Query         gi|254780347|ref|YP_003064760.1| riboflavin synthase subunit alpha [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 204
No_of_seqs    131 out of 2487
Neff          5.8 
Searched_HMMs 23785
Date          Mon May 30 09:24:38 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780347.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 1kzl_A Riboflavin synthase; bi 100.0       0       0  503.6  18.8  198    1-203     1-200 (208)
  2 1i8d_A Riboflavin synthase; ri 100.0       0       0  495.1  18.7  197    1-202     1-203 (213)
  3 3a35_A Lumazine protein, LUMP; 100.0       0       0  467.3  15.4  187    1-193     1-189 (190)
  4 3ddy_A Lumazine protein, LUMP; 100.0       0       0  462.8  16.1  185    1-193     1-186 (186)
  5 1i8d_A Riboflavin synthase; ri  99.8 5.2E-21 2.2E-25  142.2   7.6   85  103-187     2-86  (213)
  6 3ddy_A Lumazine protein, LUMP;  99.8 2.5E-20 1.1E-24  138.2   9.4   85    1-90     97-182 (186)
  7 3a35_A Lumazine protein, LUMP;  99.8 2.9E-20 1.2E-24  137.8   6.1   86    2-93     98-185 (190)
  8 1kzl_A Riboflavin synthase; bi  99.8 8.4E-20 3.5E-24  135.1   7.5   86    1-92     98-186 (208)
  9 3h43_A Proteasome-activating n  74.9       4 0.00017   20.0   4.6   38   16-53     35-74  (85)
 10 2wg5_A General control protein  69.7     3.9 0.00016   20.1   3.6   40   16-55     54-95  (109)
 11 3dwl_G Actin-related protein 2  37.5     9.4  0.0004   17.8   1.1   17  186-202   103-119 (152)
 12 1k8k_G P16, ARP2/3 complex 16   32.8      16 0.00065   16.5   1.6   17  186-202   102-118 (151)
 13 1ep3_B Dihydroorotate dehydrog  21.7      40  0.0017   14.1   6.2   84    6-92      4-98  (262)

No 1  
>1kzl_A Riboflavin synthase; biosynthesis of riboflavin, ligand binding, transferase; HET: CRM; 2.10A {Schizosaccharomyces pombe} SCOP: b.43.4.3 b.43.4.3
Probab=100.00  E-value=0  Score=503.55  Aligned_cols=198  Identities=30%  Similarity=0.497  Sum_probs=188.6

Q ss_pred             CCCEEEEEEEEEEEEEEC-CCCEEEEEEECCCCCCCCCCCEEEECCEEEEEEEECCCCCCCCEEEEEEEHHHHHHCCCCC
Q ss_conf             945337118999999876-9935999981755112667724653331542365045556686799998656553201355
Q gi|254780347|r    1 MFTGIVTDIGKIIAMTPI-AKGMRLRVMTSYNTSKMKLGCSIAHAGICLTVVRLSEEHSVDNWYEVEVWAETNRITNIAS   79 (204)
Q Consensus         1 MFtGIV~~~G~V~~i~~~-~~~~~l~i~~~~~~~~l~~G~SIavnGvCLTV~~i~~~~~~~~~f~~~~~~ETl~~T~l~~   79 (204)
                      |||||||++|+|.++++. ++++++.+.++..++++++|||||||||||||++++     +++|+|++++||+++|||+.
T Consensus         1 MFTGII~~~G~V~~i~~~~~~~~~l~i~~~~~~~~l~iG~SIavnGvCLTV~~~~-----~~~~~~dv~~ETl~~T~l~~   75 (208)
T 1kzl_A            1 MFTGLVEAIGVVKDVQGTIDNGFAMKIEAPQILDDCHTGDSIAVNGTCLTVTDFD-----RYHFTVGIAPESLRLTNLGQ   75 (208)
T ss_dssp             CBCSCCCEEEEEEEEEEETTTEEEEEEECGGGCTTCCTTCEEEETTEEEEEEEEC-----SSEEEEEECHHHHHHSSGGG
T ss_pred             CCCCCCCEEEEEEEEEECCCCCEEEEEECCCCCCCCCCCCEEEECCEEEEEEECC-----CCEEEEEEHHHHHHHHHHCC
T ss_conf             9880107699999989768995899997574224477788699889998899768-----87799998588555665255


Q ss_pred             CCCCCCCCCCCCCHHHHCCCCCEEEECCCCHHHHHHHCCCCCEEEEEEECCC-CCCCEECCCCEEEEEEEEEEEEEECCC
Q ss_conf             5656631335432000004764245401001101110023313798751342-112100235719982345787741685
Q gi|254780347|r   80 WGIGTFINLERSVKLGDRLDGHLVSGHIDGTVEILFLDFIGDSMYCRLSLPH-NLEQFIAVKGSVCLNGVSLTVNLVGKN  158 (204)
Q Consensus        80 l~~G~~VNLE~a~~~g~~lgGH~v~GhVd~~~~i~~i~~~~~~~~~~i~~~~-~~~~~l~~KgsI~idGvSLTV~~~~~~  158 (204)
                      |++|++|||||||++|||+|||+||||||++|+++++++.++++.+++..|+ .+.+|+++|||||+|||||||+++.++
T Consensus        76 l~~G~~VNLErsl~~gd~lgGH~V~GHVD~~~~i~~i~~~~~~~~~~~~~~~~~~~~yiv~KGsIaidGvSLTV~~v~~~  155 (208)
T 1kzl_A           76 CKAGDPVNLERAVLSSTRMGGHFVQGHVDTVAEIVEKKQDGEAIDFTFRPRDPFVLKYIVYKGYIALDGTSLTITHVDDS  155 (208)
T ss_dssp             CCTTCEEEEEECCCCSCCSSSCCBCSCCCEEEEEEEEEEETTEEEEEEEESSGGGGGGCCTTCEEEETTEEEEEEEECSS
T ss_pred             CCCCCEECCCCCEECCCEECCEEEEEECCEEEEEEEEEECCCCEEEEEEEEEHHHHCCEEECCEEEEEEEEEEEEEECCC
T ss_conf             77898883156531786867844788740899999999769963799995101122124650109985048999867299


Q ss_pred             EEEEEEEHHHHCCCCHHHCCCCCEEEEEHHHHHHHHHHHHCCCCC
Q ss_conf             499998444330133002489967469713588999998602335
Q gi|254780347|r  159 FFDVLLIRHTIEETTWKMHKVGDLINIEVDSMMRYIARLYALNTS  203 (204)
Q Consensus       159 ~f~v~lIp~Tl~~T~l~~~k~Gd~VNiE~D~l~kyv~r~~~~~~~  203 (204)
                      +|+|+||||||++|||+++++||+||||+|++|||++|+++.+.+
T Consensus       156 ~f~v~lIP~Tl~~T~l~~~~~Gd~VNiE~D~lakYi~~~l~~~~~  200 (208)
T 1kzl_A          156 TFSIMMISYTQSKVIMAKKNVGDLVNVEVDQIGKYTEKLVEAHIA  200 (208)
T ss_dssp             CEEEEECHHHHTTSGGGGCCTTCEEEEEECTHHHHHHHHHHHHTT
T ss_pred             EEEEEEEHHHHHHCCCCCCCCCCEEEEEEHHHHHHHHHHHHHHHH
T ss_conf             899999778865451114878999998641499999999877543


No 2  
>1i8d_A Riboflavin synthase; riboflavin biosynthesis, antimicrobial target, structure-based design, transferase; 2.00A {Escherichia coli} SCOP: b.43.4.3 b.43.4.3 PDB: 1hze_A* 1i18_A* 1pkv_A*
Probab=100.00  E-value=0  Score=495.09  Aligned_cols=197  Identities=33%  Similarity=0.483  Sum_probs=185.2

Q ss_pred             CCCEEEEEEEEEEEEEECCCCEEEEEEECC-CCCCCCCCCEEEECCEEEEEEEECCCCCCCCEEEEEEEHHHHHHCCCCC
Q ss_conf             945337118999999876993599998175-5112667724653331542365045556686799998656553201355
Q gi|254780347|r    1 MFTGIVTDIGKIIAMTPIAKGMRLRVMTSY-NTSKMKLGCSIAHAGICLTVVRLSEEHSVDNWYEVEVWAETNRITNIAS   79 (204)
Q Consensus         1 MFtGIV~~~G~V~~i~~~~~~~~l~i~~~~-~~~~l~~G~SIavnGvCLTV~~i~~~~~~~~~f~~~~~~ETl~~T~l~~   79 (204)
                      |||||||++|+|.++++.+++.++.+.++. .++++++|||||||||||||++++.     ++|+|+++|||+++|||+.
T Consensus         1 MFTGIIe~~G~v~~i~~~~~~~~~~i~~~~~~~~~l~iG~SIavnGvCLTV~~~~~-----~~~~fdv~~ETl~~T~l~~   75 (213)
T 1i8d_A            1 MFTGIVQGTAKLVSIDEKPNFRTHVVELPDHMLDGLETGASVAHNGCCLTVTEING-----NHVSFDLMKETLRITNLGD   75 (213)
T ss_dssp             CBCSCCCEEEEEEEEEECSSEEEEEEECCGGGTTTCCTTCEEEETTEEEEEEEEET-----TEEEEEEEHHHHHHSGGGG
T ss_pred             CCCEECCEEEEEEEEEECCCCEEEEEECCCCCCCCCCCCCEEEECCEEEEEEEECC-----CCEEEEEEHHHHHCCCCCC
T ss_conf             94962272999999998799569999917410044778987997789978899818-----9289998045220051110


Q ss_pred             CCCCCCCCCCCCCHHHHCCCCCEEEECCCCHHHHHHHCCCCCEEEEEEECC-CCCCCEECCCCEEEEEEEEEEEEEECCC
Q ss_conf             565663133543200000476424540100110111002331379875134-2112100235719982345787741685
Q gi|254780347|r   80 WGIGTFINLERSVKLGDRLDGHLVSGHIDGTVEILFLDFIGDSMYCRLSLP-HNLEQFIAVKGSVCLNGVSLTVNLVGKN  158 (204)
Q Consensus        80 l~~G~~VNLE~a~~~g~~lgGH~v~GhVd~~~~i~~i~~~~~~~~~~i~~~-~~~~~~l~~KgsI~idGvSLTV~~~~~~  158 (204)
                      |++|++|||||||++|||+|||+|||||||+|+|.++++.++++.+++..| +.+++|+++|||||+|||||||+++.++
T Consensus        76 l~~G~~VNLEral~~gd~lgGH~V~GHVD~~~~i~~i~~~~~~~~~~~~~~~~~l~~yiv~KGSIaidGvSLTV~~v~~~  155 (213)
T 1i8d_A           76 LKVGDWVNVERAAKFSDEIGGHLMSGHIMTTAEVAKILTSENNRQIWFKVQDSQLMKYILYKGFIGIDGISLTVGEVTPT  155 (213)
T ss_dssp             CCTTCEEEEEECCBTTSCCSSCCBCCCCCEEEEEEEEEEETTEEEEEEEESCGGGGGGCCTTCEEEETTEEEECCSBCSS
T ss_pred             CCCCCEEEECCCEECCCCCCCCCEEEEECCCCEEEEEEECCCCEEEEEEECCHHHHHHHHHCCEEEEEEEEEEEEEECCC
T ss_conf             34698686366610886318963798867411388999839967999982435776545413408984179998747398


Q ss_pred             EEEEEEEHHHHCCCCHHHCCCCCEEEEEHHHHHHHH----HHHHCCCC
Q ss_conf             499998444330133002489967469713588999----99860233
Q gi|254780347|r  159 FFDVLLIRHTIEETTWKMHKVGDLINIEVDSMMRYI----ARLYALNT  202 (204)
Q Consensus       159 ~f~v~lIp~Tl~~T~l~~~k~Gd~VNiE~D~l~kyv----~r~~~~~~  202 (204)
                      +|+|+||||||++|||+.+++||+||||+|+|+||+    +|+++.+.
T Consensus       156 ~f~v~lIP~Tl~~T~l~~~~~Gd~VNiE~D~~~kyi~~~~er~l~~~~  203 (213)
T 1i8d_A          156 RFCVHLIPETLERTTLGKKKLGARVNIEIDPQTQAVVDTVERVLAARE  203 (213)
T ss_dssp             EEEEEECHHHHHHSSGGGCCTTCEEEEEECHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEHHHHHHCCCCCCCCCCEEEEEEECHHHHHHHHHHHHHHCCC
T ss_conf             899999846755463235878998998180457899999999864241


No 3  
>3a35_A Lumazine protein, LUMP; luminous bacteria, homologue of riboflavin synthase, luminescent protein; HET: RBF; 1.42A {Photobacterium kishitanii} PDB: 3a3b_B* 3a3g_A*
Probab=100.00  E-value=0  Score=467.28  Aligned_cols=187  Identities=20%  Similarity=0.296  Sum_probs=179.5

Q ss_pred             CCCEEEEEEEEEEEEEECCCCEEEEEEECCC-CCCCCCCCEEEECCEEEEEEEECCCCCCCCEEEEEEEHHHHHHCCCCC
Q ss_conf             9453371189999998769935999981755-112667724653331542365045556686799998656553201355
Q gi|254780347|r    1 MFTGIVTDIGKIIAMTPIAKGMRLRVMTSYN-TSKMKLGCSIAHAGICLTVVRLSEEHSVDNWYEVEVWAETNRITNIAS   79 (204)
Q Consensus         1 MFtGIV~~~G~V~~i~~~~~~~~l~i~~~~~-~~~l~~G~SIavnGvCLTV~~i~~~~~~~~~f~~~~~~ETl~~T~l~~   79 (204)
                      |||||||++|+|.++++.+++.++.|.+|.. ++++++|+|||||||||||++++.     +.|.|++ +||+++|||+.
T Consensus         1 MFTGIIe~~G~I~~i~~~~~~~~l~i~~~~~~~~~l~iG~SIavnGvCLTV~~~~~-----~~~~fdv-~ETl~~T~l~~   74 (190)
T 3a35_A            1 MFKGIVQGAGIIKKISKNDDTQRHGITFPKDILESVEKGTVMLVNGCSLTVVRISG-----DVVYFDI-DQAINTTTFRE   74 (190)
T ss_dssp             CBCSCCCEEEEEEEEEECSSCEEEEEECCHHHHHTCCTTCEEEETTEEEEEEEEET-----TEEEEEE-STTTTTSSGGG
T ss_pred             CCCEECCEEEEEEEEEECCCCEEEEEEECHHHHHCCCCCCEEEECCEEEEEEEECC-----CEEEEEH-HHHHHHHHCCC
T ss_conf             95952280999999998799389999947456531667987998979889999637-----5089997-99566523357


Q ss_pred             CCCCCCCCCCCCCHHHHCCCCCEEEECCCCHHHHHHHCCCCCEEEEEEECCCCCCCEECCCCEEEEEEEEEEEEEECCCE
Q ss_conf             56566313354320000047642454010011011100233137987513421121002357199823457877416854
Q gi|254780347|r   80 WGIGTFINLERSVKLGDRLDGHLVSGHIDGTVEILFLDFIGDSMYCRLSLPHNLEQFIAVKGSVCLNGVSLTVNLVGKNF  159 (204)
Q Consensus        80 l~~G~~VNLE~a~~~g~~lgGH~v~GhVd~~~~i~~i~~~~~~~~~~i~~~~~~~~~l~~KgsI~idGvSLTV~~~~~~~  159 (204)
                      |++|++|||||||++|||+|||+|||||||+|+|.++++.++++.++|++|+++++|+++|||||+|||||||+++.+++
T Consensus        75 l~~g~~VNLEral~~gdrlgGH~V~GHVD~~~~i~~i~~~~~~~~~~~~~p~~~~~yiv~KGSIaidGvSLTV~~v~~~~  154 (190)
T 3a35_A           75 LEVGNKVNLEVRPEFGSLLGKGALTGNIKGVATVDNITEEEDRLKVYIKIPKDLIENILSEDHIGINGVSHSIEEISDDI  154 (190)
T ss_dssp             CCTTCEEEEECCCSSCCCCCSSCBCSCCCEEEEEEEEEEETTEEEEEEECCTTSCSCCCTTSEEEETTEEEECCEEETTE
T ss_pred             CCCCCEECCCCCCCCCCCCCCCCEEEEECCCEEEEEEEEECCCEEEEEECCHHHHCCCCCCCEEEEEEEEEEEEEECCCE
T ss_conf             76695872333433772759974578836656999998615723799986968941455665899965899988871989


Q ss_pred             EEEEEEHHHHCCCCHHHCCCCCEEEEEH-HHHHHH
Q ss_conf             9999844433013300248996746971-358899
Q gi|254780347|r  160 FDVLLIRHTIEETTWKMHKVGDLINIEV-DSMMRY  193 (204)
Q Consensus       160 f~v~lIp~Tl~~T~l~~~k~Gd~VNiE~-D~l~ky  193 (204)
                      |+++|||||+++|||+.+++||+||||+ ||++||
T Consensus       155 f~v~lip~T~~~T~l~~~k~Gd~VNiE~~~~~gk~  189 (190)
T 3a35_A          155 IFINYPKNLSITTNLGTLEKGSDVNVETLNVSNEW  189 (190)
T ss_dssp             EEEEEETTHHHHSGGGGCCTTCEEEEEECC-----
T ss_pred             EEEEECHHHHHHCCCCCCCCCCEEEECCHHCCCCC
T ss_conf             99996807775013555888999997882217678


No 4  
>3ddy_A Lumazine protein, LUMP; luminescent bacteria, riboflavin synthase, luminescence, luminescent protein; HET: RBF; 2.50A {Photobacterium leiognathi}
Probab=100.00  E-value=0  Score=462.78  Aligned_cols=185  Identities=19%  Similarity=0.278  Sum_probs=179.1

Q ss_pred             CCCEEEEEEEEEEEEEECCCCEEEEEEECCC-CCCCCCCCEEEECCEEEEEEEECCCCCCCCEEEEEEEHHHHHHCCCCC
Q ss_conf             9453371189999998769935999981755-112667724653331542365045556686799998656553201355
Q gi|254780347|r    1 MFTGIVTDIGKIIAMTPIAKGMRLRVMTSYN-TSKMKLGCSIAHAGICLTVVRLSEEHSVDNWYEVEVWAETNRITNIAS   79 (204)
Q Consensus         1 MFtGIV~~~G~V~~i~~~~~~~~l~i~~~~~-~~~l~~G~SIavnGvCLTV~~i~~~~~~~~~f~~~~~~ETl~~T~l~~   79 (204)
                      |||||||++|+|.++++.+++.++.|.+|.. ++++++|+|||||||||||++++     ++.|.|++ +||+++|||+.
T Consensus         1 MFTGII~~~G~V~~i~~~~~~~~l~i~~~~~~~~~~~~g~SiavnGvCLTV~~~~-----~~~~~fdv-~ETl~~T~l~~   74 (186)
T 3ddy_A            1 MFRGIVQGRGVIRSISKSEDSQRHGIAFPEGMFQLVDVDTVMLVNGCSNTVVRIL-----GDMVYFDI-DQALGTTTFDG   74 (186)
T ss_dssp             CBCSCCCEEEEEEEEEECSSCEEEEEECCTTTGGGCCTTCEEEETTEEEEEEEEE-----TTEEEEEE-CTTTTTSSGGG
T ss_pred             CCCEECCEEEEEEEEEECCCCEEEEEEECCCHHCCCCCCCEEEECCEEEEEEEEC-----CCEEEEEC-HHEEEEEECCC
T ss_conf             9685127099999999779957999992653010056786899715647999964-----77079811-34134574766


Q ss_pred             CCCCCCCCCCCCCHHHHCCCCCEEEECCCCHHHHHHHCCCCCEEEEEEECCCCCCCEECCCCEEEEEEEEEEEEEECCCE
Q ss_conf             56566313354320000047642454010011011100233137987513421121002357199823457877416854
Q gi|254780347|r   80 WGIGTFINLERSVKLGDRLDGHLVSGHIDGTVEILFLDFIGDSMYCRLSLPHNLEQFIAVKGSVCLNGVSLTVNLVGKNF  159 (204)
Q Consensus        80 l~~G~~VNLE~a~~~g~~lgGH~v~GhVd~~~~i~~i~~~~~~~~~~i~~~~~~~~~l~~KgsI~idGvSLTV~~~~~~~  159 (204)
                      |++|++|||||||++|||+|||+|||||||+|+|.++++.++++.++|++|+.+++|+++|||||+|||||||+++.+++
T Consensus        75 l~~G~~VNLEral~~gd~lgGH~VsGHVD~~g~i~~i~~~~~~~~~~i~~p~~~~~yi~~KGSIaidGvSLTV~~v~~~~  154 (186)
T 3ddy_A           75 LKEGDQVNLEIHPKFGEVVGRGGLTGNIKGTALVAAIEENDAGFSVLIDIPKGLAENLTVKDDIGIDGISLPITDMSDSI  154 (186)
T ss_dssp             CCTTCEEEEECCC---------CBCSCCCEEEEEEEEECCSSEEEEEEECCTTTCSCCCTTCEEEETTEEEECCEEETTE
T ss_pred             CCCCCEECCCCCCCCCCCCCCCEEEEEEEEEEEEEEEEECCCEEEEEEEECHHHHHCCCCCCEEEEECCEEEEEEEECCE
T ss_conf             65798683376856533217840799886779999997225318887550135661557884899924168998750989


Q ss_pred             EEEEEEHHHHCCCCHHHCCCCCEEEEEHHHHHHH
Q ss_conf             9999844433013300248996746971358899
Q gi|254780347|r  160 FDVLLIRHTIEETTWKMHKVGDLINIEVDSMMRY  193 (204)
Q Consensus       160 f~v~lIp~Tl~~T~l~~~k~Gd~VNiE~D~l~ky  193 (204)
                      |++++|||||++|||+.+++||+||||  +||||
T Consensus       155 f~v~lIp~Tl~~T~l~~~~~Gd~VNiE--Il~KY  186 (186)
T 3ddy_A          155 ITLNYSRDLLASTNIASLAKDVKVNVE--ILNEW  186 (186)
T ss_dssp             EEEEEEGGGGGTSSGGGCCTTCEEEEE--ECC--
T ss_pred             EEEEEEHHHHHHCCCCCCCCCCEEEEE--EEECC
T ss_conf             999997677642611237389989999--97759


No 5  
>1i8d_A Riboflavin synthase; riboflavin biosynthesis, antimicrobial target, structure-based design, transferase; 2.00A {Escherichia coli} SCOP: b.43.4.3 b.43.4.3 PDB: 1hze_A* 1i18_A* 1pkv_A*
Probab=99.83  E-value=5.2e-21  Score=142.19  Aligned_cols=85  Identities=27%  Similarity=0.356  Sum_probs=48.5

Q ss_pred             EEECCCCHHHHHHHCCCCCEEEEEEECCCCCCCEECCCCEEEEEEEEEEEEEECCCEEEEEEEHHHHCCCCHHHCCCCCE
Q ss_conf             45401001101110023313798751342112100235719982345787741685499998444330133002489967
Q gi|254780347|r  103 VSGHIDGTVEILFLDFIGDSMYCRLSLPHNLEQFIAVKGSVCLNGVSLTVNLVGKNFFDVLLIRHTIEETTWKMHKVGDL  182 (204)
Q Consensus       103 v~GhVd~~~~i~~i~~~~~~~~~~i~~~~~~~~~l~~KgsI~idGvSLTV~~~~~~~f~v~lIp~Tl~~T~l~~~k~Gd~  182 (204)
                      .+|+|+++|+|.++++.++...+.+.+|+.+...+....|||+|||||||.++.++.|.++++|||+++|||+.|++|++
T Consensus         2 FTGIIe~~G~v~~i~~~~~~~~~~i~~~~~~~~~l~iG~SIavnGvCLTV~~~~~~~~~fdv~~ETl~~T~l~~l~~G~~   81 (213)
T 1i8d_A            2 FTGIVQGTAKLVSIDEKPNFRTHVVELPDHMLDGLETGASVAHNGCCLTVTEINGNHVSFDLMKETLRITNLGDLKVGDW   81 (213)
T ss_dssp             BCSCCCEEEEEEEEEECSSEEEEEEECCGGGTTTCCTTCEEEETTEEEEEEEEETTEEEEEEEHHHHHHSGGGGCCTTCE
T ss_pred             CCEECCEEEEEEEEEECCCCEEEEEECCCCCCCCCCCCCEEEECCEEEEEEEECCCCEEEEEEHHHHHCCCCCCCCCCCE
T ss_conf             49622729999999987995699999174100447789879977899788998189289998045220051110346986


Q ss_pred             EEEEH
Q ss_conf             46971
Q gi|254780347|r  183 INIEV  187 (204)
Q Consensus       183 VNiE~  187 (204)
                      ||||-
T Consensus        82 VNLEr   86 (213)
T 1i8d_A           82 VNVER   86 (213)
T ss_dssp             EEEEE
T ss_pred             EEECC
T ss_conf             86366


No 6  
>3ddy_A Lumazine protein, LUMP; luminescent bacteria, riboflavin synthase, luminescence, luminescent protein; HET: RBF; 2.50A {Photobacterium leiognathi}
Probab=99.82  E-value=2.5e-20  Score=138.16  Aligned_cols=85  Identities=20%  Similarity=0.226  Sum_probs=76.8

Q ss_pred             CCCEEEEEEEEEEEEEECCCCEEEEEEECCCCCC-CCCCCEEEECCEEEEEEEECCCCCCCCEEEEEEEHHHHHHCCCCC
Q ss_conf             9453371189999998769935999981755112-667724653331542365045556686799998656553201355
Q gi|254780347|r    1 MFTGIVTDIGKIIAMTPIAKGMRLRVMTSYNTSK-MKLGCSIAHAGICLTVVRLSEEHSVDNWYEVEVWAETNRITNIAS   79 (204)
Q Consensus         1 MFtGIV~~~G~V~~i~~~~~~~~l~i~~~~~~~~-l~~G~SIavnGvCLTV~~i~~~~~~~~~f~~~~~~ETl~~T~l~~   79 (204)
                      |++|+|+++|+|.++++.++++++.++.|..+.+ +....|||+|||||||.+++     +++|++.++|||+++|||+.
T Consensus        97 ~VsGHVD~~g~i~~i~~~~~~~~~~i~~p~~~~~yi~~KGSIaidGvSLTV~~v~-----~~~f~v~lIp~Tl~~T~l~~  171 (186)
T 3ddy_A           97 GLTGNIKGTALVAAIEENDAGFSVLIDIPKGLAENLTVKDDIGIDGISLPITDMS-----DSIITLNYSRDLLASTNIAS  171 (186)
T ss_dssp             CBCSCCCEEEEEEEEECCSSEEEEEEECCTTTCSCCCTTCEEEETTEEEECCEEE-----TTEEEEEEEGGGGGTSSGGG
T ss_pred             EEEEEEEEEEEEEEEEECCCEEEEEEEECHHHHHCCCCCCEEEEECCEEEEEEEE-----CCEEEEEEEHHHHHHCCCCC
T ss_conf             0799886779999997225318887550135661557884899924168998750-----98999999767764261123


Q ss_pred             CCCCCCCCCCC
Q ss_conf             56566313354
Q gi|254780347|r   80 WGIGTFINLER   90 (204)
Q Consensus        80 l~~G~~VNLE~   90 (204)
                      |++||+||+|-
T Consensus       172 ~~~Gd~VNiEI  182 (186)
T 3ddy_A          172 LAKDVKVNVEI  182 (186)
T ss_dssp             CCTTCEEEEEE
T ss_pred             CCCCCEEEEEE
T ss_conf             73899899999


No 7  
>3a35_A Lumazine protein, LUMP; luminous bacteria, homologue of riboflavin synthase, luminescent protein; HET: RBF; 1.42A {Photobacterium kishitanii} PDB: 3a3b_B* 3a3g_A*
Probab=99.80  E-value=2.9e-20  Score=137.84  Aligned_cols=86  Identities=14%  Similarity=0.201  Sum_probs=48.3

Q ss_pred             CCEEEEEEEEEEEEEECCCCEEEEEEECCCCCC--CCCCCEEEECCEEEEEEEECCCCCCCCEEEEEEEHHHHHHCCCCC
Q ss_conf             453371189999998769935999981755112--667724653331542365045556686799998656553201355
Q gi|254780347|r    2 FTGIVTDIGKIIAMTPIAKGMRLRVMTSYNTSK--MKLGCSIAHAGICLTVVRLSEEHSVDNWYEVEVWAETNRITNIAS   79 (204)
Q Consensus         2 FtGIV~~~G~V~~i~~~~~~~~l~i~~~~~~~~--l~~G~SIavnGvCLTV~~i~~~~~~~~~f~~~~~~ETl~~T~l~~   79 (204)
                      .+|+|+++|+|.++++.++.+++.++.|..+.+  +++| |||+|||||||.++.     +++|.+.++|||++.|||+.
T Consensus        98 V~GHVD~~~~i~~i~~~~~~~~~~~~~p~~~~~yiv~KG-SIaidGvSLTV~~v~-----~~~f~v~lip~T~~~T~l~~  171 (190)
T 3a35_A           98 LTGNIKGVATVDNITEEEDRLKVYIKIPKDLIENILSED-HIGINGVSHSIEEIS-----DDIIFINYPKNLSITTNLGT  171 (190)
T ss_dssp             BCSCCCEEEEEEEEEEETTEEEEEEECCTTSCSCCCTTS-EEEETTEEEECCEEE-----TTEEEEEEETTHHHHSGGGG
T ss_pred             EEEEECCCEEEEEEEEECCCEEEEEECCHHHHCCCCCCC-EEEEEEEEEEEEEEC-----CCEEEEEECHHHHHHCCCCC
T ss_conf             578836656999998615723799986968941455665-899965899988871-----98999996807775013555


Q ss_pred             CCCCCCCCCCCCCH
Q ss_conf             56566313354320
Q gi|254780347|r   80 WGIGTFINLERSVK   93 (204)
Q Consensus        80 l~~G~~VNLE~a~~   93 (204)
                      +++||+||+|-..-
T Consensus       172 ~k~Gd~VNiE~~~~  185 (190)
T 3a35_A          172 LEKGSDVNVETLNV  185 (190)
T ss_dssp             CCTTCEEEEEECC-
T ss_pred             CCCCCEEEECCHHC
T ss_conf             88899999788221


No 8  
>1kzl_A Riboflavin synthase; biosynthesis of riboflavin, ligand binding, transferase; HET: CRM; 2.10A {Schizosaccharomyces pombe} SCOP: b.43.4.3 b.43.4.3
Probab=99.80  E-value=8.4e-20  Score=135.10  Aligned_cols=86  Identities=19%  Similarity=0.275  Sum_probs=58.5

Q ss_pred             CCCEEEEEEEEEEEEEECCCCEEEEEEECCC-CCC--CCCCCEEEECCEEEEEEEECCCCCCCCEEEEEEEHHHHHHCCC
Q ss_conf             9453371189999998769935999981755-112--6677246533315423650455566867999986565532013
Q gi|254780347|r    1 MFTGIVTDIGKIIAMTPIAKGMRLRVMTSYN-TSK--MKLGCSIAHAGICLTVVRLSEEHSVDNWYEVEVWAETNRITNI   77 (204)
Q Consensus         1 MFtGIV~~~G~V~~i~~~~~~~~l~i~~~~~-~~~--l~~G~SIavnGvCLTV~~i~~~~~~~~~f~~~~~~ETl~~T~l   77 (204)
                      |.+|+|.++|+|.++.+.++.+++.+..+.. +.+  +++| |||+|||+|||.++.     +++|++.++|||+++|||
T Consensus        98 ~V~GHVD~~~~i~~i~~~~~~~~~~~~~~~~~~~~yiv~KG-sIaidGvSLTV~~v~-----~~~f~v~lIP~Tl~~T~l  171 (208)
T 1kzl_A           98 FVQGHVDTVAEIVEKKQDGEAIDFTFRPRDPFVLKYIVYKG-YIALDGTSLTITHVD-----DSTFSIMMISYTQSKVIM  171 (208)
T ss_dssp             CBCSCCCEEEEEEEEEEETTEEEEEEEESSGGGGGGCCTTC-EEEETTEEEEEEEEC-----SSCEEEEECHHHHTTSGG
T ss_pred             EEEEECCEEEEEEEEEECCCCEEEEEEEEEHHHHCCEEECC-EEEEEEEEEEEEEEC-----CCEEEEEEEHHHHHHCCC
T ss_conf             47887408999999997699637999951011221246501-099850489998672-----998999997788654511


Q ss_pred             CCCCCCCCCCCCCCC
Q ss_conf             555656631335432
Q gi|254780347|r   78 ASWGIGTFINLERSV   92 (204)
Q Consensus        78 ~~l~~G~~VNLE~a~   92 (204)
                      +.+++||+||+|.-+
T Consensus       172 ~~~~~Gd~VNiE~D~  186 (208)
T 1kzl_A          172 AKKNVGDLVNVEVDQ  186 (208)
T ss_dssp             GGCCTTCEEEEEECT
T ss_pred             CCCCCCCEEEEEEHH
T ss_conf             148789999986414


No 9  
>3h43_A Proteasome-activating nucleotidase; regulatory particle, nucleosidase, ATP-binding, cytoplasm, nucleotide-binding, hydrolase; 2.10A {Methanocaldococcus jannaschii}
Probab=74.86  E-value=4  Score=20.02  Aligned_cols=38  Identities=24%  Similarity=0.223  Sum_probs=28.5

Q ss_pred             EECCCCEEEEEEECC--CCCCCCCCCEEEECCEEEEEEEE
Q ss_conf             876993599998175--51126677246533315423650
Q gi|254780347|r   16 TPIAKGMRLRVMTSY--NTSKMKLGCSIAHAGICLTVVRL   53 (204)
Q Consensus        16 ~~~~~~~~l~i~~~~--~~~~l~~G~SIavnGvCLTV~~i   53 (204)
                      .+...|.++.+....  +.+++++|+++|.|.=+++++++
T Consensus        35 Vk~s~G~~~~V~v~~~vd~~~L~pG~rVaLn~~s~sIv~v   74 (85)
T 3h43_A           35 VKSSTGPSFLVNVSHFVNPDDLAPGKRVCLNQQTLTVVDV   74 (85)
T ss_dssp             EEETTSSEEEEEBCTTSCGGGCCTTCEEEECTTTCCEEEE
T ss_pred             EEECCCCEEEEECCCCCCHHHCCCCCEEEECCCCEEEEEE
T ss_conf             9967998899982798797898999999998746083587


No 10 
>2wg5_A General control protein GCN4, proteasome-activating nucleotidase; transcription hydrolase complex, nucleotide-binding; 2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A
Probab=69.69  E-value=3.9  Score=20.09  Aligned_cols=40  Identities=25%  Similarity=0.302  Sum_probs=28.8

Q ss_pred             EECCCCEEEEEEECC--CCCCCCCCCEEEECCEEEEEEEECC
Q ss_conf             876993599998175--5112667724653331542365045
Q gi|254780347|r   16 TPIAKGMRLRVMTSY--NTSKMKLGCSIAHAGICLTVVRLSE   55 (204)
Q Consensus        16 ~~~~~~~~l~i~~~~--~~~~l~~G~SIavnGvCLTV~~i~~   55 (204)
                      .+...|.++.+....  +..++++|+++|+|.-+++++++=.
T Consensus        54 V~~s~g~~~~V~v~~~id~~~L~pG~rVaLn~~s~~Iv~iLp   95 (109)
T 2wg5_A           54 VKSSTGPKFVVNTSQYINEEELKPGARVALNQQTLAIVNVLP   95 (109)
T ss_dssp             EEETTSCEEEECBCTTSCTTTCCTTCEEEEETTTCCEEEEEC
T ss_pred             EEECCCCEEEEEECCCCCHHHCCCCCEEEECCCCCEEEEECC
T ss_conf             996799889998206518899899999999887728788489


No 11 
>3dwl_G Actin-related protein 2/3 complex subunit 5; propellor, actin-binding, ATP-binding, cytoplasm, cytoskeleton, nucleotide-binding; HET: ATP; 3.78A {Schizosaccharomyces pombe}
Probab=37.47  E-value=9.4  Score=17.82  Aligned_cols=17  Identities=29%  Similarity=0.440  Sum_probs=13.6

Q ss_pred             EHHHHHHHHHHHHCCCC
Q ss_conf             71358899999860233
Q gi|254780347|r  186 EVDSMMRYIARLYALNT  202 (204)
Q Consensus       186 E~D~l~kyv~r~~~~~~  202 (204)
                      +.|+|.||++|-|+...
T Consensus       103 ~~D~LMKYiYkG~~~p~  119 (152)
T 3dwl_G          103 EIDNIVNFIYRGLANPQ  119 (152)
T ss_dssp             HHHHHHHHHHHHTTC--
T ss_pred             HHHHHHHHHHHHCCCCC
T ss_conf             44598999998515888


No 12 
>1k8k_G P16, ARP2/3 complex 16 kDa subunit, P16-ARC; beta-propeller, structural protein; 2.00A {Bos taurus} SCOP: a.118.13.1 PDB: 1tyq_G* 1u2v_G* 2p9i_G* 2p9k_G* 2p9l_G 2p9n_G* 2p9p_G* 2p9s_G* 2p9u_G* 3dxk_G* 3dxm_G*
Probab=32.82  E-value=16  Score=16.55  Aligned_cols=17  Identities=29%  Similarity=0.520  Sum_probs=13.9

Q ss_pred             EHHHHHHHHHHHHCCCC
Q ss_conf             71358899999860233
Q gi|254780347|r  186 EVDSMMRYIARLYALNT  202 (204)
Q Consensus       186 E~D~l~kyv~r~~~~~~  202 (204)
                      +.|+|.||++|-|+...
T Consensus       102 ~~D~LMKYiYkGm~~p~  118 (151)
T 1k8k_G          102 GVDLLMKYIYKGFESPS  118 (151)
T ss_dssp             HHHHHHHHHHHHHTSCC
T ss_pred             HHHHHHHHHHHHCCCCC
T ss_conf             88899999997425888


No 13 
>1ep3_B Dihydroorotate dehydrogenase B (PYRK subunit); heterotetramer, alpha-beta barrel, beta sandwich, FAD domain, alpha/beta NADP domain; HET: FMN FAD; 2.10A {Lactococcus lactis} SCOP: b.43.4.2 c.25.1.3 PDB: 1ep1_B* 1ep2_B*
Probab=21.68  E-value=40  Score=14.14  Aligned_cols=84  Identities=7%  Similarity=0.106  Sum_probs=52.9

Q ss_pred             EEEEEEEEEEEECCCC-EEEEEEECCCCCCCCCCCE--EEECC------EEEEEEEECCCCCCCCEEEE--EEEHHHHHH
Q ss_conf             7118999999876993-5999981755112667724--65333------15423650455566867999--986565532
Q gi|254780347|r    6 VTDIGKIIAMTPIAKG-MRLRVMTSYNTSKMKLGCS--IAHAG------ICLTVVRLSEEHSVDNWYEV--EVWAETNRI   74 (204)
Q Consensus         6 V~~~G~V~~i~~~~~~-~~l~i~~~~~~~~l~~G~S--IavnG------vCLTV~~i~~~~~~~~~f~~--~~~~ETl~~   74 (204)
                      .++..+|.+.++.... .+++++.+......++|.-  +.+++      -..|+.+...+.   ..+++  .+.+.+...
T Consensus         4 ~~~~~~Vv~~~~lt~~i~~l~l~~~~~~~~~~PGQfv~l~~~~~~~~~~rpySi~s~~~~~---~~~~~~~kv~~~g~~t   80 (262)
T 1ep3_B            4 LQEMMTVVSQREVAYNIFEMVLKGTLVDEMDLPGQFLHLAVPNGAMLLRRPISISSWDKRA---KTCTILYRIGDETTGT   80 (262)
T ss_dssp             SEEEEEEEEEEEEETTEEEEEEESGGGGGCCSTTCEEEECCSCTTCCSCEEEECCEEETTT---TEEEEEEECCCTTSHH
T ss_pred             CCCCEEEEEEEEECCCEEEEEEECCCCCCCCCCCCEEEEEECCCCCEEEEEEEECCCCCCC---CEEEEEEEECCCCCHH
T ss_conf             7504199999995499899999788835678999529999478991899989973248999---8899999988997678


Q ss_pred             CCCCCCCCCCCCCCCCCC
Q ss_conf             013555656631335432
Q gi|254780347|r   75 TNIASWGIGTFINLERSV   92 (204)
Q Consensus        75 T~l~~l~~G~~VNLE~a~   92 (204)
                      -.+..++.|+.|.+..|.
T Consensus        81 ~~l~~l~~Gd~v~i~gP~   98 (262)
T 1ep3_B           81 YKLSKLESGAKVDVMGPL   98 (262)
T ss_dssp             HHHHTCCTTCEEEEEEEE
T ss_pred             HHHHCCCCCCEEEEECCC
T ss_conf             998659999999998055


Done!