Query gi|254780512|ref|YP_003064925.1| flagellar biosynthesis protein FlhA [Candidatus Liberibacter asiaticus str. psy62] Match_columns 692 No_of_seqs 160 out of 1034 Neff 5.9 Searched_HMMs 23785 Date Tue May 31 20:37:07 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780512.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3mix_A Flagellar biosynthesis 100.0 0 0 769.9 31.7 375 316-692 2-381 (382) 2 3a5i_A Flagellar biosynthesis 100.0 0 0 751.2 32.7 338 348-692 48-387 (389) 3 3myd_A Flagellar biosynthesis 100.0 0 0 729.5 37.0 343 346-692 17-363 (365) 4 2x49_A INVA, invasion protein 100.0 0 0 688.5 27.7 323 366-691 9-333 (333) 5 2hbt_A EGL nine homolog 1; pro 49.0 10 0.00043 15.6 3.0 33 156-188 7-49 (247) 6 2pl1_A Transcriptional regulat 48.6 3.5 0.00015 19.0 0.4 14 627-640 105-118 (121) 7 3ol3_A Putative uncharacterize 41.5 13 0.00055 14.8 5.9 74 503-579 11-96 (107) 8 2qxy_A Response regulator; reg 39.8 3.7 0.00015 18.9 -0.7 44 477-520 9-52 (142) 9 2kvc_A Putative uncharacterize 38.5 15 0.00061 14.4 6.2 72 504-579 7-87 (103) 10 2yvy_A MGTE, Mg2+ transporter 38.1 15 0.00062 14.4 2.2 29 647-675 209-237 (278) 11 3crn_A Response regulator rece 36.8 4.9 0.00021 18.0 -0.4 49 592-645 76-126 (132) 12 1qle_D Cytochrome AA3, ccytoch 36.2 14 0.00058 14.6 1.8 19 197-215 18-36 (43) 13 1h16_A Formate acetyltransfera 34.6 17 0.0007 14.0 2.4 11 659-669 684-694 (759) 14 1xhf_A DYE resistance, aerobic 34.0 6.6 0.00028 17.0 -0.1 44 477-520 8-51 (123) 15 2ebk_A RWD domain-containing p 33.0 18 0.00074 13.8 2.9 52 453-522 73-124 (128) 16 3c8y_A Iron hydrogenase 1; dit 32.4 18 0.00075 13.8 4.6 87 453-543 239-338 (574) 17 2zy9_A Mg2+ transporter MGTE; 31.1 14 0.00059 14.5 1.2 24 530-553 355-378 (473) 18 1r71_A Transcriptional repress 30.2 19 0.00081 13.5 5.1 52 496-547 4-55 (178) 19 1wi9_A Protein C20ORF116 homol 27.7 21 0.00089 13.2 3.7 52 133-204 12-63 (72) 20 2rhf_A DNA helicase RECQ; HRDC 27.6 21 0.00089 13.2 2.5 27 375-403 3-29 (77) 21 1dvo_A FINO, fertility inhibit 25.5 22 0.00092 13.1 1.3 44 503-546 39-82 (152) 22 3cfy_A Putative LUXO repressor 25.4 4 0.00017 18.7 -2.5 10 629-638 111-120 (137) 23 2job_A Antilipopolysaccharide 24.7 24 0.001 12.8 1.6 30 481-510 71-101 (102) 24 3bej_E Nuclear receptor coacti 24.5 24 0.001 12.8 2.4 19 528-546 6-24 (26) 25 2hqv_A AGR_C_4470P; NESG, ATR9 24.5 15 0.00063 14.3 0.4 17 422-438 101-117 (195) 26 1zgz_A Torcad operon transcrip 24.1 14 0.0006 14.5 0.2 15 626-640 105-119 (122) 27 1jhn_A Calnexin; jelly-roll, b 21.0 28 0.0012 12.3 3.3 23 410-432 201-223 (424) 28 1zh2_A KDP operon transcriptio 20.8 11 0.00045 15.4 -1.0 14 627-640 105-118 (121) 29 2rjn_A Response regulator rece 20.8 25 0.0011 12.7 0.9 44 477-520 12-55 (154) 30 2bw2_A Bypass of forespore C; 20.6 28 0.0012 12.3 1.1 23 456-479 102-124 (140) No 1 >3mix_A Flagellar biosynthesis protein FLHA; flagella biosynthesis, protein transport, type III secretion; 2.30A {Bacillus subtilis} Probab=100.00 E-value=0 Score=769.90 Aligned_cols=375 Identities=26% Similarity=0.418 Sum_probs=349.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCC---CCCCCCCCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHH Q ss_conf 99999999886443222210011000---2356676753001002460122101-1111234575526889999999999 Q gi|254780512|r 316 GFFACAGFYVPYKNELQRLAKVAQIQ---EASKQNQHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFA 391 (692) Q Consensus 316 ~~l~~~a~~~~r~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la 391 (692) +++++.||+++|+.+.++..+....+ ......++++......|++++++|| ++++++.+++++|.+||+++||+++ T Consensus 2 g~~~~~ay~~~k~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~l~vd~i~lelG~~Li~lvd~~~gg~L~~rI~~iRk~ia 81 (382) T 3mix_A 2 GHHHHHAYTLSKSGKEKEEVDEILEEEAEVDELKSPESVVQLLHIDPIEFEFGYGLIPLADANQGGDLLDRIVMIRRQLA 81 (382) T ss_dssp ---------------------CHHHHHHHHSCCCSHHHHGGGSCCCSEEEEECGGGHHHHHSSSCCCHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHCCCCCEEEEEECCCHHHHHCCCCCCHHHHHHHHHHHHHH T ss_conf 86421566413523335567777754420003478531344357760799965064977484559749999999999999 Q ss_pred HHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHH Q ss_conf 98098788324454377898716999748245348841783413305888767887410147668830343978845888 Q gi|254780512|r 392 VQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLR 471 (692) Q Consensus 392 ~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~ 471 (692) .|+||++|+||||||++|+||+|+|+|+|+++++|+++||++||+++++....++|++++||+||+||+||+++++++|+ T Consensus 82 ~elG~v~P~IrIrDn~~L~~~~Y~I~i~gv~v~~g~l~~~~lLai~~~~~~~~~~g~~~~ePafgl~a~WI~~~~~~~a~ 161 (382) T 3mix_A 82 LELGLVIPVVRIRDNIALQPNEYRLKIKGNEVAKGELLLDHYLAMSPTPEDDLIEGIETVEPSFGLPAKWISEAVKDEAD 161 (382) T ss_dssp HHHSCCCCCCEEEECTTSCTTEEEEEETTEEEEEEECCTTCCBC------------------------------------ T ss_pred HHCCCCCCCEEEEECCCCCCCEEEEEECCEEEEEECCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHH T ss_conf 97198789469997877888859999988998641356661111178765445788303278888751775776787999 Q ss_pred HCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHH Q ss_conf 28990705889999999999998799987299999999997666489999863115998999999999997498654699 Q gi|254780512|r 472 RQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLP 551 (692) Q Consensus 472 ~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr 551 (692) .+|||||||.+||+||+++++|+||+||+||||||+|+|.++++||+||||++|+++|++.+|+|||+||+|+|||||++ T Consensus 162 ~~G~tvvd~~~ViaTHL~evir~~a~ellgrqevq~LLd~l~~~~p~LVeelvp~~l~l~~i~~VLq~LL~E~VsIRdl~ 241 (382) T 3mix_A 162 MLGYTVVDPASVVSTHITEKIKQHAHELIGRQETKQLIDHLKESYPVLVEEVTPNPLSVGDIQKVLAKLLKEKVSIRNLV 241 (382) T ss_dssp ----CCBCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCHHHHHHHTTTTCCHHHHHHHHHHHHHTTCCCCCHH T ss_pred HCCCEEECHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHH T ss_conf 77985763344899999999999699996999999999999877579999875557798999999999987786353599 Q ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCC-CCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHH Q ss_conf 9999998753357998999999999989998652077-884899988878999999983037778846456698899999 Q gi|254780512|r 552 LILESIAEVAPHSRKTSHIVEQVRIRMAQQICGDLAP-TGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMF 630 (692) Q Consensus 552 ~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~~~~~-~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l 630 (692) +|||||+||++++|||+.||||||++|+||||++|.+ +|.|+|++|+|+||++++++++++++|++ +++||+..+++ T Consensus 242 tIlEtLad~a~~~kd~~~LtE~VR~~L~r~I~~~~~~~~~~L~vi~L~p~lE~~l~~s~~~~~~g~~--l~l~P~~~~~l 319 (382) T 3mix_A 242 TIFETLADYGKLTTDSDLLTEYTRQALAKQITAQFAKENEVLKVVTCSGRVEKAIADGVQQTEHGNY--LSLEPDISESI 319 (382) T ss_dssp HHHHHHHHHTTTCCCHHHHHHHHHHHTHHHHHHHHCCTTSCEECBEECHHHHHHHHHHBC------C--BCCCHHHHHHH T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHHHCCCCCC--CCCCHHHHHHH T ss_conf 9999999872147999999999999999999998568987158997398999999998762378885--56598999999 Q ss_pred HHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEEEEEC Q ss_conf 99999999999956998799828335489999988644898189440178996579888609 Q gi|254780512|r 631 SENATNSIRQYIDKGIPLTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGLKVNILGTIS 692 (692) Q Consensus 631 ~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~~i~~iG~Is 692 (692) ++++++.++++...|.+|||+|||++||++|+|+++++|+++||||+||+++++++++|+|+ T Consensus 320 ~~~~~~~~~~~~~~g~~pVllvs~~iR~~l~~l~~~~~p~l~VLS~~EI~~~~~i~~ig~V~ 381 (382) T 3mix_A 320 VRSVAKEAEQLSLRQETAILLCSPPVRMYVKQLLERYFPDLPVLSYNELEANVEVQSIGVVD 381 (382) T ss_dssp HHHHHHHHHHHHHTTCCCCEEECHHHHHHHHHHHTTTCTTCCEEEGGGSCTTCCEECSCEEC T ss_pred HHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHCCCCEEEEHHHCCCCCCEEEEEEEE T ss_conf 99999999999964998599978106799999999868998697055459998158999997 No 2 >3a5i_A Flagellar biosynthesis protein FLHA; four domains, thioredoxin-like fold, bacterial flagellum BIO bacterial flagellum protein export; 2.80A {Salmonella typhimurium} Probab=100.00 E-value=0 Score=751.23 Aligned_cols=338 Identities=25% Similarity=0.435 Sum_probs=328.0 Q ss_pred CCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEE Q ss_conf 6753001002460122101-111123457552688999999999998098788324454377898716999748245348 Q gi|254780512|r 348 QHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAIS 426 (692) Q Consensus 348 ~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~g 426 (692) +.+|+.....|++++++|| +++++|.+++++|++||+++||++|+||||++|+||||||++|+||+|+|+|+|+++++| T Consensus 48 e~sw~dv~~vd~i~levGy~Li~lvd~~~gg~Ll~RI~~iRk~~a~elG~vvP~I~IrDnl~L~p~~Y~I~i~Gv~va~g 127 (389) T 3a5i_A 48 EATWNDVQLEDSLGMEVGYRLIPMVDFQQDGELLGRIRSIRKKFAQDMGFLPPVVHIRDNMDLQPARYRILMKGVEIGSG 127 (389) T ss_dssp CCCGGGCCCCCSEEEEECGGGTTTTCSSSCCHHHHHHHHHHHHHHHHTSSCCCCEEEEECTTSCTTEEEEEETTEEEEEE T ss_pred CCCHHHCCCCCEEEEEECCCHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCEEEEEECCEEEEEE T ss_conf 56621166555079997414286638778970899999999999997198789568971798999868999998999998 Q ss_pred EECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 84178341330588876788741014766883034397884588828990705889999999999998799987299999 Q gi|254780512|r 427 ELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVK 506 (692) Q Consensus 427 ei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq 506 (692) +++||++||+++++....++|++++||+||+||+||+++++++|+..|||||||.+||+||+++++|+||+||||+|||| T Consensus 128 ~l~p~~~Lai~~~~~~~~l~G~~t~ePafGl~A~WI~~~~~~~A~~~Gytvvd~~tViaTHL~evlr~~a~eLlgrqevq 207 (389) T 3a5i_A 128 DAYPGRWLAINPGTAAGTLPGEKTVDPAFGLDAIWIESALKEQAQIQGFTVVEASTVVATHLNHLIGQFSAELFGRQEAQ 207 (389) T ss_dssp ECCTTEEEEECCSSCCCCCSSEEEECSSSCCEEEEEESTTHHHHHHTTCEEEEHHHHHHHHHHHHHHHTTTTTCCHHHHH T ss_pred EECCCEEEEECCCCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHCHHHHH T ss_conf 86377079888998757778732455689987288688777688767987971687999999999998699882899999 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999766648999986311599899999999999749865469999999987533579989999999999899986520 Q gi|254780512|r 507 NLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICGDL 586 (692) Q Consensus 507 ~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~~~ 586 (692) +|||+++++||+||||++|+++|++.+|+|||+||+|+||||||++|||||+||++++|||+.||||||++|+||||++| T Consensus 208 ~LLd~l~~~~p~LVeelvp~~lsl~~i~~VLq~LL~E~VsIRdl~tIlEtLae~a~~~kd~~~LtE~VR~aL~r~I~~~~ 287 (389) T 3a5i_A 208 QLLDRVSQEMPKLTEDLVPGVVTLTTLHKVLQNLLAEKVPIRDMRTILETLAEHAPLQSDPHELTAVVRVALGRAITQQW 287 (389) T ss_dssp HHHHHHHTTCHHHHHTTTTTTSCHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHGGGCCCHHHHHHHHHHHTHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH T ss_conf 99999876657999975305779999999999999789628789999999998731579999999999999999999986 Q ss_pred CC-CCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHH Q ss_conf 77-88489998887899999998303777884645669889999999999999999956998799828335489999988 Q gi|254780512|r 587 AP-TGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEIRSYIRMILE 665 (692) Q Consensus 587 ~~-~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~lle 665 (692) .+ +|.|+|++|+|+||+++++++++++ +++|+..++++++++++++++...|.+|||+|||++||++|++++ T Consensus 288 ~~~~g~L~vi~L~p~lE~~l~~si~~~~-------~L~P~~~~~l~~~~~~~~~~~~~~g~~pVLlvs~~iR~~l~~ll~ 360 (389) T 3a5i_A 288 FPGNEEVQVIGLDTALERLLLQALQGGG-------GLEPGLADRLLAQTQEALSRQEMLGAPPVLLVNHALRPLLSRFLR 360 (389) T ss_dssp SCTTCCEECBCCCTTHHHHHHHHHHSSS-------CCCTTHHHHHHHHHHHHHHHHHHHTCCCEEEECTTTHHHHHHHHT T ss_pred CCCCCCEEEEEECHHHHHHHHHHHCCCC-------CCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHH T ss_conf 1767713899978799999999750568-------899799999999999999999965999799928517899999999 Q ss_pred HHCCCCCEEEECCCCCCCEEEEEEEEC Q ss_conf 644898189440178996579888609 Q gi|254780512|r 666 RNFPSLAVLSHMEIAKGLKVNILGTIS 692 (692) Q Consensus 666 ~~~p~l~VLS~~EI~~~~~i~~iG~Is 692 (692) +++|+++||||+||+++++|+++|+|+ T Consensus 361 ~~~p~l~VLS~~EI~~~~~i~~vg~Ig 387 (389) T 3a5i_A 361 RSLPQLVVLSNLELSDNRHIRMTATIG 387 (389) T ss_dssp TTCTTCEEEETTTSCTTCCEECCCCCS T ss_pred HHCCCCEEECHHHCCCCCEEEEEEEEC T ss_conf 868998796355459997069999836 No 3 >3myd_A Flagellar biosynthesis protein FLHA; flagellar export, type III secretion, cytoplasmic FRAG protein transport; 2.40A {Helicobacter pylori} Probab=100.00 E-value=0 Score=729.51 Aligned_cols=343 Identities=27% Similarity=0.450 Sum_probs=328.7 Q ss_pred CCCCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEE Q ss_conf 676753001002460122101-1111234575526889999999999980987883244543778987169997482453 Q gi|254780512|r 346 QNQHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVA 424 (692) Q Consensus 346 ~~~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va 424 (692) +.+..+......|++++++|| +++++|.+++++|.+||+++||+++.||||++|+||||||.+|+||+|+|+|+|++++ T Consensus 17 ~~e~~~~~~l~vd~l~le~Gy~Li~lvd~~~g~~L~~rI~~iR~~la~elG~~lP~Irirdn~~L~~~~Y~I~i~gv~v~ 96 (365) T 3myd_A 17 EEEQAIDEVLKIEFLELALGYQLISLADMKQGGDLLERIRGIRKKIASDYGFLMPQIRIRDNLQLPPTHYEIKLKGIVIG 96 (365) T ss_dssp -CCCHHHHHHCCCCEEEEECGGGGGGTCGGGTCCHHHHHHTHHHHHHHHHCCCCCCCEEEECTTSCTTEEEEEETTEEEE T ss_pred CCCCCHHHCCCCCEEEEEECCCHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCEEEEEECCEEEE T ss_conf 43158655356670799975462855185669858999999999999980998895689857989998789998865676 Q ss_pred EEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 48841783413305888767887410147668830343978845888289907058899999999999987999872999 Q gi|254780512|r 425 ISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKD 504 (692) Q Consensus 425 ~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qE 504 (692) +|+++||++||+++++....++|++++||+||++|+||+++++++|+.+|||+|||++|++||+++++|+||+||||+|| T Consensus 97 ~g~l~~~~~lai~~~~~~~~i~G~~~~eP~fgl~a~WI~~~~~~~a~~~G~tvvd~~~Vi~tHl~evi~~~a~ellgrqE 176 (365) T 3myd_A 97 EGMVMPDKFLAMNTGFVNREIEGIPTKEPAFGMDALWIDAKNKEEAIIQGYTIIDPSTVIATHTSELVKKYAEDFITKDE 176 (365) T ss_dssp EEECCTTSEEEECSSCCSSCCCSEEEECTTTCCEEEEECGGGHHHHHHTTCEEECHHHHHHHHHHHHHHHTGGGGCCHHH T ss_pred EEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHCHHH T ss_conf 52036874773078765555788655687777661247876589999759858858999999999999996999859999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHH Q ss_conf 99999997666489999863115998999999999997498654699999999875335-79989999999999899986 Q gi|254780512|r 505 VKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPH-SRKTSHIVEQVRIRMAQQIC 583 (692) Q Consensus 505 vq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~-~kD~~~LtE~VR~aL~R~I~ 583 (692) ||+|+|+++++||+|||| |+++|++++|+|||+||+|+|||||+++|||||+||+++ +||++.||||||++|+|||| T Consensus 177 v~~LLd~l~~~~p~LVeE--p~~v~l~~i~~VLq~LL~E~VsIRdl~~IlEaLad~a~~~~~d~~~LtE~VR~aL~r~I~ 254 (365) T 3myd_A 177 VKSLLERLAKDYPTIVEE--SKKIPTGAIRSVLQALLHEKIPIKDMLTILETITDIAPLVQNDVNILTEQVRARLSRVIT 254 (365) T ss_dssp HHHHHHHHHTTCHHHHHH--GGGSCHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHGGGGTTCHHHHHHHHHHTCHHHHH T ss_pred HHHHHHHHHHHCHHHHHH--HHCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH T ss_conf 999999997668688731--320889999999999997687073789999999987301469999999999999999999 Q ss_pred HHHC-CCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCE-EEEECHHHHHHHH Q ss_conf 5207-7884899988878999999983037778846456698899999999999999999569987-9982833548999 Q gi|254780512|r 584 GDLA-PTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPL-TIVTLPEIRSYIR 661 (692) Q Consensus 584 ~~~~-~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~p-VLl~s~~iRr~lr 661 (692) ++|. ++|+|+|++|+|+||++++++++++++|++ ++++|+..+++++++++.++++...|..| ||+|||++||++| T Consensus 255 ~~~~~~~g~L~vi~L~p~lE~~l~~~i~~~~~g~~--l~l~p~~~~~li~~v~~~~~~~~~~g~~pvVLl~s~~iRr~l~ 332 (365) T 3myd_A 255 NAFKSEDGRLKFLTFSTDSEQFLLNKLRENGTSKS--LLLNVGELQKLIEGVSEEAMKVLQKGIAPVILIVEPNLRKALS 332 (365) T ss_dssp HHHCCTTSEEEEEEECHHHHHHHHHTEEEETTEEE--ECCCHHHHHHHHHHHHHHHHHHHHTTCCSEEEEECHHHHHHHH T ss_pred HHHCCCCCCEEEEECCHHHHHHHHHHHHCCCCCCC--CCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHH T ss_conf 98558888359998188999999998742577775--4579899999999999999999965899989988887899999 Q ss_pred HHHHHHCCCCCEEEECCCCCCCEEEEEEEEC Q ss_conf 9988644898189440178996579888609 Q gi|254780512|r 662 MILERNFPSLAVLSHMEIAKGLKVNILGTIS 692 (692) Q Consensus 662 ~lle~~~p~l~VLS~~EI~~~~~i~~iG~Is 692 (692) +++++++|+++||||+||+++++++++|+|+ T Consensus 333 ~ll~~~~p~l~VLS~~EI~~~~~v~~~g~V~ 363 (365) T 3myd_A 333 NQMEQARIDVVVLSHAELDPNSNFEALGTIH 363 (365) T ss_dssp HHHHHHTCCEEEEEGGGCCTTSEEEEEEEEC T ss_pred HHHHHHCCCCEEECHHHCCCCCEEEEEEEEE T ss_conf 9999877998696214249997058999996 No 4 >2x49_A INVA, invasion protein INVA; protein transport, transport, pathogenesis; 1.50A {Salmonella enterica subsp} PDB: 2x4a_A* 3lw9_A Probab=100.00 E-value=0 Score=688.54 Aligned_cols=323 Identities=24% Similarity=0.366 Sum_probs=314.9 Q ss_pred CCCCCCCCCCCCCHH--HHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCC Q ss_conf 111112345755268--899999999999809878832445437789871699974824534884178341330588876 Q gi|254780512|r 366 SLVSNRLLSSQEDLF--LRVSKIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKP 443 (692) Q Consensus 366 ~li~l~~~~~~~~L~--~rI~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~ 443 (692) +++++++.+++++|. .+|+++||+++.|+||++|+||||||.+|+||+|+|+|+|+++++|+++||++||+++++... T Consensus 9 PLi~lv~~~~~~~l~~~~~i~~iR~~la~elG~vlP~IrirDn~~L~~~~Y~I~i~gv~va~g~~~~~~lla~~~~~~~~ 88 (333) T 2x49_A 9 PLILLVPKSRREDLEKAQLAERLRSQFFIDYGVRLPEVLLRDGEGLDDNSIVLLINEIRVEQFTVYFDLMRVVNYSDEVV 88 (333) T ss_dssp CEEEEECHHHHHHHHHTTHHHHHHHHHHHHHSSCCCCEEEEECTTCCTTEEEEEETTEEEEEEECCTTSEEETTCCTHHH T ss_pred CEEEECCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCCCCCCCCCCCC T ss_conf 52684174340445676799999999999819878827997579899987999988899999996578414568876544 Q ss_pred CCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 78874101476688303439788458882899070588999999999999879998729999999999766648999986 Q gi|254780512|r 444 TFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEET 523 (692) Q Consensus 444 ~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~El 523 (692) .++|++++||+||+||+||+++++++|+.+|||++||.+|++||+++++|+|++||+|+||||+|+|+++++||+||||+ T Consensus 89 ~~~g~~~~~p~~g~~a~WI~~~~~~~a~~~G~tvvd~~~vi~tHl~evl~~~a~ellgrqev~~LLd~l~~~~P~LVeEl 168 (333) T 2x49_A 89 SFGINPTIHQQGSSQYFWVTHEEGEKLRELGYVLRNALDELYHCLAVTLARNVNEYFGIQETKHMLDQLEAKFPDLLKEV 168 (333) T ss_dssp HTTCCCEEEEETTEEEEEECHHHHHHHHTTTCCEEEHHHHHHHHHHHHHHHTGGGTCSHHHHHHHHHHHHTTCHHHHHHH T ss_pred CCCCCCCCCCCCCCCEEEECHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 57887666778886459737435899986798676346679999999999979998189999999998876648999876 Q ss_pred HHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHH Q ss_conf 31159989999999999974986546999999998753357998999999999989998652077884899988878999 Q gi|254780512|r 524 CSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICGDLAPTGILNILKLGNHWDM 603 (692) Q Consensus 524 vp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~~~~~~g~L~vi~L~p~lE~ 603 (692) +| ++|++++|+|||+||+|+|||||+++|+|||+||++++|||+.||||||++|+||||++|+++|.|+|++|+|+||+ T Consensus 169 ~~-~v~l~~i~~VLq~LL~E~VsIRdl~~IlEtLad~~~~~~d~~~LtE~VR~aL~r~I~~~~~~~g~l~vi~l~p~lE~ 247 (333) T 2x49_A 169 LR-HATVQRISEVLQRLLSERVSVRNMKLIMEALALWAPREKDVINLVEHIRGAMARYICHKFANGGELRAVMVSAEVED 247 (333) T ss_dssp HT-TSCHHHHHHHHHHHHTTTCCCCCHHHHHHHHHHHTTTCCCHHHHHHHHHHHTHHHHHHHHHTTSCEEEEECCHHHHH T ss_pred HC-CCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECHHHHH T ss_conf 44-79989999999999858973755999999999873136999999999999999999997467995589991879999 Q ss_pred HHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCC Q ss_conf 99998303777884645669889999999999999999956998799828335489999988644898189440178996 Q gi|254780512|r 604 IFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGL 683 (692) Q Consensus 604 ~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~ 683 (692) .++++++++++|++ +++||+..+++++++++.++++..+|.+||++|||++||++|+++++++|+++||||+||++++ T Consensus 248 ~l~~~i~~~~~~~~--l~l~p~~~~~l~~~~~~~~~~~~~~g~~pVll~s~~iRr~l~~ll~~~~~~l~VLS~~EI~~~~ 325 (333) T 2x49_A 248 VIRKGIRQTSGSTF--LSLDPEASANLMDLITLKLDDLLIAHKDLVLLTSVDVRRFIKKMIEGRFPDLEVLSFGEIADSK 325 (333) T ss_dssp HHHHHEEECSSCEE--ECCCHHHHHHHHHHHHHHHTTCCSCGGGCEEEECTTTHHHHHHHHTTTCTTCEEEETGGGTTCC T ss_pred HHHHHHHCCCCCCC--CCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHHCCCCEEECHHHCCCCC T ss_conf 99986531478875--5779699999999999999999964999799988888999999999868998696035459997 Q ss_pred EEEEEEEE Q ss_conf 57988860 Q gi|254780512|r 684 KVNILGTI 691 (692) Q Consensus 684 ~i~~iG~I 691 (692) +++++|+| T Consensus 326 ~v~vvg~I 333 (333) T 2x49_A 326 SVNVIKTI 333 (333) T ss_dssp CEEEEEEC T ss_pred EEEEEEEC T ss_conf 24898869 No 5 >2hbt_A EGL nine homolog 1; prolyl hydroxylase, hypoxia inducible factor, HIF, 2- oxoglutarate, oxygenase, oxidoreductase; HET: UN9; 1.60A {Homo sapiens} PDB: 2hbu_A* 2g1m_A* 3hqu_A* 3hqr_A* 2g19_A* Probab=48.98 E-value=10 Score=15.57 Aligned_cols=33 Identities=12% Similarity=0.347 Sum_probs=26.4 Q ss_pred CCCCHHHHHHHH---HHHC-------CCCCHHHHHHHHHHHHH Q ss_conf 037603454787---8764-------89998999999999986 Q gi|254780512|r 156 DAIPGKQMAIDA---DLSS-------GLIEEEEAKRRRKELEE 188 (692) Q Consensus 156 DamPGKQMaIDa---Dl~a-------G~I~~~eA~~rR~~l~~ 188 (692) .-||-.||++|. +|++ +.++++++++-|++++. T Consensus 7 ~~~~~~~~~~~~~~~~L~~~Gy~VIDnFL~~e~~~~l~~e~~~ 49 (247) T 2hbt_A 7 HHLPALKLALEYIVPCMNKHGICVVDDFLGKETGQQIGDEVRA 49 (247) T ss_dssp --CCHHHHHHHTHHHHHHHTSEEEESSSSCHHHHHHHHHHHHH T ss_pred CCCCCCCCCHHHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHH T ss_conf 5688010369999999974899999998999999999999998 No 6 >2pl1_A Transcriptional regulatory protein PHOP; CHEY-like fold, response regulator, beryllium fluoride, transcription factor, activated, virulence; 1.90A {Escherichia coli} SCOP: c.23.1.1 PDB: 2pkx_A Probab=48.62 E-value=3.5 Score=19.03 Aligned_cols=14 Identities=14% Similarity=0.223 Sum_probs=6.2 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 99999999999999 Q gi|254780512|r 627 VEMFSENATNSIRQ 640 (692) Q Consensus 627 ~~~l~~~i~~~~~~ 640 (692) .+.+...++..+++ T Consensus 105 ~~~L~~~i~~~lrR 118 (121) T 2pl1_A 105 IEEVMARMQALMRR 118 (121) T ss_dssp HHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHH T ss_conf 99999999999757 No 7 >3ol3_A Putative uncharacterized protein; tuberculosis, RV0543C, ortholog, iodide ION S phasing, structural genomics; HET: PG4 PGE; 1.95A {Mycobacterium smegmatis} PDB: 3ol4_A Probab=41.48 E-value=13 Score=14.76 Aligned_cols=74 Identities=14% Similarity=0.217 Sum_probs=48.4 Q ss_pred HHHHHHHHHHHHHHHH---------HHHHHHHCCCCHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHHHCCCCCHHHH Q ss_conf 9999999997666489---------99986311599899999999999749---86546999999998753357998999 Q gi|254780512|r 503 KDVKNLISRLDPEYQK---------LAEETCSSHISYSGIQAVLKLLLAEH---VSIRNLPLILESIAEVAPHSRKTSHI 570 (692) Q Consensus 503 qEvq~LLd~L~~~~P~---------LV~Elvp~~v~l~~i~~VLq~LL~E~---VsIRdlr~IlEaLad~a~~~kD~~~L 570 (692) .-.++.+++|+.-||+ |+ -++.+.++-.++.+|-+.|++++ -+| +---|=+.|.+...+...++. T Consensus 11 ~~l~siv~WLRAGYP~GVP~~D~vPLL-ALLrR~LtedeV~~Va~~l~~~~~~~~~i-~~~dI~~~I~~vt~~~P~~eD- 87 (107) T 3ol3_A 11 TFMDNVLGWLHKGYPEGVPPKDYFALL-ALLKRSLTEDEVVRAAQAILRSTDGQSPV-TDDDIRNAVHQIIEKEPTAEE- 87 (107) T ss_dssp HHHHHHHHHHHHHCTTCBCGGGHHHHH-HHHTCCCCHHHHHHHHHHHHHHCCSSSCB-CHHHHHHHHHHHHSSCCCHHH- T ss_pred HHHHHHHHHHHCCCCCCCCCCCCHHHH-HHHHCCCCHHHHHHHHHHHHHCCCCCCCC-CHHHHHHHHHHHHCCCCCHHH- T ss_conf 999999999986899999988608999-99833499999999999997523788987-899999999998746989899- Q ss_pred HHHHHHHHH Q ss_conf 999999989 Q gi|254780512|r 571 VEQVRIRMA 579 (692) Q Consensus 571 tE~VR~aL~ 579 (692) .+.||.+|+ T Consensus 88 I~RV~arLa 96 (107) T 3ol3_A 88 INQVAARLA 96 (107) T ss_dssp HHHHHHHHH T ss_pred HHHHHHHHH T ss_conf 999999998 No 8 >2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima} Probab=39.78 E-value=3.7 Score=18.92 Aligned_cols=44 Identities=11% Similarity=0.153 Sum_probs=19.0 Q ss_pred EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 70588999999999999879998729999999999766648999 Q gi|254780512|r 477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLA 520 (692) Q Consensus 477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV 520 (692) +||....+...+.+.+++.-.+...-..-+.-++.+++..|.+| T Consensus 9 iVDD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~~~~dlv 52 (142) T 2qxy_A 9 VVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLRREKIDLV 52 (142) T ss_dssp EECSCHHHHHHHHHHHGGGTCEEEEESSHHHHHHHHTTSCCSEE T ss_pred EEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEE T ss_conf 99898999999999999879999998999999999985799999 No 9 >2kvc_A Putative uncharacterized protein; structural genomics, seattle structural genomics center for infectious disease, ssgcid; NMR {Mycobacterium tuberculosis} Probab=38.47 E-value=15 Score=14.43 Aligned_cols=72 Identities=19% Similarity=0.203 Sum_probs=43.3 Q ss_pred HHHHHHHHHHHHHHH---------HHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHH Q ss_conf 999999997666489---------99986311599899999999999749865469999999987533579989999999 Q gi|254780512|r 504 DVKNLISRLDPEYQK---------LAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQV 574 (692) Q Consensus 504 Evq~LLd~L~~~~P~---------LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~V 574 (692) -+++.+++|+.-||+ |+ -++.+.++=.++.+|-+.|.+++- | |-.-|=+.|.+...++..++. .+.| T Consensus 7 ~l~siv~WLRAGYP~GVP~~D~~PLl-ALL~rrLtdeev~~Va~~L~~~~~-i-~~~dI~~~I~~vt~~~P~~eD-I~RV 82 (103) T 2kvc_A 7 FLTSIVAWLRAGYPEGIPPTDSFAVL-ALLCRRLSHDEVKAVANELMRLGD-F-DQIDIGVVITHFTDELPSPED-VERV 82 (103) T ss_dssp HHHHHHHHHHHHCTTCCCHHHHHHHH-HHHTTTSCHHHHHHHHHHHHHHTS-S-CSSCHHHHHHSCCSSCSCHHH-HHHH T ss_pred HHHHHHHHHHCCCCCCCCCCCCHHHH-HHHCCCCCHHHHHHHHHHHHHCCC-C-CHHHHHHHHHHHHCCCCCHHH-HHHH T ss_conf 99999999986899998987708999-996588999999999999985289-8-799999999998636989899-9999 Q ss_pred HHHHH Q ss_conf 99989 Q gi|254780512|r 575 RIRMA 579 (692) Q Consensus 575 R~aL~ 579 (692) |.+|+ T Consensus 83 ~arLa 87 (103) T 2kvc_A 83 RARLA 87 (103) T ss_dssp HHHHG T ss_pred HHHHH T ss_conf 99998 No 10 >2yvy_A MGTE, Mg2+ transporter MGTE; membrane protein, transport protein; 2.30A {Thermus thermophilus HB8} PDB: 2yvz_A Probab=38.11 E-value=15 Score=14.40 Aligned_cols=29 Identities=17% Similarity=0.292 Sum_probs=21.6 Q ss_pred CEEEEECHHHHHHHHHHHHHHCCCCCEEE Q ss_conf 87998283354899999886448981894 Q gi|254780512|r 647 PLTIVTLPEIRSYIRMILERNFPSLAVLS 675 (692) Q Consensus 647 ~pVLl~s~~iRr~lr~lle~~~p~l~VLS 675 (692) .+.+-...++.-..+.|.+..+..+||+- T Consensus 209 ~~~v~~~~~~~eaa~~~~~~~l~~lPVVD 237 (278) T 2yvy_A 209 VVYVRTDTDQEEVARLMADYDFTVLPVVD 237 (278) T ss_dssp CCCEETTSBHHHHHHHHHHHTCSEEEEEC T ss_pred CCEECCCCCHHHHHHHHHHCCCCEEEEEC T ss_conf 73478999799999999974998898983 No 11 >3crn_A Response regulator receiver domain protein, CHEY- like; structural genomics, signal regulator receiver domain; HET: PHD; 1.58A {Methanospirillum hungatei jf-1} Probab=36.81 E-value=4.9 Score=17.96 Aligned_cols=49 Identities=6% Similarity=0.158 Sum_probs=21.9 Q ss_pred EEEEEEC--HHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 8999888--78999999983037778846456698899999999999999999569 Q gi|254780512|r 592 LNILKLG--NHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKG 645 (692) Q Consensus 592 L~vi~L~--p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g 645 (692) +|++.++ .+.+... .+++... -.|. .-|-..+.+.+.+++.+++...+| T Consensus 76 ~piI~lT~~~~~~~~~-~a~~~Ga-~~yl---~KP~~~~~L~~~i~~~L~~~~~eG 126 (132) T 3crn_A 76 MKKIMVTGYASLENSV-FSLNAGA-DAYI---MKPVNPRDLLEKIKEKLDEQEKEG 126 (132) T ss_dssp SEEEEEESCCCHHHHH-HHHHTTC-SEEE---ESSCCHHHHHHHHHHHHHHHHHHH T ss_pred CCEEEEECCCCHHHHH-HHHHCCC-CEEE---ECCCCHHHHHHHHHHHHHHHHCCC T ss_conf 9899997659999999-9998799-8999---897999999999999999996179 No 12 >1qle_D Cytochrome AA3, ccytochrome C oxidase; oxidoreductase/immune system, complex (oxidoreductase/antibody), electron transport; HET: HEA PC1; 3.0A {Paracoccus denitrificans} SCOP: f.23.8.1 Probab=36.21 E-value=14 Score=14.59 Aligned_cols=19 Identities=26% Similarity=0.079 Sum_probs=14.1 Q ss_pred CCHHHHHCCHHHHHHHHHH Q ss_conf 2013453010589999999 Q gi|254780512|r 197 DGASKFVRGDAIASIIITA 215 (692) Q Consensus 197 DGA~KFVkGDAiAgiiI~~ 215 (692) ||=+|||+--+|+-+.+++ T Consensus 18 ~gFik~~t~~~i~~i~~li 36 (43) T 1qle_D 18 AGFIKGATWVSILSIAVLV 36 (43) T ss_dssp HHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHH T ss_conf 8999999999999999999 No 13 >1h16_A Formate acetyltransferase 1; lyase, glycyl radical enzyme, acyltransferase, acetylation; HET: COA PG4; 1.53A {Escherichia coli} SCOP: c.7.1.1 PDB: 1h17_A* 1h18_A* 1mzo_A* 2pfl_A 3pfl_A 1cm5_A 1qhm_A Probab=34.64 E-value=17 Score=14.01 Aligned_cols=11 Identities=9% Similarity=0.277 Sum_probs=6.8 Q ss_pred HHHHHHHHHCC Q ss_conf 99999886448 Q gi|254780512|r 659 YIRMILERNFP 669 (692) Q Consensus 659 ~lr~lle~~~p 669 (692) -+..+++.+|- T Consensus 684 ~L~~llk~yf~ 694 (759) T 1h16_A 684 NLAGLMDGYFH 694 (759) T ss_dssp HHHHHHHHHHC T ss_pred HHHHHHHHHHC T ss_conf 99999999971 No 14 >1xhf_A DYE resistance, aerobic respiration control protein ARCA; two-component system, gene regulation, transcription factor, anoxic redox control; 2.15A {Escherichia coli} SCOP: c.23.1.1 PDB: 1xhe_A Probab=34.03 E-value=6.6 Score=17.01 Aligned_cols=44 Identities=11% Similarity=0.082 Sum_probs=17.8 Q ss_pred EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 70588999999999999879998729999999999766648999 Q gi|254780512|r 477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLA 520 (692) Q Consensus 477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV 520 (692) +||....+...+.+.++.+-++...-...+.-++.+++..|.++ T Consensus 8 iVdDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~dli 51 (123) T 1xhf_A 8 IVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEYDINLV 51 (123) T ss_dssp EECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHSCCSEE T ss_pred EEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEE T ss_conf 99699999999999999879999998999999999970899999 No 15 >2ebk_A RWD domain-containing protein 3; alpha+beta sandwich fold, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=33.04 E-value=18 Score=13.83 Aligned_cols=52 Identities=13% Similarity=0.219 Sum_probs=40.0 Q ss_pred CCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 7668830343978845888289907058899999999999987999872999999999976664899998 Q gi|254780512|r 453 PAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEE 522 (692) Q Consensus 453 P~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~E 522 (692) |.|.+.+.|+++.+... +.+.+...+.+++|-.-+=.|++++++.-.+++++ T Consensus 73 P~i~l~~~~L~~~~~~~------------------L~~~l~~~~~~~~G~~mif~lv~~lqe~l~~~i~~ 124 (128) T 2ebk_A 73 PGISINSEQLTRAQCVT------------------VKEKLLEQAESLLSEPMVHELVLWIQQNLRHILSQ 124 (128) T ss_dssp CCCCCCCSSSCHHHHHH------------------HHHHHHHHHHHTTTSCHHHHHHHHHTTSHHHHHCC T ss_pred CEEEEECCCCCHHHHHH------------------HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCC T ss_conf 68999768799999999------------------99999999997289219999999999999998638 No 16 >3c8y_A Iron hydrogenase 1; dithiomethylether, H-cluster, 4Fe-4S, iron-sulfur, metal-binding, oxidoreductase; HET: HCN; 1.39A {Clostridium pasteurianum} SCOP: c.96.1.1 d.15.4.2 d.58.1.5 PDB: 1c4c_A* 1c4a_A* 1feh_A* Probab=32.37 E-value=18 Score=13.75 Aligned_cols=87 Identities=17% Similarity=0.220 Sum_probs=51.1 Q ss_pred CCCCCCE-EECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHH Q ss_conf 7668830-34397884588828990705889999999999998799987299999-----------99999766648999 Q gi|254780512|r 453 PAFGMPA-FAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVK-----------NLISRLDPEYQKLA 520 (692) Q Consensus 453 P~fgl~A-~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq-----------~LLd~L~~~~P~LV 520 (692) +.||++. ..........+...|+..|-..+.- ..+ ++...+.||+-|-+-+ .++.-.++.||+|+ T Consensus 239 ~~fg~~~~~~~~~kl~~aLk~lGf~~V~dt~~g-adl--~i~e~~~E~~~r~~~~~~~P~itS~CPg~V~~iEk~~Peli 315 (574) T 3c8y_A 239 ELFNMGFGVDVTGKIYTALRQLGFDKIFDINFG-ADM--TIMEEATELVQRIENNGPFPMFTSCCPGWVRQAENYYPELL 315 (574) T ss_dssp GGGTCCSSCCCHHHHHHHHHHHTCSEEEEHHHH-HHH--HHHHHHHHHHHHHHHTCSCCEECCCCHHHHHHHHHHCGGGG T ss_pred HHHCCCCCHHHHHHHHHHHHHCCCCEEEECHHH-HHH--HHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCHHHC T ss_conf 651998315579999999998199799972478-899--99999999999986379987042479999999998680103 Q ss_pred HHHHHCCCCHHHHH-HHHHHHHHC Q ss_conf 98631159989999-999999974 Q gi|254780512|r 521 EETCSSHISYSGIQ-AVLKLLLAE 543 (692) Q Consensus 521 ~Elvp~~v~l~~i~-~VLq~LL~E 543 (692) .-+. ...|++.++ ..+++.+.+ T Consensus 316 p~Ls-~vkSP~~~~g~liK~~~~~ 338 (574) T 3c8y_A 316 NNLS-SAKSPQQIFGTASKTYYPS 338 (574) T ss_dssp GGBC-CBCCHHHHHHHHHTTHHHH T ss_pred CCCC-CCCCHHHHHHHHHHHHHHH T ss_conf 7667-6401799999999997687 No 17 >2zy9_A Mg2+ transporter MGTE; membrane protien, metal transport; 2.94A {Thermus thermophilus HB8} PDB: 2yvx_A Probab=31.10 E-value=14 Score=14.54 Aligned_cols=24 Identities=8% Similarity=0.281 Sum_probs=13.5 Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHH Q ss_conf 899999999999749865469999 Q gi|254780512|r 530 YSGIQAVLKLLLAEHVSIRNLPLI 553 (692) Q Consensus 530 l~~i~~VLq~LL~E~VsIRdlr~I 553 (692) -|..+-+.|.|--.++..+|...+ T Consensus 355 tQs~tv~iR~la~g~i~~~~~~~~ 378 (473) T 2zy9_A 355 NQSATLIIRALATRDLDLRDWRRV 378 (473) T ss_dssp HHHHHHHHHHHHTTSSCGGGHHHH T ss_pred HHHHHHHHHHHHHCCCCHHHHHHH T ss_conf 999999999999715882139999 No 18 >1r71_A Transcriptional repressor protein KORB; INCP, plasmid partitioning, protein-DNA complex, heilx-turn- helix motif, transcription factor; HET: BRU; 2.20A {Escherichia coli} SCOP: a.4.14.1 Probab=30.21 E-value=19 Score=13.50 Aligned_cols=52 Identities=15% Similarity=0.069 Sum_probs=28.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCH Q ss_conf 9998729999999999766648999986311599899999999999749865 Q gi|254780512|r 496 LSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSI 547 (692) Q Consensus 496 a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsI 547 (692) |+.+.|...+..+++......-.|++.+--+-++.-....-+++|+.++.+- T Consensus 4 A~~~ag~~~ipa~v~~~~~~~~~l~EN~qR~~l~~~e~A~~~~~l~~~g~t~ 55 (178) T 1r71_A 4 GSKWAGKKSIPAFIDNDYNEADQVIENLQRNELTPREIADFIGRELAKGKKK 55 (178) T ss_dssp -------------------CCHHHHHHHHTTCCCHHHHHHHHHHHHHTTCCH T ss_pred HHHHCCCCCCCEEECCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCH T ss_conf 8988499844458637755699999986506899999999999999817889 No 19 >1wi9_A Protein C20ORF116 homolog; helix-turn-helix motif, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.4.5.47 Probab=27.72 E-value=21 Score=13.20 Aligned_cols=52 Identities=23% Similarity=0.412 Sum_probs=42.7 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHC Q ss_conf 999988645751466655454420376034547878764899989999999999865222201220134530 Q gi|254780512|r 133 TINFIVITKGATRIAEVGARFTLDAIPGKQMAIDADLSSGLIEEEEAKRRRKELEEESAFFGAMDGASKFVR 204 (692) Q Consensus 133 ivqfiVItkGa~RvaEV~ARFtLDamPGKQMaIDaDl~aG~I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVk 204 (692) -||||. .|---.+-|.||.|-| ..+++..|=++|+.+--..|-||---||+- T Consensus 12 FI~~Ik-~~Kvv~LedLA~~F~l-------------------ktqd~i~RIq~Le~~g~ltGViDDRGKfIy 63 (72) T 1wi9_A 12 FINYIK-KSKVVLLEDLAFQMGL-------------------RTQDAINRIQDLLTEGTLTGVIDDRGKFIY 63 (72) T ss_dssp HHHHHH-HCSEECHHHHHHHHCS-------------------CHHHHHHHHHHHHHHSSSCEEECTTCCEEE T ss_pred HHHHHH-HCCEEEHHHHHHHCCC-------------------CHHHHHHHHHHHHHCCCEEEEECCCCCEEE T ss_conf 999999-8787639999988199-------------------759999999999987986557858988799 No 20 >2rhf_A DNA helicase RECQ; HRDC, D. radiodurans, ATP-binding, hydrolase, nucleotide-binding; HET: DNA; 1.10A {Deinococcus radiodurans R1} Probab=27.65 E-value=21 Score=13.19 Aligned_cols=27 Identities=22% Similarity=0.414 Sum_probs=20.3 Q ss_pred CCCCHHHHHHHHHHHHHHHHCCCCCCEEE Q ss_conf 75526889999999999980987883244 Q gi|254780512|r 375 SQEDLFLRVSKIRRKFAVQYGFIVPEIKV 403 (692) Q Consensus 375 ~~~~L~~rI~~iRk~la~elG~~iP~IrI 403 (692) ...+|.++.+..|+++|.+.|+ |+..| T Consensus 3 ~d~~L~~~L~~~R~~~A~~~~v--p~~~I 29 (77) T 2rhf_A 3 HNADLSEALRELRRELMKETGY--SAFVV 29 (77) T ss_dssp CHHHHHHHHHHHHHHHHHHHCC--CHHHH T ss_pred CCHHHHHHHHHHHHHHHHHCCC--CCEEE T ss_conf 4799999999999999987698--96565 No 21 >1dvo_A FINO, fertility inhibition protein O; repressor, bacterial conjugation, X-RAY crystallography, transcription; 2.00A {Escherichia coli} SCOP: a.136.1.1 Probab=25.53 E-value=22 Score=13.11 Aligned_cols=44 Identities=9% Similarity=0.181 Sum_probs=26.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCC Q ss_conf 99999999976664899998631159989999999999974986 Q gi|254780512|r 503 KDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVS 546 (692) Q Consensus 503 qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~Vs 546 (692) +.++..+..|.+.||.+...--|+.+-+|..+++++.+-.++.+ T Consensus 39 ~~~~~ai~~L~~~~P~~F~~~~~kPLkiGI~edl~~~l~~~~~~ 82 (152) T 1dvo_A 39 PTLDEAVNTLKPWWPGLFDGDTPRLLACGIRDVLLEDVAQRNIP 82 (152) T ss_dssp CCHHHHHHHHTTTCGGGEETTEECCBCTTHHHHHHHHHHHTTCS T ss_pred CCHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCC T ss_conf 98999999999877875499999785054999999998851478 No 22 >3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633} Probab=25.37 E-value=4 Score=18.68 Aligned_cols=10 Identities=0% Similarity=0.052 Sum_probs=3.4 Q ss_pred HHHHHHHHHH Q ss_conf 9999999999 Q gi|254780512|r 629 MFSENATNSI 638 (692) Q Consensus 629 ~l~~~i~~~~ 638 (692) .+...++..+ T Consensus 111 ~L~~~i~~~l 120 (137) T 3cfy_A 111 RLKTSVALHL 120 (137) T ss_dssp HHHHHHHHHH T ss_pred HHHHHHHHHH T ss_conf 9999999999 No 23 >2job_A Antilipopolysaccharide factor; ALF, lipid A binding protein, endotoxin, lipid binding protein; NMR {Penaeus monodon} Probab=24.71 E-value=24 Score=12.82 Aligned_cols=30 Identities=17% Similarity=0.248 Sum_probs=14.3 Q ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH Q ss_conf 899999999999987-999872999999999 Q gi|254780512|r 481 LAVVLTHLSEVIRNN-LSQLLSYKDVKNLIS 510 (692) Q Consensus 481 ~~ViatHl~evir~~-a~ellg~qEvq~LLd 510 (692) ..++-.-....+++- .+.|++.+|.+.+|+ T Consensus 71 sgvv~~a~rDFV~KA~~~gLiTeedA~~wL~ 101 (102) T 2job_A 71 SGVAGKTAKDFVRKAFQKGLISQQEANQWLS 101 (102) T ss_dssp HHHHHHHHHHHHHHHHHHTCSCHHHHHHHHH T ss_pred CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH T ss_conf 0025468999999999848865999998864 No 24 >3bej_E Nuclear receptor coactivator 1; FXR, BAR, NR1H4, bIle acid receptor, NHR, alternative splicing, DNA-binding, metal-binding nucleus, repressor; HET: MUF; 1.90A {Homo sapiens} PDB: 1fm9_B* 1k74_B* 1fm6_B* 1p8d_C* 1rdt_B* 1nrl_C* 3ipq_B* 3ips_C* 3ipu_C* 3kmg_B* 2hfp_B* 1k7l_B* Probab=24.53 E-value=24 Score=12.80 Aligned_cols=19 Identities=26% Similarity=0.254 Sum_probs=15.3 Q ss_pred CCHHHHHHHHHHHHHCCCC Q ss_conf 9989999999999974986 Q gi|254780512|r 528 ISYSGIQAVLKLLLAEHVS 546 (692) Q Consensus 528 v~l~~i~~VLq~LL~E~Vs 546 (692) -++..-+++|.|||+|+-| T Consensus 6 ~sl~erhkilhrllqe~~p 24 (26) T 3bej_E 6 SSLTERHKILHRLLQEGSP 24 (26) T ss_pred CHHHHHHHHHHHHHHCCCC T ss_conf 0288999999999982699 No 25 >2hqv_A AGR_C_4470P; NESG, ATR92, Q7CX01_AGRT5, structural genomics, PSI-2, protein structure initiative; 2.00A {Agrobacterium tumefaciens str} SCOP: e.62.1.2 Probab=24.52 E-value=15 Score=14.31 Aligned_cols=17 Identities=6% Similarity=-0.185 Sum_probs=7.4 Q ss_pred EEEEEEECCCCEEEECC Q ss_conf 45348841783413305 Q gi|254780512|r 422 TVAISELRVGEVLVILG 438 (692) Q Consensus 422 ~va~gei~~~~lLai~~ 438 (692) ++-.+....+.+-.+++ T Consensus 101 ~~~~~~~~~g~~Nl~~~ 117 (195) T 2hqv_A 101 HLPEGTESHGWFNIHGD 117 (195) T ss_dssp CCCCEEEETTEEEECSS T ss_pred CCCCCEECCCEEEEECC T ss_conf 67895015744676258 No 26 >1zgz_A Torcad operon transcriptional regulatory protein TORR; two-component system, gene regulation, transcription factor, TMAO respiratory system; 1.80A {Escherichia coli} SCOP: c.23.1.1 Probab=24.11 E-value=14 Score=14.47 Aligned_cols=15 Identities=7% Similarity=0.096 Sum_probs=7.4 Q ss_pred HHHHHHHHHHHHHHH Q ss_conf 999999999999999 Q gi|254780512|r 626 AVEMFSENATNSIRQ 640 (692) Q Consensus 626 ~~~~l~~~i~~~~~~ 640 (692) ..+.+...+++.+++ T Consensus 105 ~~~~L~~~i~~~l~R 119 (122) T 1zgz_A 105 ELRELVVRVKNLLWR 119 (122) T ss_dssp CHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHHH T ss_conf 999999999999987 No 27 >1jhn_A Calnexin; jelly-roll, beta sandwich, chaperone; 2.90A {Canis lupus familiaris} SCOP: b.29.1.12 b.104.1.1 Probab=20.98 E-value=28 Score=12.31 Aligned_cols=23 Identities=22% Similarity=0.278 Sum_probs=19.5 Q ss_pred CCCEEEEEECCEEEEEEEECCCC Q ss_conf 98716999748245348841783 Q gi|254780512|r 410 PEKGYTIRVYGTTVAISELRVGE 432 (692) Q Consensus 410 ~~~~Y~I~I~Gv~va~gei~~~~ 432 (692) +.++|.|+|+|..+.+|.+.-+. T Consensus 201 pdntyeI~IDg~~v~~GsL~~df 223 (424) T 1jhn_A 201 PDNSFEILVDQSIVNSGNLLNDM 223 (424) T ss_dssp TTTEEEEEETTEEEEEEC----- T ss_pred CCCEEEEEECCCEEECCCCHHCC T ss_conf 99839999788063145440014 No 28 >1zh2_A KDP operon transcriptional regulatory protein KDPE; two-component system, gene regulation, transcription factor, KDP potassium transport system; 2.00A {Escherichia coli} SCOP: c.23.1.1 PDB: 1zh4_A Probab=20.83 E-value=11 Score=15.43 Aligned_cols=14 Identities=7% Similarity=0.223 Sum_probs=5.6 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 99999999999999 Q gi|254780512|r 627 VEMFSENATNSIRQ 640 (692) Q Consensus 627 ~~~l~~~i~~~~~~ 640 (692) .+.+...++..+++ T Consensus 105 ~~~L~~~i~~~lrr 118 (121) T 1zh2_A 105 IGELQARLRVALRR 118 (121) T ss_dssp HHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHH T ss_conf 99999999999887 No 29 >2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92, PSI-2; 2.10A {Neptuniibacter caesariensis} Probab=20.78 E-value=25 Score=12.65 Aligned_cols=44 Identities=14% Similarity=0.261 Sum_probs=17.9 Q ss_pred EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 70588999999999999879998729999999999766648999 Q gi|254780512|r 477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLA 520 (692) Q Consensus 477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV 520 (692) +||....+...+.+.+++.-.+...-...+.-++.+++..|.+| T Consensus 12 iVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~Al~~l~~~~~dli 55 (154) T 2rjn_A 12 LVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTSVQLV 55 (154) T ss_dssp EECSCHHHHHHHHHHHHTTTCEEEEESCHHHHHHHHTTSCCSEE T ss_pred EEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEE T ss_conf 99799999999999999879989998999999999862899889 No 30 >2bw2_A Bypass of forespore C; sporulation, signaling protein, BOFC, sigmak checkpoint; NMR {Bacillus subtilis} Probab=20.59 E-value=28 Score=12.31 Aligned_cols=23 Identities=9% Similarity=0.078 Sum_probs=9.6 Q ss_pred CCCEEECCHHHHHHHHHCCCEEEC Q ss_conf 883034397884588828990705 Q gi|254780512|r 456 GMPAFAIMESFSDDLRRQGFHPID 479 (692) Q Consensus 456 gl~A~WI~~~~~~~a~~~G~tvvd 479 (692) ..+.--.++..+++++. |+.+-+ T Consensus 102 ~I~v~~Lp~~~qe~L~~-GI~~~s 124 (140) T 2bw2_A 102 QIDLERLESHMQKNLLK-GIPFRT 124 (140) T ss_dssp CCCTTTSCHHHHHHHHH-CCSCCC T ss_pred CCCHHHCCHHHHHHHHC-CCCCCC T ss_conf 51669889879999988-986299 Done!