Query gi|254780423|ref|YP_003064836.1| S-adenosylmethionine synthetase [Candidatus Liberibacter asiaticus str. psy62] Match_columns 413 No_of_seqs 150 out of 1826 Neff 4.7 Searched_HMMs 23785 Date Mon May 30 10:27:11 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780423.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3iml_A S-adenosylmethionine sy 100.0 0 0 1351.7 35.6 386 1-413 5-392 (399) 2 1p7l_A S-adenosylmethionine sy 100.0 0 0 1317.2 35.1 380 3-413 1-382 (383) 3 2p02_A S-adenosylmethionine sy 100.0 0 0 1305.5 32.5 375 1-405 15-395 (396) 4 2vt3_A REX, redox-sensing tran 60.8 4 0.00017 20.0 2.2 10 141-152 61-70 (215) 5 2w42_A PIWI, putative uncharac 52.5 10 0.00044 17.4 3.3 20 160-179 222-241 (427) 6 3ho1_A Argonaute; argonaute, p 52.3 8 0.00034 18.1 2.7 31 324-357 607-637 (685) 7 1kjn_A MTH0777; hypotethical p 38.6 8 0.00034 18.1 0.9 26 145-170 9-34 (157) 8 3io0_A ETUB protein; tamdem re 38.0 18 0.00076 15.8 2.7 14 144-162 143-156 (230) 9 3kxy_T EXSE; type-three secret 31.1 21 0.0009 15.4 2.1 35 287-325 17-51 (66) 10 2f0c_A Phage TP901-1 ORF49 (BP 30.7 25 0.001 15.0 2.4 23 246-268 160-182 (191) 11 1to0_A Hypothetical UPF0247 pr 23.1 23 0.00097 15.2 1.1 11 158-168 130-140 (167) 12 1u04_A Argonaute, hypothetical 23.0 35 0.0015 14.0 2.4 24 329-354 617-640 (771) 13 1o6d_A Hypothetical UPF0247 pr 22.8 23 0.00097 15.2 1.0 18 157-174 123-141 (163) 14 1j03_A Putative steroid bindin 22.7 23 0.00095 15.2 1.0 20 275-296 38-57 (102) 15 3gfh_A Ethanolamine utilizatio 20.1 40 0.0017 13.6 2.3 15 87-101 95-109 (225) No 1 >3iml_A S-adenosylmethionine synthetase; structural genomics, ATP- binding, cobalt, cytoplasm, magnesium, metal-binding, nucleotide-binding; 2.35A {Burkholderia pseudomallei} Probab=100.00 E-value=0 Score=1351.72 Aligned_cols=386 Identities=50% Similarity=0.814 Sum_probs=372.4 Q ss_pred CCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEECCCCEEEEEEEEECCCCCCCCCCCCCC Q ss_conf 99873067300887883168988688999999863601235666760599993149849998785246555543344542 Q gi|254780423|r 1 MSADFLFTSESVSEGHPDKICDRISDEIVDLVYREAIESKMDVNSVRVACEVLVTKNKVIVAGEVRLPHGLSKKDSITGQ 80 (413) Q Consensus 1 M~~~~lFTSESVs~GHPDKicDqISDaILD~~L~~Dp~sk~~~~~~RVA~Et~v~~~~V~v~GEI~~~~~i~~~~~~tt~ 80 (413) |+++||||||||||||||||||||||||||+||+|||+| ||||||++++|+|+|+|||++.+. T Consensus 5 M~~~ylFTSESVseGHPDKiCDqISDaILDa~L~~Dp~s-------RVA~Et~v~~~~V~v~GEitt~a~---------- 67 (399) T 3iml_A 5 MANDYLFTSESVSEGHPDKVADQISDAILDAILAQDKYS-------RVAAETLCNTGLVVLAGEITTTAN---------- 67 (399) T ss_dssp CCCEEEEEEEEECTTSHHHHHHHHHHHHHHHHHHHCTTC-------EEEEEEEECSSEEEEEEEEECSCC---------- T ss_pred CCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCC-------CEEEEEEEECCEEEEEEEECCCCC---------- T ss_conf 667866882567899974899988889999999759998-------779999874798999999746876---------- Q ss_pred EECCHHHHHHHHHHHHHCCCCCCC--CCCCCCCCEEEHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEEEECCCCCCC Q ss_conf 001677899999999840858701--257332210003333456777554420353000589862488874206645448 Q gi|254780423|r 81 YVVDKEKFEKVVRSVIRSIGYEQE--GFHWETVDVEVLLHSQSSDIAYGVDNASDDCSTLGAGDQGIMFGYACRETADFM 158 (413) Q Consensus 81 ~~v~~~di~~ivR~~i~~IGY~~~--gfd~~~~~v~~~i~~QS~dIa~GVd~~~~~~~~~GAGDQGiMFGYAc~ET~~~M 158 (413) + ||++|||++|++|||+++ ||||++|.|+++|++|||||+||||...+..+++|||||||||||||||||+|| T Consensus 68 --v---D~~~ivR~~i~~IGY~~~~~gfd~~t~~v~~~i~~QSpDIa~GVd~~~~~~~e~GAGDQGiMFGYAc~ET~elM 142 (399) T 3iml_A 68 --I---DYIQIARDTIKRIGYDNTDYGIDYRGCAVLVAYDKQSPDIAQGVDRAHDNNLDQGAGDQGLMFGYACDETPELM 142 (399) T ss_dssp --C---CHHHHHHHHHHHHTCC---------CCEEEEEEEEECC------------CTTCCBSSCEEEEEEEETTSTTSC T ss_pred --C---CHHHHHHHHHHHHCCCHHHCCCCCCCEEEEEECCCCCCCHHHCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCC T ss_conf --8---77999999999867780551977664169985156786210032444556312487754056557638985567 Q ss_pred CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEEEEEECCCCCCHHHHHHHHHHHCCCCCC Q ss_conf 75799999999999997520357641001178268999974976314545788765067326899999887652012332 Q gi|254780423|r 159 PAPIYYAHRILRTLADARKNSGGDVSKLGPDAKSQVTIRYVDNKVCEVKSIVLSIQHFDPTWDRGKVRSVVEPYILKALE 238 (413) Q Consensus 159 Plpi~lAh~L~krL~~~Rk~~~g~~~~L~PDgKsQVTveY~~~kP~~i~tVViStQH~~~~~~~~~~~~ii~~vI~~~l~ 238 (413) ||||+|||+|+|||+++||+ +.+|||||||||||||+|+|++|.||+|||+|+||++.....+++++++++||++++| T Consensus 143 Plpi~LAH~L~~rL~~~Rk~--~~~~~L~PD~KsQVTv~Y~~~kP~ri~tVVvS~QH~~~v~~~~l~~~i~~~vi~~v~~ 220 (399) T 3iml_A 143 PLPIHLSHRLVERQANLRRD--GRLPWLRPDAKSQVTVRYVDGKPHSIDTVVLSTQHAPEIDLPALREAVIEEVIKPTLP 220 (399) T ss_dssp CHHHHHHHHHHHHHHHHHHT--TSSTTEEEEEEEEEEEEEETTEEEEEEEEEEEEEECTTSCHHHHHHHHHHHTTTTTSC T ss_pred CHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCEEEEEEEECCEEEEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHH T ss_conf 73799999999999999730--8887648886127999977992679999998734676569999999999998688767 Q ss_pred CCCCCCCCEEEEECCCCEEECCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCHHH Q ss_conf 24688542799917883785587300365556111024577666777533565744045778889999999997508232 Q gi|254780423|r 239 DIKISPDCSWYINPAGKFVIGGPCSDAGLTGRKIIVDTYGGASPHGGGAFSGKDITKVDRAAAYAARYLAKNIVAAGLAD 318 (413) Q Consensus 239 ~~~l~~~t~~~INPtG~FviGGP~~D~GLTGRKiiVDtYGg~~~hGGGAfSGKDptKVDRSaAY~AR~iAKniVaagla~ 318 (413) +.+++++|+||||||||||+|||.||||||||||||||||||+||||||||||||||||||||||||||||||||||||+ T Consensus 221 ~~~l~~~t~~~INPtG~FviGGP~~D~GLTGRKiiVDTYGg~~~hGGGAfSGKDptKVDRSaAY~AR~iAKniVaagla~ 300 (399) T 3iml_A 221 ADLIKGDIKFLVNPTGRFVIGGPQGDCGLTGRKIIVDTYGGAAPHGGGAFSGKDPSKVDRSAAYAGRYVAKNIVAAGLAS 300 (399) T ss_dssp GGGCCTTCEEEESTTCCCCSCGGGTSCEETTSCTTTTTTTTSSCCCSCCCTTBCTTSHHHHHHHHHHHHHHHHHHTTSCS T ss_pred HHCCCCCCEEEECCCCCEEECCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCC T ss_conf 64588352899769888786788777888762356646677556687636788866434202326888889888752765 Q ss_pred HHEEEEEECCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHCCCCCCCCCCCCCCCCCCH Q ss_conf 21100130058355507999824888689899999999745999789998608998620210760207898766678954 Q gi|254780423|r 319 RCTIQLSYAIGISRPLSIFVDLHDSGKVSESCVANAINKVMDLSVSGIRDHLNLSRPIYAQTSAYGHFGRSANQDGFFPW 398 (413) Q Consensus 319 ~c~vqlsYaIG~~~P~si~V~t~gt~~~~d~~i~~~i~~~fdl~p~~Ii~~l~L~~piy~~ta~yGHFGr~~~~~~~f~W 398 (413) +||||||||||+++|+||+|+||||+++++++|.++|+++|||||++||++|+|++|||++||+||||||+ +.+||| T Consensus 301 ~c~vqlsYaIG~a~Pvsi~V~tfGT~~~~~~~i~~~i~~~Fdl~p~~Ii~~l~L~~piY~~ta~yGHFGr~---~~~f~W 377 (399) T 3iml_A 301 RALIQVSYAIGVAEPTSVMVNTFGTGRVSDETITKLVREHFDLRPKGIIQMLDLLRPIYEKTAAYGHFGRE---EPEFSW 377 (399) T ss_dssp EEEEEEEECBTCSSCSEEEEECTTCCSSCHHHHHHHHHHHCCCSHHHHHHHHTCCSSCCGGGGSSCSSSCC---CTTCGG T ss_pred CEEEEEEECCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCCCCCC---CCCCCC T ss_conf 20688764047787538999836888789999999999837998899998608999854410474788999---999885 Q ss_pred HHHHHHHHHHHHCCC Q ss_conf 545789999986086 Q gi|254780423|r 399 EALDLIEPLKKAIGF 413 (413) Q Consensus 399 E~~d~v~~lk~~~g~ 413 (413) ||+|++++||+++|+ T Consensus 378 E~~dk~~~l~~~~~~ 392 (399) T 3iml_A 378 EAADKALALAEAAGV 392 (399) T ss_dssp GCCTTHHHHHHHHTC T ss_pred CCCHHHHHHHHHCCC T ss_conf 553279999987499 No 2 >1p7l_A S-adenosylmethionine synthetase; AMPPNP, SAM, transferase; HET: SAM ANP PPK; 2.50A {Escherichia coli} SCOP: d.130.1.1 d.130.1.1 d.130.1.1 PDB: 1fug_A 1mxb_A* 1mxc_A* 1mxa_A* 1rg9_A* 1xra_A 1xrb_A 1xrc_A Probab=100.00 E-value=0 Score=1317.17 Aligned_cols=380 Identities=51% Similarity=0.817 Sum_probs=364.0 Q ss_pred CCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEECCCCEEEEEEEEECCCCCCCCCCCCCCEE Q ss_conf 87306730088788316898868899999986360123566676059999314984999878524655554334454200 Q gi|254780423|r 3 ADFLFTSESVSEGHPDKICDRISDEIVDLVYREAIESKMDVNSVRVACEVLVTKNKVIVAGEVRLPHGLSKKDSITGQYV 82 (413) Q Consensus 3 ~~~lFTSESVs~GHPDKicDqISDaILD~~L~~Dp~sk~~~~~~RVA~Et~v~~~~V~v~GEI~~~~~i~~~~~~tt~~~ 82 (413) ++||||||||||||||||||||||||||+||+|||+| ||||||++++|+|+|+|||++++.+ T Consensus 1 ~~~lFTSESVseGHPDKicDqISDaILD~~L~~Dp~s-------RVA~Et~v~~~~V~v~GEitt~a~v----------- 62 (383) T 1p7l_A 1 AKHLFTSESVSEGHPDKIADQISDAVLDAILEQDPKA-------RVACETYVKTGMVLVGGEITTSAWV----------- 62 (383) T ss_dssp CCEEEEEEEECTTSHHHHHHHHHHHHHHHHHHHCTTC-------EEEEEEEEETTEEEEEEEEECSCCC----------- T ss_pred CCCCEECCCCCCCCCHHHHHHHHHHHHHHHHHHCCCC-------CEEEEEEEECCEEEEEEEECCCCCC----------- T ss_conf 9977734677899973899988889999999659998-------6899988757989999998578668----------- Q ss_pred CCHHHHHHHHHHHHHCCCCCCC--CCCCCCCCEEEHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEEEECCCCCCCCH Q ss_conf 1677899999999840858701--25733221000333345677755442035300058986248887420664544875 Q gi|254780423|r 83 VDKEKFEKVVRSVIRSIGYEQE--GFHWETVDVEVLLHSQSSDIAYGVDNASDDCSTLGAGDQGIMFGYACRETADFMPA 160 (413) Q Consensus 83 v~~~di~~ivR~~i~~IGY~~~--gfd~~~~~v~~~i~~QS~dIa~GVd~~~~~~~~~GAGDQGiMFGYAc~ET~~~MPl 160 (413) ||++|||++|++|||+++ ||||++|+|+++|++|||||+||||.+. .+++|||||||||||||||||+|||| T Consensus 63 ----D~~~ivR~~i~~IGY~~~~~gfd~~~~~I~~~i~~QSpdIa~GVd~~~--~~~~GAGDQGiMFGYA~~ET~e~MPl 136 (383) T 1p7l_A 63 ----DIEEITRNTVREIGYVHSDMGFDANSCAVLSAIGKQSPDINQGVDRAD--PLEQGAGDQGLMFGYATNETDVLMPA 136 (383) T ss_dssp ----CHHHHHHHHHHHHTCEEGGGTEETTTSEEEEEEECCCHHHHHHHSCSS--TTTCCCSSCEEEEEEEETTSTTSCCH T ss_pred ----CHHHHHHHHHHHHHCCCHHCCCCCCEEEEEEEECCCCHHHHCCCCCCC--CCCCCCCCCEEEEEEECCCCCCCCCH T ss_conf ----789999999999712711038777615899931045867763233244--44546676237876762797556781 Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEEEEEECCCCCCHHHHHHHHHHHCCCCCCCC Q ss_conf 79999999999999752035764100117826899997497631454578876506732689999988765201233224 Q gi|254780423|r 161 PIYYAHRILRTLADARKNSGGDVSKLGPDAKSQVTIRYVDNKVCEVKSIVLSIQHFDPTWDRGKVRSVVEPYILKALEDI 240 (413) Q Consensus 161 pi~lAh~L~krL~~~Rk~~~g~~~~L~PDgKsQVTveY~~~kP~~i~tVViStQH~~~~~~~~~~~~ii~~vI~~~l~~~ 240 (413) ||+|||+|+++|+++||+ +.+|||||||||||||+|+|++|++|++||+|+||++.....+.+++++++||++++|.. T Consensus 137 pi~lAh~L~~~L~~~Rk~--g~l~~L~PD~KsQVTv~Y~~~~p~~i~tvviS~QH~~~~~~~~~~~~i~~~vi~~v~~~~ 214 (383) T 1p7l_A 137 PITYAHRLVQRQAEVRKN--GTLPWLRPDAKSQVTFQYDDGKIVGIDAVVLSTQHSEEIDQKSLQEAVMEEIIKPILPAE 214 (383) T ss_dssp HHHHHHHHHHHHHHHHHT--TSSTTEEEEEEEEEEEEEETTEEEEEEEEEEEEEECTTSCHHHHHHHHHHHTTTTTSCGG T ss_pred HHHHHHHHHHHHHHHHHC--CCCCCCCCCCCEEEEEECCCCEEEEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCC T ss_conf 699999999999999963--999775898604899972598158998898831577645999999999999878755733 Q ss_pred CCCCCCEEEEECCCCEEECCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCHHHHH Q ss_conf 68854279991788378558730036555611102457766677753356574404577888999999999750823221 Q gi|254780423|r 241 KISPDCSWYINPAGKFVIGGPCSDAGLTGRKIIVDTYGGASPHGGGAFSGKDITKVDRAAAYAARYLAKNIVAAGLADRC 320 (413) Q Consensus 241 ~l~~~t~~~INPtG~FviGGP~~D~GLTGRKiiVDtYGg~~~hGGGAfSGKDptKVDRSaAY~AR~iAKniVaagla~~c 320 (413) +++++|+||||||||||+|||.|||||||||||||||||++|||||||||||||||||||||||||+||||||||||++| T Consensus 215 ~~~~~t~~~INPtG~FviGGP~gD~GLTGRKiiVDTYGg~~~hGGGAfSGKDptKVDRSaAY~AR~iAKniVaagla~~c 294 (383) T 1p7l_A 215 WLTSATKFFINPTGRFVIGGPMGDCGLTGRKIIVDTYGGMARHGGGAFSGKDPSKVDRSAAYAARYVAKNIVAAGLADRC 294 (383) T ss_dssp GCCTTCEEEESTTSCCCSCHHHHSCEETTCCTTTTTTTTSSCCCSCCCTTBCTTSHHHHHHHHHHHHHHHHHHTTSBSEE T ss_pred CCCCCCEEEECCCCCEEECCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCE T ss_conf 36845479976889865489854568777510242566755668864678885533320244677878999863787725 Q ss_pred EEEEEECCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHCCCCCCCCCCCCCCCCCCHHH Q ss_conf 10013005835550799982488868989999999974599978999860899862021076020789876667895454 Q gi|254780423|r 321 TIQLSYAIGISRPLSIFVDLHDSGKVSESCVANAINKVMDLSVSGIRDHLNLSRPIYAQTSAYGHFGRSANQDGFFPWEA 400 (413) Q Consensus 321 ~vqlsYaIG~~~P~si~V~t~gt~~~~d~~i~~~i~~~fdl~p~~Ii~~l~L~~piy~~ta~yGHFGr~~~~~~~f~WE~ 400 (413) |||||||||+++|+||+|+||||+++++++|.++|+++|||||++||++|+|++|||++||+||||||+ +||||| T Consensus 295 evqlsYaIG~a~P~si~V~tfgT~~~~~~~i~~~i~~~fdl~p~~Ii~~L~L~~piY~~ta~yGHFGr~-----~f~WE~ 369 (383) T 1p7l_A 295 EIQVSYAIGVAEPTSIMVETFGTEKVPSEQLTLLVREFFDLRPYGLIQMLDLLHPIYKETAAYGHFGRE-----HFPWEK 369 (383) T ss_dssp EEEEEECTTCCSCSEEEEECTTCBSSCHHHHHHHHHHHCCCSHHHHHHHHTCCSSCCGGGGSSCSSSCT-----TSTTTC T ss_pred EEEEEEECCCCCCEEEEEEECCCCCCCHHHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHHCCCCCCCCC-----CCCCCC T ss_conf 898863047778658998846888889999999999817998899998608999865310475688999-----988155 Q ss_pred HHHHHHHHHHCCC Q ss_conf 5789999986086 Q gi|254780423|r 401 LDLIEPLKKAIGF 413 (413) Q Consensus 401 ~d~v~~lk~~~g~ 413 (413) ||+++.||+++|| T Consensus 370 ~d~~~~l~~~~~~ 382 (383) T 1p7l_A 370 TDKAQLLRDAAGL 382 (383) T ss_dssp CSHHHHHHHTSCC T ss_pred CHHHHHHHHHCCC T ss_conf 3109999987089 No 3 >2p02_A S-adenosylmethionine synthetase isoform type-2; structural genomics, structural genomics consortium, SGC, transferase; HET: SAM; 1.21A {Homo sapiens} SCOP: d.130.1.1 d.130.1.1 d.130.1.1 PDB: 1qm4_A 1o92_A* 1o93_A* 1o90_A* 1o9t_A 2obv_A* Probab=100.00 E-value=0 Score=1305.52 Aligned_cols=375 Identities=46% Similarity=0.776 Sum_probs=356.5 Q ss_pred CCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEECCCCEEEEEEEEECCCCCCCCCCCCCC Q ss_conf 99873067300887883168988688999999863601235666760599993149849998785246555543344542 Q gi|254780423|r 1 MSADFLFTSESVSEGHPDKICDRISDEIVDLVYREAIESKMDVNSVRVACEVLVTKNKVIVAGEVRLPHGLSKKDSITGQ 80 (413) Q Consensus 1 M~~~~lFTSESVs~GHPDKicDqISDaILD~~L~~Dp~sk~~~~~~RVA~Et~v~~~~V~v~GEI~~~~~i~~~~~~tt~ 80 (413) |+.+||||||||||||||||||||||||||+||+|||+| ||||||++++|+|+|+|||++.+. T Consensus 15 ~~~~ylFTSESVseGHPDKicDqISDaILD~~L~~Dp~s-------rVA~Et~v~~~~V~v~GEitt~a~---------- 77 (396) T 2p02_A 15 EEGTFLFTSESVGEGHPDKICDQISDAVLDAHLQQDPDA-------KVACETVAKTGMILLAGEITSRAA---------- 77 (396) T ss_dssp --CEEEEEEEEECTTSHHHHHHHHHHHHHHHHHHHCTTC-------EEEEEEEEETTEEEEEEEEECSCC---------- T ss_pred CCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCC-------CEEEEEEEECCEEEEEEEECCCCC---------- T ss_conf 378258995676899970898877879999999659998-------589998875798999999867866---------- Q ss_pred EECCHHHHHHHHHHHHHCCCCCC--CCCCCCCCCEEEHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEEEECCCCCCC Q ss_conf 00167789999999984085870--1257332210003333456777554420353000589862488874206645448 Q gi|254780423|r 81 YVVDKEKFEKVVRSVIRSIGYEQ--EGFHWETVDVEVLLHSQSSDIAYGVDNASDDCSTLGAGDQGIMFGYACRETADFM 158 (413) Q Consensus 81 ~~v~~~di~~ivR~~i~~IGY~~--~gfd~~~~~v~~~i~~QS~dIa~GVd~~~~~~~~~GAGDQGiMFGYAc~ET~~~M 158 (413) + ||++|||++|++|||++ .||||++|.|+++|++|||||+|||+.+. ..+++|||||||||||||||||+|| T Consensus 78 --v---d~~~ivR~~i~~IGY~~~~~gfd~~t~~I~~~i~~QSpdIa~GVd~~~-~~~~~GAGDQGiMFGYAc~ET~~lM 151 (396) T 2p02_A 78 --V---DYQKVVREAVKHIGYDDSSKGFDYKTCNVLVALEQQSPDIAQGVHLDR-NEEDIGAGDQGLMFGYATDETEECM 151 (396) T ss_dssp --C---CHHHHHHHHHHHHTCEEGGGTEETTTSEEEEEEECCCHHHHHHHTTTC-CGGGCCBSSCEEEEEEEETTSTTSS T ss_pred --C---CHHHHHHHHHHHHCCCCHHCCCCCEEEEEEECCCCCCHHHHHHHHCCC-CHHHCCCCCCEEEEEECCCCCCCCC T ss_conf --8---799999999998451505418551214788601113847665430477-6766077764268631047886556 Q ss_pred CHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEEECCCC----CEEEEEEEEEEEECCCCCCHHHHHHHHHHHCC Q ss_conf 75799999999999997520357641001178268999974976----31454578876506732689999988765201 Q gi|254780423|r 159 PAPIYYAHRILRTLADARKNSGGDVSKLGPDAKSQVTIRYVDNK----VCEVKSIVLSIQHFDPTWDRGKVRSVVEPYIL 234 (413) Q Consensus 159 Plpi~lAh~L~krL~~~Rk~~~g~~~~L~PDgKsQVTveY~~~k----P~~i~tVViStQH~~~~~~~~~~~~ii~~vI~ 234 (413) ||||+|||+|+|||+++||+ +.+|||||||||||||+|++++ |+||+|||+|+||++.....+.+++++++||+ T Consensus 152 Plpi~LAhrL~krL~~~Rk~--g~l~~LrPDgKsQVTveY~~~~~~~~P~rI~tVViS~QH~~~v~~~~lr~~i~~~vi~ 229 (396) T 2p02_A 152 PLTIVLAHKLNAKLAELRRN--GTLPWLRPDSKTQVTVQYMQDRGAVLPIRVHTIVISVQHDEEVCLDEMRDALKEKVIK 229 (396) T ss_dssp CHHHHHHHHHHHHHHHHHHT--TSSTTEEEEEEEEEEEEEEEETTEEEEEEEEEEEEEEEECSSCCHHHHHHHHHHTTHH T ss_pred CHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCEEEEEEEECCCCCCCEEEEEEEEEEECCCCCCCHHHHHHHHHHHHHH T ss_conf 73899999999999999963--9987658887325899985598753306886788850468867999999999999998 Q ss_pred CCCCCCCCCCCCEEEEECCCCEEECCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 23322468854279991788378558730036555611102457766677753356574404577888999999999750 Q gi|254780423|r 235 KALEDIKISPDCSWYINPAGKFVIGGPCSDAGLTGRKIIVDTYGGASPHGGGAFSGKDITKVDRAAAYAARYLAKNIVAA 314 (413) Q Consensus 235 ~~l~~~~l~~~t~~~INPtG~FviGGP~~D~GLTGRKiiVDtYGg~~~hGGGAfSGKDptKVDRSaAY~AR~iAKniVaa 314 (413) +++|+.+++++|+||||||||||+|||.|||||||||||||||||++|||||||||||||||||||||||||+||||||| T Consensus 230 ~v~~~~~ld~~t~~~INPtG~FviGGP~~D~GLTGRKiiVDTYGg~~~hGGGAfSGKDptKVDRSaAY~AR~iAKniVaa 309 (396) T 2p02_A 230 AVVPAKYLDEDTIYHLQPSGRFVIGGPQGDAGLTGRKIIVDTYGGWGAHGGGAFSGKDYTKVDRSAAYAARWVAKSLVKG 309 (396) T ss_dssp HHSCGGGCCTTCEEEESTTSCCCSCGGGTSCEETTSCTTTTTTTTSSCCCSCCCTTBCTTCHHHHHHHHHHHHHHHHHHT T ss_pred HHCCHHCCCCCCEEEECCCCCEECCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHC T ss_conf 75303127967469966999845179742456666510000257744668866788984434544011577889999862 Q ss_pred CHHHHHEEEEEECCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHCCCCHHHHHHHCCCCCCCCHHCCCCCCCCCCCCCCC Q ss_conf 82322110013005835550799982488868989999999974599978999860899862021076020789876667 Q gi|254780423|r 315 GLADRCTIQLSYAIGISRPLSIFVDLHDSGKVSESCVANAINKVMDLSVSGIRDHLNLSRPIYAQTSAYGHFGRSANQDG 394 (413) Q Consensus 315 gla~~c~vqlsYaIG~~~P~si~V~t~gt~~~~d~~i~~~i~~~fdl~p~~Ii~~l~L~~piy~~ta~yGHFGr~~~~~~ 394 (413) |||++||||||||||+++|+||+|+||||+++++++|.++|+++|||||++||++|+|++|||++||+||||||+ T Consensus 310 gla~~c~vqlsYaIG~~~Pvsi~v~t~gT~~~~~~~i~~~i~~~Fdl~p~~Ii~~L~L~~piy~~ta~yGHFGr~----- 384 (396) T 2p02_A 310 GLCRRVLVQVSYAIGVSHPLSISIFHYGTSQKSERELLEIVKKNFDLRPGVIVRDLDLKKPIYQRTAAYGHFGRD----- 384 (396) T ss_dssp TSCSEEEEEEEECBTCCSCSEEEEECTTCCSSCHHHHHHHHHHHCCCCHHHHHHHHTTTSSCGGGGSSSCSSSST----- T ss_pred CCCCEEEEEEEEECCCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCCCHHHHHHHCCCCCCCCHHHCCCCCCCCC----- T ss_conf 798747999973326677618999807888689999999999737998899998707899866555375788999----- Q ss_pred CCCHHHHHHHH Q ss_conf 89545457899 Q gi|254780423|r 395 FFPWEALDLIE 405 (413) Q Consensus 395 ~f~WE~~d~v~ 405 (413) +||||++|+++ T Consensus 385 ~~~WE~~d~~~ 395 (396) T 2p02_A 385 SFPWEVPKKLK 395 (396) T ss_dssp TCGGGSCCCCC T ss_pred CCCCCCCCCCC T ss_conf 99854636778 No 4 >2vt3_A REX, redox-sensing transcriptional repressor REX; transcriptional regulation, transcription regulation, redox poise, DNA-binding, NAD, NADH; HET: ATP; 2.0A {Bacillus subtilis} PDB: 2vt2_A* Probab=60.77 E-value=4 Score=20.05 Aligned_cols=10 Identities=40% Similarity=0.943 Sum_probs=4.3 Q ss_pred CCCEEEEEEEEC Q ss_conf 862488874206 Q gi|254780423|r 141 GDQGIMFGYACR 152 (413) Q Consensus 141 GDQGiMFGYAc~ 152 (413) |-||. ||-++ T Consensus 61 G~~g~--GY~V~ 70 (215) T 2vt3_A 61 GKKGY--GYNVD 70 (215) T ss_dssp C-------EEHH T ss_pred CCCCC--CEEHH T ss_conf 99888--71689 No 5 >2w42_A PIWI, putative uncharacterized protein; RNAI, RISC, argonaute, PIWI domain, protein/DNA complex; 1.90A {Archaeoglobus fulgidus} PDB: 1ytu_A 2bgg_A 1w9h_A Probab=52.51 E-value=10 Score=17.37 Aligned_cols=20 Identities=15% Similarity=0.195 Sum_probs=12.5 Q ss_pred HHHHHHHHHHHHHHHHHHCC Q ss_conf 57999999999999975203 Q gi|254780423|r 160 APIYYAHRILRTLADARKNS 179 (413) Q Consensus 160 lpi~lAh~L~krL~~~Rk~~ 179 (413) ..-.|...|.+.|...++.+ T Consensus 222 ~~~~l~~~l~~~l~~~~~~~ 241 (427) T 2w42_A 222 YLTYLKSTIKKVVYGFKKSN 241 (427) T ss_dssp HHHHHHHHHHHHHHHHHHHC T ss_pred HHHHHHHHHHHHHHHHHHHH T ss_conf 79999999999999999983 No 6 >3ho1_A Argonaute; argonaute, protein-DNA-RNA complex, plasmid; 2.60A {Thermus thermophilus HB27} PDB: 3dlb_A* 3dlh_A* 3f73_A* 3hm9_A 3hvr_A 3hxm_A* 3hk2_A 3hjf_A Probab=52.33 E-value=8 Score=18.10 Aligned_cols=31 Identities=23% Similarity=0.299 Sum_probs=19.6 Q ss_pred EEECCCCCCCEEEEEEECCCCCCCHHHHHHHHHH Q ss_conf 1300583555079998248886898999999997 Q gi|254780423|r 324 LSYAIGISRPLSIFVDLHDSGKVSESCVANAINK 357 (413) Q Consensus 324 lsYaIG~~~P~si~V~t~gt~~~~d~~i~~~i~~ 357 (413) ...-.|-+.|+.+-.++ +..+.+.|.+.+-+ T Consensus 607 ~~~~~gtp~p~~v~~~~---~~~~~~~l~~~~y~ 637 (685) T 3ho1_A 607 HRDFRGTPRPLKLVHEA---GDTPLEALAHQIFH 637 (685) T ss_dssp CCCSSSCCCCEEEEEEE---ECSCHHHHHHHHHH T ss_pred CCCCEECCCEEEEEECC---CCCCHHHHHHHHHH T ss_conf 55876637108999978---99899999999999 No 7 >1kjn_A MTH0777; hypotethical protein, structural genomics, PSI, protein structure initiative; 2.20A {Methanothermobacterthermautotrophicus} SCOP: c.115.1.1 Probab=38.63 E-value=8 Score=18.10 Aligned_cols=26 Identities=23% Similarity=0.560 Sum_probs=20.3 Q ss_pred EEEEEEECCCCCCCCHHHHHHHHHHH Q ss_conf 88874206645448757999999999 Q gi|254780423|r 145 IMFGYACRETADFMPAPIYYAHRILR 170 (413) Q Consensus 145 iMFGYAc~ET~~~MPlpi~lAh~L~k 170 (413) .|.=--|-|.|.+.|+.++|+|+|-+ T Consensus 9 ~lillGCPE~Pvq~p~~lYl~~~Lk~ 34 (157) T 1kjn_A 9 ALMVLGCPESPVQIPLAIYTSHKLKK 34 (157) T ss_dssp EEEECCCSCSTTHHHHHHHHHHHHHH T ss_pred EEEEECCCCCCCHHHHHHHHHHHHHH T ss_conf 89994599985133799999999976 No 8 >3io0_A ETUB protein; tamdem repeat of bacterial microcompartment domain in A single polypeptide chain, structural protein; 3.00A {Clostridium kluyveri dsm 555} Probab=38.02 E-value=18 Score=15.84 Aligned_cols=14 Identities=36% Similarity=0.598 Sum_probs=6.4 Q ss_pred EEEEEEEECCCCCCCCHHH Q ss_conf 4888742066454487579 Q gi|254780423|r 144 GIMFGYACRETADFMPAPI 162 (413) Q Consensus 144 GiMFGYAc~ET~~~MPlpi 162 (413) |--|||=|- -|+.+ T Consensus 143 GkAlG~ie~-----~pa~~ 156 (230) T 3io0_A 143 GQAFGIMHA-----APAGV 156 (230) T ss_dssp TSEEEEEEE-----ESHHH T ss_pred CCEEEEEEC-----CCHHH T ss_conf 752699974-----85899 No 9 >3kxy_T EXSE; type-three secretion system, TTSS, T3SS, chaperone-effector chaperone, effector, chaperone-transcription inhibitor COMP; 2.80A {Pseudomonas aeruginosa} Probab=31.05 E-value=21 Score=15.39 Aligned_cols=35 Identities=29% Similarity=0.432 Sum_probs=20.8 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHCHHHHHEEEEE Q ss_conf 335657440457788899999999975082322110013 Q gi|254780423|r 287 AFSGKDITKVDRAAAYAARYLAKNIVAAGLADRCTIQLS 325 (413) Q Consensus 287 AfSGKDptKVDRSaAY~AR~iAKniVaagla~~c~vqls 325 (413) |.-|.|-| |-|-.|||+|.|+--.--.++.+-.|+ T Consensus 17 avrgedrs----svaglarwlarnvagdprseqalqrla 51 (66) T 3kxy_T 17 AVRGEDRS----SVAGLARWLARNVAGDPRSEQALQRLA 51 (66) T ss_dssp CCCCCCCS----CHHHHHHHHHHHTCCCTTHHHHHHHHH T ss_pred HHHCCCHH----HHHHHHHHHHHHCCCCCCHHHHHHHHH T ss_conf 77065324----688999999986159950799999875 No 10 >2f0c_A Phage TP901-1 ORF49 (BPP); beta-barrel, beta prism, 3 helix parallel bundle, virus/viral protein complex; 1.65A {Lactococcus phage tp901-1} SCOP: b.21.1.3 b.108.1.4 PDB: 3ejc_A 3hg0_A Probab=30.67 E-value=25 Score=14.98 Aligned_cols=23 Identities=22% Similarity=0.239 Sum_probs=19.0 Q ss_pred CEEEEECCCCEEECCCCCCCCCC Q ss_conf 27999178837855873003655 Q gi|254780423|r 246 CSWYINPAGKFVIGGPCSDAGLT 268 (413) Q Consensus 246 t~~~INPtG~FviGGP~~D~GLT 268 (413) ..+-|||.|+|..=||..++|.. T Consensus 160 fhIdI~pdGsi~WWG~~~~~g~~ 182 (191) T 2f0c_A 160 FHIDIPSSGVCQWFGPTASSGTP 182 (191) T ss_dssp EEEEECTTCCCEECSCCBSSCCE T ss_pred EEEEECCCCCEEECCCCCCCCCC T ss_conf 99986899847854898788887 No 11 >1to0_A Hypothetical UPF0247 protein YYDA; structural genomics, unknown function, PSI, protein structure initiative; 2.50A {Bacillus subtilis} SCOP: c.116.1.3 Probab=23.05 E-value=23 Score=15.17 Aligned_cols=11 Identities=27% Similarity=0.229 Sum_probs=7.4 Q ss_pred CCHHHHHHHHH Q ss_conf 87579999999 Q gi|254780423|r 158 MPAPIYYAHRI 168 (413) Q Consensus 158 MPlpi~lAh~L 168 (413) |-+|+.||+-+ T Consensus 130 mT~pH~larv~ 140 (167) T 1to0_A 130 MTFPHQLMRLI 140 (167) T ss_dssp SCCCHHHHHHH T ss_pred CCCCHHHHHHH T ss_conf 88618999999 No 12 >1u04_A Argonaute, hypothetical protein PF0537; RNAI, silencing, PIWI, PAZ, RISC, slicer, RNAse H, hydrolase/gene regulation complex; 2.25A {Pyrococcus furiosus dsm 3638} SCOP: b.34.14.1 c.55.3.10 PDB: 1z25_A 1z26_A Probab=22.98 E-value=35 Score=14.01 Aligned_cols=24 Identities=8% Similarity=0.061 Sum_probs=12.6 Q ss_pred CCCCCEEEEEEECCCCCCCHHHHHHH Q ss_conf 83555079998248886898999999 Q gi|254780423|r 329 GISRPLSIFVDLHDSGKVSESCVANA 354 (413) Q Consensus 329 G~~~P~si~V~t~gt~~~~d~~i~~~ 354 (413) |...|-.|.| |-.|.+.+.++..+ T Consensus 617 ~~~~P~~IIi--YRDGvV~~~El~~i 640 (771) T 1u04_A 617 IKLDNKKILL--LRDGRITNNEEEGL 640 (771) T ss_dssp CCCTTCEEEE--ECSBCCCHHHHHHH T ss_pred CCCCCCEEEE--ECCCCCCHHHHHHH T ss_conf 8999986999--87888557999999 No 13 >1o6d_A Hypothetical UPF0247 protein TM0844; structural genomics, unknown function; 1.66A {Thermotoga maritima} SCOP: c.116.1.3 Probab=22.82 E-value=23 Score=15.18 Aligned_cols=18 Identities=17% Similarity=-0.044 Sum_probs=11.0 Q ss_pred CCCHHHHHHHHH-HHHHHH Q ss_conf 487579999999-999999 Q gi|254780423|r 157 FMPAPIYYAHRI-LRTLAD 174 (413) Q Consensus 157 ~MPlpi~lAh~L-~krL~~ 174 (413) -|-+|+.||+-+ +++|.. T Consensus 123 ~mT~pH~larv~L~EQiYR 141 (163) T 1o6d_A 123 KMTFTHGMTVLIVLEQIFR 141 (163) T ss_dssp SSCCCHHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHHHHH T ss_conf 8886189999999999999 No 14 >1j03_A Putative steroid binding protein; alpha and beta, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: d.120.1.2 PDB: 1t0g_A Probab=22.69 E-value=23 Score=15.24 Aligned_cols=20 Identities=30% Similarity=0.615 Sum_probs=15.6 Q ss_pred CCCCCCCCCCCCCCCCCCCCHH Q ss_conf 2457766677753356574404 Q gi|254780423|r 275 DTYGGASPHGGGAFSGKDITKV 296 (413) Q Consensus 275 DtYGg~~~hGGGAfSGKDptKV 296 (413) +.||+.+++ +.|.|||.|+. T Consensus 38 ~~YGpgg~Y--~~fAG~Dasra 57 (102) T 1j03_A 38 SFYGSGGDY--SMFAGKDASRA 57 (102) T ss_dssp HHHSSSSTT--TTTTTSBCHHH T ss_pred CCCCCCCCC--CCCCCCCHHHH T ss_conf 115699977--54232347999 No 15 >3gfh_A Ethanolamine utilization protein EUTL; bacterial mircocompartment, shell protein, structural protein; 2.20A {Escherichia coli} PDB: 3i87_A 3i82_A Probab=20.07 E-value=40 Score=13.63 Aligned_cols=15 Identities=13% Similarity=0.162 Sum_probs=8.2 Q ss_pred HHHHHHHHHHHCCCC Q ss_conf 899999999840858 Q gi|254780423|r 87 KFEKVVRSVIRSIGY 101 (413) Q Consensus 87 di~~ivR~~i~~IGY 101 (413) |++.-+...++.++. T Consensus 95 dVrsave~a~~~~e~ 109 (225) T 3gfh_A 95 EVRAGLDAMIAHIEN 109 (225) T ss_dssp HHHHHHHHHHHHHTT T ss_pred HHHHHHHHHHHHHHH T ss_conf 999999999999851 Done!