Query gi|254780751|ref|YP_003065164.1| ribonuclease E [Candidatus Liberibacter asiaticus str. psy62] Match_columns 723 No_of_seqs 290 out of 2083 Neff 6.5 Searched_HMMs 23785 Date Tue May 31 17:46:31 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780751.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2bx2_L Ribonuclease E, RNAse E 100.0 0 0 1104.1 46.9 495 1-576 8-504 (517) 2 2cqo_A Nucleolar protein of 40 98.2 1.6E-06 6.7E-11 62.9 6.0 41 37-79 20-61 (119) 3 2k4k_A GSP13, general stress p 98.1 5.1E-06 2.1E-10 59.4 6.1 43 35-79 3-45 (130) 4 2eqs_A ATP-dependent RNA helic 98.0 2.9E-05 1.2E-09 54.2 7.8 43 35-79 8-53 (103) 5 3aev_A Translation initiation 97.9 2E-05 8.3E-10 55.3 6.3 41 37-79 9-51 (275) 6 1kl9_A Eukaryotic translation 97.8 2.9E-05 1.2E-09 54.1 6.0 40 37-78 13-54 (182) 7 1q8k_A Eukaryotic translation 97.7 5.8E-05 2.4E-09 52.1 6.4 40 37-78 11-52 (308) 8 3cw2_C Translation initiation 97.7 5.4E-05 2.3E-09 52.3 6.1 41 36-78 8-50 (266) 9 2a19_A EIF-2- alpha, eukaryoti 97.7 5.3E-05 2.2E-09 52.4 5.6 39 38-78 14-54 (175) 10 2k52_A Uncharacterized protein 97.6 9.7E-05 4.1E-09 50.5 6.1 38 38-77 4-41 (80) 11 2khj_A 30S ribosomal protein S 97.5 0.0002 8.5E-09 48.3 6.3 41 36-78 28-68 (109) 12 1e3p_A Guanosine pentaphosphat 97.5 2E-05 8.6E-10 55.2 0.9 41 517-557 598-638 (757) 13 3cdi_A Polynucleotide phosphor 97.4 1.6E-05 6.9E-10 55.9 0.0 42 516-557 559-600 (723) 14 1wi5_A RRP5 protein homolog; S 97.3 0.00031 1.3E-08 47.0 5.3 86 35-209 17-103 (119) 15 2khi_A 30S ribosomal protein S 97.3 0.00045 1.9E-08 45.9 6.0 43 33-77 24-66 (115) 16 3bzc_A TEX; helix-turn-helix, 97.2 9.4E-05 3.9E-09 50.6 1.5 27 348-388 480-506 (785) 17 3go5_A Multidomain protein wit 96.7 0.0099 4.2E-07 36.6 8.4 62 12-77 43-107 (285) 18 3m7n_A Putative uncharacterize 96.5 0.02 8.4E-07 34.5 9.1 50 23-74 41-100 (179) 19 2waq_E DNA-directed RNA polyme 96.0 0.017 7E-07 35.0 6.5 56 22-80 64-119 (180) 20 1go3_E DNA-directed RNA polyme 95.9 0.03 1.2E-06 33.3 7.2 56 22-80 64-119 (187) 21 2je6_I RRP4, exosome complex R 95.2 0.16 6.8E-06 28.1 9.5 37 36-74 71-107 (251) 22 2nn6_I 3'-5' exoribonuclease C 95.0 0.073 3.1E-06 30.5 6.8 36 37-74 79-122 (209) 23 2z0s_A Probable exosome comple 94.3 0.075 3.2E-06 30.5 5.5 38 35-74 62-99 (235) 24 2ba0_A Archeal exosome RNA bin 93.8 0.33 1.4E-05 26.0 9.3 51 22-74 40-90 (229) 25 2ckz_B C25, DNA-directed RNA p 93.2 0.27 1.1E-05 26.6 6.8 57 22-80 64-120 (218) 26 3go5_A Multidomain protein wit 92.9 0.24 1E-05 26.9 6.2 35 37-74 4-38 (285) 27 1y14_B B16, RPB7, DNA-directed 92.7 0.22 9.3E-06 27.2 5.8 53 24-79 68-120 (171) 28 2c35_B Human RPB7, DNA-directe 92.5 0.35 1.5E-05 25.8 6.5 54 23-79 65-119 (172) 29 2bh8_A 1B11; transcription, mo 91.9 0.07 3E-06 30.6 2.3 40 36-77 58-97 (101) 30 2nn6_H Exosome complex exonucl 91.0 0.22 9.1E-06 27.3 4.1 52 22-75 78-129 (308) 31 1hh2_P NUSA, N utilization sub 90.5 0.62 2.6E-05 24.1 6.1 36 37-75 132-167 (344) 32 2asb_A Transcription elongatio 89.7 0.49 2.1E-05 24.8 5.0 41 36-76 4-49 (251) 33 2hl7_A Cytochrome C-type bioge 88.3 0.39 1.6E-05 25.5 3.7 56 481-554 26-81 (84) 34 3h0g_G DNA-directed RNA polyme 88.0 0.96 4E-05 22.8 5.6 51 24-77 69-119 (172) 35 1a6f_A RNAse P protein, ribonu 87.6 1.3 5.3E-05 21.9 6.9 57 216-272 47-110 (119) 36 2nn6_G Exosome complex exonucl 86.8 1.4 5.8E-05 21.6 8.9 56 17-74 92-160 (289) 37 1k0r_A NUSA; two component arr 86.3 1.1 4.5E-05 22.5 5.0 38 37-74 128-170 (366) 38 2b8k_G B16, DNA-directed RNA p 85.5 1.6 6.8E-05 21.2 6.7 55 21-79 65-119 (215) 39 2pe4_A Hyaluronidase-1; hyalur 83.3 0.88 3.7E-05 23.0 3.5 102 328-449 223-327 (424) 40 1d6t_A Ribonuclease P, RNAse P 76.6 2.3 9.8E-05 20.1 3.8 57 216-272 46-109 (117) 41 2e5q_A PHD finger protein 19; 74.8 2.2 9.2E-05 20.3 3.3 39 38-76 19-57 (63) 42 1fcq_A Hyaluronoglucosaminidas 73.6 3 0.00013 19.3 3.8 32 418-449 294-326 (350) 43 2eqj_A Metal-response element- 72.2 3 0.00013 19.3 3.5 39 38-76 25-63 (66) 44 2atm_A Hyaluronoglucosaminidas 71.1 3.1 0.00013 19.3 3.3 31 418-448 289-320 (331) 45 3lcz_A YCZA, inhibitor of trap 69.5 1.4 5.8E-05 21.7 1.3 30 478-509 20-49 (53) 46 2bx9_A Anti-trap, AT, tryptoph 69.1 1.4 6E-05 21.6 1.3 29 478-508 20-48 (53) 47 2e5p_A Protein PHF1, PHD finge 68.8 4 0.00017 18.5 3.5 40 38-77 21-60 (68) 48 3d0f_A Penicillin-binding 1 tr 67.3 5.2 0.00022 17.7 6.2 41 34-76 28-68 (106) 49 1x4m_A FAR upstream element bi 66.7 5.3 0.00022 17.6 4.0 46 517-562 15-60 (94) 50 2r6f_A Excinuclease ABC subuni 66.2 5.4 0.00023 17.5 5.7 20 476-495 771-790 (972) 51 3fdr_A Tudor and KH domain-con 65.9 4.4 0.00018 18.2 3.3 35 39-75 41-77 (94) 52 3i2z_B RNA chaperone, negative 62.2 6.4 0.00027 17.0 6.2 35 43-77 6-41 (71) 53 2wac_A CG7008-PA; unknown func 59.6 6.1 0.00026 17.2 3.1 11 204-214 79-89 (218) 54 2ctk_A Vigilin; K homology typ 58.9 7.2 0.0003 16.7 4.9 47 518-565 18-64 (104) 55 2ctt_A DNAJ homolog subfamily 57.7 2.2 9.1E-05 20.3 0.5 14 481-494 67-80 (104) 56 2dgr_A Ring finger and KH doma 55.7 5.6 0.00024 17.4 2.3 40 516-555 9-48 (83) 57 2ctl_A Vigilin; K homology typ 53.6 6.6 0.00028 17.0 2.4 42 517-558 17-58 (97) 58 1vig_A Vigilin; RNA-binding pr 52.4 7.2 0.0003 16.7 2.4 39 516-554 4-42 (71) 59 1dtj_A RNA-binding neurooncolo 50.6 8.9 0.00037 16.0 2.7 42 518-559 4-45 (76) 60 1c9o_A CSPB, cold-shock protei 48.9 10 0.00044 15.6 4.9 33 44-76 3-35 (66) 61 3o2i_A Uncharacterized protein 48.4 11 0.00044 15.5 3.4 47 404-453 77-123 (125) 62 3ntk_A Maternal protein tudor; 48.3 7.3 0.00031 16.6 1.9 44 174-219 48-91 (169) 63 1g6p_A Cold shock protein TMCS 47.9 11 0.00045 15.5 5.9 32 44-75 2-33 (66) 64 2d9t_A Tudor domain-containing 47.8 8.6 0.00036 16.1 2.2 34 40-75 24-60 (78) 65 1we8_A Tudor and KH domain con 47.0 11 0.00046 15.4 3.3 44 518-561 16-59 (104) 66 1j4w_A FUSE binding protein; s 46.9 11 0.00047 15.4 4.5 41 517-557 104-144 (174) 67 2opv_A KHSRP protein; KH domai 46.7 11 0.00047 15.4 4.0 45 517-561 14-58 (85) 68 1ec6_A RNA-binding protein NOV 46.1 11 0.00048 15.3 4.5 42 517-558 3-44 (87) 69 2p2r_A Poly(RC)-binding protei 44.8 12 0.0005 15.2 5.4 41 516-556 4-44 (76) 70 2ctm_A Vigilin; K homology typ 44.5 11 0.00048 15.3 2.5 39 518-556 18-56 (95) 71 1j5k_A Heterogeneous nuclear r 44.3 12 0.00051 15.1 4.0 39 517-555 14-52 (89) 72 2eqk_A Tudor domain-containing 42.0 12 0.00049 15.2 2.2 34 39-74 35-70 (85) 73 2axy_A Poly(RC)-binding protei 41.7 13 0.00056 14.8 5.3 39 516-554 4-42 (73) 74 1nz0_A Ribonuclease P protein 41.5 13 0.00056 14.8 5.2 56 215-270 47-114 (118) 75 2ja9_A Exosome complex exonucl 41.5 13 0.00056 14.8 7.7 33 37-71 5-38 (175) 76 2hqx_A P100 CO-activator tudor 41.1 11 0.00046 15.4 1.9 22 41-62 80-103 (246) 77 1p9r_A General secretion pathw 39.5 6.9 0.00029 16.8 0.7 67 194-265 119-187 (418) 78 3d3r_A Hydrogenase assembly ch 39.2 14 0.00061 14.6 4.1 20 45-64 28-47 (103) 79 1exk_A DNAJ protein; extended 39.0 6.5 0.00027 17.0 0.5 16 480-495 49-64 (79) 80 3bdl_A Staphylococcal nuclease 38.9 13 0.00053 15.0 1.9 22 398-419 319-340 (570) 81 1mhn_A SurviVal motor neuron p 38.2 13 0.00057 14.8 2.0 34 39-74 17-53 (59) 82 3ea1_A 1-phosphatidylinositol 38.0 15 0.00063 14.5 7.5 76 348-435 208-283 (298) 83 2kcm_A Cold shock domain famil 37.9 15 0.00063 14.4 6.3 31 44-74 2-32 (74) 84 3krm_A Insulin-like growth fac 36.8 16 0.00066 14.3 4.1 39 518-556 86-124 (163) 85 1tua_A Hypothetical protein AP 36.1 16 0.00068 14.3 3.4 13 402-414 145-157 (191) 86 2hh2_A KH-type splicing regula 35.0 8.3 0.00035 16.2 0.5 42 515-556 5-46 (107) 87 1x4n_A FAR upstream element bi 34.7 17 0.00071 14.1 3.2 40 517-556 15-54 (92) 88 2cte_A Vigilin; K homology typ 34.2 12 0.00049 15.2 1.2 37 517-553 17-53 (94) 89 2jvz_A KH type-splicing, FAR u 34.0 17 0.00073 14.0 2.7 37 519-555 93-129 (164) 90 2vnu_D Exosome complex exonucl 32.4 18 0.00077 13.9 5.1 25 39-63 29-53 (760) 91 2vy9_A Anti-sigma-factor antag 32.2 18 0.00078 13.8 9.1 89 413-532 4-92 (123) 92 2gez_B L-asparaginase beta sub 31.6 17 0.00073 14.0 1.7 21 397-419 55-75 (133) 93 3cbg_A O-methyltransferase; cy 31.5 19 0.0008 13.8 5.0 55 415-471 170-232 (232) 94 1g5v_A SurviVal motor neuron p 31.4 19 0.0008 13.8 2.4 36 39-76 24-62 (88) 95 1ka9_F Imidazole glycerol phos 31.2 19 0.0008 13.7 4.3 36 409-445 156-193 (252) 96 1zzk_A Heterogeneous nuclear r 31.0 18 0.00076 13.9 1.7 38 518-555 8-45 (82) 97 2e3u_A PH-DIM2P, hypothetical 31.0 19 0.00081 13.7 3.9 19 245-263 74-92 (219) 98 2vf7_A UVRA2, excinuclease ABC 30.5 12 0.00048 15.3 0.6 19 477-495 657-675 (842) 99 2coa_A Protein kinase C, D2 ty 28.8 17 0.0007 14.1 1.2 55 12-68 23-77 (125) 100 1nlt_A Protein YDJ1, mitochond 28.0 8.6 0.00036 16.1 -0.4 12 482-493 81-92 (248) 101 2anr_A Neuro-oncological ventr 27.8 22 0.00092 13.3 4.9 46 517-562 104-149 (178) 102 3a0j_A Cold shock protein; OB- 27.3 22 0.00093 13.3 6.1 34 44-77 3-36 (73) 103 2x5c_A Hypothetical protein OR 26.5 11 0.00048 15.3 0.0 20 259-278 101-120 (131) 104 1wvn_A Poly(RC)-binding protei 25.7 24 0.001 13.1 3.9 39 518-556 7-45 (82) 105 2jr7_A DPH3 homolog; DESR1, CS 25.6 19 0.00081 13.7 1.1 19 477-497 19-37 (89) 106 1h95_A CSD, Y-box binding prot 25.5 24 0.001 13.1 5.5 39 38-76 4-43 (79) 107 2hh3_A KH-type splicing regula 23.7 26 0.0011 12.8 3.3 40 517-556 11-50 (106) 108 3cam_A Cold-shock domain famil 23.1 26 0.0011 12.8 6.0 33 44-76 3-36 (67) 109 1af7_A Chemotaxis receptor met 22.8 27 0.0011 12.7 1.6 35 346-380 223-257 (274) 110 2qv3_A VACA, vacuolating cytot 22.7 15 0.00064 14.4 0.1 38 37-74 97-137 (457) 111 2cpq_A FragIle X mental retard 22.5 27 0.0011 12.7 3.5 39 518-556 16-54 (91) 112 2ytv_A Cold shock domain-conta 21.6 28 0.0012 12.6 4.0 33 40-74 6-40 (79) 113 2x4d_A HLHPP, phospholysine ph 21.6 28 0.0012 12.6 1.8 19 244-262 48-66 (271) 114 2diq_A Tudor and KH domain-con 21.0 26 0.0011 12.8 1.0 33 40-74 47-81 (110) 115 2jzx_A Poly(RC)-binding protei 20.3 30 0.0013 12.4 6.4 39 518-556 90-128 (160) No 1 >2bx2_L Ribonuclease E, RNAse E; RNA-binding, RNA turnover, RNA processing, hydrolase, endonuclease; 2.85A {Escherichia coli} PDB: 2c0b_L 2c4r_L 2vmk_A 2vrt_A 1slj_A 1smx_A 1sn8_A Probab=100.00 E-value=0 Score=1104.07 Aligned_cols=495 Identities=43% Similarity=0.678 Sum_probs=472.4 Q ss_pred CCCEEEEECCCCCEEEEEEEECCEEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCCCCC Q ss_conf 98526896528960799999899899999607334604287879899783638823135327897713022213712102 Q gi|254780751|r 1 MANKMLIDASHVEETRVVVLRDNRVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPDYYQ 80 (723) Q Consensus 1 M~k~~lI~~~~~~e~Rvav~e~g~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~y~~ 80 (723) | |+||||+++|+|||||+++||+|+||++|+.+..+++||||+|||+||+|||||||||||.+|+||||++||+|+||+ T Consensus 8 M-k~ilI~~~~~~e~RvAlle~g~l~e~~ie~~~~~~~vGnIY~GrV~~v~pgl~AAFVdiG~~k~gFL~~~di~~~~~~ 86 (517) T 2bx2_L 8 M-KRMLINATQQEELRVALVDGQRLYDLDIESPGHEQKKANIYKGKITRIEPSLEAAFVDYGAERHGFLPLKEIAREYFP 86 (517) T ss_dssp C-EEEEEECSCTTCEEEEEEETTEEEEEEEECSSSCCCTTCEEEEEEEEEETTTTEEEEESSSSSCEEEEGGGSCGGGCC T ss_pred C-CCEEEECCCCCEEEEEEEECCEEEEEEEECCCCCCCCCCEEEEEEEECCCCCCEEEEEECCCCCEEEEHHHCCHHHCC T ss_conf 1-014887589971899999999999999942888888798899999423798866999618997148886884845415 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC Q ss_conf 89889999999888631111100000001112233444334454222233445543322223432112211121100001 Q gi|254780751|r 81 IPFSDRQALLKESNIAQTDSEAVADDVTHGDVTIPNDHSLEEVAPIANFSQETEEESIISANNDVVSNVEDVKGGSPEDV 160 (723) Q Consensus 81 ip~~d~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (723) .+. T Consensus 87 ~~~----------------------------------------------------------------------------- 89 (517) T 2bx2_L 87 ANY----------------------------------------------------------------------------- 89 (517) T ss_dssp -------------------------------------------------------------------------------- T ss_pred CCC----------------------------------------------------------------------------- T ss_conf 552----------------------------------------------------------------------------- Q ss_pred CCCCCCCCEEEECCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCEEEECCCCHHHHHHHHHHHHHHH Q ss_conf 22344442133106888579998403332345641012334576523442278875124204688689999999998630 Q gi|254780751|r 161 PKKFKRQYCIQEVIKNRQILLVQIVKEERGNKGAAVTTYLSLAGRYSVLMPNTSKGETISRKITNPVDRKNLKEIARGLE 240 (723) Q Consensus 161 ~~~~~~~~~i~~~lk~gq~ilVQV~ke~~~~Kga~lT~~isl~Gry~Vl~P~~~~~~~iSrki~~~~~r~~l~~~~~~~~ 240 (723) ...++++|+++|++||.|||||+|||+++|||+||++|||+|||+||||+.+ ++++|+||.+.++|++|+.++..+. T Consensus 90 --~~~~~~~I~~~l~~Gq~ilVQV~ke~~~~Kg~~lT~~Isl~GrylVl~P~~~-~i~~sski~~~~er~~l~~~l~~~~ 166 (517) T 2bx2_L 90 --SAHGRPNIKDVLREGQEVIVQIDKEERGNKGAALTTFISLAGSYLVLMPNNP-RAGGISRRIEGDDRTELKEALASLE 166 (517) T ss_dssp ------CCCGGGTCCTTCEEEEEEEECCCTTCCCEEESSCCEECSSEEEETTCT-TCCEECTTCC------HHHHHTTSC T ss_pred --CCCCCCCHHHCCCCCCEEEEEECCCCCCCCCCCEECEEEECCCCEEECCCCC-CCCEECCCCCHHHHHHHHHHHHHHC T ss_conf --2245655544078999899997246767777655240640787468745788-6111504477588999999998635 Q ss_pred CCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHCCCCCCEEECCCCCHHHH Q ss_conf 02587169985045575799999999999999987764201432212345645888888752376631111035320366 Q gi|254780751|r 241 VPAGMGVILRTAGASRTKIEIKRDFEYLMRLWDNVRELALNSVAPHLVYEEGNLIKRAIRDLYCKDISEIIVSGEKGYRE 320 (723) Q Consensus 241 ~~~~~G~IiRT~a~~~~~~~l~~d~~~L~~~w~~i~~~~~~~~~p~li~~~~~~~~~~ird~~~~~~~~i~vd~~~~~~~ 320 (723) .|+++|+|+||+|++++.++|..|+.+|..+|+.|.+.+...++|+|||++.+++.+++||+++.++..|+||+...|.. T Consensus 167 ~pe~~G~IiRT~a~~~~~~~l~~d~~~L~~~w~~i~~~~~~~~~P~ll~~~~~~~~r~lrd~~~~~~~~i~vd~~~~~~~ 246 (517) T 2bx2_L 167 LPEGMGLIVRTAGVGKSAEALQWDLSFRLKHWEAIKKAAESRPAPFLIHQESNVIVRAFRDYLRQDIGEILIDNPKVLEL 246 (517) T ss_dssp CCTTCEEEECGGGGGCCHHHHHHHHHHHHHHHHHHHHHHHTSCSCEEEECCCCHHHHHHHHHCCTTEEEEEESCHHHHHH T ss_pred CCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCHHHHHHHHHCCHHHHCCCCCCHHHHHH T ss_conf 89884389987556999999999999999999888875424898637862874999999986360332233676889999 Q ss_pred HHHHHHH-HHHCCCCHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCEEEEEEECCCCCCCCCCCHHHH Q ss_conf 7888987-631012112201344203567769999999842221436786499832880699982375544455511479 Q gi|254780751|r 321 AKDFMKL-LMPSYARIVRQYEDPHPIFFRSGIEVQLDSLHQTEVTLPSRGYVIINQTEALVSIDVNSGRSTREHCIEDTA 399 (723) Q Consensus 321 ~~~~~~~-~~p~~~~~v~~~~~~~~lf~~y~ie~~i~~~~~~~V~L~sGG~lvIe~TEALt~IDVNSG~~~~~~~~e~t~ 399 (723) +++|+.. .+|++..++++|.+..|||+.|+|+.||+.+|+++||||||||||||+||||||||||||+++++++.++|+ T Consensus 247 ~~~~~~~~~~~~~~~~v~~y~~~~~lF~~y~Ie~~I~~ll~~~V~L~sGG~ivIe~TEALt~IDVNSG~~~~~~~~eet~ 326 (517) T 2bx2_L 247 ARQHIAALGRPDFSSKIKLYTGEIPLFSHYQIESQIESAFQREVRLPSGGSIVIDSTEALTAIDINSARATRGGDIEETA 326 (517) T ss_dssp HHHHHHHTTCHHHHTTEEECCCSSCHHHHTTCHHHHHHTTCSEEECTTSCEEEEEECSSCEEEEEECCC----CCHHHHH T ss_pred HHHHHHHCCCCCCCCEEEEECCCCCHHHHHCCHHHHHHHHCCCEECCCCCEEEEECCCEEEEEEECCCCCCCCCCHHHHH T ss_conf 87531101586311648996699896776361999998643654338886899970440489870476645677778889 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCEEEEECCCCCCCHHHH Q ss_conf 99999999999998731036863896033479888899999999997312787289986048614898515666301121 Q gi|254780751|r 400 LQTNLEAAEEIARQLRLRDLAGLIVVDFIDMEEKKNNRSVEKKLKESLKKDRARVQVGAISNFGLLEMSRQRIRSSVLES 479 (723) Q Consensus 400 l~tNleAA~EIaRQlRLRnlgGiIvIDFIdM~~~~~~~~v~~~l~~~l~~D~~~~~v~~it~lGLlEltRkR~r~sl~e~ 479 (723) |+||||||+||||||||||||||||||||||++.+|++.|++.|+++|++|+++|+|++||+||||||||||.|+||.++ T Consensus 327 l~tNleAa~EIaRQLRLRnigGiIvIDFIdM~~~~~~~~v~~~l~~~l~~D~~~~~v~~~T~lGLvEmTRkR~r~sl~~~ 406 (517) T 2bx2_L 327 FNTNLEAADEIARQLRLRDLGGLIVIDFIDMTPVRHQRAVENRLREAVRQDRARIQISHISRFGLLEMSRQRLSPSLGES 406 (517) T ss_dssp HHHHHHHHHHHHHHHHHTTCCEEEEEECCCCSSHHHHHHHHHHHHHHTTTCSSCEEEEEECTTSEEEEEECCCSCCHHHH T ss_pred HHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCEEECCCCCCCEEEEECCCCCCCHHHH T ss_conf 99999999999999874478752999725767587899999999999841998503356677640899626668772322 Q ss_pred HCCCCCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHCCHHHHHHHHHHH-HCCEEEEEECCCC Q ss_conf 002367546537860611468998878899973036431013576999998730237999999998-4887999847877 Q gi|254780751|r 480 TTKVCTYCKGAGYIRSQSSVALSILRSVEEYLLQYTAHNIIVHTHSDVVLYLLNQKRATIVEYEAR-FGVSINVVIGIEL 558 (723) Q Consensus 480 ~~~~c~~c~g~g~~~~~~~~~~~~~r~i~~~~~~~~~~~i~v~~~~~va~~lln~kr~~l~~lE~~-~~~~I~i~~d~~l 558 (723) ++++||+|+|+|+|+|.++++++|+|.|++.+.+.+.+.+.+.+||+|+.||+|+++.+|.++|.+ ++++|.|.+|++| T Consensus 407 ~~~~Cp~C~G~G~v~s~~~~~~~i~r~i~~~~~~~~~~~i~i~~~~~v~~~l~~~~~~~l~~~e~~~~~~~i~i~~~~~l 486 (517) T 2bx2_L 407 SHHVCPRCSGTGTVRDNESLSLSILRLIEEEALKENTQEVHAIVPVPIASYLLNEKRSAVNAIETRQDGVRCVIVPNDQM 486 (517) T ss_dssp HCCCCSSSSSSSCCCCHHHHHHHHHHHHHHHHHSTTEEEEEEEECHHHHHHHTTTTHHHHHHHHHHTTTCEEEEEECTTC T ss_pred CCCCCCCCCCEEEECCHHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHHHHCCHHHHHHHHHHHCCCEEEEEECCCC T ss_conf 14348986886798788999999999999998766885799998999999998422999999999875917999847888 Q ss_pred CCCCEEEEECCCCCCCCC Q ss_conf 886338971554433333 Q gi|254780751|r 559 ADKLFYIEKGSPVQALVN 576 (723) Q Consensus 559 ~~~~f~Ier~~~~~~~~~ 576 (723) +.++|.|.+.+..+.... T Consensus 487 ~~~~~~i~~~~~~~~~~~ 504 (517) T 2bx2_L 487 ETPHYHVLRVRKGEETPT 504 (517) T ss_dssp CTTCCEEEEEETTCCCCC T ss_pred CCCCEEEEECCCCCCCCC T ss_conf 777529998568985565 No 2 >2cqo_A Nucleolar protein of 40 kDa; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=98.24 E-value=1.6e-06 Score=62.92 Aligned_cols=41 Identities=15% Similarity=0.173 Sum_probs=35.0 Q ss_pred CCCCCEEEEEEEEECCCCCEEEEEEC-CCCCCCCCHHHCCCCCC Q ss_conf 04287879899783638823135327-89771302221371210 Q gi|254780751|r 37 QIKGNIYLAKVTRVEPSLQAAFVDYG-GNRHGFLPFLEIHPDYY 79 (723) Q Consensus 37 ~~~GnIY~G~V~~V~p~lqAAFVdiG-~~k~gFL~~~ei~~~y~ 79 (723) .-+|.||.|+|++|.+ -.|||+|+ ....||||.+||.++|. T Consensus 20 pe~g~I~~G~V~~V~~--~G~FV~l~g~~~dGlvhisels~~~v 61 (119) T 2cqo_A 20 PALYTIFQGEVAMVTD--YGAFIKIPGCRKQGLVHRTHMSSCRV 61 (119) T ss_dssp CCTTCEEEEEEEEEET--TEEEEECTTCSSCEEEEHHHHCSSCC T ss_pred CCCCCEEEEEEEEEEC--CEEEEEECCCCCEEEEEHHHHCCCCC T ss_conf 8789579999999965--28899978987208986668046666 No 3 >2k4k_A GSP13, general stress protein 13; cytoplasm, stress response, RNA binding protein; NMR {Bacillus subtilis} Probab=98.09 E-value=5.1e-06 Score=59.40 Aligned_cols=43 Identities=26% Similarity=0.429 Sum_probs=37.7 Q ss_pred CCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCCCC Q ss_conf 460428787989978363882313532789771302221371210 Q gi|254780751|r 35 KKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPDYY 79 (723) Q Consensus 35 ~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~y~ 79 (723) .+.-+|.||.|+|++|.+. +|||+++.+..||||.+|+..+|. T Consensus 3 ~k~~vG~iv~g~V~~v~~~--G~fV~l~~g~~Glv~~sels~~~~ 45 (130) T 2k4k_A 3 AKFEVGSVYTGKVTGLQAY--GAFVALDEETQGLVHISEVTHGFV 45 (130) T ss_dssp CCCCTTCEEEEEEEEEETT--EEEEEEETTEEEEEEGGGTSSSCC T ss_pred CCCCCCCEEEEEEEEEECC--EEEEEECCCCEEEEEEEEECCCCC T ss_conf 6468999999999999788--799998999789988102022122 No 4 >2eqs_A ATP-dependent RNA helicase DHX8; S1 domain, OB-fold, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=97.96 E-value=2.9e-05 Score=54.21 Aligned_cols=43 Identities=26% Similarity=0.414 Sum_probs=35.6 Q ss_pred CCCCCCCEEEEEEEEECCCCCEEEEEECC---CCCCCCCHHHCCCCCC Q ss_conf 46042878798997836388231353278---9771302221371210 Q gi|254780751|r 35 KKQIKGNIYLAKVTRVEPSLQAAFVDYGG---NRHGFLPFLEIHPDYY 79 (723) Q Consensus 35 ~~~~~GnIY~G~V~~V~p~lqAAFVdiG~---~k~gFL~~~ei~~~y~ 79 (723) ....+|.||.|+|++|.+ -+|||+++. +-.||+|.+|+.+++| T Consensus 8 e~~evG~i~~g~V~~V~~--fG~FV~l~~~~~~~~GlvhiSels~~~~ 53 (103) T 2eqs_A 8 EEPTIGDIYNGKVTSIMQ--FGCFVQLEGLRKRWEGLVHISELRREGR 53 (103) T ss_dssp SSCCTTCEEEEEEEEECS--SCEEEEECSSSSCCEEEECGGGTSSSSC T ss_pred CCCCCCCEEEEEEEEEEC--CEEEEEECCCCCCCCCCCCHHHHCCCCC T ss_conf 568899999999999946--5789994686567313113657324444 No 5 >3aev_A Translation initiation factor 2 subunit alpha; proteins-rRNA complex, 16S rRNA, RNA-binding; 2.80A {Pyrococcus horikoshii} PDB: 1yz6_A Probab=97.91 E-value=2e-05 Score=55.33 Aligned_cols=41 Identities=20% Similarity=0.436 Sum_probs=35.6 Q ss_pred CCCCCEEEEEEEEECCCCCEEEEEECC--CCCCCCCHHHCCCCCC Q ss_conf 042878798997836388231353278--9771302221371210 Q gi|254780751|r 37 QIKGNIYLAKVTRVEPSLQAAFVDYGG--NRHGFLPFLEIHPDYY 79 (723) Q Consensus 37 ~~~GnIY~G~V~~V~p~lqAAFVdiG~--~k~gFL~~~ei~~~y~ 79 (723) .-+|+|+.|+|++|.+. +|||+++. +..||+|.+||.+.+. T Consensus 9 Pe~G~~V~g~V~~I~~~--GafV~l~e~~gieGli~~Seis~~~v 51 (275) T 3aev_A 9 PEEGEFVVATVKRIHNY--GAFLELDEYPGKEAFMHISEVASTWV 51 (275) T ss_dssp CCTTCEEEEEEEEEETT--EEEEEETTSTTCEEEEEGGGSCSSCC T ss_pred CCCCCEEEEEEEEEECC--EEEEEECCCCCCEEEEEHHHCCCCCC T ss_conf 99999999999999724--18999736799479989898787420 No 6 >1kl9_A Eukaryotic translation initiation factor 2 subunit 1; OB fold, helical domain; 1.90A {Homo sapiens} SCOP: a.60.14.1 b.40.4.5 Probab=97.83 E-value=2.9e-05 Score=54.12 Aligned_cols=40 Identities=15% Similarity=0.237 Sum_probs=35.1 Q ss_pred CCCCCEEEEEEEEECCCCCEEEEEEC--CCCCCCCCHHHCCCCC Q ss_conf 04287879899783638823135327--8977130222137121 Q gi|254780751|r 37 QIKGNIYLAKVTRVEPSLQAAFVDYG--GNRHGFLPFLEIHPDY 78 (723) Q Consensus 37 ~~~GnIY~G~V~~V~p~lqAAFVdiG--~~k~gFL~~~ei~~~y 78 (723) .-+|.|+.|+|.+|.+. +|||+++ .+..||||.+||.+.+ T Consensus 13 P~~G~iv~g~V~~i~~~--G~fV~l~ey~gi~Glih~seis~~~ 54 (182) T 1kl9_A 13 PEVEDVVMVNVRSIAEM--GAYVSLLEYNNIEGMILLSELSRRR 54 (182) T ss_dssp CCTTCEEEEEEEEECSS--EEEEEETTTTTEEEEEEGGGC---- T ss_pred CCCCCEEEEEEEEEECC--EEEEEECCCCCCEEEEEHHHHCCCC T ss_conf 99989999999999666--7999965779937998789947775 No 7 >1q8k_A Eukaryotic translation initiation factor 2 subunit 1; NMR {Homo sapiens} SCOP: a.60.14.1 b.40.4.5 d.58.51.1 Probab=97.74 E-value=5.8e-05 Score=52.08 Aligned_cols=40 Identities=15% Similarity=0.261 Sum_probs=34.6 Q ss_pred CCCCCEEEEEEEEECCCCCEEEEEEC--CCCCCCCCHHHCCCCC Q ss_conf 04287879899783638823135327--8977130222137121 Q gi|254780751|r 37 QIKGNIYLAKVTRVEPSLQAAFVDYG--GNRHGFLPFLEIHPDY 78 (723) Q Consensus 37 ~~~GnIY~G~V~~V~p~lqAAFVdiG--~~k~gFL~~~ei~~~y 78 (723) .-+|.|+.|+|++|.+. +|||++. .+..||||++||.+.+ T Consensus 11 Pe~GdiV~g~V~~i~~~--GafV~L~ey~gieGli~isEls~~~ 52 (308) T 1q8k_A 11 PEVEDVVMVNVRSIQEM--GAYVSLLEYNNIEGMIHLSELSRRR 52 (308) T ss_dssp CSSCCEEEEEEEEEETT--EEEEESCTTTSCCEEECGGGTSCSS T ss_pred CCCCCEEEEEEEEEECC--EEEEEECCCCCCEEEEEHHHCCCCC T ss_conf 99989999999999735--5999971799908998989878754 No 8 >3cw2_C Translation initiation factor 2 subunit alpha; AIF2, intact AIF2, initiation factor 2 alpha subunit, initiation factor 2 beta subunit; 2.80A {Sulfolobus solfataricus} PDB: 2aho_B Probab=97.73 E-value=5.4e-05 Score=52.27 Aligned_cols=41 Identities=27% Similarity=0.526 Sum_probs=35.1 Q ss_pred CCCCCCEEEEEEEEECCCCCEEEEEEC--CCCCCCCCHHHCCCCC Q ss_conf 604287879899783638823135327--8977130222137121 Q gi|254780751|r 36 KQIKGNIYLAKVTRVEPSLQAAFVDYG--GNRHGFLPFLEIHPDY 78 (723) Q Consensus 36 ~~~~GnIY~G~V~~V~p~lqAAFVdiG--~~k~gFL~~~ei~~~y 78 (723) -.-+|.++.|+|++|.+. +|||+++ .+..||+|++||++.+ T Consensus 8 ~Pe~G~iv~g~V~~i~~~--G~fV~l~ey~~~eG~i~~sEis~~~ 50 (266) T 3cw2_C 8 LPSEGEILIATVKQVFDY--GSYVSLDEYGGLQAFLPWSEVSSKW 50 (266) T ss_dssp SCCTTCEEEEEEEECCSS--SBEEEETTTTSEECBBCGGGSSCSS T ss_pred CCCCCCEEEEEEEEEECC--EEEEEECCCCCEEEEEEHHHCCCCC T ss_conf 989999999999999833--5999975779908998989968864 No 9 >2a19_A EIF-2- alpha, eukaryotic translation initiation factor 2 alpha subunit; transferase, protein biosynthesis, protein synthesis/transferase complex; HET: TPO ANP; 2.50A {Saccharomyces cerevisiae} PDB: 2a1a_A* 1q46_A Probab=97.70 E-value=5.3e-05 Score=52.36 Aligned_cols=39 Identities=18% Similarity=0.270 Sum_probs=34.7 Q ss_pred CCCCEEEEEEEEECCCCCEEEEEEC--CCCCCCCCHHHCCCCC Q ss_conf 4287879899783638823135327--8977130222137121 Q gi|254780751|r 38 IKGNIYLAKVTRVEPSLQAAFVDYG--GNRHGFLPFLEIHPDY 78 (723) Q Consensus 38 ~~GnIY~G~V~~V~p~lqAAFVdiG--~~k~gFL~~~ei~~~y 78 (723) -+|.|+.|+|++|.+. +|||+++ .+-.||+|.+|+.+.+ T Consensus 14 ~~G~iv~g~V~~i~~~--G~fV~l~~~~gieg~v~~sels~~~ 54 (175) T 2a19_A 14 EIDDIVMVNVQQIAEM--GAYVKLLEYDNIEGMILLSELSRRR 54 (175) T ss_dssp CTTCEEEEEEEEEETT--EEEEEETTTTTCEEEEECC------ T ss_pred CCCCEEEEEEEEEECC--EEEEEECCCCCEEEEEEHHHHCCCC T ss_conf 9989999999999888--7999977879849999868947565 No 10 >2k52_A Uncharacterized protein MJ1198; metal-binding, zinc, zinc-finger, structural genomics, PSI-2, protein structure initiative; NMR {Methanocaldococcus jannaschii} Probab=97.63 E-value=9.7e-05 Score=50.51 Aligned_cols=38 Identities=26% Similarity=0.384 Sum_probs=34.2 Q ss_pred CCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCC Q ss_conf 4287879899783638823135327897713022213712 Q gi|254780751|r 38 IKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPD 77 (723) Q Consensus 38 ~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~ 77 (723) .+|+||.|+|++|.+. +|||+++.+-.||+|.+|+..+ T Consensus 4 k~G~iv~G~V~~i~~~--G~fV~l~~~i~Glv~~sels~~ 41 (80) T 2k52_A 4 EPGKFYKGVVTRIEKY--GAFINLNEQVRGLLRPRDMISL 41 (80) T ss_dssp CTTCEEEEEEEEEETT--EEEEEEETTEEEEECGGGCSSC T ss_pred CCCCEEEEEEEEEECC--EEEEECCCCEEEEEEHHHHCCC T ss_conf 7899999999999675--7999929998999997993885 No 11 >2khj_A 30S ribosomal protein S1; OB fold, acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli} Probab=97.50 E-value=0.0002 Score=48.31 Aligned_cols=41 Identities=32% Similarity=0.361 Sum_probs=35.6 Q ss_pred CCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCCC Q ss_conf 6042878798997836388231353278977130222137121 Q gi|254780751|r 36 KQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPDY 78 (723) Q Consensus 36 ~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~y 78 (723) ..-+|.|+.|+|.+|.+. .+||+++.+-.||+|++|+..++ T Consensus 28 ~~k~G~iv~G~V~~I~~~--Gv~V~l~~~i~G~i~~~els~~~ 68 (109) T 2khj_A 28 LNKKGAIVTGKVTAVDAK--GATVELADGVEGYLRASEASRDR 68 (109) T ss_dssp TCCSSSEEEEEEEEECSS--CEEEECSTTCBCCBCTTCCCSSS T ss_pred HCCCCCEEEEEEEEEECC--EEEEEECCCCEEEEEHHHCCCCC T ss_conf 489999999999999897--79999799978998689927553 No 12 >1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide transferase, ATP-GTP diphosphotransferase RNA processing, RNA degradation; 2.5A {Streptomyces antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4 d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A Probab=97.47 E-value=2e-05 Score=55.22 Aligned_cols=41 Identities=20% Similarity=0.162 Sum_probs=32.9 Q ss_pred CCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECCC Q ss_conf 31013576999998730237999999998488799984787 Q gi|254780751|r 517 HNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGIE 557 (723) Q Consensus 517 ~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~~ 557 (723) +-..+.++|+-..-+.+..-..|.+|.+++|++|.|..|-. T Consensus 598 ~~~~~~i~~~ki~~vIG~gGk~Ik~i~e~tg~~Idi~ddg~ 638 (757) T 1e3p_A 598 RIITVKIPVDKIGEVIGPKRQMINQIQEDTGAEITIEDDGT 638 (757) T ss_dssp BCCCC------------------CTTCCCCCSCC------- T ss_pred EEEEEEECHHHHHHEECCCCHHHHHHHHHHCCEEEEECCCE T ss_conf 68999989577010378882889999998898899828938 No 13 >3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA degradation, kinase, transferase; 2.60A {Escherichia coli} PDB: 1sro_A Probab=97.43 E-value=1.6e-05 Score=55.90 Aligned_cols=42 Identities=10% Similarity=0.103 Sum_probs=35.0 Q ss_pred CCCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECCC Q ss_conf 431013576999998730237999999998488799984787 Q gi|254780751|r 516 AHNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGIE 557 (723) Q Consensus 516 ~~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~~ 557 (723) .+-.++.+||+-..-+.+..-..|..|.+.+|++|.|.-|-. T Consensus 559 P~~~~~~i~~~ki~~~IG~gGk~I~~i~e~tg~~idi~d~g~ 600 (723) T 3cdi_A 559 PRIHTIKINPDKIKDVIGKGGSVIRALTEETGTTIEIEDDGT 600 (723) T ss_dssp ------------------------------------------ T ss_pred CEEEEEEECHHHHHHEECCCHHHHHHHHHHHCCEEEEECCEE T ss_conf 727999978788555068870889999998898899838838 No 14 >1wi5_A RRP5 protein homolog; S1 domain, OB-fold, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Homo sapiens} SCOP: b.40.4.5 Probab=97.30 E-value=0.00031 Score=46.99 Aligned_cols=86 Identities=19% Similarity=0.151 Sum_probs=63.3 Q ss_pred CCCCCCCEEEEEEEEECCCCCEEEEEEC-CCCCCCCCHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC Q ss_conf 4604287879899783638823135327-897713022213712102898899999998886311111000000011122 Q gi|254780751|r 35 KKQIKGNIYLAKVTRVEPSLQAAFVDYG-GNRHGFLPFLEIHPDYYQIPFSDRQALLKESNIAQTDSEAVADDVTHGDVT 113 (723) Q Consensus 35 ~~~~~GnIY~G~V~~V~p~lqAAFVdiG-~~k~gFL~~~ei~~~y~~ip~~d~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 113 (723) ..-..|.|+.|.|++|.+. .+||++| .+-.||||..++..+.+- T Consensus 17 ~~l~~G~iv~G~V~~i~~~--G~~V~~g~~~~~G~l~~~e~~~~~~~--------------------------------- 61 (119) T 1wi5_A 17 EALKPGMLLTGTVSSLEDH--GYLVDIGVDGTRAFLPLLKAQEYIRQ--------------------------------- 61 (119) T ss_dssp TTCCTTCEEEEEEEEECSS--EEEEECCCSSCEEEEEHHHHHHHHHH--------------------------------- T ss_pred CCCCCCCEEEEEEEEECCC--EEEEEECCCCCCCEECHHHHHCCCCC--------------------------------- T ss_conf 0078998999999983398--79998067543230125564123444--------------------------------- Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCEEEEEEECCCCCCCC Q ss_conf 33444334454222233445543322223432112211121100001223444421331068885799984033323456 Q gi|254780751|r 114 IPNDHSLEEVAPIANFSQETEEESIISANNDVVSNVEDVKGGSPEDVPKKFKRQYCIQEVIKNRQILLVQIVKEERGNKG 193 (723) Q Consensus 114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~lk~gq~ilVQV~ke~~~~Kg 193 (723) ....+.+++||.|.|.|.+-....+- T Consensus 62 ------------------------------------------------------~~~~~~~~vGq~v~~~V~~vd~~~~~ 87 (119) T 1wi5_A 62 ------------------------------------------------------KNKGAKLKVGQYLNCIVEKVKGNGGV 87 (119) T ss_dssp ------------------------------------------------------HSSSCCCCTTCEEEEEEEECCTTSCE T ss_pred ------------------------------------------------------CCCCCCCCCCCEEEEEEEEEECCCCE T ss_conf ------------------------------------------------------57432325899999999999899999 Q ss_pred CCCCCCCCCCCCCEEE Q ss_conf 4101233457652344 Q gi|254780751|r 194 AAVTTYLSLAGRYSVL 209 (723) Q Consensus 194 a~lT~~isl~Gry~Vl 209 (723) ..||..-+.......- T Consensus 88 v~LS~k~~~~~~~~~~ 103 (119) T 1wi5_A 88 VSLSVGHSEVSTAIAT 103 (119) T ss_dssp EEEECCCCCSCCCCCC T ss_pred EEEEECHHHHHHHHHH T ss_conf 9996147872034554 No 15 >2khi_A 30S ribosomal protein S1; acetylation, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Escherichia coli} Probab=97.28 E-value=0.00045 Score=45.90 Aligned_cols=43 Identities=19% Similarity=0.241 Sum_probs=36.0 Q ss_pred CCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCC Q ss_conf 334604287879899783638823135327897713022213712 Q gi|254780751|r 33 EHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPD 77 (723) Q Consensus 33 ~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~ 77 (723) -....-+|.||.|+|++|.+. +|||+++.+-.||+|++|+.+. T Consensus 24 ~~~k~~vG~iv~G~V~~I~d~--G~fV~l~~~i~Gli~~sels~~ 66 (115) T 2khi_A 24 IAKRYPEGTKLTGRVTNLTDY--GCFVEIEEGVEGLVHVSEMDWT 66 (115) T ss_dssp SSCSSCSSCEEEEEEEEEETT--EEEEECSTTCEEEEETTSSSCS T ss_pred HHHHCCCCCEEEEEEEEEECC--EEEEEECCCCEEEEEEEEECCC T ss_conf 996589989999999999686--6999979997899998630353 No 16 >3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain, transcription, RNA binding protein; 2.27A {Pseudomonas aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5 c.55.3.13 PDB: 3bzk_A 2oce_A Probab=97.16 E-value=9.4e-05 Score=50.63 Aligned_cols=27 Identities=26% Similarity=0.383 Sum_probs=16.4 Q ss_pred HHHHHHHHHHHHCCCCCCCCCCEEEEECCCEEEEEEECCCC Q ss_conf 77699999998422214367864998328806999823755 Q gi|254780751|r 348 RSGIEVQLDSLHQTEVTLPSRGYVIINQTEALVSIDVNSGR 388 (723) Q Consensus 348 ~y~ie~~i~~~~~~~V~L~sGG~lvIe~TEALt~IDVNSG~ 388 (723) .-.+...++..+...|. .|-+|||+.. T Consensus 480 q~~L~~~L~~vv~~~VN--------------~VGVDiN~As 506 (785) T 3bzc_A 480 QLKLARSLDAVVEDCVN--------------AVGVDVNTAS 506 (785) T ss_dssp HHHHHHHHHHHHHHHHH--------------HHCEETTTCC T ss_pred HHHHHHHHHHHHHHHHH--------------CCCEEHHHHH T ss_conf 99999999999997840--------------4556188614 No 17 >3go5_A Multidomain protein with S1 RNA-binding domains; joint center for structural genomics, protein structure initiative, PSI-2; HET: MSE; 1.40A {Streptococcus pneumoniae TIGR4} Probab=96.68 E-value=0.0099 Score=36.57 Aligned_cols=62 Identities=15% Similarity=0.164 Sum_probs=41.7 Q ss_pred CCEEEEEEEEC--CEEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECC-CCCCCCCHHHCCCC Q ss_conf 96079999989--98999996073346042878798997836388231353278-97713022213712 Q gi|254780751|r 12 VEETRVVVLRD--NRVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGG-NRHGFLPFLEIHPD 77 (723) Q Consensus 12 ~~e~Rvav~e~--g~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~-~k~gFL~~~ei~~~ 77 (723) +++..|-|..| +++.- ....-.-.+|.+..|+|..|.++. +||||+|. ++.+|+|+++.++. T Consensus 43 Gd~i~Vfvy~D~e~r~~a---T~~~p~~~vGe~~~~kVv~v~~~~-GaFvD~Gl~~kdl~vp~~~~~~~ 107 (285) T 3go5_A 43 GDTVKGFAYTDMKQKLRL---TTLEVTATQDQFGWGRVTEVRKDL-GVFVDTGLPDKEIVVSLDILPEL 107 (285) T ss_dssp TSEEEEEEEECTTSCEEE---ECSCCCSCSSSCEEEEEEEEETTT-EEEEECSCTTCCEEEEGGGSCSS T ss_pred CCEEEEEEEECCCCCEEE---ECCCCCEECCCEEEEEEEEEECCE-EEEEEECCCCCCCCCCHHHCCCC T ss_conf 999999999988898984---136774623989999999982672-69999568764533330326733 No 18 >3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA, exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A Probab=96.50 E-value=0.02 Score=34.46 Aligned_cols=50 Identities=26% Similarity=0.451 Sum_probs=32.3 Q ss_pred CEEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECC----CC------CCCCCHHHC Q ss_conf 98999996073346042878798997836388231353278----97------713022213 Q gi|254780751|r 23 NRVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGG----NR------HGFLPFLEI 74 (723) Q Consensus 23 g~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~----~k------~gFL~~~ei 74 (723) +++....--.......+|+|..|+|++|.+. .|||||.. .+ .|+||.+++ T Consensus 41 ~~~~~V~~~~~~~~p~~GDiViG~V~~v~~~--~a~v~I~~v~g~~~~~~~~~~g~i~~s~v 100 (179) T 3m7n_A 41 DRVAKVESISPIPEIVKGDVVLGRVVDLRNS--IALIEVSSKKGENRGPSNRGIGILHVSNV 100 (179) T ss_dssp TTEEEEEESSCCCCCCTTCEEEEEEEEECSS--EEEEEEEEETTCCSCCTTCEEEEEEGGGT T ss_pred CCCEEECCCCCCCCCCCCCEEEEEEEEECCC--EEEEEEEEEECCCCCCCCCCEEEEEECCC T ss_conf 8907841168888788899999999998387--09999998708756665463036892536 No 19 >2waq_E DNA-directed RNA polymerase RPO7 subunit; multi-subunit, transcription; 3.35A {Sulfolobus shibatae} PDB: 2wb1_E 2pmz_E 3hkz_E Probab=96.01 E-value=0.017 Score=34.99 Aligned_cols=56 Identities=18% Similarity=0.304 Sum_probs=44.6 Q ss_pred CCEEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCCCCC Q ss_conf 99899999607334604287879899783638823135327897713022213712102 Q gi|254780751|r 22 DNRVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPDYYQ 80 (723) Q Consensus 22 ~g~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~y~~ 80 (723) +......-++-.--+..+|.+|-|+|+.+-+ ..+||++|. -.||+|.+.+.+|||. T Consensus 64 g~~~~~V~f~~~vf~P~~Gevi~g~V~~v~~--~Gifv~ig~-~~~~v~~~~~~~d~~~ 119 (180) T 2waq_E 64 GATYHEVEFDMITYVPVVQEVVEGEVLQVDN--YGIFVNLGP-MDGLVHISQITDDTLK 119 (180) T ss_dssp CSEEEEEEEEEEEECCCSSCCCCEEEEEECS--SEEEEBCSS-SBBCEESTTBCSSSSC T ss_pred CCEEEEEEEEEEEEECCCCCEEEEEEEEEEE--CEEEEEECC-CCCEEEHHHHCCCCCC T ss_conf 7689999999999815589799999998860--219999548-6660868993777652 No 20 >1go3_E DNA-directed RNA polymerase subunit E; transferase, transferase, transcription; 1.75A {Methanococcus jannaschii} SCOP: b.40.4.5 d.230.1.1 Probab=95.86 E-value=0.03 Score=33.25 Aligned_cols=56 Identities=20% Similarity=0.209 Sum_probs=44.8 Q ss_pred CCEEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCCCCC Q ss_conf 99899999607334604287879899783638823135327897713022213712102 Q gi|254780751|r 22 DNRVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPDYYQ 80 (723) Q Consensus 22 ~g~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~y~~ 80 (723) +......-++-.--+..+|.+|-|+|++|-. .++||.+|. -.||+|.+.+.+|||. T Consensus 64 g~~~~~v~f~~~v~~p~~gev~~g~V~~v~~--~Gifv~i~~-~~~~~~~~~~~~d~~~ 119 (187) T 1go3_E 64 GSAYHPVVFETLVYIPEMYELIEGEVVDVVE--FGSFVRLGP-LDGLIHVSQIMDDYVS 119 (187) T ss_dssp CSEEEEEEEEEEEECCCTTCEEEEEEEEEET--TEEEEECSS-SEEEEEGGGSCSSCEE T ss_pred CCEEEEEEEEEEEEECCCCCEEEEEEEEEEE--EEEEEEECC-CCCCCCHHHCCCCCEE T ss_conf 8679999999999954689899999998872--048999458-4430107783897466 No 21 >2je6_I RRP4, exosome complex RNA-binding protein 1; nuclease, hydrolase, exonuclease, phosphorolytic, exoribonuclease, RNA degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1 PDB: 2jea_I* 2jeb_I* 3l7z_C Probab=95.18 E-value=0.16 Score=28.12 Aligned_cols=37 Identities=22% Similarity=0.219 Sum_probs=33.0 Q ss_pred CCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHC Q ss_conf 604287879899783638823135327897713022213 Q gi|254780751|r 36 KQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEI 74 (723) Q Consensus 36 ~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei 74 (723) ...+|++-.|+|+.+-+ +.+|||||..-.|+||++++ T Consensus 71 ~P~vGDiVIG~V~~v~~--~~~~VdI~s~~~a~L~~~~~ 107 (251) T 2je6_I 71 YPKINDIVIGLVEDVEI--YGWVVDIKAPYKAYLPASNL 107 (251) T ss_dssp CCCTTCEEEEEEEEECS--SEEEEECSSSSCEEEEHHHH T ss_pred CCCCCCEEEEEEEEEEC--CEEEEECCCCCCEEEEHHHC T ss_conf 78899989999998616--67999848984158366773 No 22 >2nn6_I 3'-5' exoribonuclease CSL4 homolog; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2 Probab=94.98 E-value=0.073 Score=30.53 Aligned_cols=36 Identities=19% Similarity=0.187 Sum_probs=25.9 Q ss_pred CCCCCEEEEEEEEECCCCCEEEEEE--------CCCCCCCCCHHHC Q ss_conf 0428787989978363882313532--------7897713022213 Q gi|254780751|r 37 QIKGNIYLAKVTRVEPSLQAAFVDY--------GGNRHGFLPFLEI 74 (723) Q Consensus 37 ~~~GnIY~G~V~~V~p~lqAAFVdi--------G~~k~gFL~~~ei 74 (723) ..+|+|..|+|++|-+ +-|+||| ...-.|+|+.+|| T Consensus 79 P~vGDiViGrV~~v~~--~~a~V~I~~v~~~~l~~~~~g~l~~~dv 122 (209) T 2nn6_I 79 PDVGAIVTCKVSSINS--RFAKVHILYVGSMPLKNSFRGTIRKEDV 122 (209) T ss_dssp CCTTCEEEEEEEEECS--SEEEEEEEESSSSCCCCSSCSCEEEEGG T ss_pred CCCCCEEEEEEEEECC--CEEEEEEEEECCEECCCCCCCCCCHHHC T ss_conf 9889999999999847--8799999998787257650123678884 No 23 >2z0s_A Probable exosome complex RNA-binding protein 1; alpha/beta protein, cytoplasm, structural genomics, NPPSFA; 3.20A {Aeropyrum pernix} SCOP: b.40.4.5 d.51.1.1 Probab=94.26 E-value=0.075 Score=30.46 Aligned_cols=38 Identities=16% Similarity=0.190 Sum_probs=33.0 Q ss_pred CCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHC Q ss_conf 4604287879899783638823135327897713022213 Q gi|254780751|r 35 KKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEI 74 (723) Q Consensus 35 ~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei 74 (723) -...+|++..|+|.++.+ +.+||||+..-+|+||++++ T Consensus 62 y~P~~GD~ViG~V~~v~~--~~~~vdI~~~~~a~L~~~~~ 99 (235) T 2z0s_A 62 YVPQAGDVVIGLIQSVGI--MNWFVDINSPYVAVLSVQDF 99 (235) T ss_dssp CCCCTTCCEEEEEEEECS--SEEEEECSSSSCEEEEHHHH T ss_pred EECCCCCEEEEEEEEEEC--CEEEEECCCCCCEEECHHHC T ss_conf 004669999999938705--44899838853116147770 No 24 >2ba0_A Archeal exosome RNA binding protein RRP4; RNAse PH, RNA degradation, exoribonuclease, S1domain, KH domain, archaeal; 2.70A {Archaeoglobus fulgidus} SCOP: b.40.4.5 b.84.4.2 d.51.1.1 Probab=93.77 E-value=0.33 Score=25.97 Aligned_cols=51 Identities=16% Similarity=0.115 Sum_probs=37.1 Q ss_pred CCEEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHC Q ss_conf 99899999607334604287879899783638823135327897713022213 Q gi|254780751|r 22 DNRVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEI 74 (723) Q Consensus 22 ~g~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei 74 (723) +++++.+.--...-...+|+|-.|+|+.+-+ +.++||||..-.|+||++++ T Consensus 40 ~~~~v~V~p~~~rY~P~vGDiVIG~V~~i~~--~~~~VdI~s~~~a~L~~~~~ 90 (229) T 2ba0_A 40 TETHVRVIPLKGRYTPSVGDVVIGIIREVAA--NGWAVDIYSPYQAFLPVSEN 90 (229) T ss_dssp CSSCEEEEECSSSCCCCTTCEEEEEEEEECS--SEEEEECSSSSCEEEEGGGC T ss_pred ECCEEEEEECCCCCCCCCCCEEEEEEEEECC--CEEEEEECCCCCEEEEHHHC T ss_conf 5997999868866468899999999978707--55999828975369774557 No 25 >2ckz_B C25, DNA-directed RNA polymerase III 25 KD polypeptide; multiprotein complex, nucleotidyltransferase, nuclear protein, hypothetical protein; 3.2A {Saccharomyces cerevisiae} Probab=93.19 E-value=0.27 Score=26.57 Aligned_cols=57 Identities=11% Similarity=0.019 Sum_probs=42.1 Q ss_pred CCEEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCCCCC Q ss_conf 99899999607334604287879899783638823135327897713022213712102 Q gi|254780751|r 22 DNRVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPDYYQ 80 (723) Q Consensus 22 ~g~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~y~~ 80 (723) +.......+.-.--+..+|.||.|+|+++.+. ++||.++..-.++++.+++-|+|+. T Consensus 64 g~~~~~v~f~~~vf~P~~gev~~g~v~~~~~~--G~fV~l~~~~~~i~i~~~~l~~~~~ 120 (218) T 2ckz_B 64 GSSYINVTFRAVVFKPFLGEIVTGWISKCTAE--GIKVSLLGIFDDIFIPQNMLFEGCY 120 (218) T ss_dssp SCEEEEEEEEEEEECCCTTCEEEEEEEEEETT--EEEEECTTSCCCEEEETTTSCTTCE T ss_pred HHHHHHHHHHEEEECCCCCCEEEEEEEEECCC--EEEEECCCCCCEEEECHHHCCCCCC T ss_conf 77999985012560078998999999684465--1899825885619986667798613 No 26 >3go5_A Multidomain protein with S1 RNA-binding domains; joint center for structural genomics, protein structure initiative, PSI-2; HET: MSE; 1.40A {Streptococcus pneumoniae TIGR4} Probab=92.95 E-value=0.24 Score=26.89 Aligned_cols=35 Identities=11% Similarity=-0.048 Sum_probs=29.7 Q ss_pred CCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHC Q ss_conf 04287879899783638823135327897713022213 Q gi|254780751|r 37 QIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEI 74 (723) Q Consensus 37 ~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei 74 (723) .-+|.|-.|+|.++... ++||++| +..+|||-+|+ T Consensus 4 ~~~g~iv~g~V~~~~d~--g~~v~~~-g~~~~l~k~e~ 38 (285) T 3go5_A 4 TNLASFIVGLIIDENDR--FYFVQKD-GQTYALAKEEG 38 (285) T ss_dssp TTTTEEEEEEEEEECSS--EEEEEET-TEEEEEEGGGC T ss_pred CCCCCEEEEEEEEEECC--EEEEECC-CEEEEECCCCC T ss_conf 66775899999998278--7999539-98997052016 No 27 >1y14_B B16, RPB7, DNA-directed RNA polymerase II 19 kDa polypeptide; transferase; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.230.1.1 PDB: 1nt9_G 1wcm_G 1pqv_G 1y1v_G 1y1w_G 1y1y_G 1y77_G* 2b63_G* 2ja5_G* 2ja6_G* 2ja7_G* 2ja8_G* 2r7z_G 2r92_G 2r93_G 2vum_G* 3fki_G 3h3v_H 3hou_G* 3hov_G* ... Probab=92.75 E-value=0.22 Score=27.18 Aligned_cols=53 Identities=15% Similarity=0.097 Sum_probs=37.4 Q ss_pred EEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCCCC Q ss_conf 89999960733460428787989978363882313532789771302221371210 Q gi|254780751|r 24 RVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPDYY 79 (723) Q Consensus 24 ~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~y~ 79 (723) ......++-.--+...|.++.|+|.+|.+. ++||.+|.- .+|.+.+.+.++|. T Consensus 68 ~~~~v~~~~~v~~p~~ge~i~g~V~~v~~~--Gi~v~~g~~-~~~~~~~~~~~~~~ 120 (171) T 1y14_B 68 AEFNVKYRAVVFKPFKGEVVDGTVVSCSQH--GFEVQVGPM-KVFVTKHLMPQDLT 120 (171) T ss_dssp --CEEEEEEEEECCCTTCEEEEEEEEEETT--EEEEEETTE-EEEEEGGGSCTTCE T ss_pred EEEEEEEEEEEEECCCCCEEEEEEEEEECC--EEEEEECCC-EEEEECHHCCCCEE T ss_conf 899999999998357998999999999678--799995694-69987211344258 No 28 >2c35_B Human RPB7, DNA-directed RNA polymerase II 19 kDa polypeptide; transcription, nucleotidyltransferase; 2.70A {Homo sapiens} SCOP: b.40.4.5 d.230.1.1 Probab=92.50 E-value=0.35 Score=25.80 Aligned_cols=54 Identities=19% Similarity=0.218 Sum_probs=35.9 Q ss_pred CEEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHC-CCCCC Q ss_conf 9899999607334604287879899783638823135327897713022213-71210 Q gi|254780751|r 23 NRVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEI-HPDYY 79 (723) Q Consensus 23 g~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei-~~~y~ 79 (723) .......++-.--+...|.+|.|+|+.|.+. +.||++|.-. ++++...+ .++|| T Consensus 65 ~~~~~v~~~~~v~~p~~Ge~~~g~V~~v~~~--Gi~v~~~~~~-~~~~~~~~~~~~~~ 119 (172) T 2c35_B 65 FVLYPVKYKAIVFRPFKGEVVDAVVTQVNKV--GLFTEIGPMS-CFISRHSIPSEMEF 119 (172) T ss_dssp SEEEEEEEEEEEECCCTTCEEEEEEEEEETT--EEEEEETTEE-EEEEGGGSCTTEEE T ss_pred CEEEEEEEEEEEEECCCCCEEEEEEEEECCC--EEEEEECCCE-EEEEEECCCCCCCE T ss_conf 4899887899998156897999999987377--4999965807-98874104787614 No 29 >2bh8_A 1B11; transcription, molecular evolution, unique architecture, activator, transcription regulation, phosphorylation; 1.9A {Escherichia coli} Probab=91.85 E-value=0.07 Score=30.65 Aligned_cols=40 Identities=15% Similarity=0.287 Sum_probs=34.6 Q ss_pred CCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCC Q ss_conf 604287879899783638823135327897713022213712 Q gi|254780751|r 36 KQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPD 77 (723) Q Consensus 36 ~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~ 77 (723) ....|.+|.|+|+++.+- .|||++..+..|.||++||.+. T Consensus 58 ~l~~G~~V~g~V~~itdf--GaFV~i~~gidGlvHise~sw~ 97 (101) T 2bh8_A 58 NPQQGDRVEGKIKSITDF--GIFIGLDGGIDGLVHLSDISWA 97 (101) T ss_dssp CCCTTCEEEEEEEECCSE--EEEECTTSCEEEEEEEEEEEEC T ss_pred CCCCCEEEEEEEEEECCC--CEEEEECCCCEEEEECCCCCHH T ss_conf 642114999999985589--7388505995177880105300 No 30 >2nn6_H Exosome complex exonuclease RRP4; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1 Probab=91.02 E-value=0.22 Score=27.26 Aligned_cols=52 Identities=13% Similarity=0.115 Sum_probs=38.4 Q ss_pred CCEEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCC Q ss_conf 998999996073346042878798997836388231353278977130222137 Q gi|254780751|r 22 DNRVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIH 75 (723) Q Consensus 22 ~g~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~ 75 (723) .++++.+.--+..-...+|++-.|+|+.|-+. -++||||..-.|.|+++.++ T Consensus 78 ~nk~VsV~pl~~rY~P~vGDiVIGrV~~V~~~--~w~VDI~S~~~A~L~ls~v~ 129 (308) T 2nn6_H 78 VNKLICVKALKTRYIGEVGDIVVGRITEVQQK--RWKVETNSRLDSVLLLSSMN 129 (308) T ss_dssp ETTEEEEEESSCCCCCCSSBCCCEEEEEEETT--EEEEECSSSSCEEEESSCCC T ss_pred ECCEEEEEECCCCCCCCCCCEEEEEEEEEECC--EEEEECCCCCCCEECCCCCC T ss_conf 49979999799743698899999999886054--59998189756343343012 No 31 >1hh2_P NUSA, N utilization substance protein A; transcription regulation, termination; 2.1A {Thermotoga maritima} SCOP: b.40.4.5 d.52.3.1 d.52.3.1 d.202.1.1 PDB: 1l2f_A Probab=90.50 E-value=0.62 Score=24.09 Aligned_cols=36 Identities=31% Similarity=0.273 Sum_probs=27.6 Q ss_pred CCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCC Q ss_conf 042878798997836388231353278977130222137 Q gi|254780751|r 37 QIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIH 75 (723) Q Consensus 37 ~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~ 75 (723) ...|.|-.|.|.++.++ ..+||+| +-.|+||-+|.- T Consensus 132 ~k~GeIVtG~V~r~~~~--~~~vdlg-~~ea~LP~~eqi 167 (344) T 1hh2_P 132 ELKGTVTTAEVIRVMGE--WADIRIG-KLETRLPKKEWI 167 (344) T ss_dssp CCTTCEEEEEEEEECSS--EEEEEET-TEEEEEEGGGSC T ss_pred HHCCCEEEEEEEEEECC--CEEEECC-CCCCCCCHHHCC T ss_conf 85691688889998524--0378427-645648978849 No 32 >2asb_A Transcription elongation protein NUSA; protein-RNA complex, transcription/RNA complex; 1.50A {Mycobacterium tuberculosis} SCOP: b.40.4.5 d.52.3.1 d.52.3.1 PDB: 2atw_A Probab=89.66 E-value=0.49 Score=24.77 Aligned_cols=41 Identities=22% Similarity=0.310 Sum_probs=31.7 Q ss_pred CCCCCCEEEEEEEEECCC--CCEEEEEECCC---CCCCCCHHHCCC Q ss_conf 604287879899783638--82313532789---771302221371 Q gi|254780751|r 36 KQIKGNIYLAKVTRVEPS--LQAAFVDYGGN---RHGFLPFLEIHP 76 (723) Q Consensus 36 ~~~~GnIY~G~V~~V~p~--lqAAFVdiG~~---k~gFL~~~ei~~ 76 (723) ....|.|--|.|.++.++ ....+||+|.+ -.||||.+|.-| T Consensus 4 k~k~GeIVtG~V~r~er~n~~~~viVdLG~~~~~~EaiLP~~EqIp 49 (251) T 2asb_A 4 STREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVP 49 (251) T ss_dssp CCCTTCEEEEEEECCHHHHHTTCEEEEECSSSSCEEEEECGGGSCT T ss_pred CCCCCCEEEEEEEEEECCCCCEEEEEECCCCCCCEEEECCHHHCCC T ss_conf 0127928999999983589725899986887765159789789599 No 33 >2hl7_A Cytochrome C-type biogenesis protein CCMH; three-helices bundle, oxidoreductase; HET: PG4; 1.70A {Pseudomonas aeruginosa} Probab=88.30 E-value=0.39 Score=25.50 Aligned_cols=56 Identities=16% Similarity=0.211 Sum_probs=45.1 Q ss_pred CCCCCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEE Q ss_conf 02367546537860611468998878899973036431013576999998730237999999998488799984 Q gi|254780751|r 481 TKVCTYCKGAGYIRSQSSVALSILRSVEEYLLQYTAHNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVI 554 (723) Q Consensus 481 ~~~c~~c~g~g~~~~~~~~~~~~~r~i~~~~~~~~~~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~ 554 (723) .-.||+|.|.-.--|...+|..+-..|++....+.+ +.+-+..+.++||-.|...+ T Consensus 26 ~lrCpvC~~qsI~~S~s~~A~dmr~~I~~~i~~G~s------------------d~eI~~~l~~rYG~~Il~~P 81 (84) T 2hl7_A 26 ELRCPKCQNQDIADSNAPIAADLRKQIYGQLQQGKS------------------DGEIVDYMVARYGDFVRYKP 81 (84) T ss_dssp HEECTTSSSCBTTTCCSHHHHHHHHHHHHHHHHTCC------------------HHHHHHHHHHHHTTTCEECC T ss_pred HCCCCCCCCCCHHCCCCHHHHHHHHHHHHHHHCCCC------------------HHHHHHHHHHHCCCEEEEEC T ss_conf 567988799755007878999999999999996999------------------99999999986288386419 No 34 >3h0g_G DNA-directed RNA polymerase II subunit RPB7; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Probab=88.04 E-value=0.96 Score=22.77 Aligned_cols=51 Identities=22% Similarity=0.275 Sum_probs=35.1 Q ss_pred EEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCC Q ss_conf 899999607334604287879899783638823135327897713022213712 Q gi|254780751|r 24 RVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPD 77 (723) Q Consensus 24 ~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~ 77 (723) ......++-.--+...|.++.|+|+.+.+ .+.||++|.. ++|.+...+.++ T Consensus 69 ~~~~v~~~~~vf~P~~ge~~~g~V~~i~~--~Gi~v~~~~~-~~~~~~~~~~~~ 119 (172) T 3h0g_G 69 AEFEVKYRAVLWRPFRGEVVDAIVTTVNK--MGFFANIGPL-NVFVSSHLVPPD 119 (172) T ss_dssp EEEEEEEEEEEECCCTTCEEECCCCEEET--TEEECCBTTB-CCEEEGGGSCTT T ss_pred EEEEEEEEEEEEECCCCCEEEEEEEEECC--CEEEEEECCC-EEEEEEECCCCC T ss_conf 89998321799815789899999999826--6699995087-999960116775 No 35 >1a6f_A RNAse P protein, ribonuclease P protein; endonuclease, subunit; 2.60A {Bacillus subtilis} SCOP: d.14.1.2 Probab=87.60 E-value=1.3 Score=21.93 Aligned_cols=57 Identities=28% Similarity=0.315 Sum_probs=41.9 Q ss_pred CCEEEECCCCHHHHHHHHHHHHHHH-------CCCCCEEEEEEECCCCCHHHHHHHHHHHHHHH Q ss_conf 5124204688689999999998630-------02587169985045575799999999999999 Q gi|254780751|r 216 GETISRKITNPVDRKNLKEIARGLE-------VPAGMGVILRTAGASRTKIEIKRDFEYLMRLW 272 (723) Q Consensus 216 ~~~iSrki~~~~~r~~l~~~~~~~~-------~~~~~G~IiRT~a~~~~~~~l~~d~~~L~~~w 272 (723) |+.+|+|+.+.-.|.+++..+.+.. .+.++=+|+|..+.+.+..+|..++..|+..- T Consensus 47 G~~vsKKvg~AV~RNriKR~lRe~~r~~~~~l~~~d~Vvi~r~~~~~~~~~~l~~~l~~ll~k~ 110 (119) T 1a6f_A 47 GLSVSKKIGNAVMRNRIKRLIRQAFLEEKERLKEKDYIIIARKPASQLTYEETKKSLQHLFRKS 110 (119) T ss_dssp EEEECSTTCCHHHHHHHHHHHHHHHHHHTTTBCSSEEEEEECGGGTTCCHHHHHHHHHHHHHHT T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHC T ss_conf 9998143435888999999999999975133899859999668767699999999999999981 No 36 >2nn6_G Exosome complex exonuclease RRP40; RNA, exosome, PM/SCL, phosphorolytic, hydrolase/transferase complex; 3.35A {Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1 Probab=86.84 E-value=1.4 Score=21.65 Aligned_cols=56 Identities=25% Similarity=0.364 Sum_probs=43.8 Q ss_pred EEEEECCEEEE-----------EEECCCCCC--CCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHC Q ss_conf 99998998999-----------996073346--04287879899783638823135327897713022213 Q gi|254780751|r 17 VVVLRDNRVEE-----------LDFESEHKK--QIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEI 74 (723) Q Consensus 17 vav~e~g~l~e-----------~~~e~~~~~--~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei 74 (723) |....-|.|.- |++|...++ ..+|++-.|+|+.+- -+.-+||||..-.|+||+.+. T Consensus 92 i~~t~aG~L~~~~~~~~~~~~~~~Ve~~~kRY~P~~GD~VIGiV~~~~--~d~w~VDIgs~~~A~L~~~aF 160 (289) T 2nn6_G 92 LLVTKCGRLRHKEPGSGSGGGVYWVDSQQKRYVPVKGDHVIGIVTAKS--GDIFKVDVGGSEPASLSYLSF 160 (289) T ss_dssp EEECSCCEEEEECCTTTSSCCEEEEECCCSSCCCCSSEEEEEEEEEEE--TTEEEEECSSSSCCCEESCSS T ss_pred EEEEEEEEEEECCCCCCCCCCEEEEECCCCCCCCCCCCEEEEEEEEEC--CCEEEEECCCCCCEEECHHHC T ss_conf 899621388644777566772799977897668999999999998971--862899748975338623437 No 37 >1k0r_A NUSA; two component arrangement, S1 domain, two K-homology domains., structural genomics, PSI, protein structure initiative; 1.70A {Mycobacterium tuberculosis} SCOP: b.40.4.5 d.52.3.1 d.52.3.1 d.202.1.1 Probab=86.29 E-value=1.1 Score=22.46 Aligned_cols=38 Identities=21% Similarity=0.284 Sum_probs=28.3 Q ss_pred CCCCCEEEEEEEEECCC--CCEEEEEECCC---CCCCCCHHHC Q ss_conf 04287879899783638--82313532789---7713022213 Q gi|254780751|r 37 QIKGNIYLAKVTRVEPS--LQAAFVDYGGN---RHGFLPFLEI 74 (723) Q Consensus 37 ~~~GnIY~G~V~~V~p~--lqAAFVdiG~~---k~gFL~~~ei 74 (723) ..+|.|-.|.|.++.++ .....||+|.+ -.|+||.+|. T Consensus 128 ~k~GeIVtG~V~r~e~~~~~~~viVdLg~~~~~~EaiLP~~Eq 170 (366) T 1k0r_A 128 TREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQ 170 (366) T ss_dssp CCTTCEEEEEEECCHHHHHTTCEEEEECCSSSCEEEEECGGGS T ss_pred HHCCCEEEEEEEEEECCCCCEEEEEECCCCCCCHHCCCCHHHC T ss_conf 7539768889999855886159999737765520113998784 No 38 >2b8k_G B16, DNA-directed RNA polymerase II 19 kDa polypeptide; DNA-dependent RNA polymerase, cellular RNA polymerase; 4.15A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.230.1.1 PDB: 2bbm_B 2bbn_B Probab=85.54 E-value=1.6 Score=21.21 Aligned_cols=55 Identities=15% Similarity=0.131 Sum_probs=39.6 Q ss_pred ECCEEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCCCC Q ss_conf 89989999960733460428787989978363882313532789771302221371210 Q gi|254780751|r 21 RDNRVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPDYY 79 (723) Q Consensus 21 e~g~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~y~ 79 (723) ++.......++-.--+...|.++.|.|+.|-+ .++||.+|.- .+|.+...+ |+|| T Consensus 65 ~g~~~~~V~f~~lv~~p~~Ge~~~g~V~~v~~--~Gifv~lg~~-~i~i~~~~l-~d~~ 119 (215) T 2b8k_G 65 DGSAEFNVKYRAVVFKPFKGEVVDGTVVSCSQ--HGFEVQVGPM-KVFVTKHLM-PQDL 119 (215) T ss_dssp SCCEEEEEECCEEEECCCTTEEEEEEEEEEET--TEEEEECTTS-EEEEEGGGS-CSSC T ss_pred CCCEEEEEEEEEEEEECCCCCEEEEEEEEECC--CEEEEEECCC-EEEEEHHHC-CCCC T ss_conf 75489999999999866789899999998536--4699995086-899874556-7763 No 39 >2pe4_A Hyaluronidase-1; hyaluronan, EGF-like domain, alternative splicing, hydrolase; HET: NAG BMA MAN; 2.00A {Homo sapiens} Probab=83.30 E-value=0.88 Score=23.03 Aligned_cols=102 Identities=16% Similarity=0.180 Sum_probs=57.3 Q ss_pred HHHCCCCHHHHC-CCCCHHHHHHHHHHHHHHHHCCC-CCCCCCCEEEEECCCEEEEEEECCCCCCCCCCCHHHHHHHHHH Q ss_conf 631012112201-34420356776999999984222-1436786499832880699982375544455511479999999 Q gi|254780751|r 328 LMPSYARIVRQY-EDPHPIFFRSGIEVQLDSLHQTE-VTLPSRGYVIINQTEALVSIDVNSGRSTREHCIEDTALQTNLE 405 (723) Q Consensus 328 ~~p~~~~~v~~~-~~~~~lf~~y~ie~~i~~~~~~~-V~L~sGG~lvIe~TEALt~IDVNSG~~~~~~~~e~t~l~tNle 405 (723) +.|+......+. ....-+|-++.|.+.+.-+.... -.||==-|.-+-. -+|..|....++..|+- T Consensus 223 LyPSIYL~~~l~~s~~~~~fVr~Rv~EA~Rva~~~~~~~lPV~~Y~r~~Y--------~~t~~~Ls~~DL~~TIg----- 289 (424) T 2pe4_A 223 LYPSIYMPAVLEGTGKSQMYVQHRVAEAFRVAVAAGDPNLPVLPYVQIFY--------DTTNHFLPLDELEHSLG----- 289 (424) T ss_dssp BBCBCCCBGGGTTSSCHHHHHHHHHHHHHHHHHHTTCTTCCBCCEECSBC--------BTSCCBCCHHHHHTTHH----- T ss_pred CCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEE--------CCCCCCCCHHHHHHHHH----- T ss_conf 06066214133663778999999999999998613789996666686773--------57555457899999999----- Q ss_pred HHHHHHHHHHHHCCCCEEE-EECCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 9999999873103686389-6033479888899999999997312 Q gi|254780751|r 406 AAEEIARQLRLRDLAGLIV-VDFIDMEEKKNNRSVEKKLKESLKK 449 (723) Q Consensus 406 AA~EIaRQlRLRnlgGiIv-IDFIdM~~~~~~~~v~~~l~~~l~~ 449 (723) |+|- -+.+|+|+ -|.-|+.+++....+.+.|...|.. T Consensus 290 ---esaa----lGaaGvViWG~~~~~~s~~~C~~l~~Yl~~~LGP 327 (424) T 2pe4_A 290 ---ESAA----QGAAGVVLWVSWENTRTKESCQAIKEYMDTTLGP 327 (424) T ss_dssp ---HHHH----TTCSEEEEECCGGGSSSHHHHHHHHHHHHHTHHH T ss_pred ---HHHH----CCCCEEEEECCCHHCCCHHHHHHHHHHHHHCCHH T ss_conf ---9997----5997699961511016889999999998746225 No 40 >1d6t_A Ribonuclease P, RNAse P protein; endonuclease, subunit, hydrolase; NMR {Staphylococcus aureus} SCOP: d.14.1.2 Probab=76.57 E-value=2.3 Score=20.09 Aligned_cols=57 Identities=25% Similarity=0.370 Sum_probs=42.3 Q ss_pred CCEEEECCCCHHHHHHHHHHHHHHH-------CCCCCEEEEEEECCCCCHHHHHHHHHHHHHHH Q ss_conf 5124204688689999999998630-------02587169985045575799999999999999 Q gi|254780751|r 216 GETISRKITNPVDRKNLKEIARGLE-------VPAGMGVILRTAGASRTKIEIKRDFEYLMRLW 272 (723) Q Consensus 216 ~~~iSrki~~~~~r~~l~~~~~~~~-------~~~~~G~IiRT~a~~~~~~~l~~d~~~L~~~w 272 (723) |+.+|+|+.+.-.|.+++..+.+.. .+.++=+|+|..+.+.+..+|..|+..|++.- T Consensus 46 Gi~vsKKvg~AV~RNriKR~lRe~~R~~~~~~~~~d~vvi~r~~~~~~~~~~l~~~l~~llkk~ 109 (117) T 1d6t_A 46 GISVSKKLGNAVLRNKIKRAIRENFKVHKSHILAKDIIVIARQPAKDMTTLQIQNSLEHVLKIA 109 (117) T ss_dssp EEECCSSSCSTTHHHHHHHHHHHHHHHGGGTCCSSCEEEEECSGGGGCCTTHHHHHHTTHHHHH T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHH T ss_conf 9999235455688899999999999974324899649999778757799999999999999981 No 41 >2e5q_A PHD finger protein 19; tudor domain, isoform B, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=74.78 E-value=2.2 Score=20.27 Aligned_cols=39 Identities=28% Similarity=0.480 Sum_probs=34.0 Q ss_pred CCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCC Q ss_conf 428787989978363882313532789771302221371 Q gi|254780751|r 38 IKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHP 76 (723) Q Consensus 38 ~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~ 76 (723) .=|.-|+|+|.+|...-+-+||-+..+-.-.--++||+| T Consensus 19 sDgrfYlg~I~~V~~~~~~clV~F~D~S~~Wv~~Kdi~~ 57 (63) T 2e5q_A 19 TDGLYYLGKIKRVSSSKQSCLVTFEDNSKYWVLWKDIQH 57 (63) T ss_dssp TTSCEEEEEECCCCSTTSEEEEEETTSCEEEEEGGGEEC T ss_pred CCCCEEEEEEEEEECCCCEEEEEECCCCCEEEEEEECCC T ss_conf 168687778899805798899998248502677640435 No 42 >1fcq_A Hyaluronoglucosaminidase; 7-stranded (beta/alpha) TIM barrel, glycosidase family 56, allergen, hydrolase; 1.60A {Apis mellifera} SCOP: c.1.8.9 PDB: 1fcu_A 1fcv_A* 2j88_A Probab=73.60 E-value=3 Score=19.33 Aligned_cols=32 Identities=19% Similarity=0.215 Sum_probs=20.3 Q ss_pred CCCCEEE-EECCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 3686389-6033479888899999999997312 Q gi|254780751|r 418 DLAGLIV-VDFIDMEEKKNNRSVEKKLKESLKK 449 (723) Q Consensus 418 nlgGiIv-IDFIdM~~~~~~~~v~~~l~~~l~~ 449 (723) +.+|+|+ -|--|+.+++....+.+.|...|.. T Consensus 294 GaaGvViWG~~~~~~s~~~C~~l~~Yl~~~LGP 326 (350) T 1fcq_A 294 GADGFIIWGSSDDINTKAKCLQFREYLNNELGP 326 (350) T ss_dssp TCSEEEEECCGGGSSSHHHHHHHHHHHHHTHHH T ss_pred CCCEEEEECCCHHCCCHHHHHHHHHHHHHCHHH T ss_conf 998899955721016988878799998735067 No 43 >2eqj_A Metal-response element-binding transcription factor 2; structure genomics,tudor domain, zinc-regulated factor 1, ZIRF1; NMR {Mus musculus} Probab=72.21 E-value=3 Score=19.32 Aligned_cols=39 Identities=15% Similarity=0.412 Sum_probs=33.6 Q ss_pred CCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCC Q ss_conf 428787989978363882313532789771302221371 Q gi|254780751|r 38 IKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHP 76 (723) Q Consensus 38 ~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~ 76 (723) .=|.-|+|+|.+|-..-+-++|-+..+-.-.--++||+| T Consensus 25 tDg~fYlgtI~~V~~~~~~clV~F~D~s~~wv~~kdi~~ 63 (66) T 2eqj_A 25 SDGLFYLGTIKKINILKQSCFIIFEDSSKSWVLWKDIQT 63 (66) T ss_dssp TTSCEEEEEEEEEETTTTEEEEEETTTEEEEEETTTEEC T ss_pred CCCCEEEEEEEEEECCCCEEEEEEECCCEEEEEEECCCC T ss_conf 168687767899834797799999349768899331423 No 44 >2atm_A Hyaluronoglucosaminidase; beta-alpha-barrels, hydrolase; HET: MES; 2.00A {Vespula vulgaris} Probab=71.07 E-value=3.1 Score=19.26 Aligned_cols=31 Identities=16% Similarity=0.185 Sum_probs=20.3 Q ss_pred CCCCEEE-EECCCCCCHHHHHHHHHHHHHHHH Q ss_conf 3686389-603347988889999999999731 Q gi|254780751|r 418 DLAGLIV-VDFIDMEEKKNNRSVEKKLKESLK 448 (723) Q Consensus 418 nlgGiIv-IDFIdM~~~~~~~~v~~~l~~~l~ 448 (723) +.+|+|+ =|--|+.+++....+.+.|...|. T Consensus 289 Ga~GvViWG~s~~~~s~~~C~~l~~Yl~~~LG 320 (331) T 2atm_A 289 GGDGIIIWGSSSDVNSLSKCKRLQDYLLTVLG 320 (331) T ss_dssp TCCEEEEECCGGGGSSHHHHHHHHHHHHHTHH T ss_pred CCCEEEEECCCCCCCCHHHHHHHHHHHHCCCC T ss_conf 99889995573002788888979999862767 No 45 >3lcz_A YCZA, inhibitor of trap, regulated by T-box (Trp) sequence RTPA; anti-trap, tryptophan RNA-binding attenuation protein; 2.06A {Bacillus licheniformis} PDB: 3ld0_A Probab=69.51 E-value=1.4 Score=21.65 Aligned_cols=30 Identities=20% Similarity=0.500 Sum_probs=19.8 Q ss_pred HHHCCCCCCCCCEEEEECCHHHHHHHHHHHHH Q ss_conf 21002367546537860611468998878899 Q gi|254780751|r 478 ESTTKVCTYCKGAGYIRSQSSVALSILRSVEE 509 (723) Q Consensus 478 e~~~~~c~~c~g~g~~~~~~~~~~~~~r~i~~ 509 (723) +.-.+|||.|.|.|.|.+..-. .+|.-|+. T Consensus 20 ~~e~~pcp~c~~kgviltaqg~--tll~fi~k 49 (53) T 3lcz_A 20 REEPEPCPKCLGKGVILTAQGS--TLLHFIKK 49 (53) T ss_dssp EETTEECTTTTTSSEEECHHHH--HHHHHHHH T ss_pred CCCCCCCCCCCCCEEEEECCCC--HHHHHHHH T ss_conf 6279838634575369973553--69999998 No 46 >2bx9_A Anti-trap, AT, tryptophan RNA-binding attenuator protein-inhibitory protein; transcription regulation, Trp RNA-binding attenuation protein; 2.8A {Bacillus subtilis} PDB: 2ko8_A* 2zp8_E* 2zp9_C* Probab=69.14 E-value=1.4 Score=21.57 Aligned_cols=29 Identities=24% Similarity=0.509 Sum_probs=20.0 Q ss_pred HHHCCCCCCCCCEEEEECCHHHHHHHHHHHH Q ss_conf 2100236754653786061146899887889 Q gi|254780751|r 478 ESTTKVCTYCKGAGYIRSQSSVALSILRSVE 508 (723) Q Consensus 478 e~~~~~c~~c~g~g~~~~~~~~~~~~~r~i~ 508 (723) +.-.+|||.|.|.|.|.+..-. .+|.-|+ T Consensus 20 ~~e~~pcp~c~~kgviltaqg~--tll~fi~ 48 (53) T 2bx9_A 20 EIEGTPCPACSGKGVILTAQGY--TLLDFIQ 48 (53) T ss_dssp EETTEECTTTTTSSEEECHHHH--HHHHHHH T ss_pred CCCCCCCCCCCCCEEEEECCCC--HHHHHHH T ss_conf 6379848644575369973553--6999999 No 47 >2e5p_A Protein PHF1, PHD finger protein 1; tudor domain, PHF1 protein, structural genomics, NPPSFA; NMR {Homo sapiens} Probab=68.85 E-value=4 Score=18.47 Aligned_cols=40 Identities=18% Similarity=0.483 Sum_probs=34.6 Q ss_pred CCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCC Q ss_conf 4287879899783638823135327897713022213712 Q gi|254780751|r 38 IKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPD 77 (723) Q Consensus 38 ~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~ 77 (723) .=|.-|+|+|.+|--.-+-+||-+..+..-.--++||+|- T Consensus 21 ~Dg~fYlg~I~~V~~~~~~c~V~F~Dns~~wV~~Kdi~~~ 60 (68) T 2e5p_A 21 TDGLLYLGTIKKVDSAREVCLVQFEDDSQFLVLWKDISPA 60 (68) T ss_dssp TTSSEEEEEEEEEETTTTEEEEEETTTEEEEEETTTEECC T ss_pred CCCCEEEEEEEEEECCCCEEEEEEECCCEEEEEEECCCCC T ss_conf 0685855579998258988999994597899997415336 No 48 >3d0f_A Penicillin-binding 1 transmembrane protein MRCA; BIG_1156.2, structural genomics, PSI-2, protein structure initiative; 1.64A {Nitrosomonas europaea atcc 19718} Probab=67.34 E-value=5.2 Score=17.68 Aligned_cols=41 Identities=12% Similarity=-0.068 Sum_probs=30.5 Q ss_pred CCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCC Q ss_conf 3460428787989978363882313532789771302221371 Q gi|254780751|r 34 HKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHP 76 (723) Q Consensus 34 ~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~ 76 (723) ......|+.+.|.|.+|.+ +.|=|-+..+..++|++..+.+ T Consensus 28 ~~~~~~~~l~pAvV~~v~~--~~~~v~~~~g~~~~i~~~~~~W 68 (106) T 3d0f_A 28 QDIGNSDDILAAVVLSATP--GAVEAFRKNGETIRITGDGLKA 68 (106) T ss_dssp TTSCTTTTCEEEEEEEEET--TEEEEEETTSCEEEECGGGGST T ss_pred HHCCCCCCEEEEEEEEECC--CEEEEEECCCCEEEECHHHHHH T ss_conf 7088757805799999558--7899996799669970899887 No 49 >1x4m_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1 Probab=66.66 E-value=5.3 Score=17.59 Aligned_cols=46 Identities=11% Similarity=0.055 Sum_probs=38.7 Q ss_pred CCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECCCCCCCC Q ss_conf 3101357699999873023799999999848879998478778863 Q gi|254780751|r 517 HNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGIELADKL 562 (723) Q Consensus 517 ~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~~l~~~~ 562 (723) ..+.+.+|.+.+..+.+..-..|.+|+++++++|.|..++...... T Consensus 15 ~~~~i~Vp~~~~g~iIG~~G~~Ik~I~~~tga~I~i~~~~~~~~~~ 60 (94) T 1x4m_A 15 AVQEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGA 60 (94) T ss_dssp EEEEEEECHHHHHHHSCSSSSHHHHHHHHHTSEEEECCSCCCSSCS T ss_pred EEEEEEECHHHHCCEECCCCHHHHHHHHHCCCEEEECCCCCCCCCC T ss_conf 7999997867400009959733799999809779975788888998 No 50 >2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, ATP-binding cassette, cytoplasm; HET: ADP; 3.20A {Geobacillus stearothermophilus 10} Probab=66.25 E-value=5.4 Score=17.54 Aligned_cols=20 Identities=30% Similarity=0.604 Sum_probs=14.7 Q ss_pred HHHHHCCCCCCCCCEEEEEC Q ss_conf 11210023675465378606 Q gi|254780751|r 476 VLESTTKVCTYCKGAGYIRS 495 (723) Q Consensus 476 l~e~~~~~c~~c~g~g~~~~ 495 (723) +...+..+|+.|+|..+.+. T Consensus 771 ~l~~~~~~c~~c~g~R~~~e 790 (972) T 2r6f_A 771 FLPDVYVPCEVCHGKRYNRE 790 (972) T ss_dssp SSCCEEEECTTTTTCCBCTT T ss_pred CCCCCCCCCHHCCCCCCCHH T ss_conf 14553200211056420177 No 51 >3fdr_A Tudor and KH domain-containing protein; TDRD2, structural genomics, structural genomics consortium, SGC, alternative splicing, RNA-binding; 1.75A {Homo sapiens} Probab=65.92 E-value=4.4 Score=18.17 Aligned_cols=35 Identities=34% Similarity=0.594 Sum_probs=25.2 Q ss_pred CCCEEEEEEEEECCC--CCEEEEEECCCCCCCCCHHHCC Q ss_conf 287879899783638--8231353278977130222137 Q gi|254780751|r 39 KGNIYLAKVTRVEPS--LQAAFVDYGGNRHGFLPFLEIH 75 (723) Q Consensus 39 ~GnIY~G~V~~V~p~--lqAAFVdiG~~k~gFL~~~ei~ 75 (723) -|.-|.|+|.++.++ ..--|||||.. ..+++.+|. T Consensus 41 d~~wyRa~I~~~~~~~~~~V~~vDyG~~--~~v~~~~l~ 77 (94) T 3fdr_A 41 NGSWYRARVLGTLENGNLDLYFVDFGDN--GDCPLKDLR 77 (94) T ss_dssp TTEEEEEEEEEECTTSCEEEEETTTCCE--EEECGGGCE T ss_pred CCEEEEEEEEEECCCCEEEEEEEEECCE--EEEEHHHHH T ss_conf 9929999999988999599999961997--998679966 No 52 >3i2z_B RNA chaperone, negative regulator of CSPA transcription; beta barrel, DNA binding protein/transcription, cytoplasm, gene regulation; 1.10A {Salmonella typhimurium} PDB: 1mjc_A 3mef_A Probab=62.23 E-value=6.4 Score=17.04 Aligned_cols=35 Identities=17% Similarity=0.243 Sum_probs=28.0 Q ss_pred EEEEEEEECCCCCEEEEEECC-CCCCCCCHHHCCCC Q ss_conf 798997836388231353278-97713022213712 Q gi|254780751|r 43 YLAKVTRVEPSLQAAFVDYGG-NRHGFLPFLEIHPD 77 (723) Q Consensus 43 Y~G~V~~V~p~lqAAFVdiG~-~k~gFL~~~ei~~~ 77 (723) +.|+|+..-+.-.--||.-.. +..-|+|++.|..+ T Consensus 6 ~~G~Vk~fd~~kGyGFI~~d~g~~diF~H~s~l~~~ 41 (71) T 3i2z_B 6 IKGNVKWFNESKGFGFITPEDGSKDVFVHFSAIQTN 41 (71) T ss_dssp EEEEEEEEETTTTEEEEEETTCCCCEEEEGGGBCCS T ss_pred EEEEEEEECCCCCEEEEEECCCCCEEEEEEHHHCCC T ss_conf 157999994999848998689982299990882533 No 53 >2wac_A CG7008-PA; unknown function, tudor, beta-barrel, nuclease domain, tudor-SN, SND1, methylated arginine, SDMA, splicing; 2.10A {Drosophila melanogaster} Probab=59.57 E-value=6.1 Score=17.16 Aligned_cols=11 Identities=18% Similarity=0.163 Sum_probs=4.4 Q ss_pred CCCEEECCCCC Q ss_conf 65234422788 Q gi|254780751|r 204 GRYSVLMPNTS 214 (723) Q Consensus 204 Gry~Vl~P~~~ 214 (723) +.+.|++-..| T Consensus 79 ~~~~V~~vDyG 89 (218) T 2wac_A 79 SNATVLYIDYG 89 (218) T ss_dssp TEEEEEETTTC T ss_pred CCEEEEEEECC T ss_conf 96799999349 No 54 >2ctk_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Probab=58.93 E-value=7.2 Score=16.66 Aligned_cols=47 Identities=30% Similarity=0.361 Sum_probs=36.7 Q ss_pred CCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECCCCCCCCEEE Q ss_conf 101357699999873023799999999848879998478778863389 Q gi|254780751|r 518 NIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGIELADKLFYI 565 (723) Q Consensus 518 ~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~~l~~~~f~I 565 (723) ...+.+|.....+|.+.+-..|..|++.+++.|.|-. ..-....+.| T Consensus 18 ~~~i~VP~~~~~~iIG~~G~~I~~I~~~t~~~I~ip~-~~~~~~~v~I 64 (104) T 2ctk_A 18 TIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPA-PELQSDIIAI 64 (104) T ss_dssp EEEEECCHHHHHHHHCSSSHHHHHHHHHTCCEEECCC-TTTTCCEEEE T ss_pred EEEEEECHHHHHHCCCCCCHHHHHHHHHHCCEEEECC-CCCCCCEEEE T ss_conf 9999999899956158996339999998099899778-9998998999 No 55 >2ctt_A DNAJ homolog subfamily A member 3; ZING finger, beta-hairpin, structural genomics, NPPSFA; NMR {Homo sapiens} Probab=57.74 E-value=2.2 Score=20.32 Aligned_cols=14 Identities=36% Similarity=0.764 Sum_probs=9.2 Q ss_pred CCCCCCCCCEEEEE Q ss_conf 02367546537860 Q gi|254780751|r 481 TKVCTYCKGAGYIR 494 (723) Q Consensus 481 ~~~c~~c~g~g~~~ 494 (723) ..+||.|+|+|.+. T Consensus 67 ~~~C~~C~G~G~ii 80 (104) T 2ctt_A 67 RSTCRRCGGRGSII 80 (104) T ss_dssp EEECSSSSSSSEEC T ss_pred EEECCHHCCCCEEC T ss_conf 24772416634087 No 56 >2dgr_A Ring finger and KH domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=55.74 E-value=5.6 Score=17.44 Aligned_cols=40 Identities=25% Similarity=0.113 Sum_probs=35.3 Q ss_pred CCCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEEC Q ss_conf 4310135769999987302379999999984887999847 Q gi|254780751|r 516 AHNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIG 555 (723) Q Consensus 516 ~~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d 555 (723) .-.+.+.+|+....++.+.+-..|.+|++.++++|.|-.+ T Consensus 9 ~~t~~i~Vp~~~~g~iIG~~G~~i~~I~~~tg~~I~i~~~ 48 (83) T 2dgr_A 9 QTTIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTPGR 48 (83) T ss_dssp SEEEEEECCHHHHHHHHTTTTSSHHHHHHHTTCEEECCCS T ss_pred EEEEEEEECHHHHCCEECCCCHHHHHHHHHHCCEEEECCC T ss_conf 1899999996862734888853899999988999996788 No 57 >2ctl_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Probab=53.60 E-value=6.6 Score=16.96 Aligned_cols=42 Identities=14% Similarity=0.099 Sum_probs=36.0 Q ss_pred CCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECCCC Q ss_conf 310135769999987302379999999984887999847877 Q gi|254780751|r 517 HNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGIEL 558 (723) Q Consensus 517 ~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~~l 558 (723) -.+.+.+|.....++.+.+-..|.+|++.+++.|.|-..+.. T Consensus 17 ~~~~i~Vp~~~~~~iIG~~G~~I~~I~~~tg~~I~i~~~~~~ 58 (97) T 2ctl_A 17 FKLSVTVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDG 58 (97) T ss_dssp CEEEEECCTTTHHHHSCSSSCHHHHHHHHHTCEEECCCTTTC T ss_pred EEEEEEECHHHHHHCCCCCCCCHHHHHHHHCCEEEECCCCCC T ss_conf 689999998998352798973099999986998995688889 No 58 >1vig_A Vigilin; RNA-binding protein, ribonucleoprotein; NMR {Homo sapiens} SCOP: d.51.1.1 PDB: 1vih_A Probab=52.41 E-value=7.2 Score=16.68 Aligned_cols=39 Identities=13% Similarity=0.199 Sum_probs=34.3 Q ss_pred CCCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEE Q ss_conf 431013576999998730237999999998488799984 Q gi|254780751|r 516 AHNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVI 554 (723) Q Consensus 516 ~~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~ 554 (723) ...+.+.+|+....++.+.+-..|.+|++.+++.|.|-. T Consensus 4 ~~~~~i~Vp~~~~~~iIG~~G~~I~~I~~~t~~~I~i~~ 42 (71) T 1vig_A 4 MDYVEINIDHKFHRHLIGKSGANINRIKDQYKVSVRIPP 42 (71) T ss_dssp CEEEEEEECSSHHHHHTCSSCCHHHHHHHHTCCEEECCC T ss_pred EEEEEEEECHHHHHHCCCCCCHHHHHHHHHHCCEEEECC T ss_conf 389999999887523289999019999998498899788 No 59 >1dtj_A RNA-binding neurooncological ventral antigen 2; KH domain, alpha-beta fold RNA-binding motif, immune system; 2.00A {Homo sapiens} SCOP: d.51.1.1 PDB: 1dt4_A Probab=50.62 E-value=8.9 Score=16.05 Aligned_cols=42 Identities=21% Similarity=0.253 Sum_probs=36.3 Q ss_pred CCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECCCCC Q ss_conf 101357699999873023799999999848879998478778 Q gi|254780751|r 518 NIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGIELA 559 (723) Q Consensus 518 ~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~~l~ 559 (723) .+.+.+|...+.++.+.+-..|..|.+.+|++|.|..+.... T Consensus 4 ~v~i~VP~~~vg~iIGk~G~~Ik~I~~~tg~~I~i~~~~~~~ 45 (76) T 1dtj_A 4 LVEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFL 45 (76) T ss_dssp EEEEEEETTTHHHHHCSTTHHHHHHHHHHCCEEEECCTTCCS T ss_pred EEEEEECHHHCCEEECCCCHHHHHHHHHHCCEEEEECCCCCC T ss_conf 999996977503128989747999999879889997078889 No 60 >1c9o_A CSPB, cold-shock protein; beta barrel, homodimer, transcription; 1.17A {Bacillus caldolyticus} SCOP: b.40.4.5 PDB: 2hax_A 1hz9_A 1hzb_A 1i5f_A 1hza_A 1hzc_A 2es2_A 1csq_A 1nmf_A 1nmg_A 1csp_A 2f52_A 2i5m_X 2i5l_X Probab=48.90 E-value=10 Score=15.58 Aligned_cols=33 Identities=21% Similarity=0.312 Sum_probs=26.1 Q ss_pred EEEEEEECCCCCEEEEEECCCCCCCCCHHHCCC Q ss_conf 989978363882313532789771302221371 Q gi|254780751|r 44 LAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHP 76 (723) Q Consensus 44 ~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~ 76 (723) .|+|+-.-+.=.=-||..-.+..-|+|++.|.. T Consensus 3 ~G~Vk~f~~~kGfGFI~~d~g~diF~H~s~l~~ 35 (66) T 1c9o_A 3 RGKVKWFNNEKGYGFIEVEGGSDVFVHFTAIQG 35 (66) T ss_dssp EEEEEEEETTTTEEEEEETTEEEEEEEGGGBCS T ss_pred CEEEEEEECCCCEEEEECCCCCEEEEEEEHHCC T ss_conf 809999969998499836999389999704151 No 61 >3o2i_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 2.20A {Leptospirillum rubarum} Probab=48.36 E-value=11 Score=15.53 Aligned_cols=47 Identities=21% Similarity=0.332 Sum_probs=36.5 Q ss_pred HHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCC Q ss_conf 99999999987310368638960334798888999999999973127872 Q gi|254780751|r 404 LEAAEEIARQLRLRDLAGLIVVDFIDMEEKKNNRSVEKKLKESLKKDRAR 453 (723) Q Consensus 404 leAA~EIaRQlRLRnlgGiIvIDFIdM~~~~~~~~v~~~l~~~l~~D~~~ 453 (723) ||.|+-..----.|+-||+|-|-|---- .+.+|...+...|.+||.- T Consensus 77 LE~srYLi~~HGF~~AGGL~~I~~P~E~---SK~~V~~~i~~~L~rDRSD 123 (125) T 3o2i_A 77 LEVSKYLVTAHGFVEAGGLQEIGFPGEL---SKTEVRRRINAFLGKDRSD 123 (125) T ss_dssp HHHHHHHHHHHCCEEECCEEEEEEETTC---CHHHHHHHHHHHHC----- T ss_pred HHHHHHHHHHCCCCCCCCEEEECCCHHH---HHHHHHHHHHHHHCCCCCC T ss_conf 9999998850264005874794372144---0889999999986746556 No 62 >3ntk_A Maternal protein tudor; tudor domain, OB-fold, GERM cell formation, transcription; 1.80A {Drosophila melanogaster} PDB: 3nth_A* 3nti_A* Probab=48.30 E-value=7.3 Score=16.64 Aligned_cols=44 Identities=16% Similarity=0.187 Sum_probs=17.2 Q ss_pred CCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCEE Q ss_conf 6888579998403332345641012334576523442278875124 Q gi|254780751|r 174 IKNRQILLVQIVKEERGNKGAAVTTYLSLAGRYSVLMPNTSKGETI 219 (723) Q Consensus 174 lk~gq~ilVQV~ke~~~~Kga~lT~~isl~Gry~Vl~P~~~~~~~i 219 (723) +++|+..+++-.-+.. ---++++... =.|.|.|++...|....+ T Consensus 48 ~~~G~~c~a~~~~d~~-w~Ra~I~~~~-~~~~~~V~~iDyG~~~~V 91 (169) T 3ntk_A 48 LKEGALCVAQFPEDEV-FYRAQIRKVL-DDGKCEVHFIDFGNNAVT 91 (169) T ss_dssp CCTTCEEEEEETTTTE-EEEEEEEEEC-STTCEEEEETTTTEEEEE T ss_pred CCCCCEEEEEECCCCE-EEEEEEEEEC-CCCEEEEEEEECCCEEEC T ss_conf 9859999999878992-9999999856-997899999965981993 No 63 >1g6p_A Cold shock protein TMCSP; greek-KEY, beta barrel, OB-fold, structural genomics; NMR {Thermotoga maritima} SCOP: b.40.4.5 Probab=47.91 E-value=11 Score=15.48 Aligned_cols=32 Identities=16% Similarity=0.203 Sum_probs=24.9 Q ss_pred EEEEEEECCCCCEEEEEECCCCCCCCCHHHCC Q ss_conf 98997836388231353278977130222137 Q gi|254780751|r 44 LAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIH 75 (723) Q Consensus 44 ~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~ 75 (723) .|+|+-.-+.-.--||.-..+..-|+|.++|. T Consensus 2 ~G~Vk~f~~~kGfGFI~~~~g~dvFvH~s~l~ 33 (66) T 1g6p_A 2 RGKVKWFDSKKGYGFITKDEGGDVFVHWSAIE 33 (66) T ss_dssp CEEEEEEETTTTEEEEEETTSCBCBBCSSSSC T ss_pred EEEEEEEECCCCEEEEECCCCCEEEEEHHHHC T ss_conf 28999993999828987189963999958816 No 64 >2d9t_A Tudor domain-containing protein 3; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: b.34.9.1 Probab=47.78 E-value=8.6 Score=16.13 Aligned_cols=34 Identities=26% Similarity=0.417 Sum_probs=24.8 Q ss_pred CCEEEEEEEEECCC---CCEEEEEECCCCCCCCCHHHCC Q ss_conf 87879899783638---8231353278977130222137 Q gi|254780751|r 40 GNIYLAKVTRVEPS---LQAAFVDYGGNRHGFLPFLEIH 75 (723) Q Consensus 40 GnIY~G~V~~V~p~---lqAAFVdiG~~k~gFL~~~ei~ 75 (723) |.-|.|+|..|.+. ..--|||||... .+++++|. T Consensus 24 ~~wYRa~I~~i~~~~~~~~V~fvDYGn~e--~V~~~~Lr 60 (78) T 2d9t_A 24 NKFYRAEVEALHSSGMTAVVKFTDYGNYE--EVLLSNIK 60 (78) T ss_dssp CCEEEEEEEEECSSSSEEEEEETTTTEEE--EEEGGGEE T ss_pred CCEEEEEEEEECCCCCEEEEEEEECCCEE--EEEHHHEE T ss_conf 96999999998378998999999089969--98779908 No 65 >1we8_A Tudor and KH domain containing protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.51.1.1 Probab=47.04 E-value=11 Score=15.39 Aligned_cols=44 Identities=14% Similarity=-0.081 Sum_probs=36.4 Q ss_pred CCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECCCCCCC Q ss_conf 10135769999987302379999999984887999847877886 Q gi|254780751|r 518 NIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGIELADK 561 (723) Q Consensus 518 ~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~~l~~~ 561 (723) ...+.+|...+.++.+.+-..|.+|++.++++|.|..+...... T Consensus 16 ~~~i~IP~~~vg~iIG~~G~~I~~I~~~tga~I~i~~~~~~~~~ 59 (104) T 1we8_A 16 FEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLL 59 (104) T ss_dssp EEEEEEETTTHHHHHTTTSHHHHHHHHHHCCEEEECCSSCCSSS T ss_pred EEEEEECHHHCCEEECCCCHHHHHHHHHHCCEEEECCCCCCCCC T ss_conf 99999896763821996971999746875989997888888888 No 66 >1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1 Probab=46.88 E-value=11 Score=15.37 Aligned_cols=41 Identities=10% Similarity=0.064 Sum_probs=30.6 Q ss_pred CCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECCC Q ss_conf 31013576999998730237999999998488799984787 Q gi|254780751|r 517 HNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGIE 557 (723) Q Consensus 517 ~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~~ 557 (723) ..+.+.+|+....++.+.+-..+.+|+..+|..|.|..+.. T Consensus 104 ~~~~i~vp~~~~~~iIG~~G~~i~~i~~~tga~I~i~~~~~ 144 (174) T 1j4w_A 104 QEFNFIVPTGKTGLIIGKGGETIKSISQQSGARIELQRNPP 144 (174) T ss_dssp CEEEEEEETTTHHHHHCGGGHHHHHHHHHHCCEEEEECCCT T ss_pred CEEEEEECHHHHHHHCCCCCHHHHHHHHHCCCEEEECCCCC T ss_conf 12999988787657369998379999997099899678888 No 67 >2opv_A KHSRP protein; KH domain, RNA binding protein, KSRP; NMR {Homo sapiens} Probab=46.68 E-value=11 Score=15.35 Aligned_cols=45 Identities=11% Similarity=0.082 Sum_probs=37.3 Q ss_pred CCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECCCCCCC Q ss_conf 310135769999987302379999999984887999847877886 Q gi|254780751|r 517 HNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGIELADK 561 (723) Q Consensus 517 ~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~~l~~~ 561 (723) ....+.+|...+.+|.+..-..|..|+..+++.|.|..+.....+ T Consensus 14 ~~~~v~Vp~~~vg~iIGk~G~~Ik~I~~~sg~~I~i~~~~~~~~~ 58 (85) T 2opv_A 14 TVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTN 58 (85) T ss_dssp EEEEEEECTTTHHHHHTTTTHHHHHHHHHHTCEEEECSSSCSSTT T ss_pred EEEEEEECHHHCCEEECCCCHHHHHHHHHCCCEEEECCCCCCCCC T ss_conf 589999697763723998973799999980967997577888999 No 68 >1ec6_A RNA-binding protein NOVA-2; KH domain, alpha-beta fold, RNA-binding motif, protein/RNA structure, RNA binding protein/RNA complex; 2.40A {Homo sapiens} SCOP: d.51.1.1 Probab=46.10 E-value=11 Score=15.29 Aligned_cols=42 Identities=21% Similarity=0.278 Sum_probs=36.4 Q ss_pred CCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECCCC Q ss_conf 310135769999987302379999999984887999847877 Q gi|254780751|r 517 HNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGIEL 558 (723) Q Consensus 517 ~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~~l 558 (723) ..+.+.+|.+.+.++.+.+-..|.+|+..+|..|.|..+... T Consensus 3 ~~vei~VP~~~vg~iIGk~G~~Ik~I~~~tg~~I~i~~~~~~ 44 (87) T 1ec6_A 3 ELVEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEF 44 (87) T ss_dssp SEEEEEEEHHHHHHHHCGGGHHHHHHHHHHCCEEEECCTTCB T ss_pred EEEEEEECHHHCCEEECCCCHHHHHHHHHHCCEEEEECCCCC T ss_conf 699999397444636996986899999987989998068788 No 69 >2p2r_A Poly(RC)-binding protein 2; protein-DNA complex, RNA and DNA binding protein/DNA complex; 1.60A {Homo sapiens} Probab=44.75 E-value=12 Score=15.16 Aligned_cols=41 Identities=15% Similarity=0.215 Sum_probs=35.7 Q ss_pred CCCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECC Q ss_conf 43101357699999873023799999999848879998478 Q gi|254780751|r 516 AHNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGI 556 (723) Q Consensus 516 ~~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~ 556 (723) ...+.+.+|.....++.+.+-..|..|+..+|++|.|..++ T Consensus 4 ~~s~~i~VP~~~vg~iIGk~G~~i~~i~~~sga~I~i~~~~ 44 (76) T 2p2r_A 4 TTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPV 44 (76) T ss_dssp CEEEEEEEEHHHHHHHHCGGGHHHHHHHHHHCCEEEECCCC T ss_pred CEEEEEEECHHHCCEEECCCCHHHHHHHHHHCCEEEECCCC T ss_conf 47899998977538169989818999999759929980689 No 70 >2ctm_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Probab=44.46 E-value=11 Score=15.27 Aligned_cols=39 Identities=15% Similarity=0.074 Sum_probs=33.2 Q ss_pred CCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECC Q ss_conf 101357699999873023799999999848879998478 Q gi|254780751|r 518 NIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGI 556 (723) Q Consensus 518 ~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~ 556 (723) ...+.+|.....+|.+.+-..|.+|++.+++.|.|-... T Consensus 18 ~~~i~Ip~~~~~~iIG~~G~~I~~I~~~t~~~I~~~~~~ 56 (95) T 2ctm_A 18 SEDVPLDHRVHARIIGARGKAIRKIMDEFKVDIRFPQSG 56 (95) T ss_dssp CEEEECCTTTHHHHHCSSSCHHHHHHHHHTCEEECCCTT T ss_pred EEEEEECHHHHHHHHCCCCHHHHHHHHHHCCEEEECCCC T ss_conf 899999989985741889633999999859889978988 No 71 >1j5k_A Heterogeneous nuclear ribonucleoprotein K; single-stranded DNA binding protein, transcription factor, hnRNP K, CT element, C-MYC oncogene; NMR {Homo sapiens} SCOP: d.51.1.1 PDB: 1khm_A Probab=44.30 E-value=12 Score=15.11 Aligned_cols=39 Identities=15% Similarity=0.111 Sum_probs=34.6 Q ss_pred CCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEEC Q ss_conf 310135769999987302379999999984887999847 Q gi|254780751|r 517 HNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIG 555 (723) Q Consensus 517 ~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d 555 (723) -...+.+|.....++.+.+-..|.+|++.++++|.|... T Consensus 14 ~t~~i~VP~~~vg~iIG~~G~~I~~I~~~sga~I~v~~~ 52 (89) T 1j5k_A 14 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEP 52 (89) T ss_dssp EEEEEEEEHHHHHHHHCGGGHHHHHHHHHTCCEEEECSC T ss_pred EEEEEEECHHHCCEEECCCCCCHHHHHHHHCCEEEECCC T ss_conf 899999997756727998984248999974988997478 No 72 >2eqk_A Tudor domain-containing protein 4; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=42.01 E-value=12 Score=15.21 Aligned_cols=34 Identities=12% Similarity=0.116 Sum_probs=24.5 Q ss_pred CCCEEEEEEEEECCC--CCEEEEEECCCCCCCCCHHHC Q ss_conf 287879899783638--823135327897713022213 Q gi|254780751|r 39 KGNIYLAKVTRVEPS--LQAAFVDYGGNRHGFLPFLEI 74 (723) Q Consensus 39 ~GnIY~G~V~~V~p~--lqAAFVdiG~~k~gFL~~~ei 74 (723) -|.-|.|+|.++.+. .+--|||||.. ..+++++| T Consensus 35 d~~WyRa~I~~i~~~~~v~V~fvDyG~~--~~V~~~~L 70 (85) T 2eqk_A 35 KNQWRRGQIIRMVTDTLVEVLLYDVGVE--LVVNVDCL 70 (85) T ss_dssp SCCEEEEEEEEECSSSEEEEECTTTCCE--EEEETTTE T ss_pred CCEEEEEEEEECCCCCEEEEEEECCCCE--EEEEHHHH T ss_conf 9979999975138998389999777986--99876990 No 73 >2axy_A Poly(RC)-binding protein 2; protein-DNA complex, DNA binding protein/DNA complex; 1.70A {Homo sapiens} SCOP: d.51.1.1 PDB: 2pqu_A 2py9_A 1ztg_A Probab=41.66 E-value=13 Score=14.84 Aligned_cols=39 Identities=18% Similarity=0.237 Sum_probs=34.5 Q ss_pred CCCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEE Q ss_conf 431013576999998730237999999998488799984 Q gi|254780751|r 516 AHNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVI 554 (723) Q Consensus 516 ~~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~ 554 (723) .-.+.+.+|...+.++.+.+-..|.+|++.+|++|.|.. T Consensus 4 ~~t~~i~ip~~~~g~iIG~~G~~I~~I~~~tga~I~i~~ 42 (73) T 2axy_A 4 TLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISE 42 (73) T ss_dssp CEEEEEEEEHHHHHHHHCGGGHHHHHHHHHHCCEEEECS T ss_pred CEEEEEEECHHHEEEEECCCCHHHHHHHHHCCCEEEECC T ss_conf 489999988667235899998349999997098899738 No 74 >1nz0_A Ribonuclease P protein component; endonuclease, RNAse, ALFA-beta sandwich, dimer, structural genomics, BSGC structure funded by NIH; HET: MSE; 1.20A {Thermotoga maritima} SCOP: d.14.1.2 Probab=41.52 E-value=13 Score=14.82 Aligned_cols=56 Identities=18% Similarity=0.322 Sum_probs=33.4 Q ss_pred CCCEEEECCCCHHHHHHHHHHHHHHH------CCCCCEEEEEE--E----CCCCCHHHHHHHHHHHHH Q ss_conf 75124204688689999999998630------02587169985--0----455757999999999999 Q gi|254780751|r 215 KGETISRKITNPVDRKNLKEIARGLE------VPAGMGVILRT--A----GASRTKIEIKRDFEYLMR 270 (723) Q Consensus 215 ~~~~iSrki~~~~~r~~l~~~~~~~~------~~~~~G~IiRT--~----a~~~~~~~l~~d~~~L~~ 270 (723) -|+.+|+|+...-.|.+++..+.+.. .+.++-+|+.- . ....+..+|..++..|++ T Consensus 47 ~g~~vsKKvg~AV~RNriKR~lRe~~R~~~~~l~~~~d~V~iak~~~~~~~~~~~~~~l~~~l~~llk 114 (118) T 1nz0_A 47 LGIVVKRKFGKATRRNKLKRWVREIFRRNKGVIPKGFDIVVIPRKKLSEEFERVDFWTVREKLLNLLK 114 (118) T ss_dssp EEECCCGGGCSHHHHHHHHHHHHHHHHHHTTTSCSSEEEEEEECHHHHHHGGGSCHHHHHHHHHHHHT T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHH T ss_conf 99998155554146899999999999987752688987999965220113322669999999999999 No 75 >2ja9_A Exosome complex exonuclease RRP40; RNA-binding protein, RNA, S1 domain, KH domain, hydrolase, RNA-binding, nuclear protein; 2.20A {Saccharomyces cerevisiae} SCOP: b.40.4.5 d.51.1.1 Probab=41.47 E-value=13 Score=14.82 Aligned_cols=33 Identities=6% Similarity=0.021 Sum_probs=25.5 Q ss_pred CCCCCEEEEEEEEECCCCCEEEEEECCCCCC-CCCH Q ss_conf 0428787989978363882313532789771-3022 Q gi|254780751|r 37 QIKGNIYLAKVTRVEPSLQAAFVDYGGNRHG-FLPF 71 (723) Q Consensus 37 ~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~g-FL~~ 71 (723) ..+|++-.|+|+.+.+ +.=+||||..-++ +|+. T Consensus 5 P~~gD~VIG~V~~~~~--~~w~vdI~s~~~~~~l~~ 38 (175) T 2ja9_A 5 PSVNDFVIGVIIGTFS--DSYKVSLQNFSSSVSLSY 38 (175) T ss_dssp CCTTCEEEEEEEEECS--SEEEEESSTTSCCEEEET T ss_pred CCCCCEEEEEEEEECC--CEEEEECCCCCHHHCCCC T ss_conf 9998999999999708--839999188425430665 No 76 >2hqx_A P100 CO-activator tudor domain; human P100 tudor domain, proteolytic fragment, PSI, structural genomics; 1.42A {Homo sapiens} SCOP: b.34.9.1 PDB: 2hqe_A 3omc_A* 3omg_A* 2o4x_A 2e6n_A 2o4x_B Probab=41.06 E-value=11 Score=15.39 Aligned_cols=22 Identities=36% Similarity=0.798 Sum_probs=8.6 Q ss_pred CEEEEEEEEECCC--CCEEEEEEC Q ss_conf 7879899783638--823135327 Q gi|254780751|r 41 NIYLAKVTRVEPS--LQAAFVDYG 62 (723) Q Consensus 41 nIY~G~V~~V~p~--lqAAFVdiG 62 (723) .-|.|+|..+.+. ..--||||| T Consensus 80 ~wyRa~V~~~~~~~~~~V~~vDyG 103 (246) T 2hqx_A 80 EWYRARVEKVESPAKIHVFYIDYG 103 (246) T ss_dssp CEEEEEEEEEEETTEEEEEETTTC T ss_pred CEEEEEEEEECCCCEEEEEEEECC T ss_conf 699999999758980899999379 No 77 >1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A* Probab=39.51 E-value=6.9 Score=16.80 Aligned_cols=67 Identities=16% Similarity=0.115 Sum_probs=31.8 Q ss_pred CCCCCCCCCCCCCEEEC--CCCCCCCEEEECCCCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCHHHHHHHH Q ss_conf 41012334576523442--2788751242046886899999999986300258716998504557579999999 Q gi|254780751|r 194 AAVTTYLSLAGRYSVLM--PNTSKGETISRKITNPVDRKNLKEIARGLEVPAGMGVILRTAGASRTKIEIKRDF 265 (723) Q Consensus 194 a~lT~~isl~Gry~Vl~--P~~~~~~~iSrki~~~~~r~~l~~~~~~~~~~~~~G~IiRT~a~~~~~~~l~~d~ 265 (723) .++.+..+..|..+|+. +.......+..=-........++.++ ....|+|+=|..-|..+.....-+ T Consensus 119 ~R~~~~p~~~g~~~v~Rll~~~~~~~~l~~Lg~~~~~~~~l~~~~-----~~~~GlilisGpTGSGKSTTl~a~ 187 (418) T 1p9r_A 119 VRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTAHNHDNFRRLI-----KRPHGIILVTGPTGSGKSTTLYAG 187 (418) T ss_dssp EEEEEECCTTSCEEEECCEETTTTCCCGGGSCCCHHHHHHHHHHH-----TSSSEEEEEECSTTSCHHHHHHHH T ss_pred EEEEEECCCCCCEEEEEECCCCCCCCCHHHCCCCHHHHHHHHHHH-----HCCCCEEEEECCCCCCCHHHHHHH T ss_conf 999974034575368864133446677655599678999999998-----568977999679988641789999 No 78 >3d3r_A Hydrogenase assembly chaperone HYPC/HUPF; small beta-barrel, structural genomics, PSI-2, protein structure initiative; 1.85A {Shewanella oneidensis mr-1} SCOP: b.40.14.1 Probab=39.16 E-value=14 Score=14.58 Aligned_cols=20 Identities=30% Similarity=0.277 Sum_probs=13.9 Q ss_pred EEEEEECCCCCEEEEEECCC Q ss_conf 89978363882313532789 Q gi|254780751|r 45 AKVTRVEPSLQAAFVDYGGN 64 (723) Q Consensus 45 G~V~~V~p~lqAAFVdiG~~ 64 (723) |+|..|.....-|.||+|.. T Consensus 28 ~kVveI~~~~~~A~Vd~~Gv 47 (103) T 3d3r_A 28 SQVVAVDNERQSVTVDTLGV 47 (103) T ss_dssp EEEEEEETTTTEEEEEETTE T ss_pred EEEEEECCCCCEEEEECCCE T ss_conf 19999929888899967994 No 79 >1exk_A DNAJ protein; extended beta-hairpin, CXXCXGXG, zinc-binding motif, chaperone; NMR {Escherichia coli} SCOP: g.54.1.1 Probab=39.03 E-value=6.5 Score=16.98 Aligned_cols=16 Identities=25% Similarity=0.731 Sum_probs=10.4 Q ss_pred HCCCCCCCCCEEEEEC Q ss_conf 0023675465378606 Q gi|254780751|r 480 TTKVCTYCKGAGYIRS 495 (723) Q Consensus 480 ~~~~c~~c~g~g~~~~ 495 (723) +..+|+.|+|+|.+.. T Consensus 49 ~~~~C~~C~G~G~~i~ 64 (79) T 1exk_A 49 VQQTCPHCQGRGTLIK 64 (79) T ss_dssp EEEECTTTTTSSEECS T ss_pred EEEECCCCCCEEEECC T ss_conf 7879954775246789 No 80 >3bdl_A Staphylococcal nuclease domain-containing protein 1; staphylococcal nuclease OB fold, tudor domain, cytoplasm, HOST-virus interaction, nucleus; HET: CIT; 1.90A {Homo sapiens} Probab=38.88 E-value=13 Score=15.02 Aligned_cols=22 Identities=27% Similarity=0.270 Sum_probs=14.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHCC Q ss_conf 7999999999999998731036 Q gi|254780751|r 398 TALQTNLEAAEEIARQLRLRDL 419 (723) Q Consensus 398 t~l~tNleAA~EIaRQlRLRnl 419 (723) +.....+.+|++.|++-++.-- T Consensus 319 ~~~~~~l~~ae~~Ak~~k~glW 340 (570) T 3bdl_A 319 SSYYKSLLSAEEAAKQKKEKVW 340 (570) T ss_dssp STTHHHHHHHHHHHHHHTCGGG T ss_pred CCHHHHHHHHHHHHHHHHCCCC T ss_conf 7179999999999998751776 No 81 >1mhn_A SurviVal motor neuron protein; SMN, SMA, spinal muscular atrophy, RNA binding protein; 1.80A {Homo sapiens} SCOP: b.34.9.1 Probab=38.21 E-value=13 Score=14.79 Aligned_cols=34 Identities=18% Similarity=0.427 Sum_probs=22.7 Q ss_pred CCCEEEEEEEEECCCC---CEEEEEECCCCCCCCCHHHC Q ss_conf 2878798997836388---23135327897713022213 Q gi|254780751|r 39 KGNIYLAKVTRVEPSL---QAAFVDYGGNRHGFLPFLEI 74 (723) Q Consensus 39 ~GnIY~G~V~~V~p~l---qAAFVdiG~~k~gFL~~~ei 74 (723) -|.-|.|+|..+.+.- .--|||||.... .+++++ T Consensus 17 D~~wYRA~I~~i~~~~~~~~V~fvDYGn~e~--V~~~~L 53 (59) T 1mhn_A 17 DGCIYPATIASIDFKRETCVVVYTGYGNREE--QNLSDL 53 (59) T ss_dssp TSCEEEEEEEEEETTTTEEEEEETTTTEEEE--EEGGGC T ss_pred CCCEEEEEEEEECCCCCEEEEEEECCCCEEE--EEHHHC T ss_conf 8989889999971889999999964899899--899997 No 82 >3ea1_A 1-phosphatidylinositol phosphodiesterase; phosphatidylinositol-specific phospholipase C, PI-PLC, dimer, interfacially impaired; 1.75A {Bacillus thuringiensis} PDB: 3ea2_A* 3ea3_A 1t6m_A 2or2_A 1gym_A* 1ptd_A 1ptg_A* 7ptd_A 2ptd_A 4ptd_A 3ptd_A 6ptd_A 5ptd_A Probab=38.05 E-value=15 Score=14.46 Aligned_cols=76 Identities=20% Similarity=0.153 Sum_probs=41.7 Q ss_pred HHHHHHHHHHHHCCCCCCCCCCEEEEECCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEC Q ss_conf 77699999998422214367864998328806999823755444555114799999999999999873103686389603 Q gi|254780751|r 348 RSGIEVQLDSLHQTEVTLPSRGYVIINQTEALVSIDVNSGRSTREHCIEDTALQTNLEAAEEIARQLRLRDLAGLIVVDF 427 (723) Q Consensus 348 ~y~ie~~i~~~~~~~V~L~sGG~lvIe~TEALt~IDVNSG~~~~~~~~e~t~l~tNleAA~EIaRQlRLRnlgGiIvIDF 427 (723) .-.+..+++.++.. ....+.+.|..|-+ . ++.. ........|-++|-....-+..+-.- --|||++|| T Consensus 208 ~~~~~~~l~~~~~~---~~~~~~l~in~~s~-----~-~~~~-~~~~p~~~a~~~N~~l~~~l~~~~~~--~~niV~~DF 275 (298) T 3ea1_A 208 VKSIKDTMDETMNN---SEDLNHLYINFTSL-----S-SGGT-AWNSPYSYASSINPEIANDIKQKNPT--RVGWVIQDY 275 (298) T ss_dssp HHHHHHHHHHHHTT---TTCTTEEEEEECCC-----C-CCSS-GGGSHHHHHHHHHHHHHHHHHHHCCS--CCCEEEESC T ss_pred HHHHHHHHHHHHHC---CCCCCEEEEEEEEE-----C-CCCC-CCCCHHHHHHHHHHHHHHHHHHCCCC--CCCEEEEEC T ss_conf 89999999998607---67788489998980-----4-7887-77898999999999999999716899--983899962 Q ss_pred CCCCCHHH Q ss_conf 34798888 Q gi|254780751|r 428 IDMEEKKN 435 (723) Q Consensus 428 IdM~~~~~ 435 (723) +++....+ T Consensus 276 v~~~~~~~ 283 (298) T 3ea1_A 276 INEKWSPL 283 (298) T ss_dssp CSSSSSSC T ss_pred CCCCCCHH T ss_conf 89987025 No 83 >2kcm_A Cold shock domain family protein; nucleic acid binding protein, beta barrel, structural genomics, PSI-2, protein structure initiative; NMR {Shewanella oneidensis mr-1} Probab=37.90 E-value=15 Score=14.45 Aligned_cols=31 Identities=23% Similarity=0.270 Sum_probs=27.3 Q ss_pred EEEEEEECCCCCEEEEEECCCCCCCCCHHHC Q ss_conf 9899783638823135327897713022213 Q gi|254780751|r 44 LAKVTRVEPSLQAAFVDYGGNRHGFLPFLEI 74 (723) Q Consensus 44 ~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei 74 (723) .|+|+..-+.-.=-||--..++.-|+|+++| T Consensus 2 ~G~Vk~f~~~KGfGFI~~~dg~DvFvH~s~l 32 (74) T 2kcm_A 2 KGKVVSYLAAKKYGFIQGDDGESYFLHFSEL 32 (74) T ss_dssp EEEEEEEETTTTEEEEEETTSCEECCCGGGS T ss_pred EEEEEEEECCCCEEEEECCCCCEEEEEEEHH T ss_conf 3799999799987388659998899994052 No 84 >3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain, cell projection, cytoplasm, nucleus, phosphoprotein, translation regulation; 2.75A {Homo sapiens} Probab=36.80 E-value=16 Score=14.33 Aligned_cols=39 Identities=8% Similarity=0.032 Sum_probs=23.1 Q ss_pred CCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECC Q ss_conf 101357699999873023799999999848879998478 Q gi|254780751|r 518 NIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGI 556 (723) Q Consensus 518 ~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~ 556 (723) .+.+.+|.....++.+.+-..|.+|++.++..|.|..+. T Consensus 86 ~~~~~vp~~~~~~iIG~~G~~i~~I~~~tg~~I~i~~~~ 124 (163) T 3krm_A 86 ETHIRVPASAAGRVIGKGGKTVNELQNLTAAEVVVPRDQ 124 (163) T ss_dssp EEEEEEETTTHHHHHCGGGHHHHHHHHHHCCEEECCTTC T ss_pred CCCCCCCHHHHEEEECCCCCHHHHHHHHCCCEEEECCCC T ss_conf 101359655401678899801899985289699986788 No 85 >1tua_A Hypothetical protein APE0754; structural genomics, protein structure initiative, MCSG, four layers alpha-beta sandwich, PSI; 1.50A {Aeropyrum pernix} SCOP: d.51.1.1 d.51.1.1 Probab=36.08 E-value=16 Score=14.26 Aligned_cols=13 Identities=23% Similarity=0.169 Sum_probs=5.0 Q ss_pred HHHHHHHHHHHHH Q ss_conf 9999999999987 Q gi|254780751|r 402 TNLEAAEEIARQL 414 (723) Q Consensus 402 tNleAA~EIaRQl 414 (723) .|.++|++....| T Consensus 145 ~~V~~A~~~I~~i 157 (191) T 1tua_A 145 ERAMAAKQAIEML 157 (191) T ss_dssp HHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHH T ss_conf 9999999999999 No 86 >2hh2_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens} Probab=35.00 E-value=8.3 Score=16.24 Aligned_cols=42 Identities=2% Similarity=0.090 Sum_probs=36.5 Q ss_pred CCCCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECC Q ss_conf 643101357699999873023799999999848879998478 Q gi|254780751|r 515 TAHNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGI 556 (723) Q Consensus 515 ~~~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~ 556 (723) ...++.+.+|...+.++.+.+-..|.+|++.++++|.|..+. T Consensus 5 P~~~i~~~VP~~~vG~IIGk~G~~Ik~i~~~tga~I~i~~~~ 46 (107) T 2hh2_A 5 PGGEMTFSIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQL 46 (107) T ss_dssp --CCEEEEEEGGGTTTTSTTTTCHHHHHHHHSSSEEEECCCC T ss_pred CCCEEEEEECHHHCCEEECCCCHHHHHHHHHCCCEEEECCCC T ss_conf 997599998966616458989848983233159699974688 No 87 >1x4n_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1 PDB: 2opu_A Probab=34.66 E-value=17 Score=14.11 Aligned_cols=40 Identities=10% Similarity=0.135 Sum_probs=35.1 Q ss_pred CCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECC Q ss_conf 3101357699999873023799999999848879998478 Q gi|254780751|r 517 HNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGI 556 (723) Q Consensus 517 ~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~ 556 (723) -...+.+|.+.+.++.+.+-..|..|++.++++|.|..+. T Consensus 15 vt~~i~ip~~~vg~iIGk~G~~I~~I~~~tg~~I~i~~~~ 54 (92) T 1x4n_A 15 MTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDS 54 (92) T ss_dssp EEEEEEEEHHHHHHHHCSSSHHHHHHHHHSCCEEEECSCC T ss_pred EEEEEEECHHHCCCEECCCCHHHHHHHHHHCCEEEECCCC T ss_conf 8999999978648038989726999999729789974789 No 88 >2cte_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Probab=34.21 E-value=12 Score=15.23 Aligned_cols=37 Identities=8% Similarity=0.193 Sum_probs=32.2 Q ss_pred CCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEE Q ss_conf 3101357699999873023799999999848879998 Q gi|254780751|r 517 HNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVV 553 (723) Q Consensus 517 ~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~ 553 (723) ....+.+|.....+|.+.+...|.+|++.+++.|.|- T Consensus 17 ~t~~v~Ip~~~~~~iIG~~G~~I~~I~~~tg~~I~~p 53 (94) T 2cte_A 17 ASATVAIPKEHHRFVIGKNGEKLQDLELKTATKIQIP 53 (94) T ss_dssp EEEEEECCTTTHHHHHCSSSCHHHHHHHHTTCCCBCC T ss_pred EEEEEEECHHHHHHCCCCCCHHHHHHHHHHCCEEEEC T ss_conf 7899999989881516979651999999859989966 No 89 >2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA binding protein, KH domain, KSRP, posttranscriptional regulation, mRNA decay; NMR {Homo sapiens} Probab=33.96 E-value=17 Score=14.03 Aligned_cols=37 Identities=19% Similarity=0.148 Sum_probs=19.4 Q ss_pred CCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEEC Q ss_conf 0135769999987302379999999984887999847 Q gi|254780751|r 519 IIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIG 555 (723) Q Consensus 519 i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d 555 (723) +.+.+|.....++.+..-..|.+|+..++..|.+..+ T Consensus 93 ~~i~VP~~~vg~IIGk~G~~Ik~I~~~tg~~I~i~~~ 129 (164) T 2jvz_A 93 IDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQD 129 (164) T ss_dssp BCCEEETTTHHHHHCSSSHHHHHHHHHTCCEEEECCC T ss_pred EEECCCHHHCEEEECCCCHHHHHHHHHHCCEEEECCC T ss_conf 3312665445158889966599999964976886388 No 90 >2vnu_D Exosome complex exonuclease RRP44; rRNA processing, RNA degradation, cytoplasm, RNA-binding, RNA processing, DIS3P, nucleus, hydrolase; HET: 1PE; 2.30A {Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 Probab=32.37 E-value=18 Score=13.86 Aligned_cols=25 Identities=16% Similarity=0.215 Sum_probs=17.4 Q ss_pred CCCEEEEEEEEECCCCCEEEEEECC Q ss_conf 2878798997836388231353278 Q gi|254780751|r 39 KGNIYLAKVTRVEPSLQAAFVDYGG 63 (723) Q Consensus 39 ~GnIY~G~V~~V~p~lqAAFVdiG~ 63 (723) .|+++.|++.=--.+-.=|||..-. T Consensus 29 ~g~l~~G~l~v~~~~~~~a~V~~~~ 53 (760) T 2vnu_D 29 NGVLYQGNIQISEYNFLEGSVSLPR 53 (760) T ss_dssp HTSEEEEEEEECSSBTTEEEECCSS T ss_pred CCEEEEEEEEEECCCCCEEEEECCC T ss_conf 8969999999936999407997689 No 91 >2vy9_A Anti-sigma-factor antagonist; gene regulation, RSBS, stressosome, STAS domain, bacillus subtilis; 2.3A {Moorella thermoacetica} Probab=32.20 E-value=18 Score=13.84 Aligned_cols=89 Identities=11% Similarity=0.087 Sum_probs=64.7 Q ss_pred HHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCEEEEECCCCCCCHHHHHCCCCCCCCCEEE Q ss_conf 87310368638960334798888999999999973127872899860486148985156663011210023675465378 Q gi|254780751|r 413 QLRLRDLAGLIVVDFIDMEEKKNNRSVEKKLKESLKKDRARVQVGAISNFGLLEMSRQRIRSSVLESTTKVCTYCKGAGY 492 (723) Q Consensus 413 QlRLRnlgGiIvIDFIdM~~~~~~~~v~~~l~~~l~~D~~~~~v~~it~lGLlEltRkR~r~sl~e~~~~~c~~c~g~g~ 492 (723) ++-...+++.+|+.+..--+..+-..+.+.+.+.+.....+.-|.+||..- T Consensus 4 ~i~i~~~~~~lvv~l~G~Ld~~~~~~l~~~ll~~i~~~~~~~vilD~s~v~----------------------------- 54 (123) T 2vy9_A 4 RVPILKVDDYWVVAIEETLHDQSVIQFKEELLHNITGVAGKGLVIDISALE----------------------------- 54 (123) T ss_dssp --CCEEETTEEEEECCCCSCSHHHHHHHHHHHHHHTTSCCSEEEEECTTCS----------------------------- T ss_pred CCCEEEECCEEEEEEEEEECHHHHHHHHHHHHHHHHHCCCCEEEEECCCCC----------------------------- T ss_conf 563899899999985689878999999999999998479979999856997----------------------------- Q ss_pred EECCHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHH Q ss_conf 6061146899887889997303643101357699999873 Q gi|254780751|r 493 IRSQSSVALSILRSVEEYLLQYTAHNIIVHTHSDVVLYLL 532 (723) Q Consensus 493 ~~~~~~~~~~~~r~i~~~~~~~~~~~i~v~~~~~va~~ll 532 (723) ..++.++..+..+.+........-+.+-++|.++.-|. T Consensus 55 --~idssgl~~l~~~~~~~~~~g~~~~l~g~~p~v~~~l~ 92 (123) T 2vy9_A 55 --VVDSFVTRVLIEISRLAELLGLPFVLTGIKPAVAITLT 92 (123) T ss_dssp --SCCHHHHHHHHHHHHHHHHTTCCEEEECCCHHHHHHHH T ss_pred --CCHHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHH T ss_conf --45199999999999999976998999938999999999 No 92 >2gez_B L-asparaginase beta subunit; isoaspartyl aminopeptidase, NTN-hydrolase, autoproteolysis, taspase, sodium binding; 2.60A {Lupinus luteus} Probab=31.63 E-value=17 Score=14.02 Aligned_cols=21 Identities=14% Similarity=0.474 Sum_probs=12.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 47999999999999998731036 Q gi|254780751|r 397 DTALQTNLEAAEEIARQLRLRDL 419 (723) Q Consensus 397 ~t~l~tNleAA~EIaRQlRLRnl 419 (723) |.++++.+ |.+|+.++++.++ T Consensus 55 E~iir~~~--a~~i~~~~~~~g~ 75 (133) T 2gez_B 55 EEIIRATV--ARDVAALMEFKGL 75 (133) T ss_dssp HHHHHTTH--HHHHHHHHHHHCC T ss_pred HHHHHHHH--HHHHHHHHHHCCC T ss_conf 89999888--9999999997699 No 93 >3cbg_A O-methyltransferase; cyanobacterium; HET: SAH FER 4FE; 2.00A {Synechocystis SP} Probab=31.52 E-value=19 Score=13.76 Aligned_cols=55 Identities=20% Similarity=0.419 Sum_probs=31.7 Q ss_pred HHHCCCCEEEEECCCCC-------CHHHHHHHHHHHHHHHHH-CCCCEEEEEECCCCEEEEECCC Q ss_conf 31036863896033479-------888899999999997312-7872899860486148985156 Q gi|254780751|r 415 RLRDLAGLIVVDFIDME-------EKKNNRSVEKKLKESLKK-DRARVQVGAISNFGLLEMSRQR 471 (723) Q Consensus 415 RLRnlgGiIvIDFIdM~-------~~~~~~~v~~~l~~~l~~-D~~~~~v~~it~lGLlEltRkR 471 (723) +|=.-||+||+|=+=.. ........++.|.+.++. ++..+.+.++-. ||+ |+||| T Consensus 170 ~lLr~gGviv~DNvL~~G~V~~~~~~d~~~~~ir~fn~~l~~d~~~~~~lLPigD-Gl~-i~~Kk 232 (232) T 3cbg_A 170 NLLRRGGLMVIDNVLWHGKVTEVDPQEAQTQVLQQFNRDLAQDERVRISVIPLGD-GMT-LALKK 232 (232) T ss_dssp HTEEEEEEEEEECTTGGGGGGCSSCCSHHHHHHHHHHHHHTTCTTEEEEEECSBT-CEE-EEEEC T ss_pred HHHCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEEECCC-CEE-EEEEC T ss_conf 9836797899946634576788887888899999999998629996999988388-249-99979 No 94 >1g5v_A SurviVal motor neuron protein 1; mRNA processing, translation; NMR {Homo sapiens} SCOP: b.34.9.1 Probab=31.45 E-value=19 Score=13.76 Aligned_cols=36 Identities=17% Similarity=0.338 Sum_probs=25.5 Q ss_pred CCCEEEEEEEEECCCC---CEEEEEECCCCCCCCCHHHCCC Q ss_conf 2878798997836388---2313532789771302221371 Q gi|254780751|r 39 KGNIYLAKVTRVEPSL---QAAFVDYGGNRHGFLPFLEIHP 76 (723) Q Consensus 39 ~GnIY~G~V~~V~p~l---qAAFVdiG~~k~gFL~~~ei~~ 76 (723) =|.-|.|+|..|-+.- .--|||||.. ...++++|.| T Consensus 24 D~~wYRA~I~~i~~~~~~~~V~fvDYGn~--e~V~~~~L~~ 62 (88) T 1g5v_A 24 DGCIYPATIASIDFKRETCVVVYTGYGNR--EEQNLSDLLS 62 (88) T ss_dssp TCCEEEEEEEEEETTTTEEEEEETTTCCE--EEEEGGGCBC T ss_pred CCCEEEEEEEEECCCCCEEEEEEEECCCE--EEECHHHHCC T ss_conf 89698999998537899699999926997--9980999057 No 95 >1ka9_F Imidazole glycerol phosphtate synthase; riken structural genomics/proteomics initiative, RSGI, structural genomics, transferase; 2.30A {Thermus thermophilus} SCOP: c.1.2.1 Probab=31.24 E-value=19 Score=13.73 Aligned_cols=36 Identities=11% Similarity=0.002 Sum_probs=16.0 Q ss_pred HHHHHHHHHCCCCEEEEE--CCCCCCHHHHHHHHHHHHH Q ss_conf 999987310368638960--3347988889999999999 Q gi|254780751|r 409 EIARQLRLRDLAGLIVVD--FIDMEEKKNNRSVEKKLKE 445 (723) Q Consensus 409 EIaRQlRLRnlgGiIvID--FIdM~~~~~~~~v~~~l~~ 445 (723) |.+.++.=.+++.+|+-| -.-|..--|. .+++.+.+ T Consensus 156 ~~~~~~~~~g~~eiiltdi~~dGt~~G~d~-~l~~~i~~ 193 (252) T 1ka9_F 156 EWAVKGVELGAGEILLTSMDRDGTKEGYDL-RLTRMVAE 193 (252) T ss_dssp HHHHHHHHHTCCEEEEEETTTTTTCSCCCH-HHHHHHHH T ss_pred HHHHHHHHCCCCEEEEEEECCCCCCCCCCH-HHHHHHHH T ss_conf 999999874798899986234576667416-79999985 No 96 >1zzk_A Heterogeneous nuclear ribonucleoprotein K; KH domian, alpha-beta fold, DNA binding protein; 0.95A {Homo sapiens} SCOP: d.51.1.1 PDB: 1zzj_A 1zzi_A Probab=31.03 E-value=18 Score=13.91 Aligned_cols=38 Identities=16% Similarity=0.133 Sum_probs=33.0 Q ss_pred CCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEEC Q ss_conf 10135769999987302379999999984887999847 Q gi|254780751|r 518 NIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIG 555 (723) Q Consensus 518 ~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d 555 (723) ...+.+|.+...++.+.+-..|.+|++.++++|.|..+ T Consensus 8 t~~i~VP~~~vg~iIGk~G~~I~~I~~~tga~I~i~~~ 45 (82) T 1zzk_A 8 TTQVTIPKDLAGSIIGKGGQRIKQIRHESGASIKIDEP 45 (82) T ss_dssp EEEEEEETTTGGGGTCGGGHHHHHHHHHHCCEEEECCT T ss_pred EEEEEECHHHCCCEECCCCHHHHHHHHHHCCEEEECCC T ss_conf 89999986750501897972389999973995997478 No 97 >2e3u_A PH-DIM2P, hypothetical protein PH1566; PRE-ribosomal RNA processing factor, RNA binding protein; 2.30A {Pyrococcus horikoshii OT3} PDB: 3aev_B Probab=30.96 E-value=19 Score=13.70 Aligned_cols=19 Identities=5% Similarity=0.130 Sum_probs=8.6 Q ss_pred CEEEEEEECCCCCHHHHHH Q ss_conf 7169985045575799999 Q gi|254780751|r 245 MGVILRTAGASRTKIEIKR 263 (723) Q Consensus 245 ~G~IiRT~a~~~~~~~l~~ 263 (723) .++.+|+....-+...+.. T Consensus 74 ~~~~~~~~~~~~~~~~v~~ 92 (219) T 2e3u_A 74 GEVWITSTKETEDPLAVWK 92 (219) T ss_dssp CEEEEEECTTCCSHHHHHH T ss_pred CCCCCCCCCCCCCHHHHHH T ss_conf 8644654466655789999 No 98 >2vf7_A UVRA2, excinuclease ABC, subunit A.; DNA-binding protein, nucleotide-binding, zinc-binding domain, SOS response, metal-binding; HET: ADP; 2.30A {Deinococcus radiodurans} PDB: 2vf8_A* Probab=30.52 E-value=12 Score=15.26 Aligned_cols=19 Identities=32% Similarity=0.614 Sum_probs=11.4 Q ss_pred HHHHCCCCCCCCCEEEEEC Q ss_conf 1210023675465378606 Q gi|254780751|r 477 LESTTKVCTYCKGAGYIRS 495 (723) Q Consensus 477 ~e~~~~~c~~c~g~g~~~~ 495 (723) ...+..+|+.|+|..+... T Consensus 657 ~~~~~~~~~~~~g~~~~~e 675 (842) T 2vf7_A 657 LPSVYAPCPVCHGTRYNAE 675 (842) T ss_dssp SSCEEEECTTTTTCCBCTT T ss_pred CHHHHHHHHHHCCEECCHH T ss_conf 0100002555416201145 No 99 >2coa_A Protein kinase C, D2 type; protein kinase D2, PH domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: b.55.1.1 Probab=28.81 E-value=17 Score=14.15 Aligned_cols=55 Identities=20% Similarity=0.256 Sum_probs=33.9 Q ss_pred CCEEEEEEEECCEEEEEEECCCCCCCCCCCEEEEEEEEECCCCCEEEEEECCCCCCC Q ss_conf 960799999899899999607334604287879899783638823135327897713 Q gi|254780751|r 12 VEETRVVVLRDNRVEELDFESEHKKQIKGNIYLAKVTRVEPSLQAAFVDYGGNRHGF 68 (723) Q Consensus 12 ~~e~Rvav~e~g~l~e~~~e~~~~~~~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gF 68 (723) .+-.|--+|.++.|. |+........+|.|.+.-|..|.+..+.....-+...++| T Consensus 23 ~WkrR~FvL~~~~L~--YYk~~~~~~~~g~I~L~~i~~v~~~~~~~~~~~~~~~~~F 77 (125) T 2coa_A 23 LRKRHYWRLDCKCIT--LFQNNTTNRYYKEIPLSEILTVESAQNFSLVPPGTNPHCF 77 (125) T ss_dssp CCEEEEEEECSSEEE--EESSSSCSSCSEEEETTTCCEEEESCCCSSSCTTSCCEEE T ss_pred CEEEEEEEEECCEEE--EECCCCCCCCCCEEEEECEEECCCCCCCCCCCCCCCCCEE T ss_conf 717899999137354--4647887764438981001101333344544566778779 No 100 >1nlt_A Protein YDJ1, mitochondrial protein import protein MAS5; beta-strands, chaperone, heat shock, mitochondrion; 2.70A {Saccharomyces cerevisiae} SCOP: b.4.1.1 b.4.1.1 g.54.1.1 Probab=28.01 E-value=8.6 Score=16.14 Aligned_cols=12 Identities=42% Similarity=0.991 Sum_probs=4.4 Q ss_pred CCCCCCCCEEEE Q ss_conf 236754653786 Q gi|254780751|r 482 KVCTYCKGAGYI 493 (723) Q Consensus 482 ~~c~~c~g~g~~ 493 (723) ..|+.|+|+|.+ T Consensus 81 ~~C~~c~g~G~~ 92 (248) T 1nlt_A 81 TECDVCHGTGDI 92 (248) T ss_dssp CSCTTCSSSSSC T ss_pred EECCCCCCCCEE T ss_conf 761354787147 No 101 >2anr_A Neuro-oncological ventral antigen 1; protein-RNA complex, KH domain, hairpin, RNA-binding protein/RNA complex; HET: 5BU; 1.94A {Homo sapiens} PDB: 2ann_A* Probab=27.80 E-value=22 Score=13.34 Aligned_cols=46 Identities=7% Similarity=0.045 Sum_probs=34.9 Q ss_pred CCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECCCCCCCC Q ss_conf 3101357699999873023799999999848879998478778863 Q gi|254780751|r 517 HNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGIELADKL 562 (723) Q Consensus 517 ~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~~l~~~~ 562 (723) ....+.+|.....++.+.+-..+..|++.+++.|.|..++....+. T Consensus 104 ~~~~i~Vp~~~~~~iIG~~G~~I~~i~~~tg~~I~i~~~~~~~~~~ 149 (178) T 2anr_A 104 NQVKIIVPNSTAGLIIGKGGATVKAIMEQSGAWVQLSQKPDGINLQ 149 (178) T ss_dssp GEEEEEEEHHHHHHHHCGGGHHHHHHHHHSSCEEEECCCC----CC T ss_pred EEEEEEECHHHCCEEECCCCHHHHHHHHHHCCEEEEECCCCCCCCC T ss_conf 2699998978878278899859999999869889992588888998 No 102 >3a0j_A Cold shock protein; OB-fold, cytoplasm, transcription, structural genomics, NPPSFA; 1.65A {Thermus thermophilus} Probab=27.28 E-value=22 Score=13.28 Aligned_cols=34 Identities=15% Similarity=0.326 Sum_probs=27.3 Q ss_pred EEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCC Q ss_conf 9899783638823135327897713022213712 Q gi|254780751|r 44 LAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPD 77 (723) Q Consensus 44 ~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~ 77 (723) .|+|+-.-+.-.=-||.--.++.-|+|++.|..+ T Consensus 3 ~G~Vkwf~~~kGfGFI~~d~g~dvFvH~s~i~~~ 36 (73) T 3a0j_A 3 KGRVKWFNAEKGYGFIEREGDTDVFVHYTAINAK 36 (73) T ss_dssp EEEEEEEETTTTEEEEECTTSCCEEEEGGGBCSS T ss_pred CEEEEEEECCCCEEEECCCCCCEEEEEEHHHCCC T ss_conf 8399989299984783158997099984775523 No 103 >2x5c_A Hypothetical protein ORF131; viral protein; HET: GOL; 1.80A {Pyrobaculum spherical virus} Probab=26.45 E-value=11 Score=15.32 Aligned_cols=20 Identities=30% Similarity=0.672 Sum_probs=12.4 Q ss_pred HHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999987764 Q gi|254780751|r 259 IEIKRDFEYLMRLWDNVREL 278 (723) Q Consensus 259 ~~l~~d~~~L~~~w~~i~~~ 278 (723) .+++.|++|.++.|.+-.+. T Consensus 101 cevkkdleyvlkrykeyeee 120 (131) T 2x5c_A 101 CEVKKDLEYVLKRYKEYEEE 120 (131) T ss_dssp HHHHHHHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHHHHHHH T ss_conf 98887599999998888870 No 104 >1wvn_A Poly(RC)-binding protein 1; KH domain, RNA binding domain, RNA binding protein; 2.10A {Homo sapiens} SCOP: d.51.1.1 Probab=25.69 E-value=24 Score=13.09 Aligned_cols=39 Identities=13% Similarity=0.202 Sum_probs=33.7 Q ss_pred CCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECC Q ss_conf 101357699999873023799999999848879998478 Q gi|254780751|r 518 NIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGI 556 (723) Q Consensus 518 ~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~ 556 (723) ...+.+|...+.++.+.+-..|..|++.+|++|.|.... T Consensus 7 t~~v~VP~~~vg~iIG~~G~~i~~I~~~tg~~I~i~~~~ 45 (82) T 1wvn_A 7 THELTIPNNLIGCIIGRQGANINEIRQMSGAQIKIANPV 45 (82) T ss_dssp EEEEEEEGGGHHHHHCGGGHHHHHHHHHHCCEEEECCCC T ss_pred EEEEEECHHHCCEEECCCCCHHHHHHHHHCCEEEECCCC T ss_conf 999998865446289989983999999739959982788 No 105 >2jr7_A DPH3 homolog; DESR1, CSL zinc finger, metal binding protein; NMR {Homo sapiens} Probab=25.59 E-value=19 Score=13.69 Aligned_cols=19 Identities=16% Similarity=0.380 Sum_probs=12.5 Q ss_pred HHHHCCCCCCCCCEEEEECCH Q ss_conf 121002367546537860611 Q gi|254780751|r 477 LESTTKVCTYCKGAGYIRSQS 497 (723) Q Consensus 477 ~e~~~~~c~~c~g~g~~~~~~ 497 (723) .++++.+|| |+| ++..+.+ T Consensus 19 ~~~~~ypCr-CGd-~F~It~~ 37 (89) T 2jr7_A 19 SETYFYPCP-CGD-NFSITKE 37 (89) T ss_dssp TTEEEEECT-TSS-EEEEEHH T ss_pred CCEEEECCC-CCC-EEEECHH T ss_conf 898985378-899-8898799 No 106 >1h95_A CSD, Y-box binding protein; translation factor, transcription factor, OB-fold, 5- stranded anti-parallel beta-barrel, single stranded DNA binding; NMR {Homo sapiens} SCOP: b.40.4.5 Probab=25.50 E-value=24 Score=13.06 Aligned_cols=39 Identities=13% Similarity=0.126 Sum_probs=30.4 Q ss_pred CCCCEEEEEEEEECCCCCEEEEEEC-CCCCCCCCHHHCCC Q ss_conf 4287879899783638823135327-89771302221371 Q gi|254780751|r 38 IKGNIYLAKVTRVEPSLQAAFVDYG-GNRHGFLPFLEIHP 76 (723) Q Consensus 38 ~~GnIY~G~V~~V~p~lqAAFVdiG-~~k~gFL~~~ei~~ 76 (723) +...-+.|+|+-.-+.=.=-||.-. .++.-|+|+++|.. T Consensus 4 ~m~~r~~G~VKwfn~~KGfGFI~~ddg~~DvFvH~s~i~~ 43 (79) T 1h95_A 4 VIATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKK 43 (79) T ss_dssp CCEEEEEEEEEEEETTTTEEEEEEGGGTEEEEEEGGGBCS T ss_pred HHCCCEEEEEEEEECCCCCEEEEECCCCEEEEEEHHHHHC T ss_conf 5338324899999689991899858997049999699304 No 107 >2hh3_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens} Probab=23.71 E-value=26 Score=12.84 Aligned_cols=40 Identities=18% Similarity=0.097 Sum_probs=35.1 Q ss_pred CCCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECC Q ss_conf 3101357699999873023799999999848879998478 Q gi|254780751|r 517 HNIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGI 556 (723) Q Consensus 517 ~~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~ 556 (723) ..+.+.+|...+.++...+-..|.+|++.+++.|.|..+. T Consensus 11 ~~~ei~VP~~~vG~IIGk~G~~Ik~I~~~tg~~I~i~~~~ 50 (106) T 2hh3_A 11 GGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDD 50 (106) T ss_dssp -CEEEEEETTTHHHHHTTTTHHHHHHHHHHTCEEEECSSC T ss_pred CEEEEEECHHHCCEEECCCCCHHHHHHHHCCCEEEECCCC T ss_conf 6299997866578438999802589998679889972789 No 108 >3cam_A Cold-shock domain family protein; cold shock protein, chain SWAP, structural genomics, oxford protein production facility, OPPF; 2.60A {Neisseria meningitidis MC58} Probab=23.14 E-value=26 Score=12.76 Aligned_cols=33 Identities=18% Similarity=0.179 Sum_probs=26.8 Q ss_pred EEEEEEECCCCCEEEEEE-CCCCCCCCCHHHCCC Q ss_conf 989978363882313532-789771302221371 Q gi|254780751|r 44 LAKVTRVEPSLQAAFVDY-GGNRHGFLPFLEIHP 76 (723) Q Consensus 44 ~G~V~~V~p~lqAAFVdi-G~~k~gFL~~~ei~~ 76 (723) .|+|+..-+.-.=-||.- +.++.-|+|++.|.. T Consensus 3 ~G~Vkwf~~~kGyGFI~~~~~~~dvFvH~s~l~~ 36 (67) T 3cam_A 3 TGIVKWFNDAKGFGFITPDEGGEDLFAHFSAINM 36 (67) T ss_dssp EEEEEEEETTTTEEEEEETTSCCCEEEEGGGBCG T ss_pred CEEEEEEECCCCCEEEEECCCCEEEEEEEHHHCC T ss_conf 8399999599994899977997289998456152 No 109 >1af7_A Chemotaxis receptor methyltransferase CHER; chemotaxis receptor methylation; HET: SAH; 2.00A {Salmonella typhimurium} SCOP: a.58.1.1 c.66.1.8 PDB: 1bc5_A* Probab=22.78 E-value=27 Score=12.72 Aligned_cols=35 Identities=17% Similarity=0.165 Sum_probs=20.7 Q ss_pred HHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCEEE Q ss_conf 56776999999984222143678649983288069 Q gi|254780751|r 346 FFRSGIEVQLDSLHQTEVTLPSRGYVIINQTEALV 380 (723) Q Consensus 346 f~~y~ie~~i~~~~~~~V~L~sGG~lvIe~TEALt 380 (723) +-.|.-+.+-.-+-.=.=.|.-||||++-++|+|. T Consensus 223 LIYF~~~~~~~vl~~l~~~L~pgG~L~lG~sEsl~ 257 (274) T 1af7_A 223 MIYFDKTTQEDILRRFVPLLKPDGLLFAGHSENFS 257 (274) T ss_dssp GGGSCHHHHHHHHHHHGGGEEEEEEEEECTTCCCT T ss_pred HHCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCC T ss_conf 53179999999999999985899389994754466 No 110 >2qv3_A VACA, vacuolating cytotoxin; beta-helix; 2.40A {Helicobacter pylori} Probab=22.68 E-value=15 Score=14.44 Aligned_cols=38 Identities=18% Similarity=0.306 Sum_probs=28.9 Q ss_pred CCCCCEEEEEEEEE-CCCCCEEEEEECCCCCCCC--CHHHC Q ss_conf 04287879899783-6388231353278977130--22213 Q gi|254780751|r 37 QIKGNIYLAKVTRV-EPSLQAAFVDYGGNRHGFL--PFLEI 74 (723) Q Consensus 37 ~~~GnIY~G~V~~V-~p~lqAAFVdiG~~k~gFL--~~~ei 74 (723) ..-+|||+||-++. +.+--|-|-+|..+..||= -|+-+ T Consensus 97 ~FNndI~LGr~vnLkv~aHTanFk~id~~~gg~ntldfsgv 137 (457) T 2qv3_A 97 TFNNDISLGRFVNLKVDAHTANFKGIDTGNGGFNTLDFSGV 137 (457) T ss_dssp EECSCEECCTTEEEEEEEEEEEEEEEECTTCSSEEEEEEEE T ss_pred EECCCEEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEECCC T ss_conf 87483775113567860220231465367898203653264 No 111 >2cpq_A FragIle X mental retardation syndrome related protein 1, isoform B'; KH domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Probab=22.45 E-value=27 Score=12.67 Aligned_cols=39 Identities=10% Similarity=-0.021 Sum_probs=34.0 Q ss_pred CCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECC Q ss_conf 101357699999873023799999999848879998478 Q gi|254780751|r 518 NIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGI 556 (723) Q Consensus 518 ~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~ 556 (723) ...+.+|++...++.+.+-..|..|.+.+++.|.+..++ T Consensus 16 t~ev~Vp~~~vg~vIG~gG~~I~~I~~~tg~~i~~~~~~ 54 (91) T 2cpq_A 16 HEEFVVREDLMGLAIGTHGSNIQQARKVPGVTAIELDED 54 (91) T ss_dssp EEEEECCHHHHHHHHTTTTHHHHHHHTSTTEEEEEEETT T ss_pred EEEEEECHHHHHHCCCCCCHHHHHHHHHHCCEEEEECCC T ss_conf 899999977733207989666999999719848740677 No 112 >2ytv_A Cold shock domain-containing protein E1; cell-free protein synthesis, beta-barrel, translational REGU RNA chaperone, RNA/DNA binding, QB fold; NMR {Homo sapiens} Probab=21.65 E-value=28 Score=12.56 Aligned_cols=33 Identities=24% Similarity=0.452 Sum_probs=24.4 Q ss_pred CCEEEEEEEEECCCCCEEEEEE--CCCCCCCCCHHHC Q ss_conf 8787989978363882313532--7897713022213 Q gi|254780751|r 40 GNIYLAKVTRVEPSLQAAFVDY--GGNRHGFLPFLEI 74 (723) Q Consensus 40 GnIY~G~V~~V~p~lqAAFVdi--G~~k~gFL~~~ei 74 (723) ...+.|+|..+-.+ =-||.. +.++.-|+|++++ T Consensus 6 ~~~~~G~v~s~k~g--fGFI~~~~~~g~diF~H~s~i 40 (79) T 2ytv_A 6 SGLRRATVECVKDQ--FGFINYEVGDSKKLFFHVKEV 40 (79) T ss_dssp CSBCCEEEEECCSS--EEEESCCCSSSSSEEEETTTC T ss_pred CCCEEEEEEEECCC--EEEEEECCCCCCEEEEEHHHC T ss_conf 76078999894597--117770688996699997885 No 113 >2x4d_A HLHPP, phospholysine phosphohistidine inorganic pyrophosphate phosphatase; hydrolase; 1.92A {Homo sapiens} Probab=21.64 E-value=28 Score=12.56 Aligned_cols=19 Identities=16% Similarity=0.223 Sum_probs=8.3 Q ss_pred CCEEEEEEECCCCCHHHHH Q ss_conf 8716998504557579999 Q gi|254780751|r 244 GMGVILRTAGASRTKIEIK 262 (723) Q Consensus 244 ~~G~IiRT~a~~~~~~~l~ 262 (723) |.-+++=|.....+..+.. T Consensus 48 g~~~~~~tn~~~~~~~~~~ 66 (271) T 2x4d_A 48 RLKVRFCTNESAASRAELV 66 (271) T ss_dssp SSEEEEECCCCSSCHHHHH T ss_pred CCCEEEEECCCCCCHHHHH T ss_conf 9978998479888879999 No 114 >2diq_A Tudor and KH domain-containing protein; tudor domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.9.1 Probab=20.96 E-value=26 Score=12.78 Aligned_cols=33 Identities=33% Similarity=0.589 Sum_probs=14.7 Q ss_pred CCEEEEEEEEECCC--CCEEEEEECCCCCCCCCHHHC Q ss_conf 87879899783638--823135327897713022213 Q gi|254780751|r 40 GNIYLAKVTRVEPS--LQAAFVDYGGNRHGFLPFLEI 74 (723) Q Consensus 40 GnIY~G~V~~V~p~--lqAAFVdiG~~k~gFL~~~ei 74 (723) |.-|.|+|..+.+. ..--|||||. ....++++| T Consensus 47 ~~wyRa~I~~~~~~~~v~V~~vDyG~--~~~V~~~~L 81 (110) T 2diq_A 47 GSWYRARVLGTLENGNLDLYFVDFGD--NGDCPLKDL 81 (110) T ss_dssp CSCEEEEECCCCSSSCEEEEETTTCC--EEEECGGGC T ss_pred CEEEEEEEEEECCCCEEEEEEEECCC--EEEEEHHHH T ss_conf 95999999998799959999997199--899867994 No 115 >2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding, cytoplasm, DNA-binding, nucleus, phosphoprotein, ribonucleoprotein, RNA-binding; NMR {Homo sapiens} Probab=20.26 E-value=30 Score=12.37 Aligned_cols=39 Identities=13% Similarity=0.140 Sum_probs=27.5 Q ss_pred CCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCEEEEEECC Q ss_conf 101357699999873023799999999848879998478 Q gi|254780751|r 518 NIIVHTHSDVVLYLLNQKRATIVEYEARFGVSINVVIGI 556 (723) Q Consensus 518 ~i~v~~~~~va~~lln~kr~~l~~lE~~~~~~I~i~~d~ 556 (723) .+.+.+|.....++.+.+-..|.+|++.++..|.+..+. T Consensus 90 ~~~i~vp~~~~g~iIG~~G~~Ik~I~~~tg~~i~i~~~~ 128 (160) T 2jzx_A 90 TLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDM 128 (160) T ss_dssp EEEEEEEHHHHHHHHCGGGHHHHHHHHHHSSEECCCCCC T ss_pred EEEEECCHHHEEEEECCCCHHHHHHHHHHCCEEEECCCC T ss_conf 999966857712223489858999999879969978878 Done!