gk~V~i~~~-~~-~~~G~~~gId~~G~L~i~~~---~G~~~~i~sGeI~  251 (252)
                      ..+|++|.+... ++ .+.|+..+.|+...+.+++.   ....+...-|++|
T Consensus        12 ~~~~~~V~V~lk~~~~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~   63 (75)
T d1ljoa_          12 SMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEKVRSLGEIV   63 (75)
T ss_dssp             HTTTSEEEEEETTCSSEEEEEEEEECTTCCEEEEEEEEEETTEEEEEEEEEE
T ss_pred             HHCCCEEEEEEECCCEEEEEEEEEECCCCCEEEEEEEEECCCCCEEECCEEE
T ss_conf             8669899999978999999999998698847996799991788582846399


No 20 
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein LSM5 {Cryptosporidium parvum [TaxId: 5807]}
Probab=72.69  E-value=2  Score=19.39  Aligned_cols=34  Identities=21%  Similarity=0.424  Sum_probs=28.7

Q ss_pred             CCCCEEEEEECCE-EEEEEEEEECCCCCEEEECCC
Q ss_conf             3897799997993-899999987698748999699
Q gi|254780868|r  206 GIGDLITIKLSYG-SILGRFVGVDDFGYLLLEEKK  239 (252)
Q Consensus       206 ~~gk~V~i~~~~~-~~~G~~~gId~~G~L~i~~~~  239 (252)
                      .+|++|.+...++ .+.|++.+.|....|++++..
T Consensus        13 ~l~k~V~V~l~~gr~~~G~L~~~D~~~NlvL~d~~   47 (92)
T d2fwka1          13 CIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQ   47 (92)
T ss_dssp             TBTSBCEEEETTTEEECCEEEEECTTCCEEEESCC
T ss_pred             HCCCEEEEEECCCCEEEEEEEEECCCCCEEEEEEE
T ss_conf             76987999986999999999999589997981479


No 21 
>d2qqra2 b.34.9.1 (A:956-1011) Jumonji domain-containing protein 2A {Human (Homo sapiens) [TaxId: 9606]}
Probab=71.48  E-value=1.8  Score=19.63  Aligned_cols=46  Identities=17%  Similarity=0.348  Sum_probs=31.0

Q ss_pred             CCCEEEEEECCEE-EEEEEEEECCCCCEEEECCCCCEEEEEEEEECC
Q ss_conf             8977999979938-999999876987489996999899999631109
Q gi|254780868|r  207 IGDLITIKLSYGS-ILGRFVGVDDFGYLLLEEKKGCVRQIFTGDIFT  252 (252)
Q Consensus       207 ~gk~V~i~~~~~~-~~G~~~gId~~G~L~i~~~~G~~~~i~sGeI~~  252 (252)
                      .|..|.++-.++. +.++|++-+..=--.|+.+||....+--.||||
T Consensus         4 ~Ge~V~VrW~DG~~y~A~f~~~~~~~~YqVeFEDgSql~vKR~dIyt   50 (56)
T d2qqra2           4 EGEVVQVRWTDGQVYGAKFVASHPIQMYQVEFEDGSQLVVKRDDVYT   50 (56)
T ss_dssp             TTCEEEEECTTSCEEEEEEEEEEEEEEEEEEETTSCEEEECGGGEEE
T ss_pred             CCCEEEEECCCCCEEEEEEEECCEEEEEEEEECCCCEEEEEHHHEEC
T ss_conf             78589998378879888997010169999998479688774457021


No 22 
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]}
Probab=66.45  E-value=3.4  Score=17.94  Aligned_cols=45  Identities=20%  Similarity=0.145  Sum_probs=34.7

Q ss_pred             HCCCCEEEEEECCE-EEEEEEEEECCCCCEEEECC-----CCCEEEEEEEEEC
Q ss_conf             23897799997993-89999998769874899969-----9989999963110
Q gi|254780868|r  205 CGIGDLITIKLSYG-SILGRFVGVDDFGYLLLEEK-----KGCVRQIFTGDIF  251 (252)
Q Consensus       205 ~~~gk~V~i~~~~~-~~~G~~~gId~~G~L~i~~~-----~G~~~~i~sGeI~  251 (252)
                      ...|+.|.++..++ .+.|+..++|+.-.+.+++.     +|+  ....++||
T Consensus         8 ~~~g~~V~VeLkng~~~~G~L~~~D~~MNl~L~~~~~~~~~~~--~~~~~~v~   58 (80)
T d1b34a_           8 KLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNRE--PVQLETLS   58 (80)
T ss_dssp             TCTTCEEEEEETTCCEEEEEEEEECTTCCEEEEEEEEECTTSC--CEEEEEEE
T ss_pred             HCCCCEEEEEECCCCEEEEEEEEECCCCEEEEEEEEEECCCCC--EEECCCEE
T ss_conf             7499889999989989999999983895899979999969997--87756299


No 23 
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=65.06  E-value=3.6  Score=17.77  Aligned_cols=34  Identities=24%  Similarity=0.316  Sum_probs=28.5

Q ss_pred             HCCCCEEEEEEC-CE-EEEEEEEEECCCCCEEEECC
Q ss_conf             238977999979-93-89999998769874899969
Q gi|254780868|r  205 CGIGDLITIKLS-YG-SILGRFVGVDDFGYLLLEEK  238 (252)
Q Consensus       205 ~~~gk~V~i~~~-~~-~~~G~~~gId~~G~L~i~~~  238 (252)
                      ..+|+.|.++.. ++ .+.|+..+.|..-.+.+++.
T Consensus         3 ~~~~~~V~V~Lk~~~~~~~G~L~~~D~~mNlvL~~~   38 (68)
T d1n9ra_           3 GLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEA   38 (68)
T ss_dssp             GGTTSEEEEEESSTTEEEEEEEEECCTTTCEEEEEE
T ss_pred             HHCCCEEEEEEECCCEEEEEEEEEECCCCCEEEEEE
T ss_conf             477987999997499999999999977573699619


No 24 
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}
Probab=51.75  E-value=6  Score=16.36  Aligned_cols=31  Identities=26%  Similarity=0.320  Sum_probs=14.6

Q ss_pred             CCCCEEEEEECCE-EEEEEEEEECCCCCEEEE
Q ss_conf             3897799997993-899999987698748999
Q gi|254780868|r  206 GIGDLITIKLSYG-SILGRFVGVDDFGYLLLE  236 (252)
Q Consensus       206 ~~gk~V~i~~~~~-~~~G~~~gId~~G~L~i~  236 (252)
                      .+|+.|.+...++ .+.|+..++|..-.+.++
T Consensus         8 ~~gk~V~VeLkng~~~~G~L~~~D~~mNivL~   39 (127)
T d1m5q1_           8 LLGREVQVVLSNGEVYKGVLHAVDNQLNIVLA   39 (127)
T ss_dssp             TTTSEEEEEETTSCEEEEEEEEECTTCCEEEE
T ss_pred             HCCCEEEEEECCCCEEEEEEEEECCCCEEEEE
T ss_conf             37988999989998999999998788558995


No 25 
>d1o5ua_ b.82.1.8 (A:) Hypothetical protein TM1112 {Thermotoga maritima [TaxId: 2336]}
Probab=47.46  E-value=4  Score=17.49  Aligned_cols=22  Identities=23%  Similarity=0.246  Sum_probs=17.7

Q ss_pred             CCCEEEECCCCCEEEEEEEEEC
Q ss_conf             8748999699989999963110
Q gi|254780868|r  230 FGYLLLEEKKGCVRQIFTGDIF  251 (252)
Q Consensus       230 ~G~L~i~~~~G~~~~i~sGeI~  251 (252)
                      +|++.|.+++|....+.+||.+
T Consensus        44 eG~v~i~~~~G~~~~~~aGD~~   65 (88)
T d1o5ua_          44 EGKVEVTTEDGKKYVIEKGDLV   65 (88)
T ss_dssp             EEEEEEEETTCCEEEEETTCEE
T ss_pred             EEEEEEECCCCCEEEEECCCEE
T ss_conf             7199999499978999089999


No 26 
>d2d6fa1 b.38.3.1 (A:2-73) Glutamyl-tRNA(Gln) amidotransferase subunit D, GatD {Methanobacterium thermoautotrophicum [TaxId: 145262]}
Probab=40.64  E-value=9  Score=15.29  Aligned_cols=51  Identities=12%  Similarity=0.166  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHHCCCCEEEEEECCEEEEEEEEE---ECCCCCEEEECCCCCEEEE
Q ss_conf             88999998752389779999799389999998---7698748999699989999
Q gi|254780868|r  195 EIMNLWRCFACGIGDLITIKLSYGSILGRFVG---VDDFGYLLLEEKKGCVRQI  245 (252)
Q Consensus       195 ~i~~~~~~~~~~~gk~V~i~~~~~~~~G~~~g---Id~~G~L~i~~~~G~~~~i  245 (252)
                      ..++...+.-.-.|-.|++..++.+++|++.-   ..++..+.|+.++|----|
T Consensus         5 k~~~fL~~~~i~vGD~V~i~~~~~~~eGilmP~~e~sd~~~iVlKL~nGYNiGi   58 (72)
T d2d6fa1           5 RARKFLESASIDVGDMVLVEKPDVTYEGMVLDRADDADDRHIVLKLENGYNIGV   58 (72)
T ss_dssp             HHHHHHHTTTCCTTCEEEEECSSCEEEEEECCCCTTSCSSEEEEECTTSCEEEE
T ss_pred             HHHHHHHHCCCCCCCEEEEEECCCEEEEEECCCCCCCCCCEEEEEECCCEEEEE
T ss_conf             899999985999998899997991899998487445899989999248644726


No 27 
>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]}
Probab=31.78  E-value=12  Score=14.41  Aligned_cols=34  Identities=21%  Similarity=0.264  Sum_probs=27.2

Q ss_pred             HCCCCEEEEEECC-EEEEEEEEEECCCCCEEEECC
Q ss_conf             2389779999799-389999998769874899969
Q gi|254780868|r  205 CGIGDLITIKLSY-GSILGRFVGVDDFGYLLLEEK  238 (252)
Q Consensus       205 ~~~gk~V~i~~~~-~~~~G~~~gId~~G~L~i~~~  238 (252)
                      ...++.|.+...+ ..+.|++.+-|....|++++.
T Consensus        11 ~~~~~rV~V~lr~~r~~~G~L~afD~~~NlVL~d~   45 (93)
T d1b34b_          11 VKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENV   45 (93)
T ss_dssp             HHHTCEEEEEETTSCEEEEEEEEECTTCCEEEEEE
T ss_pred             HHCCCEEEEEECCCCEEEEEEEEECCCEEEEEECE
T ss_conf             85793899998899899999998612006884030


No 28 
>d1ib8a1 b.38.2.1 (A:91-164) Hypothetical protein SP14.3 (SP0552) {Streptococcus pneumoniae [TaxId: 1313]}
Probab=21.74  E-value=19  Score=13.27  Aligned_cols=35  Identities=20%  Similarity=0.321  Sum_probs=24.8

Q ss_pred             HHHHHCCCCEEEEEEC-----CEEEEEEEEEECCCCCEEEE
Q ss_conf             9875238977999979-----93899999987698748999
Q gi|254780868|r  201 RCFACGIGDLITIKLS-----YGSILGRFVGVDDFGYLLLE  236 (252)
Q Consensus       201 ~~~~~~~gk~V~i~~~-----~~~~~G~~~gId~~G~L~i~  236 (252)
                      ..+..++|+.|.+...     ...+.|+..+++++. +.|+
T Consensus         7 ~~f~r~~G~~v~v~l~~p~~g~k~f~G~L~~~~~~~-i~l~   46 (74)
T d1ib8a1           7 DAVAGAVGKYIHVGLYQAIDKQKVFEGTLLAFEEDE-LTME   46 (74)
T ss_dssp             HHHHHHCSEEEEEECSSCSSSCSEEEEEEEEEETTE-EEEE
T ss_pred             HHHHHHCCCEEEEEEECCCCCCEEEEEEEEEECCCE-EEEE
T ss_conf             999985799899999643399517999997462875-9999


Done!