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 33803 Date Wed Jun 1 18:40:31 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780512.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1r71_A Transcriptional repres 72.4 5.9 0.00017 18.5 5.1 61 493-553 1-61 (76) 2 >3c8y_A Iron hydrogenase 1; di 47.4 7.3 0.00022 17.8 1.0 41 507-547 34-74 (174) 3 >2fsj_A Hypothetical protein T 46.5 16 0.00047 15.3 2.7 28 381-408 2-29 (68) 4 >1wdp_A Beta-amylase; (beta/al 42.8 12 0.00035 16.2 1.6 12 35-46 13-24 (27) 5 >1zh2_A KDP operon transcripti 40.3 4.9 0.00014 19.1 -0.8 104 476-581 5-119 (121) 6 >2odm_A YLAN, UPF0358 protein 37.8 21 0.00063 14.4 3.7 39 158-196 49-88 (91) 7 >2zbk_B Type 2 DNA topoisomera 37.0 15 0.00044 15.5 1.3 32 161-192 47-78 (82) 8 >3b60_A Lipid A export ATP-bin 35.5 23 0.00068 14.1 3.9 34 228-261 160-193 (215) 9 >1ub2_A Catalase-peroxidase; K 34.8 15 0.00043 15.5 1.0 22 184-205 50-71 (88) 10 >2pl1_A Transcriptional regula 34.3 12 0.00035 16.3 0.4 14 592-605 75-88 (121) 11 >1qle_D Cytochrome AA3, ccytoc 32.1 25 0.00075 13.8 1.8 19 197-215 18-36 (43) 12 >2qxy_A Response regulator; re 31.9 13 0.00037 16.1 0.2 105 476-583 8-124 (142) 13 >1b1y_A Protein (beta-amylase) 30.7 24 0.00072 13.9 1.6 11 35-45 13-23 (49) 14 >1hfe_L Protein (Fe-only hydro 30.4 27 0.00081 13.5 2.4 36 508-543 38-73 (214) 15 >1xhf_A DYE resistance, aerobi 30.2 12 0.00035 16.3 -0.1 104 476-581 7-121 (123) 16 >2vgq_A Maltose-binding peripl 29.2 21 0.00063 14.4 1.0 15 599-613 102-116 (129) 17 >2ebm_A RWD domain-containing 29.2 29 0.00084 13.4 5.7 90 410-523 9-98 (101) 18 >3bgh_A Protein HPAA, putative 29.1 13 0.0004 15.8 0.0 20 388-409 69-88 (236) 19 >2job_A Antilipopolysaccharide 28.5 29 0.00085 13.4 1.6 30 481-510 71-101 (102) 20 >1uuf_A YAHK, zinc-type alcoho 27.7 24 0.00072 13.9 1.1 45 500-548 172-216 (226) 21 >1lkv_X Flagellar motor switch 27.6 30 0.0009 13.2 2.0 47 495-542 3-49 (65) 22 >2oar_A Large-conductance mech 26.9 30 0.0009 13.2 1.5 50 193-264 22-72 (126) 23 >1dbw_A Transcriptional regula 26.6 7.2 0.00021 17.8 -1.7 66 477-544 8-73 (126) 24 >2wvr_C DNA replication factor 25.5 17 0.0005 15.1 0.0 38 485-522 475-512 (546) 25 >3bk2_A RNAse J, metal depende 25.1 33 0.00099 12.9 6.8 40 556-595 54-94 (97) 26 >3bej_E Nuclear receptor coact 24.5 34 0.001 12.8 2.4 19 528-546 6-24 (26) 27 >2hyd_A ABC transporter homolo 24.3 33 0.00098 12.9 1.3 49 211-261 150-198 (221) 28 >1m56_D Cytochrome C oxidase; 24.3 35 0.001 12.8 1.8 19 197-215 26-44 (51) 29 >1qsa_A Protein (soluble lytic 23.8 35 0.001 12.7 1.6 22 175-196 20-41 (57) 30 >2qzj_A Two-component response 23.8 7.4 0.00022 17.8 -2.1 103 477-581 9-122 (136) 31 >2d6f_C Glutamyl-tRNA(Gln) ami 23.6 19 0.00057 14.6 0.0 27 485-511 68-94 (174) 32 >1nig_A Hypothetical protein T 22.7 37 0.0011 12.6 3.0 97 536-633 16-121 (135) 33 >3euh_C MUKE, chromosome parti 22.4 37 0.0011 12.6 1.2 14 568-581 65-78 (105) 34 >2a9o_A Response regulator; es 20.8 9.7 0.00029 16.9 -2.0 103 476-580 5-118 (120) 35 >3hv2_A Response regulator/HD 20.4 13 0.00039 15.9 -1.4 108 475-584 17-137 (153) 36 >1kgs_A DRRD, DNA binding resp 20.3 15 0.00045 15.4 -1.1 18 623-640 103-120 (124) No 1 >>1r71_A Transcriptional repressor protein KORB; INCP, plasmid partitioning, protein-DNA complex, heilx-turn- helix motif, transcription factor; HET: BRU; 2.20A {Escherichia coli} (A:1-76) Probab=72.42 E-value=5.9 Score=18.51 Aligned_cols=61 Identities=15% Similarity=0.076 Sum_probs=53.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHH Q ss_conf 9879998729999999999766648999986311599899999999999749865469999 Q gi|254780512|r 493 RNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLI 553 (692) Q Consensus 493 r~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~I 553 (692) |-+|...+|..++...+..+..+.-.+++.+-.+-++.-.....+++|+++|.+..++-.. T Consensus 1 R~rA~~~ag~~~ip~iV~~~~d~~~~l~EN~~R~~ls~~e~a~~~~~l~~~g~s~~~iA~~ 61 (76) T 1r71_A 1 RYRGSKWAGKKSIPAFIDNDYNEADQVIENLQRNELTPREIADFIGRELAKGKKKGDIAKE 61 (76) T ss_dssp ----------------------CCHHHHHHHHTTCCCHHHHHHHHHHHHHTTCCHHHHHHH T ss_pred CHHHHHHCCCCCCCEEECCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCHHHHHHH T ss_conf 9288987599843368616644699999986506899999999999999838989999999 No 2 >>3c8y_A Iron hydrogenase 1; dithiomethylether, H-cluster, 4Fe-4S, iron-sulfur, metal-binding, oxidoreductase; HET: HCN; 1.39A {Clostridium pasteurianum} (A:269-343,A:407-505) Probab=47.38 E-value=7.3 Score=17.82 Aligned_cols=41 Identities=10% Similarity=0.097 Sum_probs=29.9 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCH Q ss_conf 99999766648999986311599899999999999749865 Q gi|254780512|r 507 NLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSI 547 (692) Q Consensus 507 ~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsI 547 (692) .++.-.++.||+|++-+.|-+=|.+-..+.+|+...+..-+ T Consensus 34 ~wV~~vek~~P~Li~~ls~~~SPm~~~g~~iK~~~~~~~~v 74 (174) T 3c8y_A 34 GWVRQAENYYPELLNNLSSAKSPQQIFGTASKTYYPSISGL 74 (174) T ss_dssp HHHHHHHHHCGGGGGGBCCBCCHHHHHHHHHTTHHHHTTCC T ss_pred HHHHHHHHHCHHHHCCCCCCCCHHHHHHHHHHHHHHHHCCC T ss_conf 99999998673530556678888999999999976775099 No 3 >>2fsj_A Hypothetical protein TA0583; actin homologs, archaea, ATPase, MREB, PARM, structural protein; 1.90A {Thermoplasma acidophilum dsm 1728} (A:227-294) Probab=46.51 E-value=16 Score=15.30 Aligned_cols=28 Identities=32% Similarity=0.417 Sum_probs=21.1 Q ss_pred HHHHHHHHHHHHHHCCCCCCEEEEECCC Q ss_conf 8999999999998098788324454377 Q gi|254780512|r 381 LRVSKIRRKFAVQYGFIVPEIKVTTDIS 408 (692) Q Consensus 381 ~rI~~iRk~la~elG~~iP~IrIrDn~~ 408 (692) +.|.++-|.++.+-||++|.=--||.++ T Consensus 2 d~is~~s~~i~k~tgfvvp~d~a~~a~~ 29 (68) T 2fsj_A 2 DAISALSRKIAKETGFVVPFDLAQEALS 29 (68) T ss_dssp HHHHHHHHHHHHHHCCCCCHHHHHHHTT T ss_pred HHHHHHHHHHHHHHHHHCCHHHHHHHHH T ss_conf 9999999999998775365989999975 No 4 >>1wdp_A Beta-amylase; (beta/alpha)8 barrel, hydrolase; 1.27A {Glycine max} (A:93-119) Probab=42.81 E-value=12 Score=16.22 Aligned_cols=12 Identities=50% Similarity=1.021 Sum_probs=9.8 Q ss_pred CCCCHHHHHHHH Q ss_conf 038478999999 Q gi|254780512|r 35 LPIPTVLLDVGL 46 (692) Q Consensus 35 iPlP~~llD~~~ 46 (692) ||||.|++|..- T Consensus 13 IPlP~WV~~~g~ 24 (27) T 1wdp_A 13 IPIPQWVLDIGE 24 (27) T ss_dssp BCSCHHHHHHHH T ss_pred CCCCHHHHHHHC T ss_conf 578688997530 No 5 >>1zh2_A KDP operon transcriptional regulatory protein KDPE; two-component system, gene regulation, transcription factor, KDP potassium transport system; 2.00A {Escherichia coli} (A:) Probab=40.25 E-value=4.9 Score=19.14 Aligned_cols=104 Identities=5% Similarity=0.061 Sum_probs=58.0 Q ss_pred EEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCC-CCH------H Q ss_conf 070588999999999999879998729999999999766648999986311599899999999999749-865------4 Q gi|254780512|r 476 HPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEH-VSI------R 548 (692) Q Consensus 476 tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~-VsI------R 548 (692) -+||.......++.+.++++..+.....+.+.-++.++++.|.+| ++--.+|-..=-++++++-... +|+ . T Consensus 5 LiVDdd~~~~~~i~~~L~~~g~~v~~a~~~~eal~~l~~~~~dlv--ilD~~lP~~~G~ell~~l~~~~~~p~I~~t~~~ 82 (121) T 1zh2_A 5 LIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRKPDLI--ILDLGLPDGDGIEFIRDLRQWSAVPVIVLSARS 82 (121) T ss_dssp EEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHHCCSEE--EEESEETTEEHHHHHHHHHTTCCCCEEEEESCC T ss_pred EEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEE--EEECCCCCCCHHHHHHHHHHCCCCEEEEEEEEC T ss_conf 999799999999999999879999996788999999982699889--960345699738999999722577299998348 Q ss_pred HHHHHHHHH----HHHHCCCCCHHHHHHHHHHHHHHH Q ss_conf 699999999----875335799899999999998999 Q gi|254780512|r 549 NLPLILESI----AEVAPHSRKTSHIVEQVRIRMAQQ 581 (692) Q Consensus 549 dlr~IlEaL----ad~a~~~kD~~~LtE~VR~aL~R~ 581 (692) +.....+++ .++-.+--++..|.+.+|.++.|. T Consensus 83 ~~~~~~~~~~~G~~d~l~KP~~~~~L~~~i~~~l~r~ 119 (121) T 1zh2_A 83 EESDKIAALDAGADDYLSKPFGIGELQARLRVALRRH 119 (121) T ss_dssp SHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH T ss_conf 9999999998799899979899999999999998876 No 6 >>2odm_A YLAN, UPF0358 protein MW0995; triple helix, unknown function; 2.24A {Staphylococcus aureus subsp} (A:) Probab=37.77 E-value=21 Score=14.36 Aligned_cols=39 Identities=31% Similarity=0.433 Sum_probs=29.0 Q ss_pred CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH-HCCCCCC Q ss_conf 76034547878764899989999999999865-2222012 Q gi|254780512|r 158 IPGKQMAIDADLSSGLIEEEEAKRRRKELEEE-SAFFGAM 196 (692) Q Consensus 158 mPGKQMaIDaDl~aG~I~~~eA~~rR~~l~~E-s~fyGaM 196 (692) |=|=+=-||=-.|-|+|++++-|+-=.+||+| |++|-|+ T Consensus 49 mfGlSrEVdFAVrlgli~~~~Gk~ll~~LE~~Ls~L~ea~ 88 (91) T 2odm_A 49 XFGLQKEVDFAVKLGLVDREDGKQIXLRLEKELSKLHEAF 88 (91) T ss_dssp HHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHHTTCCC- T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 7312678778899656537778999999999999999988 No 7 >>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} (B:229-310) Probab=36.96 E-value=15 Score=15.54 Aligned_cols=32 Identities=16% Similarity=0.278 Sum_probs=24.0 Q ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCC Q ss_conf 34547878764899989999999999865222 Q gi|254780512|r 161 KQMAIDADLSSGLIEEEEAKRRRKELEEESAF 192 (692) Q Consensus 161 KQMaIDaDl~aG~I~~~eA~~rR~~l~~Es~f 192 (692) ++..||.+.+.|-++++|..+-++.+..|.++ T Consensus 47 ~~~gi~~~~~~~~Lt~~qi~~L~~~~~~e~~l 78 (82) T 2zbk_B 47 ELAGLKPNKKVKNLTEEEITRLVETFKKDEDF 78 (82) T ss_dssp HHTTCCSSCBSSCCCHHHHHHHHHHHHHCCCC T ss_pred HHHCCCCCCCHHHCCHHHHHHHHCCCCCEEEE T ss_conf 55236633472333678887641101011110 No 8 >>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} (A:117-331) Probab=35.48 E-value=23 Score=14.11 Aligned_cols=34 Identities=6% Similarity=-0.011 Sum_probs=18.8 Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 7399889999998999864578885158999873 Q gi|254780512|r 228 RYDMSIHHAADVFVRLSVGDGLVSQVPALIISLS 261 (692) Q Consensus 228 q~gm~~~eA~~~Yt~LTIGDGLVsQIPaLliS~a 261 (692) +..++.++....++...--=+-+.+++....... T Consensus 160 ~g~~s~g~~~~~~~~~~~~~~~l~~l~~~~~~~~ 193 (215) T 3b60_A 160 MDSLTAGTITVVFSSMIALMRPLKSLTNVNAQFQ 193 (215) T ss_dssp TSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 7876521235789999999999999999999999 No 9 >>1ub2_A Catalase-peroxidase; KATG, synechococcus PCC 7942, cyanobacteria, oxidoreductase; HET: HEM; 2.40A {Synechococcus elongatus pcc 7942} (A:601-645,A:678-720) Probab=34.83 E-value=15 Score=15.54 Aligned_cols=22 Identities=32% Similarity=0.440 Sum_probs=16.1 Q ss_pred HHHHHHHCCCCCCCCHHHHHCC Q ss_conf 9998652222012201345301 Q gi|254780512|r 184 KELEEESAFFGAMDGASKFVRG 205 (692) Q Consensus 184 ~~l~~Es~fyGaMDGA~KFVkG 205 (692) .+|.--|+.|++=|+.-||||- T Consensus 50 seLRAiAEVYa~~D~~ekFv~D 71 (88) T 1ub2_A 50 SILRAYSELYAQDDNKEKFVRD 71 (88) T ss_dssp HHHHHHHHHHTSTTCHHHHHHH T ss_pred HHHHHHHHHHHCCCCHHHHHHH T ss_conf 8999999997145744178999 No 10 >>2pl1_A Transcriptional regulatory protein PHOP; CHEY-like fold, response regulator, beryllium fluoride, transcription factor, activated, virulence; 1.90A {Escherichia coli} (A:) Probab=34.29 E-value=12 Score=16.28 Aligned_cols=14 Identities=14% Similarity=0.373 Sum_probs=5.3 Q ss_pred EEEEEECHHHHHHH Q ss_conf 89998887899999 Q gi|254780512|r 592 LNILKLGNHWDMIF 605 (692) Q Consensus 592 L~vi~L~p~lE~~l 605 (692) +.+++-..+.++.. T Consensus 75 ~iil~~~~~~~~~~ 88 (121) T 2pl1_A 75 ILVLTARESWQDKV 88 (121) T ss_dssp EEEEESCCCHHHHH T ss_pred EEEEECCCCHHHHH T ss_conf 99997049999999 No 11 >>1qle_D Cytochrome AA3, ccytochrome C oxidase; oxidoreductase/immune system, complex (oxidoreductase/antibody), electron transport; HET: HEA PC1; 3.0A {Paracoccus denitrificans} (D:) Probab=32.12 E-value=25 Score=13.79 Aligned_cols=19 Identities=26% Similarity=0.079 Sum_probs=14.0 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~ii~~li 36 (43) T 1qle_D 18 AGFIKGATWVSILSIAVLV 36 (43) T ss_dssp HHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHH T ss_conf 8999999999999999999 No 12 >>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima} (A:) Probab=31.90 E-value=13 Score=16.05 Aligned_cols=105 Identities=10% Similarity=0.133 Sum_probs=65.0 Q ss_pred EEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCC--CCH------ Q ss_conf 070588999999999999879998729999999999766648999986311599899999999999749--865------ Q gi|254780512|r 476 HPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEH--VSI------ 547 (692) Q Consensus 476 tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~--VsI------ 547 (692) -+||....+...+...++++-.+...-..-.+-++.+++.+|++| + -+.+|-..=-++++++-++. +|| T Consensus 8 LiVDDd~~~~~~l~~~L~~~g~~v~~a~~g~eAl~~~~~~~~dli--i-lD~mp~~dG~e~~~~ir~~~~~~pii~lT~~ 84 (142) T 2qxy_A 8 XVVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLRREKIDLV--F-VDVFEGEESLNLIRRIREEFPDTKVAVLSAY 84 (142) T ss_dssp EEECSCHHHHHHHHHHHGGGTCEEEEESSHHHHHHHHTTSCCSEE--E-EECTTTHHHHHHHHHHHHHCTTCEEEEEESC T ss_pred EEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEE--E-ECCCCCHHHHHHHHHHHHHCCCCCEEEEECC T ss_conf 999898999999999999879999997657999999983188899--7-2357750499999999997899978999745 Q ss_pred HHHHHHHHHH----HHHHCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 4699999999----87533579989999999999899986 Q gi|254780512|r 548 RNLPLILESI----AEVAPHSRKTSHIVEQVRIRMAQQIC 583 (692) Q Consensus 548 Rdlr~IlEaL----ad~a~~~kD~~~LtE~VR~aL~R~I~ 583 (692) .+.....+++ .|+-.+.-+++.|.+.+|..+++.-. T Consensus 85 ~~~~~~~~a~~~Ga~d~l~KP~~~~~L~~~i~~~l~~~~~ 124 (142) T 2qxy_A 85 VDKDLIINSVKAGAVDYILKPFRLDYLLERVKKIISSTPR 124 (142) T ss_dssp CCHHHHHHHHHHTCSCEEESSCCHHHHHHHHHHHHHC--- T ss_pred CCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHCCCC T ss_conf 8889999999869988997989999999999999846720 No 13 >>1b1y_A Protein (beta-amylase); hydrolase(O-glycosyl); HET: GLC; 2.50A {Hordeum vulgare} (A:87-135) Probab=30.68 E-value=24 Score=13.89 Aligned_cols=11 Identities=55% Similarity=1.020 Sum_probs=7.1 Q ss_pred CCCCHHHHHHH Q ss_conf 03847899999 Q gi|254780512|r 35 LPIPTVLLDVG 45 (692) Q Consensus 35 iPlP~~llD~~ 45 (692) ||||.|+++.. T Consensus 13 IpLP~WV~~~~ 23 (49) T 1b1y_A 13 IPIPQWVRDVG 23 (49) T ss_dssp BCSCHHHHHHH T ss_pred CCCCHHHHHHH T ss_conf 47868998753 No 14 >>1hfe_L Protein (Fe-only hydrogenase (E.C.1.18.99.1) (larger subunit)); X-RAY crystallography, hydrogene metabolism, periplasm; 1.60A {Desulfovibrio vulgaris subsp} (L:145-222,L:286-421) Probab=30.43 E-value=27 Score=13.53 Aligned_cols=36 Identities=17% Similarity=0.037 Sum_probs=18.7 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHC Q ss_conf 999976664899998631159989999999999974 Q gi|254780512|r 508 LISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAE 543 (692) Q Consensus 508 LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E 543 (692) ++.-.++.||+|++.+.|-+=|.....+.+|+...+ T Consensus 38 wv~~iek~~P~Lip~ls~~~SPm~~~g~~iK~~~~~ 73 (214) T 1hfe_L 38 WQKYAETYYPELLPHFSTCKSPIGMNGALAKTYGAE 73 (214) T ss_dssp HHHHHHHHCGGGGGGBCSBCCHHHHHHHHHTTHHHH T ss_pred HHHHHHHHCHHHCCCCCCCCCHHHHHHHHHHHHHHH T ss_conf 999999858333365312478799877899999988 No 15 >>1xhf_A DYE resistance, aerobic respiration control protein ARCA; two-component system, gene regulation, transcription factor, anoxic redox control; 2.15A {Escherichia coli} (A:) Probab=30.22 E-value=12 Score=16.25 Aligned_cols=104 Identities=10% Similarity=0.001 Sum_probs=47.5 Q ss_pred EEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC-C-------- Q ss_conf 0705889999999999998799987299999999997666489999863115998999999999997498-6-------- Q gi|254780512|r 476 HPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHV-S-------- 546 (692) Q Consensus 476 tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~V-s-------- 546 (692) -+||....+...+.+.+++...+...-...++.++.+++..|.++ ++--.+|-..--+.++++-+..- | T Consensus 7 LvVDDd~~~~~~l~~~L~~~G~~v~~a~~~~~al~~l~~~~~dli--ilD~~mP~~dg~e~~~~ir~~~~~~~i~~~~~~ 84 (123) T 1xhf_A 7 LIVEDELVTRNTLKSIFEAEGYDVFEATDGAEXHQILSEYDINLV--IXDINLPGKNGLLLARELREQANVALXFLTGRD 84 (123) T ss_dssp EEECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHSCCSEE--EECSSCSSSCHHHHHHHHHHHCCCEEEEEESCC T ss_pred EEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCHH--HHCCCCCCCCCHHHHHHHHHHCCCCEEEEEECC T ss_conf 999898999999999999769889998986999999983474322--200123676563999998871699789999248 Q ss_pred -HHHHHHHHHHH-HHHHCCCCCHHHHHHHHHHHHHHH Q ss_conf -54699999999-875335799899999999998999 Q gi|254780512|r 547 -IRNLPLILESI-AEVAPHSRKTSHIVEQVRIRMAQQ 581 (692) Q Consensus 547 -IRdlr~IlEaL-ad~a~~~kD~~~LtE~VR~aL~R~ 581 (692) -.+...-++.- .++-.+-=++..|...+|..|+|. T Consensus 85 ~~~~~~~a~~~G~~dyl~KPi~~~~L~~~i~~~l~r~ 121 (123) T 1xhf_A 85 NEVDKILGLEIGADDYITKPFNPRELTIRARNLLSRT 121 (123) T ss_dssp SHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH T ss_conf 9999999998698879869899999999999998772 No 16 >>2vgq_A Maltose-binding periplasmic protein, mitochondrial antiviral-signaling protein; immune system/transport, IPS1/MAVS/VISA/cardif; HET: MTT; 2.1A {Escherichia coli} (A:349-477) Probab=29.23 E-value=21 Score=14.35 Aligned_cols=15 Identities=20% Similarity=0.337 Sum_probs=6.5 Q ss_pred HHHHHHHHHHHHCCC Q ss_conf 789999999830377 Q gi|254780512|r 599 NHWDMIFYQAIQRDS 613 (692) Q Consensus 599 p~lE~~l~~~i~~t~ 613 (692) |.|=+.+..++++++ T Consensus 102 ~~Wf~~Fl~ALr~~~ 116 (129) T 2vgq_A 102 PGWVEYFIAALRGCE 116 (129) T ss_dssp TTHHHHHHHHHHHTT T ss_pred CCHHHHHHHHHCCCH T ss_conf 746999999971660 No 17 >>2ebm_A RWD domain-containing protein 1; alpha+beta sandwich fold, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} (A:28-128) Probab=29.19 E-value=29 Score=13.38 Aligned_cols=90 Identities=10% Similarity=0.086 Sum_probs=56.6 Q ss_pred CCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHH Q ss_conf 98716999748245348841783413305888767887410147668830343978845888289907058899999999 Q gi|254780512|r 410 PEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLS 489 (692) Q Consensus 410 ~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~ 489 (692) .+..|.|.++...-..+....=.+...-+.+.....|.+..+ ...|++..+...+ . T Consensus 9 ~~~~~~i~i~~~~~~~~~~~~~~L~~~~p~~YP~~~P~i~i~------~~~~l~~~~~~~L------------------~ 64 (101) T 2ebm_A 9 NPPSFTITVTSEAGENDETVQTTLKFTYSEKYPDEAPLYEIF------SQENLEDNDVSDI------------------L 64 (101) T ss_dssp SSCEEEECCBCCCCTTSCCCBEEEEEECCSSTTTSCCEEEEE------EESSCCHHHHHHH------------------H T ss_pred CCCEEEEEEECCCCCCCCCEEEEEEEEECCCCCCCCCCEEEE------CCCCCCHHHHHHH------------------H T ss_conf 998899997058888766547999998178788888858887------3788999999999------------------9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999879998729999999999766648999986 Q gi|254780512|r 490 EVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEET 523 (692) Q Consensus 490 evir~~a~ellg~qEvq~LLd~L~~~~P~LV~El 523 (692) +.+.+.+.+.+|-+-+=.+.++++..-.+..++. T Consensus 65 ~~l~~~~~~~~G~~mif~lve~~qe~l~~~~~~~ 98 (101) T 2ebm_A 65 KLLALQAEENLGMVMIFTLVTAVQEKLNEIVDQI 98 (101) T ss_dssp HHHHHHHHHHTTSCCHHHHHHHHHHHHHHHHHHG T ss_pred HHHHHHHHHCCCCEEHHHHHHHHHHHHHHHHHHH T ss_conf 9999999984898869999999999999999876 No 18 >>3bgh_A Protein HPAA, putative neuraminyllactose-binding hemagglutinin homolog; structural genomics, unknown function, PSI-2; 2.45A {Helicobacter pylori 26695} (A:) Probab=29.06 E-value=13 Score=15.83 Aligned_cols=20 Identities=15% Similarity=0.345 Sum_probs=9.4 Q ss_pred HHHHHHHCCCCCCEEEEECCCC Q ss_conf 9999980987883244543778 Q gi|254780512|r 388 RKFAVQYGFIVPEIKVTTDISL 409 (692) Q Consensus 388 k~la~elG~~iP~IrIrDn~~L 409 (692) .++.+.-|+-+-+. .|...+ T Consensus 69 q~ilekkGY~v~~f--kd~~ei 88 (236) T 3bgh_A 69 SSFLERKGYSVSQF--KDASEI 88 (236) T ss_dssp HHHHHTTTCEEEEE--SSGGGC T ss_pred HHHHHHCCCEEEEC--CCHHHH T ss_conf 99999659232002--554542 No 19 >>2job_A Antilipopolysaccharide factor; ALF, lipid A binding protein, endotoxin, lipid binding protein; NMR {Penaeus monodon} (A:) Probab=28.50 E-value=29 Score=13.37 Aligned_cols=30 Identities=17% Similarity=0.288 Sum_probs=14.1 Q ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH Q ss_conf 8999999999999879-99872999999999 Q gi|254780512|r 481 LAVVLTHLSEVIRNNL-SQLLSYKDVKNLIS 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 CCHHHHHHHHHHHHHHHCCCCCHHHHHHHHH T ss_conf 1015367999999999848865999998864 No 20 >>1uuf_A YAHK, zinc-type alcohol dehydrogenase-like protein YAHK; oxidoreductase, zinc binding, oxydoreductase, metal-binding; 1.76A {Escherichia coli} (A:1-171,A:315-369) Probab=27.69 E-value=24 Score=13.91 Aligned_cols=45 Identities=11% Similarity=0.077 Sum_probs=35.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHH Q ss_conf 7299999999997666489999863115998999999999997498654 Q gi|254780512|r 500 LSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIR 548 (692) Q Consensus 500 lg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIR 548 (692) =|++|+|+|||--.+++ +.-.+ ..+|+..+.+.+++|.+-.|--| T Consensus 172 g~~~~~~eml~f~~~~~---i~~~v-e~~~~~~~~~a~~~~~~~~~ryR 216 (226) T 1uuf_A 172 GGIPETQEMLDFCAEHG---IVADI-EMIRADQINEAYERMLRGDVKYR 216 (226) T ss_dssp CCHHHHHHHHHHHHHHT---CCCCE-EEECGGGHHHHHHHHHTTCSSSE T ss_pred CCHHHHHHHHHHHHHCC---CCCCE-EEEEHHHHHHHHHHHHCCCCCEE T ss_conf 79999999999998098---98776-99829999999999986998269 No 21 >>1lkv_X Flagellar motor switch protein FLIG; chemotaxis, flagellar motion, structural protein; 2.80A {Thermotoga maritima} (X:1-65) Probab=27.57 E-value=30 Score=13.18 Aligned_cols=47 Identities=15% Similarity=0.063 Sum_probs=35.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH Q ss_conf 799987299999999997666489999863115998999999999997 Q gi|254780512|r 495 NLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLA 542 (692) Q Consensus 495 ~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~ 542 (692) +..+.|..-+.+.+.+-++.+||..+.=++ ..++...=.+||..|=. T Consensus 3 ~~~~~L~~~~~~~l~~~l~~EhPQ~iAliL-s~L~p~~AA~VL~~lp~ 49 (65) T 1lkv_X 3 KPFSFVRDTDPVQLVNFLQSEHPQTIAVVL-SYLDPPVAAQILGALPE 49 (65) T ss_dssp ---------CCTHHHHHHHTSCHHHHHHHH-TTSCHHHHHHHHHHSCH T ss_pred CHHHHHHHCCHHHHHHHHHHCCHHHHHHHH-HCCCHHHHHHHHHHCCH T ss_conf 748998739999999999828999999999-71998999999997999 No 22 >>2oar_A Large-conductance mechanosensitive channel; stretch activated ION channel mechanosensitive, membrane protein; 3.50A {Mycobacterium tuberculosis H37RA} (A:1-126) Probab=26.95 E-value=30 Score=13.17 Aligned_cols=50 Identities=16% Similarity=0.312 Sum_probs=25.3 Q ss_pred CCCCCCHHHHH-CCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 20122013453-0105899999999988899999997399889999998999864578885158999873310 Q gi|254780512|r 193 FGAMDGASKFV-RGDAIASIIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQVPALIISLSAAF 264 (692) Q Consensus 193 yGaMDGA~KFV-kGDAiAgiiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQIPaLliS~aaGi 264 (692) -+-++|--+|. ||+.+ ++-=|++||-. |+ +|=+.||..|=.=+|+...|- T Consensus 22 ~~~lkeFk~Fi~rGNVi--------dLAVgvIIG~A-----F~---------~iV~slV~diImPlI~~~~~~ 72 (126) T 2oar_A 22 KHMLKGFKEFLARGNIV--------DLAVAVVIGTA-----FT---------ALVTKFTDSIITPLINRIGVN 72 (126) T ss_dssp --CHHHHHHHHHSCHHH--------HHHHHHHHHHH-----HH---------HHHHHHHHHHHHHHHHHHCCC T ss_pred HHHHHHHHHHHHCCCHH--------HHHHHHHHHHH-----HH---------HHHHHHHHHHHCCHHHHCCCC T ss_conf 99999999999638757--------88899999999-----99---------999999987433324423567 No 23 >>1dbw_A Transcriptional regulatory protein FIXJ; doubly wound five-stranded beta/alpha fold, nitrogen fixation regulation; HET: 15P; 1.60A {Rhizobium meliloti} (A:) Probab=26.64 E-value=7.2 Score=17.85 Aligned_cols=66 Identities=9% Similarity=-0.031 Sum_probs=30.0 Q ss_pred EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCC Q ss_conf 70588999999999999879998729999999999766648999986311599899999999999749 Q gi|254780512|r 477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEH 544 (692) Q Consensus 477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~ 544 (692) +||....+...+.+.++++-.+.......+..++.+++..|.+| ++.-.+|-..=-++++++=++. T Consensus 8 iVDD~~~~~~~l~~~L~~~g~~v~~~~~~~~al~~l~~~~~d~v--ilD~~lp~~~G~~~~~~ir~~~ 73 (126) T 1dbw_A 8 IVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVRNGVL--VTDLRMPDMSGVELLRNLGDLK 73 (126) T ss_dssp EEESSHHHHHHHHHHHHHTTCEEEEESCHHHHHHHGGGCCSEEE--EEECCSTTSCHHHHHHHHHHTT T ss_pred EEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEE--EEEECCCCCCCHHHHHHHHHCC T ss_conf 99799999999999999879999997687999999760688799--9872187430158999998249 No 24 >>2wvr_C DNA replication factor CDT1; DNA replication license, DNA replication inhibitor, phosphoprotein, UBL conjugation, DNA-binding, polymorphism; HET: DNA; 3.30A {Homo sapiens} PDB: 2klo_A* (C:) Probab=25.47 E-value=17 Score=15.06 Aligned_cols=38 Identities=5% Similarity=0.016 Sum_probs=25.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999987999872999999999976664899998 Q gi|254780512|r 485 LTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEE 522 (692) Q Consensus 485 atHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~E 522 (692) .+-|-+.|..+..+-++++|+.+.|+.|++.-|+.++. T Consensus 475 ~~~~~~~i~~s~~~~~~~~e~~~~l~~l~~~~p~~~~~ 512 (546) T 2wvr_C 475 MEVACARMVGSCCTIMSPGEMEKHLLLLSELLPDWLSL 512 (546) T ss_dssp -------------------------------------- T ss_pred HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCEEE T ss_conf 99999999985457699999999999999868720699 No 25 >>3bk2_A RNAse J, metal dependent hydrolase; endoribonuclease, exoribonuclease, metallo-beta-lactamase; HET: U5P; 2.10A {Thermus thermophilus HB27} PDB: 3bk1_A* (A:466-562) Probab=25.12 E-value=33 Score=12.87 Aligned_cols=40 Identities=8% Similarity=0.128 Sum_probs=25.3 Q ss_pred HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCC-EEEEE Q ss_conf 99875335799899999999998999865207788-48999 Q gi|254780512|r 556 SIAEVAPHSRKTSHIVEQVRIRMAQQICGDLAPTG-ILNIL 595 (692) Q Consensus 556 aLad~a~~~kD~~~LtE~VR~aL~R~I~~~~~~~g-~L~vi 595 (692) ++-...+..+|...|-+.+|.++++++-+++...- .++++ T Consensus 54 ~~~~~~~~~~d~~~l~~~ir~~l~~~~~~~~~rrP~Vip~I 94 (97) T 3bk2_A 54 ALKNGVREKKPLERIRDDIYYPVKKFLKKATGRDPXILPVV 94 (97) T ss_dssp HHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHSCCCEEEEEE T ss_pred HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEE T ss_conf 99864214670999999999999999999978998799999 No 26 >>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* 2hfp_B* 1k7l_B* (E:) Probab=24.53 E-value=34 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 27 >>2hyd_A ABC transporter homolog; transport protein; HET: ADP; 3.00A {Staphylococcus aureus} (A:108-328) Probab=24.34 E-value=33 Score=12.88 Aligned_cols=49 Identities=16% Similarity=0.099 Sum_probs=24.6 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999988899999997399889999998999864578885158999873 Q gi|254780512|r 211 IIITAINIVGGIVIGCFRYDMSIHHAADVFVRLSVGDGLVSQVPALIISLS 261 (692) Q Consensus 211 iiI~~iNiigG~~iG~~q~gm~~~eA~~~Yt~LTIGDGLVsQIPaLliS~a 261 (692) +.+.++-.+|+.. +....++.++.+...+...--=.-+.++...+.+.. T Consensus 150 ~~~~~~~~~~~~~--~~~~~~s~g~~~~~~~~~~~~~~~l~~~~~~~~~~~ 198 (221) T 2hyd_A 150 IGPIIVIGVGAYL--AISGSITVGTLAAFVGYLELLFGPLRRLVASFTTLT 198 (221) T ss_dssp HHHHHHHHHHHHH--HHHTSCCHHHHHHHHHTHHHHTTHHHHHHHHHHHHH T ss_pred CCCCCCCCCCCCC--CCCCCCCCCCCCCHHHHCCCCCCHHHHHHHHHHHHH T ss_conf 0112221345433--333323456531000000112212445543113444 No 28 >>1m56_D Cytochrome C oxidase; membrane protein, oxidoreductase; HET: HEA PEH; 2.30A {Rhodobacter sphaeroides} (D:) Probab=24.28 E-value=35 Score=12.76 Aligned_cols=19 Identities=16% Similarity=0.167 Sum_probs=13.5 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 26 ~GFik~~t~~~i~ii~~li 44 (51) T 1m56_D 26 AGFVRMVTWAAVVIVAALI 44 (51) T ss_dssp HHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHH T ss_conf 8999999999999999999 No 29 >>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} (A:315-371) Probab=23.77 E-value=35 Score=12.70 Aligned_cols=22 Identities=27% Similarity=0.431 Sum_probs=17.4 Q ss_pred CHHHHHHHHHHHHHHHCCCCCC Q ss_conf 9899999999998652222012 Q gi|254780512|r 175 EEEEAKRRRKELEEESAFFGAM 196 (692) Q Consensus 175 ~~~eA~~rR~~l~~Es~fyGaM 196 (692) +.++|+..=+++.+|-+|||=| T Consensus 20 ~~~~A~~~~~~la~~r~fYg~L 41 (57) T 1qsa_A 20 REAEAKEILHQLMQQRGFYPMV 41 (57) T ss_dssp CHHHHHHHHHHHHTSCSHHHHH T ss_pred CHHHHHHHHHHHHCCCCHHHHH T ss_conf 8478999999884653568999 No 30 >>2qzj_A Two-component response regulator; 11017X, PSI-II, structural genomics, protein structure initiative; 2.89A {Clostridium difficile 630} (A:) Probab=23.76 E-value=7.4 Score=17.77 Aligned_cols=103 Identities=10% Similarity=-0.045 Sum_probs=46.8 Q ss_pred EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH----------CCCC Q ss_conf 705889999999999998799987299999999997666489999863115998999999999997----------4986 Q gi|254780512|r 477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLA----------EHVS 546 (692) Q Consensus 477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~----------E~Vs 546 (692) +||........+.+.+++...+.......++-++.+++..|+++ ++.-.+|-..=-++++++-+ ..-. T Consensus 9 iVdDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~dli--ilD~~lp~~dG~el~~~ir~~~~~PiI~lt~~~~ 86 (136) T 2qzj_A 9 IIDGDKDNCQKLKGFLEEKGISIDLAYNCEEAIGKIFSNKYDLI--FLEIILSDGDGWTLCKKIRNVTTCPIVYXTYINE 86 (136) T ss_dssp EECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHCCCSEE--EEESEETTEEHHHHHHHHHTTCCCCEEEEESCCC T ss_pred EEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEE--EEECCCCCCCHHHHHHHHHCCCCCEEEEEECCCC T ss_conf 99899999999999999879999998248899998606698689--8621336750355776753168775999913799 Q ss_pred HHHHHHHHHHH-HHHHCCCCCHHHHHHHHHHHHHHH Q ss_conf 54699999999-875335799899999999998999 Q gi|254780512|r 547 IRNLPLILESI-AEVAPHSRKTSHIVEQVRIRMAQQ 581 (692) Q Consensus 547 IRdlr~IlEaL-ad~a~~~kD~~~LtE~VR~aL~R~ 581 (692) ..+...-++.= .|+-.+--++..|.+.++..|+|. T Consensus 87 ~~~~~~~l~~Ga~dyl~KP~~~~~L~~~i~~~l~r~ 122 (136) T 2qzj_A 87 DQSILNALNSGGDDYLIKPLNLEILYAKVKAILRRX 122 (136) T ss_dssp HHHHHHHHHTTCCEEEESSCCHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHHH T ss_conf 999999998799899989899999999999999974 No 31 >>2d6f_C Glutamyl-tRNA(Gln) amidotransferase subunit E; ligase, ligase/RNA complex; 3.15A {Methanothermobacterthermautotrophicus} (C:446-619) Probab=23.62 E-value=19 Score=14.63 Aligned_cols=27 Identities=15% Similarity=0.241 Sum_probs=10.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999879998729999999999 Q gi|254780512|r 485 LTHLSEVIRNNLSQLLSYKDVKNLISR 511 (692) Q Consensus 485 atHl~evir~~a~ellg~qEvq~LLd~ 511 (692) ..|+.++++.....-++....+.++.. T Consensus 68 ~~~l~~l~~~v~~~~is~~~ak~~l~~ 94 (174) T 2d6f_C 68 LDELRDAIKLLEVGKISKDALRDIVAC 94 (174) T ss_dssp --------------------------- T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHHHH T ss_conf 999999999998598757999999999 No 32 >>1nig_A Hypothetical protein TA1238; structural genomics, four helixbundle, PSI, protein structure initiative; 2.00A {Thermoplasma acidophilum} (A:18-152) Probab=22.75 E-value=37 Score=12.56 Aligned_cols=97 Identities=15% Similarity=0.154 Sum_probs=52.7 Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHH-HHHHHHHHHHHHH------HHHHHCC-C-CEEEEEEECHHHHHHHH Q ss_conf 999999749865469999999987533579989-9999999998999------8652077-8-84899988878999999 Q gi|254780512|r 536 VLKLLLAEHVSIRNLPLILESIAEVAPHSRKTS-HIVEQVRIRMAQQ------ICGDLAP-T-GILNILKLGNHWDMIFY 606 (692) Q Consensus 536 VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~-~LtE~VR~aL~R~------I~~~~~~-~-g~L~vi~L~p~lE~~l~ 606 (692) -|---+.||+-++.+|.++.-|-..-+.--|++ .|.+.+|.+|.+. |.++... + .++..+.-...+...+- T Consensus 16 flGLAVSEg~kV~e~re~lDilDtl~~~LyD~e~~L~d~~~K~L~~~~e~W~DI~eK~~nG~k~t~Yl~lA~s~l~~Av~ 95 (135) T 1nig_A 16 YLGLAISEGIKVRETREILDIIDTVYNSLSDPESKLNDFQEKRLNFTEEDWYDIKEKANNGNRWSLYMFLARSAVDSAVY 95 (135) T ss_dssp HHHHHHHTCSSHHHHHHHHHHHHHHHHTTTC--CCCCHHHHHHHHHCCCCCCCHHHHHHHTCHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH T ss_conf 98287872257389999999999999743670668778999982666377861898873884479999999999999999 Q ss_pred HHHHCCCCCCCCCCCCCHHHHHHHHHH Q ss_conf 983037778846456698899999999 Q gi|254780512|r 607 QAIQRDSKGECVDFNVEPRAVEMFSEN 633 (692) Q Consensus 607 ~~i~~t~~G~~~~l~l~P~~~~~l~~~ 633 (692) =.-+-.....|.+. ++....+.+..- T Consensus 96 ~l~~l~~~e~F~d~-i~e~~i~~m~Kl 121 (135) T 1nig_A 96 WSYRMKETEEFKEI-VKEEMISKLLKA 121 (135) T ss_dssp HHHHHHTSTTTTTT-CCHHHHHHHHHH T ss_pred HHHHHHCCHHHHHH-HHHHHHHHHHHH T ss_conf 99986105788987-608899999999 No 33 >>3euh_C MUKE, chromosome partition protein MUKF; chromosome condensation, condensin, non-SMC subunit, kleisin, calcium, cell cycle, cell division; 2.90A {Escherichia coli} (C:85-189) Probab=22.38 E-value=37 Score=12.56 Aligned_cols=14 Identities=21% Similarity=0.375 Sum_probs=6.9 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 99999999998999 Q gi|254780512|r 568 SHIVEQVRIRMAQQ 581 (692) Q Consensus 568 ~~LtE~VR~aL~R~ 581 (692) ..|.|.||.+|+|. T Consensus 65 ~kl~EkvrtsLrRL 78 (105) T 3euh_C 65 QKLQEKVRSSLNRL 78 (105) T ss_dssp HHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHH T ss_conf 99999999999999 No 34 >>2a9o_A Response regulator; essential protein, YYCF/YYCG homolog, signaling protein; 1.65A {Streptococcus pneumoniae} (A:) Probab=20.75 E-value=9.7 Score=16.88 Aligned_cols=103 Identities=9% Similarity=0.063 Sum_probs=49.5 Q ss_pred EEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH-CCCCHH------ Q ss_conf 0705889999999999998799987299999999997666489999863115998999999999997-498654------ Q gi|254780512|r 476 HPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLA-EHVSIR------ 548 (692) Q Consensus 476 tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~-E~VsIR------ 548 (692) -++|....+...+.+.++....+...-.+-++-++.+++++|.+| ++--.+|-..-..++|+.-. +..++- T Consensus 5 LiVdD~~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~dli--ilD~~lP~~~g~~~~~~~~~~~~~~~i~~t~~~ 82 (120) T 2a9o_A 5 LIVDDEKPISDIIKFNMTKEGYEVVTAFNGREALEQFEAEQPDII--ILDLMLPEIDGLEVAKTIRKTSSVPILMLSAKD 82 (120) T ss_dssp EEECSCHHHHHHHHHHHHHTTCEEEEESSHHHHHHHHHHHCCSEE--EECSSCSSSCHHHHHHHHHHHCCCCEEEEESCC T ss_pred EEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEE--EECCCCCCCCHHHHHHHHHHCCCCCEEEEECCC T ss_conf 999799999999999999879999998787999999983699789--842566798827899999867999499998899 Q ss_pred ---HHHHHHHH-HHHHHCCCCCHHHHHHHHHHHHHH Q ss_conf ---69999999-987533579989999999999899 Q gi|254780512|r 549 ---NLPLILES-IAEVAPHSRKTSHIVEQVRIRMAQ 580 (692) Q Consensus 549 ---dlr~IlEa-Lad~a~~~kD~~~LtE~VR~aL~R 580 (692) ....-++. ..++-.+--++..|.+.++..|.| T Consensus 83 ~~~~~~~~~~~G~~~~L~KP~~~~~L~~~i~~~l~r 118 (120) T 2a9o_A 83 SEFDKVIGLELGADDYVTKPFSNRELQARVKALLRR 118 (120) T ss_dssp SHHHHHHHHHHTCSEEEESSCCHHHHHHHHHHHHHC T ss_pred CHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHC T ss_conf 999999999869989998989999999999999974 No 35 >>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural genomics, protein structure initiative; 1.50A {Pseudomonas fluorescens pf-5} (A:) Probab=20.36 E-value=13 Score=15.89 Aligned_cols=108 Identities=15% Similarity=0.179 Sum_probs=63.3 Q ss_pred CEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCC--CCH----- Q ss_conf 9070588999999999999879998729999999999766648999986311599899999999999749--865----- Q gi|254780512|r 475 FHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEH--VSI----- 547 (692) Q Consensus 475 ~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~--VsI----- 547 (692) .-+||....+.+++...++++..+.......+.-++.+++..|.++ ++.-.+|-..=.++++++-+.. +|+ T Consensus 17 iLiVDD~~~~~~~i~~~L~~~g~~v~~a~~~~~al~~l~~~~~dlv--ilD~~lp~~dG~~~~~~ir~~~~~~pvI~lt~ 94 (153) T 3hv2_A 17 ILLVDSQEVILQRLQQLLSPLPYTLHFARDATQALQLLASREVDLV--ISAAHLPQMDGPTLLARIHQQYPSTTRILLTG 94 (153) T ss_dssp EEEECSCHHHHHHHHHHHTTSSCEEEEESSHHHHHHHHHHSCCSEE--EEESCCSSSCHHHHHHHHHHHCTTSEEEEECC T ss_pred EEEEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEE--EECCCCCCCCHHHHHHHHHHHCCCCCEEEEEC T ss_conf 9999699999999999999879999998999999999982799989--86055899988999999998689992899978 Q ss_pred -HHHHHHHHHH-----HHHHCCCCCHHHHHHHHHHHHHHHHHH Q ss_conf -4699999999-----875335799899999999998999865 Q gi|254780512|r 548 -RNLPLILESI-----AEVAPHSRKTSHIVEQVRIRMAQQICG 584 (692) Q Consensus 548 -Rdlr~IlEaL-----ad~a~~~kD~~~LtE~VR~aL~R~I~~ 584 (692) .+.....+++ .+|-.+.-|+..|...++.+|.++=.+ T Consensus 95 ~~~~~~~~~a~~~Gav~dyl~KP~~~~~L~~~i~~~l~~~~~~ 137 (153) T 3hv2_A 95 DPDLKLIAKAINEGEIYRYLSKPWDDQELLLALRQALEHQHSE 137 (153) T ss_dssp CCCHHHHHHHHHTTCCSEEECSSCCHHHHHHHHHHHHHHHHHH T ss_pred CCCHHHHHHHHHCCCCCCEEECCCCHHHHHHHHHHHHHHHHHH T ss_conf 8999999999976988887889899999999999999999999 No 36 >>1kgs_A DRRD, DNA binding response regulator D; DNA-binding protein, ALPH-beta sandwich, winged-helix, helix-turn-helix, DNA binding protein; HET: DNA MSE; 1.50A {Thermotoga maritima} (A:1-124) Probab=20.34 E-value=15 Score=15.41 Aligned_cols=18 Identities=17% Similarity=0.255 Sum_probs=8.9 Q ss_pred CHHHHHHHHHHHHHHHHH Q ss_conf 988999999999999999 Q gi|254780512|r 623 EPRAVEMFSENATNSIRQ 640 (692) Q Consensus 623 ~P~~~~~l~~~i~~~~~~ 640 (692) -|-..+.+.+.++..+++ T Consensus 103 KP~~~~~L~~~i~~~l~~ 120 (124) T 1kgs_A 103 KPFDLRELIARVRALIRR 120 (124) T ss_dssp SSCCHHHHHHHHHHHHHH T ss_pred CCCCHHHHHHHHHHHHHC T ss_conf 899999999999999711 Done!