Query         gi|254780425|ref|YP_003064838.1| apolipoprotein N-acyltransferase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 518
No_of_seqs    165 out of 2706
Neff          8.6 
Searched_HMMs 13730
Date          Wed Jun  1 04:10:06 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780425.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 d1uf5a_ d.160.1.2 (A:) N-carba 100.0 4.5E-34 3.3E-38  237.5  15.7  244  241-496     2-282 (303)
  2 d1f89a_ d.160.1.1 (A:) hypothe 100.0 3.1E-29 2.3E-33  206.0  15.9  234  239-491     6-265 (281)
  3 d1j31a_ d.160.1.2 (A:) Hypothe 100.0 1.3E-28 9.1E-33  202.1  14.7  211  243-489     2-237 (262)
  4 d1emsa2 d.160.1.1 (A:10-280) N 100.0 2.3E-27 1.6E-31  193.9  15.2  234  241-494     4-260 (271)
  5 d1sgva1 b.122.1.1 (A:236-292)   78.4    0.99 7.2E-05   20.2   3.6   36  442-477     9-44  (57)
  6 d2a7sa1 c.14.1.4 (A:20-277) Pr  58.3       4 0.00029   16.3   5.8   36  422-457    92-131 (258)
  7 d1pixa2 c.14.1.4 (A:1-287) Glu  39.2     7.9 0.00058   14.4   4.3   10  303-312    63-72  (287)
  8 d1uyra1 c.14.1.4 (A:1482-1814)  32.2      10 0.00074   13.6   5.2   44  418-461    98-146 (333)
  9 d1vp8a_ c.49.1.2 (A:) Hypothet  30.4      11 0.00079   13.4   2.5   10  399-408   128-137 (190)
 10 d2a7va1 c.67.1.4 (A:26-488) Se  25.8      10 0.00073   13.7   0.9   21  277-297   172-192 (463)
 11 d1rv3a_ c.67.1.4 (A:) Serine h  25.2      10 0.00076   13.6   0.9   22  276-297   175-196 (470)
 12 d1t57a_ c.49.1.2 (A:) Hypothet  23.0      15  0.0011   12.6   2.5   10  399-408   125-134 (186)
 13 d1dfoa_ c.67.1.4 (A:) Serine h  20.6      15  0.0011   12.6   0.9   32  276-312   160-191 (416)
 14 d2o3aa1 c.116.1.8 (A:1-167) Un  20.5      15  0.0011   12.6   0.8   30  399-428   132-162 (167)

No 1  
>d1uf5a_ d.160.1.2 (A:) N-carbamoyl-D-aminoacid amidohydrolase {Agrobacterium sp. [TaxId: 361]}
Probab=100.00  E-value=4.5e-34  Score=237.55  Aligned_cols=244  Identities=15%  Similarity=0.160  Sum_probs=178.5

Q ss_pred             CCCCCCCCCCC-CCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEECCCCCCCCHH-----H------------HHHH
Q ss_conf             55321001244-2035554333357899875431013346686189831210110001-----1------------2346
Q gi|254780425|r  241 ISPVIRIVQPG-INPAIKEDREKILERYLSLTALPVSAGELEPVIIVWAYLPFPFSIV-----D------------QPSI  302 (518)
Q Consensus       241 ~~~~V~iVQpn-i~~~~k~~~~~~~~~~~~l~~~~~~~~~~~~dLiVWPEsa~p~~~~-----~------------~~~~  302 (518)
                      .+++|+++|.+ +...  .+++..++++.++.+.   +.+.++|||||||.+++-+..     +            ....
T Consensus         2 ~~~~ia~~Q~~Pi~~~--~~~~~~l~r~~~li~~---A~~~gadlvvfPE~~l~Gy~~~~~~~~~~~~~~~~~~~~~~~~   76 (303)
T d1uf5a_           2 RQMILAVGQQGPIARA--ETREQVVVRLLDMLTK---AASRGANFIVFPELALTTFFPRWHFTDEAELDSFYETEMPGPV   76 (303)
T ss_dssp             CEEEEEEEEBCCCCTT--CCHHHHHHHHHHHHHH---HHHTTCSEEECCTTTTSCCGGGSCCCCHHHHHTTSBSSSSCTT
T ss_pred             CEEEEEEECCCCCCCC--CCHHHHHHHHHHHHHH---HHHCCCCEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCHH
T ss_conf             4799999936776888--5899999999999999---9988893999277852358721001366677666655158789


Q ss_pred             HHHHHHHHCC-CCEEEECCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCEEEEEHHHHHCCCCHHHHHHHHCCCCCCCC
Q ss_conf             6776564107-982420110012345575121000036732122111256334221331001000012111001222210
Q gi|254780425|r  303 LKKIASVLKI-NQLLIVGSMRKELVDGRSHFYKSIYIINSKGEILASSNAKHLVPFAEYLPYRNILKKLNLDFYMFPLDY  381 (518)
Q Consensus       303 ~~~l~~~~~~-~~~li~G~~~~~~~~~~~~~yNs~~~~~~~g~~~~~Y~K~~LVPFGEyiP~~~~~~~l~~~~~~~~~~~  381 (518)
                      .+.+.+.+++ +..+++|.......++..++|||+++++++|++..+|+|+||+|++||.|++.+-..-.       ..+
T Consensus        77 ~~~~~~~A~~~~i~i~~G~~~~~~~~~~~~~yNs~~li~~~G~i~~~y~K~~L~~~~e~~~~~~~~~~e~-------~~~  149 (303)
T d1uf5a_          77 VRPLFEKAAELGIGFNLGYAELVVEGGVKRRFNTSILVDKSGKIVGKYRKIHLPGHKEYEAYRPFQHLEK-------RYF  149 (303)
T ss_dssp             THHHHHHHHHHTCEEEEEEEEEEEETTEEEEEEEEEEECTTSCEEEEEECCCCCSCSSCCTTCSSCCCHH-------HHC
T ss_pred             HHHHHHHHHHCCCEEEEEEEEEEEECCCCEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-------CEE
T ss_conf             9999999986595699986543220589705899995156654323444202799765543332210134-------255


Q ss_pred             CCCCCCCCEEECCCCEEECCCCHHHHHHHHHHCC--CCCCEEEEECCCCCC-CC-----C-HHHHHHHHHHHHHHHCCCE
Q ss_conf             1358776200012200102221666558888512--699779996277557-67-----6-2899999999999972991
Q gi|254780425|r  382 SSSDISPLLGLSEKLRLYPLLFSDALFHQDINNL--ENVSAILNIIDDSGF-MG-----S-GTDHSFRYAQIQAVEIGLP  452 (518)
Q Consensus       382 ~~g~~~~~~~~~~~~~~~~~ICyE~~f~~~~r~~--~~a~~lvn~tNd~Wf-~~-----s-~~~qH~~~a~~RAiE~~r~  452 (518)
                      .+++........++.+++.+||||..||+..|.+  +|++++++++|..+. +.     . ...+|...++.||+||+.+
T Consensus       150 ~~~~~~~~~~~~~~~rig~~IC~D~~~pe~~~~la~~Ga~ii~~~~~~~~~~~~~~~~~~~~~~~~~~~~~arA~en~~~  229 (303)
T d1uf5a_         150 EPGDLGFPVYDVDAAKMGMFIANDRRWPEAWRVMGLRGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQAGSYQNGAW  229 (303)
T ss_dssp             CCCSSCSCEEEETTEEEEECCGGGGGCHHHHHHHHHTTCSEEEEEECCBSCCTTCGGGGGGHHHHHHHHHHHHHHHHTCE
T ss_pred             CCCCCCCEEEEECCCEEEEECCCCCHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCHHHCCHHHHHHHHHHHCCCCE
T ss_conf             12577650588457278861122300257666676279889997035566677554420100101134555554305531


Q ss_pred             EEEEECC---------CCCEEECCCCEEEEECCCCCCEEEEEEECCCCCCCHH
Q ss_conf             9998559---------7046998998087773899827999996067687687
Q gi|254780425|r  453 LIRATNN---------GVSAFLDERGQIISSVYADRGASIDMHFQPKVRDSFR  496 (518)
Q Consensus       453 ~vra~nt---------GiS~~id~~G~i~~~~~~~~~~~l~~~v~~~~~~T~y  496 (518)
                      ++++.++         |.|+++||+|+++++.+.++++++.++|.+..-.+..
T Consensus       230 vv~~n~~g~~~~~~~~G~S~I~~p~G~vla~~~~~~e~vl~a~idl~~~~~~R  282 (303)
T d1uf5a_         230 SAAAGKAGMEENCMLLGHSCIVAPTGEIVALTTTLEDEVITAAVDLDRCRELR  282 (303)
T ss_dssp             EEEEEBCEEETTEEECCCCEEECTTSCEEEECCSSSSEEEEEEEEGGGGHHHH
T ss_pred             EEECCCCCCCCCCCCCCCCEEEECCCCEEEECCCCCCEEEEEEECHHHHHHHH
T ss_conf             43136422133531236758995999999877899887999998389999999


No 2  
>d1f89a_ d.160.1.1 (A:) hypothetical protein yl85 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=99.96  E-value=3.1e-29  Score=205.99  Aligned_cols=234  Identities=15%  Similarity=0.107  Sum_probs=165.0

Q ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEECCCCCCCCHHH-------------HHHHHHH
Q ss_conf             555532100124420355543333578998754310133466861898312101100011-------------2346677
Q gi|254780425|r  239 EKISPVIRIVQPGINPAIKEDREKILERYLSLTALPVSAGELEPVIIVWAYLPFPFSIVD-------------QPSILKK  305 (518)
Q Consensus       239 ~~~~~~V~iVQpni~~~~k~~~~~~~~~~~~l~~~~~~~~~~~~dLiVWPEsa~p~~~~~-------------~~~~~~~  305 (518)
                      -..+++|+++|-+....   |.+..+++..++.+.+. ....++|||||||.+++-+..+             .....+.
T Consensus         6 m~~~~kia~~Q~~~~~~---D~~~N~~~~~~~i~~A~-~~~~~a~lvv~PE~~l~gy~~~~~~~~~~~~~~~~~~~~~~~   81 (281)
T d1f89a_           6 LSQKIKVALVQLSGSSP---DKMANLQRAATFIERAM-KEQPDTKLVVLPECFNSPYSTDQFRKYSEVINPKEPSTSVQF   81 (281)
T ss_dssp             BSSCEEEEEEECCCCCS---CHHHHHHHHHHHHHHHH-HHCTTEEEEECCTTTTSCSCHHHHHHHTTBCCSSSCCHHHHH
T ss_pred             HCCCCEEEEEECCCCCC---CHHHHHHHHHHHHHHHH-HCCCCCEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCHHHHH
T ss_conf             22473399995778888---99999999999999998-348999799868865578865677777765333489779999


Q ss_pred             HHHHHCCCC-EEEECCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCEEEEEHHHHHCCCCHHHHHHHHCCCCCCCCCCC
Q ss_conf             656410798-2420110012345575121000036732122111256334221331001000012111001222210135
Q gi|254780425|r  306 IASVLKINQ-LLIVGSMRKELVDGRSHFYKSIYIINSKGEILASSNAKHLVPFAEYLPYRNILKKLNLDFYMFPLDYSSS  384 (518)
Q Consensus       306 l~~~~~~~~-~li~G~~~~~~~~~~~~~yNs~~~~~~~g~~~~~Y~K~~LVPFGEyiP~~~~~~~l~~~~~~~~~~~~~g  384 (518)
                      +.+.++++. .+++|..... .++++++|||+++++++|++...|.|+++.|++++.+...          .....+.+|
T Consensus        82 l~~~A~~~~i~iv~G~~~~~-~~~~~~~yNs~~~i~~~G~i~~~~~k~~~~~~~~~~~~~~----------~e~~~~~~~  150 (281)
T d1f89a_          82 LSNLANKFKIILVGGTIPEL-DPKTDKIYNTSIIFNEDGKLIDKHRKVHLFDVDIPNGISF----------HESETLSPG  150 (281)
T ss_dssp             HHHHHHHSSCEEECCCEEEE-CTTTCCEEEEEEEECTTSCEEEEEECCCCC--------------------HHHHSCCCC
T ss_pred             HHHHHHHCCCEEECCEEEEE-CCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCC----------CCCCEEEEE
T ss_conf             99976412742312203563-1456830110111245422113332223322356643343----------332202210


Q ss_pred             CCCCCEEECCCCEEECCCCHHHHHHHHHHCC--CCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECC---
Q ss_conf             8776200012200102221666558888512--69977999627755767628999999999999729919998559---
Q gi|254780425|r  385 DISPLLGLSEKLRLYPLLFSDALFHQDINNL--ENVSAILNIIDDSGFMGSGTDHSFRYAQIQAVEIGLPLIRATNN---  459 (518)
Q Consensus       385 ~~~~~~~~~~~~~~~~~ICyE~~f~~~~r~~--~~a~~lvn~tNd~Wf~~s~~~qH~~~a~~RAiE~~r~~vra~nt---  459 (518)
                      ....+. ..++.+++.+||||..+|+..|.+  +++++++++++. |+ .+.+.|+...++.||.||+.+++.+++.   
T Consensus       151 ~~~~~~-~~~~~~~g~~iC~d~~~p~~~r~~~~~~~~~i~~~~~~-~~-~~~~~~~~~~~~~rA~en~~~vv~~n~~g~~  227 (281)
T d1f89a_         151 EKSTTI-DTKYGKFGVGICYDMRFPELAMLSARKGAFAMIYPSAF-NT-VTGPLHWHLLARSRAVDNQVYVMLCSPARNL  227 (281)
T ss_dssp             CCCEEE-EETTEEEEECCGGGGGCHHHHHHHHHTTEEEEEEECCC-BT-THHHHHHHHHHHHHHHHHTSEEEEECCCCCT
T ss_pred             CCCCCC-CCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCEEEEECC-CC-CCCCCCCCCHHHHHCCCCCCCCEEEEECCCC
T ss_conf             001110-14654444433333322221000001355532675244-55-5441000220222111024333012331467


Q ss_pred             -------CCCEEECCCCEEEEECCCCCCEEEEEEECCCC
Q ss_conf             -------70469989980877738998279999960676
Q gi|254780425|r  460 -------GVSAFLDERGQIISSVYADRGASIDMHFQPKV  491 (518)
Q Consensus       460 -------GiS~~id~~G~i~~~~~~~~~~~l~~~v~~~~  491 (518)
                             |.|+++||+|+|+++++.+ ++++++++.+..
T Consensus       228 ~~~~~~~G~S~Ii~p~G~vl~~~~~~-e~v~~adidl~~  265 (281)
T d1f89a_         228 QSSYHAYGHSIVVDPRGKIVAEAGEG-EEIIYAELDPEV  265 (281)
T ss_dssp             TSSSCBCCCCEEECTTSCEEEECCSS-SEEEEEEECHHH
T ss_pred             CCCCEEEECEEEECCCCCEEEECCCC-CEEEEEEECHHH
T ss_conf             88867611449985999888877999-849999973899


No 3  
>d1j31a_ d.160.1.2 (A:) Hypothetical protein PH0642 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}
Probab=99.96  E-value=1.3e-28  Score=202.06  Aligned_cols=211  Identities=13%  Similarity=0.051  Sum_probs=154.4

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEECCCCCCCCHHH-------------HHHHHHHHHHH
Q ss_conf             32100124420355543333578998754310133466861898312101100011-------------23466776564
Q gi|254780425|r  243 PVIRIVQPGINPAIKEDREKILERYLSLTALPVSAGELEPVIIVWAYLPFPFSIVD-------------QPSILKKIASV  309 (518)
Q Consensus       243 ~~V~iVQpni~~~~k~~~~~~~~~~~~l~~~~~~~~~~~~dLiVWPEsa~p~~~~~-------------~~~~~~~l~~~  309 (518)
                      ++|+++|.+...   .|.++.+++..++.+.   +.+.++||||+||.+++-+...             +....+.+.+.
T Consensus         2 ~ria~~Q~~~~~---~d~e~nl~~i~~~i~~---A~~~gadlvvfPE~~l~gy~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (262)
T d1j31a_           2 VKVGYIQMEPKI---LELDKNYSKAEKLIKE---ASKEGAKLVVLPELFDTGYNFESREEVFDVAQQIPEGETTTFLMEL   75 (262)
T ss_dssp             EEEEEEECCCCT---TCHHHHHHHHHHHHHH---HHHTTCSEEECCTTTTTCSCCSSHHHHHTTCBCTTTSHHHHHHHHH
T ss_pred             EEEEEEECCCCC---CCHHHHHHHHHHHHHH---HHHCCCCEEECCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             799999789987---8999999999999999---9988998999488654578602356765433201468999999985


Q ss_pred             HCCCCE-EEECCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCEEEEEHHHHHCCCCHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             107982-4201100123455751210000367321221112563342213310010000121110012222101358776
Q gi|254780425|r  310 LKINQL-LIVGSMRKELVDGRSHFYKSIYIINSKGEILASSNAKHLVPFAEYLPYRNILKKLNLDFYMFPLDYSSSDISP  388 (518)
Q Consensus       310 ~~~~~~-li~G~~~~~~~~~~~~~yNs~~~~~~~g~~~~~Y~K~~LVPFGEyiP~~~~~~~l~~~~~~~~~~~~~g~~~~  388 (518)
                      +++++. ++.|....+    ++++||+++++++ |++..+|+|+||++..|.                   .+.+|+...
T Consensus        76 A~~~~i~i~~g~~~~~----~~~~~n~~~~i~~-g~~~~~y~K~~l~~~e~~-------------------~~~~G~~~~  131 (262)
T d1j31a_          76 ARELGLYIVAGTAEKS----GNYLYNSAVVVGP-RGYIGKYRKIHLFYREKV-------------------FFEPGDLGF  131 (262)
T ss_dssp             HHHHTCEEEEEEEEEE----TTEEEEEEEEEET-TEEEEEEECSSCCTTHHH-------------------HCCCCCSCS
T ss_pred             HHCCCCEEEEEEEECC----CCCCCCCCEEEEE-EEEEEEEEEEECCCCCCE-------------------EECCCCCCC
T ss_conf             3126824775431000----1234543069985-227999865655766724-------------------677899875


Q ss_pred             CEEECCCCEEECCCCHHHHHHHHHHCC--CCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEEC--------
Q ss_conf             200012200102221666558888512--6997799962775576762899999999999972991999855--------
Q gi|254780425|r  389 LLGLSEKLRLYPLLFSDALFHQDINNL--ENVSAILNIIDDSGFMGSGTDHSFRYAQIQAVEIGLPLIRATN--------  458 (518)
Q Consensus       389 ~~~~~~~~~~~~~ICyE~~f~~~~r~~--~~a~~lvn~tNd~Wf~~s~~~qH~~~a~~RAiE~~r~~vra~n--------  458 (518)
                      .+...++.++|.+||||..||+..|..  +|++++++++++.+-  .  +  ..+.+.||+||+.+++.|..        
T Consensus       132 ~v~~~~~~~ig~~IC~D~~~pe~~~~~~~~ga~lil~p~~~~~~--~--~--~~~~~~rA~en~~~vv~~n~~G~~~~~~  205 (262)
T d1j31a_         132 KVFDIGFAKVGVMICFDWFFPESARTLALKGAEIIAHPANLVMP--Y--A--PRAMPIRALENRVYTITADRVGEERGLK  205 (262)
T ss_dssp             CEEECSSCEEEECCGGGGGSHHHHHHHHHTTCSEEEEECCCCSS--C--H--HHHHHHHHHHHTCEEEEECCCSEETTEE
T ss_pred             EEEEECCCEEEEEEEHHHHHHHHHHHHHHHCCCCCCCCCCCCCC--C--C--HHHHHHHHHCCCCEEEEEECCCCCCCCC
T ss_conf             58996895699998545642388998887403345677333464--2--0--4666556540643289972355458852


Q ss_pred             -CCCCEEECCCCEEEEECCCCCCEEEEEEECC
Q ss_conf             -9704699899808777389982799999606
Q gi|254780425|r  459 -NGVSAFLDERGQIISSVYADRGASIDMHFQP  489 (518)
Q Consensus       459 -tGiS~~id~~G~i~~~~~~~~~~~l~~~v~~  489 (518)
                       .|-|+++||+|+++++.+.++++++.+++.+
T Consensus       206 ~~G~S~i~~p~G~~l~~~~~~~e~i~~a~iDl  237 (262)
T d1j31a_         206 FIGKSLIASPKAEVLSIASETEEEIGVVEIDL  237 (262)
T ss_dssp             CCCCCEEECTTSCEEEECCSSCCEEEEEEECH
T ss_pred             CCCCCEEEECCCCEEEECCCCCCEEEEEEEEC
T ss_conf             26788899399989987689987799999981


No 4  
>d1emsa2 d.160.1.1 (A:10-280) NIT-FHIT fusion protein, N-terminal domain {Nematode (Caenorhabditis elegans) [TaxId: 6239]}
Probab=99.95  E-value=2.3e-27  Score=193.86  Aligned_cols=234  Identities=16%  Similarity=0.047  Sum_probs=166.7

Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEECCCC-CCCCHHH---------HHHHHHHHHHHH
Q ss_conf             553210012442035554333357899875431013346686189831210-1100011---------234667765641
Q gi|254780425|r  241 ISPVIRIVQPGINPAIKEDREKILERYLSLTALPVSAGELEPVIIVWAYLP-FPFSIVD---------QPSILKKIASVL  310 (518)
Q Consensus       241 ~~~~V~iVQpni~~~~k~~~~~~~~~~~~l~~~~~~~~~~~~dLiVWPEsa-~p~~~~~---------~~~~~~~l~~~~  310 (518)
                      ...+|+++|.|...    |.+...++..++.+   ++.+.++|||||||.+ ++....+         +....+.+.+.+
T Consensus         4 ~~~rVA~~Q~~~~~----d~~~N~~~i~~~i~---~A~~~gadlvvfPE~~~~~~~~~~~~~~~a~~~~~~~~~~l~~~a   76 (271)
T d1emsa2           4 GRHFIAVCQMTSDN----DLEKNFQAAKNMIE---RAGEKKCEMVFLPECFDFIGLNKNEQIDLAMATDCEYMEKYRELA   76 (271)
T ss_dssp             SEEEEEEECBCCCS----CHHHHHHHHHHHHH---HHHHTTCSEEEECTTCSCCCSSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEEECCCCC----CHHHHHHHHHHHHH---HHHHCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHHHH
T ss_conf             88699999588988----99999999999999---999785969998866212187978999887752146777665420


Q ss_pred             CCCC-EEEECCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCEEEEEHHHHHCCCCHHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf             0798-242011001234557512100003673212211125633422133100100001211100122221013587762
Q gi|254780425|r  311 KINQ-LLIVGSMRKELVDGRSHFYKSIYIINSKGEILASSNAKHLVPFAEYLPYRNILKKLNLDFYMFPLDYSSSDISPL  389 (518)
Q Consensus       311 ~~~~-~li~G~~~~~~~~~~~~~yNs~~~~~~~g~~~~~Y~K~~LVPFGEyiP~~~~~~~l~~~~~~~~~~~~~g~~~~~  389 (518)
                      +++. .+++|.......+++.++||++++++++|++..+|+|+||.|+.++-+.+..          ...-+.+|+....
T Consensus        77 ~~~~i~v~~G~~~~~~~~~~~~~yNsa~vi~~~g~i~~~~~K~~l~~~~~~~~~~~~----------e~~~~~~g~~~~~  146 (271)
T d1emsa2          77 RKHNIWLSLGGLHHKDPSDAAHPWNTHLIIDSDGVTRAEYNKLHLFDLEIPGKVRLM----------ESEFSKAGTEMIP  146 (271)
T ss_dssp             HHTTCEEEEEEEEEEETTEEEEEEEEEEEECTTSCEEEEEECCCCCEEEETTTEEEE----------GGGTCCCCCSCCC
T ss_pred             HCCCCCCCCCCEEEEEECCCCCEEEEEEEEECCCEEEEEEEEECCCCCCCCCCCCEE----------CCCCCCCCCCCCC
T ss_conf             003432224301466304788546789999479668774224024554445653100----------1112468854430


Q ss_pred             EEECCCCEEECCCCHHHHHHHHHHCC--CCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECC--------
Q ss_conf             00012200102221666558888512--69977999627755767628999999999999729919998559--------
Q gi|254780425|r  390 LGLSEKLRLYPLLFSDALFHQDINNL--ENVSAILNIIDDSGFMGSGTDHSFRYAQIQAVEIGLPLIRATNN--------  459 (518)
Q Consensus       390 ~~~~~~~~~~~~ICyE~~f~~~~r~~--~~a~~lvn~tNd~Wf~~s~~~qH~~~a~~RAiE~~r~~vra~nt--------  459 (518)
                      ....+..+++.+||||..||+..|.+  ++++++++++.+.+  +....++....+.||.|++.+++.+.+.        
T Consensus       147 v~~~~~~~~g~~iC~D~~~~e~~~~~~~~ga~~i~~p~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~n~~g~~~~~~~  224 (271)
T d1emsa2         147 PVDTPIGRLGLSICYDVRFPELSLWNRKRGAQLLSFPSAFTL--NTGLAHWETLLRARAIENQCYVVAAAQTGAHNPKRQ  224 (271)
T ss_dssp             CEEETTEEECCCCGGGGGCHHHHHHHHHTTCSEEECCBCCCH--HHHHHHHHHHHHHHHHHHTCEEEECBBEEEEETTEE
T ss_pred             EEECCCCCCCCCCCCCCCCCHHHHHHHHHCCCEEEECCCCCC--CCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCE
T ss_conf             251277411442132211228999998605728986353555--432046799999877630443000111246789977


Q ss_pred             --CCCEEECCCCEEEEECCCCCCEEEEEEECCCCCCC
Q ss_conf             --70469989980877738998279999960676876
Q gi|254780425|r  460 --GVSAFLDERGQIISSVYADRGASIDMHFQPKVRDS  494 (518)
Q Consensus       460 --GiS~~id~~G~i~~~~~~~~~~~l~~~v~~~~~~T  494 (518)
                        |.|+++||+|+|+++.+. +++++.+++.+..-.+
T Consensus       225 ~~G~S~I~~P~G~il~~~~~-~e~il~adiDl~~i~~  260 (271)
T d1emsa2         225 SYGHSMVVDPWGAVVAQCSE-RVDMCFAEIDLSYVDT  260 (271)
T ss_dssp             EECCCEEECTTSCEEEECCS-SSCEEEEEEEHHHHHH
T ss_pred             EEEEEEEECCCCCEEEECCC-CCEEEEEEECHHHHHH
T ss_conf             74546999499948987799-9829999971899999


No 5  
>d1sgva1 b.122.1.1 (A:236-292) Pseudouridine synthase II TruB, C-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]}
Probab=78.41  E-value=0.99  Score=20.23  Aligned_cols=36  Identities=28%  Similarity=0.300  Sum_probs=31.6

Q ss_pred             HHHHHHHCCCEEEEEECCCCCEEECCCCEEEEECCC
Q ss_conf             999999729919998559704699899808777389
Q gi|254780425|r  442 AQIQAVEIGLPLIRATNNGVSAFLDERGQIISSVYA  477 (518)
Q Consensus       442 a~~RAiE~~r~~vra~ntGiS~~id~~G~i~~~~~~  477 (518)
                      ...+++-+||++-.+...|+.+.+||+|++++-++.
T Consensus         9 ~Ea~~l~~Gr~L~~~g~~G~~Aa~~PdG~~iALl~~   44 (57)
T d1sgva1           9 AEASAAANGRSLPAVGIDGVYAACDADGRVIALLRD   44 (57)
T ss_dssp             HHHHHHHTTCCCBCCCCCSCEEEECTTSCEEEEEEE
T ss_pred             HHHHHHHCCCCCCCCCCCCCEEEECCCCCEEEEEEC
T ss_conf             999997768865867898777999999979999974


No 6  
>d2a7sa1 c.14.1.4 (A:20-277) Propionyl-CoA carboxylase complex B subunit, PccB {Mycobacterium tuberculosis [TaxId: 1773]}
Probab=58.33  E-value=4  Score=16.28  Aligned_cols=36  Identities=28%  Similarity=0.271  Sum_probs=14.3

Q ss_pred             EEECCCCCC-CCC-HHHHHHHHH--HHHHHHCCCEEEEEE
Q ss_conf             996277557-676-289999999--999997299199985
Q gi|254780425|r  422 LNIIDDSGF-MGS-GTDHSFRYA--QIQAVEIGLPLIRAT  457 (518)
Q Consensus       422 vn~tNd~Wf-~~s-~~~qH~~~a--~~RAiE~~r~~vra~  457 (518)
                      +...+|.-| +.| ++..+..+.  .=+|+|++.|+|.-.
T Consensus        92 ~v~a~Dft~~gGS~g~~~g~K~~ra~e~A~~~~lP~I~l~  131 (258)
T d2a7sa1          92 CIFSQDATVFGGSLGEVYGEKIVKVQELAIKTGRPLIGIN  131 (258)
T ss_dssp             EEEEECTTSGGGCBCHHHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             EEECCCCEEECCCCCHHHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             8741343486771332456688898999876598669986


No 7  
>d1pixa2 c.14.1.4 (A:1-287) Glutaconyl-CoA decarboxylase A subunit {Acidaminococcus fermentans [TaxId: 905]}
Probab=39.18  E-value=7.9  Score=14.35  Aligned_cols=10  Identities=20%  Similarity=0.484  Sum_probs=3.7

Q ss_pred             HHHHHHHHCC
Q ss_conf             6776564107
Q gi|254780425|r  303 LKKIASVLKI  312 (518)
Q Consensus       303 ~~~l~~~~~~  312 (518)
                      ++++..++.+
T Consensus        63 ReRI~~LlD~   72 (287)
T d1pixa2          63 LQRIEKLVEP   72 (287)
T ss_dssp             HHHHHHHSCT
T ss_pred             HHHHHHHCCC
T ss_conf             9999997697


No 8  
>d1uyra1 c.14.1.4 (A:1482-1814) Acetyl-coenzyme A carboxylase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=32.21  E-value=10  Score=13.64  Aligned_cols=44  Identities=27%  Similarity=0.440  Sum_probs=28.9

Q ss_pred             CCEEEEECCCCCC-CCC-HHHHH--HHHHHHHHHHCCCEEEEE-ECCCC
Q ss_conf             9779996277557-676-28999--999999999729919998-55970
Q gi|254780425|r  418 VSAILNIIDDSGF-MGS-GTDHS--FRYAQIQAVEIGLPLIRA-TNNGV  461 (518)
Q Consensus       418 a~~lvn~tNd~Wf-~~s-~~~qH--~~~a~~RAiE~~r~~vra-~ntGi  461 (518)
                      ..-++.+.||-.+ ++| ++..+  +..+.=.|.|.|.|+|.- +|+|-
T Consensus        98 GR~vvvianD~T~~~GS~g~~e~~k~~~a~elA~~~~iP~I~l~~~sGA  146 (333)
T d1uyra1          98 GRQFVVVANDITFKIGSFGPQEDEFFNKVTEYARKRGIPRIYLAANSGA  146 (333)
T ss_dssp             CEEEEEEEECTTSGGGCBCHHHHHHHHHHHHHHHHHTCCEEEEECCCCB
T ss_pred             CCEEEEEEECCCEECCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCCCC
T ss_conf             9289999987720057568889999999999999859988999768886


No 9  
>d1vp8a_ c.49.1.2 (A:) Hypothetical protein AF0103 {Archaeoglobus fulgidus [TaxId: 2234]}
Probab=30.45  E-value=11  Score=13.45  Aligned_cols=10  Identities=0%  Similarity=-0.223  Sum_probs=6.3

Q ss_pred             ECCCCHHHHH
Q ss_conf             0222166655
Q gi|254780425|r  399 YPLLFSDALF  408 (518)
Q Consensus       399 ~~~ICyE~~f  408 (518)
                      |.-+|+|+.-
T Consensus       128 G~KVavEi~l  137 (190)
T d1vp8a_         128 GLKVCVEITI  137 (190)
T ss_dssp             HHHHHHHHHH
T ss_pred             CCEEEEEEEE
T ss_conf             7579999999


No 10 
>d2a7va1 c.67.1.4 (A:26-488) Serine hydroxymethyltransferase {Human (Homo sapiens), mitochondrial [TaxId: 9606]}
Probab=25.83  E-value=10  Score=13.67  Aligned_cols=21  Identities=19%  Similarity=0.175  Sum_probs=16.8

Q ss_pred             CCCCCCCEEEECCCCCCCCHH
Q ss_conf             346686189831210110001
Q gi|254780425|r  277 AGELEPVIIVWAYLPFPFSIV  297 (518)
Q Consensus       277 ~~~~~~dLiVWPEsa~p~~~~  297 (518)
                      +.+.+|+|||-..|++|+...
T Consensus       172 a~~~kPklIi~G~S~y~r~~d  192 (463)
T d2a7va1         172 ARLFRPRLIIAGTSAYARLID  192 (463)
T ss_dssp             HHHHCCSEEEECCSSCCSCCC
T ss_pred             HHHCCCCEEEECCCCCCCCCC
T ss_conf             750477657723301355467


No 11 
>d1rv3a_ c.67.1.4 (A:) Serine hydroxymethyltransferase {Rabbit (Oryctolagus cuniculus) [TaxId: 9986]}
Probab=25.22  E-value=10  Score=13.55  Aligned_cols=22  Identities=14%  Similarity=0.162  Sum_probs=17.1

Q ss_pred             CCCCCCCCEEEECCCCCCCCHH
Q ss_conf             3346686189831210110001
Q gi|254780425|r  276 SAGELEPVIIVWAYLPFPFSIV  297 (518)
Q Consensus       276 ~~~~~~~dLiVWPEsa~p~~~~  297 (518)
                      .+...+|+||+...|++|+...
T Consensus       175 ~a~~~kPklIi~G~S~y~r~~d  196 (470)
T d1rv3a_         175 NARLFHPKLIIAGTSCYSRNLD  196 (470)
T ss_dssp             HHHHHCCSEEEECCSSCCSCCC
T ss_pred             HHHHHCCCEEEECHHHCCCCCC
T ss_conf             9874076547603555156677


No 12 
>d1t57a_ c.49.1.2 (A:) Hypothetical protein MTH1675 {Methanobacterium thermoautotrophicum [TaxId: 145262]}
Probab=23.02  E-value=15  Score=12.59  Aligned_cols=10  Identities=0%  Similarity=-0.270  Sum_probs=6.6

Q ss_pred             ECCCCHHHHH
Q ss_conf             0222166655
Q gi|254780425|r  399 YPLLFSDALF  408 (518)
Q Consensus       399 ~~~ICyE~~f  408 (518)
                      |.-+|+|+.-
T Consensus       125 G~KVavEi~l  134 (186)
T d1t57a_         125 GFKVCVEIAI  134 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             CCEEEEEEEE
T ss_conf             7579999999


No 13 
>d1dfoa_ c.67.1.4 (A:) Serine hydroxymethyltransferase {Escherichia coli [TaxId: 562]}
Probab=20.62  E-value=15  Score=12.63  Aligned_cols=32  Identities=16%  Similarity=0.252  Sum_probs=21.0

Q ss_pred             CCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHCC
Q ss_conf             3346686189831210110001123466776564107
Q gi|254780425|r  276 SAGELEPVIIVWAYLPFPFSIVDQPSILKKIASVLKI  312 (518)
Q Consensus       276 ~~~~~~~dLiVWPEsa~p~~~~~~~~~~~~l~~~~~~  312 (518)
                      .+.+.+|+||+-..|++|+...     .+++.+.+++
T Consensus       160 ~a~~~kPklIi~G~S~y~r~~d-----~~~~reiad~  191 (416)
T d1dfoa_         160 QAKEHKPKMIIGGFSAYSGVVD-----WAKMREIADS  191 (416)
T ss_dssp             HHHHHCCSEEEEECSSCCSCCC-----HHHHHHHHHH
T ss_pred             HHHHHCCCEEEECCCCCCCCCC-----HHHHHHHHHH
T ss_conf             9998365648734322556558-----7999999875


No 14 
>d2o3aa1 c.116.1.8 (A:1-167) Uncharacterized protein AF0751 {Archaeoglobus fulgidus [TaxId: 2234]}
Probab=20.52  E-value=15  Score=12.63  Aligned_cols=30  Identities=7%  Similarity=0.025  Sum_probs=21.5

Q ss_pred             ECCCCHHHHHHHH-HHCCCCCCEEEEECCCC
Q ss_conf             0222166655888-85126997799962775
Q gi|254780425|r  399 YPLLFSDALFHQD-INNLENVSAILNIIDDS  428 (518)
Q Consensus       399 ~~~ICyE~~f~~~-~r~~~~a~~lvn~tNd~  428 (518)
                      +-+|+-|..|++- -+++.+|.+.|.+|+.+
T Consensus       132 ALAiFLDrl~G~~l~~~F~~akl~ViPs~~G  162 (167)
T d2o3aa1         132 ALAVFLDRVLGKVFDISFDDAKIKVIPSERG  162 (167)
T ss_dssp             HHHHHHHHHTCCTTTCCCTTCSSEEECCSSS
T ss_pred             HHHHHHHHHHCHHHHCCCCCCEEEEEECCCC
T ss_conf             9999999861757642379972899655557


Done!