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!