Query gi|254780928|ref|YP_003065341.1| histidyl-tRNA synthetase [Candidatus Liberibacter asiaticus str. psy62] Match_columns 496 No_of_seqs 207 out of 3013 Neff 8.2 Searched_HMMs 39220 Date Mon May 30 04:37:54 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780928.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 COG0124 HisS Histidyl-tRNA syn 100.0 0 0 748.7 35.6 425 6-489 1-428 (429) 2 PRK12420 histidyl-tRNA synthet 100.0 0 0 732.5 38.6 417 7-462 2-421 (421) 3 CHL00201 syh histidine-tRNA sy 100.0 0 0 703.0 36.3 418 7-490 2-422 (424) 4 KOG1936 consensus 100.0 0 0 699.5 34.0 444 4-491 55-517 (518) 5 PRK00037 hisS histidyl-tRNA sy 100.0 0 0 679.2 35.2 402 6-490 1-417 (417) 6 PRK12292 hisZ ATP phosphoribos 100.0 0 0 603.0 33.8 376 7-431 1-378 (388) 7 PRK12421 ATP phosphoribosyltra 100.0 0 0 531.3 33.6 387 1-449 1-390 (391) 8 TIGR00442 hisS histidyl-tRNA s 100.0 0 0 489.0 27.0 429 7-462 2-441 (446) 9 PRK12295 hisZ ATP phosphoribos 100.0 0 0 492.8 23.9 321 24-361 5-370 (373) 10 cd00773 HisRS-like_core Class 100.0 0 0 476.6 19.5 261 22-363 1-261 (261) 11 PRK12293 hisZ ATP phosphoribos 100.0 0 0 451.6 23.7 279 6-363 2-280 (281) 12 COG3705 HisZ ATP phosphoribosy 100.0 0 0 400.1 26.5 378 7-436 1-379 (390) 13 KOG1035 consensus 100.0 0 0 332.8 28.2 421 16-489 925-1350(1351) 14 PRK12325 prolyl-tRNA synthetas 100.0 4.9E-36 1.3E-40 253.1 28.5 387 7-486 31-437 (438) 15 TIGR00443 hisS_second histidyl 100.0 2.9E-37 7.4E-42 261.1 20.7 385 7-430 1-395 (414) 16 PRK00413 thrS threonyl-tRNA sy 100.0 8.2E-34 2.1E-38 238.7 23.8 367 11-492 256-633 (639) 17 PRK12304 thrS threonyl-tRNA sy 100.0 4E-33 1E-37 234.2 25.2 367 10-492 226-602 (604) 18 PRK04483 threonyl-tRNA synthet 100.0 1.4E-33 3.6E-38 237.2 21.9 362 11-487 259-630 (634) 19 PRK12305 thrS threonyl-tRNA sy 100.0 9.3E-33 2.4E-37 231.9 25.9 368 10-489 195-575 (576) 20 PRK09194 prolyl-tRNA synthetas 100.0 1.6E-32 4E-37 230.4 26.0 458 7-490 31-569 (570) 21 PRK03772 threonyl-tRNA synthet 100.0 2.8E-32 7.2E-37 228.8 24.3 363 12-490 260-633 (642) 22 PRK12444 threonyl-tRNA synthet 100.0 2E-32 5.1E-37 229.7 23.3 368 12-492 263-638 (639) 23 TIGR00418 thrS threonyl-tRNA s 100.0 2.3E-33 5.8E-38 235.8 17.0 370 8-487 197-593 (595) 24 PRK03991 threonyl-tRNA synthet 100.0 2.9E-27 7.4E-32 196.2 25.7 362 9-489 213-592 (613) 25 pfam00587 tRNA-synt_2b tRNA sy 100.0 8.9E-30 2.3E-34 212.5 10.3 155 25-183 1-161 (170) 26 COG0441 ThrS Threonyl-tRNA syn 100.0 6.1E-26 1.5E-30 187.6 21.8 368 10-492 207-583 (589) 27 TIGR00409 proS_fam_II prolyl-t 99.9 4.3E-25 1.1E-29 182.1 16.6 438 7-461 32-611 (620) 28 TIGR00389 glyS_dimeric glycyl- 99.9 1.4E-23 3.5E-28 172.4 16.5 414 13-488 27-605 (606) 29 COG0442 ProS Prolyl-tRNA synth 99.9 3.4E-22 8.7E-27 163.3 14.8 409 6-458 30-489 (500) 30 PRK08661 prolyl-tRNA synthetas 99.9 3.4E-21 8.6E-26 156.8 19.9 338 9-495 31-392 (478) 31 PRK04173 glycyl-tRNA synthetas 99.9 1.3E-20 3.3E-25 153.0 22.1 340 12-490 29-458 (460) 32 COG0423 GRS1 Glycyl-tRNA synth 99.9 1.7E-20 4.3E-25 152.3 19.4 400 12-492 29-554 (558) 33 KOG2324 consensus 99.9 4.9E-20 1.3E-24 149.2 18.3 375 12-485 41-454 (457) 34 KOG1637 consensus 99.8 3E-19 7.6E-24 144.2 14.3 370 9-490 178-556 (560) 35 cd00779 ProRS_core_prok Prolyl 99.8 1E-17 2.6E-22 134.3 12.3 154 7-161 15-175 (255) 36 PRK12294 hisZ ATP phosphoribos 99.7 2.4E-17 6.2E-22 131.8 10.7 255 28-341 12-266 (272) 37 TIGR00408 proS_fam_I prolyl-tR 99.7 3.5E-16 8.9E-21 124.3 16.4 345 10-495 26-420 (533) 38 cd00772 ProRS_core Prolyl-tRNA 99.7 6.8E-17 1.7E-21 128.9 11.5 152 9-161 18-182 (264) 39 cd00859 HisRS_anticodon HisRS 99.7 9.5E-17 2.4E-21 127.9 11.7 90 376-486 2-91 (91) 40 cd00771 ThrRS_core Threonyl-tR 99.7 1.4E-16 3.7E-21 126.7 11.3 158 11-172 18-182 (298) 41 cd00778 ProRS_core_arch_euk Pr 99.7 9E-16 2.3E-20 121.6 11.0 149 10-158 19-178 (261) 42 cd00768 class_II_aaRS-like_cor 99.6 1.3E-15 3.2E-20 120.6 9.6 132 25-162 1-136 (211) 43 cd00860 ThrRS_anticodon ThrRS 99.6 2.2E-14 5.6E-19 112.6 11.9 90 376-486 2-91 (91) 44 pfam03129 HGTP_anticodon Antic 99.6 3.4E-14 8.7E-19 111.3 12.7 92 377-487 1-92 (93) 45 cd00670 Gly_His_Pro_Ser_Thr_tR 99.6 1.9E-14 4.8E-19 113.0 10.6 146 23-172 2-157 (235) 46 KOG2298 consensus 99.5 6.8E-12 1.7E-16 96.4 20.2 417 12-493 35-596 (599) 47 cd00738 HGTP_anticodon HGTP an 99.5 2.4E-13 6.2E-18 105.8 12.1 90 375-465 1-91 (94) 48 cd00858 GlyRS_anticodon GlyRS 99.4 3E-12 7.6E-17 98.7 11.9 101 370-490 21-121 (121) 49 KOG4163 consensus 99.2 1.5E-09 3.8E-14 81.2 15.7 342 11-495 86-454 (551) 50 cd00861 ProRS_anticodon_short 99.2 2.2E-10 5.5E-15 86.6 11.3 87 376-463 2-89 (94) 51 cd00862 ProRS_anticodon_zinc P 99.1 4.6E-09 1.2E-13 78.0 13.7 109 369-495 4-116 (202) 52 cd00770 SerRS_core Seryl-tRNA 99.1 6.7E-11 1.7E-15 90.0 3.7 145 13-161 40-196 (297) 53 cd00774 GlyRS-like_core Glycyl 99.1 4.9E-10 1.2E-14 84.3 8.2 143 12-168 21-175 (254) 54 cd02426 Pol_gamma_b_Cterm C-te 99.0 8.5E-09 2.2E-13 76.3 10.8 99 374-490 26-127 (128) 55 COG0173 AspS Aspartyl-tRNA syn 99.0 1.7E-08 4.4E-13 74.3 11.7 102 21-136 139-240 (585) 56 cd00775 LysRS_core Lys_tRNA sy 99.0 1.6E-08 4E-13 74.5 11.3 101 22-139 7-110 (329) 57 PRK00484 lysS lysyl-tRNA synth 98.9 1E-07 2.6E-12 69.3 15.0 98 23-139 171-273 (491) 58 PRK09537 pylS pyrolysyl-tRNA s 98.8 1.3E-08 3.4E-13 75.0 6.6 131 28-167 211-342 (420) 59 cd00776 AsxRS_core Asx tRNA sy 98.8 3.4E-07 8.6E-12 65.9 13.7 97 21-136 22-121 (322) 60 TIGR00459 aspS_bact aspartyl-t 98.7 6.1E-08 1.5E-12 70.7 7.4 104 20-137 148-255 (653) 61 COG0017 AsnS Aspartyl/asparagi 98.6 4.2E-07 1.1E-11 65.3 10.1 115 20-156 131-247 (435) 62 TIGR02367 PylS pyrrolysyl-tRNA 98.6 5.2E-08 1.3E-12 71.2 5.1 138 27-174 243-381 (453) 63 COG0172 SerS Seryl-tRNA synthe 98.5 8.2E-07 2.1E-11 63.4 9.4 147 12-162 163-319 (429) 64 pfam00152 tRNA-synt_2 tRNA syn 98.5 1.8E-06 4.7E-11 61.1 9.9 117 21-156 20-137 (341) 65 pfam01409 tRNA-synt_2d tRNA sy 98.4 2.3E-06 5.8E-11 60.5 9.6 107 24-136 17-131 (243) 66 PRK05431 seryl-tRNA synthetase 98.4 2.1E-06 5.3E-11 60.8 9.3 145 13-162 158-315 (422) 67 cd00496 PheRS_alpha_core Pheny 98.4 2.2E-06 5.7E-11 60.6 9.0 107 27-139 4-114 (218) 68 PRK09350 lysyl-tRNA synthetase 98.4 2.9E-06 7.5E-11 59.8 9.5 122 16-157 5-137 (325) 69 PRK04172 pheS phenylalanyl-tRN 98.4 2.6E-06 6.7E-11 60.1 8.8 130 23-160 244-415 (501) 70 PRK12820 bifunctional aspartyl 98.4 2.7E-06 6.9E-11 60.0 8.7 99 25-137 158-256 (706) 71 PRK06462 asparagine synthetase 98.3 6E-06 1.5E-10 57.8 9.4 118 20-156 26-147 (332) 72 PRK12445 lysyl-tRNA synthetase 98.3 7.8E-06 2E-10 57.1 9.2 101 22-139 183-286 (505) 73 cd00669 Asp_Lys_Asn_RS_core As 98.3 8E-06 2E-10 57.0 9.1 112 24-156 2-116 (269) 74 COG2269 Truncated, possibly in 98.3 8.8E-05 2.2E-09 50.2 14.2 141 20-186 13-161 (322) 75 KOG1885 consensus 98.2 0.00012 3.1E-09 49.3 14.5 99 22-134 224-322 (560) 76 PRK05159 aspC aspartyl-tRNA sy 98.2 8.4E-06 2.1E-10 56.8 8.6 112 23-156 137-251 (434) 77 COG1190 LysU Lysyl-tRNA synthe 98.2 2E-05 5.1E-10 54.4 10.5 145 24-184 181-335 (502) 78 PRK02983 lysS lysyl-tRNA synth 98.2 8.9E-06 2.3E-10 56.7 8.0 96 25-138 778-877 (1099) 79 COG0016 PheS Phenylalanyl-tRNA 98.1 3.4E-05 8.7E-10 52.9 10.0 144 7-158 96-243 (335) 80 PRK00476 aspS aspartyl-tRNA sy 98.1 1.6E-05 4E-10 55.0 8.1 96 23-136 142-241 (587) 81 KOG2411 consensus 98.1 4.2E-05 1.1E-09 52.3 9.3 116 23-156 178-294 (628) 82 cd00777 AspRS_core Asp tRNA sy 98.1 1.9E-05 4.9E-10 54.5 7.5 99 24-139 2-103 (280) 83 PTZ00326 phenylalanyl-tRNA syn 98.1 2.6E-05 6.6E-10 53.7 8.1 132 24-160 242-421 (505) 84 PRK06253 O-phosphoseryl-tRNA s 98.0 4.4E-06 1.1E-10 58.7 3.4 82 78-161 179-261 (527) 85 PRK03932 asnC asparaginyl-tRNA 97.9 6.7E-05 1.7E-09 51.0 7.2 112 24-155 136-266 (462) 86 KOG2509 consensus 97.9 0.00013 3.2E-09 49.2 8.6 147 12-162 172-332 (455) 87 KOG0556 consensus 97.8 0.00033 8.5E-09 46.4 9.4 112 24-155 229-342 (533) 88 PRK00488 pheS phenylalanyl-tRN 97.7 0.00031 7.8E-09 46.7 8.7 110 22-138 105-217 (338) 89 cd00769 PheRS_beta_core Phenyl 97.4 0.00038 9.6E-09 46.1 6.0 90 26-119 2-92 (198) 90 TIGR00414 serS seryl-tRNA synt 96.8 0.0087 2.2E-07 37.3 8.0 151 13-163 190-357 (460) 91 KOG0554 consensus 96.5 0.0047 1.2E-07 39.0 4.7 114 17-142 126-243 (446) 92 PRK00629 pheT phenylalanyl-tRN 96.3 0.0085 2.2E-07 37.3 5.2 34 151-184 421-466 (786) 93 TIGR00458 aspS_arch aspartyl-t 96.3 0.019 4.7E-07 35.1 6.8 102 22-140 154-257 (466) 94 KOG2784 consensus 96.3 0.015 3.8E-07 35.8 6.1 13 300-312 396-408 (483) 95 COG0442 ProS Prolyl-tRNA synth 96.2 0.034 8.5E-07 33.5 7.5 90 389-494 304-394 (500) 96 CHL00192 syfB phenylalanyl-tRN 96.1 0.028 7.2E-07 33.9 6.8 35 151-185 330-378 (702) 97 TIGR00457 asnS asparaginyl-tRN 95.7 0.029 7.5E-07 33.8 5.7 124 18-157 141-287 (495) 98 TIGR00462 genX lysyl-tRNA synt 95.6 0.078 2E-06 31.1 7.6 102 21-136 19-130 (330) 99 COG3705 HisZ ATP phosphoribosy 95.2 0.0026 6.7E-08 40.6 -1.1 72 276-360 311-383 (390) 100 TIGR00470 sepS O-phosphoseryl- 95.2 0.038 9.7E-07 33.1 4.7 80 80-161 192-272 (558) 101 TIGR00468 pheS phenylalanyl-tR 95.1 0.084 2.1E-06 30.9 6.2 142 18-161 75-259 (362) 102 COG0072 PheT Phenylalanyl-tRNA 93.5 0.35 9E-06 26.8 6.7 35 151-185 287-333 (650) 103 COG2024 Phenylalanyl-tRNA synt 91.7 0.055 1.4E-06 32.1 0.6 81 278-363 255-340 (536) 104 TIGR00472 pheT_bact phenylalan 91.4 0.17 4.4E-06 28.8 2.8 89 29-117 523-612 (848) 105 TIGR00499 lysS_bact lysyl-tRNA 89.6 1.5 3.9E-05 22.7 7.8 98 21-132 188-285 (538) 106 cd00777 AspRS_core Asp tRNA sy 84.9 0.27 6.9E-06 27.6 0.3 33 334-366 235-267 (280) 107 cd00669 Asp_Lys_Asn_RS_core As 84.7 0.35 9E-06 26.8 0.8 33 334-366 224-256 (269) 108 TIGR01608 citD citrate lyase a 83.7 2.6 6.6E-05 21.2 4.9 48 146-204 44-91 (95) 109 pfam00152 tRNA-synt_2 tRNA syn 82.4 0.46 1.2E-05 26.1 0.6 21 345-365 307-327 (341) 110 PRK00960 seryl-tRNA synthetase 79.9 4.3 0.00011 19.8 6.7 29 463-491 477-505 (516) 111 TIGR02087 LEUD_arch 3-isopropy 76.3 5.5 0.00014 19.1 5.7 112 361-492 34-150 (159) 112 TIGR01854 lipid_A_lpxH UDP-2,3 76.1 5.3 0.00013 19.2 4.4 79 83-183 12-92 (241) 113 TIGR02700 flavo_MJ0208 archaeo 71.6 6 0.00015 18.8 3.8 45 331-388 83-135 (237) 114 TIGR01511 ATPase-IB1_Cu copper 71.0 7.3 0.00019 18.3 5.5 63 378-442 361-423 (545) 115 TIGR02071 PBP_1b penicillin-bi 70.7 3.6 9.1E-05 20.3 2.5 68 334-408 506-576 (742) 116 cd00733 GlyRS_alpha_core Class 69.3 4.5 0.00011 19.7 2.7 55 102-164 43-104 (279) 117 KOG0555 consensus 69.2 8 0.0002 18.0 4.1 99 21-136 241-340 (545) 118 TIGR00559 pdxJ pyridoxal phosp 67.1 8.8 0.00022 17.8 8.0 39 393-434 115-153 (265) 119 TIGR00471 pheT_arch phenylalan 66.6 7.2 0.00018 18.3 3.3 13 73-85 219-231 (605) 120 pfam02091 tRNA-synt_2e Glycyl- 66.3 5.6 0.00014 19.0 2.7 55 102-164 42-103 (284) 121 TIGR01292 TRX_reduct thioredox 63.3 10 0.00026 17.3 8.2 79 380-463 154-244 (321) 122 PRK10333 putative ligase; Prov 62.5 3 7.7E-05 20.8 0.8 27 330-356 146-172 (198) 123 TIGR02727 MTHFS_bact 5,10-meth 61.9 3.3 8.3E-05 20.5 0.9 27 330-356 136-162 (183) 124 PRK10846 bifunctional folylpol 61.7 11 0.00028 17.1 6.2 35 393-427 310-348 (416) 125 cd00003 PNPsynthase Pyridoxine 59.2 12 0.00031 16.8 6.0 17 268-284 167-183 (234) 126 TIGR02461 osmo_MPG_phos mannos 58.4 13 0.00032 16.7 5.0 32 73-106 3-35 (248) 127 PRK05265 pyridoxine 5'-phospha 58.2 13 0.00032 16.7 5.9 16 269-284 171-186 (240) 128 PRK13057 putative lipid kinase 55.6 14 0.00036 16.4 6.4 49 31-92 16-66 (287) 129 PRK06731 flhF flagellar biosyn 54.8 14 0.00037 16.4 9.1 43 392-434 200-244 (270) 130 PRK09348 glyQ glycyl-tRNA synt 54.3 11 0.00029 17.0 2.6 55 102-164 45-106 (291) 131 pfam01411 tRNA-synt_2c tRNA sy 52.5 16 0.0004 16.1 5.6 112 28-169 1-121 (545) 132 TIGR00455 apsK adenylylsulfate 52.5 16 0.0004 16.1 4.8 11 151-161 39-49 (187) 133 pfam03740 PdxJ Pyridoxal phosp 51.8 16 0.00041 16.0 5.6 16 269-284 171-186 (239) 134 COG4927 Predicted choloylglyci 51.6 9.6 0.00025 17.5 1.9 25 331-355 147-178 (336) 135 TIGR01318 gltD_gamma_fam gluta 51.2 16 0.00042 16.0 5.0 98 332-433 237-349 (480) 136 TIGR01162 purE phosphoribosyla 50.6 17 0.00043 15.9 6.9 26 142-170 8-33 (159) 137 cd02067 B12-binding B12 bindin 50.4 17 0.00043 15.9 8.4 13 34-46 20-32 (119) 138 TIGR01719 euk_UDPppase uridine 49.6 17 0.00044 15.8 6.0 76 394-490 224-300 (301) 139 cd02685 MIT_C MIT_C; domain fo 48.6 18 0.00045 15.8 2.8 24 269-293 70-93 (148) 140 TIGR01825 gly_Cac_T_rel pyrido 48.2 3.6 9.1E-05 20.3 -0.8 100 350-454 246-369 (392) 141 PRK07564 phosphoglucomutase; V 46.8 6.3 0.00016 18.7 0.3 11 174-184 242-252 (544) 142 PRK13054 lipid kinase; Reviewe 46.5 19 0.00049 15.5 7.8 15 78-92 58-72 (299) 143 TIGR02838 spore_V_AC stage V s 46.0 5.6 0.00014 19.0 -0.1 37 326-364 64-102 (141) 144 PRK02645 ppnK inorganic polyph 45.6 20 0.00051 15.4 5.7 17 30-46 21-37 (304) 145 COG0013 AlaS Alanyl-tRNA synth 45.2 20 0.00052 15.4 4.9 29 26-54 8-37 (879) 146 pfam01812 5-FTHF_cyc-lig 5-for 43.1 8.1 0.00021 18.0 0.4 26 330-355 136-161 (182) 147 cd02070 corrinoid_protein_B12- 42.9 22 0.00056 15.2 9.8 40 389-431 146-187 (201) 148 PRK04164 hypothetical protein; 42.8 22 0.00056 15.2 6.6 65 374-443 89-168 (183) 149 PRK12809 putative oxidoreducta 41.7 23 0.00058 15.1 5.6 63 380-446 454-524 (639) 150 PRK13337 putative lipid kinase 40.6 24 0.00061 14.9 7.1 72 1-92 1-74 (305) 151 PRK12775 putative trifunctiona 39.3 25 0.00063 14.8 5.0 71 380-454 576-657 (993) 152 PRK04452 acetyl-CoA decarbonyl 38.9 22 0.00057 15.1 2.1 33 269-301 186-221 (322) 153 pfam03664 Glyco_hydro_62 Glyco 38.9 18 0.00045 15.8 1.6 33 304-336 183-215 (271) 154 PRK00439 leuD 3-isopropylmalat 38.7 25 0.00065 14.8 7.0 46 394-443 65-111 (163) 155 COG4038 Predicted membrane pro 38.3 10 0.00026 17.3 0.3 29 324-353 19-47 (87) 156 PRK02261 methylaspartate mutas 35.5 28 0.00073 14.4 8.6 11 397-407 105-115 (137) 157 TIGR02861 SASP_H small acid-so 35.4 29 0.00073 14.4 4.5 53 397-465 6-59 (59) 158 TIGR00216 ispH_lytB 4-hydroxy- 34.9 29 0.00074 14.4 2.4 13 147-159 17-31 (354) 159 TIGR00326 eubact_ribD riboflav 33.9 22 0.00056 15.2 1.4 31 393-424 305-335 (393) 160 PRK03372 ppnK inorganic polyph 33.9 30 0.00077 14.3 6.0 27 147-176 82-108 (303) 161 cd02071 MM_CoA_mut_B12_BD meth 33.1 31 0.00079 14.2 8.3 25 397-423 95-119 (122) 162 pfam06506 PrpR_N Propionate ca 33.0 31 0.0008 14.2 5.9 42 391-438 110-151 (169) 163 pfam05211 NLBH Neuraminyllacto 33.0 31 0.0008 14.2 5.5 64 15-88 45-110 (228) 164 cd03085 PGM1 Phosphoglucomutas 32.6 21 0.00053 15.3 1.1 12 32-43 68-79 (548) 165 cd01645 RT_Rtv RT_Rtv: Reverse 32.4 32 0.00081 14.1 3.5 77 328-407 118-195 (213) 166 PRK12769 putative oxidoreducta 31.9 33 0.00083 14.1 5.7 62 380-445 471-540 (654) 167 TIGR00888 guaA_Nterm GMP synth 31.6 16 0.00042 16.0 0.5 14 345-358 70-83 (195) 168 COG0752 GlyQ Glycyl-tRNA synth 31.5 33 0.00084 14.0 2.4 54 102-163 48-108 (298) 169 TIGR02016 BchX chlorophyllide 31.3 33 0.00085 14.0 5.1 91 379-488 153-251 (355) 170 PRK04165 acetyl-CoA decarbonyl 31.2 33 0.00085 14.0 3.7 96 77-183 76-176 (454) 171 pfam02780 Transketolase_C Tran 30.3 35 0.00088 13.9 6.2 56 375-435 9-67 (124) 172 pfam04953 consensus 29.9 35 0.00089 13.8 3.8 52 146-209 44-95 (97) 173 pfam01071 GARS_A Phosphoribosy 29.7 35 0.0009 13.8 5.8 35 150-185 5-39 (193) 174 PRK11914 diacylglycerol kinase 29.6 35 0.0009 13.8 7.9 52 28-91 24-77 (304) 175 COG5410 Uncharacterized protei 29.4 25 0.00063 14.8 1.1 22 327-354 140-161 (305) 176 cd02072 Glm_B12_BD B12 binding 29.0 36 0.00093 13.7 8.3 25 396-422 100-124 (128) 177 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 28.5 37 0.00095 13.7 3.0 93 326-432 66-165 (232) 178 PRK13371 4-hydroxy-3-methylbut 27.7 38 0.00098 13.6 6.6 90 395-490 286-384 (392) 179 TIGR01967 DEAH_box_HrpA ATP-de 27.7 38 0.00098 13.6 2.3 126 13-159 296-450 (1320) 180 PRK10786 ribD bifunctional dia 27.4 39 0.00099 13.6 3.3 43 86-136 79-123 (367) 181 pfam04800 ETC_C1_NDUFA4 ETC co 27.2 39 0.001 13.5 3.0 20 416-435 57-76 (101) 182 TIGR01573 cas2 CRISPR-associat 26.9 33 0.00085 14.0 1.4 32 20-51 10-41 (103) 183 cd07995 TPK Thiamine pyrophosp 26.6 40 0.001 13.5 7.3 11 331-341 101-111 (208) 184 PRK07535 methyltetrahydrofolat 25.8 41 0.0011 13.4 4.1 54 128-183 34-90 (268) 185 COG4635 HemG Flavodoxin [Energ 25.6 42 0.0011 13.3 4.5 16 85-100 11-26 (175) 186 COG0761 lytB 4-Hydroxy-3-methy 25.3 42 0.0011 13.3 11.7 16 146-161 18-33 (294) 187 cd04601 CBS_pair_IMPDH This cd 25.3 42 0.0011 13.3 3.5 34 417-450 74-107 (110) 188 PRK13590 putative bifunctional 24.1 41 0.0011 13.4 1.4 10 424-433 519-528 (590) 189 KOG3846 consensus 24.1 41 0.0011 13.4 1.4 33 272-309 201-233 (465) 190 PRK12778 putative bifunctional 23.6 45 0.0012 13.1 5.5 57 380-440 581-642 (760) 191 pfam00604 Flu_PB2 Influenza RN 23.5 46 0.0012 13.1 3.6 11 107-117 113-125 (759) 192 PRK13799 unknown domain/N-carb 23.2 44 0.0011 13.2 1.4 18 417-434 514-532 (591) 193 TIGR01494 ATPase_P-type ATPase 23.2 46 0.0012 13.1 4.3 50 378-429 316-365 (478) 194 PRK12446 N-acetylglucosaminyl 23.1 46 0.0012 13.1 6.2 40 397-438 265-308 (352) 195 TIGR00303 TIGR00303 conserved 22.9 35 0.0009 13.8 0.9 36 150-186 160-203 (350) 196 PRK04213 GTP-binding protein; 22.7 20 0.00052 15.4 -0.4 19 477-495 171-189 (195) 197 PRK01584 alanyl-tRNA synthetas 22.7 47 0.0012 13.0 8.0 130 27-187 4-150 (593) 198 PRK13059 putative lipid kinase 22.6 47 0.0012 13.0 7.0 72 1-92 1-72 (294) 199 cd01579 AcnA_Bact_Swivel Bacte 22.6 48 0.0012 13.0 5.3 55 394-459 65-120 (121) 200 TIGR01268 Phe4hydrox_tetr phen 22.3 48 0.0012 12.9 3.1 36 16-51 170-207 (445) 201 TIGR02374 nitri_red_nirB nitri 21.5 50 0.0013 12.8 7.6 15 173-187 388-402 (813) 202 KOG0835 consensus 21.2 51 0.0013 12.8 5.8 95 84-188 62-158 (367) 203 KOG2585 consensus 20.4 53 0.0013 12.7 6.1 56 378-435 269-328 (453) 204 KOG2395 consensus 20.3 53 0.0013 12.7 1.7 54 288-353 406-474 (644) 205 COG2139 RPL21A Ribosomal prote 20.2 53 0.0014 12.7 3.1 21 287-307 39-64 (98) 206 COG0212 5-formyltetrahydrofola 20.1 33 0.00085 14.0 0.3 27 330-356 138-164 (191) No 1 >COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis] Probab=100.00 E-value=0 Score=748.66 Aligned_cols=425 Identities=36% Similarity=0.599 Sum_probs=363.4 Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCCCEEEEC Q ss_conf 871037998765886689999999999999999859848016520228875202675-5433322168986999889998 Q gi|254780928|r 6 KLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDGQWISLR 84 (496) Q Consensus 6 ~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g~~l~LR 84 (496) .|+++.||||+||+|.++..|++|+++++++|++|||.+|+||+||++++|.++.|+ +|.+.|+||+|.|++|+.++|| T Consensus 1 ~~~~~~prG~~D~lp~d~~~~~~i~~~~~~v~~~yGf~eI~TPifE~telf~r~~Ge~td~v~kemY~F~Dkggr~laLR 80 (429) T COG0124 1 MMKIQRPRGTRDFLPEDMALREYIESTIRKVFESYGFSEIRTPIFEYTELFARKSGEETDVVEKEMYTFKDKGGRSLALR 80 (429) T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEECCCCCCCCHHHHHHCCCCCCCCCCCCEEEEEECCCCEEEEC T ss_conf 98766899866558677899999999999999980997655755111667620169743333210289994899889844 Q ss_pred CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 88838999999951120554112331013330258764442111110001210000245788999999999751888777 Q gi|254780928|r 85 YDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND 164 (496) Q Consensus 85 pDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~ 164 (496) ||+|+|+||++++|....+.|+||||+|+|||||+||+||||||||||+|+||++++.+|||+|.++.++|+.||+. + T Consensus 81 pe~Tapv~R~~~en~~~~~~p~k~yy~g~vfRyErPQ~GR~RqF~Q~g~E~iG~~~~~~DAEvi~l~~~~l~~lGi~--~ 158 (429) T COG0124 81 PELTAPVARAVAENKLDLPKPLKLYYFGPVFRYERPQKGRYRQFYQFGVEVIGSDSPDADAEVIALAVEILEALGIG--G 158 (429) T ss_pred CCCCHHHHHHHHHCCCCCCCCEEEEEECCEECCCCCCCCCCEEEEECCEEEECCCCCCCCHHHHHHHHHHHHHCCCC--C T ss_conf 66749999999956220368725998335623788888875036876767767998653899999999999974998--6 Q ss_pred CEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHH Q ss_conf 11303660558999998325603564334555333220012896789986210165003555304899977899888740 Q gi|254780928|r 165 YHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFL 244 (496) Q Consensus 165 ~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 244 (496) |+|+|||+++++++++.+|+ ..+..+++.+||++|+ +..+|.+...... ..+.+..+. T Consensus 159 ~~l~iN~~g~l~~~~~~~gi------~~~~~l~~~ldk~~k~----~~~~L~e~~~~r~------------~~n~lr~ld 216 (429) T COG0124 159 FTLEINSRGILEGRLEYLGI------DQREALLRYLDKLDKI----GKLELDEDSKRRL------------KTNPLRVLD 216 (429) T ss_pred EEEEECCCCCHHHHHHHHCC------HHHHHHHHHHHHHHHH----HHHHHHHHHHHHH------------HHCHHHHHH T ss_conf 79998176447888775061------1689999997465467----8987606655343------------114489998 Q ss_pred CCC--CHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCC Q ss_conf 478--568899899860357325888999999999987508884430011010012212341248998546667767666 Q gi|254780928|r 245 SID--LEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKP 322 (496) Q Consensus 245 ~~~--~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~ 322 (496) +.. ....+..+.+++..... ++++++..+.++|+.+|+ .+.+||++|||||||||+|||++... . T Consensus 217 ~k~~~~~~~~~~ap~i~~~~~~--e~~~~~~~v~~~L~~~g~---~~~id~~lvRGLDYYtg~VFE~~~~~--------~ 283 (429) T COG0124 217 SKKDSDQELLKNAPELLDYLDE--ESLEHLEELLALLDALGI---SYEIDPSLVRGLDYYTGTVFEAVTDG--------L 283 (429) T ss_pred HCCCHHHHHHHCCHHHHHHCCH--HHHHHHHHHHHHHHHCCC---CEEECCCEECCHHHCCCEEEEEEECC--------C T ss_conf 6163289998520776401128--899999999999998399---77986630036132066689999768--------8 Q ss_pred CCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHH Q ss_conf 31011003232355211123456774213311016899999736877665557714899826976899999999999998 Q gi|254780928|r 323 VVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRT 402 (496) Q Consensus 323 ~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~ 402 (496) +.++|||||||||+|++.|||+++||||||+|+|||+.+|+.... ........+|+|++++.+. ..+++.+++.||+ T Consensus 284 ~~~~sI~gGGRYD~Lv~~~gG~~~pavGFaiGveRl~~~l~~~~~-~~~~~~~~~v~v~~~~~~~--~~~a~~la~~LR~ 360 (429) T COG0124 284 GAQGSVCGGGRYDGLVEEFGGKPTPAVGFAIGVERLILALEEEGK-EDPVETRVDVYVVPLGEDA--EPEALKLAQKLRA 360 (429) T ss_pred CCCCCEECCCCCHHHHHHHCCCCCCCEEEEHHHHHHHHHHHHCCC-CCCCCCCCCEEEEECCCHH--HHHHHHHHHHHHH T ss_conf 644315527661589998489988713675179999999997188-7776777888999848615--9999999999997 Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHH Q ss_conf 79839997189999889999998779989999887287488189978788836433112014432023351030799999 Q gi|254780928|r 403 AGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELV 482 (496) Q Consensus 403 ~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~ 482 (496) +|++|++++. .+++++|++||++.|++|+||+|++|+++|+|+||||.||+| .++|+++++ T Consensus 361 ~g~~~~~~~~-~r~~k~q~k~A~~~g~~~~viiGe~E~~~g~v~vKdl~t~eq------------------~~v~~~~~~ 421 (429) T COG0124 361 AGISVEVDYS-GRKLKKQFKYADKLGARFAVILGEDELANGVVTVKDLATGEQ------------------EEVPLDELV 421 (429) T ss_pred CCCCEEEEEC-CCCHHHHHHHHHHCCCCEEEEECCHHHHCCCEEEEECCCCCC------------------CEECHHHHH T ss_conf 5994899855-656899999998779988999852588659789734777863------------------334499999 Q ss_pred HHHHHHH Q ss_conf 9999999 Q gi|254780928|r 483 STVKKIL 489 (496) Q Consensus 483 ~~~~~~l 489 (496) +.++..+ T Consensus 422 ~~~~~~~ 428 (429) T COG0124 422 EELKELL 428 (429) T ss_pred HHHHHHC T ss_conf 9987423 No 2 >PRK12420 histidyl-tRNA synthetase; Provisional Probab=100.00 E-value=0 Score=732.51 Aligned_cols=417 Identities=31% Similarity=0.528 Sum_probs=356.8 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCC Q ss_conf 71037998765886689999999999999999859848016520228875202675543332216898699988999888 Q gi|254780928|r 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYD 86 (496) Q Consensus 7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpD 86 (496) |++|.||||||++|+++..+++|+++++++|++|||++|+||+||++|+|.++.|+++...|+||+|.|++|+.|+|||| T Consensus 2 m~~q~~rG~rD~lp~e~~~~~~i~~~~~~~~~~~Gy~~I~tP~~E~~elf~~~~g~~~~i~kemy~f~D~~gr~l~LRPe 81 (421) T PRK12420 2 MEMKNVKGTKDYLPEEQVLRNKIKRACEDTFERYGCKPLETPTLNMYELMSYKYGGGDEILKEIYTLQDQGKRDLALRYD 81 (421) T ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHCCCCCCCCHHHHHEEEEECCCCCEEEECCC T ss_conf 98889998887899999999999999999999859947247650118764244788442241107888189987985677 Q ss_pred CHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCE Q ss_conf 83899999995112055411233101333025876444211111000121000024578899999999975188877711 Q gi|254780928|r 87 LTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYH 166 (496) Q Consensus 87 lT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~ 166 (496) +|+|+||++++| ...++|+||||+|+|||||+||+||+|||||+|+|+||.+++.+|||+|.+++++|+++|+ +++ T Consensus 82 ~Ta~iaR~~a~~-~~~~~P~k~~y~g~vfR~erpq~GR~ReF~Q~GvEiiG~~~~~aDaEiI~la~~~l~~lgl---~~~ 157 (421) T PRK12420 82 LTIPFAKVVAMN-PNIRLPFKRYEIGKVFRDGPIKQGRFREFIQCDVDIVGVESVMAEAELMSMAFELFRTLNL---EVT 157 (421) T ss_pred CCHHHHHHHHHC-CCCCCCEEEEEECCEEECCCCCCCCCCEEEECCEEEECCCCHHHHHHHHHHHHHHHHHCCC---CEE T ss_conf 658999999977-5777874588876778538987885551343575420788778899999999999996598---659 Q ss_pred EECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCC Q ss_conf 30366055899999832560356433455533322001289678998621016500355530489997789988874047 Q gi|254780928|r 167 IGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSI 246 (496) Q Consensus 167 I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 246 (496) |+|||++++.++++.++++.+. ...+++.+|++++.+++.+...+.+. ++..+..+.+..++.. T Consensus 158 i~i~~~~l~~~ll~~~~~~~e~----~~~~~~~ldk~~k~~~~~~~~~l~~~------------~~~~~~~~~~~~~~~~ 221 (421) T PRK12420 158 IQYNNRKLLNGILQAINIPTEL----TSDVILSLDKIEKIGIDGVRKDVLER------------GISEEMADTICNTVLS 221 (421) T ss_pred EEECCHHHHHHHHHHCCCCHHH----HHHHHHHHHHHHHHCHHHHHHHHHHC------------CCCHHHHHHHHHHHHC T ss_conf 9955299999888870999999----99999998876531678899998866------------8888999879998735 Q ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEE Q ss_conf 85688998998603573258889999999999875088844300110100122123412489985466677676663101 Q gi|254780928|r 247 DLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFG 326 (496) Q Consensus 247 ~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~ 326 (496) .....+....+... .....+++++|+.+.+.|+.+|++ .++.|||++|||||||||+|||++... .+..+ T Consensus 222 ~~~~~~~~~~~~~~-~~~~~e~~~~l~~l~~~L~~~gi~-~~i~~D~~lVRGLdYYTg~VFE~~~~~--------~~~~~ 291 (421) T PRK12420 222 CLQLSIADFKEAFN-NPLVADGVNELQQLQQYLIALGIN-ENTIFNPFLARGLTMYTGTVYEIFLKD--------GSITS 291 (421) T ss_pred CCCHHHHHHHHHHC-CHHHHHHHHHHHHHHHHHHHCCCC-CEEEECHHHHCCCCCEEEEEEEEEECC--------CCCCC T ss_conf 68013899863205-855599999999999999976999-518776767416664200589999558--------76443 Q ss_pred EECCCCCCCCCCCCCCCCC--CCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHC- Q ss_conf 1003232355211123456--7742133110168999997368776655577148998269768999999999999987- Q gi|254780928|r 327 SVGGGGRYDGLVSRFKGQN--VPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTA- 403 (496) Q Consensus 327 aI~~GGRYD~L~~~f~~~~--~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~- 403 (496) +||||||||+|++.|||++ +||||||+|+|||+.+|...... ....+++|+.++.+ .+++.+++.||++ T Consensus 292 ~i~gGGRYD~Li~~fgg~~~~~PavGfa~Gierl~~~L~~~~~~----~~~~~v~v~~~~~~----~~a~~ia~~LR~~~ 363 (421) T PRK12420 292 SIGSGGRYDNIIGAFRGDNMNYPTVGISFGLDVIYTALSQKETI----SSTADVFIIPLGTE----LQCLQIAQQLRSTT 363 (421) T ss_pred CCCCCCCHHHHHHHHCCCCCCCCEEEEEEHHHHHHHHHHCCCCC----CCCCCEEEEECCCH----HHHHHHHHHHHHCC T ss_conf 44356650548988189989997479985199999998550457----98898899978778----99999999998459 Q ss_pred CCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCC Q ss_conf 98399971899998899999987799899998872874881899787888364331120 Q gi|254780928|r 404 GIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKN 462 (496) Q Consensus 404 Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~ 462 (496) ||+|++++. ++++++||+||++.|++|++|+|++|+++|+|+||||.||+|.++++++ T Consensus 364 gi~~~~~~~-~~~lkkqlk~A~k~~~~~~iiiG~~E~~~~~v~lK~l~tg~q~~v~l~s 421 (421) T PRK12420 364 SLKVELELA-GRKLKRALNYANKENIPYVLIIGEEELSTETVMLRNMKEGSEVKVPLSS 421 (421) T ss_pred CCEEEEECC-CCCHHHHHHHHHHCCCCEEEEECCHHHHCCEEEEEECCCCCEEEEECCC T ss_conf 966999659-9999999999988799999998763887897899988999737982889 No 3 >CHL00201 syh histidine-tRNA synthetase; Provisional Probab=100.00 E-value=0 Score=703.02 Aligned_cols=418 Identities=25% Similarity=0.355 Sum_probs=329.3 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCCCEEEECC Q ss_conf 71037998765886689999999999999999859848016520228875202675-54333221689869998899988 Q gi|254780928|r 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDGQWISLRY 85 (496) Q Consensus 7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g~~l~LRp 85 (496) .++|+|+|||||+|+++.++++|+++++++|++|||++|+||+||++|+|.+++|+ ++.+.++||+|.|++|+.++||| T Consensus 2 ~~~~~~kG~rD~lp~e~~~~~~i~~~i~~~f~~~Gf~~I~TP~lE~~e~~~~~~g~~~d~i~k~~y~f~D~~g~~l~LRp 81 (424) T CHL00201 2 AKLQPLRGTKDILPDEIEYWQFIHEKAATLLKLANYQEIRTPIFENTELFDRGIGEETDIVNKEMYRFFDRGNRSITLRP 81 (424) T ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHCCCCCCCCHHHHHHHEEEECCCCCEEEECC T ss_conf 89889999987899999999999999999999859925047540419886235787420566653254559998888678 Q ss_pred CCHHHHHHHHHHHHH-HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 883899999995112-0554112331013330258764442111110001210000245788999999999751888777 Q gi|254780928|r 86 DLTAPLARYVAENFD-TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND 164 (496) Q Consensus 86 DlT~~~aR~~~~~~~-~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~ 164 (496) |+|+|+||++++|.. ..+.|+|+||+|+|||+|+||+||+|||||||+|+||.+++.+|||+|.+++++|+++|++ + T Consensus 82 D~T~piaR~~~~~~~~~~~~P~r~~y~g~vfR~e~pq~GR~REF~Q~gvEiiG~~~~~aDaEvi~l~~~~l~~lgl~--~ 159 (424) T CHL00201 82 EGTASIVRAFIENRMAYHMRPQRLWYSGPMFRYERPQSGRQRQFHQLGIEFIGSSDPRADMEVIHLAMTLFNELPVH--R 159 (424) T ss_pred CCHHHHHHHHHHCCCCCCCCCEEEEEECCEEECCCCCCCCCCHHHHCCEEEECCCCHHHHHHHHHHHHHHHHHCCCC--C T ss_conf 77099999999747655799878998754780589878864210414620006898287899999999999865965--2 Q ss_pred CEEECCCCHHHHHHH-HHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHH Q ss_conf 113036605589999-9832560356433455533322001289678998621016500355530489997789988874 Q gi|254780928|r 165 YHIGINNRKILDGIL-EKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSF 243 (496) Q Consensus 165 ~~I~in~~~il~~il-~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 243 (496) +++.|||.+.+..-. ....+ ... .....+++++...+.+ ..+....+... T Consensus 160 ~~i~in~~g~~~~~~~~~~~l------~~~--l~~~~~~l~~~~~~~l---------------------~~~~~~~l~~~ 210 (424) T CHL00201 160 LVLDINSIGKMEDRALYRDKL------TEY--LSQYNQDLDEDSQNRL---------------------SSNPLRILDSK 210 (424) T ss_pred EEHHCCCCCCHHHHHHHHHHH------HHH--HHHHHHHHCHHHHHHH---------------------HHHHHHHHHHH T ss_conf 010003325599888899999------999--9998754377877532---------------------11489998730 Q ss_pred HCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCC Q ss_conf 04785688998998603573258889999999999875088844300110100122123412489985466677676663 Q gi|254780928|r 244 LSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPV 323 (496) Q Consensus 244 ~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~ 323 (496) . .....+.+....+.. ....++.+++..+.+.+...|+. +.||+++|||||||||+|||++.. ..+ T Consensus 211 -~-~~~~~~l~~~~~l~~-~~~~~~~~~l~~l~~~l~~~~v~---~~~D~slvRGLdYYTG~VFE~~~~--------~~~ 276 (424) T CHL00201 211 -N-GATQEILDMAPLLSD-FLSLESEEHFADVCEYLANLNIP---YKINPKLVRGLDYYNDTAFEIKTL--------GSD 276 (424) T ss_pred -C-CHHHHHHHHCHHHHH-HHCHHHHHHHHHHHHHHHHCCCC---CCCCHHHHCCCCCCCCCEEEEEEC--------CCC T ss_conf -6-047999864432010-20488899999999999843876---452877715767645736999967--------888 Q ss_pred CEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHC Q ss_conf 10110032323552111234567742133110168999997368776655577148998269768999999999999987 Q gi|254780928|r 324 VFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTA 403 (496) Q Consensus 324 ~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~ 403 (496) ..++||||||||+|++.|||+++||||||||+|||+.+|++....+ ....+++|+.+ +......++.+|+.||++ T Consensus 277 ~~~si~gGGRYD~Lv~~fgg~~~PavGfaiGieRl~~~l~~~~~~~---~~~~~~~v~~~--~~~~~~~~~~ia~~LR~~ 351 (424) T CHL00201 277 AQDTVCGGGRYDSLVEQLGGPKTPAVGWAIGIERLLLIAKDNILLP---KPSIDFYIATK--GNVAIKIAFSIQRFLHNQ 351 (424) T ss_pred CCCCCCCCCCCHHHHHHCCCCCCCEEEEEECHHHHHHHHHHCCCCC---CCCCCEEEEEC--CHHHHHHHHHHHHHHHHC T ss_conf 6234237877077899729999985778843999999997337777---77885899977--849999999999999988 Q ss_pred CCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHH Q ss_conf 98399971899998899999987799899998872874881899787888364331120144320233510307999999 Q gi|254780928|r 404 GIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVS 483 (496) Q Consensus 404 Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~ 483 (496) ||+||+++. .+++++|++||++.|+||+||+|++|+++|+|+||||.||+|.++.+ +++.++++ T Consensus 352 gi~~e~~~~-~~~l~kql~~A~k~~~~~~iiiG~~E~~~~~v~lK~l~sg~Q~~~~~---------------~~l~~~i~ 415 (424) T CHL00201 352 GLKSELDLS-SSNFSKQIKQAAKKRALACIILGDNEIARGAITIKWLDSQIQENSQY---------------LNFKDFIS 415 (424) T ss_pred CCEEEEEEC-CCCHHHHHHHHHHCCCCEEEEECCHHHHCCEEEEEECCCCCCCCEEC---------------CCHHHHHH T ss_conf 993999708-99999999999987999999985158868968998689988752302---------------47999999 Q ss_pred HHHHHHH Q ss_conf 9999998 Q gi|254780928|r 484 TVKKILQ 490 (496) Q Consensus 484 ~~~~~l~ 490 (496) ++||.+. T Consensus 416 ~lkk~~~ 422 (424) T CHL00201 416 YLKKKIL 422 (424) T ss_pred HHHHHHH T ss_conf 9999872 No 4 >KOG1936 consensus Probab=100.00 E-value=0 Score=699.45 Aligned_cols=444 Identities=30% Similarity=0.528 Sum_probs=388.8 Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEE Q ss_conf 65871037998765886689999999999999999859848016520228875202675543332216898699988999 Q gi|254780928|r 4 KTKLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISL 83 (496) Q Consensus 4 ~~~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~L 83 (496) +.+..+.+|+|||||.|+++.+|++|.+++.++|++||++.|+||+||.-++|..+.|+. +|.+|.|.|++|+.++| T Consensus 55 ~~k~~lKtPKGTrD~~p~qm~lRe~if~~i~~vFkrhGa~~iDTPVFElkeiL~gKYGEd---skLiYdlkDQGGEl~SL 131 (518) T KOG1936 55 KKKFSLKTPKGTRDFSPEQMALREKIFSTIKEVFKRHGAETIDTPVFELKEILTGKYGED---SKLIYDLKDQGGELCSL 131 (518) T ss_pred CCCEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEECCCCCHHHHHHHHHHCCCC---CCEEEEHHHCCCCEEEE T ss_conf 762320699987768888889999999999999997197444660045999986640553---23067523248858874 Q ss_pred CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCC--CCCCCCCCCCCCHHHHH-CCCHHHHHHHHHHHHHHHHHCCC Q ss_conf 8888389999999511205541123310133302587--64442111110001210-00024578899999999975188 Q gi|254780928|r 84 RYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKH--GPGRFRQFIQCDVDNVG-SSAETADAEMCMMMADTLEAVGI 160 (496) Q Consensus 84 RpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p--~~Gr~REf~Q~g~eiiG-~~~~~~DaEii~l~~~~l~~lgl 160 (496) |||||+|+|||+++|. ...+|+|+|++|||+++| .+|||||||||+|||.| .+...+||||+.+++++|+.||+ T Consensus 132 RYDLTVPfARylAmNk---i~sikRy~iAkVyRRd~P~mtrGR~REFYQcDFDIAG~~d~M~pdaE~lkiv~e~L~~l~I 208 (518) T KOG1936 132 RYDLTVPFARYLAMNK---ITSIKRYHIAKVYRRDQPAMTRGRYREFYQCDFDIAGQFDPMIPDAECLKIVVEILSRLGI 208 (518) T ss_pred ECCCCCHHHHHHHHCC---CCCCEEEEEEEEEECCCCHHHCHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCC T ss_conf 1356647999998714---5521104678787506814423024556506752126677778609999999999865275 Q ss_pred CCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHH Q ss_conf 87771130366055899999832560356433455533322001289678998621016500355530489997789988 Q gi|254780928|r 161 KRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIM 240 (496) Q Consensus 161 ~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (496) . +|.|++|||+||+++|..||+|++. +..+|+++|||||.+|+++++++... .+++++.++.+ T Consensus 209 g--d~~iKvNhRkiLdgmf~v~GVp~~~----frtICSsIDKLdK~pwedVkkEmv~e-----------KGlsee~ad~i 271 (518) T KOG1936 209 G--DYGIKVNHRKILDGMFAVCGVPEDK----FRTICSSIDKLDKMPWEDVKKEMVFE-----------KGLSEEAADRI 271 (518) T ss_pred C--CEEEEECHHHHHHHHHHHHCCCHHH----HHHHHHHHHHHHCCCHHHHHHHHHHH-----------CCCCHHHHHHH T ss_conf 5--1599714789999899880999789----62487765455038899999998774-----------17899999999 Q ss_pred HHHHCCCCHHHH-HHHHH--HHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCC--- Q ss_conf 874047856889-98998--603573258889999999999875088844300110100122123412489985466--- Q gi|254780928|r 241 VSFLSIDLEKSM-HELYE--LVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFP--- 314 (496) Q Consensus 241 ~~~~~~~~~~~~-~~l~~--~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~--- 314 (496) .+++...+...+ +.+.. .+..+....+++++|+.++++++.+|+. .+|+||+|++||||||||+|||++.... T Consensus 272 geyv~~~g~~eL~e~l~~d~~l~~n~~a~eal~dlk~Lf~y~~~fg~s-~~isfDlSLARGLDYYTGvIyEav~~~~~~~ 350 (518) T KOG1936 272 GEYVSLKGLDELLEKLIADPKLSQNEAAKEALADLKQLFEYLEIFGIS-ERISFDLSLARGLDYYTGVIYEAVLRGLRLI 350 (518) T ss_pred HHHHHHCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCC-CEEEEEHHHHCCCHHHHCEEEEEEECCCCCC T ss_conf 878621668889999854875433388999899999999999972986-3378525875340133123445652254235 Q ss_pred -CC-----CCCCCCCCEEEECCCCCCCCCCCCCCCC--CCCCCEEEECCHHHHHHHHHCCCCCCC--CCCCCEEEEEEEC Q ss_conf -67-----7676663101100323235521112345--677421331101689999973687766--5557714899826 Q gi|254780928|r 315 -VM-----NEKQKPVVFGSVGGGGRYDGLVSRFKGQ--NVPATGFSIGISRLIVALKSLESSTNN--IKEMGPVLITTMD 384 (496) Q Consensus 315 -~~-----~~~~~~~~~~aI~~GGRYD~L~~~f~~~--~~pavGfaigverl~~~l~~~~~~~~~--~~~~~~v~V~~~~ 384 (496) +. .....++..||||+|||||+|+.+|+.+ .+||||+|+|++||+.+|++....... ....+.|+|...+ T Consensus 351 ~~a~~~~~~~~~e~~~vGSvaaGGRYDnLv~mf~~k~~~vPcvG~S~GVeRiFsile~r~~~~~~~iR~t~t~V~V~~~~ 430 (518) T KOG1936 351 CPAGRYDQAGSTEPGGVGSVAAGGRYDNLVGMFDKKGDKVPCVGQSVGVERIFSILEQRAATVATKIRTTETQVYVAAAG 430 (518) T ss_pred CCCHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCEEEHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECC T ss_conf 76112220366567775451247632368987512457487454040076899999998876541025676289998367 Q ss_pred CCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHH Q ss_conf 97689999999999999879839997189999889999998779989999887287488189978788836433112014 Q gi|254780928|r 385 HDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNE 464 (496) Q Consensus 385 ~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~ 464 (496) ...+.+++.+++.||.+||.+|..|..++++.+|++||++.|||++||+|++|+.+|.|+|||+.++++ T Consensus 431 --k~~l~eR~k~v~~Lw~agI~aE~~yk~~~~~~~q~~~~e~~~ip~~vi~Ge~El~~G~V~vk~~~~re~--------- 499 (518) T KOG1936 431 --KNLLFERLKVVNALWDAGIKAEYLYKANPKLLKQFQYAEEAGIPLAVILGEEELADGSVKVKNVGTREE--------- 499 (518) T ss_pred --CCHHHHHHHHHHHHHHCCCCHHHHHHCCCCHHHHHHHHHHCCCCEEEEECHHHHCCCEEEEEECCCCCC--------- T ss_conf --740899999999998637552000104843778887888639976999344565077079876145533--------- Q ss_pred HHHHCCCCCEEECHHHHHHHHHHHHHH Q ss_conf 432023351030799999999999986 Q gi|254780928|r 465 SWREARVAQITIPISELVSTVKKILQE 491 (496) Q Consensus 465 ~~~~~~~~q~~v~~~~l~~~~~~~l~~ 491 (496) +.|+.++++.++++++.. T Consensus 500 ---------~~v~~e~~v~~l~~~l~~ 517 (518) T KOG1936 500 ---------VLVKREQFVSELKDLLSQ 517 (518) T ss_pred ---------EECCHHHHHHHHHHHHCC T ss_conf ---------103399999999877528 No 5 >PRK00037 hisS histidyl-tRNA synthetase; Reviewed Probab=100.00 E-value=0 Score=679.19 Aligned_cols=402 Identities=36% Similarity=0.566 Sum_probs=321.8 Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCCCEEEEC Q ss_conf 871037998765886689999999999999999859848016520228875202675-5433322168986999889998 Q gi|254780928|r 6 KLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDGQWISLR 84 (496) Q Consensus 6 ~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g~~l~LR 84 (496) .|++++|+|||||+|.++.++++|+++++++|++|||++|.||+||++|+|.+++|+ ++...++||+|.|++|+.++|| T Consensus 1 ~~~~~~p~G~rD~lP~~~~~~~~i~~~i~~~~~~~Gy~~I~tP~lE~~d~~~~~~g~~~d~~~k~~y~f~D~~g~~l~LR 80 (417) T PRK00037 1 MMKIQAPRGTRDILPEESAKWQYVEDTIREVFERYGFSEIRTPIFEYTELFKRKIGESTDIVEKEMYTFQDKGGRSLTLR 80 (417) T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHCCCCCCCCCHHHHHEEEEECCCCCEEEEC T ss_conf 99998999877679889999999999999999985995857752150988624577632201332056775999889856 Q ss_pred CCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 8883899999995112--05541123310133302587644421111100012100002457889999999997518887 Q gi|254780928|r 85 YDLTAPLARYVAENFD--TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKR 162 (496) Q Consensus 85 pDlT~~~aR~~~~~~~--~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~ 162 (496) ||+|+|+||++++|.. ..++|+|+||+|+|||+|+||+||+|||+|+|+|+||.+++.+|||+|.++.++|+.+|++ T Consensus 81 pD~T~~iaR~~~~~~~~~~~~~P~r~~y~g~vfR~e~p~~GR~REf~Q~g~eiiG~~~~~aDaEvi~l~~~~l~~lGl~- 159 (417) T PRK00037 81 PEGTAPVVRAVIENKLYNELPKPFKLYYIGPMFRYERPQKGRYRQFHQFGVEVIGSDSPAADAEVIALAADLLKALGLK- 159 (417) T ss_pred CCCCHHHHHHHHHHHHHCCCCCCEEEEEECCEEECCCCCCCCCCCEEECCHHHHCCCCHHHHHHHHHHHHHHHHHCCCC- T ss_conf 7767299999997210106887658998724660478988763524563527746641788899999999999983996- Q ss_pred CCCEEECCCCH----------HHHHHHHHHCCCH--HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCC Q ss_conf 77113036605----------5899999832560--35643345553332200128967899862101650035553048 Q gi|254780928|r 163 NDYHIGINNRK----------ILDGILEKIGLHG--DDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGA 230 (496) Q Consensus 163 ~~~~I~in~~~----------il~~il~~lgi~~--~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~ 230 (496) ++.+.+||.+ ++.++++...... +........+++.+|++++ T Consensus 160 -~~~i~i~~~g~~~~~~~~r~~L~~~l~~~~~~l~~~~~~~~~~~~l~~ld~~~~------------------------- 213 (417) T PRK00037 160 -GLVLLLNSLGDFEIRANYRKALVGYLEKHLDELDEDSKRRLETNPLRILDKKDK------------------------- 213 (417) T ss_pred -CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCH------------------------- T ss_conf -520010567768889999999999999976433878877665427787642388------------------------- Q ss_pred CCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEE Q ss_conf 99977899888740478568899899860357325888999999999987508884430011010012212341248998 Q gi|254780928|r 231 NLTSEQIDIMVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAI 310 (496) Q Consensus 231 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~ 310 (496) .....+..+..+.. ....+++++|.++.+.++.+|+ .+.||+++|||||||||+|||++ T Consensus 214 ----------------~~~~~~~~a~~l~~--~l~~~~~~~l~~l~~~l~~~~~---~~~~Dl~lvRgldYYTG~vFe~~ 272 (417) T PRK00037 214 ----------------EDQEILADAPKLLD--YLDEESKAHFEELKELLDALGI---PYVIDPRLVRGLDYYTGTVFEFV 272 (417) T ss_pred ----------------HHHHHHHHCHHHHH--HHCHHHHHHHHHHHHHHHHCCC---CEEECHHHCCCCCCCCCEEEEEE T ss_conf ----------------79999973625453--3277889999999999997599---69986245057665343389999 Q ss_pred ECCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHH Q ss_conf 54666776766631011003232355211123456774213311016899999736877665557714899826976899 Q gi|254780928|r 311 LGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSL 390 (496) Q Consensus 311 ~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~ 390 (496) .. ..+..++||||||||+|++.|||+++||||||||+||++.+|.+.+. .+.+|+|+++ +.+.. T Consensus 273 ~~--------~~~~~~si~gGGRYD~L~~~fgg~~~PAvGfa~gieRi~~~l~~~~~------~~~~v~v~~~--~~~~~ 336 (417) T PRK00037 273 TD--------GLGAQGTVCGGGRYDGLVEQFGGPPTPAVGFAIGIERLLLLLEELGL------ESVDVYVVVL--GEEAE 336 (417) T ss_pred EC--------CCCCCCEEECCCCHHHHHHHHCCCCCCEEEEEECHHHHHHHHHHCCC------CCCCEEEEEC--CHHHH T ss_conf 37--------87650104258731578998489978747898639999999996487------8776799965--98999 Q ss_pred HHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCC Q ss_conf 99999999999879839997189999889999998779989999887287488189978788836433112014432023 Q gi|254780928|r 391 SKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREAR 470 (496) Q Consensus 391 ~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~ 470 (496) ..+.+++++||++||+|++++. ++++++|++||++.|+||+||+|++|.++|+|+||||.+|+| T Consensus 337 ~~a~~i~~~Lr~~gi~v~~~~~-~~~l~k~~~~A~~~~~~~~vivG~~E~~~~~v~vk~l~~g~q--------------- 400 (417) T PRK00037 337 AAALKLAEKLRAAGIRVELDLG-GRKLKKQFKYADKSGARFALILGEDELANGTVTLKDLRTGEQ--------------- 400 (417) T ss_pred HHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEECCHHHHCCEEEEEECCCCCE--------------- T ss_conf 9999999999988996999589-989999999999879799999874488679689998999971--------------- Q ss_pred CCCEEECHHHHHHHHHHHHH Q ss_conf 35103079999999999998 Q gi|254780928|r 471 VAQITIPISELVSTVKKILQ 490 (496) Q Consensus 471 ~~q~~v~~~~l~~~~~~~l~ 490 (496) .+||++++++.+++.|+ T Consensus 401 ---~~v~~~~l~~~lk~~l~ 417 (417) T PRK00037 401 ---ETVALDELVEFLKELLG 417 (417) T ss_pred ---EEEEHHHHHHHHHHHHC T ss_conf ---79659999999999749 No 6 >PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional Probab=100.00 E-value=0 Score=603.04 Aligned_cols=376 Identities=26% Similarity=0.406 Sum_probs=309.8 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCCEEEECC Q ss_conf 7103799876588668999999999999999985984801652022887520267554333221689869-998899988 Q gi|254780928|r 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQWISLRY 85 (496) Q Consensus 7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~~l~LRp 85 (496) |+.++|+||+|++|+++..+++++++++++|++|||++|.||+||++|+|.+.+|+. ..++||+|.|+ +|+.|+||| T Consensus 1 m~~~~P~G~~D~lp~e~~~~~~i~~~~~~~f~~~Gy~~I~tP~lE~~e~f~~~~g~~--~~~~~~~f~D~~~Gr~l~LRp 78 (388) T PRK12292 1 MTWQLPEGIRDLLPEEARKIEEIRRRLLDVFRLWGYEEVITPTLEYLDTLLTGGGAD--LDLRTFKLVDQLSGRTLGLRP 78 (388) T ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHCCCCCCC--CCHHEEEEEECCCCCEEEECC T ss_conf 987699998667999999999999999999998799673576606298854457750--211048998269997898568 Q ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 88389999999511205541123310133302587644421111100012100002457889999999997518887771 Q gi|254780928|r 86 DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDY 165 (496) Q Consensus 86 DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~ 165 (496) |+|+|+||++++++...+.|+|+||+|+|||+|+||+||+|||+|+|+|+||.+++.+|||+|.++.++|+.+|++ ++ T Consensus 79 D~T~~iaR~~~~~~~~~~~p~r~~Y~g~vfR~e~pq~Gr~REf~Q~G~EiiG~~~~~aDaEvI~l~~~~l~~lgl~--~~ 156 (388) T PRK12292 79 DMTPQIARIAATRLANRPGPLRLCYAGNVFRAQPRGLGRSREFLQSGVELIGDAGIEADAEVLSLLLDALKALGLP--NF 156 (388) T ss_pred CCCHHHHHHHHHHHHCCCCCEEEEEEEEEEEECCCCCCCCCEEEECCEEEECCCCHHHHHHHHHHHHHHHHHCCCC--CE T ss_conf 7719999999973104678768998522687058989961023425755317888899999999999999976998--64 Q ss_pred EEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHC Q ss_conf 13036605589999983256035643345553332200128967899862101650035553048999778998887404 Q gi|254780928|r 166 HIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLS 245 (496) Q Consensus 166 ~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 245 (496) +|.|||+++++++++.++++.+.+ ..+.++++++++...+. ..++.+..+.+..+.. T Consensus 157 ~i~i~~~~i~~~ll~~~~~~~~~~----~~l~~~l~~kd~~~l~~-------------------l~~~~~~~~~l~~l~~ 213 (388) T PRK12292 157 TLDLGHVGLFRALLAALGLPEELE----EALRTALANKDYVALEE-------------------LDLPEELRARLLALPR 213 (388) T ss_pred EEEECCHHHHHHHHHHCCCCHHHH----HHHHHHHHHHCHHHHHH-------------------CCCCHHHHHHHHHHHH T ss_conf 999778889999999839999999----99999998748666876-------------------3999999999998877 Q ss_pred CCC-HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCC Q ss_conf 785-6889989986035732588899999999998750888443001101001221234124899854666776766631 Q gi|254780928|r 246 IDL-EKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVV 324 (496) Q Consensus 246 ~~~-~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~ 324 (496) ..+ .+.+.+..+.+.. ....+++++|..+++.++..++. ..|.|||++|||||||||+|||++.... T Consensus 214 l~g~~~~~~~~~~~~~~-~~~~~~l~~l~~l~~~l~~~~~~-~~i~iD~~lvRGldYYTG~vFE~~~~~~---------- 281 (388) T PRK12292 214 LRGGPEVLLEARKLLPG-SPAKRALDELKALAEALEKAGYG-IYLQLDLGLLRHYDYYTGIVFQGYVDGV---------- 281 (388) T ss_pred HCCCHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHCCCC-CEEEECCHHCCCCCCCCCEEEEEEECCC---------- T ss_conf 45999999999976679-55689999999999999844999-6472040003576665643999991898---------- Q ss_pred EEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCC Q ss_conf 01100323235521112345677421331101689999973687766555771489982697689999999999999879 Q gi|254780928|r 325 FGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAG 404 (496) Q Consensus 325 ~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~G 404 (496) ..+||||||||+|++.||+ +.||||||+|+|||+.+|.... ....+++|+.. +.+...+++.+|++||++| T Consensus 282 ~~~i~gGGRYD~L~~~fG~-~~PAvGfa~g~eRl~~~l~~~~------~~~~~~~~v~~--~~~~~~~a~~~a~~LR~~G 352 (388) T PRK12292 282 GNPIARGGRYDDLGGRFGR-ARPATGFSLDLDRLRELLPEEE------ERKQKDLLILA--PWERLEAALAAAQALRKKG 352 (388) T ss_pred CCEECCCCCHHHHHHHHCC-CCCEEEEEECHHHHHHHHHHCC------CCCCCEEEEEC--CHHHHHHHHHHHHHHHHCC T ss_conf 8825057566479998389-9971589963999999864205------67886799985--8676999999999999779 Q ss_pred CEEEEEECCCCCHHHHHHHHHHCCCCE Q ss_conf 839997189999889999998779989 Q gi|254780928|r 405 IRAEMFLGSSKNFGNQLKYADRRNCPL 431 (496) Q Consensus 405 i~~e~~~~~~~sl~~~~~~A~~~g~~~ 431 (496) ++|++++ .+++..++..++....++- T Consensus 353 ~~v~~~l-~~~~~~~~~~~~~~~~~~~ 378 (388) T PRK12292 353 EIVVLAL-PGHDDAEAEAADRQLVCRE 378 (388) T ss_pred CEEEEEC-CCCCHHHHHHHHHHHHHCC T ss_conf 8899989-9998688988779986158 No 7 >PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional Probab=100.00 E-value=0 Score=531.25 Aligned_cols=387 Identities=22% Similarity=0.325 Sum_probs=297.8 Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCC Q ss_conf 9876587103799876588668999999999999999985984801652022887520267554333221689869-998 Q gi|254780928|r 1 MGKKTKLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQ 79 (496) Q Consensus 1 m~k~~~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~ 79 (496) |+..+ +-.+|+||+|++|+++..++++++++.++|++|||++|.||+||+.|+|.+..++. ...++|+|.|+ +|+ T Consensus 1 ~~~~~--~wllP~G~~D~lP~ea~~~~~l~~~l~~~f~~~Gy~~V~tP~lE~~e~l~~~~g~~--~~~~~f~~~D~~sGr 76 (391) T PRK12421 1 MDIDE--RWLLPDGVADLLPEEAQKIERLRRRLLDLFASRGYQLVMPPFIEYLESLLTGAGQD--LDLQTFKLIDQLSGR 76 (391) T ss_pred CCCCC--CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHCCCCCCC--CCEEEEEEEECCCCC T ss_conf 98455--75698998758999999999999999999998699762167607287856566873--414799996179997 Q ss_pred EEEECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCC Q ss_conf 89998888389999999511205541123310133302587644421111100012100002457889999999997518 Q gi|254780928|r 80 WISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVG 159 (496) Q Consensus 80 ~l~LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lg 159 (496) .++||||+|+|+||+.+ |....+.|.|+||+|+|||+++|+.||+|||+|+|+|+||.+++.+|+|+|.++.++|+.+| T Consensus 77 ~l~LRpD~T~~vARi~a-~~~~~~~p~Rl~Y~G~V~R~~~~~~gr~Ref~Q~G~EliG~~~~~aD~EvI~l~~~~L~~lG 155 (391) T PRK12421 77 LMGVRADITPQVARIDA-HLLNREGVARYCYAGSVLHTLPQGLNASRAPLQLGAELYGHAGIEADIEIIDLMLGLLRNAG 155 (391) T ss_pred EEEECCCCCHHHHHHHH-HHCCCCCCEEEEEECEEEECCCCCCCCCCCCEECCEEEECCCCHHHHHHHHHHHHHHHHHCC T ss_conf 86556532068899998-74046886579996517751688888766521505898569987989999999999999769 Q ss_pred CCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHH Q ss_conf 88777113036605589999983256035643345553332200128967899862101650035553048999778998 Q gi|254780928|r 160 IKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDI 239 (496) Q Consensus 160 l~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 239 (496) ++ +++|.|||+++++++++.++++.+.+.. +. +.+++....++... ....+...+.... T Consensus 156 l~--~~~l~lgh~~i~~~l~~~~~l~~~~~~~----l~---~~l~~k~~~~l~~~------------~~~~~~~~~~~~~ 214 (391) T PRK12421 156 VE--GLHLDLGHVGIFRSLAELAGLSPEEEEE----LF---DLLQRKALPELKEV------------TANLPMGSDLRRM 214 (391) T ss_pred CC--CEEEEECCHHHHHHHHHHCCCCHHHHHH----HH---HHHHHHCHHHHHHH------------HHHCCCCHHHHHH T ss_conf 98--0699968747899999983999899999----99---99970387889999------------9864998389999 Q ss_pred HHHHHCCCCH-HHHHHH-HHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCC Q ss_conf 8874047856-889989-98603573258889999999999875088844300110100122123412489985466677 Q gi|254780928|r 240 MVSFLSIDLE-KSMHEL-YELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMN 317 (496) Q Consensus 240 ~~~~~~~~~~-~~~~~l-~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~ 317 (496) +..+....+. ..+... ...........+++++|..+.+.++..+. ...|.||++.+||++||||+|||++... T Consensus 215 l~~L~~l~g~~~~l~~a~~~~~~~~~~~~~al~~L~~l~~~l~~~~~-~~~i~~Dl~~vRG~~YyTG~vFe~y~~g---- 289 (391) T PRK12421 215 FYALARLAGDLEALDRALSADALADAAIRAALDELKTLAAQLKNRWP-ELPVSIDLAELRGYHYHTGLVFAAYAPG---- 289 (391) T ss_pred HHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCC-CCEEEECCHHCCCCCCCCEEEEEEEECC---- T ss_conf 88766744899999999985165888999999999999999862467-8518975210478644544899999489---- Q ss_pred CCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHH Q ss_conf 67666310110032323552111234567742133110168999997368776655577148998269768999999999 Q gi|254780928|r 318 EKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYT 397 (496) Q Consensus 318 ~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia 397 (496) ...+||+|||||+|.+.| |++.||||||++++||+.++.. . ..+ +.+++..+.+. +....+ T Consensus 290 ------~~~~Ia~GGRYD~L~~~f-G~~~PA~GFsl~l~rL~~~~~~------~-~~~-~~i~~p~~~~~----~~~~~i 350 (391) T PRK12421 290 ------RGAPLARGGRYDGIGEAF-GRARPATGFSMDLRALLALLTQ------F-AEP-EAVLAPWGDDP----DLLAAI 350 (391) T ss_pred ------CCCEEECCCCCCCHHHHC-CCCCCEEEEEECHHHHHHHCCC------C-CCC-CEEEEECCCCH----HHHHHH T ss_conf ------888354166637177753-9999804899669999972656------6-888-87997679979----999999 Q ss_pred HHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEE Q ss_conf 9999879839997189999889999998779989999887287488189978 Q gi|254780928|r 398 QMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKD 449 (496) Q Consensus 398 ~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~ 449 (496) ++||++|.+|...+..... +...+|...++. .+|...|+- T Consensus 351 ~~LR~~G~~Vv~~l~~~~~-------~~~~~c~~~l~~-----~~~~w~v~~ 390 (391) T PRK12421 351 AELRQQGERVVQLLPGDDG-------SSIPGCTHQLVL-----RDGQWVIEA 390 (391) T ss_pred HHHHHCCCEEEEECCCCCC-------CCCCCCCHHHEE-----CCCEEEEEE T ss_conf 9999679799983899875-------000399972223-----198799986 No 8 >TIGR00442 hisS histidyl-tRNA synthetase; InterPro: IPR015807 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Histidyl-tRNA synthetase (6.1.1.21 from EC) is an alpha2 dimer that belongs to class IIa. Every completed genome includes a histidyl-tRNA synthetase. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and not demonstrated to act as histidyl-tRNA synthetases (see IPR004517 from INTERPRO). The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation, but these regulatory proteins are not orthologous.; GO: 0000166 nucleotide binding, 0004821 histidine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006427 histidyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=100.00 E-value=0 Score=489.02 Aligned_cols=429 Identities=31% Similarity=0.532 Sum_probs=362.3 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHC-CCCCCCCCCCCEEEEECCCCCEEEECC Q ss_conf 7103799876588668999999999999999985984801652022887520-267554333221689869998899988 Q gi|254780928|r 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGK-FLPDEDRPNKGVFSLQDDDGQWISLRY 85 (496) Q Consensus 7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~-~~~~~~~~~k~~y~f~D~~g~~l~LRp 85 (496) +.++.|+|++||+|.++..++++...++.++.+|||.+|.||++|+.++|.+ .+..++...+++|.|.|++|+.++||| T Consensus 2 ~~~~~~~G~~d~~p~~~~~~~~~~~~~~~~~~~~g~~~~~~P~~e~~~~~~~~~~~~~~~~~~~~y~f~d~~~~~~~lrp 81 (446) T TIGR00442 2 VDLQKPRGTKDWLPGELVYRQWIEAKLRSVLESYGYSEIRTPIFEYTELFARGIGKSGDEVEKELYTFKDKGGRDLALRP 81 (446) T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHEEEECCCCCEEEECC T ss_conf 76323455200254157899999999999997517720012114445666530253013344443012127884144222 Q ss_pred CCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHCCCCCC-CCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 88389999999511205--5411233101333025876-44421111100012100002457889999999997518887 Q gi|254780928|r 86 DLTAPLARYVAENFDTI--VFPCRTYRIGPVFRNEKHG-PGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKR 162 (496) Q Consensus 86 DlT~~~aR~~~~~~~~~--~~p~k~yy~g~vfR~e~p~-~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~ 162 (496) |+|+|++|++..|.... ..|+|+||+|++||||+|+ +||+|||||+|+|++|..++.+|+|++.++...+..+|+. T Consensus 82 ~~t~~~~r~~~~~~~~~~~~~p~~~~~~g~~~r~e~p~~~gr~r~f~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~g~~- 160 (446) T TIGR00442 82 ELTAPVVRLVAENKLLLPANKPLRLYYIGPVFRYERPQLKGRYREFWQFGCEVIGSESPLADAEVLSLAVEGLKALGLE- 160 (446) T ss_pred CHHHHHHHHHHHHHHHCCCCCCEEEEEEECHHHCCCHHHHCCHHHHHHCCEEEECCCCCHHHHHHHHHHHHHHHHHCCC- T ss_conf 0036899999875431046764243232010102241230101133211504643665203689999999989860766- Q ss_pred CC-CEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHH Q ss_conf 77-11303660558999998325603564334555333220012896789986210165003555304899977899888 Q gi|254780928|r 163 ND-YHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMV 241 (496) Q Consensus 163 ~~-~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 241 (496) + +.+.+||.++++++++..++..+. ....+..+++++.+++.+...+.. ......+..+.+. T Consensus 161 -~~~~~~~~~~g~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~ 223 (446) T TIGR00442 161 -GHFKLKLNHLGILEGILEYRGALEED-----VYLTPIKDKLDKDDQERLEEELTN-----------PLRILDEKVDELL 223 (446) T ss_pred -CEEEEEECCCHHHHHHHHHHCCHHHH-----HHHHHHHHHHCCCHHHHHHHHHHH-----------HHHHHHHHHHHHH T ss_conf -32788741300145666652110234-----566566666230115678998765-----------4432122245677 Q ss_pred HHHCCC-CHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCC Q ss_conf 740478-5688998998603573258889999999999875088844300110100122123412489985466677676 Q gi|254780928|r 242 SFLSID-LEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQ 320 (496) Q Consensus 242 ~~~~~~-~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~ 320 (496) .++... .+..+..+...........+++..+..++..+...+++. .+.++++++||||||||++||++.. T Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~rGldyy~g~~~e~~~~-------- 294 (446) T TIGR00442 224 ELLKLKGAPEILDYLDELLDESEGHFEGLKDLEELFQLLEDLGIDD-LYELNLGLARGLDYYTGTVFEIVTN-------- 294 (446) T ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-EEEECCHHHHHHHHHCCEEEEEECC-------- T ss_conf 7763256225788888874123578889989999999986505421-0220511331001111323443101-------- Q ss_pred CCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCC-EEEEEEECCCHHHHHHHHHHHHH Q ss_conf 66310110032323552111234567742133110168999997368776655577-14899826976899999999999 Q gi|254780928|r 321 KPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMG-PVLITTMDHDSDSLSKYQMYTQM 399 (496) Q Consensus 321 ~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~-~v~V~~~~~~~~~~~~~~~ia~~ 399 (496) ..+..+++|+|||||+|++.||++.+|++||++|+||++.++.............. .+.+.++........++..++.. T Consensus 295 ~~~~~~~~~~GG~yd~l~~~~~~~~~~~~G~~~g~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 374 (446) T TIGR00442 295 ALGAQGTVCGGGRYDNLVEEFGGPPTPAVGFAFGLERLINLLDAEKPSFPLAKVVDARVFVLVVGLGEEALPEALRLAEK 374 (446) T ss_pred CCCCCCCEECCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEECCHHHHHHHHHHHHH T ss_conf 12432100046510125665067545410023308999998756543100001111102577860642457899999999 Q ss_pred HHHC--CCEEEEEEC-CCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCC-CEEEEECCC Q ss_conf 9987--983999718-99998899999987799899998872874881899787888-364331120 Q gi|254780928|r 400 LRTA--GIRAEMFLG-SSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKG-KELSREIKN 462 (496) Q Consensus 400 Lr~~--Gi~~e~~~~-~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g-~q~~~~~~~ 462 (496) ||+. |+.+++++. ..+++++++++|++.|+.+++++|++|..++++.+|+|.++ +|..+...+ T Consensus 375 ~~~~~~g~~~~~~~~~~~~~~~~~~~~a~~~g~~~~~~~G~~~~~~~~~~~k~~~~~~~~~~~~~~~ 441 (446) T TIGR00442 375 LREALPGISAELYPKNNGRKLKKQFSYADKLGARFAVVLGEEELKEGKVTVKDLETGFEQTTLALDE 441 (446) T ss_pred HHHHCCCCEEEEEECCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCCCEEEHHHHHHHHHHHHHHHH T ss_conf 9873378516885221100134555456434854899845310013412201223124567775787 No 9 >PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional Probab=100.00 E-value=0 Score=492.81 Aligned_cols=321 Identities=23% Similarity=0.379 Sum_probs=248.5 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCC Q ss_conf 99999999999999985984801652022887520267554333221689869998899988883899999995112055 Q gi|254780928|r 24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIV 103 (496) Q Consensus 24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~ 103 (496) .+++.+.++++++|++|||++|+||+||+.|+|.+..|+. ..++||+|.|++|+.+|||||+|+|+||+++++. .+ T Consensus 5 ~r~~~~~~~i~~~f~~~Gy~~I~tP~lE~~d~~~~~~Ge~--~~~~~y~f~D~~g~~l~LRpDlT~piaR~~~~~~--~~ 80 (373) T PRK12295 5 SRSAALAEALLASFEAAGAVRVDPPILQPAEPFLDLSGED--IRRRIFVTSDENGEELCLRPDFTIPVCRRHLASN--AG 80 (373) T ss_pred HHHHHHHHHHHHHHHHCCCEEECCCCCCCHHHHCCCCCCH--HHEEEEEEECCCCCEEEEECCCCHHHHHHHHHHC--CC T ss_conf 7799999999999998699685687604177641435633--1100488998998989981788899999999838--99 Q ss_pred CCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCH-HHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHH Q ss_conf 41123310133302587644421111100012100002-45788999999999751888777113036605589999983 Q gi|254780928|r 104 FPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAE-TADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKI 182 (496) Q Consensus 104 ~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~-~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~l 182 (496) .|.|+||+|+|||+ |+||+|||+|||+|+||..++ .+|||||.+++++++.+|++ +++|.|||++++.++++.+ T Consensus 81 ~p~R~~Y~G~VfR~---q~gr~rEf~Q~GvEiiG~~~~~~aDaEvi~la~~~l~~lgl~--~~~i~ig~~~i~~~~l~~l 155 (373) T PRK12295 81 EPARYSYLGEVFRQ---RRDRASEFLQAGIESFGRADPAAADAEVLALALEALAALGPA--DLEIRLGDVGLFEALIDAL 155 (373) T ss_pred CCEEEEEECCEEEC---CCCCCCCEEEEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCC--CEEEEECCHHHHHHHHHHC T ss_conf 98007877332245---799988516701578578982106499999999999975997--6399966789999999874 Q ss_pred CCCHHHHHHHHHHHHH------HHHHCC----------------CCCHHHHHHHHHHC----CC------------CHH- Q ss_conf 2560356433455533------322001----------------28967899862101----65------------003- Q gi|254780928|r 183 GLHGDDKLNERLIVLR------AIDKLD----------------KFGLQGVKLLLGEG----RT------------DNS- 223 (496) Q Consensus 183 gi~~~~~~~~~~~~~~------~idkl~----------------k~~~~~~~~~l~~~----~~------------~~~- 223 (496) +++..++..-...+.+ .++++. ....+.....+.+. .. +.. T Consensus 156 ~l~~~~~~~L~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~l~~~d~~~~~~~l~~~~~~~g~~~~~~r~~~ei~~rl~ 235 (373) T PRK12295 156 GLPPGWRRRLLRHFGRPRSLDALLARLAGPQPVDELAGVLAALAGSDEKAALALLEDLMSIAGISPVGGRSPAEIARRLL 235 (373) T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHH T ss_conf 99899999999987407779999998613444105789998763336889999999877640664213455889998888 Q ss_pred -HHHHCCCCCCHHHHHHHHHHHCCC--CHHHHHHHHHHHCCCH-HHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCC Q ss_conf -555304899977899888740478--5688998998603573-258889999999999875088844300110100122 Q gi|254780928|r 224 -GDFTKGANLTSEQIDIMVSFLSID--LEKSMHELYELVKGTI-AGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGL 299 (496) Q Consensus 224 -~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~-~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgL 299 (496) .......+++.+..+.+..++... ....+..+.++..... ....+++++..+++.+..+|++...|.||++++||| T Consensus 236 ~k~~~~~~~l~~~~~~~l~~ll~i~~~~~~al~~l~~l~~~~~~~~~~~l~~l~~~~~~l~~~gi~~~~i~fD~sl~Rgl 315 (373) T PRK12295 236 EKADLAAAALPAAALDLLKRFLAISGPPDAALAALRALAADAGLDLDAALDRFEARLGALAARGIDLERLRFSASFGRPL 315 (373) T ss_pred HHHHHHCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCC T ss_conf 75553116789899999999985438889999999999865535589999999999999997399955599727746798 Q ss_pred CCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCCC-CCCCCCCEEEECCHHHHHH Q ss_conf 1234124899854666776766631011003232355211123-4567742133110168999 Q gi|254780928|r 300 EYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFK-GQNVPATGFSIGISRLIVA 361 (496) Q Consensus 300 dYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~-~~~~pavGfaigverl~~~ 361 (496) |||||+|||++.... +..++||||||||+|++.|| ++++||||||||+|||+.+ T Consensus 316 dYYTG~vFE~~~~~~--------~~~~~i~gGGRYD~L~~~fG~~~~~PAvGfaigidRl~~~ 370 (373) T PRK12295 316 DYYTGFVFEIHAAGN--------GGDPPLAGGGRYDGLLTRLGAGEPIPAVGFSIWLDRLAAL 370 (373) T ss_pred CCCCCCEEEEEECCC--------CCCCEEEECCCHHHHHHHHCCCCCCCEEEEEEEHHHHHHC T ss_conf 788981899996898--------8667065116531799985899998636999709998536 No 10 >cd00773 HisRS-like_core Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ. HisZ along with HisG catalyze the first reaction in histidine biosynthesis. HisZ is found only in a subset of bacteria and differs from HisRS in lacking a C-terminal anti-codon binding domain. Probab=100.00 E-value=0 Score=476.59 Aligned_cols=261 Identities=42% Similarity=0.733 Sum_probs=228.7 Q ss_pred HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHH Q ss_conf 89999999999999999859848016520228875202675543332216898699988999888838999999951120 Q gi|254780928|r 22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDT 101 (496) Q Consensus 22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~ 101 (496) +++++++|+++++++|++|||++|.||+||++|+|....++. ..++||+|.|++|+.+|||||+|+|+||++++|... T Consensus 1 e~~~r~~i~~~l~~~f~~~Gy~~I~~P~lE~~d~~~~~~~~~--~~~~~~~f~D~~g~~l~LRpD~T~~iaR~~~~~~~~ 78 (261) T cd00773 1 EAALRRYIEDTLREVFERYGYEEIDTPVFEYTELFLRKSGDE--VSKEMYRFKDKGGRDLALRPDLTAPVARAVAENLLS 78 (261) T ss_pred CHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHCCCCCCC--CHHCEEEEECCCCCEEEECCCCCHHHHHHHHHHHCC T ss_conf 968999999999999998699786677645276752446531--021169999799998976786627999999974153 Q ss_pred CCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHH Q ss_conf 55411233101333025876444211111000121000024578899999999975188877711303660558999998 Q gi|254780928|r 102 IVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEK 181 (496) Q Consensus 102 ~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~ 181 (496) .+.|+|+||+|+|||+++|+.||+|||+|+|+|+||.+++.+|+|+|.+++++|+.+|++ +++|.|||+++++++++. T Consensus 79 ~~~p~r~~Y~g~VfR~~~~~~g~~rE~~Q~G~EiiG~~~~~ad~Eii~l~~~~l~~lg~~--~~~i~i~~~~i~~~~~~~ 156 (261) T cd00773 79 LPLPLKLYYIGPVFRYERPQKGRYREFYQVGVEIIGSDSPLADAEVIALAVEILEALGLK--DFQIKINHRGILDGIAGL 156 (261) T ss_pred CCCCEEEEEECCEEEECCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHCCCC--CEEEEEECHHHHHHHHHH T ss_conf 788858999731899768999984432214699972897588999999999999976998--649998088999999865 Q ss_pred HCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCC Q ss_conf 32560356433455533322001289678998621016500355530489997789988874047856889989986035 Q gi|254780928|r 182 IGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLEKSMHELYELVKG 261 (496) Q Consensus 182 lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 261 (496) ++++.+... +..|++ T Consensus 157 ~~~~~~~~~-------~l~d~l---------------------------------------------------------- 171 (261) T cd00773 157 LEDREEYIE-------RLIDKL---------------------------------------------------------- 171 (261) T ss_pred CCCCHHHHH-------HHHHHH---------------------------------------------------------- T ss_conf 499888999-------999875---------------------------------------------------------- Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCC Q ss_conf 73258889999999999875088844300110100122123412489985466677676663101100323235521112 Q gi|254780928|r 262 TIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRF 341 (496) Q Consensus 262 ~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f 341 (496) .++++++|+.+.+.++.+|+. .+|.|||+++||++||||+|||++.... +..++||+|||||+|++.| T Consensus 172 ---~~~~l~~l~~l~~~l~~~~~~-~~i~~D~~~~r~~~YYtG~vFe~~~~~~--------~~~~~i~~GGRYD~L~~~~ 239 (261) T cd00773 172 ---DKEALAHLEKLLDYLEALGVD-IKYSIDLSLVRGLDYYTGIVFEAVADGL--------GAQGSIAGGGRYDGLLEEF 239 (261) T ss_pred ---CHHHHHHHHHHHHHHHHCCCC-CEEEECCCCCCCCCCCCCEEEEEEECCC--------CCCCCEEECCCHHHHHHHH T ss_conf ---898899999999999865999-5399875126687576871999997898--------8657267544305889970 Q ss_pred CCCCCCCCEEEECCHHHHHHHH Q ss_conf 3456774213311016899999 Q gi|254780928|r 342 KGQNVPATGFSIGISRLIVALK 363 (496) Q Consensus 342 ~~~~~pavGfaigverl~~~l~ 363 (496) +++++||||||+++|||+.+|+ T Consensus 240 ~~~~~pAvGfa~~ldrl~~~l~ 261 (261) T cd00773 240 GGEDVPAVGFAIGLERLLLALE 261 (261) T ss_pred CCCCCCEEEEEEEHHHHHHHHC T ss_conf 8999975899960999999649 No 11 >PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional Probab=100.00 E-value=0 Score=451.61 Aligned_cols=279 Identities=21% Similarity=0.316 Sum_probs=213.7 Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECC Q ss_conf 87103799876588668999999999999999985984801652022887520267554333221689869998899988 Q gi|254780928|r 6 KLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRY 85 (496) Q Consensus 6 ~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRp 85 (496) .+.+|+|+||||++|+++.++++|+++++++|++|||++|.||+||+++.+. +..+|+||+|.|++|+.++||| T Consensus 2 ~~~~~lP~GtrD~~p~~~~~~~~Ie~~~~~~f~~~Gy~eI~TP~~E~~e~~~------~~~~kemy~f~D~~gr~l~LRP 75 (281) T PRK12293 2 IYEHEIPQGSRLYFGKSAKLKRDIENVASEILYKEGFEEIVTPSFSYHQHLS------VADEKELLRFSDEKNHEISLRA 75 (281) T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCEEEEECCC------CCCCCEEEEEECCCCCEEEECC T ss_conf 7667899978166819999999999999999998599485378568644346------6563017999879998799778 Q ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCC Q ss_conf 88389999999511205541123310133302587644421111100012100002457889999999997518887771 Q gi|254780928|r 86 DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDY 165 (496) Q Consensus 86 DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~ 165 (496) |+|+|+||+++++....+.|+||||+|+|||||+ |||+|+|+|+||.+++ +|+|.++.++|+.||++. T Consensus 76 d~Ta~iaR~v~~~l~~~~~p~rl~Y~g~vFRye~------rEf~Q~GvEliG~~s~---~Evi~la~~~l~~lgl~~--- 143 (281) T PRK12293 76 DSTVDVVRIITKRLGRSTEHKKWFYIQPVFRYPT------TEIYQIGAEIIGESDL---SKVLNIAAEIFNELEIEP--- 143 (281) T ss_pred CCCHHHHHHHHHCCCCCCCCEEEEEECCEEECCC------CCCEEECEEEECCCCH---HHHHHHHHHHHHHCCCCC--- T ss_conf 8878999999965544689757998756353467------7746847488779999---999999999999769962--- Q ss_pred EEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHC Q ss_conf 13036605589999983256035643345553332200128967899862101650035553048999778998887404 Q gi|254780928|r 166 HIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLS 245 (496) Q Consensus 166 ~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 245 (496) .+.|||.++...+.+.++.+.+.. ++...+. .+. ... +.+..++. T Consensus 144 ~l~i~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~---l~~-~~~-----------------~~l~~l~~ 188 (281) T PRK12293 144 VLQISNIKIPKLLCEILDLDIEVF--------------ENGNIEK---ILA-QNL-----------------PWLEKLAR 188 (281) T ss_pred EEEECCCCCHHHHHHHHCCHHHHH--------------HHHHHHH---HHH-HHH-----------------HHHHHHHH T ss_conf 499856562889999857009988--------------5642999---987-657-----------------77777765 Q ss_pred CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCE Q ss_conf 78568899899860357325888999999999987508884430011010012212341248998546667767666310 Q gi|254780928|r 246 IDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVF 325 (496) Q Consensus 246 ~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~ 325 (496) ....+.+.++.+.+. ....+.++++..+ ++..+. .++.+|+.++||||||||+|||++... T Consensus 189 ~~~~~~l~~~~~~~p--~~~~~~l~~l~~~---~~~~~~--~~~~~d~~lvrgldYYTG~vFe~~~~~------------ 249 (281) T PRK12293 189 IKTVQDLDELIEIVP--DEIKEELEKLKEL---ASSIEY--ENLVIAPLYYAKMRYYDDLFFRFFDGN------------ 249 (281) T ss_pred CCCHHHHHHHHHHCC--HHHHHHHHHHHHH---HHHCCC--CCEEECCCCCCCCCCCCCEEEEEECCC------------ T ss_conf 498888999998578--9999999999999---986799--637987761148868898089999489------------ Q ss_pred EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHH Q ss_conf 11003232355211123456774213311016899999 Q gi|254780928|r 326 GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALK 363 (496) Q Consensus 326 ~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~ 363 (496) .+||||||||. .++||||||+|+|||+.+|. T Consensus 250 ~~i~gGGRYD~-------~~~pAvGFAi~idrli~aL~ 280 (281) T PRK12293 250 STLASGGNYEI-------DGLSSSGFALYTDALIEKLL 280 (281) T ss_pred CEEEECCCCCC-------CCCCEEEEEEEHHHHHHHHC T ss_conf 98951465489-------99843689961999999866 No 12 >COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism] Probab=100.00 E-value=0 Score=400.06 Aligned_cols=378 Identities=25% Similarity=0.353 Sum_probs=285.0 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCC Q ss_conf 71037998765886689999999999999999859848016520228875202675543332216898699988999888 Q gi|254780928|r 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYD 86 (496) Q Consensus 7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpD 86 (496) |+.++|.|+||.+|.++....+|++.+.+.|.+|||+.|+||++|++|+|....++. ....+|.|.|..|+.+||||| T Consensus 1 ~~~~lp~g~rd~Lp~e~~~~~~i~~~l~~~f~~~Gy~~v~tP~lE~~d~~l~~~g~~--l~~~~f~l~d~~g~~l~LRpD 78 (390) T COG3705 1 MTWQLPEGIRDVLPLEARRKEEIRDQLLALFRAWGYERVETPTLEPADPLLDGAGED--LRRRLFKLEDETGGRLGLRPD 78 (390) T ss_pred CCCCCCCCCHHCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHCCCHH--HHHHHEEEECCCCCEEEECCC T ss_conf 987688752010636776479999999999998087404663134026654022255--552206876578976883543 Q ss_pred CHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCE Q ss_conf 83899999995112055411233101333025876444211111000121000024578899999999975188877711 Q gi|254780928|r 87 LTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYH 166 (496) Q Consensus 87 lT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~ 166 (496) +|+|+||.+++.+.. .|.|+||.|+|||..+-..|+..||+|+|+|++|.++..+|||||.+++.+++.+|++ ++. T Consensus 79 ~T~pVaR~~~~~~~~--~P~Rl~Y~G~Vfr~~~~~~g~~~Ef~QaGiEllG~~~~~ADaEvi~la~~~L~~~gl~--~~~ 154 (390) T COG3705 79 FTIPVARIHATLLAG--TPLRLSYAGKVFRAREGRHGRRAEFLQAGIELLGDDSAAADAEVIALALAALKALGLA--DLK 154 (390) T ss_pred CCHHHHHHHHHHCCC--CCCEEEECCHHHHCCHHCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCC--CEE T ss_conf 308999999982378--8714664014540201026764204553367737872000289999999999974886--748 Q ss_pred EECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCC Q ss_conf 30366055899999832560356433455533322001289678998621016500355530489997789988874047 Q gi|254780928|r 167 IGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSI 246 (496) Q Consensus 167 I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 246 (496) |.|||.+++++++..++++..++.. +.+++. ++.......+....+.+++....+..++.. T Consensus 155 l~LG~~gif~all~~~~l~~~~~~~----L~~a~~---------------~k~~~~~~~~~~~~~~~~~~~~~l~~l~~l 215 (390) T COG3705 155 LELGHAGIFRALLAAAGLPGGWRAR----LRRAFG---------------DKDLLGLELLVLAAPLSPELRGRLSELLAL 215 (390) T ss_pred EEECCHHHHHHHHHHCCCCHHHHHH----HHHHHH---------------CCCHHHHHHHHHCCCCCHHHHHHHHHHHHH T ss_conf 9945589999999974998669999----999985---------------526666988764148984456889998998 Q ss_pred -CCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCE Q ss_conf -8568899899860357325888999999999987508884430011010012212341248998546667767666310 Q gi|254780928|r 247 -DLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVF 325 (496) Q Consensus 247 -~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~ 325 (496) .+.+.+..+...+........+++++..+.+....++ .++.+|++.+|+.+||||++|+++.... - T Consensus 216 ~gg~e~l~~~~~~l~~~~~~~~al~~~~~l~di~~~~~---e~i~lDLg~l~~~~YyTg~~F~ay~~~~----------~ 282 (390) T COG3705 216 LGGREVLERARGLLDELMAQGIALNEGRALADIARRLI---EKIALDLGRLRHFDYYTGLVFLAYADGL----------G 282 (390) T ss_pred HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---HHHEEHHHCCCCCCHHHCEEEEEEECCC----------C T ss_conf 68888899999764211332024453110999985225---1111163236664312200234652565----------6 Q ss_pred EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCC Q ss_conf 11003232355211123456774213311016899999736877665557714899826976899999999999998798 Q gi|254780928|r 326 GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGI 405 (496) Q Consensus 326 ~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi 405 (496) .++++|||||+|.+.|+. ..||+||++.++.|... ..+.......+.+. .........+.++++++|.+|- T Consensus 283 ~al~~GGRYd~l~~~f~~-~~patGf~~~l~~l~~~------~~~~~~~~~~~~f~--~~~~~~~~~~~e~~~~~r~~g~ 353 (390) T COG3705 283 DALASGGRYDGLLGLFGR-AAPATGFALRLDALAQG------GLPLEERRYAALFG--RELDYYTGAAFEAAQALRLAGG 353 (390) T ss_pred CHHHCCCCHHHHHHHCCC-CCCCHHHHHHHHHHHHC------CCCCCCCHHHHCCC--CCCHHHHHHHHHHHHHHCCCCC T ss_conf 433214220002332276-66640167319999834------78854430222037--5401567799999997242688 Q ss_pred EEEEEECCCCCHHHHHHHHHHCCCCEEEEEC Q ss_conf 3999718999988999999877998999988 Q gi|254780928|r 406 RAEMFLGSSKNFGNQLKYADRRNCPLAIIQG 436 (496) Q Consensus 406 ~~e~~~~~~~sl~~~~~~A~~~g~~~viiig 436 (496) .+-..+..+ ++ .++...++.+.+.+. T Consensus 354 ~~~~~l~~g--~~---~~~~~~~~~~~~~~~ 379 (390) T COG3705 354 GRYDRLLTG--LG---ASEEIPGVGFSLWLD 379 (390) T ss_pred EEEEECCCC--CC---HHHHHCCCCEEEEEC T ss_conf 078723123--52---076504643067603 No 13 >KOG1035 consensus Probab=100.00 E-value=0 Score=332.83 Aligned_cols=421 Identities=19% Similarity=0.261 Sum_probs=294.6 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHH Q ss_conf 65886689999999999999999859848016520228875202675543332216898699988999888838999999 Q gi|254780928|r 16 ADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYV 95 (496) Q Consensus 16 ~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~ 95 (496) .++.+....++++|.+.+.++|++||+.+++||.+ ..+.. ....+...+.|.|++|..+.|++|+|.|+|||+ T Consensus 925 ~~~~~~~~~l~~~v~e~~~~ifr~Hga~~l~tpp~-----~~~~~--~~~~~~~~v~~ld~sG~~v~Lp~DLr~pfar~v 997 (1351) T KOG1035 925 IQYTEINNELREYVVEEVVKIFRKHGAIELETPPL-----SLRNA--CAYFSRKAVELLDHSGDVVELPYDLRLPFARYV 997 (1351) T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHCCEECCCCCC-----CCCCC--CCHHCCCEEEEECCCCCEEEEECCCCCHHHHHH T ss_conf 12114578999999999999999824302167865-----53345--420015403544279978996300124677886 Q ss_pred HHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHH Q ss_conf 95112055411233101333025876444211111000121000024578899999999975188877711303660558 Q gi|254780928|r 96 AENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKIL 175 (496) Q Consensus 96 ~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il 175 (496) ++|. .+.+|+|.+++|||.+. .. +|+|++||+|||||.+....|||+|.++++++.. -+...++.|++||..++ T Consensus 998 s~N~---~~~~Kry~i~rVyr~~~-~~-hP~~~~ec~fDii~~t~sl~~AE~L~vi~Ei~~~-~l~~~n~~i~lnH~~LL 1071 (1351) T KOG1035 998 SRNS---VLSFKRYCISRVYRPAI-HN-HPKECLECDFDIIGPTTSLTEAELLKVIVEITTE-ILHEGNCDIHLNHADLL 1071 (1351) T ss_pred HHCH---HHHHHHHHHHEEECCCC-CC-CCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHH-HHCCCCEEEEECHHHHH T ss_conf 6052---88877762320344634-58-9840100156675587774078999999999999-86057536995769999 Q ss_pred HHHHHHHCCCHHHHHHHHHHHHHHH-HHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHH Q ss_conf 9999983256035643345553332-200128967899862101650035553048999778998887404785688998 Q gi|254780928|r 176 DGILEKIGLHGDDKLNERLIVLRAI-DKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLEKSMHE 254 (496) Q Consensus 176 ~~il~~lgi~~~~~~~~~~~~~~~i-dkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 254 (496) ++++..||+|.+............. .+..+...+.....+... + ...+.+.... ....++.......+.. T Consensus 1072 ~Ai~~~~~i~~~~r~~v~~~l~~~~~~r~~~~~~~~~~~~~~~~----s---~~~~~l~~~~--~~~~~~~~~~~~~l~~ 1142 (1351) T KOG1035 1072 EAILSHCGIPKDQRRKVAELLSDMGSSRPQRSEKELKWVFIRRS----S---LQLAKLPEFV--LNRLFLVAGRFQALKL 1142 (1351) T ss_pred HHHHHHCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH----H---HHHHHHHHHH--HHHHHHHHCCHHHHHH T ss_conf 99999749988899999999998764363078888788621487----7---8764048998--7323554224345688 Q ss_pred HHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCC Q ss_conf 99860357325888999999999987508884430011010012212341248998546667767666310110032323 Q gi|254780928|r 255 LYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRY 334 (496) Q Consensus 255 l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRY 334 (496) ++..+....... +|++|+.++.++...|+.. .+.|+.++.+.-.-..|++|++... ...+..+....+|+|||| T Consensus 1143 ~~~~~~~~~~vr-~L~eLe~~~~~~~~~~i~~-~~~i~~g~~~~~~~~~g~~~qi~a~----~~~~~~~~~~~la~GgRy 1216 (1351) T KOG1035 1143 IRGKLRADSLVR-ALKELENVVGLLRSLGIEE-HVHIYVGPTESRHRNGGIQFQITAE----IKSNTSGDPVLLAAGGRY 1216 (1351) T ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHCCCC-CEEEEECCCEEEECCCCEEEEEEEC----CCCCCCCCCEEEECCCCH T ss_conf 764443567877-7899999999998740145-4588632514677388579999642----568876883244156524 Q ss_pred CCCCCCCCCCC---C-CCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEE Q ss_conf 55211123456---7-7421331101689999973687766555771489982697689999999999999879839997 Q gi|254780928|r 335 DGLVSRFKGQN---V-PATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMF 410 (496) Q Consensus 335 D~L~~~f~~~~---~-pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~ 410 (496) |.|+..|++.+ + +|+|.+. +..+...+ ..+......+..++|+||+++ ...+..++.++++||+.||+||+. T Consensus 1217 d~~~~~~~~~~~~~~p~a~gv~~-~~~~~~~~-~~~~~~~~~~~~cdvlics~g--~~l~t~~~~l~~~LWs~gI~a~i~ 1292 (1351) T KOG1035 1217 DSLLQEVRDEQKMNLPGAIGVSA-LSTIRQHA-PKDLEPIKTPSSCDVLICSRG--SGLLTQRMELVAKLWSKGIKAEIV 1292 (1351) T ss_pred HHHHHHHHHHHHHCCCCCCEEHH-HHHHHHHH-HCCCCCCCCCCCCCEEEEECC--CCHHHHHHHHHHHHHHCCCCCCEE T ss_conf 77899863566515864210034-68888764-314667778653617999658--714789999999999737630124 Q ss_pred ECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHH Q ss_conf 1899998899999987799899998872874881899787888364331120144320233510307999999999999 Q gi|254780928|r 411 LGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKKIL 489 (496) Q Consensus 411 ~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l 489 (496) +++..++..+..||+.--+.+++|+- +++.+||...... .++..|-.-+|++.+...+ T Consensus 1293 ~~~s~~~~e~~e~~~~~~i~~iliv~-----n~~~~vks~~~e~----------------~se~~~~~~elv~f~~~~~ 1350 (1351) T KOG1035 1293 PDPSPSLEELTEYANEHEITCILIVT-----NQKEKVKSFELER----------------KSEKVVGRTELVEFLLQAL 1350 (1351) T ss_pred ECCCCCHHHHHHHHHCCCEEEEEEEE-----CCEEEECHHHHHH----------------HHHHHHHHHHHHHHHHHHH T ss_conf 07871068999997457438999973-----5614522457766----------------6666656889999999850 No 14 >PRK12325 prolyl-tRNA synthetase; Provisional Probab=100.00 E-value=4.9e-36 Score=253.15 Aligned_cols=387 Identities=18% Similarity=0.234 Sum_probs=234.4 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCC Q ss_conf 71037998765886689999999999999999859848016520228875202675543332216898699988999888 Q gi|254780928|r 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYD 86 (496) Q Consensus 7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpD 86 (496) |.-+.-.|+..|+|...+++++|++.+++.+.+.||++|.||.+-..+++ +.+|..+....+||.+.|++++.++|+|- T Consensus 31 ~i~~~~~Gl~~wlP~G~~i~~~le~~ir~e~~~~G~~eV~tP~l~~~~Lw-~~SGh~~~y~~~mf~~~d~~~~~~~l~Pm 109 (438) T PRK12325 31 MIRQQAAGIYSWLPLGLKVLKKIENIVREEQNRAGAIEILMPTIQPADLW-RESGRYDAYGKEMLRIKDRHDREMLYGPT 109 (438) T ss_pred CCCCCCCCCCEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHH-HHHCCHHHHHHHHCEEECCCCCEECCCCC T ss_conf 75634687322160589999999999999999749979987765877899-86287645557421213477774313899 Q ss_pred CHHHHHHHHHHHH-HHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHH---HHHHHHHHHHHHCC Q ss_conf 8389999999511-2055411233101333025-87644--4211111000121000024578---89999999997518 Q gi|254780928|r 87 LTAPLARYVAENF-DTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADA---EMCMMMADTLEAVG 159 (496) Q Consensus 87 lT~~~aR~~~~~~-~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~Da---Eii~l~~~~l~~lg 159 (496) -.+.++..+.... ....+|+|+|++|++||+| +|..| |.|||+|-++.+|..+...+.. .+..+..+++++|| T Consensus 110 nc~~~~~i~~~~~~SYRdLPlrl~q~g~~~R~E~sp~~GLlRvReF~m~Dah~F~~~~e~~~~~~~~v~~~y~~if~~lg 189 (438) T PRK12325 110 NEEMITDIFRSYVKSYKDLPLNLYHIQWKFRDEIRPRFGVMRGREFLMKDAYSFDLDEEGARKSYNRMFVAYLRTFKRLG 189 (438) T ss_pred CCHHHHHHHHHCCCCHHHCCHHHHHHHHEECCCCCCCCCCCEEEEEECCCHHHCCCCHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 84999999974034265425788764440112026764410122333041543246889999999999999999999809 Q ss_pred CCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHH Q ss_conf 88777113036605589999983256035643345553332200128967899862101650035553048999778998 Q gi|254780928|r 160 IKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDI 239 (496) Q Consensus 160 l~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 239 (496) ++. +.++... +.+ |-... ..+..+.. .+.+.+ +... ...+. ..... T Consensus 190 l~~--~~v~ad~-g~i-------gg~~s---~Ef~~~~~-------~ged~i---~~~~---~~~~~----~~~~~---- 235 (438) T PRK12325 190 LKA--IPMRADT-GPI-------GGDLS---HEFHILAE-------TGESTV---FYDK---DFLDL----PVPGE---- 235 (438) T ss_pred CCE--EEEEECC-CCC-------CCCCH---HHHHHHHH-------CCCHHE---EECH---HHHHC----CCCCC---- T ss_conf 944--8998236-766-------77512---67476652-------265024---6613---33422----56765---- Q ss_pred HHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCC-CHHHCCCCCCCCCEEEEEEECCCCCCC Q ss_conf 8874047856889989986035732588899999999998750888443001-101001221234124899854666776 Q gi|254780928|r 240 MVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKI-SSTIVRGLEYYTGCVYEAILGFPVMNE 318 (496) Q Consensus 240 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~-Dl~lvRgLdYYTG~vFE~~~~~~~~~~ 318 (496) ..+....+........... ...+++. +. ..++ .+.- ++...||.+ .|.+|.. T Consensus 236 -----~~~~~~~~~~~~~~~~~~~---~~~~~~~---~~-~~~~----~~~~~~~~~~~~iE--vG~if~l--------- 288 (438) T PRK12325 236 -----DIDYDADLQDIVDEWTSLY---AATDEMH---DE-AKFA----AVPEERRLSARGIE--VGHIFYF--------- 288 (438) T ss_pred -----CCCHHHHHHHHHHHHHHHH---HHHHHHC---CH-HHCC----CCCHHHHEECCCEE--EEEEEEC--------- T ss_conf -----5462356678998887650---3466434---67-5537----66756630113303--3124304--------- Q ss_pred CCCCCCEEEECCCCCCCCC-CCCC---CCCCCCC--CEEEECCHHHHHHHHHCCC-----CCCCCCCCCEEEEEEECC-C Q ss_conf 7666310110032323552-1112---3456774--2133110168999997368-----776655577148998269-7 Q gi|254780928|r 319 KQKPVVFGSVGGGGRYDGL-VSRF---KGQNVPA--TGFSIGISRLIVALKSLES-----STNNIKEMGPVLITTMDH-D 386 (496) Q Consensus 319 ~~~~~~~~aI~~GGRYD~L-~~~f---~~~~~pa--vGfaigverl~~~l~~~~~-----~~~~~~~~~~v~V~~~~~-~ 386 (496) |=+|..= -..| .|+..|. .-|+||+||++.++.++.+ ..|.+-+|.+|.|+++.. + T Consensus 289 ------------g~~ys~~~~~~~~~~dg~~~~~~m~~~GIgieR~ia~liE~~~d~~G~~wP~wlAP~QV~Iipi~~~~ 356 (438) T PRK12325 289 ------------GTKYSEPMNAKVQGPDGKEVPVHMGSYGIGVSRLVAAIIEASHDDKGIIWPESVAPFKVGIINLKQGD 356 (438) T ss_pred ------------CCCCCHHCCCCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEEEECCCC T ss_conf ------------53015220674448777732225541334287899999998364688546767486579999706997 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHH Q ss_conf 68999999999999987983999718999988999999877998999988728748818997878883643311201443 Q gi|254780928|r 387 SDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESW 466 (496) Q Consensus 387 ~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~ 466 (496) ......|.+++++|.++||+|.++.. +.++++.++.|+..|+||+||||++|+++|+|+||+..++++ T Consensus 357 ~~~~~~A~~l~~~L~~~girv~~Ddr-~e~lG~Kir~a~l~giPy~ivVG~ke~e~g~V~vR~R~~~~~----------- 424 (438) T PRK12325 357 AACDAACEKLYAALTAAGVDVLYDDT-DERAGAKFATMDLIGLPWQIIVGPKGLAEGKVELKDRKTGER----------- 424 (438) T ss_pred HHHHHHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEECCHHHCCEEEEEECCCCCE----------- T ss_conf 99999999999999978998999899-999729999998669998999907805469899999889960----------- Q ss_pred HHCCCCCEEECHHHHHHHHH Q ss_conf 20233510307999999999 Q gi|254780928|r 467 REARVAQITIPISELVSTVK 486 (496) Q Consensus 467 ~~~~~~q~~v~~~~l~~~~~ 486 (496) .+||++++++.|+ T Consensus 425 -------~~v~ide~i~~lk 437 (438) T PRK12325 425 -------EELSVEAAINRLK 437 (438) T ss_pred -------EEEEHHHHHHHHC T ss_conf -------6764999999860 No 15 >TIGR00443 hisS_second histidyl-tRNA synthetase 2, putative; InterPro: IPR004517 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Histidyl-tRNA synthetase (6.1.1.21 from EC) is an alpha2 dimer that belongs to class IIa (see IPR004516 from INTERPRO). Every completed genome includes a histidyl-tRNA synthetase. Apparent second copies from Bacillus subtilis, Synechocystis spp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and not demonstrated to act as histidyl-tRNA synthetases. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation, but these regulatory proteins are not orthologous. An unusual feature is that this putative second HisS is shorter at the C-terminus. It shows greater similarity to archaeal HisS than to other bacterial HisS. There is reason by analogy to suspect this second HisS may have a function other than (or in addition to) ligating His to its tRNA: the protein kinase DGCN2 of Drosophila has a C-terminal domain related to HisS that appears to detect uncharged tRNA(his), an indicator of amino acid starvation, and respond by phosphorylating eIF-2alpha.; GO: 0000105 histidine biosynthetic process, 0005737 cytoplasm. Probab=100.00 E-value=2.9e-37 Score=261.15 Aligned_cols=385 Identities=24% Similarity=0.348 Sum_probs=275.4 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCC-CCEEEECC Q ss_conf 71037998765886689999999999999999859848016520228875202675543332216898699-98899988 Q gi|254780928|r 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDD-GQWISLRY 85 (496) Q Consensus 7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~-g~~l~LRp 85 (496) |+...|.|.+|++|.+......+.+.+.++|.+|||+.+.+|.+|+++.....++. ..++++.+.|.+ +..++||| T Consensus 1 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~d~~~~~~~~l~~ 77 (414) T TIGR00443 1 FKFEPPAGERDLLPGEYELKKKINKKLTDLFDKWGYQFIETSTLEWYDTLGLGGAI---GAKELIKLLDSGTGGTLGLRP 77 (414) T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCCCCCHHHHHHHCCCC---CHHHHHEEECCCCCCCEEECC T ss_conf 96665554034445677788899889999998614012101322112333210110---000210000034554021122 Q ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 883899999995112055411233101333025-8764442111110001210000245788999999999751888777 Q gi|254780928|r 86 DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND 164 (496) Q Consensus 86 DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~ 164 (496) |+|.+++|..+.+......|.|.||.++|||.+ ....||.-||.|.|+|++|..+..+|+|++.++.++++.+|+. + T Consensus 78 ~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~p~~~~g~~~~~~~~g~~l~~~~~~~~d~~~~~~~~~~l~~~gl~--~ 155 (414) T TIGR00443 78 DLTGPIARAAVSKLLDNGLPERVGYFANVFRLPPEGYGGRGFEFLQAGVELLGDGGVLADAEVLLLLTGCLKSLGLA--D 155 (414) T ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCH--H T ss_conf 20146889999887623661133222111026753345654123442023210343012578999999988631501--3 Q ss_pred CEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHH Q ss_conf 11303660558999998325603564334555333220012896789986210165003555304899977899888740 Q gi|254780928|r 165 YHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFL 244 (496) Q Consensus 165 ~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 244 (496) +.+-++|.++.+.++...--.-. ......+.+..++.... .+..+..+.+......+..++ T Consensus 156 ~~~~~~~~g~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~---------------~~~~~~~p~~~~~~~~~~~~~ 216 (414) T TIGR00443 156 WKLILGHAGLARALLDELPGLLE----RAAFLRRCLEELDYVGG---------------REHVKSLPLPDEDKNDLLELL 216 (414) T ss_pred HHHHHHCCHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH---------------HHHHHHCCCCCHHHHHHHHHH T ss_conf 45554101046788775333456----77888888888776543---------------344531577402467888888 Q ss_pred CCCC--HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCC Q ss_conf 4785--6889989986035732588899999999998750--88844300110100122123412489985466677676 Q gi|254780928|r 245 SIDL--EKSMHELYELVKGTIAGEKGFNELVVISELVRKS--GYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQ 320 (496) Q Consensus 245 ~~~~--~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~--gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~ 320 (496) .... .+.+..+.+ +.........++++..+...+..+ |.. ..+.+|++.++.++||||++||++.. T Consensus 217 ~~~~~~~~~~~~~~~-~~~~~~~~~~~d~l~~l~~~~~~~gdg~~-~~~~~dl~~~~~~~~~~g~~~~~~~~-------- 286 (414) T TIGR00443 217 ELRGTGPEVLGRLEK-LDLEGEGLGLVDELLALGDLLEDFGDGPT-ENLALDLGWVRPFPYYTGVLFEVYAL-------- 286 (414) T ss_pred HHCCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHCCCCC-HHHHHHHHHHCCCCHHHHHHHHHHHH-------- T ss_conf 740422788766654-43211112368999999999986157731-12322123312453023366655441-------- Q ss_pred CCCCEEEECCCCCCCCCCCCCCCCC--CCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHH Q ss_conf 6631011003232355211123456--77421331101689999973687766555771489982697689999999999 Q gi|254780928|r 321 KPVVFGSVGGGGRYDGLVSRFKGQN--VPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQ 398 (496) Q Consensus 321 ~~~~~~aI~~GGRYD~L~~~f~~~~--~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~ 398 (496) ..+.--.+++|||||+|.+.|+.+. .|++||++.+++++.++......+. ...+.+.+|+ +.+.. .....++. T Consensus 287 ~~~~c~~~~~gg~~~~l~~~~~~~~~~~p~~g~~~~~~~l~~~l~~~~~~p~-~~~~~d~~~~--~~~~~--~~~~~~~~ 361 (414) T TIGR00443 287 KAGNCFVLGGGGRYDKLLGHYGPPYQSFPATGFGLNLERLLECLPKLGTLPT-EPCPIDYLVC--PKDDK--AEGLALAD 361 (414) T ss_pred CCCCEEEEECCCCHHHHHHHCCCCHHCCCCCCCHHHHHHHHHHHHHCCCCCC-CCCCCCEEEE--CCHHH--HHHHHHHH T ss_conf 2575367506741234554316300014666520228889998752166665-4233322662--33023--45667776 Q ss_pred HHHHCCCE--EEEEECCCCCHHHHHHHHHHCCCC Q ss_conf 99987983--999718999988999999877998 Q gi|254780928|r 399 MLRTAGIR--AEMFLGSSKNFGNQLKYADRRNCP 430 (496) Q Consensus 399 ~Lr~~Gi~--~e~~~~~~~sl~~~~~~A~~~g~~ 430 (496) ..+..|-+ +.+....+.....++-++-..+.. T Consensus 362 ~~~~~~~~pd~~~~~~~~~~~~~~~~~~~~~~~~ 395 (414) T TIGR00443 362 AERLKGKKPDVGLELLLGGGLEPELLKAFAKGFK 395 (414) T ss_pred HHHHHCCCCCCHHHHHHCCCCCHHHHHHHHHHHH T ss_conf 7875035764111111113420467777664334 No 16 >PRK00413 thrS threonyl-tRNA synthetase; Reviewed Probab=100.00 E-value=8.2e-34 Score=238.73 Aligned_cols=367 Identities=19% Similarity=0.271 Sum_probs=243.3 Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHH Q ss_conf 79987658866899999999999999998598480165202288752026755433322168986999889998888389 Q gi|254780928|r 11 LPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAP 90 (496) Q Consensus 11 ~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~ 90 (496) .-.|+..|+|..+.+++.+++.+++...++||++|.||.+-..+++ +.+|..+.....||...+.+++.++|+|--.+. T Consensus 256 ~~pGl~~w~P~G~~i~~~le~~~r~~~~~~Gy~eV~TP~i~~~~Lw-~~SGHw~~Y~e~Mf~~~~~~~~~~~lKPMNCP~ 334 (639) T PRK00413 256 EGPGLPFWHPKGWIIRNELEDYMRRRHLKAGYQEVNTPHILDRSLW-ETSGHWDHYRENMFPTMSDDGEDYALKPMNCPG 334 (639) T ss_pred CCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHH-HHCCCHHHHCCCCCCCEECCCCEEEECCCCCCC T ss_conf 6887646637689999999999999999869859836413468899-654742232254223240152103204668700 Q ss_pred HHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCCC--C--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCCC Q ss_conf 99999951-120554112331013330258764--4--42111110001210000245-78-899999999975188877 Q gi|254780928|r 91 LARYVAEN-FDTIVFPCRTYRIGPVFRNEKHGP--G--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKRN 163 (496) Q Consensus 91 ~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~~--G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~~ 163 (496) -+-++... .+...+|+|++.+|.|||||.++. | |.|.|+|-|+.||...+... |. .++.++.++++.||++ T Consensus 335 H~~if~~~~~SYRdLPlR~aEfg~~~R~E~SG~L~GL~RvR~FtqdDaHIFc~~dQi~~Ei~~~l~~~~~vy~~fGf~-- 412 (639) T PRK00413 335 HILIFKSGLRSYRELPLRLAEFGTVHRYEKSGALHGLMRVRGFTQDDAHIFCTPEQIKDELLSVLDLILSVYKDFGLT-- 412 (639) T ss_pred HHHHHHCCCCCHHHCCHHHHHHHHHHCCCCCCCCCCEEEEEEEECCCCEEECCHHHHHHHHHHHHHHHHHHHHHCCCC-- T ss_conf 335644355355547556664113205677874456423300001584132478999999999999999999974998-- Q ss_pred CCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHH Q ss_conf 71130366055899999832560356433455533322001289678998621016500355530489997789988874 Q gi|254780928|r 164 DYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSF 243 (496) Q Consensus 164 ~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 243 (496) ++.++++.+. + ..+|-++.+... .+.++..+.+... .+....+...-..+++ T Consensus 413 ~~~~~lStrp--e---k~~g~~e~W~~A----------------e~~L~~al~~~g~----~y~~~~GegAFYGPKI--- 464 (639) T PRK00413 413 DYYLELSTRP--E---KRVGSDELWEKA----------------TEALREALEESGL----EYVENPGEGAFYGPKI--- 464 (639) T ss_pred EEEEEEECCC--C---CCCCCHHHHHHH----------------HHHHHHHHHHCCC----CEEECCCCCCEECCEE--- T ss_conf 0389996475--1---135888999999----------------9999999997499----8087888611110166--- Q ss_pred HCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCC--CCCCCCEEEEEEECCCCCCCCCC Q ss_conf 0478568899899860357325888999999999987508884430011010012--21234124899854666776766 Q gi|254780928|r 244 LSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRG--LEYYTGCVYEAILGFPVMNEKQK 321 (496) Q Consensus 244 ~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRg--LdYYTG~vFE~~~~~~~~~~~~~ 321 (496) + .....++.. .+.+ .-|.+|+.+..- |.| ++ ..+...+ T Consensus 465 -----D-------------~~~~DalgR---------~wq~--~TiQlDf~lPerF~l~Y-~~----------~dg~~~~ 504 (639) T PRK00413 465 -----D-------------VQLKDAIGR---------TWQC--GTIQLDFNLPERFDLEY-IA----------ADGEKHR 504 (639) T ss_pred -----E-------------EEEECCCCC---------EEEC--CHHHHHHCCHHHCCCEE-EC----------CCCCCCC T ss_conf -----7-------------785144687---------1320--02332222454248889-98----------8898163 Q ss_pred CCCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHH Q ss_conf 6310-1100323235521112345677421331101689999973-6877665557714899826976899999999999 Q gi|254780928|r 322 PVVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQM 399 (496) Q Consensus 322 ~~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~ 399 (496) |+.+ +|| .| .+||++.+|.++ ....|.+-+|.+|.|+++ ......+|.++.+. T Consensus 505 PVmIHRAi--------------------~G---S~ERfiaiLiEh~~G~~P~WLaP~Qv~IipV--~~~~~~ya~~v~~~ 559 (639) T PRK00413 505 PVMIHRAI--------------------FG---SIERFIGILIEHYAGAFPLWLAPVQVVVIPI--TDEHADYAKEVAKA 559 (639) T ss_pred EEEEEECC--------------------CC---CHHHHHHHHHHHHCCCCCCCCCCCEEEEEEC--CHHHHHHHHHHHHH T ss_conf 08999525--------------------56---5899999999980898873657615899961--84789999999999 Q ss_pred HHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHH Q ss_conf 99879839997189999889999998779989999887287488189978788836433112014432023351030799 Q gi|254780928|r 400 LRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPIS 479 (496) Q Consensus 400 Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~ 479 (496) |+++|++|+++.. +.++++.++.|...++||++|||++|.++|+|.||....++ +.++|++ T Consensus 560 l~~~giRv~vD~~-~e~l~~KIR~a~~~kiPy~~VvGdkE~~~~~VsvR~r~~~~------------------~~~~~~~ 620 (639) T PRK00413 560 LRDAGIRVEVDLR-NEKIGYKIREAQLQKVPYMLVVGDKEVEAGTVSVRRRGGGD------------------LGTMPVD 620 (639) T ss_pred HHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCC------------------CCEEEHH T ss_conf 9978988999789-98575999998653799899980036535958999778972------------------4656899 Q ss_pred HHHHHHHHHHHHH Q ss_conf 9999999999864 Q gi|254780928|r 480 ELVSTVKKILQEN 492 (496) Q Consensus 480 ~l~~~~~~~l~~~ 492 (496) ++++.+++-++.. T Consensus 621 efi~~l~~ei~~r 633 (639) T PRK00413 621 EFVEKIKEEIARR 633 (639) T ss_pred HHHHHHHHHHHHH T ss_conf 9999999999875 No 17 >PRK12304 thrS threonyl-tRNA synthetase; Reviewed Probab=100.00 E-value=4e-33 Score=234.25 Aligned_cols=367 Identities=17% Similarity=0.236 Sum_probs=241.6 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHH Q ss_conf 37998765886689999999999999999859848016520228875202675543332216898699988999888838 Q gi|254780928|r 10 ELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTA 89 (496) Q Consensus 10 ~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~ 89 (496) ....|+..|+|..+.+++.+++.+++...++||++|.||.+-..+++ +.+|..+....+|| +.+.+++..+|+|--.+ T Consensus 226 ~~g~G~~~wlP~G~~i~~~le~~~r~~~~~~Gy~eV~TP~i~~~~Lw-~~SGH~~~Y~e~Mf-~~~~d~~~y~lKPMNCP 303 (604) T PRK12304 226 EIGAGLPIWLPKGARLRSKLEHLLYKAHRLRGYEPVRGPEILKSDVW-KISGHYANYKENMY-FTTIDEQEYGIKPMNCV 303 (604) T ss_pred CCCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEECCCCCCCHHHH-HCCCHHHHHCCCCC-EEECCCCEEECCCCCCH T ss_conf 45887536837754999999999999999829968038654558887-30551532105764-45057743303677957 Q ss_pred HHHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHHH-H-HHHHHHHHHHHHCCCCC Q ss_conf 999999951-12055411233101333025876--44--421111100012100002457-8-89999999997518887 Q gi|254780928|r 90 PLARYVAEN-FDTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETAD-A-EMCMMMADTLEAVGIKR 162 (496) Q Consensus 90 ~~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~D-a-Eii~l~~~~l~~lgl~~ 162 (496) .-+-++.+. .+...+|+|++.+|.|||+|.++ .| |.|.|+|-|+.||...+...+ . .++.++.++++.||++ T Consensus 304 ~H~~if~~~~rSYRdLPlR~aEfg~~hR~E~SG~L~GL~RvR~FtqDDaHIFc~~dQi~~Ei~~~l~~~~~vy~~fGf~- 382 (604) T PRK12304 304 GHIKVYQSDLRSYRDLPLKFFEYGVVHRHEKSGVLHGLFRVREFTQDDAHIFCMPSQIKEEVLEILDFVDKIMKAFDFS- 382 (604) T ss_pred HHHHHHHCCCCCHHHCCHHHHHCCCEECCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHCCCE- T ss_conf 4999986277444435555454353202677766346455778977884465489999999999999999999745961- Q ss_pred CCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHH Q ss_conf 77113036605589999983256035643345553332200128967899862101650035553048999778998887 Q gi|254780928|r 163 NDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVS 242 (496) Q Consensus 163 ~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 242 (496) +.+.++.+.= ..+|-.+.+... .+.++..|.+... ++....+...-..+++. T Consensus 383 --~~~~lstrpe-----k~~G~de~W~~A----------------e~~L~~aL~~~g~----~y~~~~GegAFYGPKID- 434 (604) T PRK12304 383 --YEMEISTKPA-----KAIGDDEVWEKA----------------TKALKEALDENGL----KYGIDEGGGAFYGPKID- 434 (604) T ss_pred --EEEEECCCCC-----CCCCCHHHHHHH----------------HHHHHHHHHHCCC----CCCCCCCCCCCEECCEE- T ss_conf --9999768863-----347988999999----------------9999999996499----86657485520321101- Q ss_pred HHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCC-CCCCEEEEEEECCCCCCCCCC Q ss_conf 4047856889989986035732588899999999998750888443001101001221-234124899854666776766 Q gi|254780928|r 243 FLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLE-YYTGCVYEAILGFPVMNEKQK 321 (496) Q Consensus 243 ~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLd-YYTG~vFE~~~~~~~~~~~~~ 321 (496) .....++..--+ ..-|.+|+.+..-++ .|++ ..+...+ T Consensus 435 --------------------~~v~DalgR~wq-----------~~TIQlDf~lPeRF~l~Y~~----------~dg~~~r 473 (604) T PRK12304 435 --------------------IKITDALKRKWQ-----------CGTIQVDFNLPERFKLEYTD----------ENNEKKQ 473 (604) T ss_pred --------------------EEEECCCCCHHH-----------HHHHHHHHHCHHHCCCEEEC----------CCCCCCC T ss_conf --------------------798622488988-----------77888876364315738988----------8998367 Q ss_pred CCCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHH Q ss_conf 6310-1100323235521112345677421331101689999973-6877665557714899826976899999999999 Q gi|254780928|r 322 PVVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQM 399 (496) Q Consensus 322 ~~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~ 399 (496) |+.+ +||.| .+||++.+|.++ ....|.+-+|.+|.|+++ ......+|.+++.. T Consensus 474 PVmIHRAilG-----------------------S~ERfiaiLiEh~~G~~P~WLaP~Qv~IipV--~~~~~~YA~~v~~~ 528 (604) T PRK12304 474 PVMIHRAILG-----------------------SFERFIGILTEHFAGEFPFFIAPTQVAIVPI--NEAHHVYAKELQKE 528 (604) T ss_pred CEEEEEECCC-----------------------CHHHHHHHHHHHCCCCCCCCCCCCEEEEEEC--CHHHHHHHHHHHHH T ss_conf 7899720357-----------------------7899999999980899985757616899960--77789999999999 Q ss_pred HHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHH Q ss_conf 99879839997189999889999998779989999887287488189978788836433112014432023351030799 Q gi|254780928|r 400 LRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPIS 479 (496) Q Consensus 400 Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~ 479 (496) |+++|++|+++.. +.++++.++.|...++||++|||++|+++|+|.||....++ +.++|++ T Consensus 529 L~~~girv~~D~~-~e~l~~KIR~a~~~kiPy~lVvGdkE~~~~~vsvR~r~~~~------------------~~~~~~~ 589 (604) T PRK12304 529 LLKLDIDSEVYDK-NESLNKKIRTAEKQRVPMILVLGDEEVENRSVAIRDRRARE------------------QYNLSLD 589 (604) T ss_pred HHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCC------------------CCEEEHH T ss_conf 9988987997389-99776999997643899899984467655968899778874------------------5706299 Q ss_pred HHHHHHHHHHHHH Q ss_conf 9999999999864 Q gi|254780928|r 480 ELVSTVKKILQEN 492 (496) Q Consensus 480 ~l~~~~~~~l~~~ 492 (496) ++++.+++-+++. T Consensus 590 efi~~l~~eI~~~ 602 (604) T PRK12304 590 EFLNLVKEKMSEV 602 (604) T ss_pred HHHHHHHHHHHHC T ss_conf 9999999997442 No 18 >PRK04483 threonyl-tRNA synthetase; Validated Probab=100.00 E-value=1.4e-33 Score=237.20 Aligned_cols=362 Identities=14% Similarity=0.207 Sum_probs=233.7 Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHH Q ss_conf 79987658866899999999999999998598480165202288752026755433322168986999889998888389 Q gi|254780928|r 11 LPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAP 90 (496) Q Consensus 11 ~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~ 90 (496) .-.|+..|+|....+++.+++.+++...++||++|.||.+-..+++ +.+|..+.....|| +.+..++.++|+|--.+. T Consensus 259 ~~pG~~~wlP~G~~i~~~le~~~r~~~~~~Gy~eV~tP~i~~~~Lw-~~SGH~~~Y~e~Mf-~~~~~~~~~~lKPMNCP~ 336 (634) T PRK04483 259 EAPGLVFWHPKGWSLWQVVEQYMRKVYRDSGYGEVRCPQILDVSLW-QKSGHWDNYQDAMF-FTESEKRTYAVKPMNCPG 336 (634) T ss_pred CCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCEECCHHHH-HHCCCHHHHHHCCC-EECCCCCEEEECCCCCHH T ss_conf 7886438816689999999999999999829959988625137787-62561645530371-342554035515768564 Q ss_pred HHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCCC Q ss_conf 99999951-12055411233101333025876--44--42111110001210000245-78-899999999975188877 Q gi|254780928|r 91 LARYVAEN-FDTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKRN 163 (496) Q Consensus 91 ~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~~ 163 (496) -+-++.+. .+...+|+|++.+|.|||||+++ .| |.|.|+|-|+.||...+... +. .++.++.++++.||++ T Consensus 337 H~~if~~~~rSYRdLPlR~aE~g~~~R~E~SG~L~GL~RvR~FtqdDaHIFc~~dQi~~Ei~~~l~~~~~vy~~fGf~-- 414 (634) T PRK04483 337 HVQVFNQGLHSYRDLPIRYGEFGACHRNEPSGALHGILRVRGFTQDDGHVFCLESQIEAEVTAFHQQALAVYTAFGFD-- 414 (634) T ss_pred HHHHHHCCCCCHHHCCHHHHHCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHCCCC-- T ss_conf 879987177444434366554330220567765457456889988983356389999999999999999999863995-- Q ss_pred CCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHH Q ss_conf 71130366055899999832560356433455533322001289678998621016500355530489997789988874 Q gi|254780928|r 164 DYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSF 243 (496) Q Consensus 164 ~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 243 (496) ++.++++.+.- ..+|-+.. |+.....|.+.. ...++. + T Consensus 415 ~~~~~lStrpe-----k~~G~~~~--------------------W~~AE~~L~~al--------~~~g~~---------y 452 (634) T PRK04483 415 DIQIKIALRPE-----KRLGDDAT--------------------WDKAEAALRSAL--------GVCGVE---------W 452 (634) T ss_pred EEEEEECCCCC-----CCCCCHHH--------------------HHHHHHHHHHHH--------HHCCCC---------C T ss_conf 38999635762-----34587556--------------------889999999999--------974987---------0 Q ss_pred HCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCC-CCCEEEEEEECCCCCCCCCCC Q ss_conf 0478568899899860357325888999999999987508884430011010012212-341248998546667767666 Q gi|254780928|r 244 LSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEY-YTGCVYEAILGFPVMNEKQKP 322 (496) Q Consensus 244 ~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdY-YTG~vFE~~~~~~~~~~~~~~ 322 (496) ....++.++-- ..+. .....++. +.+- ..-|.+|+.+..-++. |++ ..+...+| T Consensus 453 ~~~~GegAFYG--PKID--~~v~Dalg---------R~~q--~~TiQlDf~lP~rF~l~Y~~----------~dg~~~rP 507 (634) T PRK04483 453 QELPGEGAFYG--PKIE--YHLKDAIG---------RTWQ--LGTMQVDFMMPGRLGAEYVD----------ENSQKKHP 507 (634) T ss_pred EECCCCCCEEC--CCEE--EEEEECCC---------CEEE--CCEEEEECCCCCCCCCEEEC----------CCCCCCCE T ss_conf 77679701056--6228--99992799---------8674--11457621453436778985----------68983860 Q ss_pred CCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHH Q ss_conf 310-1100323235521112345677421331101689999973-68776655577148998269768999999999999 Q gi|254780928|r 323 VVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQML 400 (496) Q Consensus 323 ~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~L 400 (496) +.+ +|| .| .+||++.+|.++ ....|.+-+|.+|.|+++ ......+|.++++.| T Consensus 508 vmIHRAi--------------------lG---S~ERfi~iLiEh~~G~fP~WLaP~Qv~iipv--~~~~~~ya~~v~~~L 562 (634) T PRK04483 508 VMLHRAI--------------------VG---SMERFIGILIEHHAGAFPAWLAPVQVVVANI--TDAQAEYVDSVRKTL 562 (634) T ss_pred EEEEECC--------------------CC---CHHHHHHHHHHHCCCCCCCCCCCCEEEEEEC--CHHHHHHHHHHHHHH T ss_conf 8999457--------------------67---7899999999973798985768735899955--804899999999999 Q ss_pred HHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHH Q ss_conf 98798399971899998899999987799899998872874881899787888364331120144320233510307999 Q gi|254780928|r 401 RTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISE 480 (496) Q Consensus 401 r~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~ 480 (496) +++|++|+++.. +.++++.++.|...++||++|||++|+++|+|.||+...+++ .++|+++ T Consensus 563 ~~~g~rv~vD~~-~e~lg~KIR~a~~~kiPy~lVvG~kE~e~~~VsvR~r~~~~~------------------~~~~~~~ 623 (634) T PRK04483 563 ANQGFRVSADLR-NEKIGYKIREHTLQRVPYLLVVGDREKENGAVAVRTRSGEDL------------------GTMTVSA 623 (634) T ss_pred HHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEECHHHHHCCEEEEEECCCCCC------------------CEEEHHH T ss_conf 978978999789-985749999874338998999812566459789997789745------------------7156999 Q ss_pred HHHHHHH Q ss_conf 9999999 Q gi|254780928|r 481 LVSTVKK 487 (496) Q Consensus 481 l~~~~~~ 487 (496) +++.+++ T Consensus 624 fi~~l~~ 630 (634) T PRK04483 624 FIERLQA 630 (634) T ss_pred HHHHHHH T ss_conf 9999998 No 19 >PRK12305 thrS threonyl-tRNA synthetase; Reviewed Probab=100.00 E-value=9.3e-33 Score=231.89 Aligned_cols=368 Identities=16% Similarity=0.165 Sum_probs=233.5 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHH Q ss_conf 37998765886689999999999999999859848016520228875202675543332216898699988999888838 Q gi|254780928|r 10 ELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTA 89 (496) Q Consensus 10 ~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~ 89 (496) ....|+..|+|..+.+++.+++.+++...++||++|.||.+-..++ +..+|..+....+||.-.+..++.++|+|--.+ T Consensus 195 ~~gpG~~~wlP~G~~i~~~le~~~r~~~~~~Gy~eV~TP~i~~~~L-w~~SGH~~~Y~e~Mf~~~~~~~e~~~lKPMNCP 273 (576) T PRK12305 195 LAGQGFPIWLENGMIIKNAIRKFILELDRKYGFDEVLTPHFGEKKL-YKTSGHLDHYKDDMFKPLKIENEELIPRPMTCP 273 (576) T ss_pred CCCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHH-HHHCCCHHHHHHHCCCCEECCCCEEEECCCCCH T ss_conf 4688764674767899999999999999986998984642142889-976664655664257306315641653577863 Q ss_pred HHHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCC Q ss_conf 999999951-12055411233101333025876--44--42111110001210000245-78-89999999997518887 Q gi|254780928|r 90 PLARYVAEN-FDTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKR 162 (496) Q Consensus 90 ~~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~ 162 (496) .-+-.+.+. .+...+|+|++.+|.|||+|..+ .| |.|+|+|-|+.||...+... +. .++.++.+++..||+. T Consensus 274 ~H~~if~~~~rSYRdLPlR~aEfg~~~R~E~SG~L~GL~RvR~FtqDDAHIFct~dQi~~Ei~~~l~~i~~vy~~fGf~- 352 (576) T PRK12305 274 HHIILYSNELRSYRDLPIRLSEQSRLYRYEKSGALTGLERVRAMDLTEGHIFVRKDQIESEVKHLFKMIQEALSIFKIK- 352 (576) T ss_pred HHHHHHHCCCCCHHHCCHHHHCCCCEECCCCCCCCCCCCCCCCCCCCCCCEEECHHHHHHHHHHHHHHHHHHHHHCCCC- T ss_conf 2677764277544432422000443544788865557554668876871212089999999999999999999853987- Q ss_pred CCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHH Q ss_conf 77113036605589999983256035643345553332200128967899862101650035553048999778998887 Q gi|254780928|r 163 NDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVS 242 (496) Q Consensus 163 ~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 242 (496) ++.+.++-+.--+ --..+|-.+ .|+.....|.+. ++..++. T Consensus 353 -~~~~~lS~r~~~~-~ek~~g~de--------------------~W~~Ae~~L~~a--------l~~~g~~--------- 393 (576) T PRK12305 353 -IFYISLSLRDPND-KEKFFDDDQ--------------------MWEQAEADLKKM--------LKDNKIN--------- 393 (576) T ss_pred -CCEEEEEECCCCC-CCCCCCCCH--------------------HHHHHHHHHHHH--------HHHCCCC--------- T ss_conf -3158999438988-753459727--------------------699999999999--------9974997--------- Q ss_pred HHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCC Q ss_conf 40478568899899860357325888999999999987508884430011010012212341248998546667767666 Q gi|254780928|r 243 FLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKP 322 (496) Q Consensus 243 ~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~ 322 (496) +....++.++ +|. +|.|.+.-+-|=.+-.|+| |+- T Consensus 394 y~~~~GegAF-----------------------------YGP---KID~~v~DalgR~wq~~TI-QlD------------ 428 (576) T PRK12305 394 YKEMIGEAAF-----------------------------YGP---KIDFQVKTVLNKEITVSTI-QLD------------ 428 (576) T ss_pred CEECCCCCCE-----------------------------ECC---CCCEEEECCCCCEEEEEEE-EEE------------ T ss_conf 1423065010-----------------------------567---6346985067867874245-666------------ Q ss_pred CCEEEECCCCCCCC-CCCCCCCCCCCCC-EE-EE-CCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHH-HHHHHHHH Q ss_conf 31011003232355-2111234567742-13-31-101689999973-68776655577148998269768-99999999 Q gi|254780928|r 323 VVFGSVGGGGRYDG-LVSRFKGQNVPAT-GF-SI-GISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSD-SLSKYQMY 396 (496) Q Consensus 323 ~~~~aI~~GGRYD~-L~~~f~~~~~pav-Gf-ai-gverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~-~~~~~~~i 396 (496) ..-..|+|- .+..=|.+..|-+ .- .+ .+||++.+|.++ ....|.+-+|.+|.|++++ .. ...+|.++ T Consensus 429 -----f~lPeRF~l~Y~~~dg~~~rPVmIHRAilGS~ERfigiLiEh~~G~~P~WLaP~Qv~IipV~--e~~~~~ya~~v 501 (576) T PRK12305 429 -----FLLPEKFNISYINENNEKETPVLIHRGLIGTYERFIAILLEQTKGNLPFWLSPKQVIIIPVN--ENLNTDYAKEL 501 (576) T ss_pred -----ECCHHHCCCEEECCCCCCCCCEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCCCEEEEEECC--CCHHHHHHHHH T ss_conf -----34585579888778887678759873354748999999999707999836273037999538--60359999999 Q ss_pred HHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEE Q ss_conf 99999879839997189999889999998779989999887287488189978788836433112014432023351030 Q gi|254780928|r 397 TQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITI 476 (496) Q Consensus 397 a~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v 476 (496) +..|+++|++|+++.. +.++++.++.|...++||++|||++|+++|+|.||+..+++ +.++ T Consensus 502 ~~~L~~~giRv~vD~~-~e~lg~KIR~a~~~kiPy~lVvGdkE~~~~~VsvR~r~~~~------------------~~~~ 562 (576) T PRK12305 502 NKKLFKLGFRSEIDLR-NERLSKKIREAQISKIKFQIIIGDEEIKNNTITYRKYGSEE------------------TTTV 562 (576) T ss_pred HHHHHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCC------------------CCEE T ss_conf 9999978987999789-99676999997534999899980035545968999778885------------------5546 Q ss_pred CHHHHHHHHHHHH Q ss_conf 7999999999999 Q gi|254780928|r 477 PISELVSTVKKIL 489 (496) Q Consensus 477 ~~~~l~~~~~~~l 489 (496) |++++++.++++. T Consensus 563 ~l~efi~~l~~l~ 575 (576) T PRK12305 563 SIEDFIKMLKNLK 575 (576) T ss_pred EHHHHHHHHHHHC T ss_conf 8999999999730 No 20 >PRK09194 prolyl-tRNA synthetase; Provisional Probab=100.00 E-value=1.6e-32 Score=230.42 Aligned_cols=458 Identities=18% Similarity=0.206 Sum_probs=255.0 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCC Q ss_conf 71037998765886689999999999999999859848016520228875202675543332216898699988999888 Q gi|254780928|r 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYD 86 (496) Q Consensus 7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpD 86 (496) |+-|.-.|.+.|||...++.++|++.+++.+.+.|++||.+|++.+.++ |+.+|.++....+||+|.|+.|+.++|-|- T Consensus 31 ~Ir~~~sGiy~~LPlg~rvl~Kie~IIr~em~~iGa~Ev~mp~l~p~el-W~~sgR~~~~g~el~r~kDR~~~~~~L~PT 109 (570) T PRK09194 31 YIRKLASGIYTYLPLGLRVLRKIENIVREEMNKIGAQEVLMPALQPAEL-WQESGRWEKYGPELLRLKDRHGRDFVLGPT 109 (570) T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHH-HHHCCCHHHCCHHHEEEECCCCCEEEECCC T ss_conf 7341437725542436999999999999999864987985356797789-876188212361346985278985653787 Q ss_pred C---HHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHH---HHHHHHHHHHHHH Q ss_conf 8---3899999995112055411233101333025-87644--421111100012100002457---8899999999975 Q gi|254780928|r 87 L---TAPLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETAD---AEMCMMMADTLEA 157 (496) Q Consensus 87 l---T~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~D---aEii~l~~~~l~~ 157 (496) - -+.++|-... ....+|+++|+|++.||+| ||..| |-|||.--|+-.|-.+...++ -.+......+|++ T Consensus 110 hEE~it~lv~~~i~--SYkqLP~~lYQIqtKfRDE~RPR~GllR~REF~MKDaYSFd~~~e~l~~tY~~~~~AY~~IF~r 187 (570) T PRK09194 110 HEEVITDLVRNEIK--SYKQLPLNLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHADEESLDETYDAMYQAYSRIFTR 187 (570) T ss_pred CHHHHHHHHHHHHC--CHHHCCHHEECCCCEECCCCCCCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHH T ss_conf 38999999998511--3764680200132333477887676234565345124566699899999999999999999998 Q ss_pred CCCCCCCCEEECCCCHHHHHH----HHHHCCCHHHHHHHHHHHHHH--HHHCCCC----CHHHHHHHHHH---CCCCHHH Q ss_conf 188877711303660558999----998325603564334555333--2200128----96789986210---1650035 Q gi|254780928|r 158 VGIKRNDYHIGINNRKILDGI----LEKIGLHGDDKLNERLIVLRA--IDKLDKF----GLQGVKLLLGE---GRTDNSG 224 (496) Q Consensus 158 lgl~~~~~~I~in~~~il~~i----l~~lgi~~~~~~~~~~~~~~~--idkl~k~----~~~~~~~~l~~---~~~~~~~ 224 (496) +||+ |.+--.+.+-+-+- |..+.-..|+..-.+...-.+ +++.... ....-...+.+ .....+. T Consensus 188 lgL~---~~~v~ADsG~iGG~~ShEF~~~s~~GED~i~~C~~c~yaaN~E~A~~~~~~~~~~~~~~~~e~v~TP~~~TIe 264 (570) T PRK09194 188 LGLD---FRAVEADSGAIGGSASHEFMVLAESGEDTIVYSDESDYAANIEKAEALPPPEPRAAPTEELEKVDTPNAKTIE 264 (570) T ss_pred HCCC---EEEEEECCCCCCCCCCEEEEEECCCCCCEEEEECCCCHHHHHHHHHCCCCCCCCCCCCCCCEEECCCCCCHHH T ss_conf 0986---2999914667588665237876378971799968976056487751147766675430003042599962199 Q ss_pred HHHCCCCCCHHHHHH--------------HHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHH----HHHHHCCCCC Q ss_conf 553048999778998--------------8874047856889989986035732588899999999----9987508884 Q gi|254780928|r 225 DFTKGANLTSEQIDI--------------MVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVIS----ELVRKSGYNS 286 (496) Q Consensus 225 ~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~----~~l~~~gv~~ 286 (496) ++...++.+....-+ +.-++..+-+-...++...+.........-+++.... .++...+.+ T Consensus 265 ~l~~~~~v~~~~~iKtl~~~~~~~~~~~~v~v~irGD~evNe~Kl~~~~~~~~l~~a~~eei~~~~g~~~G~iGPv~~~- 343 (570) T PRK09194 265 ELAEFLNVPAEKTVKTLLVKADEEGEGELVAVLVRGDHELNEVKLENLLGAAPLELATEEEIRKLFGAPPGFLGPVNLP- 343 (570) T ss_pred HHHHHHCCCHHHHEEEEEEEEECCCCCCEEEEEECCCCCCCHHHHHHCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCC- T ss_conf 9998749998881356899842178873589982265200489887403753122489999997518987755666788- Q ss_pred CCCCCCHHHCCCCCCC----------CCEEEEEEE----CCCCCCCCCCCCC--------------EEEECC-CCCCCCC Q ss_conf 4300110100122123----------412489985----4666776766631--------------011003-2323552 Q gi|254780928|r 287 NRIKISSTIVRGLEYY----------TGCVYEAIL----GFPVMNEKQKPVV--------------FGSVGG-GGRYDGL 337 (496) Q Consensus 287 ~~i~~Dl~lvRgLdYY----------TG~vFE~~~----~~~~~~~~~~~~~--------------~~aI~~-GGRYD~L 337 (496) ..+.+|.++..+-++- .++.++--. ..+......+..+ +|-|.- |=||-.- T Consensus 344 v~ii~D~~v~~~~n~v~GAN~~d~H~~~vn~~RD~~~~~~~Di~~v~~GD~Cp~c~~~L~~~rgIEVGHiF~LGtkYS~~ 423 (570) T PRK09194 344 IPIIADRSVADMSNFVVGANEDDKHYVGVNWGRDFPVPEVADLRNVVEGDPSPDGGGTLKIARGIEVGHIFQLGTKYSEA 423 (570) T ss_pred CEEEEEHHHHHHCCHHCCCCCCCCEEECCCCCCCCCCCCCCCHHHCCCCCCCCCCCCEEEEEEEEEEEEEECCCCCCCHH T ss_conf 14997034521000100358876454067656567864311255525688898899712774036888763123301462 Q ss_pred CC-CC---CCCCCCCC--EEEECCHHHHHHHHHCCCCCCCCC-----CCCEEEEEEEC-CCHHHHHHHHHHHHHHHHCCC Q ss_conf 11-12---34567742--133110168999997368776655-----57714899826-976899999999999998798 Q gi|254780928|r 338 VS-RF---KGQNVPAT--GFSIGISRLIVALKSLESSTNNIK-----EMGPVLITTMD-HDSDSLSKYQMYTQMLRTAGI 405 (496) Q Consensus 338 ~~-~f---~~~~~pav--Gfaigverl~~~l~~~~~~~~~~~-----~~~~v~V~~~~-~~~~~~~~~~~ia~~Lr~~Gi 405 (496) +. .| .|+..|.+ .++|||+|++.++.++.+...... +|..|.|++++ .+.+....|.++.+.|.++|+ T Consensus 424 m~a~~~d~~Gk~~p~~MGCYGIGVsRllaAiiEq~~De~Gi~WP~~IAPf~V~Ii~~~~~~~~~~~~ae~iy~~L~~~Gi 503 (570) T PRK09194 424 MNATFLDENGKAQPLTMGCYGIGVSRLVAAAIEQNHDERGIIWPKAIAPFDVHIVPVNMKDEEVRELAEKLYAELLAAGI 503 (570) T ss_pred CCCEEECCCCCCCCCEEEEEECCHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHCCC T ss_conf 09879998898976145620024678999999983777754078886884999996799988999999999999997899 Q ss_pred EEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHH Q ss_conf 39997189999889999998779989999887287488189978788836433112014432023351030799999999 Q gi|254780928|r 406 RAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTV 485 (496) Q Consensus 406 ~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~ 485 (496) .|-++. .+.+++..|+.|+-+|+|+.||||++.+++|.|.+|+..+|+- ..||++++++.| T Consensus 504 dVllDD-R~er~G~Kf~DaDLIGiP~~vvvGkk~l~~g~vEvk~R~~~~~------------------~~v~~~el~~~v 564 (570) T PRK09194 504 DVLLDD-RKERPGVKFADAELIGIPHRIVVGKRGLAEGIVEYKNRRTGEK------------------EEVKLDELVEFL 564 (570) T ss_pred EEEEEC-CCCCHHHHHHHHHHCCCCEEEEECCCCCCCCEEEEEEECCCCE------------------EEECHHHHHHHH T ss_conf 899989-9988536667516418997999926740158599999068975------------------886199999999 Q ss_pred HHHHH Q ss_conf 99998 Q gi|254780928|r 486 KKILQ 490 (496) Q Consensus 486 ~~~l~ 490 (496) +++|+ T Consensus 565 ~~ll~ 569 (570) T PRK09194 565 KELLK 569 (570) T ss_pred HHHHC T ss_conf 99855 No 21 >PRK03772 threonyl-tRNA synthetase; Validated Probab=100.00 E-value=2.8e-32 Score=228.75 Aligned_cols=363 Identities=16% Similarity=0.213 Sum_probs=235.7 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHH Q ss_conf 99876588668999999999999999985984801652022887520267554333221689869998899988883899 Q gi|254780928|r 12 PRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPL 91 (496) Q Consensus 12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~ 91 (496) -.|+..|+|..+.+++.+++.+++...++||++|.||.+-..+++ +.+|..+...+.||.+ +..++..+|+|--.+.- T Consensus 260 ~pG~~fwlP~G~~i~~~le~~~r~~~~~~Gy~eV~TP~i~~~~Lw-~~SGH~~~Y~e~Mf~~-~~e~~ey~lKPMNCP~H 337 (642) T PRK03772 260 APGMVFWHNDGWTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLW-EKTGHWDNYADAMFTT-SSENREYAIKPMNCPGH 337 (642) T ss_pred CCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCHHCCHHHH-HHCCHHHHHHCCCCCC-CCCHHHHCCCCCCCHHH T ss_conf 887636658588999999999999999869859855432137788-7344476641034223-42014430467787348 Q ss_pred HHHHHHH-HHHCCCCHHHHHHHHHHCCCCCCC--C--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCCCC Q ss_conf 9999951-120554112331013330258764--4--42111110001210000245-78-8999999999751888777 Q gi|254780928|r 92 ARYVAEN-FDTIVFPCRTYRIGPVFRNEKHGP--G--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKRND 164 (496) Q Consensus 92 aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~~--G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~~~ 164 (496) +-++..+ .+...+|+|++.+|.|||||+++. | |.|.|+|-|+.||...+... |. .++.++.++++.||++ + T Consensus 338 ~~iy~~~~rSYRdLPlR~aEfg~~~R~E~SG~L~GL~RVR~FtqdDaHIFC~~dQi~~Ei~~~l~~~~~vy~~fGf~--~ 415 (642) T PRK03772 338 VQIFNQGLKSYRDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNSCIKMVYDMYSTFGFE--K 415 (642) T ss_pred HHHHHCCCCCHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHCCCC--E T ss_conf 89986166434436545554113431666655347456889987884355378999999999999999999973986--3 Q ss_pred CEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHH Q ss_conf 11303660558999998325603564334555333220012896789986210165003555304899977899888740 Q gi|254780928|r 165 YHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFL 244 (496) Q Consensus 165 ~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 244 (496) +.+.++.+.- ..+|-++. |+.....|.+........+....+.. .|. T Consensus 416 ~~~~LStrpe-----k~~G~~e~--------------------W~~AE~~L~~aL~~~g~~y~~~~Geg--------AFY 462 (642) T PRK03772 416 IVVKLSTRPE-----KRIGSDEM--------------------WDRAEADLAVALEENNIPFEYQPGEG--------AFY 462 (642) T ss_pred EEEEECCCCH-----HCCCCHHH--------------------HHHHHHHHHHHHHHCCCCEEECCCCC--------CCC T ss_conf 8999626822-----02588889--------------------99999999999997399704556763--------444 Q ss_pred CCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCC--CCCCCCEEEEEEECCCCCCCCCCC Q ss_conf 478568899899860357325888999999999987508884430011010012--212341248998546667767666 Q gi|254780928|r 245 SIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRG--LEYYTGCVYEAILGFPVMNEKQKP 322 (496) Q Consensus 245 ~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRg--LdYYTG~vFE~~~~~~~~~~~~~~ 322 (496) +++.- .....++. +.+-+ .-|.+|+.+-.- |.| ++ ..+...+| T Consensus 463 ---GPKID----------~~v~Dalg---------R~wq~--~TiQlDF~lP~RF~l~Y-~~----------~dg~~~~P 507 (642) T PRK03772 463 ---GPKIE----------FTLYDCLD---------RAWQC--GTVQLDFSLPGRLSASY-VG----------EDNERKVP 507 (642) T ss_pred ---CCCCC----------EEEECCCC---------CEEEE--CCCEEECCCHHHCCCEE-EC----------CCCCCCCC T ss_conf ---55302----------59970789---------76880--23243001354428888-87----------89985785 Q ss_pred CCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHH Q ss_conf 310-1100323235521112345677421331101689999973-68776655577148998269768999999999999 Q gi|254780928|r 323 VVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQML 400 (496) Q Consensus 323 ~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~L 400 (496) +.+ +|| .| .+||++.+|.++ ....|.+-+|.+|.|+++ ......+|.++++.| T Consensus 508 VmIHRAi--------------------lG---S~ERfiaiLiEh~~G~~P~WLaP~Qv~VipI--s~~~~~YA~~v~~~L 562 (642) T PRK03772 508 VMIHRAI--------------------LG---SMERFIGILTEEYAGFFPTWLAPVQVVVMNI--TDSQSDYVQEVTKKL 562 (642) T ss_pred EEEEECC--------------------CC---CHHHHHHHHHHHCCCCCCCCCCCCEEEEEEC--CCHHHHHHHHHHHHH T ss_conf 8999246--------------------47---7899999999980799985647604799954--815899999999999 Q ss_pred HHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHH Q ss_conf 98798399971899998899999987799899998872874881899787888364331120144320233510307999 Q gi|254780928|r 401 RTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISE 480 (496) Q Consensus 401 r~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~ 480 (496) +++|++|+++.. +.++++.++.|...++||++|||++|.++|+|.||+...++ +.++|+++ T Consensus 563 ~~~giRv~vD~~-~e~l~~KIR~a~~~kiPy~lVvGdkE~~~~~VsvR~r~~~~------------------~~~~~l~~ 623 (642) T PRK03772 563 QNAGIRVKADLR-NEKIGFKIREHTLRRVPYMLVCGDKEVEAGKVAVRTRRGKD------------------LGSMDVND 623 (642) T ss_pred HHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCC------------------CCEEEHHH T ss_conf 978978999789-98187999998761799899980246525958999778973------------------57167999 Q ss_pred HHHHHHHHHH Q ss_conf 9999999998 Q gi|254780928|r 481 LVSTVKKILQ 490 (496) Q Consensus 481 l~~~~~~~l~ 490 (496) +++.+++-++ T Consensus 624 fi~~l~~ei~ 633 (642) T PRK03772 624 FIEKLQQEIR 633 (642) T ss_pred HHHHHHHHHH T ss_conf 9999999998 No 22 >PRK12444 threonyl-tRNA synthetase; Reviewed Probab=100.00 E-value=2e-32 Score=229.69 Aligned_cols=368 Identities=16% Similarity=0.234 Sum_probs=235.1 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHH Q ss_conf 99876588668999999999999999985984801652022887520267554333221689869998899988883899 Q gi|254780928|r 12 PRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPL 91 (496) Q Consensus 12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~ 91 (496) -.|+..|+|..+.+++.+++.+++...++||++|.||.+-..+++ +.+|..+.....||.. +..++.++|+|--.+.- T Consensus 263 ~pG~~fwlP~G~~i~~~le~~~r~~~~~~GY~eV~TP~i~~~~Lw-~~SGH~~~Y~e~Mf~~-~~d~~~~~lKPMNCP~H 340 (639) T PRK12444 263 APGMPFYLPKGQIIRNELEAFLREIQKEYNYQEVRTPFMMNQELW-ERSGHWGHYKDNMYFS-EVDNKSFALKPMNCPGH 340 (639) T ss_pred CCCCEEEECCHHHHHHHHHHHHHHHHHHCCCEEECCCEEEHHHHH-HHCCHHHHHHHCCCCC-CCCCCEEECCCCCCHHH T ss_conf 897447846786999999999999999839878228666215687-6166043333027554-54540331267685889 Q ss_pred HHHHHHH-HHHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHHH-H-HHHHHHHHHHHHCCCCCCC Q ss_conf 9999951-12055411233101333025876--44--421111100012100002457-8-8999999999751888777 Q gi|254780928|r 92 ARYVAEN-FDTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETAD-A-EMCMMMADTLEAVGIKRND 164 (496) Q Consensus 92 aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~D-a-Eii~l~~~~l~~lgl~~~~ 164 (496) +-++.+. .+...+|+|++.+|.|||||..+ .| |.|+|+|-|+.||...+...+ . .++.++.++++.||+ + T Consensus 341 ~~if~~~~rSYRdLPlR~aEfg~vhR~E~SG~L~GL~RVR~FtqDDAHIFct~dQi~~Ei~~~~~~~~~vy~~fGf---~ 417 (639) T PRK12444 341 MLMFKNKLHSYRELPIRMCEFGQVHRHEFSGALNGLLRVRTFCQDDAHLFVTPEQIEDEIKSVMAQIDYVYKTFGF---E 417 (639) T ss_pred HHHHHCCCCCHHHCCHHHHHCCCEECCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHCCC---E T ss_conf 9998605621443652224336463377876645767788998798246538899999999999999999974797---2 Q ss_pred CEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHH Q ss_conf 11303660558999998325603564334555333220012896789986210165003555304899977899888740 Q gi|254780928|r 165 YHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFL 244 (496) Q Consensus 165 ~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 244 (496) |.+.++.+.= ..+|-... |+.....|.+. ++..++. |. T Consensus 418 ~~~~LStrpe-----k~~G~de~--------------------W~~Ae~~L~~a--------L~~~g~~---------y~ 455 (639) T PRK12444 418 YEVELSTRPE-----DSMGDDKL--------------------WEQAEAALENV--------LQSLNYK---------YR 455 (639) T ss_pred EEEEECCCCC-----CCCCCHHH--------------------HHHHHHHHHHH--------HHHCCCC---------EE T ss_conf 9998167863-----34588899--------------------99999999999--------9974997---------58 Q ss_pred CCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCC Q ss_conf 47856889989986035732588899999999998750888443001101001221234124899854666776766631 Q gi|254780928|r 245 SIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVV 324 (496) Q Consensus 245 ~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~ 324 (496) ...++.++-- ..+. .....++. +.+. ..-|.+|+.+..- |...+. ...+...+|+. T Consensus 456 ~~~GegAFYG--PKiD--~~v~Dalg---------R~wq--~~TIQlDF~lPeR--------F~l~Y~-~~dg~~~rPVm 511 (639) T PRK12444 456 LNEGDGAFYG--PKID--FHIKDALN---------RSHQ--CGTIQLDFQMPEK--------FDLNYI-DEKNEKVRPVV 511 (639) T ss_pred ECCCCCCCCC--CEEE--EEEEECCC---------CEEE--CCEEEEEECCHHH--------CCCEEE-CCCCCCCCCEE T ss_conf 6768636403--2656--89980788---------7245--1234552056633--------587778-78998259889 Q ss_pred EEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHC Q ss_conf 01100323235521112345677421331101689999973-68776655577148998269768999999999999987 Q gi|254780928|r 325 FGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTA 403 (496) Q Consensus 325 ~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~ 403 (496) +.. |+ ++ .+||++.+|.++ ....|.+-+|.+|.|++++. .....+|.+++++|.++ T Consensus 512 IHR--------------------Ai-lG-S~ERFigiLiEh~~G~fP~WLaP~Qv~Iipi~~-~~~~~Ya~~v~~~L~~~ 568 (639) T PRK12444 512 IHR--------------------AV-LG-SLDRFLAILIEHFGGAFPAWVAPVQVKVIPVSN-AVHVQYADEVADKLAQA 568 (639) T ss_pred EEE--------------------CC-CC-CHHHHHHHHHHHCCCCCCCCCCCCEEEEEECCC-CHHHHHHHHHHHHHHHC T ss_conf 995--------------------78-77-789999999997279898565720069995377-02799999999999978 Q ss_pred CCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHH Q ss_conf 98399971899998899999987799899998872874881899787888364331120144320233510307999999 Q gi|254780928|r 404 GIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVS 483 (496) Q Consensus 404 Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~ 483 (496) |++|+++.. +.++++.++.|...++||++|||++|+++|+|.||....++ +.++|++++++ T Consensus 569 giRv~vD~~-~e~l~~KIR~a~~~kiPy~lVVGdkE~e~~~VsvR~r~~~~------------------~~~~~~~~fi~ 629 (639) T PRK12444 569 GVRVERDER-DEKLGYKIREAQMQKIPYVLVIGDKEMENGAVNVRKYGEEK------------------SEVVELDMFVE 629 (639) T ss_pred CCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCC------------------CCEEEHHHHHH T ss_conf 988999899-99775999987433899899984156535958999778873------------------47067999999 Q ss_pred HHHHHHHHH Q ss_conf 999999864 Q gi|254780928|r 484 TVKKILQEN 492 (496) Q Consensus 484 ~~~~~l~~~ 492 (496) .+++-+... T Consensus 630 ~l~~ei~~r 638 (639) T PRK12444 630 SIKEEIKNR 638 (639) T ss_pred HHHHHHHHC T ss_conf 999999745 No 23 >TIGR00418 thrS threonyl-tRNA synthetase; InterPro: IPR002320 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Threonyl-tRNA synthetase (6.1.1.3 from EC) exists as a monomer and belongs to class IIa. The enzyme from Escherichia coli represses the translation of its own mRNA. The crystal structure of the complex between tRNA(Thr) and ThrRS show structural features that reveal novel strategies for providing specificity in tRNA selection. These include an amino-terminal domain containing a novel protein fold that makes minor groove contacts with the tRNA acceptor stem. The enzyme induces a large deformation of the anticodon loop, resulting in an interaction between two adjacent anticodon bases, which accounts for their prominent role in tRNA identity and translational regulation. A zinc ion found in the active site is implicated in amino acid recognition/discrimination . The zinc ion may act to ensure that only amino acids that possess a hydroxyl group attached to the beta-position are activated .; GO: 0004829 threonine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006435 threonyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=100.00 E-value=2.3e-33 Score=235.83 Aligned_cols=370 Identities=17% Similarity=0.232 Sum_probs=243.8 Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCC Q ss_conf 10379987658866899999999999999998598480165202288752026755433322168986999889998888 Q gi|254780928|r 8 RAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDL 87 (496) Q Consensus 8 ~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDl 87 (496) .+..=.|+--|+|.+..+|+.|++-++.....+||.+|.||.+-..+++ ..+|..++....||.+..-+.+.++|||=- T Consensus 197 ~~~~gpG~~~WlPkG~~ir~~ledf~~~~~~~~Gy~~V~TP~m~~~~l~-~~sGH~~~Y~e~Mf~~~~~~~~~~~LkPMn 275 (595) T TIGR00418 197 EPEIGPGLPFWLPKGALIRNLLEDFVREKQIKRGYEEVETPIMYDSELW-EISGHWDHYKERMFPFTEEDNQEFMLKPMN 275 (595) T ss_pred CCCCCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCCCCCCCEECCCCCH-HHHHHHHHCCCCCCCCEEECCCCCCCCCCC T ss_conf 8320487414657646789999999999998758864157412156542-453054503423540101035303345677 Q ss_pred HHHHHHHHHHH-HHHCCCCHHHHHHH-HHHCCCCCCC--C--CCCCCCCCCHHHHHC-CCHH-HHH-HHHHHHHHHHHHC Q ss_conf 38999999951-12055411233101-3330258764--4--421111100012100-0024-578-8999999999751 Q gi|254780928|r 88 TAPLARYVAEN-FDTIVFPCRTYRIG-PVFRNEKHGP--G--RFRQFIQCDVDNVGS-SAET-ADA-EMCMMMADTLEAV 158 (496) Q Consensus 88 T~~~aR~~~~~-~~~~~~p~k~yy~g-~vfR~e~p~~--G--r~REf~Q~g~eiiG~-~~~~-~Da-Eii~l~~~~l~~l 158 (496) .+.=+.++-+. .....+|+|+|.+| .|||||..|. | |.|.|+|-|++||.. .+.+ .|. +++.++.++++.| T Consensus 276 CpgH~~i~k~~~~SYR~LP~R~aE~g~~~hR~E~sG~L~GL~RvR~FT~dDaHifc~d~dQi~~E~~~~~~l~~~v~~~f 355 (595) T TIGR00418 276 CPGHILIFKSSLRSYRDLPLRIAELGTTVHRYEKSGALHGLKRVRGFTQDDAHIFCTDEDQIKSEIKNQFRLIQKVYSKF 355 (595) T ss_pred CHHHHHHHCCCCCCHHHCCCHHHHCCCEEEEEECCCCCCHHHHHHHCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 54453300177777323350343318604788425421010164430699852453786779999999999999998872 Q ss_pred CCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHH Q ss_conf 88877711303660558999998325603564334555333220012896789986210165003555304899977899 Q gi|254780928|r 159 GIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQID 238 (496) Q Consensus 159 gl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 238 (496) |++ ++.+.|+-|. |+++.. .+|. --.|+.-...|.+...+.-.++....+...-..+ T Consensus 356 gf~--~~~~~LS~R~-----------Pe~~~K--------y~g~--d~~W~~~~~~l~~~l~~~~~~yei~~G~~AFYGP 412 (595) T TIGR00418 356 GFS--NYKYELSTRD-----------PENDKK--------YIGE--DELWEKAESALEEALKELGVDYEIDEGEGAFYGP 412 (595) T ss_pred CCC--CCEEEEEECC-----------CCCCCC--------CCCC--HHHHHHHHHHHHHHHHCCCCCEEEECCCCEEECC T ss_conf 884--2168998717-----------775455--------4588--7899999999999985079840550788113022 Q ss_pred HHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCC Q ss_conf 88874047856889989986035732588899999999998750888443001101001221234124899854666776 Q gi|254780928|r 239 IMVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNE 318 (496) Q Consensus 239 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~ 318 (496) ++ .....++|+.- . ...-|.+|..+. T Consensus 413 Ki---------------------Df~~~DaL~R~---------~--q~~TvQlDf~lP---------------------- 438 (595) T TIGR00418 413 KI---------------------DFQIKDALGRE---------W--QCATVQLDFELP---------------------- 438 (595) T ss_pred EE---------------------EEEEEECCCCH---------H--HCCCEEEECCCC---------------------- T ss_conf 26---------------------88875101764---------2--588148871588---------------------- Q ss_pred CCCCCCEEEECCCCCCC-CCCCCC--CCCCCCC---CEEEECCHHHHHHHHHCC-CCC-----CCCCCCCEEEEEEECCC Q ss_conf 76663101100323235-521112--3456774---213311016899999736-877-----66555771489982697 Q gi|254780928|r 319 KQKPVVFGSVGGGGRYD-GLVSRF--KGQNVPA---TGFSIGISRLIVALKSLE-SST-----NNIKEMGPVLITTMDHD 386 (496) Q Consensus 319 ~~~~~~~~aI~~GGRYD-~L~~~f--~~~~~pa---vGfaigverl~~~l~~~~-~~~-----~~~~~~~~v~V~~~~~~ 386 (496) .||| .-+..- +....|- +|..=.+||++.+|.+.- ... --+.|-.|+.|.+++.+ T Consensus 439 -------------eRF~l~Y~~~dqd~~~~~Pv~IHra~~GS~ERfi~iL~E~~~G~fde~~PMLP~WLaP~QV~viPV~ 505 (595) T TIGR00418 439 -------------ERFDLTYINEDQDNKEKRPVMIHRAILGSIERFIAILLEKYAGAFDERLPMLPLWLAPVQVVVIPVS 505 (595) T ss_pred -------------CCCCCEEEEECCCCCCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHCCCCCCCEECCCEEEEEEECC T ss_conf -------------7203148420367870067789804400589999999987522211468988542176238997057 Q ss_pred -HHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHC--CCEEEEECC---CCCEEEEEC Q ss_conf -68999999999999987983999718999988999999877998999988728748--818997878---883643311 Q gi|254780928|r 387 -SDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSR--GMLQIKDLA---KGKELSREI 460 (496) Q Consensus 387 -~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~--~~v~vK~l~---~g~q~~~~~ 460 (496) .....+|.+|+++|.++||+|++|...+ +|++.++.|....|||++|||++|+++ ++|+||+.. .++ T Consensus 506 i~~h~~yA~kv~~~L~~~giRv~~D~r~e-~lgkKIR~a~~~kiPy~~V~Gd~E~e~~K~~v~vR~~~t~k~~~------ 578 (595) T TIGR00418 506 IEKHLDYAKKVAEKLKKEGIRVDVDDRNE-RLGKKIREAQKQKIPYMLVVGDKEMEELKEAVNVRTRKTLKGQK------ 578 (595) T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCC-CHHHHHHHHHCCCCCEEEEECCHHHHCCCCEEEECCHHHHCCCC------ T ss_conf 78899999999999985797798838888-01332022013220679998730231389668522402104631------ Q ss_pred CCHHHHHHCCCCCEEECHHHHHHHHHH Q ss_conf 201443202335103079999999999 Q gi|254780928|r 461 KNNESWREARVAQITIPISELVSTVKK 487 (496) Q Consensus 461 ~~~~~~~~~~~~q~~v~~~~l~~~~~~ 487 (496) ..+++.+|+++.|++ T Consensus 579 ------------~~~m~~~E~~~~~~~ 593 (595) T TIGR00418 579 ------------LEKMSLDEFLEKVRK 593 (595) T ss_pred ------------EEEECHHHHHHHHHH T ss_conf ------------014309999999973 No 24 >PRK03991 threonyl-tRNA synthetase; Validated Probab=99.97 E-value=2.9e-27 Score=196.19 Aligned_cols=362 Identities=17% Similarity=0.249 Sum_probs=220.0 Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCH Q ss_conf 03799876588668999999999999999985984801652022887520267554333221689869998899988883 Q gi|254780928|r 9 AELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLT 88 (496) Q Consensus 9 ~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT 88 (496) +.-..|.--|+|....+++-+++-+++....+||.+|.||.+=..+ ++..++..+.....||.+ +-+++.++|||-.. T Consensus 213 p~Sd~G~~rw~PkG~~i~~lle~Yv~~~~~~~G~~eV~TP~m~d~~-~~~~sgH~~~f~e~my~~-~~d~~~~~LrpmnC 290 (613) T PRK03991 213 PGSDVGHMRYYPKGRLMKDLLEDYVYNLVKELGAMPVETPNMYDLS-HPAIREHADKFGERQYRV-KSDKKDLMLRFAAC 290 (613) T ss_pred CCCCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCEEECC-CCHHHHHHHHHCCCCEEE-ECCCHHHCCCCCCC T ss_conf 4787775123554789999999999999986396684576164055-402556887611134256-32763323044578 Q ss_pred HHHHHHHHH-HHHHCCCCHHHHHHHHH-HCCCCCC--CC--CCCCCCCCCHHHHHCC-CHHHH--HHHHHHHHHHHHHCC Q ss_conf 899999995-11205541123310133-3025876--44--4211111000121000-02457--889999999997518 Q gi|254780928|r 89 APLARYVAE-NFDTIVFPCRTYRIGPV-FRNEKHG--PG--RFRQFIQCDVDNVGSS-AETAD--AEMCMMMADTLEAVG 159 (496) Q Consensus 89 ~~~aR~~~~-~~~~~~~p~k~yy~g~v-fR~e~p~--~G--r~REf~Q~g~eiiG~~-~~~~D--aEii~l~~~~l~~lg 159 (496) ..-..++-. ......+|+|+|.+|++ ||||+++ .| |.|.|+|-|+.||..+ +...| ..++.++.+++..|| T Consensus 291 pgh~~i~~~~~~SYRdLPlRl~E~g~~syR~E~SG~L~GL~RVR~FTqdDaHIFC~~~dQi~~E~~~~~~li~~v~~~fG 370 (613) T PRK03991 291 FGQFAMLKDMTISYKNLPLKMYELSDYSFRLEQRGELVGLKRLRAFTMPDMHTLCKDMDEAMEEFEKQHKLILETGRDLG 370 (613) T ss_pred CCCEEEECCCCCCHHHCCHHHHHHCCCEEECCCCCCEECEEEEECCCCCCCEECCCCHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 63123510244574326467765224202125677444401332356686113168778999999999999999998639 Q ss_pred CCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHH Q ss_conf 88777113036605589999983256035643345553332200128967899862101650035553048999778998 Q gi|254780928|r 160 IKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDI 239 (496) Q Consensus 160 l~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 239 (496) +. +.+.++.. +.+++.. + +.+...+.+...+...+..... T Consensus 371 ~~---y~~~~r~t---~e~w~~a----e---------------------~~l~~~~~~~g~~~~~e~~~g~--------- 410 (613) T PRK03991 371 RD---YEVAFRFT---EDFYEEN----K---------------------DWIVELAKREGKPVLVEILPER--------- 410 (613) T ss_pred CC---EEEEECCC---HHHHHHH----H---------------------HHHHHHHHHCCCCCEEEECCCC--------- T ss_conf 76---37997078---8888899----9---------------------9999999972997147665876--------- Q ss_pred HHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCC--CCCCCCCEEEEEEECCCCCC Q ss_conf 8874047856889989986035732588899999999998750888443001101001--22123412489985466677 Q gi|254780928|r 240 MVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVR--GLEYYTGCVYEAILGFPVMN 317 (496) Q Consensus 240 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvR--gLdYYTG~vFE~~~~~~~~~ 317 (496) ..|..... ......++. +.+. ..-|.+|+.+.. |+.| +| ..+ T Consensus 411 -~~fyGPKI-------------Df~v~DalG---------R~wq--~~TiQlDf~lp~RF~l~Y-v~----------edg 454 (613) T PRK03991 411 -KHYWVLKV-------------EFAIIDSLG---------RPIE--NPTVQIDVENAERFGIKY-VD----------ENG 454 (613) T ss_pred -CCEECCCE-------------EEEEEECCC---------CCEE--EEEEEEECCCHHHCCCEE-EC----------CCC T ss_conf -31431416-------------899984689---------7245--015898327832268789-98----------999 Q ss_pred CCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCC-------CCCCCCCCEEEEEEECCCHHHH Q ss_conf 676663101100323235521112345677421331101689999973687-------7665557714899826976899 Q gi|254780928|r 318 EKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESS-------TNNIKEMGPVLITTMDHDSDSL 390 (496) Q Consensus 318 ~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~-------~~~~~~~~~v~V~~~~~~~~~~ 390 (496) ...+++.+. ....-.+||++.+|.+.... +..+.|..|+.|.+++...... T Consensus 455 ~~~~PvmiH----------------------rAi~GS~ERfi~~LiE~~ag~~~~Gk~p~~P~WLaP~Qv~iiPVs~~~~ 512 (613) T PRK03991 455 KEKYPVILH----------------------CSPTGSIERVIYALLEKAAKEEKEGKVPMLPTWLSPVQVRVIPVSEEHL 512 (613) T ss_pred CCCCCEEEE----------------------CCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEEEECHHHH T ss_conf 895885897----------------------2665639999999999850101247878888787860379997073689 Q ss_pred HHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCC Q ss_conf 99999999999879839997189999889999998779989999887287488189978788836433112014432023 Q gi|254780928|r 391 SKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREAR 470 (496) Q Consensus 391 ~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~ 470 (496) .+|.+++.+|+++||+|+++.. +.++++.++.|....+||++|||++|.++|+|.||...+|++. T Consensus 513 ~ya~~v~~~L~~~giRv~vD~r-~e~lgkKIR~A~~~kiPyi~VvGdkE~e~gtvsVR~R~~~~~~-------------- 577 (613) T PRK03991 513 DYAEEVADKLEAAGIRVDVDDR-DESLGKKIRDAGKEWVPYVVVIGDKEMESGKLTVTVREESEKE-------------- 577 (613) T ss_pred HHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEEEHHHHHCCEEEEEECCCCCCC-------------- T ss_conf 9999999999977988998778-8856189998754358889999313542493799987788616-------------- Q ss_pred CCCEEECHHHHHHHHHHHH Q ss_conf 3510307999999999999 Q gi|254780928|r 471 VAQITIPISELVSTVKKIL 489 (496) Q Consensus 471 ~~q~~v~~~~l~~~~~~~l 489 (496) .++++++++.|++=. T Consensus 578 ----~msleeli~~i~~ev 592 (613) T PRK03991 578 ----EMTLEELIERIKEET 592 (613) T ss_pred ----CCCHHHHHHHHHHHH T ss_conf ----122999999999997 No 25 >pfam00587 tRNA-synt_2b tRNA synthetase class II core domain (G, H, P, S and T). Other tRNA synthetase sub-families are too dissimilar to be included. This domain is the core catalytic domain of tRNA synthetases and includes glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. Probab=99.96 E-value=8.9e-30 Score=212.53 Aligned_cols=155 Identities=28% Similarity=0.511 Sum_probs=136.2 Q ss_pred HHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHH-HCC Q ss_conf 9999999999999985984801652022887520267554333221689869998899988883899999995112-055 Q gi|254780928|r 25 IRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFD-TIV 103 (496) Q Consensus 25 ~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~-~~~ 103 (496) ++++|++.+++++.++||++|.||+|++.+++.+++ ..+...++||+|.|++|+.++|||+.|+|++|+++.+.. ... T Consensus 1 l~~~l~~~~~~~~~~~G~~~i~tP~l~~~~~~~~sg-~~~~~~~~my~~~d~~~~~l~Lrp~~~~~~~~~~~~~~~~~~~ 79 (170) T pfam00587 1 LRNALENFIRDLFKRYGYQEVDTPILEPKELWEGSG-HWDDYFDEMYRFKDRGGEELYLRPTAEVGITRLFKNEILSYRD 79 (170) T ss_pred CHHHHHHHHHHHHHHCCCEEEECCEEEEHHHHHHCC-CCCCCHHHEEEEECCCCCEEEEECCCCHHHHHHHHHHCCCCCC T ss_conf 979999999999998599899999175678983447-7655753125673589976887325745888998862003235 Q ss_pred CCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCC--CHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHH Q ss_conf 411233101333025-87644--4211111000121000--024578899999999975188877711303660558999 Q gi|254780928|r 104 FPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSS--AETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGI 178 (496) Q Consensus 104 ~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~--~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il~~i 178 (496) +|+|+||+|+|||+| +|++| |+|||+|+++++||.+ +..+++|++.++.++|+.||| +|.+.++|++.+.+. T Consensus 80 lP~r~~~~~~~fR~E~~~~~Gl~R~reF~q~d~~~~~~~e~s~~~~~e~~~~~~~~~~~lgl---~~~i~~~~~g~l~~~ 156 (170) T pfam00587 80 LPLKLYQIGPCFRYEARPRRGLGRVREFTQVDAEIFGTPEQSEEEDEELLKLAEEILQDLGL---PYRVVLNTRGDLGGY 156 (170) T ss_pred CCCEEECCCCCCCCCCCCCCCCCEEEEEEEECEEEEECCCHHHHHHHHHHHHHHHHHHHCCC---CEEEEECCCCCCCCH T ss_conf 86013306530067777666774367889804799967004299999999999999998799---679997267778986 Q ss_pred HHHHC Q ss_conf 99832 Q gi|254780928|r 179 LEKIG 183 (496) Q Consensus 179 l~~lg 183 (496) ....+ T Consensus 157 ~~~~~ 161 (170) T pfam00587 157 ASKTG 161 (170) T ss_pred HHHCC T ss_conf 78607 No 26 >COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis] Probab=99.95 E-value=6.1e-26 Score=187.62 Aligned_cols=368 Identities=19% Similarity=0.275 Sum_probs=236.1 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHH Q ss_conf 37998765886689999999999999999859848016520228875202675543332216898699988999888838 Q gi|254780928|r 10 ELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTA 89 (496) Q Consensus 10 ~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~ 89 (496) ....|+.-|+|..+.+++.+++-++.....+||++|.||.+-..++. ..+|..++....||.+.. .++.++|||--.+ T Consensus 207 ~~~~G~~~~~pkG~~ir~~le~y~~~~~~~~Gy~~V~TP~~~~~~l~-~~SGH~~~y~e~mf~~~~-~~~~~~lKpmNCp 284 (589) T COG0441 207 EEGPGLPFWHPKGATIRNLLEDYVRTKLRSYGYQEVKTPVLADLELW-ELSGHWDNYKEDMFLTES-DDREYALKPMNCP 284 (589) T ss_pred CCCCCCEEECCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEEECCCC-HHCCCHHHCCCCCEEECC-CCHHHEEEECCCH T ss_conf 45885069878846699999999998987558527128736300001-011204551366066213-7723306410787 Q ss_pred HHHHHHHHHHH-HCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCC Q ss_conf 99999995112-055411233101333025876--44--42111110001210000245-78-89999999997518887 Q gi|254780928|r 90 PLARYVAENFD-TIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKR 162 (496) Q Consensus 90 ~~aR~~~~~~~-~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~ 162 (496) .-+.++.+... ...+|+|++.+|.|||+|.++ .| |.|.|+|-+..||...+... ++ +++.++.++++.||++ T Consensus 285 gh~~ifk~~~~SYR~LP~r~~E~g~v~R~E~SGal~GL~RvR~ftqdD~Hifc~~dQi~~E~~~~~~~i~~v~~~fg~~- 363 (589) T COG0441 285 GHILIFKSGLRSYRELPLRLAEFGYVYRYEKSGALHGLMRVRGFTQDDAHIFCTPDQIKDEFKGILELILEVYKDFGFT- 363 (589) T ss_pred HHHHHHHCCCCCEECCCHHHHHCCEEECCCCCCHHHCCCCCCCEEECCCCEECCHHHHHHHHHHHHHHHHHHHHHCCCC- T ss_conf 6899985378611004404331442211567642222400113224562014046788999999999999999846975- Q ss_pred CCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHH Q ss_conf 77113036605589999983256035643345553332200128967899862101650035553048999778998887 Q gi|254780928|r 163 NDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVS 242 (496) Q Consensus 163 ~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 242 (496) +|.+.++-+. ...|....+... . +.++..+...... +....+ -.. T Consensus 364 -~y~~~ls~r~------k~ig~d~~W~~a--~--------------~~l~~al~~~~~~----~~~~~G--------~ga 408 (589) T COG0441 364 -DYEVKLSTRP------KFIGSDEMWDKA--E--------------AALREALKEIGVE----YVEEPG--------EGA 408 (589) T ss_pred -EEEEEEECCC------CCCCCHHHHHHH--H--------------HHHHHHHHHHCCE----EEECCC--------CEE T ss_conf -3799996477------646873556778--8--------------9999888760860----364687--------357 Q ss_pred HHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCC Q ss_conf 40478568899899860357325888999999999987508884430011010012212341248998546667767666 Q gi|254780928|r 243 FLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKP 322 (496) Q Consensus 243 ~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~ 322 (496) |.....+-. ...++.. .. ...-|.+|..+.. .|.+.+.. ..+...++ T Consensus 409 FyGPKid~~-------------v~Dalgr---------~~--q~~TIQlDf~lpe--------RF~l~Yv~-~d~~~~~P 455 (589) T COG0441 409 FYGPKIDFQ-------------VKDALGR---------EW--QLGTIQLDFNLPE--------RFDLEYVD-EDGEKKRP 455 (589) T ss_pred EECCCCCEE-------------EEECCCC---------CE--ECCEEEEECCCHH--------HCEEEEEC-CCCCCCCC T ss_conf 977664248-------------8735686---------10--0561787037724--------21479985-77875387 Q ss_pred CCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHH-CCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHH Q ss_conf 310-110032323552111234567742133110168999997-368776655577148998269768999999999999 Q gi|254780928|r 323 VVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKS-LESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQML 400 (496) Q Consensus 323 ~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~-~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~L 400 (496) +.+ + |+ .-.+||.+.+|.+ .....+. +..|+.|++++.+.+....|.+++++| T Consensus 456 vmiHr---------------------ai--~GSiERfi~iLiE~~~G~~P~--WLaPvQv~VipV~~~~~~ya~~v~~~L 510 (589) T COG0441 456 VIIHR---------------------AI--LGSIERFIGILLEHYAGALPT--WLAPVQVRVIPVADEHLDYAKEVAEKL 510 (589) T ss_pred EEEEE---------------------CC--CHHHHHHHHHHHHHCCCCCCC--CCCCCEEEEEEECHHHHHHHHHHHHHH T ss_conf 89992---------------------46--414899999999864698876--578517999993737778999999999 Q ss_pred HHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHH Q ss_conf 98798399971899998899999987799899998872874881899787888364331120144320233510307999 Q gi|254780928|r 401 RTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISE 480 (496) Q Consensus 401 r~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~ 480 (496) +++||+|+++.. +-++++.++-|....+||++++|++|+++++|.+|...++++ .++++++ T Consensus 511 ~~~giRvdvD~~-~e~l~kKIR~a~~~kipyiiVvG~kE~e~~~v~vR~r~~~~~------------------~~~~l~e 571 (589) T COG0441 511 RKAGIRVDIDDR-NEKLGKKIREAGTQKIPYVIVVGDKEVETGTVVVRRRGGKQQ------------------KSMTLEE 571 (589) T ss_pred HHCCCEEEECCC-CCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCC------------------CCCCHHH T ss_conf 972970241256-660689999877628787999731432038717997267755------------------6346999 Q ss_pred HHHHHHHHHHHH Q ss_conf 999999999864 Q gi|254780928|r 481 LVSTVKKILQEN 492 (496) Q Consensus 481 l~~~~~~~l~~~ 492 (496) +++.+++-.++. T Consensus 572 ~i~~ik~e~~~~ 583 (589) T COG0441 572 LVEELKKEIEGR 583 (589) T ss_pred HHHHHHHHHHCC T ss_conf 999999876445 No 27 >TIGR00409 proS_fam_II prolyl-tRNA synthetase; InterPro: IPR004500 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Prolyl-tRNA synthetase (6.1.1.15 from EC) exists in two forms, which are loosely related. The first form, is present in the majority of eubacteria species. The second one, present in some eubacteria, is essentially present in archaea and eukaryota. Prolyl-tRNA synthetase belongs to class IIa. This family includes the enzyme from Escherichia coli that contains all three of the conserved consensus motifs characteristic of class II aminoacyl-tRNA synthetases and the enzyme from the spirochete Borrelia burgdorferi.; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=99.94 E-value=4.3e-25 Score=182.09 Aligned_cols=438 Identities=19% Similarity=0.245 Sum_probs=248.1 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC-CEEEECCCHHHHHHHHCCCCCCCCCCC---CEEEEECCCCCEEE Q ss_conf 71037998765886689999999999999999859-848016520228875202675543332---21689869998899 Q gi|254780928|r 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYG-FDPIETPLLEYSDSLGKFLPDEDRPNK---GVFSLQDDDGQWIS 82 (496) Q Consensus 7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G-~~~I~tP~lE~~~~~~~~~~~~~~~~k---~~y~f~D~~g~~l~ 82 (496) |+-+.-.|.+-|||...++.++|.+.+++.+.++| +.|+.+|.|....-||..+|.++...+ +|++|.|+.|+.+| T Consensus 32 fIR~~~SGlY~~LPL~~rVL~Kv~~ivreeM~~~GGA~E~~lp~~~~la~LW~~SGRW~~YG~seGELl~lkDR~~r~f~ 111 (620) T TIGR00409 32 FIRRLGSGLYNWLPLGLRVLKKVENIVREEMNKDGGAIEVLLPALQPLAELWQESGRWDTYGPSEGELLRLKDRKGREFV 111 (620) T ss_pred EEEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCCC T ss_conf 47724341445657899999988999998622678533466766778999875407532468654336676526888735 Q ss_pred ECC----CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHHH---HHHHHH Q ss_conf 988----883899999995112055411233101333025-87644--42111110001210000245788---999999 Q gi|254780928|r 83 LRY----DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADAE---MCMMMA 152 (496) Q Consensus 83 LRp----DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~DaE---ii~l~~ 152 (496) |-| ++|.=+.+++.+.. .+|+-+|||.+-||+| ||..| |-|||.-=|+=.|-++....+++ +=.... T Consensus 112 LgpT~EEvIT~l~~~~i~SYK---qLP~~lYQI~tKFRDEiRPRFGl~RgREFiMKDAYSFH~~~ESL~~ty~~m~~aY~ 188 (620) T TIGR00409 112 LGPTHEEVITDLVRNEIKSYK---QLPLNLYQIQTKFRDEIRPRFGLLRGREFIMKDAYSFHSDEESLDATYQKMDQAYS 188 (620) T ss_pred CCCCCHHHHHHHHHHHHHHHH---HCCCCEECCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCHHHHHHHHHHHHHHHH T ss_conf 678665568999999875453---06830100451214420488760001232302425544787679999889999999 Q ss_pred HHHHHCCCCCCCCE-EECCCCH-HHHH-------HHHHHCCCHHHHHHHHH------H-----------------HHHHH Q ss_conf 99975188877711-3036605-5899-------99983256035643345------5-----------------53332 Q gi|254780928|r 153 DTLEAVGIKRNDYH-IGINNRK-ILDG-------ILEKIGLHGDDKLNERL------I-----------------VLRAI 200 (496) Q Consensus 153 ~~l~~lgl~~~~~~-I~in~~~-il~~-------il~~lgi~~~~~~~~~~------~-----------------~~~~i 200 (496) +||++|||. |. |-.-+.| -+-| +|..+| |+..-.+. + ..... T Consensus 189 ~IF~rlGld---FR~iV~ADSGdaIGG~~S~EF~vL~~~G---EDti~~~~h~~dyaAlNiE~A~~~~~~~P~~~~~~~~ 262 (620) T TIGR00409 189 NIFSRLGLD---FRPIVQADSGDAIGGSASHEFMVLAESG---EDTIVYSDHESDYAALNIELAEALKPGEPRNAPTAEL 262 (620) T ss_pred HHHHHCCCC---CCEEEEECCCCCCCCCCCHHHHHHHHCC---CCEEEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHCC T ss_conf 999865898---2106871578757888625678866458---9617886257651232367776425788750113314 Q ss_pred HHCCCC--------------CHH-HHHHHHHHCCCCHHHHHH---------------CCCCCCHHHHH--HHHHHHCCCC Q ss_conf 200128--------------967-899862101650035553---------------04899977899--8887404785 Q gi|254780928|r 201 DKLDKF--------------GLQ-GVKLLLGEGRTDNSGDFT---------------KGANLTSEQID--IMVSFLSIDL 248 (496) Q Consensus 201 dkl~k~--------------~~~-~~~~~l~~~~~~~~~~~~---------------~~~~~~~~~~~--~~~~~~~~~~ 248 (496) ++..+. +.+ .++.++.+.......... +..+.....++ ...+.+.... T Consensus 263 ~~~~tPN~~ti~~~~~~f~~~~~~~~K~ll~ka~~~~~K~~~v~l~vRGD~ielnevK~~n~l~klaPhy~~~~~le~~~ 342 (620) T TIGR00409 263 KKVDTPNTKTIAELVEFFNLPAEKVVKTLLVKAVDKSGKEPLVALLVRGDDIELNEVKAKNLLNKLAPHYLVAQVLELAT 342 (620) T ss_pred CCCCCCCCHHHHHHHHHHCCCHHHHHCEEEEEEEECCCCEEEEEEEEECCCCCHHHHCCCCCCCHHCCCHHHCCEEECCC T ss_conf 45477441118999998678876831031466651378606888897367013221113466202134101034011147 Q ss_pred -HHHHHH-HHHHHC--C--CH--------HHHHHHHHHHHHHHHHHHCCCCCCCCCCCH------H-HCCCCCC-CCCEE Q ss_conf -688998-998603--5--73--------258889999999999875088844300110------1-0012212-34124 Q gi|254780928|r 249 -EKSMHE-LYELVK--G--TI--------AGEKGFNELVVISELVRKSGYNSNRIKISS------T-IVRGLEY-YTGCV 306 (496) Q Consensus 249 -~~~~~~-l~~~~~--~--~~--------~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl------~-lvRgLdY-YTG~v 306 (496) ...+.. ...... . .. ..+.....+..+.+.++. |.|+. . ++.-.++ |+++= T Consensus 343 ~~~~~~~~~~~~~~~~g~~~~~~sddyiatnkqv~~~~~~~~khvd~-------iif~~~~~~~f~~~A~~~~~h~~~vn 415 (620) T TIGR00409 343 GEEEIEQKIASKPDLLGPVKINGSDDYIATNKQVFIDIPVLIKHVDQ-------IIFTVALMSDFAAGANADDKHYKNVN 415 (620) T ss_pred CHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHCCCCCEECCCCCCCEEECC T ss_conf 14799998864067555656665310233101344203566644646-------62126352685010345456503026 Q ss_pred E-------EEE--ECCCCCCCCCCCCCEEE-----------ECC-CCCCCC-CCCCCC---CCCC-CC-C-EEEECCHHH Q ss_conf 8-------998--54666776766631011-----------003-232355-211123---4567-74-2-133110168 Q gi|254780928|r 307 Y-------EAI--LGFPVMNEKQKPVVFGS-----------VGG-GGRYDG-LVSRFK---GQNV-PA-T-GFSIGISRL 358 (496) Q Consensus 307 F-------E~~--~~~~~~~~~~~~~~~~a-----------I~~-GGRYD~-L~~~f~---~~~~-pa-v-Gfaigverl 358 (496) . |++ +.....+...-|.+.|+ |.- |-+|-. |-..|- |++- |= . ..+|||.|+ T Consensus 416 ~~~~~~~~~~~~D~r~~~eGDrP~Pdg~G~L~~~~gIEVGHIF~LG~kYS~al~A~f~de~Gk~~t~~~MGCYGIGVSRl 495 (620) T TIGR00409 416 WDRDVAIPEVVADIRKVKEGDRPSPDGKGTLKIAKGIEVGHIFKLGTKYSKALKATFLDENGKEQTFLTMGCYGIGVSRL 495 (620) T ss_pred CCCCCCHHHHHHHHHHEEECCCCCCCCCCEEEECCCCEEEEEECCCHHHHHHHCCEEECCCCCCCCEEECCCCCCHHHHH T ss_conf 31002113222001000247778843874056405623411330220333330655646688502525605557138999 Q ss_pred HHHHHHCCCCCCCCCC-----CCEEEEEEECCCH--HHHHHHHHHHHHHH-----HCCCEEEEEECCCCCHHHHHHH--H Q ss_conf 9999973687766555-----7714899826976--89999999999999-----8798399971899998899999--9 Q gi|254780928|r 359 IVALKSLESSTNNIKE-----MGPVLITTMDHDS--DSLSKYQMYTQMLR-----TAGIRAEMFLGSSKNFGNQLKY--A 424 (496) Q Consensus 359 ~~~l~~~~~~~~~~~~-----~~~v~V~~~~~~~--~~~~~~~~ia~~Lr-----~~Gi~~e~~~~~~~sl~~~~~~--A 424 (496) +.|+.++..-.....| |-.|.|++.+... ....-|.++.+.|+ ++|+.+-+|.. +..++-.++. . T Consensus 496 ~~Ai~Eq~~D~~G~~WP~~~APy~V~Iv~~N~~~se~~~~~A~~~Y~~L~ndPtm~~g~dvllDDR-~ER~Gv~f~Dkl~ 574 (620) T TIGR00409 496 VSAIAEQHYDERGIIWPKAIAPYDVVIVVMNMKDSEEQKQLAEEVYSELLNDPTMAQGVDVLLDDR-NERAGVKFRDKLS 574 (620) T ss_pred HHHHHHHCCCCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HCCCCCCHHHHHH T ss_conf 999998505878636764538814899617898427899999999998502711365335664101-0235551566777 Q ss_pred HHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECC Q ss_conf 8779989999887287488189978788836433112 Q gi|254780928|r 425 DRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIK 461 (496) Q Consensus 425 ~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~ 461 (496) +-+|+|+.||||++.++++.+.+|..++||...+... T Consensus 575 eLIG~P~~v~~G~~~l~~~~~Ev~~R~~gEk~~i~~~ 611 (620) T TIGR00409 575 ELIGIPLRVVVGKKNLDNGEIEVKKRRNGEKQLIKKD 611 (620) T ss_pred HHCCCCEEEEECCCCCCCCCEEEEECCCCCHHHHHHH T ss_conf 7559871999756216775168986155104577789 No 28 >TIGR00389 glyS_dimeric glycyl-tRNA synthetase; InterPro: IPR002315 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . In eubacteria, glycyl-tRNA synthetase (6.1.1.14 from EC) is an alpha2/beta2 tetramer composed of 2 different subunits , , . In some eubacteria, in archaea and eukaryota, glycyl-tRNA synthetase is an alpha2 dimer, this family. It belongs to class IIc and is one of the most complex synthetases. What is most interesting is the lack of similarity between the two types: divergence at the sequence level is so great that it is impossible to infer descent from common genes. The alpha (see IPR002310 from INTERPRO) and beta subunits (see IPR002311 from INTERPRO) also lack significant sequence similarity. However, they are translated from a single mRNA , and a single chain glycyl-tRNA synthetase from Chlamydia trachomatis has been found to have significant similarity with both domains, suggesting divergence from a single polypeptide chain . The sequence and crystal structure of the homodimeric glycyl-tRNA synthetase from Thermus thermophilus, shows that each monomer consists of an active site strongly resembling that of the aspartyl and seryl enzymes, a C-terminal anticodon recognition domain of 100 residues and a third domain unusually inserted between motifs 1 and 2 almost certainly interacting with the acceptor arm of tRNA(Gly). The C-terminal domain has a novel five-stranded parallel-antiparallel beta-sheet structure with three surrounding helices. The active site residues most probably responsible for substrate recognition, in particular in the Gly binding pocket, can be identified by inference from aspartyl-tRNA synthetase due to the conserved nature of the class II active site , .; GO: 0000166 nucleotide binding, 0004820 glycine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006426 glycyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=99.92 E-value=1.4e-23 Score=172.37 Aligned_cols=414 Identities=21% Similarity=0.247 Sum_probs=250.0 Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHH-HHCC-CEEEECCCHHHHHHHHCCCCCCCC---------CCCC------------ Q ss_conf 9876588668999999999999999-9859-848016520228875202675543---------3322------------ Q gi|254780928|r 13 RGFADCPTKEIRIRNRILDSIRNIY-ENYG-FDPIETPLLEYSDSLGKFLPDEDR---------PNKG------------ 69 (496) Q Consensus 13 ~G~~D~~p~~~~~~~~i~~~l~~~f-~~~G-~~~I~tP~lE~~~~~~~~~~~~~~---------~~k~------------ 69 (496) .|+-||-|..+.++++|.+.|++-| ..++ +-+|+||+|-+++.+..+| .-|. .+++ T Consensus 27 aG~~DyGPLG~~Lk~~I~~~wr~~fi~~e~d~~~id~P~i~~~evlKASG-Hvd~F~D~~v~Ck~C~~~fRADHl~e~~~ 105 (606) T TIGR00389 27 AGFWDYGPLGAVLKNNIKNAWRKFFIINERDVLEIDSPIITPEEVLKASG-HVDNFTDPMVDCKKCKERFRADHLIEEKL 105 (606) T ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCHHHHHHCC-CCCCCCCCEEECCCCCCEECHHHHHHHHH T ss_conf 20010157247899999998887511103653464245337257997528-64567312267378880401012325665 Q ss_pred ----------------------------------------------------------------EEEEE-CC-C--CCEE Q ss_conf ----------------------------------------------------------------16898-69-9--9889 Q gi|254780928|r 70 ----------------------------------------------------------------VFSLQ-DD-D--GQWI 81 (496) Q Consensus 70 ----------------------------------------------------------------~y~f~-D~-~--g~~l 81 (496) ||... -. + .+.. T Consensus 106 ~~~~~~dqqiK~V~~~D~K~~E~iL~~iDG~~~~eL~E~m~~~~i~CP~C~g~~nl~~v~~FNLMF~T~IG~~~~~~~~g 185 (606) T TIGR00389 106 GKDVEGDQQIKDVKLDDVKEYEKILAKIDGETGPELKEVMEKYDINCPNCGGENNLTEVRSFNLMFQTEIGVVGDSKRKG 185 (606) T ss_pred HHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHCCCCCEEEECCCCCCCCEE T ss_conf 10004761001268545777998975507871156787763427889822354561350120454110211334776224 Q ss_pred EECCCCHH-----HHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCC--CHHHHHH----- Q ss_conf 99888838-----99999995112055411233101333025-87644--4211111000121000--0245788----- Q gi|254780928|r 82 SLRYDLTA-----PLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSS--AETADAE----- 146 (496) Q Consensus 82 ~LRpDlT~-----~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~--~~~~DaE----- 146 (496) -|||| || +|=|.+.-+. ..+|+-..++|+-||+| -|+.| |.|||.|+=+|+|-.+ ..++..+ T Consensus 186 YLRPE-TAQG~FinFk~LL~~~r--~klPFgvAQiGKSfRNEIsPr~gl~R~REF~QaE~E~FV~P~~k~h~~F~~~~~~ 262 (606) T TIGR00389 186 YLRPE-TAQGIFINFKRLLQFFR--NKLPFGVAQIGKSFRNEISPRQGLIRLREFEQAEIEFFVDPEDKSHPKFEEVKQE 262 (606) T ss_pred ECCCH-HCCCCCHHHHHHHHHHC--CCCCEEEEEECCEEECCCCCCCCEEEECHHHHHHHHHCCCCCCCCCCCHHHHHHC T ss_conf 14760-10475121689999745--8996489974413604003898757103154466874259600167200145405 Q ss_pred HHHHHH--HHHHHCCCCCCCCEEECC---------------CCHHHHHHHHHHC-CCHHHHHHHHHH-----HHHHHHHC Q ss_conf 999999--999751888777113036---------------6055899999832-560356433455-----53332200 Q gi|254780928|r 147 MCMMMA--DTLEAVGIKRNDYHIGIN---------------NRKILDGILEKIG-LHGDDKLNERLI-----VLRAIDKL 203 (496) Q Consensus 147 ii~l~~--~~l~~lgl~~~~~~I~in---------------~~~il~~il~~lg-i~~~~~~~~~~~-----~~~~idkl 203 (496) .+.++- +-++.-|-....+.+.++ |.+....+|...| ++++ +++.+.+ .+.|.|.. T Consensus 263 ~~~Llp~~R~~~E~g~~~~~v~~t~gEAVe~G~i~ne~L~YFia~~~~FL~~igkI~~d-klRFrqH~~~E~AHYA~dcw 341 (606) T TIGR00389 263 VVPLLPAERQMQESGESEKPVKMTIGEAVEKGIIENETLAYFIALVKRFLLEIGKINPD-KLRFRQHLKNEMAHYAKDCW 341 (606) T ss_pred CCCCCCCCCCCHHCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCHH-HHHHHHCCCHHHHHHHHHHE T ss_conf 00136764540001576405444178886346521006899999999999865278878-85233136004556555362 Q ss_pred C------CCCHHHHHHHHHHCCCCHHHHHHCCCCCCH--------------HHHHHHHHHHCCCCHHHHHHHHHHHCCCH Q ss_conf 1------289678998621016500355530489997--------------78998887404785688998998603573 Q gi|254780928|r 204 D------KFGLQGVKLLLGEGRTDNSGDFTKGANLTS--------------EQIDIMVSFLSIDLEKSMHELYELVKGTI 263 (496) Q Consensus 204 ~------k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 263 (496) | +.||.++.-.-.....|- ..-.+..+.+. -.+.....++.....+....+.+.+ T Consensus 342 D~E~~t~~yGwiE~~GiADR~~yDL-~~Hsk~s~~~L~Vf~~~DeP~~~~~~~i~~~~k~~G~~FrkdAk~ies~L---- 416 (606) T TIGR00389 342 DAEILTSRYGWIEVVGIADRTDYDL-TQHSKFSGKDLSVFQELDEPREVTKREIELNKKKLGPKFRKDAKKIESAL---- 416 (606) T ss_pred EEEEECCCCCCEEEEEEECCCCCCH-HHHHHHHCCCCEEEECCCCCEEEEEEEEEEECCCCCCHHHCHHHHHHHHH---- T ss_conf 3556657987389987406772216-88999849896163057887257788987301346843201178999999---- Q ss_pred HHHHHH--HHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCC Q ss_conf 258889--999999999875088844300110100122123412489985466677676663101100323235521112 Q gi|254780928|r 264 AGEKGF--NELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRF 341 (496) Q Consensus 264 ~~~~~l--~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f 341 (496) .++ +++..+.+.|+..|- +.+.. +|-.||+.-.......... +..|= T Consensus 417 ---~~lse~dl~~~~~~l~~~G~----f~~~~---------dG~~ve~~~~~v~i~~~~~------v~~~e--------- 465 (606) T TIGR00389 417 ---ENLSEDDLEEVEKELDEEGK----FIIEV---------DGKEVEILKDLVEIKEVEE------VVTGE--------- 465 (606) T ss_pred ---HHCCHHHHHHHHHHHHCCCE----EEEEE---------CCEEEEECHHHEEEEEEEE------EEEEE--------- T ss_conf ---73287478999998634986----99998---------5818987121242666678------88534--------- Q ss_pred CCCCCCCC-EEEECCHHHHHHHHHCC-------------CCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEE Q ss_conf 34567742-13311016899999736-------------87766555771489982697689999999999999879839 Q gi|254780928|r 342 KGQNVPAT-GFSIGISRLIVALKSLE-------------SSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRA 407 (496) Q Consensus 342 ~~~~~pav-Gfaigverl~~~l~~~~-------------~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~ 407 (496) +=+|.| ==|+|+|||+.++..+. ...++.-+|..|.|+++....+....|.+|.+.||..||.+ T Consensus 466 --k~iP~VIEPS~Gi~Ri~Y~~l~hsy~~~~~d~e~R~vL~Lp~~~aP~kv~VlPLvnk~~l~~~a~~i~~~Lr~~~i~~ 543 (606) T TIGR00389 466 --KYIPHVIEPSFGIDRIIYSLLEHSYQEEVLDGEEREVLRLPPHVAPIKVAVLPLVNKEELKEIAKEIEQALRKSGIII 543 (606) T ss_pred --EEECCEEECCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCEE T ss_conf --880607616750378999999874323510278613741586628567999631156540789999999986269769 Q ss_pred EEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHH Q ss_conf 99718999988999999877998999988728748818997878883643311201443202335103079999999999 Q gi|254780928|r 408 EMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKK 487 (496) Q Consensus 408 e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~ 487 (496) +++ +++-|+|+.++.||.+|+||.|.|--+.+++++||||+..|- .|+.|+|.||++.+++ T Consensus 544 ~~D-dSG~SIGkRYrR~DEIGtPF~vT~DfetlED~tVT~ReRds~------------------~QvRv~I~eL~~~~~~ 604 (606) T TIGR00389 544 EYD-DSGTSIGKRYRRADEIGTPFCVTVDFETLEDETVTIRERDSL------------------KQVRVKIEELVSYLKK 604 (606) T ss_pred EEC-CCCCCHHHHHHCCCCCCCCCEEEECCCCCCCCEEEEEECCCC------------------EEEEEEHHHHHHHHHH T ss_conf 987-789861003101443688715874253110764677307884------------------0453663438999986 Q ss_pred H Q ss_conf 9 Q gi|254780928|r 488 I 488 (496) Q Consensus 488 ~ 488 (496) . T Consensus 605 ~ 605 (606) T TIGR00389 605 L 605 (606) T ss_pred C T ss_conf 0 No 29 >COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis] Probab=99.89 E-value=3.4e-22 Score=163.29 Aligned_cols=409 Identities=18% Similarity=0.193 Sum_probs=222.7 Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECC Q ss_conf 87103799876588668999999999999999985984801652022887520267554333221689869998899988 Q gi|254780928|r 6 KLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRY 85 (496) Q Consensus 6 ~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRp 85 (496) .|.-+.-+|+.-|+|...+++++|.+.+++.+++.|.+++..|+|.+ .-|++-++..+-...+||.++|++++.++||| T Consensus 30 g~i~~~~~G~y~~lP~g~rv~~kI~~iir~em~~~G~~Evl~P~L~p-~eLwkEs~r~~~f~~El~~v~drg~~~l~L~P 108 (500) T COG0442 30 GMIRKPVKGLYVWLPLGLRVLEKIENIIREEMDKIGAQEVLFPTLIP-AELWKESGRWEGFGPELFRVKDRGDRPLALRP 108 (500) T ss_pred CCEEECCCCEEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECHHCCH-HHHHHHHCHHHCCCHHHEEEECCCCCEEEECC T ss_conf 86020257169977658999999999999999860850883110587-89998748563036444899716996343578 Q ss_pred CC---HHHHHH-HHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHH---HHHHHHHHHH Q ss_conf 88---389999-9995112055411233101333025-87644--4211111000121000024578---8999999999 Q gi|254780928|r 86 DL---TAPLAR-YVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADA---EMCMMMADTL 155 (496) Q Consensus 86 Dl---T~~~aR-~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~Da---Eii~l~~~~l 155 (496) -- -.++.| ++.++ ..+|+++|+++++||+| ||..| |-|||+--+..-|-.+...++. +++.+..++| T Consensus 109 TsEe~it~~~~~~i~SY---kdLPl~lYQi~~kfRdE~rpr~gllR~REF~mkdaySfh~~~e~a~~~y~~~~~~Y~~if 185 (500) T COG0442 109 TSEEVITDMFRKWIRSY---KDLPLKLYQIQSKFRDEKRPRFGLLRGREFLMKDAYSFHADEEDAEETYEKMLDAYSRIF 185 (500) T ss_pred CCHHHHHHHHHHHHHHH---HHCCCCEEEEEEEEECCCCCCCCCCCHHEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHH T ss_conf 86899999999986556---518812101345884334688773000203301112102898999999999999999999 Q ss_pred HHCCCCCCCCEEECCCCHHHH--------HHHHHHCCCHHHHHHHHHHHHHHHHHCC-CCCHHHHH-HHHHHCCCCHHHH Q ss_conf 751888777113036605589--------9999832560356433455533322001-28967899-8621016500355 Q gi|254780928|r 156 EAVGIKRNDYHIGINNRKILD--------GILEKIGLHGDDKLNERLIVLRAIDKLD-KFGLQGVK-LLLGEGRTDNSGD 225 (496) Q Consensus 156 ~~lgl~~~~~~I~in~~~il~--------~il~~lgi~~~~~~~~~~~~~~~idkl~-k~~~~~~~-~~l~~~~~~~~~~ 225 (496) .++|+. +...--+.+..- .+.... .+.+..........+++.. ....+.-. ..+.. . T Consensus 186 ~~i~l~---~~~~~ad~g~~Gg~~S~eF~~l~pd~---ge~qi~ts~~y~aN~e~a~~~~~~~~~~~~~~~~-------v 252 (500) T COG0442 186 LRLPLI---FGPVPADEGFIGGSYSHEFEALMPDG---GEDQIATSHHYGANFEKAFIDIKFEDEEEGELEY-------V 252 (500) T ss_pred HHCCCE---EEEECCCCCCCCCCCCEEEEEECCCC---CCCEEEEECCHHHHHHHHCCCCCCCCCCCCCCEE-------E T ss_conf 858953---88625667788876536999985689---8547998062666687744677755666554147-------5 Q ss_pred HHCCCCCCHHHHHHHHHHHCCC-----CHHHHHHH-----HHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC-HH Q ss_conf 5304899977899888740478-----56889989-----9860357325888999999999987508884430011-01 Q gi|254780928|r 226 FTKGANLTSEQIDIMVSFLSID-----LEKSMHEL-----YELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKIS-ST 294 (496) Q Consensus 226 ~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~l-----~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~D-l~ 294 (496) .....+++......+. .+..+ ++..+... .........-...++.-..+...+...+ ..+..| .+ T Consensus 253 ~t~s~~~s~r~~~~~i-~i~GDn~G~v~Pp~vA~~qV~~~~~~~~ga~~h~~~~~~~rd~~~~l~~~~---~~~~~D~~~ 328 (500) T COG0442 253 HTTSYGISTRIIGAAI-LIHGDNEGLVLPPIVADIQVVIVPIFIKGANEHYKVVNYGRDVAEPLEKLG---IRVEGDDRS 328 (500) T ss_pred CCCCEEEEEEEEEEEE-EEECCCCCCCCCCHHCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHCC---EEEECCCCC T ss_conf 1462688740015899-971488776487500453489975133674101334304544456654302---588424568 Q ss_pred -HCCCCCCC------CCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCC-CCCCC---CCC--CCCCEEEECCHHHHHH Q ss_conf -00122123------41248998546667767666310110032323552-11123---456--7742133110168999 Q gi|254780928|r 295 -IVRGLEYY------TGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGL-VSRFK---GQN--VPATGFSIGISRLIVA 361 (496) Q Consensus 295 -lvRgLdYY------TG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L-~~~f~---~~~--~pavGfaigverl~~~ 361 (496) -..|.-|| -|.+||+ |=||-.- -..+- |+. .--+-+++|++|++.+ T Consensus 329 ~~~~G~kl~~~e~ieVghif~l---------------------G~kyse~~~a~v~~r~g~~~~~~mg~ygigvsr~v~a 387 (500) T COG0442 329 PDGPGFKLNIWEGIEVGHIFEL---------------------GTKYSEAMNATVLDRDGKEQPKTMGCYGIGVSRLVAA 387 (500) T ss_pred CCCCCCEEEEEECCCCCEEEEE---------------------CCHHHHHCEEEEEECCCCCCCEEEECHHHHHHHHHHH T ss_conf 9999721102102445779998---------------------7412541804999248871441787000003459999 Q ss_pred HHHCCC--CCCCCC---CCCEEEEEEECC-CHHHHHHHHHHHHHHHHCC-CEEEEEECCCCCHHHHHHHHHHCCCCEEEE Q ss_conf 997368--776655---577148998269-7689999999999999879-839997189999889999998779989999 Q gi|254780928|r 362 LKSLES--STNNIK---EMGPVLITTMDH-DSDSLSKYQMYTQMLRTAG-IRAEMFLGSSKNFGNQLKYADRRNCPLAII 434 (496) Q Consensus 362 l~~~~~--~~~~~~---~~~~v~V~~~~~-~~~~~~~~~~ia~~Lr~~G-i~~e~~~~~~~sl~~~~~~A~~~g~~~vii 434 (496) +.++.+ ....++ .+..+.|+.+.. +......+.++...|..+| ..|.++.. +...+..+..|+-+|+|+.++ T Consensus 388 ~ieq~~d~~gi~w~~a~apf~~~iv~~n~~~~~~~~~~~~~~~~l~~~G~~e~~~ddr-~er~g~k~~~a~liGiP~~~~ 466 (500) T COG0442 388 LLEQIHDENGIIWPKAIAPFDVHIVPVNTKDFKQAEAAEKLYVELPWCGTVEVLLDDR-DERPGVKFADADLIGIPLRIV 466 (500) T ss_pred HHHHHCCCCCCCCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHH-CCCCCCCCCCCEEECCCCEEE T ss_conf 9997362226716001475000799748635999987565899877578621445422-014675014874710440331 Q ss_pred ECHHHHHCCCEEEEECCCCCEEEE Q ss_conf 887287488189978788836433 Q gi|254780928|r 435 QGTGERSRGMLQIKDLAKGKELSR 458 (496) Q Consensus 435 ig~~e~~~~~v~vK~l~~g~q~~~ 458 (496) +|++ .+.|.|.+|...+|+...+ T Consensus 467 ~g~~-~~~g~~e~k~r~~ge~~~~ 489 (500) T COG0442 467 VGKR-LAEGEVEVKCRKCGEKEAV 489 (500) T ss_pred ECCC-CCCCCEEEEECCCCCHHHC T ss_conf 0334-4688236886477861015 No 30 >PRK08661 prolyl-tRNA synthetase; Provisional Probab=99.89 E-value=3.4e-21 Score=156.80 Aligned_cols=338 Identities=20% Similarity=0.206 Sum_probs=210.1 Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEEC----CCCCEEEEC Q ss_conf 0379987658866899999999999999998598480165202288752026755433322168986----999889998 Q gi|254780928|r 9 AELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQD----DDGQWISLR 84 (496) Q Consensus 9 ~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D----~~g~~l~LR 84 (496) ....+|+.-|.|-.+.+++.|.+.+++.|++.|-+++..|+|-+.+.|.+-.+.-.-...+++..+- +-.+.++|| T Consensus 31 ~~~VkG~~v~~P~g~~iw~~i~~~~~~~~~~~g~~~~~fP~liP~~~l~kE~~hvegF~pE~~~VT~~G~~~l~~~l~lr 110 (478) T PRK08661 31 YSPVKGCMVIRPYGYAIWENIQKILDEMFKETGHENVYFPLLIPESLLQKEAEHIEGFAPEVAWVTHGGGEKLEEPLALR 110 (478) T ss_pred CCCCCEEEEECCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCC T ss_conf 36887279978748999999999999999863980873024066899986665661567404899547875556763108 Q ss_pred CCCH----HHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC-CCCCCCCCCHHHHHCCCHHHHHH---HHHHHHHHH Q ss_conf 8883----899999995112055411233101333025-87644-42111110001210000245788---999999999 Q gi|254780928|r 85 YDLT----APLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG-RFRQFIQCDVDNVGSSAETADAE---MCMMMADTL 155 (496) Q Consensus 85 pDlT----~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G-r~REf~Q~g~eiiG~~~~~~DaE---ii~l~~~~l 155 (496) |-.- .-+++++.++. .+|+++|++.+|||+| +|... |-|||+--...-+-.+...++.| ++.+..+++ T Consensus 111 PTsEt~i~~~~~~wI~Syr---dLPl~l~Qw~~v~R~E~r~r~flR~rEFl~qe~ht~h~t~eea~~~~~~~~~~Y~~~~ 187 (478) T PRK08661 111 PTSETIIYPMFKKWIQSYR---DLPLLYNQWVNVVRWEKKTRPFLRTREFLWQEGHTAHATEEEAEEETLEMLEIYKEFA 187 (478) T ss_pred CCCHHHHHHHHHHHHHHHH---HCCCEEEEEEEEEECCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHH T ss_conf 8879999999999852365---2690002004458657889631434263542120113999999999999999999999 Q ss_pred H-HCCCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCH Q ss_conf 7-518887771130366055899999832560356433455533322001289678998621016500355530489997 Q gi|254780928|r 156 E-AVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTS 234 (496) Q Consensus 156 ~-~lgl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 234 (496) + .|+++- + .|. ..+. +|+. ++... T Consensus 188 e~~LaiPv----i-~g~-------------k~~~---------------ekFa---------------------Ga~~T- 212 (478) T PRK08661 188 EDYLAIPV----I-IGK-------------KTEW---------------EKFA---------------------GADYT- 212 (478) T ss_pred HHHCCCCE----E-CCC-------------CCCC---------------CCCC---------------------CCCCC- T ss_conf 98378755----6-377-------------7830---------------2178---------------------98654- Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCC Q ss_conf 78998887404785688998998603573258889999999999875088844300110100122123412489985466 Q gi|254780928|r 235 EQIDIMVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFP 314 (496) Q Consensus 235 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~ 314 (496) -.++. +-.++. +| + .| . ++.| |-+| .-.|.+.+... T Consensus 213 ~~iea----~m~dGk------------------aL----------Q-~g--t---sH~L----Gq~f--skaf~i~f~d~ 248 (478) T PRK08661 213 YTIEA----MMPDGK------------------AL----------Q-IG--T---SHYL----GQNF--AKAFDIKFQDK 248 (478) T ss_pred CEEEE----ECCCCC------------------EE----------E-CC--C---EECC----CHHH--HHHCCCEEECC T ss_conf 20588----726886------------------31----------1-43--1---4216----2235--67549699889 Q ss_pred CCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCC--CEEEECCHHHHHHHHHCC-----CCCCCCCCCCEEEEEEECCCH Q ss_conf 6776766631011003232355211123456774--213311016899999736-----877665557714899826976 Q gi|254780928|r 315 VMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPA--TGFSIGISRLIVALKSLE-----SSTNNIKEMGPVLITTMDHDS 387 (496) Q Consensus 315 ~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pa--vGfaigverl~~~l~~~~-----~~~~~~~~~~~v~V~~~~~~~ 387 (496) .|+..++ .-++|+ +|++.++...+ ...|+...+.+|.|+++..+. T Consensus 249 ---------------------------~g~~~~~~~ts~Gis-tR~iga~Im~H~Dd~GlvlPp~iAP~qVvIvPi~~~~ 300 (478) T PRK08661 249 ---------------------------DGKLEYVHQTSWGVS-TRLIGALIMVHGDDKGLVLPPKIAPIQVVIIPILKKK 300 (478) T ss_pred ---------------------------CCCEEEEEEECCCHH-HHHHHHHHHHHCCCCCCCCCHHHCCCCEEEEEECCCC T ss_conf ---------------------------998867887534542-7899999998479986517845598308999845788 Q ss_pred ---HHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHH Q ss_conf ---89999999999999879839997189999889999998779989999887287488189978788836433112014 Q gi|254780928|r 388 ---DSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNE 464 (496) Q Consensus 388 ---~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~ 464 (496) .....+.++...|.++||+|.++..+ .+.+..+..++.+|+|+.|.||++++++|+|.|....+|+ T Consensus 301 ~~~~v~~~~~~i~~~L~~~girv~~Ddrd-~~pG~Kf~~~elkGvPlRieiGprDle~~~v~v~RRDt~e---------- 369 (478) T PRK08661 301 EEEEVLEYAKELAEELKAAGIRVKLDDRD-KTPGWKFYEWELKGVPLRIEIGPRDLENNTVVLVRRDTLE---------- 369 (478) T ss_pred CHHHHHHHHHHHHHHHHHCCEEEEEECCC-CCHHHHHHHHHHCCCCEEEEECCCHHCCCEEEEEECCCCC---------- T ss_conf 78999999999999998779079981766-5665666661014785899977201028979999867986---------- Q ss_pred HHHHCCCCCEEECHHHHHHHHHHHHHHHHHC Q ss_conf 4320233510307999999999999864204 Q gi|254780928|r 465 SWREARVAQITIPISELVSTVKKILQENKEE 495 (496) Q Consensus 465 ~~~~~~~~q~~v~~~~l~~~~~~~l~~~~~~ 495 (496) -.+||++++++.+..+|++-++. T Consensus 370 --------K~~v~~~~l~~~v~~lL~~Iq~~ 392 (478) T PRK08661 370 --------KETVSLDELVEEVPELLDEIQEN 392 (478) T ss_pred --------CEEECHHHHHHHHHHHHHHHHHH T ss_conf --------14665999999999999999999 No 31 >PRK04173 glycyl-tRNA synthetase; Provisional Probab=99.89 E-value=1.3e-20 Score=153.02 Aligned_cols=340 Identities=17% Similarity=0.180 Sum_probs=202.9 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHH--CCCEEEECCCHHHHHHHHCCCCCCCCC---------C------------- Q ss_conf 9987658866899999999999999998--598480165202288752026755433---------3------------- Q gi|254780928|r 12 PRGFADCPTKEIRIRNRILDSIRNIYEN--YGFDPIETPLLEYSDSLGKFLPDEDRP---------N------------- 67 (496) Q Consensus 12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~--~G~~~I~tP~lE~~~~~~~~~~~~~~~---------~------------- 67 (496) ..|+.||.|..+.+++.|.+.|++.|-. -+..+|++|++-+..++..+|- -+.. + T Consensus 29 ~ag~~DyGPlG~~LK~Ni~~~W~~~fv~~~~~~~~id~~ii~~~~V~~ASGH-v~~F~D~~v~c~~~~~r~RaD~Lie~~ 107 (460) T PRK04173 29 LAGFWDYGPLGVELKNNIKKAWWKSFVQERPDVVGIDSPIIMPPEVWKASGH-VDNFSDPLVECKKCKKRYRADHLIEEY 107 (460) T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHCCCC-CCCCCCCEEECCCCCCEECHHHHHHHH T ss_conf 1236155853599999999999999865258778861444489878544677-465676234757678363016776665 Q ss_pred --------------------------------------CCEEEEE----CCCCCEEEECCCCH----HHHHHHHHHHHHH Q ss_conf --------------------------------------2216898----69998899988883----8999999951120 Q gi|254780928|r 68 --------------------------------------KGVFSLQ----DDDGQWISLRYDLT----APLARYVAENFDT 101 (496) Q Consensus 68 --------------------------------------k~~y~f~----D~~g~~l~LRpDlT----~~~aR~~~~~~~~ 101 (496) -.||... ...+...-||||.. +.+-|.+-.+ . T Consensus 108 ~~~~~~~~~~~~l~~~i~~~~i~cP~cg~~~lt~~~~FNLMF~T~iG~~~~~~~~~YLRPETAQGiFvnFk~v~~~~--r 185 (460) T PRK04173 108 LGIDAEGLSNEELEELIEENNIKCPECGGENWTEVRQFNLMFKTFIGPVEDSSSLGYLRPETAQGIFVNFKNVLRTA--R 185 (460) T ss_pred HHHCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCEEECHHHHHHHHHHHHHHHHHC--C T ss_conf 32012335899999999970887999999677544312055575135566777502316044104566119999971--7 Q ss_pred CCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHH--HHHHHHHHHHHHHCCCCCCCCEEECCCCHHHH Q ss_conf 55411233101333025-87644--421111100012100002457--88999999999751888777113036605589 Q gi|254780928|r 102 IVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETAD--AEMCMMMADTLEAVGIKRNDYHIGINNRKILD 176 (496) Q Consensus 102 ~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~D--aEii~l~~~~l~~lgl~~~~~~I~in~~~il~ 176 (496) ..+|+-..++|++||+| .|+.| |.|||.|+-+|.|-.++...+ +--+.-..+.+.++|++..++..+ -|. T Consensus 186 ~KlPFgiaQIGKaFRNEIsPr~~lfR~REFeQmEiE~F~~P~~~~e~~~yw~~~~~~fl~~lGi~~~~lR~r-~h~---- 260 (460) T PRK04173 186 KKLPFGIAQIGKSFRNEITPRNFIFRTREFEQMELEFFVKPGTDEEWFAYWIALRKNFLLDLGIDPENLRFR-EHL---- 260 (460) T ss_pred CCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHEEEE-ECC---- T ss_conf 788804310040012430655451223455552433105867458999999999999999839988994786-306---- Q ss_pred HHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHH Q ss_conf 99998325603564334555333220012896789986210165003555304899977899888740478568899899 Q gi|254780928|r 177 GILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLEKSMHELY 256 (496) Q Consensus 177 ~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 256 (496) .+ +..+ .+ .+..+.-..+. .+ T Consensus 261 ---------~~-elAH-----Ya----------------------------------~~~~D~E~~~~--~G-------- 281 (460) T PRK04173 261 ---------PE-ELAH-----YS----------------------------------KATWDIEYKFP--FG-------- 281 (460) T ss_pred ---------CH-HHCC-----CC----------------------------------HHHEEEEEECC--CC-------- T ss_conf ---------13-4200-----02----------------------------------20055899458--98-------- Q ss_pred HHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCC Q ss_conf 86035732588899999999998750888443001101001221234124899854666776766631011003232355 Q gi|254780928|r 257 ELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDG 336 (496) Q Consensus 257 ~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~ 336 (496) ..| ..|+ .++=.+||+-. .=|+|.-.+++-. ..|.+ T Consensus 282 ------------w~E---------~~Gi-a~RtdyDL~~H---~~~Sg~~L~~~d~----------------~~~~k--- 317 (460) T PRK04173 282 ------------WGE---------LEGI-ANRTDYDLSRH---SKHSGEDLSYFDQ----------------ETGEK--- 317 (460) T ss_pred ------------EEE---------EEEE-CCCCHHHHHHH---HHHCCCCEEEEEC----------------CCCCE--- T ss_conf ------------288---------7664-06421027889---8744887179822----------------55856--- Q ss_pred CCCCCCCCCCCC-CEEEECCHHHHHHHHHCCC--------------CCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHH Q ss_conf 211123456774-2133110168999997368--------------7766555771489982697689999999999999 Q gi|254780928|r 337 LVSRFKGQNVPA-TGFSIGISRLIVALKSLES--------------STNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLR 401 (496) Q Consensus 337 L~~~f~~~~~pa-vGfaigverl~~~l~~~~~--------------~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr 401 (496) -+|- |=-|+|+||++.++....- ..++.-+|..|.|+++...++....|.++...|+ T Consensus 318 --------~iPhVIEpS~GvdR~~la~L~~ay~ee~~~~~e~R~vL~l~p~lAPikvaVlPL~kk~~l~~~a~~i~~~L~ 389 (460) T PRK04173 318 --------YIPYVIEPSFGLDRLFLAFLEDAYTEEELGDGDKRTVLRLPPALAPVKVAVLPLVKKDKLSEKAREIYAELR 389 (460) T ss_pred --------ECCEEEEECCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHH T ss_conf --------134056404671089999998765200047875058996266457716999965566125899999999998 Q ss_pred HCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHH Q ss_conf 87983999718999988999999877998999988728748818997878883643311201443202335103079999 Q gi|254780928|r 402 TAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISEL 481 (496) Q Consensus 402 ~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l 481 (496) +.|+.+..+. ++ |+++.+..++..|+||.|.|..+.+++++|+||+..|.+ |..|++++| T Consensus 390 ~~~~~~~~D~-sg-sIGkRY~R~DeiGtPf~ITiD~~tled~tVTiR~RDt~~------------------Q~Rv~i~~l 449 (460) T PRK04173 390 KDGFNVDYDD-SG-SIGKRYRRQDEIGTPFCVTVDFDTLEDNTVTIRDRDTME------------------QVRVKIDEL 449 (460) T ss_pred HCCCEEEEEC-CC-CHHHHHHHCCCCCCCEEEEECCCCCCCCCEEEEECCCCC------------------EEEEEHHHH T ss_conf 7797599968-99-854544531026898799976886768948978358753------------------489899999 Q ss_pred HHHHHHHHH Q ss_conf 999999998 Q gi|254780928|r 482 VSTVKKILQ 490 (496) Q Consensus 482 ~~~~~~~l~ 490 (496) ++.|.+++. T Consensus 450 ~~~l~~~~~ 458 (460) T PRK04173 450 EDYLAEKLK 458 (460) T ss_pred HHHHHHHHC T ss_conf 999999866 No 32 >COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis] Probab=99.88 E-value=1.7e-20 Score=152.26 Aligned_cols=400 Identities=17% Similarity=0.223 Sum_probs=215.5 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHH--CCCEEEECCCHHHHHHHHCCCCCC---CC-----CC-------------- Q ss_conf 9987658866899999999999999998--598480165202288752026755---43-----33-------------- Q gi|254780928|r 12 PRGFADCPTKEIRIRNRILDSIRNIYEN--YGFDPIETPLLEYSDSLGKFLPDE---DR-----PN-------------- 67 (496) Q Consensus 12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~--~G~~~I~tP~lE~~~~~~~~~~~~---~~-----~~-------------- 67 (496) ..|+.||.|..+.+++.|.+.|++.|-. -+..+|+||++-+.+.|..+|--. |. .+ T Consensus 29 ~~GfyDYGPlG~~LK~nI~~~Wrk~fV~~~e~~~eIdtpii~p~~V~kASGHvd~FsDplv~c~~c~~~yRADHLiEe~l 108 (558) T COG0423 29 LAGFYDYGPLGVELKNNIKEAWRKSFVTEREDVVEIDTPIILPEEVWKASGHVDKFSDPLVECKKCGERYRADHLIEEYL 108 (558) T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHEECCCCEEEECCCCCCCHHHHHHCCCCCCCCCCEEECCCCCHHHHHHHHHHHHH T ss_conf 34653257751899999999999986624687678425544868886434761346562043462453453368889876 Q ss_pred -------------------------------------CCEEEEE-C-CCCCEEEECCCCH----HHHHHHHHHHHHHCCC Q ss_conf -------------------------------------2216898-6-9998899988883----8999999951120554 Q gi|254780928|r 68 -------------------------------------KGVFSLQ-D-DDGQWISLRYDLT----APLARYVAENFDTIVF 104 (496) Q Consensus 68 -------------------------------------k~~y~f~-D-~~g~~l~LRpDlT----~~~aR~~~~~~~~~~~ 104 (496) -.||+.. - .+|+..-|||+-- +.+-|.+..+ ...+ T Consensus 109 ~~~~~~~~~~~e~~~ii~~~~ir~p~~g~~l~~v~~FNLMF~T~IGp~~~~~~YLRPETAQGiFvnFk~l~~~~--r~kl 186 (558) T COG0423 109 GKDGHGNMSPEELTEIIREYDIRCPECGGELNEVREFNLMFKTTIGPVEDSLGYLRPETAQGIFVNFKNLLEFA--RNKL 186 (558) T ss_pred HHCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEEEEEECCCCCCCEEECCCCCCHHHHHHHHHHHHH--CCCC T ss_conf 41034557878888888861775887688668750344666731457788632456510021215369999975--3689 Q ss_pred CHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCH--------HHHHHHHHHHHHHHHHCC-----CCCCCCEEE Q ss_conf 11233101333025-87644--421111100012100002--------457889999999997518-----887771130 Q gi|254780928|r 105 PCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAE--------TADAEMCMMMADTLEAVG-----IKRNDYHIG 168 (496) Q Consensus 105 p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~--------~~DaEii~l~~~~l~~lg-----l~~~~~~I~ 168 (496) |+-..++|+.||+| .|+.| |.|||.|+-+|.|-.... .+| +.+.++....+.=+ +..+ +. T Consensus 187 PFgiaQIGKsfRNEISPr~gl~R~REF~QaEiE~Fv~P~~k~~p~f~~v~~-~~l~l~~~~~q~~~~~~EAv~~g---~~ 262 (558) T COG0423 187 PFGIAQIGKSFRNEISPRNGLFRTREFEQAEIEFFVDPEEKEHPKFNEVKD-EKLPLLPREAQEEGTEEEAVEEG---IV 262 (558) T ss_pred CEEEEEECHHHCCCCCCCCCEEEHHHHHHHEEEEEECCCCCCCCCHHHHHH-HHCCCCCHHHHHHHHHHHHHHCC---EE T ss_conf 848886231014652766536651234312013588777556863333321-00246647776410034554415---45 Q ss_pred CC-----CCHHHHHHHHHHCCCHHHHHHHHHHH-----HHHHHH------CCCCCHHHHHHHHHHCCCCHHHHHHCCCCC Q ss_conf 36-----60558999998325603564334555-----333220------012896789986210165003555304899 Q gi|254780928|r 169 IN-----NRKILDGILEKIGLHGDDKLNERLIV-----LRAIDK------LDKFGLQGVKLLLGEGRTDNSGDFTKGANL 232 (496) Q Consensus 169 in-----~~~il~~il~~lgi~~~~~~~~~~~~-----~~~idk------l~k~~~~~~~~~l~~~~~~~~~~~~~~~~~ 232 (496) -| .......++..+|++.+.- +.+... ..+.|. .+..+|-++.-.-...-.| +...... T Consensus 263 ~n~~~~y~~~~~~~fl~~lGI~~e~l-Rfrqh~~~E~AHYa~~twD~E~~~~~~gWiE~~GiAdRtdYD----L~~H~k~ 337 (558) T COG0423 263 ENETLAYFIARTKFFLEDLGIDPEKL-RFRQHLPEELAHYSKDTWDAEYKFPFGGWIELVGIADRTDYD----LSRHSKF 337 (558) T ss_pred CCHHHHHHHHHHHHHHHHHCCCHHHH-HHHHCCHHHHHHHHHCCEEEEEECCCCCEEEEEEEECCCCCC----HHHHHHH T ss_conf 04438999999999999809998980-665239087766544023279963788669999861355445----5656540 Q ss_pred CHHHHHHHHH----------HHCCC----CHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCC Q ss_conf 9778998887----------40478----568899899860357325888999999999987508884430011010012 Q gi|254780928|r 233 TSEQIDIMVS----------FLSID----LEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRG 298 (496) Q Consensus 233 ~~~~~~~~~~----------~~~~~----~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRg 298 (496) +.+..-.... ....+ +++.-....... +++.++......+ +.+.++..+ T Consensus 338 s~~~l~v~~~~~ePk~v~~~~~~~~~~~~gp~~k~~a~~v~-------~~~se~~~~~~~~-------~~~~~~~~~--- 400 (558) T COG0423 338 SGEDLTVFREYDEPKEVERWHSKVDLKFLGPEFKKDAKKVA-------EALSELEELEKEL-------NGYEVSKDL--- 400 (558) T ss_pred CCCCCEEEECCCCCCEEEEEECCCCHHHCCHHHHHHHHHHH-------HHHHHHHHHHHCC-------CCCCCCCCH--- T ss_conf 36662233214776223310014662103814455667776-------5445666665304-------762135310--- Q ss_pred CCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCC-CEEEECCHHHHHHHHHCCC---------- Q ss_conf 21234124899854666776766631011003232355211123456774-2133110168999997368---------- Q gi|254780928|r 299 LEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPA-TGFSIGISRLIVALKSLES---------- 367 (496) Q Consensus 299 LdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pa-vGfaigverl~~~l~~~~~---------- 367 (496) ..||.. . ...|-+| +|- |==|+|+||++.++....- T Consensus 401 ------~~i~~~----------~------~~~~e~~-----------iP~VIEPSfGidRi~y~~l~~ay~~ee~~e~R~ 447 (558) T COG0423 401 ------VIIEEV----------E------KVTGEKY-----------IPHVIEPSFGIDRIFYALLEHAYTEEEVEEKRI 447 (558) T ss_pred ------HHHEEE----------E------ECCCCEE-----------CCCEECCCCCCHHHHHHHHHHHHCCCCCCCCEE T ss_conf ------010011----------0------0247550-----------671565677711899999987620113566505 Q ss_pred --CCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCE Q ss_conf --776655577148998269768999999999999987983999718999988999999877998999988728748818 Q gi|254780928|r 368 --STNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGML 445 (496) Q Consensus 368 --~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v 445 (496) ..++.-+|..+.|+.+....+....+.++.+.|++.|+.++++ +++ |+++.+..+|..|.||.|.|..+.+++++| T Consensus 448 vLrl~p~lAPikvaVlPL~~k~~l~~~a~~i~~~L~~~~~~v~yD-dsG-sIGrRYrR~DEIGtPfcVTvD~eTleD~tV 525 (558) T COG0423 448 VLRLPPDLAPIKVAVLPLVKKDELVEIAKEIFEKLRELGFNVDYD-DSG-SIGRRYRRQDEIGTPFCVTVDFETLEDNTV 525 (558) T ss_pred EEECCCCCCCEEEEEEEEECCCCHHHHHHHHHHHHHHCCCEEEEC-CCC-CHHHHHHHCCCCCCCEEEEECCCCCCCCCE T ss_conf 995586558527999960224214689999999998539669862-888-376655533445896189954775667847 Q ss_pred EEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHHHH Q ss_conf 99787888364331120144320233510307999999999999864 Q gi|254780928|r 446 QIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQEN 492 (496) Q Consensus 446 ~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~~~ 492 (496) +||+..|- .|+.|++++|++.|+.++... T Consensus 526 TiReRDs~------------------~QvRv~i~el~~~l~~~~~~~ 554 (558) T COG0423 526 TIRERDSM------------------EQVRVKIEELADYLRELIKGG 554 (558) T ss_pred EEEECCCH------------------HEEEEEHHHHHHHHHHHHCCC T ss_conf 98625761------------------204545999999999984256 No 33 >KOG2324 consensus Probab=99.87 E-value=4.9e-20 Score=149.24 Aligned_cols=375 Identities=20% Similarity=0.314 Sum_probs=219.4 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECC----CC Q ss_conf 99876588668999999999999999985984801652022887520267554333221689869998899988----88 Q gi|254780928|r 12 PRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRY----DL 87 (496) Q Consensus 12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRp----Dl 87 (496) -.|+.-|+|-..+..+++.+.+...|++-|.+.|..|++-..+ +|...+.++....++|+|.|++|+++||-| |. T Consensus 41 ~~G~yq~LPlg~R~~~K~~~~l~~~mqs~Ga~kIslp~ls~~~-LWekTgRw~~~gsEl~rl~Dr~gkq~cL~pThEE~i 119 (457) T KOG2324 41 SPGLYQLLPLGLRVLNKLCRLLDNEMQSGGAQKISLPILSSKE-LWEKTGRWDAMGSELFRLHDRKGKQMCLTPTHEEDI 119 (457) T ss_pred CCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCHHH-HHHHCCCCCCCCHHHEEEECCCCCEECCCCCHHHHH T ss_conf 9870121300379999999999999872367057404468689-987618511246045375104787730577548999 Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHH---HHHHHHHHHHHHHHHCCCC Q ss_conf 3899999995112055411233101333025-87644--4211111000121000024---5788999999999751888 Q gi|254780928|r 88 TAPLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAET---ADAEMCMMMADTLEAVGIK 161 (496) Q Consensus 88 T~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~---~DaEii~l~~~~l~~lgl~ 161 (496) |.-+|-+.. .....+|++.|++|+.||+| ||..| |-|||+--|.--|.++... .-.-+....+.+|+.||++ T Consensus 120 T~lmat~~~--lsykqlPi~vYQigrKfRDElrpRfGLlRgREFlMKDmYsFd~~~etA~qTy~~v~~aY~~iFkqL~~p 197 (457) T KOG2324 120 TALMATYIP--LSYKQLPIRVYQIGRKFRDELRPRFGLLRGREFLMKDMYSFDSDEETAQQTYQLVDQAYDRIFKQLGLP 197 (457) T ss_pred HHHHHHCCC--CCCCCCCEEEEEECHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 999986274--322028677665054544134754230124788876533025888899999999999999999973997 Q ss_pred CCCCEEECC-CCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHH Q ss_conf 777113036-6055899999832560356433455533322001289678998621016500355530489997789988 Q gi|254780928|r 162 RNDYHIGIN-NRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIM 240 (496) Q Consensus 162 ~~~~~I~in-~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (496) - +.++ +.+.+-+- ++-+ +..+.. ..+ .....+..++.+.+.-. T Consensus 198 f----Vkv~AdsG~iGG~-----vShE-----fhl~~~----------------vgE----D~l~~C~~C~~s~n~e~-- 241 (457) T KOG2324 198 F----VKVWADSGDIGGE-----VSHE-----FHLIHP----------------VGE----DTLMSCPSCGYSKNSED-- 241 (457) T ss_pred E----EEEEECCCCCCCE-----EEEE-----EECCCC----------------CCC----CCEEECCCCCCCCCHHH-- T ss_conf 6----9986035664761-----0125-----752576----------------675----00344676775576012-- Q ss_pred HHHHC-CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCC Q ss_conf 87404-78568899899860357325888999999999987508884430011010012212341248998546667767 Q gi|254780928|r 241 VSFLS-IDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEK 319 (496) Q Consensus 241 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~ 319 (496) .++.. ..+++ +. .. ++.-+++.+- |-+| ++ T Consensus 242 ~~~sk~~~Cp~--------C~-------------------------~~----~L~~~~~IEV--gHtF--~L-------- 272 (457) T KOG2324 242 LDLSKIASCPK--------CN-------------------------EG----RLTKTKSIEV--GHTF--LL-------- 272 (457) T ss_pred HCCCCCCCCCC--------CC-------------------------CC----CCCCCCCEEE--EEEE--EE-------- T ss_conf 13776566876--------56-------------------------77----7511243477--7788--71-------- Q ss_pred CCCCCEEEECCCCCCCC-CCCC---CCCCC--CCCCEEEECCHHHHHHHHHCCCCCCC---CCCCCEEEEEEECC-CHHH Q ss_conf 66631011003232355-2111---23456--77421331101689999973687766---55577148998269-7689 Q gi|254780928|r 320 QKPVVFGSVGGGGRYDG-LVSR---FKGQN--VPATGFSIGISRLIVALKSLESSTNN---IKEMGPVLITTMDH-DSDS 389 (496) Q Consensus 320 ~~~~~~~aI~~GGRYD~-L~~~---f~~~~--~pavGfaigverl~~~l~~~~~~~~~---~~~~~~v~V~~~~~-~~~~ 389 (496) |--|.. |-.. +.|++ +.-..++|||.|++.|..+....... +....|..||+++. .... T Consensus 273 -----------G~kYS~~lna~f~~~~gKpe~l~MgCyGIGVtRllaAa~evls~~~~lrwP~~iAPy~vcli~pk~~~~ 341 (457) T KOG2324 273 -----------GTKYSKPLNAKFVNVEGKPEFLHMGCYGIGVTRLLAAAAEVLSDDKGLRWPSLIAPYKVCLIGPKKGSK 341 (457) T ss_pred -----------CCCCCCCCCCEEEEECCCCCEEEECCEECCHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCH T ss_conf -----------430154347655440598406874020004898999999981565543150002751347853688402 Q ss_pred HHHHHHHHHHHHHCCCE----EEEEEC--CCCCHHHHHHHHHHCCCCEEEEEC-HHHHHCCCEEEEECCCCCEEEEECCC Q ss_conf 99999999999987983----999718--999988999999877998999988-72874881899787888364331120 Q gi|254780928|r 390 LSKYQMYTQMLRTAGIR----AEMFLG--SSKNFGNQLKYADRRNCPLAIIQG-TGERSRGMLQIKDLAKGKELSREIKN 462 (496) Q Consensus 390 ~~~~~~ia~~Lr~~Gi~----~e~~~~--~~~sl~~~~~~A~~~g~~~viiig-~~e~~~~~v~vK~l~~g~q~~~~~~~ 462 (496) -..+.+++.+|-...+. -++.++ ...++++.++.|++.|+||+||+| ..-..+..+.|+-..+||-.+...+. T Consensus 342 ~q~~~ev~~el~~~~~~~~l~~~iLlddr~~ltiG~Ri~dA~~lG~PfviVvg~s~~~~~~~~EV~~~~~ge~~~l~~~~ 421 (457) T KOG2324 342 SQRAQEVISELLNDEAVGNLHGEILLDDREELTIGKRIKDANRLGIPFVIVVGNSASWDNPEIEVRTIRWGESAELDKDG 421 (457) T ss_pred HHHHHHHHHHHHCCHHHHHHCCCEECCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCEEEEEEEECCCEECCCHHH T ss_conf 31399999876043234443245001306663267766567754998799970334678965899982047320252566 Q ss_pred HHH----------HHHCCCCCEEECHHHHHHHH Q ss_conf 144----------32023351030799999999 Q gi|254780928|r 463 NES----------WREARVAQITIPISELVSTV 485 (496) Q Consensus 463 ~~~----------~~~~~~~q~~v~~~~l~~~~ 485 (496) +.. .++.-+.+-++|+..+++.+ T Consensus 422 ~~~l~~~~~~~~~~le~G~~~h~~~~~~~~~V~ 454 (457) T KOG2324 422 FMKLLSEVQWVCTKLEHGIEKHTVPIQHLAEVI 454 (457) T ss_pred HHHHHHHHHHEEHHHCCCCCCCCCHHHHHHHHH T ss_conf 888743242010023057544663777898773 No 34 >KOG1637 consensus Probab=99.83 E-value=3e-19 Score=144.18 Aligned_cols=370 Identities=16% Similarity=0.215 Sum_probs=228.8 Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCH Q ss_conf 03799876588668999999999999999985984801652022887520267554333221689869998899988883 Q gi|254780928|r 9 AELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLT 88 (496) Q Consensus 9 ~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT 88 (496) .++-.|.-.|+|..+++.+.+.+.++..++.+||+||.||.+=... |+..+|...+..++||+|.-. .+..+|.|.-. T Consensus 178 ~~lSPGS~FflP~G~~iyN~Lv~fir~ey~~rGf~EVitPniy~~~-LWe~SGHwqnY~enmF~~e~e-ke~~~LKPMNC 255 (560) T KOG1637 178 HELSPGSCFFLPHGTRIYNTLVDFIRAEYRKRGFTEVITPNIYNKK-LWETSGHWQNYSENMFKFEVE-KEEFALKPMNC 255 (560) T ss_pred CCCCCCCEEECCCCCHHHHHHHHHHHHHHHHCCCCEECCCCHHHHH-HHHHCCCHHHHHHHCEEEEEC-HHHHCCCCCCC T ss_conf 3579862453148642788999999999875387432272212156-665325255544310123101-03322586689 Q ss_pred HHHHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHH-HHH-HHHHHHHHHHHCCCC Q ss_conf 8999999951-12055411233101333025876--44--42111110001210000245-788-999999999751888 Q gi|254780928|r 89 APLARYVAEN-FDTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETA-DAE-MCMMMADTLEAVGIK 161 (496) Q Consensus 89 ~~~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~-DaE-ii~l~~~~l~~lgl~ 161 (496) +.-+-+.... .....+|+|..-+|.+.|+|-.+ .| |.|.|.|-++.||...+..- +.. ++.....++.-+|+ T Consensus 256 PgHcLmf~~r~rS~reLPlR~aDFg~LHRnE~SGaLsGLTRvRrFqQDDaHIFCt~~Qi~~Eik~~l~fl~~vY~~fgf- 334 (560) T KOG1637 256 PGHCLMFAHRDRSYRELPLRFADFGVLHRNEASGALSGLTRVRRFQQDDAHIFCTPDQVKEEIKGCLDFLDYVYGVFGF- 334 (560) T ss_pred CCCCCCCCCCCCCHHHCCCCCCCCCEEEECCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHHHHHCCC- T ss_conf 7530133667742744784226752253054564232210110110157158855763799998799999999861254- Q ss_pred CCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHH Q ss_conf 77711303660558999998325603564334555333220012896789986210165003555304899977899888 Q gi|254780928|r 162 RNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMV 241 (496) Q Consensus 162 ~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 241 (496) .|.+.+|.|-= ..+..+ +. |+.....|.+...+.-..+.-+.+- . T Consensus 335 --~f~l~lSTRPe--~~lG~l---~~--------------------Wd~AE~~L~~al~e~g~pw~lN~GD--------G 379 (560) T KOG1637 335 --TFKLNLSTRPE--KFLGDL---ET--------------------WDEAEFKLEEALNESGEPWVLNPGD--------G 379 (560) T ss_pred --CCEEEECCCHH--HHCCCH---HH--------------------HHHHHHHHHHHHHHHCCCCEECCCC--------C T ss_conf --20257416758--766578---88--------------------9999999999999709971422898--------5 Q ss_pred HHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCC Q ss_conf 74047856889989986035732588899999999998750888443001101001221234124899854666776766 Q gi|254780928|r 242 SFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQK 321 (496) Q Consensus 242 ~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~ 321 (496) .|. +++.-..+ .+++..-.+....-..+ .-++.||| .|-|- .+...+ T Consensus 380 AFY---GPKIDi~l----------~Dal~r~hQcaTIQLDF---qLP~rFdL------~y~~~-----------~g~~er 426 (560) T KOG1637 380 AFY---GPKIDITL----------DDALGRKHQCATIQLDF---QLPIRFDL------EYETE-----------DGDLER 426 (560) T ss_pred CEE---CCEEEEEH----------HHHCCCCCCEEEEEECC---CCHHHCCC------EEECC-----------CCCCCC T ss_conf 302---64332572----------43327610102566313---67333175------11046-----------665231 Q ss_pred CCCE-EEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHC-CCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHH Q ss_conf 6310-1100323235521112345677421331101689999973-6877665557714899826976899999999999 Q gi|254780928|r 322 PVVF-GSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSL-ESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQM 399 (496) Q Consensus 322 ~~~~-~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~-~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~ 399 (496) ++.+ +|| | | .++|.+.+|.+. ....+.+.++-.+.|+.++ ......|..+..+ T Consensus 427 PVmIHRAI------------l--------G---SvERmiaiL~E~~~gkwPFWlSPRq~~vIpVs--e~~~~ya~~V~~q 481 (560) T KOG1637 427 PVMIHRAI------------L--------G---SVERMIAILLESYGGKWPFWLSPRQAVVIPVS--EGPLDYATSVQKQ 481 (560) T ss_pred HHHHHHHH------------H--------H---HHHHHHHHHHHHHCCCCCEEECCCEEEEEECC--CCHHHHHHHHHHH T ss_conf 23589987------------5--------2---19999999999707999844546238999778--7403389999999 Q ss_pred HHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHH Q ss_conf 99879839997189999889999998779989999887287488189978788836433112014432023351030799 Q gi|254780928|r 400 LRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPIS 479 (496) Q Consensus 400 Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~ 479 (496) |+.+|+-++++++. .++.+.++.|.-.+..|.++||++|++.++|.||.....+. ..|.++.++ T Consensus 482 l~~a~f~~Dld~t~-~tl~kkir~Aqla~yn~i~VVGdkE~~~~~vnVr~Rd~~~~---------------~~~~~~tie 545 (560) T KOG1637 482 LEEAGFYVDLDPTD-STLRKKIRNAQLAHYNFIFVVGDKEVETGRVNVRTRDNRDN---------------KTESEMTIE 545 (560) T ss_pred HHHHHCEEECCCCC-CHHHHHHHHHHHCCCEEEEEECHHHHHCCCEEEEECCCCCC---------------CCCHHEEHH T ss_conf 98620066147763-56888886623225029999754565327478994357554---------------321023299 Q ss_pred HHHHHHHHHHH Q ss_conf 99999999998 Q gi|254780928|r 480 ELVSTVKKILQ 490 (496) Q Consensus 480 ~l~~~~~~~l~ 490 (496) ++.++++++-+ T Consensus 546 ~~~~~~~~l~~ 556 (560) T KOG1637 546 ELSDEFKELKS 556 (560) T ss_pred HHHHHHHHHHH T ss_conf 99999998675 No 35 >cd00779 ProRS_core_prok Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from prokaryotes and from the mitochondria of eukaryotes. Probab=99.76 E-value=1e-17 Score=134.26 Aligned_cols=154 Identities=20% Similarity=0.276 Sum_probs=127.7 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCC Q ss_conf 71037998765886689999999999999999859848016520228875202675543332216898699988999888 Q gi|254780928|r 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYD 86 (496) Q Consensus 7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpD 86 (496) |.-+.-.|+..|+|..+++++.|++.+++.+++.||++|.+|+|-+.+++ +..|..+....+||.+.|++++.++|||- T Consensus 15 ~i~~~~~G~~~~lP~G~~i~~~i~~~i~~~~~~~G~~ev~~P~l~~~~l~-~~sg~~~~f~~emf~v~d~~~~~~~L~PT 93 (255) T cd00779 15 FIRQTSSGLYSWLPLGLRVLKKIENIIREEMNKIGAQEILMPILQPAELW-KESGRWDAYGPELLRLKDRHGKEFLLGPT 93 (255) T ss_pred CCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHH-HHHCCCCCCCCCEEEEECCCCCEEEECCC T ss_conf 87657886278850299999999999999999859989976534738887-44253013687315445378877731688 Q ss_pred CHHHHHHHHHHHH-HHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHH---HHHHHHHHHHHHCC Q ss_conf 8389999999511-2055411233101333025-87644--4211111000121000024578---89999999997518 Q gi|254780928|r 87 LTAPLARYVAENF-DTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADA---EMCMMMADTLEAVG 159 (496) Q Consensus 87 lT~~~aR~~~~~~-~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~Da---Eii~l~~~~l~~lg 159 (496) --++++.++.... ....+|+|+|++++|||+| +|..| |.|||+|.+...|..+...++. .+...+.++|++|| T Consensus 94 ~E~~~~~~~~~~i~SyrdLPl~~~q~~~~fR~E~r~~~GllR~rEF~~~d~hsf~~~~e~a~~~~~~~~~~y~~i~~~Lg 173 (255) T cd00779 94 HEEVITDLVANEIKSYKQLPLNLYQIQTKFRDEIRPRFGLMRGREFLMKDAYSFDIDEESLEETYEKMYQAYSRIFKRLG 173 (255) T ss_pred CHHHHHHHHHHHCCCHHHCCEEEECCCCEECCCCCCCCCCCEEEEEEEEHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 74889999986503612257454135335425667886632431377002203569989999999999999999999839 Q ss_pred CC Q ss_conf 88 Q gi|254780928|r 160 IK 161 (496) Q Consensus 160 l~ 161 (496) ++ T Consensus 174 lp 175 (255) T cd00779 174 LP 175 (255) T ss_pred CC T ss_conf 98 No 36 >PRK12294 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional Probab=99.74 E-value=2.4e-17 Score=131.75 Aligned_cols=255 Identities=18% Similarity=0.254 Sum_probs=164.5 Q ss_pred HHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCCCHH Q ss_conf 99999999999859848016520228875202675543332216898699988999888838999999951120554112 Q gi|254780928|r 28 RILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFPCR 107 (496) Q Consensus 28 ~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~p~k 107 (496) .-+-.+.+-|..++|.-|+...+|..+ |+.....|-....-=+|--.++...+||.|+|-|+.|+++... +...| T Consensus 12 e~e~~flk~f~~~~y~~vdf~~ie~l~--w~~l~~~dlqqm~er~Fwqh~~~~~aLRnDFTdqL~RyYS~yp---~~~~r 86 (272) T PRK12294 12 ESETAFLKYFNKADYELVDFSVVEKLD--WKQLNHEDLQQMGERNFWQHEHQIYALRNDFTDQLLRYYSMYP---TAATK 86 (272) T ss_pred HHHHHHHHHHHHCCCCEEEEHHHHHHH--HHHCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHCCC---CCHHH T ss_conf 988999999987697187316876631--4322788899866668987278579963340589999997089---50020 Q ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHHCCCHH Q ss_conf 33101333025876444211111000121000024578899999999975188877711303660558999998325603 Q gi|254780928|r 108 TYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLHGD 187 (496) Q Consensus 108 ~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~lgi~~~ 187 (496) ..|.|+++|.++. ..|+|+|.++.+-....-+.+.++.-+-+.++... + .+.|||-.+++.+++.---. T Consensus 87 v~YaG~I~R~n~v-------~kQiGIE~y~ps~~~~~~~f~~f~~fI~~~L~d~i-~-fvilGhyQlld~Lld~s~Qt-- 155 (272) T PRK12294 87 VAYTGLIIRNNEA-------AVQVGLENYAPSLANVQQSLKLFIQFIQQQLRDNV-H-FVVLGHYQLLDALLDKSLQT-- 155 (272) T ss_pred HEECCHHHCCCHH-------HHHHCHHHCCCCHHHHHHHHHHHHHHHHHHHCCCC-E-EEEECHHHHHHHHHHCCCCC-- T ss_conf 0111222322237-------56414342485088899999999999999967896-1-99962799999998256466-- Q ss_pred HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHH Q ss_conf 56433455533322001289678998621016500355530489997789988874047856889989986035732588 Q gi|254780928|r 188 DKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLEKSMHELYELVKGTIAGEK 267 (496) Q Consensus 188 ~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 267 (496) ..++. +..+ ..+..+....+.+...+..+.+ .....+..+..++.+.-.+.. T Consensus 156 ------~~il~---------------li~E---rnls~li~kl~~~hpLv~lLKe----~t~nQL~~L~~lipndhp~~~ 207 (272) T PRK12294 156 ------PDILS---------------MIEE---RNLSGLVTYLSTEHPIVQILKE----NTQQQLNVLEHYIPNDHPALV 207 (272) T ss_pred ------HHHHH---------------HHHH---CCHHHHHHHCCCCCHHHHHHHH----HHHHHHHHHHHHCCCCCHHHH T ss_conf ------89999---------------9985---2788999860554379999866----557799888763788768999 Q ss_pred HHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCC Q ss_conf 89999999999875088844300110100122123412489985466677676663101100323235521112 Q gi|254780928|r 268 GFNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRF 341 (496) Q Consensus 268 ~l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f 341 (496) .+...-.-++..|+. .|.+|.+.+...+||||+.|.++...... .|.+||+||+=++-| T Consensus 208 ---sl~~w~~w~~~~gik--~IhLDit~qPprsYY~g~f~kc~~~~~~~----------~iLtGG~Y~g~legf 266 (272) T PRK12294 208 ---ELKIWERWLHTQGYK--DIHLDITAQPPRSYYTGLFIQCHFAENES----------RVLTGGYYKGSIEGF 266 (272) T ss_pred ---HHHHHHHHHHHCCCC--EEEEECCCCCCHHHHHHHHHHHHHHCCCC----------CCCCCCCCCCEEECC T ss_conf ---999999999876983--38874467895577776999999724678----------644377405611034 No 37 >TIGR00408 proS_fam_I prolyl-tRNA synthetase; InterPro: IPR004499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by IPR002314 from INTERPRO, which recognises tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi (Lyme desease spirochete). The other family, IPR004500 from INTERPRO, includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis sp. (strain PCC6803), and one of the two prolyl-tRNA synthetases of Saccharomyces cerevisiae (Baker's yeast).; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=99.74 E-value=3.5e-16 Score=124.25 Aligned_cols=345 Identities=17% Similarity=0.208 Sum_probs=209.5 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHC-------------------CCEEEECCCHHHHHHHHCCCC--CCCCCCC Q ss_conf 3799876588668999999999999999985-------------------984801652022887520267--5543332 Q gi|254780928|r 10 ELPRGFADCPTKEIRIRNRILDSIRNIYENY-------------------GFDPIETPLLEYSDSLGKFLP--DEDRPNK 68 (496) Q Consensus 10 ~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~-------------------G~~~I~tP~lE~~~~~~~~~~--~~~~~~k 68 (496) -..+|+.=|+|....+|+.|.+.+++.+.+- |-+++..|+|=+++.|.+-.. ++ .+- T Consensus 26 ypVKG~~v~~P~g~~iw~~iq~~~~~~~~~~~~~~~~~L~~F~P~~~~~Y~h~~v~fP~L~p~~~L~KEk~HikG--F~p 103 (533) T TIGR00408 26 YPVKGCYVFLPYGFKIWENIQKILRDKLDEIKLKDKVILKKFIPIESLPYGHEEVYFPMLIPESELEKEKDHIKG--FEP 103 (533) T ss_pred CCCCCEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHEECCCCCCHHHHHHHCCCCCC--CCC T ss_conf 760103784598778999999999999987643546766405677777777001005644525578632135688--584 Q ss_pred CEEEEECCCC----CEEEECCCCHHHHHHHHH-HHHHHCCCCHHHHHHHHHHCCCC--CCCC-CCCCCC--CCCHHHHHC Q ss_conf 2168986999----889998888389999999-51120554112331013330258--7644-421111--100012100 Q gi|254780928|r 69 GVFSLQDDDG----QWISLRYDLTAPLARYVA-ENFDTIVFPCRTYRIGPVFRNEK--HGPG-RFRQFI--QCDVDNVGS 138 (496) Q Consensus 69 ~~y~f~D~~g----~~l~LRpDlT~~~aR~~~-~~~~~~~~p~k~yy~g~vfR~e~--p~~G-r~REf~--Q~g~eiiG~ 138 (496) |+|=.++-|. +-|+|||=-=+.+.-+.+ .-.....+|+|+||+-+|||||. ++.- |.|||+ |=+==++-. T Consensus 104 Ev~wi~~~G~~~L~~pLaLRPTSEt~~y~m~~kWv~sy~DLPlk~nQw~~vfR~E~kHTRPflR~rEf~twqE~HT~H~t 183 (533) T TIGR00408 104 EVYWITHGGLKKLDEPLALRPTSETAMYNMYKKWVKSYRDLPLKINQWVNVFRYEKKHTRPFLRTREFLTWQEAHTAHAT 183 (533) T ss_pred HHHHEECCCCCCCCCCCEECCCCHHHHHHHHHHHHHHCCCCCEEEEEEEEEEECCCCCCCCCHHHHHHHCCCCCCCCCCC T ss_conf 00210103777246750125861788876578785121588768984358898021787861023332101000131437 Q ss_pred --CCHHHHHHHHHHHHHHHH-HCCCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH Q ss_conf --002457889999999997-51888777113036605589999983256035643345553332200128967899862 Q gi|254780928|r 139 --SAETADAEMCMMMADTLE-AVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLL 215 (496) Q Consensus 139 --~~~~~DaEii~l~~~~l~-~lgl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l 215 (496) ++..+=.+++.+..+++. .|+|+. .+ + ...++ +|+. T Consensus 184 ~~eAee~v~~~~~~Yk~f~~~~LaIP~---~~--g-------------~k~E~---------------eKFa-------- 222 (533) T TIGR00408 184 AEEAEEEVLKALDLYKEFIENLLAIPY---FV--G-------------RKSEK---------------EKFA-------- 222 (533) T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCE---EE--E-------------CCCCC---------------CCCC-------- T ss_conf 778899999999988999750288646---87--1-------------48875---------------5478-------- Q ss_pred HHCCCCHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHH Q ss_conf 10165003555304899977899888740478568899899860357325888999999999987508884430011010 Q gi|254780928|r 216 GEGRTDNSGDFTKGANLTSEQIDIMVSFLSIDLEKSMHELYELVKGTIAGEKGFNELVVISELVRKSGYNSNRIKISSTI 295 (496) Q Consensus 216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~i~~~l~~~gv~~~~i~~Dl~l 295 (496) ++.-.- .++. +-.++.+++.-. . .++|. .+| T Consensus 223 -------------GA~~T~-~~e~----imPDgG~~LQ~A----T--------sH~LG------qnF------------- 253 (533) T TIGR00408 223 -------------GAEYTW-TFET----IMPDGGRTLQIA----T--------SHDLG------QNF------------- 253 (533) T ss_pred -------------CCCCCE-EEEE----ECCCCCEEHHHH----H--------HHHHH------CCC------------- T ss_conf -------------876223-5675----247765001221----2--------11330------354------------- Q ss_pred CCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHH-----HHCCCCCC Q ss_conf 0122123412489985466677676663101100323235521112345677421331101689999-----97368776 Q gi|254780928|r 296 VRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVAL-----KSLESSTN 370 (496) Q Consensus 296 vRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l-----~~~~~~~~ 370 (496) +| .|++.+.... |...++.... -.+.|+| +|++.+| ++.+.-.| T Consensus 254 ~K--------~F~i~fe~p~---------------Gs~~~~~~ay-----q~s~G~S---tR~igali~~HsD~~GLVLP 302 (533) T TIGR00408 254 AK--------TFDIKFENPT---------------GSDMDKVYAY-----QTSYGIS---TRVIGALILIHSDEKGLVLP 302 (533) T ss_pred EE--------EEEEEEECCC---------------CCCCCCCCCE-----ECCCCHH---HHHHHHEEEEECCCCCCCCC T ss_conf 02--------0367887788---------------8976410100-----1013357---88754500012267775167 Q ss_pred CCCCCCEEEEEE---ECCC-----HHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHC Q ss_conf 655577148998---2697-----68999999999999987983999718999988999999877998999988728748 Q gi|254780928|r 371 NIKEMGPVLITT---MDHD-----SDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSR 442 (496) Q Consensus 371 ~~~~~~~v~V~~---~~~~-----~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~ 442 (496) +..++.+|.|+. +... ...+..|..+...|.+.+|||.++..++-.+|+++..++-+|||+-++||+++.+. T Consensus 303 p~vAp~Qvv~~Pv~IFkK~s~E~~~~~~e~a~~v~~~Lk~~~iRv~~D~~~~~~pG~kf~~~E~kGiPlR~evGP~D~~~ 382 (533) T TIGR00408 303 PRVAPIQVVIIPVIIFKKKSDEENKKVMELARKVEDKLKKLGIRVHLDKRDNYRPGKKFSKWELKGIPLRLEVGPNDIEK 382 (533) T ss_pred CCCCCEEEEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHCCEEEEEEECCCCCCCCCHHHCCCEEECCEEEEECCCCCCC T ss_conf 01273358999867755875214778999999999877304100797035575323132045333042699877751043 Q ss_pred CCEEEEECCCCC--EEEEECCCHHHHHHCCCCCEEECHHHHHHH-HHHHHHHHHHC Q ss_conf 818997878883--643311201443202335103079999999-99999864204 Q gi|254780928|r 443 GMLQIKDLAKGK--ELSREIKNNESWREARVAQITIPISELVST-VKKILQENKEE 495 (496) Q Consensus 443 ~~v~vK~l~~g~--q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~-~~~~l~~~~~~ 495 (496) |.|.|=-..+.+ .. .|+.++|.+. |.+++.+-+++ T Consensus 383 n~~~~~rR~~~~kfK~------------------~~~~~~L~~~k~~~~~~~~~~~ 420 (533) T TIGR00408 383 NIVVVSRRDTKRKFKY------------------QVSLDELEERKVVELLNEMQED 420 (533) T ss_pred CEEEEEEECCCCEEEE------------------EEEHHHHHHHHHHHHHHHHHHH T ss_conf 7689999617713557------------------7205454467899999999999 No 38 >cd00772 ProRS_core Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. Probab=99.73 E-value=6.8e-17 Score=128.88 Aligned_cols=152 Identities=22% Similarity=0.282 Sum_probs=124.1 Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCC-CCCCEEEEECCCCCE----EEE Q ss_conf 037998765886689999999999999999859848016520228875202675543-332216898699988----999 Q gi|254780928|r 9 AELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDR-PNKGVFSLQDDDGQW----ISL 83 (496) Q Consensus 9 ~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~-~~k~~y~f~D~~g~~----l~L 83 (496) -..-+|+.-|+|...+++++|.+.+++.+++.|+++|.+|+|-+.+++.+. |..+. ...+++.++|++++. ++| T Consensus 18 ~~~~~G~~~~lP~G~~i~~ki~~~i~~e~~~~G~qev~~P~l~p~~lw~ks-gr~~~~~~~e~~~~~~~~~~~~e~~~~L 96 (264) T cd00772 18 QGPGRGIINFLPLAKAILDKIENVLDKMFKEHGAQNALFPFFILASFLEKE-AEHDEGFSKELAVFKDAGDEELEEDFAL 96 (264) T ss_pred CCCCCCEEEECHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHC-CCHHHCCCCCEEEEEECCCCCCCCCCCC T ss_conf 489887588890599999999999999999829949812567998999976-9844437852379973487421235201 Q ss_pred CCCCHHHHHHHHHHHH-HHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHH---HHHHHHHHHHH Q ss_conf 8888389999999511-2055411233101333025-87644--4211111000121000024578---89999999997 Q gi|254780928|r 84 RYDLTAPLARYVAENF-DTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADA---EMCMMMADTLE 156 (496) Q Consensus 84 RpDlT~~~aR~~~~~~-~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~Da---Eii~l~~~~l~ 156 (496) ||---..++.++.... ....+|+|+|+++++||+| +|..| |-|||+|-+...|-.+...++. +++.+..++++ T Consensus 97 ~PT~Ee~~~~~~~~~i~SyrdLPl~lyQ~~~~fR~E~r~r~GllR~REFlmkDahsf~~t~e~a~~~y~~~~~~Y~~if~ 176 (264) T cd00772 97 RPTLEENIGEIAAKFIKSWKDLPQHLNQIGNKFRDEIRPRFGFLRAREFIMKDGHSAHADAEEADEEFLNMLSAYAEIAR 176 (264) T ss_pred CCCCCHHHHHHHHHHCCCHHHCCHHHHHHHHHHHCCCCCCCCCHHHEEEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHH T ss_conf 67786899999986407665579778765578605788554332320434110353259999999999999999999999 Q ss_pred HCC-CC Q ss_conf 518-88 Q gi|254780928|r 157 AVG-IK 161 (496) Q Consensus 157 ~lg-l~ 161 (496) ++| ++ T Consensus 177 ~lg~lp 182 (264) T cd00772 177 DLAAID 182 (264) T ss_pred HHCCCC T ss_conf 966985 No 39 >cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. Probab=99.72 E-value=9.5e-17 Score=127.91 Aligned_cols=90 Identities=34% Similarity=0.568 Sum_probs=77.7 Q ss_pred CEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCE Q ss_conf 71489982697689999999999999879839997189999889999998779989999887287488189978788836 Q gi|254780928|r 376 GPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKE 455 (496) Q Consensus 376 ~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q 455 (496) .+|+|++++ .+...++..+++.||++|++|++++. ++++++|+++|++.|+||++|+|++|.++|+|+||||.||+| T Consensus 2 vdv~ii~~~--~~~~~~a~~i~~~LR~~gi~v~~~~~-~~~l~kqlk~A~k~~~~~~iiiG~~E~~~~~v~iK~~~t~~q 78 (91) T cd00859 2 VDVYVVPLG--EGALSEALELAEQLRDAGIKAEIDYG-GRKLKKQFKYADRSGARFAVILGEDELAAGVVTVKDLETGEQ 78 (91) T ss_pred CEEEEEEEC--HHHHHHHHHHHHHHHHCCCCEEEEEC-CCCHHHHHHHHHHHCCCEEEEECCHHHHCCEEEEEECCCCCE T ss_conf 489999818--69999999999999988993999736-887889999999709988999865142169799999999958 Q ss_pred EEEECCCHHHHHHCCCCCEEECHHHHHHHHH Q ss_conf 4331120144320233510307999999999 Q gi|254780928|r 456 LSREIKNNESWREARVAQITIPISELVSTVK 486 (496) Q Consensus 456 ~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~ 486 (496) . ++|+++++++|| T Consensus 79 ~------------------~i~~~eli~~lK 91 (91) T cd00859 79 E------------------TVALDELVEELK 91 (91) T ss_pred E------------------EEEHHHHHHHHC T ss_conf 9------------------988999999759 No 40 >cd00771 ThrRS_core Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. Probab=99.71 E-value=1.4e-16 Score=126.74 Aligned_cols=158 Identities=20% Similarity=0.290 Sum_probs=128.9 Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHH Q ss_conf 79987658866899999999999999998598480165202288752026755433322168986999889998888389 Q gi|254780928|r 11 LPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAP 90 (496) Q Consensus 11 ~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~ 90 (496) .-.|+.-|+|..+.+++.+++.+++....+||++|.||.+-..+++ +.+|..+....+||.+ +..++.++|||--.++ T Consensus 18 ~g~G~~~w~P~G~~i~~~L~~~ir~~~~~~Gy~eV~tP~i~~~~Lw-~~SGH~~~y~e~mf~~-~~~~~~~~LkPmnCp~ 95 (298) T cd00771 18 AGPGLPFWLPKGAIIRNELEDFLRELQRKRGYQEVETPIIYNKELW-ETSGHWDHYRENMFPF-EEEDEEYGLKPMNCPG 95 (298) T ss_pred CCCCCEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHH-HHCCCCCCCCCCEEEE-EECCCCEEEECCCCHH T ss_conf 6676578838889999999999999999869989988612665567-5477631136856888-8625416885068688 Q ss_pred HHHHHHHHH-HHCCCCHHHHHHHHHHCCCCCC--CC--CCCCCCCCCHHHHHCCCHHH-HH-HHHHHHHHHHHHCCCCCC Q ss_conf 999999511-2055411233101333025876--44--42111110001210000245-78-899999999975188877 Q gi|254780928|r 91 LARYVAENF-DTIVFPCRTYRIGPVFRNEKHG--PG--RFRQFIQCDVDNVGSSAETA-DA-EMCMMMADTLEAVGIKRN 163 (496) Q Consensus 91 ~aR~~~~~~-~~~~~p~k~yy~g~vfR~e~p~--~G--r~REf~Q~g~eiiG~~~~~~-Da-Eii~l~~~~l~~lgl~~~ 163 (496) -+-++.... ....+|+|++.+|+|||+|..+ .| |.|+|+|.++.||...+... |. .++.++.++++.+|++ T Consensus 96 h~~i~~~~~~SYrdLPlR~~E~g~~~R~E~sG~L~GL~RvR~FtqdDaHiFc~~eQ~~~E~~~~~~~~~~vy~~fG~~-- 173 (298) T cd00771 96 HCLIFKSKPRSYRDLPLRLAEFGTVHRYEQSGALHGLTRVRGFTQDDAHIFCTPDQIKEEIKGVLDLIKEVYSDFGFF-- 173 (298) T ss_pred HHHHHHCCCCCHHHCCHHHHCCCCEECCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHHHCCC-- T ss_conf 999986355673434676520750554767767557445556745763244168899999999999999999982887-- Q ss_pred CCEEECCCC Q ss_conf 711303660 Q gi|254780928|r 164 DYHIGINNR 172 (496) Q Consensus 164 ~~~I~in~~ 172 (496) ++.+.++-+ T Consensus 174 ~~~~~ls~r 182 (298) T cd00771 174 DYKVELSTR 182 (298) T ss_pred CCEEEEECC T ss_conf 324899647 No 41 >cd00778 ProRS_core_arch_euk Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from archaea, the cytoplasm of eukaryotes and some bacteria. Probab=99.67 E-value=9e-16 Score=121.57 Aligned_cols=149 Identities=17% Similarity=0.134 Sum_probs=113.7 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCC----CCEEEECC Q ss_conf 37998765886689999999999999999859848016520228875202675543332216898699----98899988 Q gi|254780928|r 10 ELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDD----GQWISLRY 85 (496) Q Consensus 10 ~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~----g~~l~LRp 85 (496) ..-+|+.-|+|...++++.|++.+++.++++||++|.||++-+.+++++.++..+....+||.+.+.+ ++.++|+| T Consensus 19 ~pv~G~~~~lP~G~~i~~~l~~~~r~~~~~~G~~ev~~P~l~~~~~~~k~sgh~~~y~~emf~v~~~g~~~~d~~y~LkP 98 (261) T cd00778 19 GPVKGCMVFRPYGYAIWENIQKILDKEIKETGHENVYFPLLIPESELEKEKEHIEGFAPEVAWVTHGGLEELEEPLALRP 98 (261) T ss_pred CCCCCEEEECCCHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHCHHHCCCCCCEEEECCCCCCCCCCCCCCC T ss_conf 79983088863289999999999999999869969988332788999974281430576533552168520135603478 Q ss_pred CCHHHHHHHHHHHH-HHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCHHHHHH---HHHHHHHHHHHC Q ss_conf 88389999999511-2055411233101333025-87644--42111110001210000245788---999999999751 Q gi|254780928|r 86 DLTAPLARYVAENF-DTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAETADAE---MCMMMADTLEAV 158 (496) Q Consensus 86 DlT~~~aR~~~~~~-~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~~~DaE---ii~l~~~~l~~l 158 (496) ---+.++.++.... +...+|+|+|++|+|||+| ++..| |.|||+|-++..|-.+...+..| ++.++.+++..+ T Consensus 99 mne~~~~~i~~~~~~SYRdLPlrl~q~g~~~R~E~s~~~gL~RvReF~~dDahs~~~t~eq~~~e~~~~~~~y~~i~~~l 178 (261) T cd00778 99 TSETAIYPMFSKWIRSYRDLPLKINQWVNVFRWETKTTRPFLRTREFLWQEGHTAHATEEEAEEEVLQILDLYKEFYEDL 178 (261) T ss_pred CCHHHHHHHHHHHHCCCCCCCHHHHHCCCEECCCCCCCCCCCEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 88699999997350540227825553042243778888765325425234233655899999999999999999999984 No 42 >cd00768 class_II_aaRS-like_core Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial ATP phosphoribosyltransferase regulatory subunit HisZ. Probab=99.64 E-value=1.3e-15 Score=120.60 Aligned_cols=132 Identities=31% Similarity=0.489 Sum_probs=111.8 Q ss_pred HHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCC Q ss_conf 99999999999999859848016520228875202675543332216898699988999888838999999951120554 Q gi|254780928|r 25 IRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVF 104 (496) Q Consensus 25 ~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~ 104 (496) ++++|++.+++.+..+||++|.||++...+++.+.+.. .+.++.+.+..+..++|||-.++++++++..+. ..+ T Consensus 1 ~r~~ie~~~r~~~~~~G~~ev~~P~l~~~~~~~~sg~~----~~~~~~~~~~~~~~~~L~pt~e~~~~~~~~~~~--~dL 74 (211) T cd00768 1 IRSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHE----PKDLLPVGAENEEDLYLRPTLEPGLVRLFVSHI--RKL 74 (211) T ss_pred CHHHHHHHHHHHHHHCCCEEEECCEECCHHHHHHCCCC----HHHHHHHCCCCCCEEEEECCCCHHHHHHHHHHH--HHC T ss_conf 97899999999999869989999834279999750676----222301104679769995168499999975247--657 Q ss_pred CHHHHHHHHHHCCCCCCCC--CCCCCCCCCHHHHHCCCHHHH--HHHHHHHHHHHHHCCCCC Q ss_conf 1123310133302587644--421111100012100002457--889999999997518887 Q gi|254780928|r 105 PCRTYRIGPVFRNEKHGPG--RFRQFIQCDVDNVGSSAETAD--AEMCMMMADTLEAVGIKR 162 (496) Q Consensus 105 p~k~yy~g~vfR~e~p~~G--r~REf~Q~g~eiiG~~~~~~D--aEii~l~~~~l~~lgl~~ 162 (496) |+|+|++++|||+|..++| |.|||+|.+..+|+.+...++ .+++..+.++++.||++. T Consensus 75 P~r~~~~~~~fR~E~~~~Gl~RvreF~~~e~~~f~~~~~~~~~~~~~~~~~~~i~~~lgl~~ 136 (211) T cd00768 75 PLRLAEIGPAFRNEGGRRGLRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLRALGIKL 136 (211) T ss_pred CHHHHEECCEECCCCCCCCCCCCCCEEEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 77864320056057888884460468898479998848889999999999999999749988 No 43 >cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. Probab=99.59 E-value=2.2e-14 Score=112.56 Aligned_cols=90 Identities=21% Similarity=0.383 Sum_probs=75.9 Q ss_pred CEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCE Q ss_conf 71489982697689999999999999879839997189999889999998779989999887287488189978788836 Q gi|254780928|r 376 GPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKE 455 (496) Q Consensus 376 ~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q 455 (496) .+|.|+++ ..+...+|.+++.+||++||+|+++.. +.++++++++|++.|+||++|+|++|+++|+|+||++.+|+| T Consensus 2 ~QV~Iipi--~~~~~~ya~~i~~~Lr~~girv~~D~~-~~~lg~ki~~a~~~~ip~~iiiG~~E~~~~~v~vr~r~~~~q 78 (91) T cd00860 2 VQVVVIPV--TDEHLDYAKEVAKKLSDAGIRVEVDLR-NEKLGKKIREAQLQKIPYILVVGDKEVETGTVSVRTRDGGDL 78 (91) T ss_pred EEEEEEEE--CHHHHHHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHHCCCEEEEECHHHHHCCEEEEEECCCCCE T ss_conf 28999988--887999999999999988998999658-898759999999819998999960465389799999899936 Q ss_pred EEEECCCHHHHHHCCCCCEEECHHHHHHHHH Q ss_conf 4331120144320233510307999999999 Q gi|254780928|r 456 LSREIKNNESWREARVAQITIPISELVSTVK 486 (496) Q Consensus 456 ~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~ 486 (496) .+ +|++++++.+| T Consensus 79 ~~------------------v~~~~~i~~lk 91 (91) T cd00860 79 GS------------------MSLDEFIEKLK 91 (91) T ss_pred EE------------------EEHHHHHHHHC T ss_conf 78------------------77999999749 No 44 >pfam03129 HGTP_anticodon Anticodon binding domain. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases it is probably the anticodon binding domain. Probab=99.59 E-value=3.4e-14 Score=111.32 Aligned_cols=92 Identities=25% Similarity=0.428 Sum_probs=79.4 Q ss_pred EEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEE Q ss_conf 14899826976899999999999998798399971899998899999987799899998872874881899787888364 Q gi|254780928|r 377 PVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKEL 456 (496) Q Consensus 377 ~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~ 456 (496) +|.|++++.+......|..+++.||++||+|++++. +.++++++++|++.|+||++|+|++|+++|+|+||+|.+|+|. T Consensus 1 qV~Vipi~~~~~~~~~a~~i~~~Lr~~gi~v~~d~~-~~~~~~k~~~a~~~g~p~~iiiG~~E~~~~~v~ik~r~~~~~~ 79 (93) T pfam03129 1 QVVVIPLGEKDELEDYAQKLAEELREAGIRVELDDR-NESLGKKFRDADLIGIPFRLVVGEKELENGTVTVRDRDTGEKE 79 (93) T ss_pred CEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHHCCCEEEEECHHHHHCCEEEEEECCCCCEE T ss_conf 999998228676899999999999878997999889-9997899998987099907889778885898999999999788 Q ss_pred EEECCCHHHHHHCCCCCEEECHHHHHHHHHH Q ss_conf 3311201443202335103079999999999 Q gi|254780928|r 457 SREIKNNESWREARVAQITIPISELVSTVKK 487 (496) Q Consensus 457 ~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~ 487 (496) +++++++++.+++ T Consensus 80 ------------------~v~~~~~~~~i~~ 92 (93) T pfam03129 80 ------------------TVSLEELVEKLKE 92 (93) T ss_pred ------------------EEEHHHHHHHHHH T ss_conf ------------------9879999999974 No 45 >cd00670 Gly_His_Pro_Ser_Thr_tRS_core Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. These enzymes belong to class II aminoacyl-tRNA synthetases (aaRS) based upon their structure and the presence of three characteristic sequence motifs in the core domain. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ and the accessory subunit of mitochondrial polymerase gamma (Pol gamma b) . Most class II tRNA synthetases are dimers, with this subgroup consisting of mostly homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. Probab=99.58 E-value=1.9e-14 Score=112.99 Aligned_cols=146 Identities=20% Similarity=0.301 Sum_probs=118.3 Q ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCC----CCEEEECCCCHHHHHHHHHHH Q ss_conf 9999999999999999859848016520228875202675543332216898699----988999888838999999951 Q gi|254780928|r 23 IRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDD----GQWISLRYDLTAPLARYVAEN 98 (496) Q Consensus 23 ~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~----g~~l~LRpDlT~~~aR~~~~~ 98 (496) +++++.+.+.+.+.+.++||++|.+|.|-..+++... |..+....+||.+.|.+ ++.++|+|-.-+|++.++... T Consensus 2 a~L~~aL~~~~~~~~~~~G~~~v~~P~l~~~~~~~~s-g~~~~f~~~~y~v~~~~~~~~~~~~~L~PTsE~~~~~~~~~~ 80 (235) T cd00670 2 TALWRALERFLDDRMAEYGYQEILFPFLAPTVLFFKG-GHLDGYRKEMYTFEDKGRELRDTDLVLRPAACEPIYQIFSGE 80 (235) T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHC-CCCCCCCCCEEEEECCCCCCCCCCEEEEECCCHHHHHHHHCC T ss_conf 8899999999999999869989989855789999223-867545205289823776667873899307869999999483 Q ss_pred HH-HCCCCHHHHHHHHHHCCCCC-CCC--CCCCCCCCCHHHHHCCCH--HHHHHHHHHHHHHHHHCCCCCCCCEEECCCC Q ss_conf 12-05541123310133302587-644--421111100012100002--4578899999999975188877711303660 Q gi|254780928|r 99 FD-TIVFPCRTYRIGPVFRNEKH-GPG--RFRQFIQCDVDNVGSSAE--TADAEMCMMMADTLEAVGIKRNDYHIGINNR 172 (496) Q Consensus 99 ~~-~~~~p~k~yy~g~vfR~e~p-~~G--r~REf~Q~g~eiiG~~~~--~~DaEii~l~~~~l~~lgl~~~~~~I~in~~ 172 (496) .. ...+|+|++++++|||+|.. .+| |.|||+|.+..+|+.+.. ..-.+++..+.++++.||++ |.+.+... T Consensus 81 i~s~~dLPlr~~~~s~~fR~E~~~~~Gl~Rv~eF~k~E~~~~~~~e~~~~~~~~~~~~~~~i~~~L~l~---y~v~~~~~ 157 (235) T cd00670 81 ILSYRALPLRLDQIGPCFRHEPSGRRGLMRVREFRQVEYVVFGEPEEAEEERREWLELAEEIARELGLP---VRVVVADD 157 (235) T ss_pred CCCHHHCCEEEEEECCEECCCCCCCCCCEEEEEEEEEEEEEEECHHHHHHHHHHHHHHHHHHHHHCCCC---EEEEECCC T ss_conf 287687995454456533367899999836789998507999688999999999999999999986997---79997586 No 46 >KOG2298 consensus Probab=99.53 E-value=6.8e-12 Score=96.39 Aligned_cols=417 Identities=19% Similarity=0.215 Sum_probs=216.1 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHH-HCCCEEEECCCHHHHHHHHCCCCCCCCCCC---------------------- Q ss_conf 998765886689999999999999999-859848016520228875202675543332---------------------- Q gi|254780928|r 12 PRGFADCPTKEIRIRNRILDSIRNIYE-NYGFDPIETPLLEYSDSLGKFLPDEDRPNK---------------------- 68 (496) Q Consensus 12 P~G~~D~~p~~~~~~~~i~~~l~~~f~-~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k---------------------- 68 (496) ..|.+||.|..+.++..|.+.||+-|- .-+--||+.|++-+.+.|..++- -|...- T Consensus 35 VsGLyD~GP~Gcalk~Nil~~WRkhFilEE~MlEvdct~ltP~~VlkaSGH-VdkF~D~mvkD~ktGecfRADHLvk~~~ 113 (599) T KOG2298 35 VSGLYDFGPPGCALKSNILSLWRKHFILEEDMLEVDCTMLTPEPVLKASGH-VDKFADWMVKDEKTGECFRADHLVKDAE 113 (599) T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCEEECCCCCCCHHHHHCCCC-HHHHHHHHHCCCCCCCEEHHHHHHHHHH T ss_conf 332212599860567769999999874130204401675780887634664-6666677740755652220567889999 Q ss_pred -------------------------------------------------------CEEE-EECCC-CCEEEECCCCH--- Q ss_conf -------------------------------------------------------2168-98699-98899988883--- Q gi|254780928|r 69 -------------------------------------------------------GVFS-LQDDD-GQWISLRYDLT--- 88 (496) Q Consensus 69 -------------------------------------------------------~~y~-f~D~~-g~~l~LRpDlT--- 88 (496) .||. .+-++ +-.--|||+-. T Consensus 114 ~rl~~~~~~~~~~e~e~iLa~~d~~s~~el~~~~~kyni~sP~tgn~Ls~p~~FNLMF~T~IGpsG~~kgyLRPETAQG~ 193 (599) T KOG2298 114 ERLKKKASAEVKAEMEKILAKLDGYSGQELGELISKYNIKSPVTGNDLSEPRQFNLMFETQIGPSGGLKGYLRPETAQGQ 193 (599) T ss_pred HHHHCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCCC T ss_conf 86201122677888999998750787588888998615789876887677711110011121677785543274001231 Q ss_pred -HHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCH--------HHHHHHHHHHHHHHH Q ss_conf -899999995112055411233101333025-87644--421111100012100002--------457889999999997 Q gi|254780928|r 89 -APLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAE--------TADAEMCMMMADTLE 156 (496) Q Consensus 89 -~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~--------~~DaEii~l~~~~l~ 156 (496) +.+-|.+--|+ ..+|+--.+||+.||+| .|.+| |.|||+++-+|-|-.+.. .++.++..+-.+. + T Consensus 194 FlNFkrlle~N~--~KlPFA~AqiG~~fRNEISpRsGLlRvrEF~maEIEHFvdP~~K~h~kF~~V~~~~l~l~~~~~-q 270 (599) T KOG2298 194 FLNFKRLLEFNQ--GKLPFASAQIGKSFRNEISPRSGLLRVREFTMAEIEHFVDPLLKSHPKFSLVAAEKLRLFPRDK-Q 270 (599) T ss_pred CCCHHHHHHHCC--CCCCCHHHHHCHHHHHCCCCCCCCEEEEEEEHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCHHH-H T ss_conf 014899987528--8776348874657651337555743678754677653489777787366655431554233234-4 Q ss_pred HCCCCCCCCEE-------ECCC------CHHHHHHHHHHCCCHHHHHHHHHHH-----HHHHHHCC-----CCCHHHHHH Q ss_conf 51888777113-------0366------0558999998325603564334555-----33322001-----289678998 Q gi|254780928|r 157 AVGIKRNDYHI-------GINN------RKILDGILEKIGLHGDDKLNERLIV-----LRAIDKLD-----KFGLQGVKL 213 (496) Q Consensus 157 ~lgl~~~~~~I-------~in~------~~il~~il~~lgi~~~~~~~~~~~~-----~~~idkl~-----k~~~~~~~~ 213 (496) .-|-.....+| .+|+ .+-+..++..+|+..+. ++.++.. ..+.|..| -.+|-+-. T Consensus 271 ~~g~~a~~~~lgEaV~kg~V~netlGyfi~Ri~~fL~~lGid~~r-lRFRqH~~nEMAHYA~DCWDaEi~tSYGWIEcV- 348 (599) T KOG2298 271 LSGQSAQKVALGEAVAKGTVNNETLGYFIGRIYLFLNKLGIDKER-LRFRQHMANEMAHYAFDCWDAEIKTSYGWIECV- 348 (599) T ss_pred HCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCHHH-CCHHHHHHHHHHHHHCCCCCHHHHHCCCCEEEE- T ss_conf 346505674798998760445303678899999999984765532-106777653333330153223242102757874- Q ss_pred HHHHCCCCHHH-HHH---CCCC--CCHH-HH--HHHHHHHCCCCH-HHH-HHHHHHHCCCHHH--HHHHHHHHHHHHHHH Q ss_conf 62101650035-553---0489--9977-89--988874047856-889-9899860357325--888999999999987 Q gi|254780928|r 214 LLGEGRTDNSG-DFT---KGAN--LTSE-QI--DIMVSFLSIDLE-KSM-HELYELVKGTIAG--EKGFNELVVISELVR 280 (496) Q Consensus 214 ~l~~~~~~~~~-~~~---~~~~--~~~~-~~--~~~~~~~~~~~~-~~~-~~l~~~~~~~~~~--~~~l~~l~~i~~~l~ 280 (496) +..|.+. ++. +..+ +..+ .. ++-.+....... +.+ ...++-.+..... ...-+++......|. T Consensus 349 ----G~ADRs~yDL~~Hs~~t~~~Lv~~~kl~ePkeve~~~i~~~kk~~g~~fk~~ak~v~~~l~~~s~~e~~~~~~~L~ 424 (599) T KOG2298 349 ----GCADRAAYDLSTHSRASKVWLVAELRLREPKEVEFAVIPPNKKELGCAFKKDAKGVNETLIFPSGKELIETLENLG 424 (599) T ss_pred ----ECCCHHHEEEECCCCCCCCCEEEHHHCCCCCEEEEEEECCCHHHCCHHHHHCCCCHHHHHHCCCHHHHHHHHHHHH T ss_conf ----1043544233247655677655111048860688988644244306123413510357760587889999999762 Q ss_pred HCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCC--CCCCCCCCCC-CEEEECCHH Q ss_conf 5088844300110100122123412489985466677676663101100323235521--1123456774-213311016 Q gi|254780928|r 281 KSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLV--SRFKGQNVPA-TGFSIGISR 357 (496) Q Consensus 281 ~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~--~~f~~~~~pa-vGfaigver 357 (496) ..|. +.+ |+ |+..-. ...=+|+-... ..+ +|- +-=|||+-| T Consensus 425 ~~g~----~~~----------~v---~~l~k~---------------~v~i~~~~k~~hV~e~----~P~VIEPSfGiGR 468 (599) T KOG2298 425 DHGL----LHM----------YV---VNLSKL---------------HVRIKRKTKVPHVREV----NPDVIEPSFGIGR 468 (599) T ss_pred CCCC----EEE----------EE---EECCCC---------------EEEEEEEEEEEEEEEE----CCCCCCCCCHHHH T ss_conf 1773----899----------98---740321---------------0455202422457861----6875545400467 Q ss_pred HHHHHHHCCCC-----------CCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHH Q ss_conf 89999973687-----------7665557714899826976899999999999998798399971899998899999987 Q gi|254780928|r 358 LIVALKSLESS-----------TNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADR 426 (496) Q Consensus 358 l~~~l~~~~~~-----------~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~ 426 (496) |+.+|-++.-. .++...+..|.|.+++.+.+.......+.+.|+++||.+-++. ++-|+++.+...+. T Consensus 469 I~Y~l~EHsF~R~~de~R~~~sfpp~vAPiK~~v~pls~n~ef~pv~~~ls~~L~~~gis~kvdd-s~~SIGrrYAr~DE 547 (599) T KOG2298 469 ISYQLTEHSFTRKGDEQRKVLSFPPLVAPIKVALDPLSPNLEFRPVCQGLSNELTENGISVKVDD-SSSSIGRRYARTDE 547 (599) T ss_pred HHHHHHHHHHCCCCCCCCCEECCCCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEECC-CCCCHHHHHHCCCC T ss_conf 88998765515676545643314765363489997236732578999999999986787699657-78747653213553 Q ss_pred CCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHHHHH Q ss_conf 7998999988728748818997878883643311201443202335103079999999999998642 Q gi|254780928|r 427 RNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQENK 493 (496) Q Consensus 427 ~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~~~~ 493 (496) .|+||.|.+..+.+++++|++|+..|- .|+.+.++++...|.+++.-.+ T Consensus 548 lgipFgiTvDfdtlk~~tVTlReRdS~------------------~QvR~~i~e~~s~v~~~~~g~~ 596 (599) T KOG2298 548 LGIPFGVTVDFDTLKNGTVTLRERDST------------------MQVRMHISKLKSFLIKYISGAK 596 (599) T ss_pred CCCCEEEEECHHHHCCCEEEEEECCCH------------------HHHHHHHHHHHHHHHHHHCCCC T ss_conf 367437997442413760798615428------------------8787639989999999960465 No 47 >cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b). Probab=99.52 E-value=2.4e-13 Score=105.77 Aligned_cols=90 Identities=20% Similarity=0.265 Sum_probs=74.4 Q ss_pred CCEEEEEEECCC-HHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCC Q ss_conf 771489982697-6899999999999998798399971899998899999987799899998872874881899787888 Q gi|254780928|r 375 MGPVLITTMDHD-SDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKG 453 (496) Q Consensus 375 ~~~v~V~~~~~~-~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g 453 (496) |.+|.|+++..+ .+...+|.+++++|+++||+|+++.. +.++++++++|+..|+||++|+|++|+++|+|++|++.+| T Consensus 1 P~qv~Iipi~~~~~e~~~~a~~l~~~L~~~gi~v~~Ddr-~~~~g~k~~~a~~~giP~~iiiG~~e~e~~~v~vr~r~~~ 79 (94) T cd00738 1 PIDVAIVPLTDPRVEAREYAQKLLNALLANGIRVLYDDR-ERKIGKKFREADLRGVPFAVVVGEDELENGKVTVKSRDTG 79 (94) T ss_pred CEEEEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHCCCCEEEEECCHHHHCCEEEEEECCCC T ss_conf 919999984389778999999999999988998999879-9997599999997499899998800343798999998999 Q ss_pred CEEEEECCCHHH Q ss_conf 364331120144 Q gi|254780928|r 454 KELSREIKNNES 465 (496) Q Consensus 454 ~q~~~~~~~~~~ 465 (496) +|..+.++++.+ T Consensus 80 eq~~v~~~e~~~ 91 (94) T cd00738 80 ESETLHVDELPE 91 (94) T ss_pred CEEEEEHHHHHH T ss_conf 778989999888 No 48 >cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. Probab=99.43 E-value=3e-12 Score=98.72 Aligned_cols=101 Identities=15% Similarity=0.211 Sum_probs=85.2 Q ss_pred CCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEE Q ss_conf 66555771489982697689999999999999879839997189999889999998779989999887287488189978 Q gi|254780928|r 370 NNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKD 449 (496) Q Consensus 370 ~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~ 449 (496) +.+-+|..|.|+++..+.+....|..++++|+++||+|+++. ++ ++++.++.|+..|+||.++||++++++|+|+||+ T Consensus 21 P~~lAP~qv~IiPi~~~d~~~~~a~~i~~~L~~~gi~v~~Dd-~~-s~G~K~~~~d~~giP~~ivIg~~~le~~~VtiR~ 98 (121) T cd00858 21 PPALAPIKVAVLPLVKRDELVEIAKEISEELRELGFSVKYDD-SG-SIGRRYARQDEIGTPFCVTVDFDTLEDGTVTIRE 98 (121) T ss_pred CCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHCCCEEEEEC-CC-CHHHHHHHHHHHCCCEEEEEECCEECCCEEEEEE T ss_conf 886388379999741607779999999999987797799703-88-8314446788748983999927610378799999 Q ss_pred CCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHH Q ss_conf 78883643311201443202335103079999999999998 Q gi|254780928|r 450 LAKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQ 490 (496) Q Consensus 450 l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~ 490 (496) ..|++ |.+|+++++++.++++++ T Consensus 99 Rdt~~------------------q~~v~i~el~~~i~~llk 121 (121) T cd00858 99 RDSMR------------------QVRVKIEELPSYLRELIR 121 (121) T ss_pred CCCCC------------------EEEEEHHHHHHHHHHHHC T ss_conf 89995------------------789999999999999859 No 49 >KOG4163 consensus Probab=99.22 E-value=1.5e-09 Score=81.19 Aligned_cols=342 Identities=18% Similarity=0.152 Sum_probs=192.9 Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCC-----CEEEEC Q ss_conf 7998765886689999999999999999859848016520228875202675-5433322168986999-----889998 Q gi|254780928|r 11 LPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDG-----QWISLR 84 (496) Q Consensus 11 ~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g-----~~l~LR 84 (496) -.+|++=+-|-.+.+++.|.+-+-..++.-|-+....|+|-....+-+--.. .+ ..-++ ....++| +-++.| T Consensus 86 dvsGcyilRP~s~aIWe~Iq~wfd~~ik~lGv~ncYFPmfVs~~~LEkEk~Hve~-FaPEv-AwVTr~G~seLeepiaiR 163 (551) T KOG4163 86 DVSGCYILRPWSYAIWEAIQDWFDAEIKKLGVKNCYFPMFVSKSVLEKEKDHVEG-FAPEV-AWVTRAGNSELEEPIAIR 163 (551) T ss_pred CCCCEEEECCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHCC-CCCCE-EEEEECCCCCCCCCEEEC T ss_conf 3541489553478999999999987888736434010332478887655655415-78532-799703884114642234 Q ss_pred CC----CHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC--CCCCC-CCCCC-CCCCHHHHHCCCHHHHHHHHHH---HHH Q ss_conf 88----83899999995112055411233101333025--87644-42111-1100012100002457889999---999 Q gi|254780928|r 85 YD----LTAPLARYVAENFDTIVFPCRTYRIGPVFRNE--KHGPG-RFRQF-IQCDVDNVGSSAETADAEMCMM---MAD 153 (496) Q Consensus 85 pD----lT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e--~p~~G-r~REf-~Q~g~eiiG~~~~~~DaEii~l---~~~ 153 (496) |- +-+.++.++..|. .+|+|+-+--+|-|.| .|+.- |-||| ||-|---+ .+...||-|++++ ... T Consensus 164 PTSETvmyp~yakWi~ShR---DLPlkLNQW~nVvRWEfk~p~PFlRtrEFLWQEGHTAf-at~~eA~eEvlqiLdlYa~ 239 (551) T KOG4163 164 PTSETVMYPYYAKWIQSHR---DLPLKLNQWCNVVRWEFKHPQPFLRTREFLWQEGHTAF-ATPEEAEEEVLQILDLYAR 239 (551) T ss_pred CCCCCEECHHHHHHHHHHC---CCCHHHHHHHHHEEEECCCCCCCHHHHHHHHHCCCCHH-CCHHHHHHHHHHHHHHHHH T ss_conf 6752110388899887604---67546654322235302489751235577774573010-7976778999999999999 Q ss_pred HHHHCCCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHCCCCCC Q ss_conf 99751888777113036605589999983256035643345553332200128967899862101650035553048999 Q gi|254780928|r 154 TLEAVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQGVKLLLGEGRTDNSGDFTKGANLT 233 (496) Q Consensus 154 ~l~~lgl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 233 (496) +...+ +.+|--.- -|...+.+ ..... T Consensus 240 vy~el-----------------------lAiPVvkG--------------rKse~EkF----------------aGgd~- 265 (551) T KOG4163 240 VYEEL-----------------------LAIPVVKG--------------RKSEKEKF----------------AGGDY- 265 (551) T ss_pred HHHHH-----------------------HCCCCCCC--------------CCCHHHHC----------------CCCCC- T ss_conf 98762-----------------------03430147--------------63453302----------------57750- Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHH--HHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEE Q ss_conf 77899888740478568899899860357325888--9999999999875088844300110100122123412489985 Q gi|254780928|r 234 SEQIDIMVSFLSIDLEKSMHELYELVKGTIAGEKG--FNELVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAIL 311 (496) Q Consensus 234 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~--l~~l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~ 311 (496) -..+..|+...+.. .++ -.+|.+ +.--+|++.+ T Consensus 266 ---TttvEa~i~~~Grg---------------iQgaTSH~LGQ---------------------------NFSkmF~i~~ 300 (551) T KOG4163 266 ---TTTVEAFIPCSGRG---------------IQGATSHHLGQ---------------------------NFSKMFEIVF 300 (551) T ss_pred ---EEEEEEEECCCCCC---------------CCCCCHHHHHH---------------------------HHHHHHCEEE T ss_conf ---47776652466655---------------55432025667---------------------------7998623441 Q ss_pred CCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECC------ Q ss_conf 46667767666310110032323552111234567742133110168999997368776655577148998269------ Q gi|254780928|r 312 GFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDH------ 385 (496) Q Consensus 312 ~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~------ 385 (496) ..... .....+-+.|- |-++--+|..+=+ --.+.....++...+.+|.|+.++. T Consensus 301 ed~~~-g~~~fv~QnSW--------------g~sTRtiGvmiM~-----HgDdkGLvLPPrVA~vQvVvvP~git~~~s~ 360 (551) T KOG4163 301 EDPGE-GEKEFVWQNSW--------------GLSTRTIGVMIMT-----HGDDKGLVLPPRVAPVQVVVVPVGITDATSE 360 (551) T ss_pred CCCCC-CCHHHEEECCC--------------CCCCCEEEEEEEE-----ECCCCCCCCCCCCCCEEEEEEECCCCCCCCH T ss_conf 58874-11220331255--------------5342113479998-----3178653048752413799995663566746 Q ss_pred --CHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCH Q ss_conf --768999999999999987983999718999988999999877998999988728748818997878883643311201 Q gi|254780928|r 386 --DSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNN 463 (496) Q Consensus 386 --~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~ 463 (496) ....+..+..+...|-.+||||+.++.++.+.+=.|..-+-.|+|.-+-+|+++++++.|.+=-..+|+. T Consensus 361 ~~~~~l~~a~~~v~~~L~~~giR~~~D~rDnytpGwKfnhwElkGVPlRiEiGPrD~~~~qv~~VrRd~~~K-------- 432 (551) T KOG4163 361 EDKQELLDACSAVESRLLGAGIRAEADLRDNYTPGWKFNHWELKGVPLRIEIGPRDLASNQVVAVRRDTGEK-------- 432 (551) T ss_pred HHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCEEECCCEEEEEECCCHHHHCEEEEEECCCCCC-------- T ss_conf 778999999999999985168167503434678885333004327416887563302008389998357753-------- Q ss_pred HHHHHCCCCCEEECHHHHHHHHHHHHHHHHHC Q ss_conf 44320233510307999999999999864204 Q gi|254780928|r 464 ESWREARVAQITIPISELVSTVKKILQENKEE 495 (496) Q Consensus 464 ~~~~~~~~~q~~v~~~~l~~~~~~~l~~~~~~ 495 (496) .+||.++|...|+.+|++.+.+ T Consensus 433 ----------~~v~~~~l~~~v~elLe~iq~~ 454 (551) T KOG4163 433 ----------KDVSLGDLEKTVKELLEKIQTN 454 (551) T ss_pred ----------CCCCHHHHHHHHHHHHHHHHHH T ss_conf ----------4557788999999999999999 No 50 >cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. Probab=99.22 E-value=2.2e-10 Score=86.63 Aligned_cols=87 Identities=21% Similarity=0.214 Sum_probs=71.1 Q ss_pred CEEEEEEECC-CHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCC Q ss_conf 7148998269-768999999999999987983999718999988999999877998999988728748818997878883 Q gi|254780928|r 376 GPVLITTMDH-DSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGK 454 (496) Q Consensus 376 ~~v~V~~~~~-~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~ 454 (496) .+|.|+++.. +......+.++++.|+++|++|.++. .+.++++.++.|+..|+||.+|||++|+++|+|+||+..+|+ T Consensus 2 ~qv~Iipi~~~~~~~~~~a~~l~~~L~~~gi~v~~Dd-r~~~~G~K~~~ael~GiP~~iiiG~k~~~~~~v~vr~R~~~~ 80 (94) T cd00861 2 FDVVIIPMNMKDEVQQELAEKLYAELQAAGVDVLLDD-RNERPGVKFADADLIGIPYRIVVGKKSAAEGIVEIKVRKTGE 80 (94) T ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHCCCEEEEEC-CCCHHHHHHHHHHHCCCCEEEEECCCCHHCCEEEEEECCCCC T ss_conf 4999997489988999999999999988798999987-997277999999974998799990662117999999978995 Q ss_pred EEEEECCCH Q ss_conf 643311201 Q gi|254780928|r 455 ELSREIKNN 463 (496) Q Consensus 455 q~~~~~~~~ 463 (496) +..+.++++ T Consensus 81 ~~~v~~~~~ 89 (94) T cd00861 81 KEEISIDEL 89 (94) T ss_pred EEEECHHHH T ss_conf 689719999 No 51 >cd00862 ProRS_anticodon_zinc ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only, and an additional C-terminal zinc-binding domain specific to this subfamily of aaRSs. Probab=99.11 E-value=4.6e-09 Score=78.04 Aligned_cols=109 Identities=22% Similarity=0.282 Sum_probs=88.3 Q ss_pred CCCCCCCCEEEEEEECCC----HHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCC Q ss_conf 766555771489982697----6899999999999998798399971899998899999987799899998872874881 Q gi|254780928|r 369 TNNIKEMGPVLITTMDHD----SDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGM 444 (496) Q Consensus 369 ~~~~~~~~~v~V~~~~~~----~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~ 444 (496) .|+...+.+|.|+.+... ...+.++.++++.|.++||+|.++..+..+.+..+.+.+.+|+|+.|-||++|+++|+ T Consensus 4 lPP~iAP~QVVIiPi~~k~~~~~~v~~~~~~i~~~L~~~~iRv~iD~rd~~~pG~K~~~wE~kGVPiRIEIGprDle~~~ 83 (202) T cd00862 4 LPPRVAPIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFNDWELKGVPLRIEIGPRDLEKNT 83 (202) T ss_pred CCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHCCCEEEEECHHHHHCCC T ss_conf 68420585499997348723289999999999999986798899977878688888899998089779998715863791 Q ss_pred EEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHHHHHHC Q ss_conf 899787888364331120144320233510307999999999999864204 Q gi|254780928|r 445 LQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQENKEE 495 (496) Q Consensus 445 v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~~~~~~ 495 (496) |++....+++. .+||++++++.+..+|++-+++ T Consensus 84 v~v~rRD~~~K------------------~~v~~~el~~~i~~~L~~iq~~ 116 (202) T cd00862 84 VVIVRRDTGEK------------------KTVPLAELVEKVPELLDEIQED 116 (202) T ss_pred EEEEEECCCCE------------------EEEEHHHHHHHHHHHHHHHHHH T ss_conf 89999179957------------------8978899999999999999999 No 52 >cd00770 SerRS_core Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. SerRS synthetase is a homodimer. Probab=99.09 E-value=6.7e-11 Score=89.95 Aligned_cols=145 Identities=16% Similarity=0.266 Sum_probs=108.4 Q ss_pred CCCCC--CCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHH Q ss_conf 98765--8866899999999999999998598480165202288752026755433322168986999889998888389 Q gi|254780928|r 13 RGFAD--CPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAP 90 (496) Q Consensus 13 ~G~~D--~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~ 90 (496) .|.+. +.|..+.+.+.+.+-+++....+||++|.||.+=..+++... |..+....+||...+ ..+.|.|-.-+| T Consensus 40 sG~rf~~l~g~ga~Le~AL~~f~~d~~~~~Gy~eV~tP~iv~~~~~~~s-G~~~~~~e~~y~i~~---~~~~Li~tae~~ 115 (297) T cd00770 40 SGSRFYYLKGDGALLERALINFALDFLTKRGFTPVIPPFLVRKEVMEGT-GQLPKFDEQLYKVEG---EDLYLIATAEVP 115 (297) T ss_pred CCCEEEEECCHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHHHH-CCCCCCHHHHHCCCC---HHHHHHHCCCCC T ss_conf 9877799888899999999999999999879989988530138998543-578763565210355---055554405666 Q ss_pred HHHHHHHH-HHHCCCCHHHHHHHHHHCCCCCCC-----C--CCCCCCCCCHHHHHCCCHHHH--HHHHHHHHHHHHHCCC Q ss_conf 99999951-120554112331013330258764-----4--421111100012100002457--8899999999975188 Q gi|254780928|r 91 LARYVAEN-FDTIVFPCRTYRIGPVFRNEKHGP-----G--RFRQFIQCDVDNVGSSAETAD--AEMCMMMADTLEAVGI 160 (496) Q Consensus 91 ~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p~~-----G--r~REf~Q~g~eiiG~~~~~~D--aEii~l~~~~l~~lgl 160 (496) ++-++... .....+|+|++.++++||+|.... | |.|||.|...-+|..++...+ -|++..+.++++.||| T Consensus 116 l~~~~~~~~~~~~dLPlr~~~~s~cfR~Eags~G~d~~GL~RvhqF~kvE~~~~c~pe~s~~~~e~~~~~~e~~l~~L~l 195 (297) T cd00770 116 LAALHRDEILEEEELPLKYAGYSPCFRKEAGSAGRDTRGLFRVHQFEKVEQFVFTKPEESWEELEELISNAEEILQELGL 195 (297) T ss_pred EEEEEEEEECCHHHCCCCEEECCCHHHHCCCCCCCCCCCEEEEEECCEEEEEEECCHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 22344200317755886502246341320377775555457887211003776168788999999999999999998155 Q ss_pred C Q ss_conf 8 Q gi|254780928|r 161 K 161 (496) Q Consensus 161 ~ 161 (496) + T Consensus 196 p 196 (297) T cd00770 196 P 196 (297) T ss_pred C T ss_conf 0 No 53 >cd00774 GlyRS-like_core Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP binding and hydrolysis. This alignment contains only sequences from the GlyRS form which homodimerizes. The heterotetramer glyQ is in a different family of class II aaRS. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the N-terminus of the accessory subunit of mitochondrial polymerase gamma (Pol gamma b). Pol gamma b stimulates processive DNA synthesis and is functional as a homodimer, which can associate with the catalytic subunit Pol gamma alpha to form a heterotrimer. Despite significant both structural and sequence similarity with Gly Probab=99.09 E-value=4.9e-10 Score=84.33 Aligned_cols=143 Identities=17% Similarity=0.236 Sum_probs=100.6 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHH--HCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCH- Q ss_conf 998765886689999999999999999--85984801652022887520267554333221689869998899988883- Q gi|254780928|r 12 PRGFADCPTKEIRIRNRILDSIRNIYE--NYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLT- 88 (496) Q Consensus 12 P~G~~D~~p~~~~~~~~i~~~l~~~f~--~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT- 88 (496) ..|+.||.|..+.+++.|.+.+++.|- +-+..+|++|++.+.-.|....|. .+.++...-||||.. T Consensus 21 ~ag~yDyGPlG~~LK~Ni~~~W~~~fv~~~~~~~~id~~ii~p~LmF~T~iG~-----------~~~~~~~~yLRPETAQ 89 (254) T cd00774 21 VAGFYDYGPLGVELKNNIKSAWRKSFVLEEEDMLEIDSPIITPELMFKTSIGP-----------VESGGNLGYLRPETAQ 89 (254) T ss_pred HHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCEECCCCC-----------CCCCCCCEEECHHHHH T ss_conf 31061548237999999999999998743798799541003663220012156-----------5589860353634534 Q ss_pred ---HHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CCCCC--CCCCCCCCCHHHHHCCCH---HHHHHHHHHHHHHHHHCC Q ss_conf ---899999995112055411233101333025-87644--421111100012100002---457889999999997518 Q gi|254780928|r 89 ---APLARYVAENFDTIVFPCRTYRIGPVFRNE-KHGPG--RFRQFIQCDVDNVGSSAE---TADAEMCMMMADTLEAVG 159 (496) Q Consensus 89 ---~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p~~G--r~REf~Q~g~eiiG~~~~---~~DaEii~l~~~~l~~lg 159 (496) +.+.|.+-. ....+|+-..++|++||+| .|+.| |.|||+|+-+|.|-.+.. .-| +....-...+..++ T Consensus 90 GifvnFk~~~~~--~r~kLPFGiaQIGk~FRNEIsPr~~l~R~REF~q~EiE~F~~P~~~~~~~~-~w~~~~l~~~~~~~ 166 (254) T cd00774 90 GIFVNFKNLLEF--NRRKLPFGVAQIGKSFRNEISPRNGLFRVREFTQAEIEFFVDPEKSHPWFD-YWADQRLKWLPKFA 166 (254) T ss_pred HHHHHHHHHHHH--CCCCCCEEEEEEEECCCCCCCCCCCCCCHHCHHHHEEEEEECCCCCHHHHH-HHHHHHHHHHHHHC T ss_conf 779878999996--488888445654202267347776754000002125788857986425789-99999986638738 Q ss_pred CCCCCCEEE Q ss_conf 887771130 Q gi|254780928|r 160 IKRNDYHIG 168 (496) Q Consensus 160 l~~~~~~I~ 168 (496) +...++.+. T Consensus 167 ~~~~~~~~~ 175 (254) T cd00774 167 QSPENLRLT 175 (254) T ss_pred CCCCCEEEE T ss_conf 996653673 No 54 >cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase. Probab=98.98 E-value=8.5e-09 Score=76.28 Aligned_cols=99 Identities=18% Similarity=0.181 Sum_probs=79.3 Q ss_pred CCCEEEEEEECCC-HHHHHHHHHHHHHHHHCCCEE--EEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEEC Q ss_conf 5771489982697-689999999999999879839--9971899998899999987799899998872874881899787 Q gi|254780928|r 374 EMGPVLITTMDHD-SDSLSKYQMYTQMLRTAGIRA--EMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDL 450 (496) Q Consensus 374 ~~~~v~V~~~~~~-~~~~~~~~~ia~~Lr~~Gi~~--e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l 450 (496) +|..|-|++...+ .+....+..+.+.|+.+|+.+ .+.++...++++.+...+.+|+||.|+|+.+.+++|+|+||+. T Consensus 26 AP~Kvai~~~~~~~~eL~~~a~~l~~~L~~~gi~v~~~~~~d~~~sIGkrY~r~DeiGtP~citvD~~TLedgtVtlR~R 105 (128) T cd02426 26 APYKVAIDCGKGDTAELRDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLDKYDEMGVLFTLLISEQTLENGLLQLRSR 105 (128) T ss_pred CCEEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCEEEEECCCCCCCCCEEEEEC T ss_conf 77179997036881888999999999998739943546354543478898877664288479997787434795898854 Q ss_pred CCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHH Q ss_conf 8883643311201443202335103079999999999998 Q gi|254780928|r 451 AKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQ 490 (496) Q Consensus 451 ~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~ 490 (496) .|.+ |..|+++++.+++.+.++ T Consensus 106 DT~~------------------QerI~I~dl~~yl~~~i~ 127 (128) T cd02426 106 DTTL------------------KETIHISDLPDYLLRYIA 127 (128) T ss_pred CCCH------------------HEEEEHHHHHHHHHHHHC T ss_conf 7602------------------135769998999999863 No 55 >COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis] Probab=98.96 E-value=1.7e-08 Score=74.28 Aligned_cols=102 Identities=27% Similarity=0.444 Sum_probs=71.6 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHH Q ss_conf 68999999999999999985984801652022887520267554333221689869998899988883899999995112 Q gi|254780928|r 21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFD 100 (496) Q Consensus 21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~ 100 (496) .-...|.++...+++.+..+||.+|+||+| +++.+++.+. .+.----+.|+-.+|+- .+++-.-+.+-. T Consensus 139 ~~l~lR~kv~~~iR~~ld~~gF~EiETPiL------tkSTPEGARD--fLVPSRv~~G~FYALPQ--SPQlfKQLLMvs- 207 (585) T COG0173 139 KNLKLRSKVTKAIRNFLDDQGFLEIETPIL------TKSTPEGARD--FLVPSRVHPGKFYALPQ--SPQLFKQLLMVA- 207 (585) T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCCC------CCCCCCCCCC--CCCCCCCCCCCEEECCC--CHHHHHHHHHHH- T ss_conf 999999999999999776549857346741------4679865544--30134558996530688--879999999880- Q ss_pred HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHH Q ss_conf 055411233101333025876444211111000121 Q gi|254780928|r 101 TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNV 136 (496) Q Consensus 101 ~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eii 136 (496) .. -|+|+|.+|||+|....-|.-||+|.|+|+= T Consensus 208 Gf---dRYyQIarCFRDEDlRaDRQPEFTQiD~EmS 240 (585) T COG0173 208 GF---DRYYQIARCFRDEDLRADRQPEFTQIDLEMS 240 (585) T ss_pred CC---CCEEEEEEEECCCCCCCCCCCCCEEEEEEEE T ss_conf 53---3002356540466444446875336767764 No 56 >cd00775 LysRS_core Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three characteristic sequence motifs in the core domain. It is found in eukaryotes as well as some prokaryotes and archaea. However, LysRS belongs to class I aaRS's in some prokaryotes and archaea. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Probab=98.95 E-value=1.6e-08 Score=74.53 Aligned_cols=101 Identities=25% Similarity=0.324 Sum_probs=63.0 Q ss_pred HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEE-CCCCCEEEECCCCHHHHH--HHHHHH Q ss_conf 89999999999999999859848016520228875202675543332216898-699988999888838999--999951 Q gi|254780928|r 22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQ-DDDGQWISLRYDLTAPLA--RYVAEN 98 (496) Q Consensus 22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~-D~~g~~l~LRpDlT~~~a--R~~~~~ 98 (496) -.++|.+|...+++.|...||.||.||+|..+ ..++ . ...|... ...|...-|+- .+++. ++++. T Consensus 7 ~~~~Rs~i~~~iR~ff~~~gF~Ev~TPiL~~~----~~g~-~----~~~f~~~~~~~~~~~yL~q--SpQl~~q~l~~~- 74 (329) T cd00775 7 TFIVRSKIISYIRKFLDDRGFLEVETPMLQPI----AGGA-A----ARPFITHHNALDMDLYLRI--APELYLKRLIVG- 74 (329) T ss_pred HHHHHHHHHHHHHHHHHHCCCEEEECCCCCCC----CCCC-C----CCCEEECCCCCCCCCCCCC--CHHHHHHHHHHC- T ss_conf 99999999999999999889889979865566----8875-6----7531322446786723068--989999999856- Q ss_pred HHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCC Q ss_conf 12055411233101333025876444211111000121000 Q gi|254780928|r 99 FDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSS 139 (496) Q Consensus 99 ~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~ 139 (496) . + -|.|+||++||.|....-|.-||||+++|..+.+ T Consensus 75 --g--~-~rvfqI~p~FR~E~~~~rHl~EFtmle~E~~f~d 110 (329) T cd00775 75 --G--F-ERVYEIGRNFRNEGIDLTHNPEFTMIEFYEAYAD 110 (329) T ss_pred --C--C-CCEEEEEECCCCCCCCCCCCCHHHHHHHHHHCCC T ss_conf --7--7-7679981022479999774734563457774479 No 57 >PRK00484 lysS lysyl-tRNA synthetase; Reviewed Probab=98.94 E-value=1e-07 Score=69.31 Aligned_cols=98 Identities=27% Similarity=0.375 Sum_probs=61.9 Q ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC---CCCEEEECCCCHHHH--HHHHHH Q ss_conf 999999999999999985984801652022887520267554333221689869---998899988883899--999995 Q gi|254780928|r 23 IRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD---DGQWISLRYDLTAPL--ARYVAE 97 (496) Q Consensus 23 ~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~---~g~~l~LRpDlT~~~--aR~~~~ 97 (496) .++|.+|...+|+.|..+||.||+||++... . +|.... .|..+ -+..+.||= .+++ -|.++. T Consensus 171 f~~Rs~ii~~iR~~l~~~gF~EVeTPiL~~~----~-gGA~Ar------pF~t~~n~l~~~~yL~~--SPqLylk~l~vg 237 (491) T PRK00484 171 FRKRSKIISAIRRFLDNRGFLEVETPMLQPI----P-GGAAAR------PFITHHNALDIDLYLRI--APELYLKRLIVG 237 (491) T ss_pred HHHHHHHHHHHHHHHHHCCEEEEECCCCCCC----C-CCCCCC------CCCCCCCCCCCCEEECC--CHHHHHHHHHHC T ss_conf 9999999999999998676899867877666----8-875667------65564456685544206--878987778762 Q ss_pred HHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCC Q ss_conf 112055411233101333025876444211111000121000 Q gi|254780928|r 98 NFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSS 139 (496) Q Consensus 98 ~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~ 139 (496) . + -|.|+||++||+|....-|.-||||+++|.-..+ T Consensus 238 G-----~-ervfeI~r~FR~E~~~~rH~pEFT~lE~e~af~d 273 (491) T PRK00484 238 G-----F-ERVFEIGRNFRNEGIDTRHNPEFTMIEFYQAYAD 273 (491) T ss_pred C-----C-HHHEEHHHHHHCCCCCCCCCCCEEEEEEEEECCC T ss_conf 7-----2-0222248766257554341840102136772479 No 58 >PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed Probab=98.80 E-value=1.3e-08 Score=75.00 Aligned_cols=131 Identities=22% Similarity=0.448 Sum_probs=95.1 Q ss_pred HHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCCCH Q ss_conf 99999999999859848016520228875202675-54333221689869998899988883899999995112055411 Q gi|254780928|r 28 RILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFPC 106 (496) Q Consensus 28 ~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~p~ 106 (496) +++.-+.+.|-..||-+|..|++-+.+-..+.+-+ .+..+|++|+. .+.+||||-+.+.+--++-.-....+.|+ T Consensus 211 kler~it~ffvdrgfleikspilip~eyiermgid~d~elskQiFrv----d~n~CLRPMLAPnLYnylrkL~R~lpdPI 286 (420) T PRK09537 211 KLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFRV----DKNFCLRPMLAPNLYNYLRKLDRALPDPI 286 (420) T ss_pred HHHHHHHHHHHCCCCEEECCCEECCHHHHHHHCCCCHHHHHHHHEEE----CCCCCCCCCCCHHHHHHHHHHHHHCCCCE T ss_conf 77888899854145135148504219999985788605655451674----34533241014269999999986168871 Q ss_pred HHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEE Q ss_conf 2331013330258764442111110001210000245788999999999751888777113 Q gi|254780928|r 107 RTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHI 167 (496) Q Consensus 107 k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I 167 (496) |.|.||++||.|..++.+..||+..+|--.|+.-... -.=.++.++|+.+|+ +|.| T Consensus 287 rIFEIGpCyRKESdG~~HLeEFTMlNfcqmgsgctre--nle~~i~efl~~lgI---dfei 342 (420) T PRK09537 287 KIFEIGPCYRKESDGKEHLEEFTMVNFCQMGSGCTRE--NLEALITEFLNHLGI---DFEI 342 (420) T ss_pred EEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCCCHH--HHHHHHHHHHHHCCC---EEEE T ss_conf 5886204303444106788777777688644898678--899999999986197---2798 No 59 >cd00776 AsxRS_core Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS. AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA. While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Probab=98.80 E-value=3.4e-07 Score=65.91 Aligned_cols=97 Identities=26% Similarity=0.455 Sum_probs=62.1 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEEC--CCCHHHHHHHHHHH Q ss_conf 6899999999999999998598480165202288752026755433322168986999889998--88838999999951 Q gi|254780928|r 21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLR--YDLTAPLARYVAEN 98 (496) Q Consensus 21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LR--pDlT~~~aR~~~~~ 98 (496) .-.++|..|...+++.|...||.||+||+|-... +++ ....|.. +.-|+.+.|| |++ .-|.++.. T Consensus 22 ~~l~~Rs~i~~~iR~fl~~~gF~EVeTP~L~~~~------~eg---~a~~f~~-~~~~~~~yL~~Spel---~Kqlli~G 88 (322) T cd00776 22 AIFRIRSEVLRAFREFLRENGFTEVHTPKITSTD------TEG---GAELFKV-SYFGKPAYLAQSPQL---YKEMLIAA 88 (322) T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCC------CCC---CCCCCCC-CCCCCCEEECCCHHH---HHHHHHCC T ss_conf 9999999999999999998899999798400788------986---5466762-105876001548588---99997534 Q ss_pred HHHCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHH Q ss_conf 1205541123310133302587644-4211111000121 Q gi|254780928|r 99 FDTIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNV 136 (496) Q Consensus 99 ~~~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eii 136 (496) . -|.|++|+|||+|..... |.-||+|+.+|.- T Consensus 89 -----~-~rVfei~~~FR~E~~~t~rH~pEFTmlE~e~a 121 (322) T cd00776 89 -----L-ERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMA 121 (322) T ss_pred -----C-CCEEEECCEEECCCCCCCCCHHHHHHHHHHHH T ss_conf -----2-44388726140799987534788876525552 No 60 >TIGR00459 aspS_bact aspartyl-tRNA synthetase; InterPro: IPR004524 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Aspartyl tRNA synthetase 6.1.1.12 from EC is an alpha2 dimer that belongs to class IIb. Structural analysis combined with mutagenesis and enzymology data on the yeast enzyme point to a tRNA binding process that starts by a recognition event between the tRNA anticodon loop and the synthetase anticodon binding module . This family represents aspartyl-tRNA synthetases from the bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). ; GO: 0000166 nucleotide binding, 0004815 aspartate-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006422 aspartyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=98.70 E-value=6.1e-08 Score=70.74 Aligned_cols=104 Identities=28% Similarity=0.501 Sum_probs=76.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCC----CCCCEEEEECCCCCEEEECCCCHHHHHHHH Q ss_conf 6689999999999999999859848016520228875202675543----332216898699988999888838999999 Q gi|254780928|r 20 TKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDR----PNKGVFSLQDDDGQWISLRYDLTAPLARYV 95 (496) Q Consensus 20 p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~----~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~ 95 (496) -....+|..|...+|+.|..+||-+|+||+| +++-+|+.+ +++ + +-.|-.|+-.+|+ -.+++=.-+ T Consensus 148 ~~~L~lR~~v~~~~Rn~l~~~gFleiETP~L------tKsTPEGARDyLVPsR-v-~rsdG~g~FYALp--QSPQlfKQL 217 (653) T TIGR00459 148 QQRLKLRHKVTKAVRNFLDQQGFLEIETPIL------TKSTPEGARDYLVPSR-V-HRSDGKGEFYALP--QSPQLFKQL 217 (653) T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCEEECCCC------CCCCCCCHHHCCCCCC-C-CCCCCCCCEECCC--CCHHHHHHH T ss_conf 9998668898999986664278706506777------7888431101577553-0-0368588451468--975689998 Q ss_pred HHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHH Q ss_conf 951120554112331013330258764442111110001210 Q gi|254780928|r 96 AENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVG 137 (496) Q Consensus 96 ~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG 137 (496) .+= .+. =|+|||.+|||+|...+-|.=||||+|+|+== T Consensus 218 LMv-sG~---drYyQIArCFRDEDLRADRQPEFTQiD~E~SF 255 (653) T TIGR00459 218 LMV-SGV---DRYYQIARCFRDEDLRADRQPEFTQIDMEMSF 255 (653) T ss_pred HHH-CCC---CCCEEEEEEECCCCCCCCCCCCCCHHHHHHHC T ss_conf 751-255---53135788976625666577873244263112 No 61 >COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis] Probab=98.64 E-value=4.2e-07 Score=65.32 Aligned_cols=115 Identities=22% Similarity=0.422 Sum_probs=70.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCC-CEEEECCCCHHHHHHHHHHH Q ss_conf 66899999999999999998598480165202288752026755433322168986999-88999888838999999951 Q gi|254780928|r 20 TKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDG-QWISLRYDLTAPLARYVAEN 98 (496) Q Consensus 20 p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g-~~l~LRpDlT~~~aR~~~~~ 98 (496) ..-++++..+...+++.|...||.+|.||.+-.++ .+ -..++|...--+. .-|+= +.++ +.+- T Consensus 131 ~Av~kirs~i~~a~~eff~~~gF~eV~tP~i~~~~------~E---Gg~elF~v~yf~~~a~Ltq----S~QL---yke~ 194 (435) T COG0017 131 QAVFKIRSSILRAIREFFYENGFTEVHTPIITASA------TE---GGGELFKVDYFDKEAYLTQ----SPQL---YKEA 194 (435) T ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEECCCEEECCC------CC---CCCEEEEEEECCCCEEEEC----CHHH---HHHH T ss_conf 77894999999999999975895896594685347------89---9850577750685667714----7889---9999 Q ss_pred HHHCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH Q ss_conf 1205541123310133302587644-421111100012100002457889999999997 Q gi|254780928|r 99 FDTIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAETADAEMCMMMADTLE 156 (496) Q Consensus 99 ~~~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~ 156 (496) +.. .+ -|.|.+|++||.|+...- |.-|||+.++|+-..+ .. |++.++-+.+. T Consensus 195 ~~~-al-~rVf~igP~FRAE~s~T~RHL~EF~~ld~Emaf~~--~~--d~m~l~E~~i~ 247 (435) T COG0017 195 LAA-AL-ERVFTIGPTFRAEKSNTRRHLSEFWMLDPEMAFAD--LN--DVMDLAEELIK 247 (435) T ss_pred HHH-HH-CCEEEECCCEECCCCCCCCHHHHHHEECCEECCCC--HH--HHHHHHHHHHH T ss_conf 999-85-76489567255477897003666733021113676--88--89999999999 No 62 >TIGR02367 PylS pyrrolysyl-tRNA synthetase; InterPro: IPR012739 PylS is the archaeal enzyme responsible for charging the pyrrolysine tRNA, PylT, by ligating a free molecule of pyrrolysine. Pyrrolysine is encoded at an in-frame UAG (amber) at least in several corrinoid-dependent methyltransferases of the archaeal genera Methanosarcina and Methanococcoides, e.g. trimethylamine methyltransferase. . Probab=98.62 E-value=5.2e-08 Score=71.20 Aligned_cols=138 Identities=20% Similarity=0.411 Sum_probs=102.5 Q ss_pred HHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCC-CCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCCC Q ss_conf 999999999999859848016520228875202675-5433322168986999889998888389999999511205541 Q gi|254780928|r 27 NRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPD-EDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFP 105 (496) Q Consensus 27 ~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~-~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~p 105 (496) -+++..+.+.|-..||-+|..|+|-+.+-..+.+-+ ....+|++|+. ...+||||-+.+.+-.|+-.--+..|-| T Consensus 243 Gkler~it~ffvdrGfleiksPiliP~ey~ermGi~ndtelskqifrv----dkn~ClrPmlaP~lynylrkldr~lP~P 318 (453) T TIGR02367 243 GKLEREITKFFVDRGFLEIKSPILIPLEYVERMGIDNDTELSKQIFRV----DKNLCLRPMLAPTLYNYLRKLDRILPDP 318 (453) T ss_pred HHHHHHHHHHHHHCCEEEECCCCCCCHHHHHHCCCCCCHHHHHHHHHH----HHHHHCCCCHHHHHHHHHHHHHHHCCCC T ss_conf 467666766653124023236310105688650776402566666644----1001012100056899999987537896 Q ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHH Q ss_conf 123310133302587644421111100012100002457889999999997518887771130366055 Q gi|254780928|r 106 CRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINNRKI 174 (496) Q Consensus 106 ~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~i 174 (496) +|.|.+|++||.|..++.+.-||+.+.|=-.|+.-.-.. +=.++.++|+.|++ +|.| +|+.++ T Consensus 319 ik~fe~GPCyrkesdGkehleeftm~nfCqmGsGCtren--le~~i~~fl~~l~i---df~i-vGdsCm 381 (453) T TIGR02367 319 IKVFEVGPCYRKESDGKEHLEEFTMLNFCQMGSGCTREN--LEALIKEFLDYLEI---DFKI-VGDSCM 381 (453) T ss_pred EEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHH--HHHHHHHHHHHHCC---CEEE-ECCEEE T ss_conf 479860675243565335666666555431478732677--99999998876154---2478-524246 No 63 >COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis] Probab=98.54 E-value=8.2e-07 Score=63.41 Aligned_cols=147 Identities=16% Similarity=0.174 Sum_probs=105.3 Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHH Q ss_conf 99876588668999999999999999985984801652022887520267554333221689869998899988883899 Q gi|254780928|r 12 PRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPL 91 (496) Q Consensus 12 P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~ 91 (496) ..+|.-+.+..+++.+.+.+-+.+....|||+++.+|.+=..+++...+ .-......||...|. .+.|-|-.-+|+ T Consensus 163 Gsrf~~~~~~~a~L~rAL~~f~ld~~~~~Gf~e~~~P~lv~~e~m~gtg-qlpkf~e~~y~v~~~---~~~LipTaEvpl 238 (429) T COG0172 163 GSRFYFYKGKGARLERALIQFMLDLHTKHGFTEVLPPYLVNLESMFGTG-QLPKFEEDLYKVEDP---DLYLIPTAEVPL 238 (429) T ss_pred CCCEEEECCHHHHHHHHHHHHHHHHHHHCCCEEEECCEEECHHHHHCCC-CCCCCCCCCEEECCC---CEEEEECCHHHH T ss_conf 8743898077899999999999999987696586576060598862237-898880121584589---879970202156 Q ss_pred HHHHHHHHHH-CCCCHHHHHHHHHHCCCCC-----CCCCCCCCCCCCHHHHHC---CCHHHHH-HHHHHHHHHHHHCCCC Q ss_conf 9999951120-5541123310133302587-----644421111100012100---0024578-8999999999751888 Q gi|254780928|r 92 ARYVAENFDT-IVFPCRTYRIGPVFRNEKH-----GPGRFRQFIQCDVDNVGS---SAETADA-EMCMMMADTLEAVGIK 161 (496) Q Consensus 92 aR~~~~~~~~-~~~p~k~yy~g~vfR~e~p-----~~Gr~REf~Q~g~eiiG~---~~~~~Da-Eii~l~~~~l~~lgl~ 161 (496) +-++...-.. ..+|+|++-..++||.|.- .+|-.|.+-=.=+|.+-- +....+- |++..+-++++.|+|+ T Consensus 239 ~~l~~~Eil~~~~LP~k~~~~S~cFR~EAGs~GrdtrGliRvHQF~KVE~v~~~~Pe~S~~~~E~m~~~ae~il~~LeLP 318 (429) T COG0172 239 TNLHRDEILDEEDLPIKYTAYSPCFRSEAGSAGKDTRGLIRVHQFDKVELVVITKPEESEEELEEMLGNAEEVLQELELP 318 (429) T ss_pred HHHHCCCCCCCCCCCEEEEEECHHHHCCCCCCCCCCCCEEEEEEEEEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 78651620152127802678772542145656643553014664355899997070116999999999999999970898 Q ss_pred C Q ss_conf 7 Q gi|254780928|r 162 R 162 (496) Q Consensus 162 ~ 162 (496) - T Consensus 319 y 319 (429) T COG0172 319 Y 319 (429) T ss_pred C T ss_conf 3 No 64 >pfam00152 tRNA-synt_2 tRNA synthetases class II (D, K and N). Probab=98.48 E-value=1.8e-06 Score=61.14 Aligned_cols=117 Identities=21% Similarity=0.305 Sum_probs=73.9 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHH Q ss_conf 68999999999999999985984801652022887520267554333221689869998899988883899999995112 Q gi|254780928|r 21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFD 100 (496) Q Consensus 21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~ 100 (496) .-.++|..|...+++.|...||.||+||+|.... +++ ..+.|......++..-|+----...-|+++... T Consensus 20 ~~l~~Rs~i~~~iR~ff~~~~f~EV~TP~L~~~~-----~e~----~a~~F~~~~~~~~~~yL~~Spel~~k~ll~~g~- 89 (341) T pfam00152 20 ANLKLRSKIIRAIREFLDERGFLEVETPILTKST-----PEG----GARDFLVPKFYAKEAYLPQSPQLYKQLLMVAGF- 89 (341) T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCC-----CCC----CCCEEEECCCCCCCEEECCCHHHHHHHHHHCCC- T ss_conf 9999999999999999998898998798200558-----987----776645026789823405488999999986588- Q ss_pred HCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH Q ss_conf 05541123310133302587644-421111100012100002457889999999997 Q gi|254780928|r 101 TIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAETADAEMCMMMADTLE 156 (496) Q Consensus 101 ~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~ 156 (496) -|.|++|++||.|..... |.-||+++.++..+.+- . +++.++-+++. T Consensus 90 -----~rVfei~~~FR~E~~~t~rH~~EFtmlE~y~a~~d~--~--d~m~~~E~li~ 137 (341) T pfam00152 90 -----DRVFQIAPCFRDEDLRTDRHPPEFTQLDLEMSFVDY--E--DVMDLTEDLIK 137 (341) T ss_pred -----CCCEEEECHHCCCCCCCCCCCHHHHHHHHHHHCCCH--H--HHHHHHHHHHH T ss_conf -----763797232027989886550778877675535999--9--99999999999 No 65 >pfam01409 tRNA-synt_2d tRNA synthetases class II core domain (F). Other tRNA synthetase sub-families are too dissimilar to be included. This family includes only phenylalanyl-tRNA synthetases. This is the core catalytic domain. Probab=98.45 E-value=2.3e-06 Score=60.52 Aligned_cols=107 Identities=30% Similarity=0.459 Sum_probs=77.5 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEECCCHH----HHHHHHCCCCCCCCCCC---CEEEEEC-CCCCEEEECCCCHHHHHHHH Q ss_conf 9999999999999998598480165202----28875202675543332---2168986-99988999888838999999 Q gi|254780928|r 24 RIRNRILDSIRNIYENYGFDPIETPLLE----YSDSLGKFLPDEDRPNK---GVFSLQD-DDGQWISLRYDLTAPLARYV 95 (496) Q Consensus 24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE----~~~~~~~~~~~~~~~~k---~~y~f~D-~~g~~l~LRpDlT~~~aR~~ 95 (496) .-...+.+.++++|...||++++.|-+| ..|.|. -..+++.+ ..|-+.+ ..++.+.||.-.|+--+|.+ T Consensus 17 HPi~~~~~~i~~~f~~~GF~~~~g~eves~~~NFDaLn---~P~dHPaR~~~DTfy~~~~~~~~~~vLRtHTS~~q~r~l 93 (243) T pfam01409 17 HPLTRVLEEIRDIFLSMGFEEVEGPEVESDFYNFDALN---IPQDHPARDMQDTFYLKKPLKARRLLLRTHTTPVQARTL 93 (243) T ss_pred CHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHC---CCCCCCCCCCCCEEEECCCCCCCCEEECCCCCHHHHHHH T ss_conf 85999999999999877986876983564277777557---898898767676034336666768657687988999999 Q ss_pred HHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHH Q ss_conf 95112055411233101333025876444211111000121 Q gi|254780928|r 96 AENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNV 136 (496) Q Consensus 96 ~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eii 136 (496) ..+. ..|+|.+++|+|||+|....-++-+|+|+..=++ T Consensus 94 ~~~~---~~p~r~~~~grvyR~d~~DatH~~~FhQ~Eg~vv 131 (243) T pfam01409 94 AEKN---KPPIKIFSIGRVFRRDQVDATHLPEFHQVEGLVV 131 (243) T ss_pred HHCC---CCCEEEECCCEEEECCCCCCCCCCEEEEEEEEEE T ss_conf 7427---9984898143133258898431531057557896 No 66 >PRK05431 seryl-tRNA synthetase; Provisional Probab=98.44 E-value=2.1e-06 Score=60.79 Aligned_cols=145 Identities=18% Similarity=0.228 Sum_probs=102.4 Q ss_pred CCCCC--CCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHH Q ss_conf 98765--8866899999999999999998598480165202288752026755433322168986999889998888389 Q gi|254780928|r 13 RGFAD--CPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAP 90 (496) Q Consensus 13 ~G~~D--~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~ 90 (496) .|.|. +-+..+.+.+.+.+-..+....+||++|.||.|=..+.+...+.-. ....++|.+.+ ..+.|-|-.-+| T Consensus 158 SGsRF~~Lkg~~A~LerALi~f~ld~~~~~Gy~~v~~P~lv~~~~~~gtGqlP-kfe~~~Y~i~~---~dl~Li~TAEvp 233 (422) T PRK05431 158 SGSRFYVLKGDGARLERALIQFMLDLHTEEGYTEVIPPYLVNEESMYGTGQLP-KFEEDLFKIED---DDLYLIPTAEVP 233 (422) T ss_pred CCCCEEEEHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHHHHCCCC-CCHHHHHHHCC---CCEEEECCCCCC T ss_conf 07870460048999999999999999998799799673763678874453797-44877541058---871760565321 Q ss_pred HHHHHHHH-HHHCCCCHHHHHHHHHHCCCCC-----CCCCCCCCCCCC-HHHHHCCCH----HHHHHHHHHHHHHHHHCC Q ss_conf 99999951-1205541123310133302587-----644421111100-012100002----457889999999997518 Q gi|254780928|r 91 LARYVAEN-FDTIVFPCRTYRIGPVFRNEKH-----GPGRFRQFIQCD-VDNVGSSAE----TADAEMCMMMADTLEAVG 159 (496) Q Consensus 91 ~aR~~~~~-~~~~~~p~k~yy~g~vfR~e~p-----~~Gr~REf~Q~g-~eiiG~~~~----~~DaEii~l~~~~l~~lg 159 (496) ++-++... .....+|+|++-+.++||.|.- .+|-+|. +|+. +|+|.-..+ ..=-|++..+.++++.|| T Consensus 234 L~~~~~~eil~~~~LPik~~~~S~CFR~EAGs~GkdtrGl~Rv-HQF~KVE~f~~~~pe~S~~~~e~~~~~~e~i~~~L~ 312 (422) T PRK05431 234 LTNLHRDEILDEEELPIKYTAYSPCFRSEAGSAGRDTRGLIRQ-HQFDKVELVKFTKPEDSYAELEELTGNAEEILQKLE 312 (422) T ss_pred HHHHHHCCCCCHHHCCHHHEEECCHHHHCCCCCCCCCCCCEEE-EEECEEEEEEECCHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 2334401133654398445278836530313367556761244-300003433535867799999999999999998759 Q ss_pred CCC Q ss_conf 887 Q gi|254780928|r 160 IKR 162 (496) Q Consensus 160 l~~ 162 (496) |+- T Consensus 313 lpy 315 (422) T PRK05431 313 LPY 315 (422) T ss_pred CCC T ss_conf 850 No 67 >cd00496 PheRS_alpha_core Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer. Probab=98.42 E-value=2.2e-06 Score=60.56 Aligned_cols=107 Identities=26% Similarity=0.433 Sum_probs=75.8 Q ss_pred HHHHHHHHHHHHHCCCEEEECCCHHHHH-HHHCCCCCCCCCCCC---EEEEECCCCCEEEECCCCHHHHHHHHHHHHHHC Q ss_conf 9999999999998598480165202288-752026755433322---168986999889998888389999999511205 Q gi|254780928|r 27 NRILDSIRNIYENYGFDPIETPLLEYSD-SLGKFLPDEDRPNKG---VFSLQDDDGQWISLRYDLTAPLARYVAENFDTI 102 (496) Q Consensus 27 ~~i~~~l~~~f~~~G~~~I~tP~lE~~~-~~~~~~~~~~~~~k~---~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~ 102 (496) ..+.+.++++|...||++++.|-+|... -|-.-.-..+.+.++ .|-+ +. ...++||.--|+--+|++..+ T Consensus 4 ~~~~~~i~~~f~~~GF~~~~gp~ie~~~~NFD~Ln~P~dHPaR~~~DTfy~-~~-~~~~lLRtHTS~~q~r~l~~~---- 77 (218) T cd00496 4 NKVIEEIEDIFVSMGFTEVEGPEVETDFYNFDALNIPQDHPARDMQDTFYI-ND-PARLLLRTHTSAVQARALAKL---- 77 (218) T ss_pred HHHHHHHHHHHHHCCCEEECCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEE-CC-CCCCEECCCCCHHHHHHHHHC---- T ss_conf 899999999998779868228951231030453385988755372432786-37-766021578756679999745---- Q ss_pred CCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCC Q ss_conf 5411233101333025876444211111000121000 Q gi|254780928|r 103 VFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSS 139 (496) Q Consensus 103 ~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~ 139 (496) ..|+|.+++|+|||+|...+-++-+|+|+..=+++.. T Consensus 78 ~~p~~~~~~G~VyR~D~iDatH~~~FhQ~Eg~~v~~~ 114 (218) T cd00496 78 KPPIRIFSIGRVYRNDEIDATHLPEFHQIEGLVVDKG 114 (218) T ss_pred CCCCEEEECCCEEECCCCCCCCCCEEEEEEEEEEECC T ss_conf 8981799425046538898431531257637999565 No 68 >PRK09350 lysyl-tRNA synthetase; Provisional Probab=98.41 E-value=2.9e-06 Score=59.79 Aligned_cols=122 Identities=19% Similarity=0.217 Sum_probs=72.1 Q ss_pred CCCCH----HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEE--EEECC---CCCEEEECCC Q ss_conf 65886----689999999999999999859848016520228875202675543332216--89869---9988999888 Q gi|254780928|r 16 ADCPT----KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVF--SLQDD---DGQWISLRYD 86 (496) Q Consensus 16 ~D~~p----~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y--~f~D~---~g~~l~LRpD 86 (496) -+|-| +-.++|.+|...+|+.|...||.||+||+|-. ....+.. ...| .|..+ .+..+.|+. T Consensus 5 ~~w~~~as~~~l~~Rs~i~~~iR~ff~~~gFlEVeTP~L~~------~t~~~~~--~~~f~~~~~~~~~~~~~~~yL~~- 75 (325) T PRK09350 5 ASWQPSASIKNLLKRAAIIAEIRRFFADRGVLEVETPAMSQ------ATVTDIH--LVPFETRFVGPGHSQGKTLWLMT- 75 (325) T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCC------CCCCCCC--CCCEEEECCCCCCCCCCCEEEEC- T ss_conf 87777147999999999999999999988968977984257------7887646--76222102565545676645507- Q ss_pred CHHHHH--HHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHH Q ss_conf 838999--99995112055411233101333025876444211111000121000024578899999999975 Q gi|254780928|r 87 LTAPLA--RYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEA 157 (496) Q Consensus 87 lT~~~a--R~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~ 157 (496) .+++. |.++... -|.|+||+|||.|....-|.-||||++++..+.+-. +++.++-++++. T Consensus 76 -SPql~~k~l~~~G~------~rvfqI~~~FR~E~~~~~H~pEFtmlE~~~~~~d~~----d~m~~~e~ll~~ 137 (325) T PRK09350 76 -SPEYHMKRLLAAGS------GPIFQLCRSFRNEEAGRYHNPEFTMLEWYRPHYDMY----RLMNEVDDLLQQ 137 (325) T ss_pred -CHHHHHHHHHHCCC------CCEEEEEHHHCCCCCCCCCCCHHHHHHHHHHCCCHH----HHHHHHHHHHHH T ss_conf -91999999986678------855896113228999876573778889998154899----999999999999 No 69 >PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional Probab=98.39 E-value=2.6e-06 Score=60.13 Aligned_cols=130 Identities=25% Similarity=0.414 Sum_probs=82.1 Q ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCHHH----HHHHHCCCCCCCCCCCC---EEEEECC------------------- Q ss_conf 999999999999999985984801652022----88752026755433322---1689869------------------- Q gi|254780928|r 23 IRIRNRILDSIRNIYENYGFDPIETPLLEY----SDSLGKFLPDEDRPNKG---VFSLQDD------------------- 76 (496) Q Consensus 23 ~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~----~~~~~~~~~~~~~~~k~---~y~f~D~------------------- 76 (496) ..-..++.+.++++|..-||+++..|.+|. .|.| ....+++.++ .|-+.++ T Consensus 244 ~Hp~~~~~~~~r~i~~~mGF~e~~g~~ve~~fwNfdaL---f~Pq~HPARd~~Dtf~l~~~~~~~lp~~~~~~Vk~~HE~ 320 (501) T PRK04172 244 KHPYREFIEEVRDILVEMGFEEVKGPIVETEFWNFDAL---FQPQDHPAREMQDTFYLKYPSKGELPEELVERVKEVHEH 320 (501) T ss_pred CCHHHHHHHHHHHHHHHCCCEEEECCCEECCCCCHHHH---CCCCCCCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHC T ss_conf 48899999999999997897685366101000033430---589899855544537865765455737889889998742 Q ss_pred C----------------CCEEEECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCC Q ss_conf 9----------------988999888838999999951120554112331013330258764442111110001210000 Q gi|254780928|r 77 D----------------GQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSA 140 (496) Q Consensus 77 ~----------------g~~l~LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~ 140 (496) + .+.+.||---|+--+|+++.+. ..|+|.+++|+|||+|....-|.-||+|+.-=+++..= T Consensus 321 Gg~~gS~Gw~y~w~~~~~~~~~lRthtt~~~~r~l~~~~---~~p~~~f~~~rvfR~e~~d~tH~~~F~Q~eg~v~~~~~ 397 (501) T PRK04172 321 GGDTGSRGWGYKWDEDIAKRLVLRTHTTALSARYLAERP---EPPGKYFSIGRVFRPETIDATHLPEFYQLEGIVMGEDV 397 (501) T ss_pred CCCCCCCCCCCCCCHHHHHHHCCCCCCCHHHHHHHHHCC---CCCEEEECCCCEEECCCCCCCCCCEEEEEEEEEECCCC T ss_conf 776788776777785566430104367466799997468---99835735650542688886544133222489984888 Q ss_pred HHHHHHHHHHHHHHHHHCCC Q ss_conf 24578899999999975188 Q gi|254780928|r 141 ETADAEMCMMMADTLEAVGI 160 (496) Q Consensus 141 ~~~DaEii~l~~~~l~~lgl 160 (496) ..+ .++.++.++++++|+ T Consensus 398 ~~~--~L~g~l~~f~~~~g~ 415 (501) T PRK04172 398 SFR--HLLGILKEFYKRLGF 415 (501) T ss_pred CHH--HHHHHHHHHHHHHCC T ss_conf 799--999999999998588 No 70 >PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional Probab=98.38 E-value=2.7e-06 Score=60.05 Aligned_cols=99 Identities=25% Similarity=0.393 Sum_probs=62.5 Q ss_pred HHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCC Q ss_conf 99999999999999859848016520228875202675543332216898699988999888838999999951120554 Q gi|254780928|r 25 IRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVF 104 (496) Q Consensus 25 ~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~ 104 (496) +|.++...+|+.|..+||.||+||+| .++.+++.. .-+.-..-..|.-.+|+= .+++-.-..+- ... T Consensus 158 ~Rskv~~~iR~~l~~~gF~EVETP~L------~~stpEGAr--dflvPsr~~~~~fyaLpQ--SPQlyKQlLMv-gG~-- 224 (706) T PRK12820 158 KRHRIIKCARDFLDSRGFLEIETPIL------TKSTPEGAR--DYLVPSRIHPKEFYALPQ--SPQLFKQLLMI-AGF-- 224 (706) T ss_pred HHHHHHHHHHHHHHHCCCEEEECCEE------CCCCCCCCC--CCCCCEECCCCCEECCCC--CHHHHHHHHHH-CCC-- T ss_conf 99999999999998779889668704------456753245--750024458876500566--82999999986-286-- Q ss_pred CHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHH Q ss_conf 112331013330258764442111110001210 Q gi|254780928|r 105 PCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVG 137 (496) Q Consensus 105 p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG 137 (496) =|+|+|++|||+|....-|.-||+|+++|.-= T Consensus 225 -dRyFqIarcFRdEd~r~dRqPEFTqlDiEmSF 256 (706) T PRK12820 225 -ERYFQLARCFRDEDLRPNRQPEFTQLDIEASF 256 (706) T ss_pred -CEEEEEEEEECCCCCCCCCCCCEEEEEEEHHC T ss_conf -61799600112899998879834068742134 No 71 >PRK06462 asparagine synthetase A; Reviewed Probab=98.33 E-value=6e-06 Score=57.77 Aligned_cols=118 Identities=19% Similarity=0.203 Sum_probs=71.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEE-ECCCCCEEEECCCCHHHHHHHHHHH Q ss_conf 668999999999999999985984801652022887520267554333221689-8699988999888838999999951 Q gi|254780928|r 20 TKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSL-QDDDGQWISLRYDLTAPLARYVAEN 98 (496) Q Consensus 20 p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f-~D~~g~~l~LRpDlT~~~aR~~~~~ 98 (496) -.-.++|..|...+++.|...||.||+||+|.... ..+.+. .+.| .+--|..+.|+--.-.-.=|+++.. T Consensus 26 ~~ifriRs~i~~~iR~f~~~~gF~EV~TPiL~~~~----~~~~~~-----~~~~~~~~~~~~~~L~~Spql~lk~li~~g 96 (332) T PRK06462 26 SLVLKIQSSILRYTREFLDGRGFVEVLPPIISPST----DPLMGD-----AKPASIDFYGVEYYLADSMIFHKQLMLRLL 96 (332) T ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCC----CCCCCC-----CCCCEEECCCCCEEECCCHHHHHHHHHHCC T ss_conf 99999999999999999988899998797236778----876677-----601058448986331458699999998638 Q ss_pred HHHCCCCHHHHHHHHHHCCCCCCCC---CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH Q ss_conf 1205541123310133302587644---421111100012100002457889999999997 Q gi|254780928|r 99 FDTIVFPCRTYRIGPVFRNEKHGPG---RFRQFIQCDVDNVGSSAETADAEMCMMMADTLE 156 (496) Q Consensus 99 ~~~~~~p~k~yy~g~vfR~e~p~~G---r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~ 156 (496) + -|.|++|++||.|...+. |.-||+++.++....+ .. +++.++-+.++ T Consensus 97 -----~-~rVfeIg~~FR~E~~d~~t~rHlpEFt~lE~y~a~~d--~~--d~m~~~E~li~ 147 (332) T PRK06462 97 -----K-GKVFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGAD--LE--EVMSLAEDLIK 147 (332) T ss_pred -----C-CCEEEECCHHHCCCCCCCCCCCCHHHHHHHHHHHHCC--HH--HHHHHHHHHHH T ss_conf -----9-9779974523168777677765457776558787389--99--99999999999 No 72 >PRK12445 lysyl-tRNA synthetase; Reviewed Probab=98.28 E-value=7.8e-06 Score=57.07 Aligned_cols=101 Identities=25% Similarity=0.325 Sum_probs=62.7 Q ss_pred HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEE-CCCCCEEEECCCCHHHH--HHHHHHH Q ss_conf 89999999999999999859848016520228875202675543332216898-69998899988883899--9999951 Q gi|254780928|r 22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQ-DDDGQWISLRYDLTAPL--ARYVAEN 98 (496) Q Consensus 22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~-D~~g~~l~LRpDlT~~~--aR~~~~~ 98 (496) -.++|.+|...+|+.|...||.||+||+|... . +|.... -|.+. +.-+..+.||= .+++ -|.++.. T Consensus 183 ~~~~Rs~ii~~iR~~l~~~gF~EVeTPil~~~----~-gGa~Ar----pf~t~~~~~~~~~yL~q--SPQLykk~LmvgG 251 (505) T PRK12445 183 TFVVRSKILAAIRQFMVARGFMEVETPMMQVI----P-GGASAR----PFITHHNALDLDMYLRI--APELYLKRLVVGG 251 (505) T ss_pred HHHHHHHHHHHHHHHHHHCCCEEEECCCCCCC----C-CCCCCC----EEEECCCCCCCCEEECC--CCHHHHHHHHHCC T ss_conf 99999999999999999779389978875554----5-876661----03304667886743416--9399999998579 Q ss_pred HHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCC Q ss_conf 12055411233101333025876444211111000121000 Q gi|254780928|r 99 FDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSS 139 (496) Q Consensus 99 ~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~ 139 (496) + -|.|+||+|||+|....-|.-||||+++|.-..+ T Consensus 252 -----f-dRvfeI~r~FRnE~~~~~H~PEFT~lE~e~af~d 286 (505) T PRK12445 252 -----F-ERVFEINRNFRNEGISVRHNPEFTMMELYMAYAD 286 (505) T ss_pred -----C-CCEEEHHHHHHCCCCCCCCCHHHHHHHHHHHCCC T ss_conf -----7-4457627876078888665444543568763278 No 73 >cd00669 Asp_Lys_Asn_RS_core Asp_Lys_Asn_tRNA synthetase class II core domain. This domain is the core catalytic domain of class II aminoacyl-tRNA synthetases of the subgroup containing aspartyl, lysyl, and asparaginyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. Nearly all class II tRNA synthetases are dimers and enzymes in this subgroup are homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. Probab=98.28 E-value=8e-06 Score=56.98 Aligned_cols=112 Identities=21% Similarity=0.346 Sum_probs=69.8 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCCEEEECCCCHHHHH--HHHHHHHH Q ss_conf 99999999999999985984801652022887520267554333221689869-9988999888838999--99995112 Q gi|254780928|r 24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQWISLRYDLTAPLA--RYVAENFD 100 (496) Q Consensus 24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~~l~LRpDlT~~~a--R~~~~~~~ 100 (496) ++|..+...+++.|...||.||+||+|.... +++ ..+.|.+.-. .|....|+-- +.+. |.++.. T Consensus 2 r~Rs~i~~~iR~ff~~~~f~EV~TP~l~~~~------~~~---~~~~f~~~~~~~~~~~~L~~S--pel~~k~ll~~g-- 68 (269) T cd00669 2 KVRSKIIKAIRDFMDDRGFLEVETPMLQKIT------GGA---GARPFLVKYNALGLDYYLRIS--PQLFKKRLMVGG-- 68 (269) T ss_pred CHHHHHHHHHHHHHHHCCCEEEECCEEECCC------CCC---CCCEEEEECCCCCCEEEECCC--HHHHHHHHHHCC-- T ss_conf 1699999999999998898998798530578------987---674257313789940773438--899999998658-- Q ss_pred HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH Q ss_conf 05541123310133302587644421111100012100002457889999999997 Q gi|254780928|r 101 TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLE 156 (496) Q Consensus 101 ~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~ 156 (496) . -|.|++|++||.|..+.=|.-||++..++..+.+ . -+++.++-+.+. T Consensus 69 ---~-~~if~i~~~FR~e~~~~rH~~EFtmlE~y~~~~d--~--~~~m~~~e~li~ 116 (269) T cd00669 69 ---L-DRVFEINRNFRNEDLRARHQPEFTMMDLEMAFAD--Y--EDVIELTERLVR 116 (269) T ss_pred ---C-CCEEEEECCCCCCCCCCCCCHHHHHHHHHCCCCC--H--HHHHHHHHHHHH T ss_conf ---8-8679984621078986554348775787514899--9--999999999999 No 74 >COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis] Probab=98.26 E-value=8.8e-05 Score=50.22 Aligned_cols=141 Identities=20% Similarity=0.241 Sum_probs=76.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCC---CCEEEECCCCHHHHHHHHH Q ss_conf 6689999999999999999859848016520228875202675543332216898699---9889998888389999999 Q gi|254780928|r 20 TKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDD---GQWISLRYDLTAPLARYVA 96 (496) Q Consensus 20 p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~---g~~l~LRpDlT~~~aR~~~ 96 (496) -+....|.+|...++..|..+||-||+||++.. ......+...---.|..++ +..+-|.+-=-...-|.++ T Consensus 13 ~~~ll~Ra~i~~~iR~FF~erg~lEVeTp~Ls~------a~vtd~hL~~F~Te~~~~~~~~~~~l~L~TSPEy~mKrLLA 86 (322) T COG2269 13 IDNLLKRAAIIAAIRRFFAERGVLEVETPALSV------APVTDIHLHPFETEFLGPGGAKGKPLWLHTSPEYHMKRLLA 86 (322) T ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEECCHHHHC------CCCCCCCEEEEEEEEECCCCCCCCEEEEECCCHHHHHHHHH T ss_conf 899998999999999999876925853367650------78986423445667654676665303665680777899997 Q ss_pred HHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCC-----CCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEECCC Q ss_conf 51120554112331013330258764442111-----1100012100002457889999999997518887771130366 Q gi|254780928|r 97 ENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQF-----IQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRNDYHIGINN 171 (496) Q Consensus 97 ~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf-----~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~ 171 (496) ... -+.|++|+|||++.-+.=|--|| |+.++|.-- ... |+=.+...+++.-+.. . T Consensus 87 ag~------~~ifql~kvfRN~E~G~~H~PEFTMLEWYrv~~d~~~---lm~--e~~~Ll~~vl~~~~~E---------~ 146 (322) T COG2269 87 AGS------GPIFQLGKVFRNEEMGRLHNPEFTMLEWYRVGCDYYR---LMN--EVDDLLQLVLECVEAE---------R 146 (322) T ss_pred CCC------CCCHHHHHHHHCCCCCCCCCCCEEEEEEECCCCCHHH---HHH--HHHHHHHHHHHCCCCC---------E T ss_conf 548------8601454777263325667984367651006785999---999--9999999997037853---------5 Q ss_pred CHHHHHHHHHHCCCH Q ss_conf 055899999832560 Q gi|254780928|r 172 RKILDGILEKIGLHG 186 (496) Q Consensus 172 ~~il~~il~~lgi~~ 186 (496) ...-+++++.+|+.. T Consensus 147 ls~~eaF~r~~gid~ 161 (322) T COG2269 147 LSYQEAFLRYLGIDP 161 (322) T ss_pred EEHHHHHHHHHCCCC T ss_conf 559999999838894 No 75 >KOG1885 consensus Probab=98.24 E-value=0.00012 Score=49.33 Aligned_cols=99 Identities=26% Similarity=0.376 Sum_probs=55.3 Q ss_pred HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHH Q ss_conf 89999999999999999859848016520228875202675543332216898699988999888838999999951120 Q gi|254780928|r 22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDT 101 (496) Q Consensus 22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~ 101 (496) -..+|.+|++-+|+.+...||-||+||++.. ..+|.... --.+....-+..|.||=-=-.=+-+.++... T Consensus 224 ~f~~RakII~~iRkfld~rgFlEVETPmmn~-----iaGGA~Ak---PFIT~hndldm~LylRiAPEL~lK~LvVGGl-- 293 (560) T KOG1885 224 RFRIRAKIISYIRKFLDSRGFLEVETPMMNM-----IAGGATAK---PFITHHNDLDMDLYLRIAPELYLKMLVVGGL-- 293 (560) T ss_pred HHHHHHHHHHHHHHHHHHCCCEEECCHHHCC-----CCCCCCCC---CEEECCCCCCCCEEEEECHHHHHHHHHHCCH-- T ss_conf 9999999999999986544956844465525-----46863257---6043145567551456365999998986017-- Q ss_pred CCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHH Q ss_conf 554112331013330258764442111110001 Q gi|254780928|r 102 IVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVD 134 (496) Q Consensus 102 ~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~e 134 (496) -|.|.||+.||+|--..-|--||+-|-|- T Consensus 294 ----drVYEIGr~FRNEGIDlTHNPEFTTcEfY 322 (560) T KOG1885 294 ----DRVYEIGRQFRNEGIDLTHNPEFTTCEFY 322 (560) T ss_pred ----HHHHHHHHHHHHCCCCCCCCCCCCHHHHH T ss_conf ----89999878763057665458774218999 No 76 >PRK05159 aspC aspartyl-tRNA synthetase; Provisional Probab=98.24 E-value=8.4e-06 Score=56.83 Aligned_cols=112 Identities=23% Similarity=0.330 Sum_probs=65.4 Q ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECC--CCHHHHHHHHHHHHH Q ss_conf 999999999999999985984801652022887520267554333221689869998899988--883899999995112 Q gi|254780928|r 23 IRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRY--DLTAPLARYVAENFD 100 (496) Q Consensus 23 ~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRp--DlT~~~aR~~~~~~~ 100 (496) .++|..|...+++.|..+||.||+||+|-.... .+|. +.|.+. .-|+...||= ++- .-|+++.. T Consensus 137 ~r~Rs~i~~~iR~fl~~~gF~EVeTP~l~~~~~---eGga------~~f~~~-~~~~~~yL~~Spqly--~q~li~~G-- 202 (434) T PRK05159 137 FKIRSEVLRAFREFLYEEGFTEIFTPKIVATGT---EGGT------ELFPVK-YFEKEAFLAQSPQLY--KQMMMAAG-- 202 (434) T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCC---CCCC------CCCCEE-ECCCEEEECCCCHHH--HHHHHHCC-- T ss_conf 999999999999999877919997874325678---8755------658613-127533414683799--99987635-- Q ss_pred HCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH Q ss_conf 05541123310133302587644-421111100012100002457889999999997 Q gi|254780928|r 101 TIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAETADAEMCMMMADTLE 156 (496) Q Consensus 101 ~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~ 156 (496) + -|.|++|++||+|..... |.-||+|+++|.-..+- -+++.++-+.+. T Consensus 203 ---~-~rvfeI~~~FR~E~~~t~RH~pEFT~lE~e~af~d~----~d~m~~~E~li~ 251 (434) T PRK05159 203 ---F-ERVFEIGPAFRAEEHNTTRHLNEAISIDVEMGFIDE----EDVMDLLENLLK 251 (434) T ss_pred ---C-CCEEEECCCEECCCCCCCCCHHHHHHHHHHHCCCCH----HHHHHHHHHHHH T ss_conf ---6-855996601023658754453567656666310689----999999999999 No 77 >COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis] Probab=98.24 E-value=2e-05 Score=54.41 Aligned_cols=145 Identities=23% Similarity=0.320 Sum_probs=75.9 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCC Q ss_conf 99999999999999985984801652022887520267554333221689869998899988883899999995112055 Q gi|254780928|r 24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIV 103 (496) Q Consensus 24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~ 103 (496) ..|-+|.+.+++.+...||-||+||++...- +|....+= .+...-=+..+.||=---.-+-|.++... T Consensus 181 ~~Rs~ii~~iR~fl~~~gFlEVETP~lq~i~-----GGA~ArPF---~ThhNald~dlyLRIApELyLKRliVGG~---- 248 (502) T COG1190 181 IKRSKIIRAIREFLDDRGFLEVETPMLQPIP-----GGAAARPF---ITHHNALDMDLYLRIAPELYLKRLIVGGF---- 248 (502) T ss_pred HHHHHHHHHHHHHHHHCCCEEECCCCCCCCC-----CCCCCCCC---EEEECCCCCCEEEEECCHHHHHHHHHCCC---- T ss_conf 9999999999999987797584160003557-----87322650---12202367756876241899998875372---- Q ss_pred CCHHHHHHHHHHCCCCCCCCCC-----CCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH-HCCCCCCCCEEECCC----CH Q ss_conf 4112331013330258764442-----1111100012100002457889999999997-518887771130366----05 Q gi|254780928|r 104 FPCRTYRIGPVFRNEKHGPGRF-----RQFIQCDVDNVGSSAETADAEMCMMMADTLE-AVGIKRNDYHIGINN----RK 173 (496) Q Consensus 104 ~p~k~yy~g~vfR~e~p~~Gr~-----REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~-~lgl~~~~~~I~in~----~~ 173 (496) -|.|.+|++||+|--..-|- -|+||+=+|.= +-..--.++++.++..+. ...++-+...|.++- .. T Consensus 249 --erVfEIgr~FRNEGid~tHNPEFTmlE~Y~AYaDy~--D~m~ltE~Li~~~a~~v~gt~~v~y~~~~id~~~pf~ri~ 324 (502) T COG1190 249 --ERVFEIGRNFRNEGIDTTHNPEFTMLEFYQAYADYE--DLMDLTEELIKELAKEVNGTTKVTYGGQEIDFSKPFKRIT 324 (502) T ss_pred --HHHEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHCCCEEEEECCEEEECCCCEEEEE T ss_conf --142230552003787666484235689999985799--9999999999999999549737878997675489722566 Q ss_pred HHHHHHHHHCC Q ss_conf 58999998325 Q gi|254780928|r 174 ILDGILEKIGL 184 (496) Q Consensus 174 il~~il~~lgi 184 (496) +.+++.+..|+ T Consensus 325 m~dal~e~~g~ 335 (502) T COG1190 325 MVDALKEYLGV 335 (502) T ss_pred HHHHHHHHHCC T ss_conf 48999987186 No 78 >PRK02983 lysS lysyl-tRNA synthetase; Provisional Probab=98.20 E-value=8.9e-06 Score=56.66 Aligned_cols=96 Identities=24% Similarity=0.334 Sum_probs=61.3 Q ss_pred HHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC----CCCEEEECCCCHHHHHHHHHHHHH Q ss_conf 9999999999999985984801652022887520267554333221689869----998899988883899999995112 Q gi|254780928|r 25 IRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD----DGQWISLRYDLTAPLARYVAENFD 100 (496) Q Consensus 25 ~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~----~g~~l~LRpDlT~~~aR~~~~~~~ 100 (496) +|.+|...+++.+..+||.||+||+|... .+|++.+. |..+ .+. +.||=---.-.-|.++... T Consensus 778 ~RS~Vi~aiR~~L~~~GFlEVETPiLq~~-----~GGA~ARP------FlThsna~d~~-~YLriAPELflKRLmVGGf- 844 (1099) T PRK02983 778 ARSAVLRAVRETLVAKGFLEVETPILQQI-----HGGANARP------FLTHINAYDLD-LYLRIAPELYLKRLCVGGV- 844 (1099) T ss_pred HHHHHHHHHHHHHHHCCCEEEECCCCCCC-----CCCCCCCC------CCCCCCCCCCC-CEEECCHHHHHHHHHHCCC- T ss_conf 99999999999998789889557546778-----88756785------30103367866-1451480899999986486- Q ss_pred HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHC Q ss_conf 05541123310133302587644421111100012100 Q gi|254780928|r 101 TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGS 138 (496) Q Consensus 101 ~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~ 138 (496) -|.|+|+++||+|....-|.-||+|+.++.-.. T Consensus 845 -----eRVFEI~RcFRNEglradHnPEFTmLE~Y~Ay~ 877 (1099) T PRK02983 845 -----ERVFELGRAFRNEGVDFSHNPEFTLLEAYQAHA 877 (1099) T ss_pred -----CCCEEECCCCCCCCCCCCCCCCHHHHHHHHHHC T ss_conf -----311343254467999987494079999999847 No 79 >COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis] Probab=98.14 E-value=3.4e-05 Score=52.88 Aligned_cols=144 Identities=22% Similarity=0.336 Sum_probs=89.9 Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHH-HHHCCCCCCCCCCCC---EEEEECCCCCEEE Q ss_conf 710379987658866899999999999999998598480165202288-752026755433322---1689869998899 Q gi|254780928|r 7 LRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSD-SLGKFLPDEDRPNKG---VFSLQDDDGQWIS 82 (496) Q Consensus 7 ~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~-~~~~~~~~~~~~~k~---~y~f~D~~g~~l~ 82 (496) ..+.+| |. ...+....-...+.+.++++|..-||++++.|.+|.-- -|-.-.-..+++.++ .|-+.+... .+. T Consensus 96 ~dv~lp-~~-~~~~G~~Hpl~~~~e~i~~iF~~mGF~~~~gp~IE~d~~NFDaLn~P~dHPARdmqDTFy~~~~~~-~~l 172 (335) T COG0016 96 IDVTLP-GR-RIYPGSLHPLTQTIEEIEDIFLGMGFTEVEGPEIETDFYNFDALNIPQDHPARDMQDTFYLKDDRE-KLL 172 (335) T ss_pred CCCCCC-CC-CCCCCCCCHHHHHHHHHHHHHHHCCCEECCCCCCCCCCCCHHHHCCCCCCCCCCCCCEEEECCCCC-CEE T ss_conf 775788-86-677898670899999999999974966645882132022524324999998412444378768877-300 Q ss_pred ECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHC Q ss_conf 9888838999999951120554112331013330258764442111110001210000245788999999999751 Q gi|254780928|r 83 LRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAV 158 (496) Q Consensus 83 LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~l 158 (496) ||-.-|+--+|+...+.. .|+|.+..|+|||+|....-|.-+|+|+.-=+++..-..+ .+..++.++++.+ T Consensus 173 LRTHTs~vq~R~l~~~~~---~P~k~~~~grvyR~D~~DaTHs~~FhQiEGlvvd~~~s~~--~Lkg~L~~f~~~~ 243 (335) T COG0016 173 LRTHTSPVQARTLAENAK---IPIKIFSPGRVYRNDTVDATHSPEFHQIEGLVVDKNISFA--DLKGTLEEFAKKF 243 (335) T ss_pred ECCCCCHHHHHHHHHCCC---CCCEEECCCCEECCCCCCCCCCHHEEEEEEEEEECCCCHH--HHHHHHHHHHHHH T ss_conf 236682765999984799---9915845663411788776426101336789995895699--9999999999996 No 80 >PRK00476 aspS aspartyl-tRNA synthetase; Validated Probab=98.13 E-value=1.6e-05 Score=55.04 Aligned_cols=96 Identities=29% Similarity=0.546 Sum_probs=59.4 Q ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEE--EECCCCCEEEECCCCHHHH-HHHH-HHH Q ss_conf 99999999999999998598480165202288752026755433322168--9869998899988883899-9999-951 Q gi|254780928|r 23 IRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFS--LQDDDGQWISLRYDLTAPL-ARYV-AEN 98 (496) Q Consensus 23 ~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~--f~D~~g~~l~LRpDlT~~~-aR~~-~~~ 98 (496) .++|.++...+++.|...||.||+||+|- ++.+++.. . |- .....|.-.+|+- .+++ .+++ +. T Consensus 142 fr~Rs~i~~~iR~fl~~~gFiEVeTPiL~------~s~~eGA~---~-F~vpsr~~~~~fyaL~q--SPQLykq~L~vg- 208 (587) T PRK00476 142 LKLRSKVTSAIRNFLDDNGFLEIETPILT------KSTPEGAR---D-YLVPSRVHPGKFYALPQ--SPQLFKQLLMVA- 208 (587) T ss_pred HHHHHHHHHHHHHHHHHCCCCEECCCCCC------CCCCCCCC---C-CCCCCCCCCCCEECCCC--CHHHHHHHHHHC- T ss_conf 99999999999999997597400475432------56866664---4-30131057885513567--979999998851- Q ss_pred HHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHH Q ss_conf 12055411233101333025876444211111000121 Q gi|254780928|r 99 FDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNV 136 (496) Q Consensus 99 ~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eii 136 (496) . . -|.|.+|++||+|....-|.-||||+++|.- T Consensus 209 --G--~-erVyeig~~FRnE~~~t~r~pEFt~lE~E~a 241 (587) T PRK00476 209 --G--F-DRYYQIARCFRDEDLRADRQPEFTQIDIEMS 241 (587) T ss_pred --C--C-CEEEEECCCCCCCCCCCCCCCHHHEEEHHHH T ss_conf --7--5-5279964312388887666823423111111 No 81 >KOG2411 consensus Probab=98.07 E-value=4.2e-05 Score=52.31 Aligned_cols=116 Identities=22% Similarity=0.365 Sum_probs=69.3 Q ss_pred HHHHHHHHHHHHHHH-HHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHH Q ss_conf 999999999999999-9859848016520228875202675543332216898699988999888838999999951120 Q gi|254780928|r 23 IRIRNRILDSIRNIY-ENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDT 101 (496) Q Consensus 23 ~~~~~~i~~~l~~~f-~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~ 101 (496) .++|..+...+++.| .+|||.+|+||+| |.+.-|.. . +-+.---.+.|.-.+|+ -.--++-.++ + .. T Consensus 178 LrlRS~~v~~iR~yl~n~~GFvevETPtL-----FkrTPgGA-~--EFvVPtr~~~g~FYaLp-QSPQQfKQlL-M--vs 245 (628) T KOG2411 178 LRLRSNVVKKIRRYLNNRHGFVEVETPTL-----FKRTPGGA-R--EFVVPTRTPRGKFYALP-QSPQQFKQLL-M--VS 245 (628) T ss_pred HHHHHHHHHHHHHHHHHHCCEEECCCCCH-----HCCCCCCC-C--EEECCCCCCCCCEEECC-CCHHHHHHHH-H--HH T ss_conf 99999999999999861047355157202-----01488864-1--23223678988555368-8989999999-8--72 Q ss_pred CCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH Q ss_conf 5541123310133302587644421111100012100002457889999999997 Q gi|254780928|r 102 IVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLE 156 (496) Q Consensus 102 ~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~ 156 (496) . --|+|++.+|||+|....-|.-||+|+|+|+--.+. -+|++++-+.+. T Consensus 246 G--idrYyQiARCfRDEdlR~DRQPEFTQvD~EMsF~~~----~dim~liEdll~ 294 (628) T KOG2411 246 G--IDRYYQIARCFRDEDLRADRQPEFTQVDMEMSFTDQ----EDIMKLIEDLLR 294 (628) T ss_pred C--HHHHHHHHHHHCCCCCCCCCCCCCEEEEEEEECCCH----HHHHHHHHHHHH T ss_conf 3--036776776641345676568764354447853677----878999999999 No 82 >cd00777 AspRS_core Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. AspRS in this family differ from those found in the AsxRS family by a GAD insert in the core domain. Probab=98.07 E-value=1.9e-05 Score=54.49 Aligned_cols=99 Identities=28% Similarity=0.444 Sum_probs=61.1 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHH---HHHHHHHHH Q ss_conf 99999999999999985984801652022887520267554333221689869998899988883899---999995112 Q gi|254780928|r 24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPL---ARYVAENFD 100 (496) Q Consensus 24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~---aR~~~~~~~ 100 (496) ++|..|...+++.|...||.||+||+|...+ ..|..+. ........|....|+- .|- -|.++.. T Consensus 2 r~Rs~i~~~iR~ff~~~gflEV~TPiL~~~~----~ega~~f----~~~~~~~~~~~~~L~~---Spel~~k~l~~~g-- 68 (280) T cd00777 2 RLRSRVIKAIRNFLDEQGFVEIETPILTKST----PEGARDF----LVPSRLHPGKFYALPQ---SPQLFKQLLMVSG-- 68 (280) T ss_pred CHHHHHHHHHHHHHHHCCCEEEECCCCCCCC----CCCCCCC----EECCCCCCCCCCCCCC---CHHHHHHHHHHCC-- T ss_conf 6699999999999998898998798106878----7767664----4244168876036887---9899999998568-- Q ss_pred HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCC Q ss_conf 055411233101333025876444211111000121000 Q gi|254780928|r 101 TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSS 139 (496) Q Consensus 101 ~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~ 139 (496) . -|.|++|++||.|....-|--||+++.++....+ T Consensus 69 ---~-~rvf~i~~~FR~E~~~~~h~~EFtmLE~e~~~~~ 103 (280) T cd00777 69 ---F-DRYFQIARCFRDEDLRADRQPEFTQIDIEMSFVD 103 (280) T ss_pred ---C-CCCEEEECEECCCCCCCCCCHHHHHHHHHCCCCC T ss_conf ---7-7757984517478888766347762344226888 No 83 >PTZ00326 phenylalanyl-tRNA synthetase; Provisional Probab=98.07 E-value=2.6e-05 Score=53.66 Aligned_cols=132 Identities=21% Similarity=0.350 Sum_probs=74.1 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEECCC-HH--H--HHHHHCCCCCCCCCCCC---EEEEECCC------------------ Q ss_conf 99999999999999985984801652-02--2--88752026755433322---16898699------------------ Q gi|254780928|r 24 RIRNRILDSIRNIYENYGFDPIETPL-LE--Y--SDSLGKFLPDEDRPNKG---VFSLQDDD------------------ 77 (496) Q Consensus 24 ~~~~~i~~~l~~~f~~~G~~~I~tP~-lE--~--~~~~~~~~~~~~~~~k~---~y~f~D~~------------------ 77 (496) .-..++.+.++++|-.-||+|+.+|- +| + .|.| ....+++.++ .|-+.++. T Consensus 242 hp~~~~~~~~r~if~~mGF~E~~~~~~ves~fwNfDaL---f~Pq~HPARd~~DTF~l~~p~~~~~~~~~~~~~Vk~vHe 318 (505) T PTZ00326 242 HPLLKVRQEFREIFMEMGFEEMPTNRWVESSFWNFDAL---FIPQQHPARDLQDTFFLSKPETSKFLDAEYVERVKAVHS 318 (505) T ss_pred CHHHHHHHHHHHHHHHCCCEECCCCCEEEECCCCCHHH---CCCCCCCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHC T ss_conf 88999999999999977976766897133132131110---489899866523347744754245687899998888850 Q ss_pred -----------------CCEEEECCCCHHHHHHHHHH---HHH--HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHH Q ss_conf -----------------98899988883899999995---112--05541123310133302587644421111100012 Q gi|254780928|r 78 -----------------GQWISLRYDLTAPLARYVAE---NFD--TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDN 135 (496) Q Consensus 78 -----------------g~~l~LRpDlT~~~aR~~~~---~~~--~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~ei 135 (496) .+.+.||---|+--+|++.. +.. ....|.|.|.+|+|||+|....-|.-||+|+.-=+ T Consensus 319 ~G~~gs~Gw~y~W~~~~a~~~~LRthTt~vs~r~l~~~~~~~~~~~~~~P~k~fsi~rv~R~e~~d~th~~~f~Q~eg~~ 398 (505) T PTZ00326 319 GGGYGSIGWQYNWKLEEARKNVLRTHTTAVSARMLYKLAQQYQKGKGFKPKKYFSIDRVFRNETLDATHLAEFHQVEGVV 398 (505) T ss_pred CCCCCCCCCCCCCCHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCEEECCCCCCCCCCEEEEEEEEE T ss_conf 68878887677879778752063657753769999987540465568898147523726415777765340455435789 Q ss_pred HHCCCHHHHHHHHHHHHHHHHHCCC Q ss_conf 1000024578899999999975188 Q gi|254780928|r 136 VGSSAETADAEMCMMMADTLEAVGI 160 (496) Q Consensus 136 iG~~~~~~DaEii~l~~~~l~~lgl 160 (496) ++..-..+ .++.++.++++++|. T Consensus 399 ~~~~~~~~--~l~~~l~~f~~~~g~ 421 (505) T PTZ00326 399 IDRNLSLG--DLMGTLREFFRRIGI 421 (505) T ss_pred ECCCCCHH--HHHHHHHHHHHHHCC T ss_conf 64888899--999999999998498 No 84 >PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed Probab=98.01 E-value=4.4e-06 Score=58.65 Aligned_cols=82 Identities=15% Similarity=0.267 Sum_probs=60.9 Q ss_pred CCEEEECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCC-CCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHH Q ss_conf 9889998888389999999511205541123310133302587-644421111100012100002457889999999997 Q gi|254780928|r 78 GQWISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKH-GPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLE 156 (496) Q Consensus 78 g~~l~LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p-~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~ 156 (496) -+.+.||.-+|.+.-..++.-....+.|+|+|.+.+|||+|+- ..-|.++|+|+.+=+.|.+-... ....++-..|+ T Consensus 179 s~~~tLRSHmTsgwfitL~~l~~k~~~P~klFSIDRcFRrEq~eD~~hL~~yhsascvv~~edVn~d--~gkav~~~lL~ 256 (527) T PRK06253 179 SSRLTLRSHMTSGWFITLSALWERKPLPFKLFSIDRCFRREQKEDASRLMTYHSASCVVAGEDVTVD--DGKAVAEGLLS 256 (527) T ss_pred CCCCEEHHCCCCHHHHHHHHHHHCCCCCEEEEEEEHEEECHHHCCHHHHHHHHEEEEEEECCCCCHH--HHHHHHHHHHH T ss_conf 4453410010302788799997267998368741010220000245563454432269975986677--77999999999 Q ss_pred HCCCC Q ss_conf 51888 Q gi|254780928|r 157 AVGIK 161 (496) Q Consensus 157 ~lgl~ 161 (496) .||++ T Consensus 257 ~fGF~ 261 (527) T PRK06253 257 QFGFT 261 (527) T ss_pred HHCCC T ss_conf 70975 No 85 >PRK03932 asnC asparaginyl-tRNA synthetase; Validated Probab=97.86 E-value=6.7e-05 Score=50.99 Aligned_cols=112 Identities=22% Similarity=0.398 Sum_probs=62.0 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCC------------------CCEEEECC Q ss_conf 999999999999999859848016520228875202675543332216898699------------------98899988 Q gi|254780928|r 24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDD------------------GQWISLRY 85 (496) Q Consensus 24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~------------------g~~l~LRp 85 (496) ++|..|...+|+.|...||.||+||+|-... +++. .++|.....+ |+...|| T Consensus 136 r~RS~i~~~iR~~l~~~~F~EVeTP~L~~~~------~eGa---a~~F~v~~~~~~~~~~~~~~~~~~~~yf~~~~yL~- 205 (462) T PRK03932 136 RVRNTLAQAIHEFFQENGFVWVHTPIITASD------CEGA---GELFRVTTLDLENLPRTDGKVDFSKDFFGKEAFLT- 205 (462) T ss_pred HHHHHHHHHHHHHHHHCCCEEEECCCCCCCC------CCCC---CCCEEECCCCCCCCCCCCCCCCCHHHHCCCCCCCC- T ss_conf 9999999999999976796799788653568------7645---57404214543445433444331145427762026- Q ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHH Q ss_conf 88389999999511205541123310133302587644-42111110001210000245788999999999 Q gi|254780928|r 86 DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAETADAEMCMMMADTL 155 (496) Q Consensus 86 DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l 155 (496) ++= -.+.+.+.. .+. |.|++|++||+|..... |.-||+|+++|.-..+ .. +++.++-+++ T Consensus 206 ---~Sp-qLylq~li~-G~e-rVfeIg~~FRnE~~~t~RH~pEFT~lE~e~a~~d--~~--d~m~l~E~li 266 (462) T PRK03932 206 ---VSG-QLYAEAYAM-ALS-KVYTFGPTFRAENSNTRRHLAEFWMIEPEMAFAD--LE--DNMDLAEDML 266 (462) T ss_pred ---CCH-HHHHHHHHH-HCC-CEEEEEHHHHHCCCCCCCCCCCCEEEEEEEECCC--HH--HHHHHHHHHH T ss_conf ---576-899999875-206-4899733232056775445430025553110068--99--9999999999 No 86 >KOG2509 consensus Probab=97.86 E-value=0.00013 Score=49.19 Aligned_cols=147 Identities=16% Similarity=0.231 Sum_probs=101.3 Q ss_pred CCCCCCC--CHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHH Q ss_conf 9987658--86689999999999999999859848016520228875202675543332216898699988999888838 Q gi|254780928|r 12 PRGFADC--PTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTA 89 (496) Q Consensus 12 P~G~~D~--~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~ 89 (496) ..|.|-| .+..+.+.+.+.+--.+.....||.+|.||.+-..|+..+.+.... ...+.|.-.|.+ ...+|---.-. T Consensus 172 vsG~r~Yyl~g~~a~LeqALi~yal~~l~~kGy~pl~~P~i~rkeVm~~cg~~~~-~d~~~~y~ld~~-~~~~LiaTaE~ 249 (455) T KOG2509 172 VSGHRGYYLKGAGAFLEQALINYALDFLNAKGYTPLTTPDILRKEVMQKCGQLPR-FDEEQYYVLDGG-DEKYLIATAEQ 249 (455) T ss_pred CCCCCCEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCC-CCCCEEEEECCC-CCCEEEEECCC T ss_conf 1466515875779999999999999999976982466814536999998565767-883217860688-64226762111 Q ss_pred HHHHHHHHHH-HHCCCCHHHHHHHHHHCCCCC-----CCCCCC--CCCCCCHHHHHCCCHH----HHHHHHHHHHHHHHH Q ss_conf 9999999511-205541123310133302587-----644421--1111000121000024----578899999999975 Q gi|254780928|r 90 PLARYVAENF-DTIVFPCRTYRIGPVFRNEKH-----GPGRFR--QFIQCDVDNVGSSAET----ADAEMCMMMADTLEA 157 (496) Q Consensus 90 ~~aR~~~~~~-~~~~~p~k~yy~g~vfR~e~p-----~~Gr~R--Ef~Q~g~eiiG~~~~~----~DaEii~l~~~~l~~ 157 (496) |+|=+..... ....+|+|+.-..++||.|-- .+|-|| || --+|.|...++. .=-|+|....+++++ T Consensus 250 plAa~~~~e~~~~~~lPiK~vg~S~CfR~EaGs~G~d~~GlyRVHqF--~KVE~Fvit~Pe~S~~~~eEmi~~~eef~qs 327 (455) T KOG2509 250 PLAAYHRDEWLEEDQLPIKYVGVSRCFRAEAGSHGKDTKGLYRVHQF--EKVEQFVITGPEDSWEMLEEMINNQEEFYQS 327 (455) T ss_pred HHHHHHCCCCCCCCCCCEEEEEHHHHHHHHHHHCCCCCCCCEEEEEE--EEEEEEEECCCCHHHHHHHHHHHHHHHHHHH T ss_conf 06665036403611276013430378887760046545551466520--0257888658535699999999999999998 Q ss_pred CCCCC Q ss_conf 18887 Q gi|254780928|r 158 VGIKR 162 (496) Q Consensus 158 lgl~~ 162 (496) |||+- T Consensus 328 Lgip~ 332 (455) T KOG2509 328 LGLPY 332 (455) T ss_pred HCCCE T ss_conf 09960 No 87 >KOG0556 consensus Probab=97.76 E-value=0.00033 Score=46.44 Aligned_cols=112 Identities=24% Similarity=0.391 Sum_probs=66.0 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCC-CEEEECCCCHHHHHHHHHHHHHHC Q ss_conf 9999999999999998598480165202288752026755433322168986999-889998888389999999511205 Q gi|254780928|r 24 RIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDG-QWISLRYDLTAPLARYVAENFDTI 102 (496) Q Consensus 24 ~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g-~~l~LRpDlT~~~aR~~~~~~~~~ 102 (496) ++..-|+..+++.....||.+|.||-+ ....+.. ...+|+..-.++ .-|+=-|-+--+.| ++. + T Consensus 229 riq~gvc~~FRe~L~~kgF~EIhTpKl-----i~asSEG----GanvF~v~Yfk~~A~LAQSPQLyKQMa--I~g---d- 293 (533) T KOG0556 229 RIQAGVCFAFREYLRSKGFVEIHTPKL-----IGASSEG----GANVFRVSYFKQKAYLAQSPQLYKQMA--ICG---D- 293 (533) T ss_pred EHHHHHHHHHHHHHHHCCCCEECCCCC-----CCCCCCC----CCEEEEEEECCCCCHHHCCHHHHHHHH--HHC---C- T ss_conf 068889999999997568604326320-----1466777----722689986067503205858887788--760---6- Q ss_pred CCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHH Q ss_conf 541123310133302587644-42111110001210000245788999999999 Q gi|254780928|r 103 VFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAETADAEMCMMMADTL 155 (496) Q Consensus 103 ~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l 155 (496) + -|.|.+|+|||.|...-- +.-||.-.|.|+-=... --||+.++.+.| T Consensus 294 -f-~rVyeIGpVfRAEdSnthRhltEFvGLD~EMaf~~h---YhEVm~~i~~lf 342 (533) T KOG0556 294 -F-ERVYEIGPVFRAEDSNTHRHLTEFVGLDLEMAFNEH---YHEVMDTIGELF 342 (533) T ss_pred -H-HHEEEECCEEECCCCCHHHHHHHHHCCCHHHHHHHH---HHHHHHHHHHHH T ss_conf -1-104652355660446416666776174225477777---999999999999 No 88 >PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated Probab=97.72 E-value=0.00031 Score=46.69 Aligned_cols=110 Identities=21% Similarity=0.295 Sum_probs=75.0 Q ss_pred HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHH-HHHCCCCCCCCCCCCEEE--EECCCCCEEEECCCCHHHHHHHHHHH Q ss_conf 899999999999999998598480165202288-752026755433322168--98699988999888838999999951 Q gi|254780928|r 22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSD-SLGKFLPDEDRPNKGVFS--LQDDDGQWISLRYDLTAPLARYVAEN 98 (496) Q Consensus 22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~-~~~~~~~~~~~~~k~~y~--f~D~~g~~l~LRpDlT~~~aR~~~~~ 98 (496) ...--..+.+.+.++|...||+..+-|-+|..- -|..-.-..+++.+.|.. +.+ ....||.--|+--+|....+ T Consensus 105 ~~HPit~~~~ei~~iF~~~Gf~v~~GpeiE~~~~NFdaLn~P~~HPAR~~~DTFy~~---~~~lLRTHTS~~qir~m~~~ 181 (338) T PRK00488 105 GLHPLTRTIERIEDIFVGLGFEVAEGPEIEDDYYNFEALNIPKDHPARDMQDTFYID---DRLLLRTHTSPVQIRTMEKQ 181 (338) T ss_pred CCCHHHHHHHHHHHHHHHCCCEEECCCCEEEHHHHHHHHCCCCCCCCCCCCCEEEEC---CCCEECCCCCHHHHHHHHHC T ss_conf 647699999999999998697696188310045468875699788543646628976---87134356878889999726 Q ss_pred HHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHC Q ss_conf 1205541123310133302587644421111100012100 Q gi|254780928|r 99 FDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGS 138 (496) Q Consensus 99 ~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~ 138 (496) ..|+|....|+|||+|....-|.-+|+|+..=+++. T Consensus 182 ----~pp~~~i~~GrvyR~d~~DatH~~~FhQ~Egl~vd~ 217 (338) T PRK00488 182 ----KPPIRIIAPGRVYRNDSDDATHSPMFHQVEGLVVDK 217 (338) T ss_pred ----CCCEEEEECCCCCCCCCCCCCCCEEEEEEEEEEEEC T ss_conf ----998699952663158999875350466400589717 No 89 >cd00769 PheRS_beta_core Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer. While the alpha chain contains a catalytic core domain, the beta chain has a non-catalytic core domain. Probab=97.44 E-value=0.00038 Score=46.11 Aligned_cols=90 Identities=21% Similarity=0.310 Sum_probs=66.6 Q ss_pred HHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCCEEEECCCCHHHHHHHHHHHHHHCCC Q ss_conf 999999999999985984801652022887520267554333221689869-9988999888838999999951120554 Q gi|254780928|r 26 RNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQWISLRYDLTAPLARYVAENFDTIVF 104 (496) Q Consensus 26 ~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~~l~LRpDlT~~~aR~~~~~~~~~~~ 104 (496) .+++++++++.+...||.|+.|-.|-..+.+...... .+...++..+ +.+.=.||+.+.+++...++.|...... T Consensus 2 ~~~l~~~ir~~L~~~Gf~Ev~t~s~~~~~~~~~~~~~----~~~~i~l~NPls~e~~~lR~sLlp~LL~~~~~N~~r~~~ 77 (198) T cd00769 2 LQKLERKLRRLLAGLGFQEVITYSLTSPEEAELFDGG----LDEAVELSNPLSEEYSVLRTSLLPGLLDALARNLNRKNK 77 (198) T ss_pred HHHHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHCCC----CCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHCCCCCC T ss_conf 6799999999999789714130676898999872488----787389708865668898887799999999865056777 Q ss_pred CHHHHHHHHHHCCCC Q ss_conf 112331013330258 Q gi|254780928|r 105 PCRTYRIGPVFRNEK 119 (496) Q Consensus 105 p~k~yy~g~vfR~e~ 119 (496) ++|+|.+|+||..+. T Consensus 78 ~~~lFEiG~vy~~~~ 92 (198) T cd00769 78 PLRLFEIGRVFLKDE 92 (198) T ss_pred CCEEEEEEEEEECCC T ss_conf 732899763896688 No 90 >TIGR00414 serS seryl-tRNA synthetase; InterPro: IPR002317 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa .; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm. Probab=96.84 E-value=0.0087 Score=37.27 Aligned_cols=151 Identities=16% Similarity=0.235 Sum_probs=104.2 Q ss_pred CCCCC--CCHHHHHHHHHHHHHHHHHH-HHCCCEEEECCCHHHHHHHHCCC--CCCCCCCCCEEEEECCCCCEEEECCCC Q ss_conf 98765--88668999999999999999-98598480165202288752026--755433322168986999889998888 Q gi|254780928|r 13 RGFAD--CPTKEIRIRNRILDSIRNIY-ENYGFDPIETPLLEYSDSLGKFL--PDEDRPNKGVFSLQDDDGQWISLRYDL 87 (496) Q Consensus 13 ~G~~D--~~p~~~~~~~~i~~~l~~~f-~~~G~~~I~tP~lE~~~~~~~~~--~~~~~~~k~~y~f~D~~g~~l~LRpDl 87 (496) .|.+. +....+.+.+.+.....+.. ..+||.++.+|.+-..+.+...+ ..-......+|...|..++.+.|-|-. T Consensus 190 ~g~~~~~~~~~~~~~~~al~~~~l~~~~~~~g~~~~~~p~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~l~~t~ 269 (460) T TIGR00414 190 AGSRFYYLKGDGAKLERALINFMLDLLREKNGYSELYPPYLVNEELLDGTGFNPQLPKFEEDLFKLEDTDDEKLYLIPTA 269 (460) T ss_pred HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEECCCHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCEEEEEECC T ss_conf 10101213213678999999999986443226401014035423443102456556530234432126777504652010 Q ss_pred HHHHHHHHHHHHHH---CCCCHHHHHHHHHHCCCCCC-----CCCC--CCCCCCCHHHHHCC--CHHHHHHHHHHHHHHH Q ss_conf 38999999951120---55411233101333025876-----4442--11111000121000--0245788999999999 Q gi|254780928|r 88 TAPLARYVAENFDT---IVFPCRTYRIGPVFRNEKHG-----PGRF--RQFIQCDVDNVGSS--AETADAEMCMMMADTL 155 (496) Q Consensus 88 T~~~aR~~~~~~~~---~~~p~k~yy~g~vfR~e~p~-----~Gr~--REf~Q~g~eiiG~~--~~~~DaEii~l~~~~l 155 (496) -+|++.+....... ..+|++..-.+++||.|.-. +|-+ .+|..+..-.+... +...--+++..+.+++ T Consensus 270 e~~~~~~~~~~~~~~~~~~lp~~~~~~~~cfr~eag~~g~~~~g~~r~h~f~k~e~~~~~~p~~~~~~~~~~~~~~~~~~ 349 (460) T TIGR00414 270 EVPLTNLHRDEILDLPSEELPIKYTGYSPCFRSEAGSYGKDTKGLIRVHQFNKVELVKFCKPEESWEELEELLSDAEKIL 349 (460) T ss_pred HHHHHHHHHHHHCCCCCCCCCEEHCCCCHHHHHHCCCCCCCCHHHHHHHHCCCEEEEEEECCHHHHHHHHHHHHHHHHHH T ss_conf 00122222000102652103400000220233321345541000121110031024566354014899999987899999 Q ss_pred HHCCCCCC Q ss_conf 75188877 Q gi|254780928|r 156 EAVGIKRN 163 (496) Q Consensus 156 ~~lgl~~~ 163 (496) ..++++.. T Consensus 350 ~~l~~p~~ 357 (460) T TIGR00414 350 QELELPYR 357 (460) T ss_pred HHHCCCHH T ss_conf 97437511 No 91 >KOG0554 consensus Probab=96.49 E-value=0.0047 Score=38.98 Aligned_cols=114 Identities=18% Similarity=0.250 Sum_probs=70.0 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEE---CCCCCEEEECCCCHHHHHH Q ss_conf 5886689999999999999999859848016520228875202675543332216898---6999889998888389999 Q gi|254780928|r 17 DCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQ---DDDGQWISLRYDLTAPLAR 93 (496) Q Consensus 17 D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~---D~~g~~l~LRpDlT~~~aR 93 (496) +.+..-+++|..+.-.....|..|+|..|.||+|-..|- -|. -|||+.+ |-++.-..=+-=||+|--= T Consensus 126 ~~~~av~RvRs~~~~a~h~ffq~~~F~~i~tPiiTtnDC----EGa-----GE~F~Vtt~~d~~~~fFgrp~fLTVSgQL 196 (446) T KOG0554 126 AKVGAVLRVRSALAFATHSFFQSHDFTYINTPIITTNDC----EGA-----GEVFQVTTLTDYSKDFFGRPAFLTVSGQL 196 (446) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCEEECCCEEECCCC----CCC-----CCEEEEEECCCCCCCCCCCCEEEEEECEE T ss_conf 578999999989999999999875946733867634577----787-----40589874686543314885079971321 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCCCHH Q ss_conf 999511205541123310133302587644-4211111000121000024 Q gi|254780928|r 94 YVAENFDTIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSSAET 142 (496) Q Consensus 94 ~~~~~~~~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~~~~ 142 (496) .+...... + -|.|.+|+.||.|+.+.- +.-|||-.-+|+--.++.. T Consensus 197 hlEa~a~a--L-srvyt~gP~FRAE~s~t~rHLaEFwmlE~E~af~~sl~ 243 (446) T KOG0554 197 HLEAMACA--L-SRVYTFGPTFRAENSHTSRHLAEFWMLEAELAFAESLD 243 (446) T ss_pred HHHHHHHH--H-CCEEEECCCEECCCCCCHHHHHHHHHHHHHHHHHHHHH T ss_conf 59988755--2-32376166132267875467765652427887888888 No 92 >PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed Probab=96.33 E-value=0.0085 Score=37.31 Aligned_cols=34 Identities=12% Similarity=0.328 Sum_probs=18.2 Q ss_pred HHHHHHHCCCCC----CCCEEECC--------CCHHHHHHHHHHCC Q ss_conf 999997518887----77113036--------60558999998325 Q gi|254780928|r 151 MADTLEAVGIKR----NDYHIGIN--------NRKILDGILEKIGL 184 (496) Q Consensus 151 ~~~~l~~lgl~~----~~~~I~in--------~~~il~~il~~lgi 184 (496) +.++|++||++- +.+.+.+- -..+.+.+..-.|. T Consensus 421 i~~iL~~Lgf~v~~~~~~~~v~vPs~R~DI~~e~DLiEEIaRiyGY 466 (786) T PRK00629 421 VERILTRLGFKVDGDGESLTVTVPSYRFDIEIEADLVEEVARIYGY 466 (786) T ss_pred HHHHHHHCCCEEEECCCCEEEECCCCCCCCCCCCHHHHHHHHHCCC T ss_conf 9999997499998348518998589776668886399999988180 No 93 >TIGR00458 aspS_arch aspartyl-tRNA synthetase; InterPro: IPR004523 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Aspartyl tRNA synthetase 6.1.1.12 from EC is an alpha2 dimer that belongs to class IIb. Structural analysis combined with mutagenesis and enzymology data on the yeast enzyme point to a tRNA binding process that starts by a recognition event between the tRNA anticodon loop and the synthetase anticodon binding module . This family represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). ; GO: 0000166 nucleotide binding, 0004815 aspartate-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006422 aspartyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=96.29 E-value=0.019 Score=35.11 Aligned_cols=102 Identities=25% Similarity=0.456 Sum_probs=62.1 Q ss_pred HHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEEC-CCCCEEEECCCCHHHHHHHHHHHHH Q ss_conf 899999999999999998598480165202288752026755433322168986-9998899988883899999995112 Q gi|254780928|r 22 EIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQD-DDGQWISLRYDLTAPLARYVAENFD 100 (496) Q Consensus 22 ~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D-~~g~~l~LRpDlT~~~aR~~~~~~~ 100 (496) -.+++..+.+.+|......||.||.||-| +...... ..++|...- ....-|+=-|-+-=++. ++.. T Consensus 154 IF~I~~~~~~~vR~~L~~~~F~Ev~TPKl-----v~~~tEG----Gt~lF~i~YF~~~AfL~QSPQlyKQ~l--~~~g-- 220 (466) T TIGR00458 154 IFRIRSEVLESVREFLAEEGFIEVHTPKL-----VASATEG----GTELFPITYFEREAFLGQSPQLYKQVL--MAAG-- 220 (466) T ss_pred HHHHHHHHHHHHHHHHHHCCCEEEECCCE-----EECCCCC----CCCCCEEEEECCCCCCCCCCHHHHHHH--HHCC-- T ss_conf 25568999999999873088256307621-----4216688----853320122123000135703566877--6526-- Q ss_pred HCCCCHHHHHHHHHHCCCCCCC-CCCCCCCCCCHHHHHCCC Q ss_conf 0554112331013330258764-442111110001210000 Q gi|254780928|r 101 TIVFPCRTYRIGPVFRNEKHGP-GRFRQFIQCDVDNVGSSA 140 (496) Q Consensus 101 ~~~~p~k~yy~g~vfR~e~p~~-Gr~REf~Q~g~eiiG~~~ 140 (496) + -|.|.||||||.|+..- -|..|++.+|+|.--.+. T Consensus 221 ---~-~rVyEI~PiFRAE~~nT~RHl~E~~siDiE~~F~dh 257 (466) T TIGR00458 221 ---L-ERVYEIGPIFRAEEHNTRRHLNEAISIDIEMAFEDH 257 (466) T ss_pred ---C-CCEEEECCEEECCCCCCHHHHHHHHHHHHHHHHHHH T ss_conf ---5-203550552205666521455444442244442753 No 94 >KOG2784 consensus Probab=96.26 E-value=0.015 Score=35.77 Aligned_cols=13 Identities=23% Similarity=0.020 Sum_probs=6.9 Q ss_pred CCCCCEEEEEEEC Q ss_conf 1234124899854 Q gi|254780928|r 300 EYYTGCVYEAILG 312 (496) Q Consensus 300 dYYTG~vFE~~~~ 312 (496) +-||..--|++.. T Consensus 396 npYtepsmeif~y 408 (483) T KOG2784 396 NPYTEPSMEIFSY 408 (483) T ss_pred CCCCCCEEEEEEE T ss_conf 9888863578774 No 95 >COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis] Probab=96.16 E-value=0.034 Score=33.46 Aligned_cols=90 Identities=17% Similarity=0.010 Sum_probs=70.6 Q ss_pred HHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHH Q ss_conf 99999999999998798399971899998899999987799899998872874881899787888364331120144320 Q gi|254780928|r 389 SLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWRE 468 (496) Q Consensus 389 ~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~ 468 (496) ....+..++..|...+++++.+..+....+.++.+++-+++|+..-+|.++.+++++++-+-.+++|-. T Consensus 304 ~~~~~rd~~~~l~~~~~~~~~D~~~~~~~G~kl~~~e~ieVghif~lG~kyse~~~a~v~~r~g~~~~~----------- 372 (500) T COG0442 304 VVNYGRDVAEPLEKLGIRVEGDDRSPDGPGFKLNIWEGIEVGHIFELGTKYSEAMNATVLDRDGKEQPK----------- 372 (500) T ss_pred HHHHHHHHHHHHHHCCEEEECCCCCCCCCCCEEEEEECCCCCEEEEECCHHHHHCEEEEEECCCCCCCE----------- T ss_conf 430454445665430258842456899997211021024457799987412541804999248871441----------- Q ss_pred CCCCCEEECHHHHHHH-HHHHHHHHHH Q ss_conf 2335103079999999-9999986420 Q gi|254780928|r 469 ARVAQITIPISELVST-VKKILQENKE 494 (496) Q Consensus 469 ~~~~q~~v~~~~l~~~-~~~~l~~~~~ 494 (496) .+++...+++. |..+++...+ T Consensus 373 -----~mg~ygigvsr~v~a~ieq~~d 394 (500) T COG0442 373 -----TMGCYGIGVSRLVAALLEQIHD 394 (500) T ss_pred -----EEECHHHHHHHHHHHHHHHHCC T ss_conf -----7870000034599999997362 No 96 >CHL00192 syfB phenylalanyl-tRNA synthetase beta chain; Provisional Probab=96.06 E-value=0.028 Score=33.93 Aligned_cols=35 Identities=17% Similarity=0.425 Sum_probs=18.2 Q ss_pred HHHHHHHCCCCC-----CCCEEECC-CC--------HHHHHHHHHHCCC Q ss_conf 999997518887-----77113036-60--------5589999983256 Q gi|254780928|r 151 MADTLEAVGIKR-----NDYHIGIN-NR--------KILDGILEKIGLH 185 (496) Q Consensus 151 ~~~~l~~lgl~~-----~~~~I~in-~~--------~il~~il~~lgi~ 185 (496) +.++|++||+.- ..+.+.+- +| .+.+.+....|.. T Consensus 330 i~~iL~~Lgf~v~~~~~~~~~V~vPs~R~~DI~~e~DLiEEVaRiyGyd 378 (702) T CHL00192 330 IENILKSLNFKLIYDSLKNWEVIIPSYRQDDIFREIDLIEEIARLYGFD 378 (702) T ss_pred HHHHHHHCCCEEEECCCCCEEEECCCCCHHHHCCCCHHHHHHHHHHCCC T ss_conf 9999997799899547886899889756666477105999999980803 No 97 >TIGR00457 asnS asparaginyl-tRNA synthetase; InterPro: IPR004522 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . AsparaginyltRNA synthetase (6.1.1.22 from EC) is an alpha2 dimer that belongs to class IIb. There is a striking similarity between asparaginyl-tRNA synthetases and archaeal/eukaryotic type aspartyl-tRNA synthetases (IPR004523 from INTERPRO) and a striking divergence of bacterial type aspartyl-tRNA synthetases (IPR004524 from INTERPRO). This family, AsnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn.; GO: 0000166 nucleotide binding, 0004816 asparagine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006421 asparaginyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=95.74 E-value=0.029 Score=33.83 Aligned_cols=124 Identities=20% Similarity=0.393 Sum_probs=72.7 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEEC-------CC-----------CC Q ss_conf 8866899999999999999998598480165202288752026755433322168986-------99-----------98 Q gi|254780928|r 18 CPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQD-------DD-----------GQ 79 (496) Q Consensus 18 ~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D-------~~-----------g~ 79 (496) .+..-|++|..+...+.+.|...||..|.||+|--+|. |+ --+||+... ++ |+ T Consensus 141 ~~~AvmrvR~~l~~ai~~yF~~~gF~~V~~PilT~~d~------EG---AGElF~v~TLdl~~lp~~~g~~df~~~fFgk 211 (495) T TIGR00457 141 TLGAVMRVRNALSQAIHEYFQKNGFVKVSPPILTSNDC------EG---AGELFKVSTLDLEKLPRNDGKIDFSKDFFGK 211 (495) T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCEEECCCEEECCCC------CC---CCCCCEEEEHHHHCCCCCCCCCCCCCCCCCC T ss_conf 87789999999999999876047867868863113688------88---7543322003242153326888763024886 Q ss_pred EEEECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCC-CCCCCCCCCHHHHHCC--CH--HHHHHHHHHHHHH Q ss_conf 89998888389999999511205541123310133302587644-4211111000121000--02--4578899999999 Q gi|254780928|r 80 WISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPG-RFRQFIQCDVDNVGSS--AE--TADAEMCMMMADT 154 (496) Q Consensus 80 ~l~LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~G-r~REf~Q~g~eiiG~~--~~--~~DaEii~l~~~~ 154 (496) .=- ||+|= -..++-.. ..+ -|.|.+||.||.|+..-- |.-|||.+=.|+.=.+ +. .+|.=|-.++-.+ T Consensus 212 ~ay----LTVSG-QL~~E~~A-~AL-~kvyTfGPTFRAEkS~T~RHLsEFWMiEPE~AF~~l~d~~~~~E~~~k~~~k~V 284 (495) T TIGR00457 212 EAY----LTVSG-QLYAEAYA-LAL-SKVYTFGPTFRAEKSNTSRHLSEFWMIEPEMAFANLNDLLQLIETLIKYIIKAV 284 (495) T ss_pred EEE----EEECC-HHHHHHHH-HHH-CCCEECCCCEECCCCCCCCCHHHHHHHHHHEEECCHHHHHHHHHHHHHHHHHHH T ss_conf 012----33022-78999999-974-781445874004286487011122101120000013333899999999999998 Q ss_pred HHH Q ss_conf 975 Q gi|254780928|r 155 LEA 157 (496) Q Consensus 155 l~~ 157 (496) |++ T Consensus 285 L~~ 287 (495) T TIGR00457 285 LEN 287 (495) T ss_pred HCC T ss_conf 305 No 98 >TIGR00462 genX lysyl-tRNA synthetase homolog GenX; InterPro: IPR004525 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . This entry represents lysyl-tRNA synthetases from bacteria, as well as other related proteins. Escherichia coli, Haemophilus influenzae, and Aquifex aeolicus each have a protein closely homologous to the C-terminal region of lysyl-tRNA synthetase (LysS). Multiple sequence alignment of these proteins with the homologous regions of collected LysS proteins shows that these proteins form a distinct set rather than just similar truncations of LysS, so they appear to be orthologous. The protein is termed PoxA or GenX after its designation in E. coli. Its function is unknown.; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=95.64 E-value=0.078 Score=31.06 Aligned_cols=102 Identities=25% Similarity=0.366 Sum_probs=62.3 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCC-----EEEECCCCHHHHHHHH Q ss_conf 68999999999999999985984801652022887520267554333221689869998-----8999888838999999 Q gi|254780928|r 21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQ-----WISLRYDLTAPLARYV 95 (496) Q Consensus 21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~-----~l~LRpDlT~~~aR~~ 95 (496) .....|.++...+|+.|...|+.||+||++-....+ +. ++.---..|..+++. +|.=-|+. +.-|.+ T Consensus 19 ~n~LkRa~~i~~iR~FF~e~G~~EV~TP~l~~~~~~-----D~-~l~p~~~~~l~~g~~~~~~~WL~TSPEY--~MK~LL 90 (330) T TIGR00462 19 KNLLKRAKIIAEIRKFFKERGLLEVETPLLSDFPVT-----DL-HLEPFKTEFLEPGGEQNKVLWLSTSPEY--HMKRLL 90 (330) T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEECCCCHHCCCCC-----CE-EEEEEEEEEECCCCCCCCEECCCCCCCH--HHHHHH T ss_conf 677889999999999886178425326301015644-----30-2213688884266533331211458727--899998 Q ss_pred HHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCC-----CCCCHHHH Q ss_conf 951120554112331013330258764442111-----11000121 Q gi|254780928|r 96 AENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQF-----IQCDVDNV 136 (496) Q Consensus 96 ~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf-----~Q~g~eii 136 (496) +... . -.|++.+|||++.-++-|--|| |..++|.. T Consensus 91 ~~~~----~--~iFQi~k~FRN~E~G~~H~~EF~MLEWY~~~~d~~ 130 (330) T TIGR00462 91 SAGK----G--PIFQITKVFRNEEAGRLHNPEFTMLEWYRPHYDML 130 (330) T ss_pred HHCC----C--CEEEEEEHHHHCCCCCCCCCCCCHHHHHHHHHHHH T ss_conf 6217----8--62310000100024675775310011121102389 No 99 >COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism] Probab=95.23 E-value=0.0026 Score=40.62 Aligned_cols=72 Identities=29% Similarity=0.596 Sum_probs=54.1 Q ss_pred HHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCC-CCCCCEEEEC Q ss_conf 999875088844300110100122123412489985466677676663101100323235521112345-6774213311 Q gi|254780928|r 276 SELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDGLVSRFKGQ-NVPATGFSIG 354 (496) Q Consensus 276 ~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~L~~~f~~~-~~pavGfaig 354 (496) ++.+-..+++......+..+.|-++||||.+||+... . -..+|||||.|...++.. .+|++||++. T Consensus 311 l~~l~~~~~~~~~~~~~~~f~~~~~~~~~~~~e~~~~-------~------r~~g~~~~~~l~~g~~~~~~~~~~~~~~~ 377 (390) T COG3705 311 LDALAQGGLPLEERRYAALFGRELDYYTGAAFEAAQA-------L------RLAGGGRYDRLLTGLGASEEIPGVGFSLW 377 (390) T ss_pred HHHHHHCCCCCCCCHHHHCCCCCCHHHHHHHHHHHHH-------H------CCCCCEEEEECCCCCCHHHHHCCCCEEEE T ss_conf 9999834788544302220375401567799999997-------2------42688078723123520765046430676 Q ss_pred CHHHHH Q ss_conf 016899 Q gi|254780928|r 355 ISRLIV 360 (496) Q Consensus 355 verl~~ 360 (496) ++|... T Consensus 378 ~~~~~~ 383 (390) T COG3705 378 LDRGVA 383 (390) T ss_pred ECCCCE T ss_conf 032100 No 100 >TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase; InterPro: IPR005246 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . All known phenylalanyl-tRNA synthetases, excepting a monomeric mitochondrial form, have an alpha 2 beta 2 heterotetrameric structure. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains but is longer and of unknown function; more generally, it resembles class 2 aminoacyl tRNA ligases. . Probab=95.17 E-value=0.038 Score=33.11 Aligned_cols=80 Identities=18% Similarity=0.281 Sum_probs=48.4 Q ss_pred EEEECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCC-CCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHC Q ss_conf 89998888389999999511205541123310133302587-64442111110001210000245788999999999751 Q gi|254780928|r 80 WISLRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKH-GPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAV 158 (496) Q Consensus 80 ~l~LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p-~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~l 158 (496) .++||.-||...=-.++.=....++|+|+|.|-+|||+|+- .+.|.--.+.+.|=++|.+=+.-|- =.+|=-.|..| T Consensus 192 tlTLRSHMTsGWFItLs~i~dk~~lPlKLFSIDRCFRREQ~ED~shLmtYhSASCVvVdeevsvDdG--KaVAEgLL~qf 269 (558) T TIGR00470 192 TLTLRSHMTSGWFITLSSIADKLKLPLKLFSIDRCFRREQKEDASHLMTYHSASCVVVDEEVSVDDG--KAVAEGLLEQF 269 (558) T ss_pred CCCCHHHCCCHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCC--HHHHHHHHHHH T ss_conf 4320010100278889878751589711220032314466435310011345466785771243642--68899999870 Q ss_pred CCC Q ss_conf 888 Q gi|254780928|r 159 GIK 161 (496) Q Consensus 159 gl~ 161 (496) |++ T Consensus 270 GF~ 272 (558) T TIGR00470 270 GFE 272 (558) T ss_pred CCC T ss_conf 854 No 101 >TIGR00468 pheS phenylalanyl-tRNA synthetase, alpha subunit; InterPro: IPR004529 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (nomenclature adopted in InterPro). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta (see IPR004531 from INTERPRO and IPR004532 from INTERPRO). In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases . This family describes the alpha subunit, which shows some similarity to class II aminoacyl-tRNA ligases. Mitochondrial phenylalanyl-tRNA synthetase is a single polypeptide chain, active as a monomer, and similar to this chain rather than to the beta chain, but excluded from this family. ; GO: 0000166 nucleotide binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006432 phenylalanyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=95.07 E-value=0.084 Score=30.86 Aligned_cols=142 Identities=21% Similarity=0.240 Sum_probs=81.8 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHCCCEEEECCC-HHHHH-HHHCCCCCCCC---CCCCEEEEECC---------------- Q ss_conf 88668999999999999999985984801652-02288-75202675543---33221689869---------------- Q gi|254780928|r 18 CPTKEIRIRNRILDSIRNIYENYGFDPIETPL-LEYSD-SLGKFLPDEDR---PNKGVFSLQDD---------------- 76 (496) Q Consensus 18 ~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~-lE~~~-~~~~~~~~~~~---~~k~~y~f~D~---------------- 76 (496) ..+....-...+.+.+.++|...||.+...|. +|..- .|....-..++ .....|-+.++ T Consensus 75 ~~~g~~~p~~~~~~~~~~~~~~~g~~~~~g~~~~~~~~~~f~~l~~p~~hp~r~~~d~f~~~~p~~~~~~~~~~~~~~~~ 154 (362) T TIGR00468 75 IYPGGLHPLTRVIDEIRDIFLGLGFTEEKGPEYVETDFWNFDALNLPQDHPARDLQDTFYLKDPLTGDLPPELVSDVKDA 154 (362) T ss_pred CCCCCCHHHHHHHHHHHHHHHHHCCEEECCCCEECCCCCCCHHHCCCCCCCCCCCCCEEEECCCCCCCCCHHHHHHHHHH T ss_conf 14553105789999999987650330104731011110010111277545431123303313742000322467767776 Q ss_pred -------------------CCCEEEECCCCHH---HHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHH Q ss_conf -------------------9988999888838---999999951120554112331013330258764442111110001 Q gi|254780928|r 77 -------------------DGQWISLRYDLTA---PLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVD 134 (496) Q Consensus 77 -------------------~g~~l~LRpDlT~---~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~e 134 (496) ..+.+.||-.-|+ -..|.+..+......|.|.+..|.|||++....-+.-+|+|+..= T Consensus 155 ~~~~~~~g~~gw~~~~~~~~~~~~~lrt~~~~~~~~~~~~~~~~~~~~~pp~~~~~~~~~~r~~~~d~~h~~~f~~~~g~ 234 (362) T TIGR00468 155 HETGGATGSRGWRYEWDEDLARRLLLRTHTTASSAVQLRTLEENPKAKNPPIRIFCPGRVFRRDTVDATHLPEFHQLEGL 234 (362) T ss_pred HHHCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHCCCCCCCCCCCHHHHEEEE T ss_conf 65202122324454445556655554311321356666666541013788625764101110233331014102210023 Q ss_pred HHHCCCHHHHHHHHHHHHHHHHHCCCC Q ss_conf 210000245788999999999751888 Q gi|254780928|r 135 NVGSSAETADAEMCMMMADTLEAVGIK 161 (496) Q Consensus 135 iiG~~~~~~DaEii~l~~~~l~~lgl~ 161 (496) ++...- .-..++.++.+.++.++.. T Consensus 235 ~~~~~~--~~~~l~g~~~~~~~~~~~~ 259 (362) T TIGR00468 235 VVDKNV--SFTNLKGLLEEFLKKLFGE 259 (362) T ss_pred EEECCC--CHHHHHHHHHHHHHHHCCC T ss_conf 541566--4678899999999974132 No 102 >COG0072 PheT Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis] Probab=93.51 E-value=0.35 Score=26.80 Aligned_cols=35 Identities=11% Similarity=0.346 Sum_probs=19.0 Q ss_pred HHHHHHHCCCCCC----CCEEEC--------CCCHHHHHHHHHHCCC Q ss_conf 9999975188877----711303--------6605589999983256 Q gi|254780928|r 151 MADTLEAVGIKRN----DYHIGI--------NNRKILDGILEKIGLH 185 (496) Q Consensus 151 ~~~~l~~lgl~~~----~~~I~i--------n~~~il~~il~~lgi~ 185 (496) +.++|++||+... .+.+.+ ....+++.++...|.. T Consensus 287 i~~iL~rLg~~~~~~~~~~~V~vPs~R~DI~~e~DliEEv~r~yGy~ 333 (650) T COG0072 287 IEKILKRLGFKVEVKGDGLTVTVPSYRVDILIEADLIEEVARIYGYN 333 (650) T ss_pred HHHHHHHCCCCEECCCCCEEEECCCCCCCCCCCCHHHHHHHHHHCCC T ss_conf 99999976990341687469976887213565327888999985714 No 103 >COG2024 Phenylalanyl-tRNA synthetase alpha subunit (archaeal type) [Translation, ribosomal structure and biogenesis] Probab=91.74 E-value=0.055 Score=32.08 Aligned_cols=81 Identities=22% Similarity=0.456 Sum_probs=39.0 Q ss_pred HHHHCCCCCCCCCCCHHHCCCCCCC-CCEEEEEEECCCCCC---CCCCCCCEEEECCCCCCCCC-CCCCCCCCCCCCEEE Q ss_conf 9875088844300110100122123-412489985466677---67666310110032323552-111234567742133 Q gi|254780928|r 278 LVRKSGYNSNRIKISSTIVRGLEYY-TGCVYEAILGFPVMN---EKQKPVVFGSVGGGGRYDGL-VSRFKGQNVPATGFS 352 (496) Q Consensus 278 ~l~~~gv~~~~i~~Dl~lvRgLdYY-TG~vFE~~~~~~~~~---~~~~~~~~~aI~~GGRYD~L-~~~f~~~~~pavGfa 352 (496) +|.++|.. ++.|-|---+ --|| -|+-=|++..+.... .+..++-+ -||.=|=|.-. ++.+ +-+.|..-.+ T Consensus 255 lL~qfGFe--~F~FrpDEK~-SKYYvP~TQTEVyAyHPkL~gs~~kysdgWi-EiATFGlYSP~ALaeY-~Id~pVMNLG 329 (536) T COG2024 255 LLRQFGFE--KFRFRPDEKK-SKYYVPGTQTEVYAYHPKLVGSIEKYSDGWI-EIATFGLYSPIALAEY-GIDYPVMNLG 329 (536) T ss_pred HHHHHCCC--CEEECCCCCC-CCCCCCCCCCEEEEECCCCCCCCCCCCCCCE-EEEEECCCCHHHHHHC-CCCCCEEECC T ss_conf 99971940--0354662003-5534799630477745400365212588708-9996035672779872-9997012032 Q ss_pred ECCHHHHHHHH Q ss_conf 11016899999 Q gi|254780928|r 353 IGISRLIVALK 363 (496) Q Consensus 353 igverl~~~l~ 363 (496) +|+||+..+|- T Consensus 330 lGVERlaMIl~ 340 (536) T COG2024 330 LGVERLAMILH 340 (536) T ss_pred HHHHHHHHHHH T ss_conf 20899999981 No 104 >TIGR00472 pheT_bact phenylalanyl-tRNA synthetase, beta subunit; InterPro: IPR004532 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (see IPR002319 from INTERPRO). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta. In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases . This family describes the beta subunit. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps (see also IPR004531 from INTERPRO). This family represents the subfamily that includes the beta subunit from bacteria other than spirochetes, as well as a chloroplast-encoded form from Porphyra purpurea. The chloroplast-derived sequence is considerably shorter at the N-terminal.; GO: 0000166 nucleotide binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006432 phenylalanyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=91.43 E-value=0.17 Score=28.85 Aligned_cols=89 Identities=20% Similarity=0.253 Sum_probs=65.8 Q ss_pred HHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCCEEEECCCCHHHHHHHHHHHHHHCCCCHH Q ss_conf 999999999985984801652022887520267554333221689869-9988999888838999999951120554112 Q gi|254780928|r 29 ILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQWISLRYDLTAPLARYVAENFDTIVFPCR 107 (496) Q Consensus 29 i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~~l~LRpDlT~~~aR~~~~~~~~~~~p~k 107 (496) ....++..+...||.|+.|..|...+......-.....-.+.+.+..+ +.+.=+||+-+-.++.+.++.|.+.....+| T Consensus 523 ~~~~~~~~l~~~G~~E~itYsl~~~~~~~~~~~~~~~~~~~~~~i~NP~s~e~~~lR~sL~~sLL~~~~~N~~r~~~~~~ 602 (848) T TIGR00472 523 FLKKLRKLLVGLGLNEVITYSLVSKEKLEKFNFPKLENLDELVEIKNPLSEERSVLRTSLLPSLLEVLAYNQNRKNKDVK 602 (848) T ss_pred HHHHHHHHHHHCCCCEEEEECCCCHHHHHHHCCCCCCCCHHEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCEE T ss_conf 99999999984898577730138879998716877786101045158983547887664468899999999863897158 Q ss_pred HHHHHHHHCC Q ss_conf 3310133302 Q gi|254780928|r 108 TYRIGPVFRN 117 (496) Q Consensus 108 ~yy~g~vfR~ 117 (496) +|.+|+||-. T Consensus 603 lFE~G~~f~~ 612 (848) T TIGR00472 603 LFEIGKVFAK 612 (848) T ss_pred EEEEEEEECC T ss_conf 9988764268 No 105 >TIGR00499 lysS_bact lysyl-tRNA synthetase; InterPro: IPR002313 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Lysyl-tRNA synthetase (6.1.1.6 from EC) is an alpha 2 homodimer that belong to both class I and class II. In eubacteria and eukaryota lysyl-tRNA synthetases belong to class II in the same family as aspartyl tRNA synthetase. The class Ic lysyl-tRNA synthetase family is present in archaea and some eubacteria . Moreover in some eubacteria there is a gene X, which is similar to a part of lysyl-tRNA synthetase from class II. Lysyl-tRNA synthetase is duplicated in some species with, for example in E. coli, as a constitutive gene (lysS) and an induced one (lysU). No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. Lysine is activated by being attached to the alpha-phosphate of AMP before being transferred to the cognate tRNA. The refined crystal structures give "snapshots" of the active site corresponding to key steps in the aminoacylation reaction and provide the structural framework for understanding the mechanism of lysine activation. The active site of LysU is shaped to position the substrates for the nucleophilic attack of the lysine carboxylate on the ATP alpha-phosphate. No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. A loop close to the catalytic pocket, disordered in the lysine-bound structure, becomes ordered upon adenine binding .; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=89.62 E-value=1.5 Score=22.72 Aligned_cols=98 Identities=24% Similarity=0.336 Sum_probs=54.3 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHH Q ss_conf 68999999999999999985984801652022887520267554333221689869998899988883899999995112 Q gi|254780928|r 21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFD 100 (496) Q Consensus 21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~ 100 (496) .....+..+...++..+...||.+++||++.... +|... +-..+-...-+..+.||----.-+-|.+.... T Consensus 188 ~~~~~~~~~~~~~~~~~~~~g~~e~e~p~~~~~~-----gg~~~---~pf~~~~n~~~~~~~~~~~~e~~l~~l~~gg~- 258 (538) T TIGR00499 188 DTFLKRSKIIAAIRRFLDDRGFLEVETPLLQVIP-----GGANA---RPFITHHNALDLDLYLRIAPELYLKRLVVGGL- 258 (538) T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEECCCHHHCCC-----CCCCC---CCCEECCCCCCCCHHHHHHHHHHHHHHHHCCH- T ss_conf 6778899999999998762484221131010126-----76544---65010023224421211225778877764013- Q ss_pred HCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCC Q ss_conf 05541123310133302587644421111100 Q gi|254780928|r 101 TIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCD 132 (496) Q Consensus 101 ~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g 132 (496) -|.|.+|++||.|-...-+--||+.+. T Consensus 259 -----~~~~e~g~~f~neg~~~~hnpef~~~e 285 (538) T TIGR00499 259 -----EKVYEIGRNFRNEGVDTTHNPEFTSLE 285 (538) T ss_pred -----HHHHHHHHHHHCCCCCCCCCCCHHHHH T ss_conf -----677876433310466544575302455 No 106 >cd00777 AspRS_core Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. AspRS in this family differ from those found in the AsxRS family by a GAD insert in the core domain. Probab=84.91 E-value=0.27 Score=27.58 Aligned_cols=33 Identities=30% Similarity=0.544 Sum_probs=21.4 Q ss_pred CCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCC Q ss_conf 355211123456774213311016899999736 Q gi|254780928|r 334 YDGLVSRFKGQNVPATGFSIGISRLIVALKSLE 366 (496) Q Consensus 334 YD~L~~~f~~~~~pavGfaigverl~~~l~~~~ 366 (496) |+.++..+.--..|+-|||+|+|||+..+-... T Consensus 235 ~~~~l~a~~~G~pP~~G~glGiDRLvm~l~g~~ 267 (280) T cd00777 235 FGFLLEAFKYGAPPHGGIALGLDRLVMLLTGSE 267 (280) T ss_pred HHHHHHHHHCCCCCCCEEEHHHHHHHHHHHCCC T ss_conf 999999976699987435158999999992898 No 107 >cd00669 Asp_Lys_Asn_RS_core Asp_Lys_Asn_tRNA synthetase class II core domain. This domain is the core catalytic domain of class II aminoacyl-tRNA synthetases of the subgroup containing aspartyl, lysyl, and asparaginyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. Nearly all class II tRNA synthetases are dimers and enzymes in this subgroup are homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. Probab=84.71 E-value=0.35 Score=26.83 Aligned_cols=33 Identities=24% Similarity=0.419 Sum_probs=22.0 Q ss_pred CCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCC Q ss_conf 355211123456774213311016899999736 Q gi|254780928|r 334 YDGLVSRFKGQNVPATGFSIGISRLIVALKSLE 366 (496) Q Consensus 334 YD~L~~~f~~~~~pavGfaigverl~~~l~~~~ 366 (496) |+.++..+..-..|+-|||+|+|||+.++.... T Consensus 224 ~~~yl~a~~~G~pp~~G~glG~dRL~m~~~g~~ 256 (269) T cd00669 224 FEFYLKALEYGLPPHGGLGIGIDRLIMLMTNSP 256 (269) T ss_pred HHHHHHHHHCCCCCCEEEEEHHHHHHHHHHCCC T ss_conf 899999987799997166347999999980899 No 108 >TIGR01608 citD citrate lyase acyl carrier protein; InterPro: IPR006495 This group of sequences represent the acyl carrier protein (gamma subunit) of the holoenzyme citrate lyase (4.1.3.6 from EC) composed of alpha (2.8.3.10 from EC), beta (4.1.3.34 from EC), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The acyl carrier protein covalently binds the coenzyme of citrate lyase. The set contains an experimentally characterised member from Leuconostoc mesenteroides . The sequences come from a wide range of Gram-positive bacteria. For Gram-negative bacteria, it appears that only sequences from the gamma proteobacteria are included.. Probab=83.73 E-value=2.6 Score=21.21 Aligned_cols=48 Identities=23% Similarity=0.433 Sum_probs=38.1 Q ss_pred HHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCC Q ss_conf 89999999997518887771130366055899999832560356433455533322001 Q gi|254780928|r 146 EMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLD 204 (496) Q Consensus 146 Eii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~ 204 (496) +|..++.+.|+.||++ +..+++++.|-|+..+.. +....++|+.+.-+ T Consensus 44 ~I~~~vkeTL~~lGv~--~a~v~v~DKGAL~~vl~A---------R~~aAv~RA~~~~~ 91 (95) T TIGR01608 44 EIEKVVKETLKELGVE--NAVVKVVDKGALNCVLKA---------RTKAAVLRAAEAND 91 (95) T ss_pred HHHHHHHHHHHHCCCC--EEEEEEECCCHHHHHHHH---------HHHHHHHHHHHHCC T ss_conf 9999999989865944--356887246667889999---------99999998886302 No 109 >pfam00152 tRNA-synt_2 tRNA synthetases class II (D, K and N). Probab=82.38 E-value=0.46 Score=26.09 Aligned_cols=21 Identities=33% Similarity=0.684 Sum_probs=16.9 Q ss_pred CCCCCEEEECCHHHHHHHHHC Q ss_conf 677421331101689999973 Q gi|254780928|r 345 NVPATGFSIGISRLIVALKSL 365 (496) Q Consensus 345 ~~pavGfaigverl~~~l~~~ 365 (496) -.|+-|||+|+|||+.++-.. T Consensus 307 ~PP~~G~glGidRL~m~l~g~ 327 (341) T pfam00152 307 MPPHGGIGLGLDRLVMLLTGL 327 (341) T ss_pred CCCCEEEEEHHHHHHHHHCCC T ss_conf 799705657899999998089 No 110 >PRK00960 seryl-tRNA synthetase; Provisional Probab=79.86 E-value=4.3 Score=19.76 Aligned_cols=29 Identities=17% Similarity=0.173 Sum_probs=15.3 Q ss_pred HHHHHHCCCCCEEECHHHHHHHHHHHHHH Q ss_conf 14432023351030799999999999986 Q gi|254780928|r 463 NESWREARVAQITIPISELVSTVKKILQE 491 (496) Q Consensus 463 ~~~~~~~~~~q~~v~~~~l~~~~~~~l~~ 491 (496) +.-|.-+..+|.-..-++=-+.+++.+.+ T Consensus 477 L~RWv~gFLAQ~Gfd~~~WPe~i~~rvge 505 (516) T PRK00960 477 LTRWVIGFLAQKGFDPDNWPEEIRKRVGE 505 (516) T ss_pred HHHHHHHHHHHCCCCCCCCCHHHHHHHHC T ss_conf 78999999987079812164999988625 No 111 >TIGR02087 LEUD_arch 3-isopropylmalate dehydratase, small subunit; InterPro: IPR011827 3-isopropylmalate dehydratase (or isopropylmalate isomerase; 4.2.1.33 from EC) catalyses the stereo-specific isomerisation of 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate. This enzyme performs the second step in the biosynthesis of leucine, and is present in most prokaryotes and many fungal species. The prokaryotic enzyme is a heterodimer composed of a large (LeuC) and small (LeuD) subunit, while the fungal form is a monomeric enzyme. Both forms of isopropylmalate are related and are part of the larger aconitase family . Aconitases are mostly monomeric proteins which share four domains in common and contain a single, labile [4Fe-4S] cluster. Three structural domains (1, 2 and 3) are tightly packed around the iron-sulphur cluster, while a fourth domain (4) forms a deep active-site cleft. The prokaryotic enzyme is encoded by two adjacent genes, leuC and leuD, corresponding to aconitase domains 1-3 and 4 respectively , . LeuC does not bind an iron-sulphur cluster. It is thought that some prokaryotic isopropylamalate dehydrogenases can also function as homoaconitase 4.2.1.36 from EC, converting cis-homoaconitate to homoisocitric acid in lysine biosynthesis . Homoaconitase has been identified in higher fungi (mitochondria) and several archaea and one thermophilic species of bacteria, Thermus thermophilus . This entry is most closely related to the 3-isopropylmalate dehydratase IPR004431 from INTERPRO. It also includes members, which cluster with other genes of leucine biosynthesis. The structure of the Pyrococcus horikoshii small subunit (O59393 from SWISSPROT) has recently been determined . As expected the structure of this polypeptide is similar to that of aconitase domain 4, though one alpha helix is replaced by a short loop with relatively high temperature factor values. This loop region is thought to be important for substrate recognition. Unlike other aconitase family proteins, this subunit formed a tetramer through disulphide linkages, though it is not expected to interfere with its interaction with the large subunit. These disulphide linkages would be expected to confer thermostability on the enzyme, reflecting the thermophilic lifestyle of the organism.; GO: 0003861 3-isopropylmalate dehydratase activity, 0009098 leucine biosynthetic process, 0009316 3-isopropylmalate dehydratase complex. Probab=76.32 E-value=5.5 Score=19.09 Aligned_cols=112 Identities=17% Similarity=0.193 Sum_probs=65.4 Q ss_pred HHHHCCCCCCCCCCCCEEEEEE--ECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHH-HHHHHHCCCCEEEEE-C Q ss_conf 9997368776655577148998--26976899999999999998798399971899998899-999987799899998-8 Q gi|254780928|r 361 ALKSLESSTNNIKEMGPVLITT--MDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQ-LKYADRRNCPLAIIQ-G 436 (496) Q Consensus 361 ~l~~~~~~~~~~~~~~~v~V~~--~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~-~~~A~~~g~~~viii-g 436 (496) +|+....-.+...++.+|.|.= +|-+++.-+ | +=.|..+||.|-+.- |+... ++.|=..|.|.++.- + T Consensus 34 aM~g~~PeF~~kvr~GDviVAGkNFGcGSSREQ-A---~~ALK~aGv~aviA~----SFARIFYRNAIN~GLP~i~~~e~ 105 (159) T TIGR02087 34 AMEGIDPEFAKKVREGDVIVAGKNFGCGSSREQ-A---ALALKAAGVAAVIAE----SFARIFYRNAINIGLPLIEAKED 105 (159) T ss_pred CCCCCCCCHHHHCCCCCEEEECCCCCCCCCHHH-H---HHHHHHCCEEEEEEE----ECCCHHHHHHHHCCCCEEEECCC T ss_conf 055899631340789978871416477887788-9---999974790489852----01660103233325202631689 Q ss_pred H-HHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHHHHHH Q ss_conf 7-2874881899787888364331120144320233510307999999999999864 Q gi|254780928|r 437 T-GERSRGMLQIKDLAKGKELSREIKNNESWREARVAQITIPISELVSTVKKILQEN 492 (496) Q Consensus 437 ~-~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~l~~~ 492 (496) . +..+ .|+..++++++.+ .+....+.+++...+-++.+++|++. T Consensus 106 vte~~~----------dGD~V~vdl~~ge--ir~~~~~~~~~~~~~~df~L~Il~~G 150 (159) T TIGR02087 106 VTELIK----------DGDEVEVDLEKGE--IRKVNGKEVYKGRPLPDFLLEILEEG 150 (159) T ss_pred CEEEEC----------CCCEEEEECCCCE--EEEECCCEEEECCCCCCHHHHHHHCC T ss_conf 650213----------7887899757660--88857950786468985589998718 No 112 >TIGR01854 lipid_A_lpxH UDP-2,3-diacylglucosamine hydrolase; InterPro: IPR010138 This entry represents LpxH, or UDP-2,3-diacylglucosamine hydrolase (or pyrophosphatase), which is an essential enzyme in Escherichia coli that catalyses the fourth step in lipid A biosynthesis. This reaction involves pyrophosphate bond hydrolysis of the precursor UDP-2,3-diacylglucosamine to yield 2,3-diacylglucosamine 1-phosphate and UMP . Several Gram-negative bacteria have homologues of LpxH and/or LpxH2, while others have only distant orthologues of LpxH or LpxH2, or lack these enzymes altogether .; GO: 0016462 pyrophosphatase activity, 0009245 lipid A biosynthetic process, 0005737 cytoplasm. Probab=76.08 E-value=5.3 Score=19.19 Aligned_cols=79 Identities=22% Similarity=0.258 Sum_probs=56.5 Q ss_pred ECCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 98888389999999511205541123310133302587644421111100012100002457889999999997518887 Q gi|254780928|r 83 LRYDLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKR 162 (496) Q Consensus 83 LRpDlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~ 162 (496) =|||+|+.+.+++.+.-.. .-=.+|=-|..| || +||.+++.+=++-|+-..+.+..=|++ T Consensus 12 ~~P~iTa~Fl~FL~~~A~G--~AdALYILGDLF-----------ea------WIGDD~~~~l~~~va~~~r~vsd~GV~- 71 (241) T TIGR01854 12 ERPDITALFLDFLREEARG--KADALYILGDLF-----------EA------WIGDDDPSALARSVAEAIRAVSDQGVP- 71 (241) T ss_pred CCCHHHHHHHHHHHHHCCC--CCHHHHHHCCHH-----------HC------EECCCCCCHHHHHHHHHHHHHHCCCEE- T ss_conf 4607899999998752334--000022101200-----------01------146897217999999999987328907- Q ss_pred CCCEEECCCCHHHHH--HHHHHC Q ss_conf 771130366055899--999832 Q gi|254780928|r 163 NDYHIGINNRKILDG--ILEKIG 183 (496) Q Consensus 163 ~~~~I~in~~~il~~--il~~lg 183 (496) +..-=|||.+|-| +....| T Consensus 72 --~YF~~GNRDFLiG~~Far~aG 92 (241) T TIGR01854 72 --CYFMHGNRDFLIGKRFAREAG 92 (241) T ss_pred --EEEECCCCHHHHHHHHHHHHC T ss_conf --984059851566689999708 No 113 >TIGR02700 flavo_MJ0208 archaeoflavoprotein, MJ0208 family; InterPro: IPR014073 This entry describes one of two paralogous families of archaeal flavoprotein. The other, described by IPR014072 from INTERPRO and typified by the partially characterised AF1518 of ArchaArchaeoglobus fulgidus, is a homodimeric FMN-containing flavoprotein that accepts electrons from ferredoxin and can transfer them to various oxidoreductases. The function of this protein family is unknown.. Probab=71.55 E-value=6 Score=18.84 Aligned_cols=45 Identities=33% Similarity=0.513 Sum_probs=26.5 Q ss_pred CCCCCCCCCCCCCCCCCCCE-------EEECCHHHH-HHHHHCCCCCCCCCCCCEEEEEEECCCHH Q ss_conf 23235521112345677421-------331101689-99997368776655577148998269768 Q gi|254780928|r 331 GGRYDGLVSRFKGQNVPATG-------FSIGISRLI-VALKSLESSTNNIKEMGPVLITTMDHDSD 388 (496) Q Consensus 331 GGRYD~L~~~f~~~~~pavG-------faigverl~-~~l~~~~~~~~~~~~~~~v~V~~~~~~~~ 388 (496) =||||-|+-+ ||+| .+|+ |-|+ .|+ .+.-+-..|++|.+++.+.. T Consensus 83 LgkYD~Livs------PAT~NTVaKia~GIA-DsLVTNAv------aQAgKG~Vpv~vVPvDye~g 135 (237) T TIGR02700 83 LGKYDLLIVS------PATANTVAKIAYGIA-DSLVTNAV------AQAGKGDVPVLVVPVDYEEG 135 (237) T ss_pred CCCCCEEEEC------CCCCCCHHHEEECCH-HHHHHHHH------HHCCCCCCCEEEEEEECCCC T ss_conf 4532657875------851020011000210-03567677------52237754358887521477 No 114 >TIGR01511 ATPase-IB1_Cu copper-translocating P-type ATPase; InterPro: IPR006403 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (F-, V- and A-ATPases contain rotary motors) and in the type of ions they transport , . F-ATPases (F1F0-ATPases) in mitochondria, chloroplasts and bacterial plasma membranes are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases) are primarily found in eukaryotic vacuoles, catalysing ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases) are found in Archaea and function like F-ATPases. P-ATPases (E1E2-ATPases) are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles . P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H^+, Na^+, K^+, Mg^2+, Ca^2+, Ag^+ and Ag^2+, Zn^2+, Co^2+, Pb^2+, Ni^2+, Cd^2+, Cu^+ and Cu^2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents P-type ATPases that specialise in cation and copper transport; those transporting copper (3.6.3.4 from EC) have been classified as belonging to the IB subfamily , , . These proteins are involved in a variety of processes in both prokaryotes and eukaryotes. Some of these P-ATPases import copper into cells, such as in Arabidopsis sp., which require copper to create functional hormone receptors for ethylene signalling. Other P-ATPases are involved in copper export out of cells, such as occurs with the efflux of hepatic copper into the bile in eukaryotes. In bacteria, some of these P-ATPases play a role in osmotic adaptation. Certain copper ATPases have been implicated in both Wilson and Menkes diseases . More information about this protein can be found at Protein of the Month: ATP Synthases .; GO: 0004008 copper-exporting ATPase activity, 0005524 ATP binding, 0046872 metal ion binding, 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0016020 membrane. Probab=71.00 E-value=7.3 Score=18.27 Aligned_cols=63 Identities=13% Similarity=0.082 Sum_probs=49.8 Q ss_pred EEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHC Q ss_conf 48998269768999999999999987983999718999988999999877998999988728748 Q gi|254780928|r 378 VLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSR 442 (496) Q Consensus 378 v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~ 442 (496) -+++++-.++....++.+..+.|++.||.+.+.-+++ -+..-.-|.+.||.+.-=+-|+|+.+ T Consensus 361 ~l~~~~~~~D~lkp~a~~~i~~Lk~~Gi~~~mLtGDN--~~~A~a~A~~lGI~v~Aev~P~~K~a 423 (545) T TIGR01511 361 ELAGVLALADQLKPEAKEVIQALKRRGIEPVMLTGDN--RKTAKAVAKELGINVRAEVLPDDKAA 423 (545) T ss_pred CEEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEECCC--HHHHHHHHHHHCCEEEECCCHHHHHH T ss_conf 2799886647468868999999987598799986698--79999999972833331788076899 No 115 >TIGR02071 PBP_1b penicillin-binding protein 1B; InterPro: IPR011813 Bacterial that synthesize a cell wall of peptidoglycan (murein) generally have several transglycosylases and transpeptidases for the task. This family consists of a particular bifunctional transglycosylase/transpeptidase in Escherichia coli and other Proteobacteria, designated penicillin-binding protein 1B.; GO: 0008233 peptidase activity, 0008955 peptidoglycan glycosyltransferase activity, 0009252 peptidoglycan biosynthetic process, 0046677 response to antibiotic, 0009274 peptidoglycan-based cell wall. Probab=70.72 E-value=3.6 Score=20.30 Aligned_cols=68 Identities=25% Similarity=0.441 Sum_probs=40.5 Q ss_pred CCCCCCCCCCCCCC--CCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEE-EECCCHHHHHHHHHHHHHHHHCCCEEE Q ss_conf 35521112345677--4213311016899999736877665557714899-826976899999999999998798399 Q gi|254780928|r 334 YDGLVSRFKGQNVP--ATGFSIGISRLIVALKSLESSTNNIKEMGPVLIT-TMDHDSDSLSKYQMYTQMLRTAGIRAE 408 (496) Q Consensus 334 YD~L~~~f~~~~~p--avGfaigverl~~~l~~~~~~~~~~~~~~~v~V~-~~~~~~~~~~~~~~ia~~Lr~~Gi~~e 408 (496) ||.|+.++ ++| .+|+.+|++++...+..+......+ .+.|.+++ +++..+ +.-| .+.+.|-+.|.++- T Consensus 506 ~dALa~S~---N~pTV~lGm~vGl~~V~~t~~~LG~~k~~i-~~~PsmlLGA~~ltP--~eva-q~YQtlAsgG~~~p 576 (742) T TIGR02071 506 YDALARSL---NIPTVNLGMKVGLDKVSQTLKKLGINKDEI-PPVPSMLLGAISLTP--YEVA-QLYQTLASGGERAP 576 (742) T ss_pred HHHHHHHH---HHHHHHHHHHCCHHHHHHHHHHHCCCCCCC-CCCCHHHHCCCCCCH--HHHH-HHHHHHHCCCCCCC T ss_conf 78987653---176788646317678999999828771204-766335521136687--8999-89977625775543 No 116 >cd00733 GlyRS_alpha_core Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. This alignment contains only sequences from the GlyRS form which heterotetramerizes. The homodimer form of GlyRS is in a different family of class II aaRS. Class II assignment is based upon structure and the presence of three characteristic sequence motifs. Probab=69.27 E-value=4.5 Score=19.67 Aligned_cols=55 Identities=24% Similarity=0.361 Sum_probs=36.4 Q ss_pred CCCCHHHHHHHHHHCCCCCCCCCC-------CCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 554112331013330258764442-------111110001210000245788999999999751888777 Q gi|254780928|r 102 IVFPCRTYRIGPVFRNEKHGPGRF-------RQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND 164 (496) Q Consensus 102 ~~~p~k~yy~g~vfR~e~p~~Gr~-------REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~ 164 (496) .+.|.+..|++++.| |.-||| -.++|+-+=+ .|.++ .+-.+..+.|+.+|+...+ T Consensus 43 g~~pw~~aYvqPsrR---P~DgRYG~NPNRlq~y~QfQVil----KPsp~-n~q~lYL~SL~~igid~~~ 104 (279) T cd00733 43 GPEPWNVAYVEPSRR---PTDGRYGENPNRLQHYYQFQVII----KPSPD-NIQELYLESLEALGINPKE 104 (279) T ss_pred CCCCCEEEEECCCCC---CCCCCCCCCCCHHCEEEEEEEEE----CCCCH-HHHHHHHHHHHHCCCCCCC T ss_conf 998631554246779---99987778932310003457998----78956-5899999989984979543 No 117 >KOG0555 consensus Probab=69.16 E-value=8 Score=18.02 Aligned_cols=99 Identities=18% Similarity=0.304 Sum_probs=57.1 Q ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHH Q ss_conf 68999999999999999985984801652022887520267554333221689869998899988883899999995112 Q gi|254780928|r 21 KEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFD 100 (496) Q Consensus 21 ~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~ 100 (496) .-...|..+...+++.|...||.||.+|.+=-... -+| ..+|.|. --|+.-- +|-|---|+-.-.. T Consensus 241 ~vLK~Ra~~lr~~Rd~y~~~~ytEVtPPtmVQTQV---EGG------sTLFkld-YyGEeAy----LTQSSQLYLEtclp 306 (545) T KOG0555 241 KVLKARAALLRAMRDHYFERGYTEVTPPTMVQTQV---EGG------STLFKLD-YYGEEAY----LTQSSQLYLETCLP 306 (545) T ss_pred HHHHHHHHHHHHHHHHHHHCCCEECCCCCEEEEEE---CCC------CEEEEEC-CCCCHHH----CCCHHHHHHHHHHH T ss_conf 99999999999999888744842457971578875---176------0487311-3574033----02235888987655 Q ss_pred HCCCCHHHHHHHHHHCCCCCCC-CCCCCCCCCCHHHH Q ss_conf 0554112331013330258764-44211111000121 Q gi|254780928|r 101 TIVFPCRTYRIGPVFRNEKHGP-GRFRQFIQCDVDNV 136 (496) Q Consensus 101 ~~~~p~k~yy~g~vfR~e~p~~-Gr~REf~Q~g~eii 136 (496) . --..|+|.+-||.|+..- -|.-|++-+-+|+- T Consensus 307 A---lgdvy~I~~SyRAEkSrTRRHLsEytHVEaE~a 340 (545) T KOG0555 307 A---LGDVYCIQQSYRAEKSRTRRHLSEYTHVEAECA 340 (545) T ss_pred H---CCCEEEECHHHHHHHHHHHHHHHHHEEEEEECC T ss_conf 2---076267327566556666665533111023246 No 118 >TIGR00559 pdxJ pyridoxal phosphate biosynthetic protein PdxJ; InterPro: IPR004569 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). PLP is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination , , . PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors . Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy . PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalyzed reactions, enzymatic and non-enzymatic . In Escherichia coli, the pdx genes involved in vitamin B6 have been characterised , , . This entry represents PdxJ, which catalyses the condensation of 1-amino-3-oxo-4-(phosphohydroxy)propan-2-one and 1-deoxy-D-xylulose-5-phosphate to form pyridoxine-5'-phosphate. The product of the PdxJ reaction is then oxidized by PdxH to pyridoxal 5'-phosphate.; GO: 0008615 pyridoxine biosynthetic process, 0005737 cytoplasm. Probab=67.12 E-value=8.8 Score=17.75 Aligned_cols=39 Identities=21% Similarity=0.261 Sum_probs=16.2 Q ss_pred HHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEE Q ss_conf 999999999879839997189999889999998779989999 Q gi|254780928|r 393 YQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAII 434 (496) Q Consensus 393 ~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~vii 434 (496) ..++++.+.++||.|.++.+. .+.|+++|.+.|++.+=| T Consensus 115 L~~~~~~~~~~GI~vSlFId~---~~d~i~~A~e~g~~~iE~ 153 (265) T TIGR00559 115 LKELVKRLHEAGIEVSLFIDA---DKDQISAAAEVGADRIEI 153 (265) T ss_pred HHHHHHHHHHCCCEEEEEECC---CHHHHHHHHHCCCCEEEE T ss_conf 999999998679858774254---468889999708984885 No 119 >TIGR00471 pheT_arch phenylalanyl-tRNA synthetase, beta subunit; InterPro: IPR004531 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (see IPR002319 from INTERPRO). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta. In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases . This family describes the beta subunit. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps (see also IPR004532 from INTERPRO). This family represents the subfamily that includes the beta subunit from eukaryotic cytosol, the archaea, and spirochetes.; GO: 0000166 nucleotide binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006432 phenylalanyl-tRNA aminoacylation, 0005737 cytoplasm. Probab=66.60 E-value=7.2 Score=18.33 Aligned_cols=13 Identities=15% Similarity=0.235 Sum_probs=9.6 Q ss_pred EECCCCCEEEECC Q ss_conf 9869998899988 Q gi|254780928|r 73 LQDDDGQWISLRY 85 (496) Q Consensus 73 f~D~~g~~l~LRp 85 (496) +.|..|+.+++|| T Consensus 219 I~Ds~~~V~S~PP 231 (605) T TIGR00471 219 ILDSKDDVLSMPP 231 (605) T ss_pred EEECCCCEEECCC T ss_conf 7636888773587 No 120 >pfam02091 tRNA-synt_2e Glycyl-tRNA synthetase alpha subunit. Probab=66.30 E-value=5.6 Score=19.04 Aligned_cols=55 Identities=24% Similarity=0.317 Sum_probs=36.2 Q ss_pred CCCCHHHHHHHHHHCCCCCCCCCC-------CCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 554112331013330258764442-------111110001210000245788999999999751888777 Q gi|254780928|r 102 IVFPCRTYRIGPVFRNEKHGPGRF-------RQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND 164 (496) Q Consensus 102 ~~~p~k~yy~g~vfR~e~p~~Gr~-------REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~ 164 (496) .+.|.+..|++++.| |.-||| -.++|+-+=+ .|.++ .+-.+..+.|+.+|+...+ T Consensus 42 gp~pw~~aYvqPsrR---P~DgRYGenPnRlq~y~QfQVi~----KPsp~-n~q~lYL~SL~~lgid~~~ 103 (284) T pfam02091 42 GPEPWNVAYVEPSRR---PTDGRYGENPNRLQHYYQFQVIL----KPSPD-NIQELYLGSLKALGIDPLD 103 (284) T ss_pred CCCCCEEEEECCCCC---CCCCCCCCCCCHHHHHEEEEEEE----CCCCH-HHHHHHHHHHHHCCCCCCC T ss_conf 998641554246779---99987778920420022357897----78946-6899999989983979543 No 121 >TIGR01292 TRX_reduct thioredoxin-disulfide reductase; InterPro: IPR005982 Reactive oxygen species (ROS) are known mediators of intracellular signaling cascades. Excessive production of ROS may, however, lead to oxidative stress, loss of cell function, and ultimately apoptosis or necrosis. A balance between oxidant and antioxidant intracellular systems is hence vital for cell function, regulation, and adaptation to diverse growth conditions. Thioredoxin reductase in conjunction with thioredoxin is a ubiquitous oxidoreductase system with antioxidant and redox regulatory roles. Thioredoxin reductase (1.8.1.9 from EC) reduces oxidised thioredoxin in the presence of NADPH. Reduced thioredoxin serves as an electron donor for thioredoxin peroxidase which consequently reduces H_2O_2 to H_2O. In mammals, extracellular forms of Trx also have cytokine-like effects. Mammalian TrxR has a highly reactive active site selenocysteine residue resulting in a profound reductive capacity, reducing several substrates in addition to Trx .; GO: 0004791 thioredoxin-disulfide reductase activity, 0019430 removal of superoxide radicals, 0005737 cytoplasm. Probab=63.35 E-value=10 Score=17.29 Aligned_cols=79 Identities=13% Similarity=0.200 Sum_probs=54.4 Q ss_pred EEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHH---HHHHHHHHC---CCCEEE------EECHHHHHCCCEEE Q ss_conf 998269768999999999999987983999718999988---999999877---998999------98872874881899 Q gi|254780928|r 380 ITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFG---NQLKYADRR---NCPLAI------IQGTGERSRGMLQI 447 (496) Q Consensus 380 V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~---~~~~~A~~~---g~~~vi------iig~~e~~~~~v~v 447 (496) |.|++.+..-+.+|+ -|.+-+-+|-+-+..+ +|. -.++.+.++ +|+|++ |.|++...=..|+| T Consensus 154 V~VvGGGdsA~eEA~----yL~~~a~kV~lvHRRd-~fRA~k~~~~r~~~~~eG~I~~l~n~~v~Ei~G~~~~~V~~v~i 228 (321) T TIGR01292 154 VAVVGGGDSALEEAL----YLTRIAKKVTLVHRRD-KFRAEKILLDRLKKNPEGKIEFLWNSTVEEIVGDNSKKVESVKI 228 (321) T ss_pred EEEECCCCHHHHHHH----HHHHCCCEEEEEECCC-CCCCCHHHHHHHHHCCCCCEEEECCCEEEEEECCCCEEEEEEEE T ss_conf 999879824888889----9985387679997798-63632899989983789878996486899996178315533589 Q ss_pred EECCCCCEEEEECCCH Q ss_conf 7878883643311201 Q gi|254780928|r 448 KDLAKGKELSREIKNN 463 (496) Q Consensus 448 K~l~~g~q~~~~~~~~ 463 (496) ||..|+++.+++.+-. T Consensus 229 ~N~~t~e~~~l~vdGv 244 (321) T TIGR01292 229 KNTVTGEEEELKVDGV 244 (321) T ss_pred EECCCCEEEEEEECEE T ss_conf 9623884889984447 No 122 >PRK10333 putative ligase; Provisional Probab=62.53 E-value=3 Score=20.78 Aligned_cols=27 Identities=22% Similarity=0.517 Sum_probs=19.9 Q ss_pred CCCCCCCCCCCCCCCCCCCCEEEECCH Q ss_conf 323235521112345677421331101 Q gi|254780928|r 330 GGGRYDGLVSRFKGQNVPATGFSIGIS 356 (496) Q Consensus 330 ~GGRYD~L~~~f~~~~~pavGfaigve 356 (496) |||=||..++.+.+.....||+|+... T Consensus 146 GgGyYDR~L~~~~~~~~~~Igla~~~Q 172 (198) T PRK10333 146 GGGFYDRTLQNWQHYKTQPVGYAHDCQ 172 (198) T ss_pred CCCCHHHHHHHCCCCCCCEEEEEECCE T ss_conf 874251575644203871899971227 No 123 >TIGR02727 MTHFS_bact 5,10-methenyltetrahydrofolate synthetase; InterPro: IPR002698 5-formyltetrahydrofolate cyclo-ligase or methenyl-THF synthetase 6.3.3.2 from EC catalyses the interchange of 5-formyltetrahydrofolate (5-FTHF) to 5-10-methenyltetrahydrofolate, this requires ATP and Mg^2+ . 5-FTHF is used in chemotherapy where it is clinically known as Leucovorin .; GO: 0005524 ATP binding, 0030272 5-formyltetrahydrofolate cyclo-ligase activity, 0009396 folic acid and derivative biosynthetic process. Probab=61.91 E-value=3.3 Score=20.54 Aligned_cols=27 Identities=41% Similarity=0.874 Sum_probs=19.9 Q ss_pred CCCCCCCCCCCCCCCCCCCCEEEECCH Q ss_conf 323235521112345677421331101 Q gi|254780928|r 330 GGGRYDGLVSRFKGQNVPATGFSIGIS 356 (496) Q Consensus 330 ~GGRYD~L~~~f~~~~~pavGfaigve 356 (496) |||=||..++.+.++..|++++++..+ T Consensus 136 GgGyYDR~L~~~~~~~~~~~~ig~~f~ 162 (183) T TIGR02727 136 GGGYYDRFLARLKGKTVPAIKIGLAFD 162 (183) T ss_pred CCCHHHHHHHCCCCCCCCEEEEEEEEH T ss_conf 687467875506788876068885100 No 124 >PRK10846 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional Probab=61.70 E-value=11 Score=17.10 Aligned_cols=35 Identities=17% Similarity=0.205 Sum_probs=17.4 Q ss_pred HHHHHHHHHHC---C-CEEEEEECCCCCHHHHHHHHHHC Q ss_conf 99999999987---9-83999718999988999999877 Q gi|254780928|r 393 YQMYTQMLRTA---G-IRAEMFLGSSKNFGNQLKYADRR 427 (496) Q Consensus 393 ~~~ia~~Lr~~---G-i~~e~~~~~~~sl~~~~~~A~~~ 427 (496) +..+++.|... + +..-+-.-.+|.....++.-... T Consensus 310 a~~L~~~l~~~~~~~k~~~V~g~l~dKD~~~~l~~L~~~ 348 (416) T PRK10846 310 AEYLTGRLKALPKNGRVLAVIGMLHDKDIAGTLAWLKSV 348 (416) T ss_pred HHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHH T ss_conf 999999999607799689998413789999999986644 No 125 >cd00003 PNPsynthase Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the biosynthesis of vitamin B6. PNP synthase, a homooctameric enzyme, catalyzes the final step in PNP biosynthesis, the condensation of 1-amino-acetone 3-phosphate and 1-deoxy-D-xylulose 5-phosphate. PNP synthase adopts a TIM barrel topology, intersubunit contacts are mediated by three ''extra'' helices, generating a tetramer of symmetric dimers with shared active sites; the open state has been proposed to accept substrates and to release products, while most of the catalytic events are likely to occur in the closed state; a hydrophilic channel running through the center of the barrel was identified as the essential structural feature that enables PNP synthase to release water molecules produced during the reaction from the closed, Probab=59.24 E-value=12 Score=16.83 Aligned_cols=17 Identities=18% Similarity=0.388 Sum_probs=7.4 Q ss_pred HHHHHHHHHHHHHHCCC Q ss_conf 89999999999875088 Q gi|254780928|r 268 GFNELVVISELVRKSGY 284 (496) Q Consensus 268 ~l~~l~~i~~~l~~~gv 284 (496) .++.+....++....|+ T Consensus 167 el~~i~~aa~~A~~lGL 183 (234) T cd00003 167 ELERIAKAAKLARELGL 183 (234) T ss_pred HHHHHHHHHHHHHHCCC T ss_conf 99999999999998598 No 126 >TIGR02461 osmo_MPG_phos mannosyl-3-phosphoglycerate phosphatase; InterPro: IPR012813 Members of this family are mannosyl-3-phosphoglycerate phosphatase (3.1.3.70 from EC). It acts sequentially after mannosyl-3-phosphoglycerate synthase (2.4.1.217 from EC) in a two-step pathway of biosynthesis of the compatible solute mannosylglycerate, a typical osmolyte of thermophiles.; GO: 0050531 mannosyl-3-phosphoglycerate phosphatase activity, 0051479 mannosylglycerate biosynthetic process, 0005737 cytoplasm. Probab=58.39 E-value=13 Score=16.74 Aligned_cols=32 Identities=28% Similarity=0.457 Sum_probs=20.1 Q ss_pred EECCCCCEEE-ECCCCHHHHHHHHHHHHHHCCCCH Q ss_conf 9869998899-988883899999995112055411 Q gi|254780928|r 73 LQDDDGQWIS-LRYDLTAPLARYVAENFDTIVFPC 106 (496) Q Consensus 73 f~D~~g~~l~-LRpDlT~~~aR~~~~~~~~~~~p~ 106 (496) |+|-+|.+|. .++| +.-||=+....++.-.|+ T Consensus 3 FtDLD~TLl~~~~ye--~~pA~e~~~~L~~~G~~~ 35 (248) T TIGR02461 3 FTDLDGTLLDLETYE--PGPAREALEELKDLGFPI 35 (248) T ss_pred EECCCCCCCCCCCCC--HHHHHHHHHHHHHCCCEE T ss_conf 632662117777888--002689999999669738 No 127 >PRK05265 pyridoxine 5'-phosphate synthase; Provisional Probab=58.15 E-value=13 Score=16.71 Aligned_cols=16 Identities=13% Similarity=0.266 Sum_probs=6.5 Q ss_pred HHHHHHHHHHHHHCCC Q ss_conf 9999999999875088 Q gi|254780928|r 269 FNELVVISELVRKSGY 284 (496) Q Consensus 269 l~~l~~i~~~l~~~gv 284 (496) ++.+....+++...|+ T Consensus 171 l~~i~~aa~~A~~lGL 186 (240) T PRK05265 171 LERIAEAAALAASLGL 186 (240) T ss_pred HHHHHHHHHHHHHCCC T ss_conf 9999999999998698 No 128 >PRK13057 putative lipid kinase; Reviewed Probab=55.55 E-value=14 Score=16.44 Aligned_cols=49 Identities=20% Similarity=0.038 Sum_probs=23.4 Q ss_pred HHHHHHHHHCCCEEEECCCHHHHH--HHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHH Q ss_conf 999999998598480165202288--75202675543332216898699988999888838999 Q gi|254780928|r 31 DSIRNIYENYGFDPIETPLLEYSD--SLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLA 92 (496) Q Consensus 31 ~~l~~~f~~~G~~~I~tP~lE~~~--~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~a 92 (496) ..++..++.+|++.....+=..-| -+.+. ..+.-...++.-=|.|+.-+ T Consensus 16 ~~~~~~l~~~g~~~~~~~T~~~g~a~~~~~~-------------~~~~~d~vv~~GGDGTv~ev 66 (287) T PRK13057 16 GAARAALEAAGLELVEPHPESPADLSEVIEA-------------HADGVDLVIVGGGDGTLNAA 66 (287) T ss_pred HHHHHHHHHCCCEEEEEECCCHHHHHHHHHH-------------HHCCCCEEEEECCHHHHHHH T ss_conf 9999999987997999954987899999999-------------86699989998858999999 No 129 >PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated Probab=54.81 E-value=14 Score=16.36 Aligned_cols=43 Identities=14% Similarity=0.268 Sum_probs=27.4 Q ss_pred HHHHHHHHHHHCCCEEEEE--ECCCCCHHHHHHHHHHCCCCEEEE Q ss_conf 9999999999879839997--189999889999998779989999 Q gi|254780928|r 392 KYQMYTQMLRTAGIRAEMF--LGSSKNFGNQLKYADRRNCPLAII 434 (496) Q Consensus 392 ~~~~ia~~Lr~~Gi~~e~~--~~~~~sl~~~~~~A~~~g~~~vii 434 (496) .+.+++......++.--+. ++...+.+..+.-+...|.|...+ T Consensus 200 ~~~~~~~~f~~~~i~gvIlTKlD~ta~gG~als~~~~~~~PI~fi 244 (270) T PRK06731 200 DMIEIITNFKDIHIDGIVFTKFDETASSGELLKIPAVSSAPIVLM 244 (270) T ss_pred HHHHHHHHHCCCCCCEEEEECCCCCCCCCHHHHHHHHHCCCEEEE T ss_conf 999999980779998899965358997729999999988597999 No 130 >PRK09348 glyQ glycyl-tRNA synthetase subunit alpha; Validated Probab=54.27 E-value=11 Score=17.03 Aligned_cols=55 Identities=24% Similarity=0.306 Sum_probs=36.0 Q ss_pred CCCCHHHHHHHHHHCCCCCCCCCCC-------CCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 5541123310133302587644421-------11110001210000245788999999999751888777 Q gi|254780928|r 102 IVFPCRTYRIGPVFRNEKHGPGRFR-------QFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRND 164 (496) Q Consensus 102 ~~~p~k~yy~g~vfR~e~p~~Gr~R-------Ef~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~~ 164 (496) .+.|.+..|.++.-| |.-|||- .++|+-+=+ .|.++ .+-.+..+.|+.+||...+ T Consensus 45 gp~pw~~aYvqPsrR---P~DgRYGeNPNRlq~y~QfQVil----KPsP~-n~q~lyL~SL~~lgid~~~ 106 (291) T PRK09348 45 GPEPWNAAYVQPSRR---PTDGRYGENPNRLQHYYQFQVIL----KPSPD-NIQELYLGSLEALGIDPLE 106 (291) T ss_pred CCCCCCEEEECCCCC---CCCCCCCCCCHHHHHEEEEEEEE----CCCCC-CHHHHHHHHHHHHCCCCCC T ss_conf 887640542134578---88775468912420105568997----78971-3999999999980889753 No 131 >pfam01411 tRNA-synt_2c tRNA synthetases class II (A). Other tRNA synthetase sub-families are too dissimilar to be included. This family includes only alanyl-tRNA synthetases. Probab=52.47 E-value=16 Score=16.12 Aligned_cols=112 Identities=14% Similarity=0.190 Sum_probs=65.4 Q ss_pred HHHHHHHHHHHHCCCEEEEC-CCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHHHHHHHHHHHHCCCC- Q ss_conf 99999999999859848016-5202288752026755433322168986999889998888389999999511205541- Q gi|254780928|r 28 RILDSIRNIYENYGFDPIET-PLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPLARYVAENFDTIVFP- 105 (496) Q Consensus 28 ~i~~~l~~~f~~~G~~~I~t-P~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~aR~~~~~~~~~~~p- 105 (496) .|++.+.+.|+++|-..|.+ |++-..+. +-..++.-|+.|.+- +.... .+.| T Consensus 1 eiR~~fl~fF~~~gH~~i~s~~lvp~~d~------~llft~Agm~~fkp~------------------~~g~~--~~pp~ 54 (545) T pfam01411 1 EIRQTFLDFFEKKGHTRVPSSPVVPRNDP------TLLFTNAGMNQFKPI------------------FLGGE--DKPPY 54 (545) T ss_pred CHHHHHHHHHHHCCCEEECCCCCCCCCCC------CEEEECCCCHHCHHH------------------HCCCC--CCCCC T ss_conf 96899999998789888078670679999------814640460117376------------------54987--58998 Q ss_pred HHHHHHHHHHCCC---CCC-CCCCCCCCCCCHHHHHCCC--HHHHHHHHHHHHHHH-HHCCCCCCCCEEEC Q ss_conf 1233101333025---876-4442111110001210000--245788999999999-75188877711303 Q gi|254780928|r 106 CRTYRIGPVFRNE---KHG-PGRFRQFIQCDVDNVGSSA--ETADAEMCMMMADTL-EAVGIKRNDYHIGI 169 (496) Q Consensus 106 ~k~yy~g~vfR~e---~p~-~Gr~REf~Q~g~eiiG~~~--~~~DaEii~l~~~~l-~~lgl~~~~~~I~i 169 (496) -|+...+++.|-. ..+ -|| +...||++|.-+ .+---|.|..+++.| +.|||+...+.+.+ T Consensus 55 ~~l~~~Q~CiR~~DidnVG~t~r----H~T~FEMlGn~SFg~YfK~eai~~a~e~lt~~l~i~~~~l~~t~ 121 (545) T pfam01411 55 NRAVNSQKCIRAGDLDNVGRTAR----HHTFFEMLGNFSFGDYFKEEAIEFAWELLTKELGLDPERLYVTV 121 (545) T ss_pred CCCCCCCCCEECCCHHHCCCCCC----CCHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCHHHEEEEE T ss_conf 87244333244376543367777----53232203345156243789999999997656178866769998 No 132 >TIGR00455 apsK adenylylsulfate kinase; InterPro: IPR002891 Enzyme that catalyses the phosphorylation of adenylylsulphate to 3'-phosphoadenylylsulphate. This domain contains an ATP binding P-loop motif .; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity transferring phosphorus-containing groups, 0000103 sulfate assimilation. Probab=52.46 E-value=16 Score=16.12 Aligned_cols=11 Identities=27% Similarity=0.531 Sum_probs=5.9 Q ss_pred HHHHHHHCCCC Q ss_conf 99999751888 Q gi|254780928|r 151 MADTLEAVGIK 161 (496) Q Consensus 151 ~~~~l~~lgl~ 161 (496) +.+-|.+.|+. T Consensus 39 l~~~L~~~G~~ 49 (187) T TIGR00455 39 LEKKLEKKGYR 49 (187) T ss_pred HHHHHHHCCCE T ss_conf 99999966974 No 133 >pfam03740 PdxJ Pyridoxal phosphate biosynthesis protein PdxJ. Members of this family belong to the PdxJ family that catalyses the condensation of 1-deoxy-d-xylulose-5-phosphate (DXP) and 1-amino-3-oxo-4-(phosphohydroxy)propan-2-one to form pyridoxine 5'-phosphate (PNP). This reaction is involved in de novo synthesis of pyridoxine (vitamin B6) and pyridoxal phosphate. Probab=51.75 E-value=16 Score=16.05 Aligned_cols=16 Identities=19% Similarity=0.210 Sum_probs=7.6 Q ss_pred HHHHHHHHHHHHHCCC Q ss_conf 9999999999875088 Q gi|254780928|r 269 FNELVVISELVRKSGY 284 (496) Q Consensus 269 l~~l~~i~~~l~~~gv 284 (496) ++.+....++....|+ T Consensus 171 l~~i~~aa~~A~~lGL 186 (239) T pfam03740 171 LERLAAGAALAFDLGL 186 (239) T ss_pred HHHHHHHHHHHHHCCC T ss_conf 9999999999987498 No 134 >COG4927 Predicted choloylglycine hydrolase [General function prediction only] Probab=51.55 E-value=9.6 Score=17.49 Aligned_cols=25 Identities=40% Similarity=0.678 Sum_probs=16.6 Q ss_pred CCCCCCCCC-------CCCCCCCCCCEEEECC Q ss_conf 232355211-------1234567742133110 Q gi|254780928|r 331 GGRYDGLVS-------RFKGQNVPATGFSIGI 355 (496) Q Consensus 331 GGRYD~L~~-------~f~~~~~pavGfaigv 355 (496) |||-|+.-+ .|++...|+-||++++ T Consensus 147 ~g~~DGmNE~GLa~g~tf~~~~~~~~GF~~~~ 178 (336) T COG4927 147 GGCVDGMNEEGLAAGITFGGGRSQGRGFSIIL 178 (336) T ss_pred ECCCCCCCCCCCEEEEEECCCCCCCCCEEEEE T ss_conf 00113656213101566436765678736886 No 135 >TIGR01318 gltD_gamma_fam glutamate synthase, small subunit; InterPro: IPR006006 One pathway for the assimilation of ammonia and glutamate biosynthesis involves glutamate synthase (1.4.1.13 from EC) which transfers the amide group of glutamine to 2-oxoglutarate to yield two molecules of glutamate.2 L-glutamate + NADP^+ = L-glutamine + 2-oxoglutarate + NADPH + H^+. This model describes both glutatate synthase small subunit and closely related paralogs of unknown function from a number of gamma and alpha subdivision Proteobacteria, including Escherichia coli. ; GO: 0016639 oxidoreductase activity acting on the CH-NH2 group of donors NAD or NADP as acceptor, 0006537 glutamate biosynthetic process. Probab=51.17 E-value=16 Score=15.99 Aligned_cols=98 Identities=12% Similarity=0.259 Sum_probs=39.6 Q ss_pred CCCCCCCCCCCCCCCCCC----EEEECCHHHHHHHHHCCCCCCCCCCCCE------EEEEEECCCHHHHHHHHHHHHHHH Q ss_conf 323552111234567742----1331101689999973687766555771------489982697689999999999999 Q gi|254780928|r 332 GRYDGLVSRFKGQNVPAT----GFSIGISRLIVALKSLESSTNNIKEMGP------VLITTMDHDSDSLSKYQMYTQMLR 401 (496) Q Consensus 332 GRYD~L~~~f~~~~~pav----Gfaigverl~~~l~~~~~~~~~~~~~~~------v~V~~~~~~~~~~~~~~~ia~~Lr 401 (496) |-|-..-.-|-+++.|+| -|=|.=.|.++-+.+.......+....| --|.|++.++.. -+++. +.+| T Consensus 237 GTY~~~~ggLP~eDa~GV~~ALPFLianTr~lmGl~eyGrPiaGw~~~~P~~~~~Gk~VVVLGGGDTa-MDCvR--TaiR 313 (480) T TIGR01318 237 GTYRSMRGGLPGEDAPGVLKALPFLIANTRQLMGLPEYGRPIAGWEPEEPLIDVEGKRVVVLGGGDTA-MDCVR--TAIR 313 (480) T ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHHCCCEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCH-HHHHH--HHHH T ss_conf 43343128778877421666424776615212378887774467776677423477668985888752-57889--9998 Q ss_pred HCC--CEEEEEECCCCCH---HHHHHHHHHCCCCEEE Q ss_conf 879--8399971899998---8999999877998999 Q gi|254780928|r 402 TAG--IRAEMFLGSSKNF---GNQLKYADRRNCPLAI 433 (496) Q Consensus 402 ~~G--i~~e~~~~~~~sl---~~~~~~A~~~g~~~vi 433 (496) ..= +.| +|-.+-.|+ ++-.+.|...|+.|.= T Consensus 314 ~GA~~VTC-~YRRDE~nMPGSrrEV~NAREEGV~F~F 349 (480) T TIGR01318 314 LGAKKVTC-AYRRDEANMPGSRREVANAREEGVEFLF 349 (480) T ss_pred HCCCCCCE-EEECCCCCCCCCHHHHCCCHHCCCEEEE T ss_conf 17761312-6653677878775552661111711321 No 136 >TIGR01162 purE phosphoribosylaminoimidazole carboxylase, catalytic subunit; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain . The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme .; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process, 0009320 phosphoribosylaminoimidazole carboxylase complex. Probab=50.61 E-value=17 Score=15.93 Aligned_cols=26 Identities=31% Similarity=0.466 Sum_probs=16.8 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCEEECC Q ss_conf 45788999999999751888777113036 Q gi|254780928|r 142 TADAEMCMMMADTLEAVGIKRNDYHIGIN 170 (496) Q Consensus 142 ~~DaEii~l~~~~l~~lgl~~~~~~I~in 170 (496) .+|.++..=+.++|++||++ |.+++- T Consensus 8 ~SD~~~m~~a~~~L~~fgi~---~e~~V~ 33 (159) T TIGR01162 8 DSDLETMKKAAEILEEFGIP---YELRVV 33 (159) T ss_pred CCCHHHHHHHHHHHHHCCCC---EEEEEE T ss_conf 25478999999999855996---678986 No 137 >cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Probab=50.36 E-value=17 Score=15.91 Aligned_cols=13 Identities=23% Similarity=0.526 Sum_probs=4.7 Q ss_pred HHHHHHCCCEEEE Q ss_conf 9999985984801 Q gi|254780928|r 34 RNIYENYGFDPIE 46 (496) Q Consensus 34 ~~~f~~~G~~~I~ 46 (496) ...|+..||+-+. T Consensus 20 ~~~l~~~G~~V~~ 32 (119) T cd02067 20 ARALRDAGFEVID 32 (119) T ss_pred HHHHHHCCCEEEE T ss_conf 9999978998998 No 138 >TIGR01719 euk_UDPppase uridine phosphorylase; InterPro: IPR010059 This entry represents a clade of mainly eukaryotic uridine phosphorylases. Genes from human and mouse have been characterised. This enzyme is a member of the PHP/UDP subfamily and is closely related to the bacterial uridine (IPR010058 from INTERPRO) and inosine (IPR004402 from INTERPRO) phosphorylase equivalogs. In addition to the eukaryotes, a gene from Mycobacterium leprae is included in this equivalog and may have resulted from lateral gene transfer.; GO: 0004850 uridine phosphorylase activity, 0009166 nucleotide catabolic process, 0005737 cytoplasm. Probab=49.57 E-value=17 Score=15.83 Aligned_cols=76 Identities=16% Similarity=0.276 Sum_probs=59.7 Q ss_pred HHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCC-CEEEEECHHHHHCCCEEEEECCCCCEEEEECCCHHHHHHCCCC Q ss_conf 999999998798399971899998899999987799-8999988728748818997878883643311201443202335 Q gi|254780928|r 394 QMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNC-PLAIIQGTGERSRGMLQIKDLAKGKELSREIKNNESWREARVA 472 (496) Q Consensus 394 ~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~-~~viiig~~e~~~~~v~vK~l~~g~q~~~~~~~~~~~~~~~~~ 472 (496) ....++|.++|+|- |...+ ++ --.+.++.|+ +.++|- |+|=|.-.|+|.+.+.+-+.+|-+. T Consensus 224 ~a~L~~l~~~GVRN-IEMEs--~~--fA~~t~~~G~P~~A~VC---------VTLLNRL~GDQi~~~~~ql~e~e~R--- 286 (301) T TIGR01719 224 MAFLRKLDALGVRN-IEMES--SM--FASLTSRAGFPKAAVVC---------VTLLNRLEGDQITITKDQLHEFEER--- 286 (301) T ss_pred HHHHHHHHHCCCCE-EHHHH--HH--HHHHHHHCCCCCCCEEE---------EEHHHCCCCCCCCCCHHHHHHHHCC--- T ss_conf 99999999678952-33889--99--99998625898410023---------2432337987011775553543016--- Q ss_pred CEEECHHHHHHHHHHHHH Q ss_conf 103079999999999998 Q gi|254780928|r 473 QITIPISELVSTVKKILQ 490 (496) Q Consensus 473 q~~v~~~~l~~~~~~~l~ 490 (496) |..=+..|+||.|. T Consensus 287 ----P~~lV~~Yikk~L~ 300 (301) T TIGR01719 287 ----PFRLVARYIKKSLL 300 (301) T ss_pred ----HHHHHHHHHHHHHC T ss_conf ----68999999998725 No 139 >cd02685 MIT_C MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown. Probab=48.57 E-value=18 Score=15.77 Aligned_cols=24 Identities=17% Similarity=0.188 Sum_probs=13.1 Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCH Q ss_conf 9999999999875088844300110 Q gi|254780928|r 269 FNELVVISELVRKSGYNSNRIKISS 293 (496) Q Consensus 269 l~~l~~i~~~l~~~gv~~~~i~~Dl 293 (496) .+.|.++-+.+...||.. .+.||. T Consensus 70 ~~~L~~ik~sl~~~gI~~-~~~f~~ 93 (148) T cd02685 70 IEALEEIKQSLASHGVEF-TWEFSD 93 (148) T ss_pred HHHHHHHHHHHHHCCCEE-EEEECC T ss_conf 999999999998659579-999778 No 140 >TIGR01825 gly_Cac_T_rel pyridoxal phosphate-dependent acyltransferase, putative; InterPro: IPR010962 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). PLP is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination , , . PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors . Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy . PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalyzed reactions, enzymatic and non-enzymatic . This entry contains a number of enzyme families: Serine palmitoyltransferase Glycine C-acetyltransferase (2-amino-3-ketobutyrate coenzyme A ligase) 5-aminolevulinic acid synthase 8-amino-7-oxononanoate synthase All transfer the R-group (acetyl, succinyl, or 6-carboxyhexanoyl) from coenzyme A to an amino acid (Gly, Gly, Ala, respectively), with release of CO2 for the latter two reactions.; GO: 0016740 transferase activity, 0030170 pyridoxal phosphate binding. Probab=48.18 E-value=3.6 Score=20.30 Aligned_cols=100 Identities=16% Similarity=0.211 Sum_probs=57.8 Q ss_pred EEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHH-----------CCCEE---------EE Q ss_conf 13311016899999736877665557714899826976899999999999998-----------79839---------99 Q gi|254780928|r 350 GFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQMLRT-----------AGIRA---------EM 409 (496) Q Consensus 350 Gfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~-----------~Gi~~---------e~ 409 (496) |.+-|-..++..|+++..+.....+..|..|.++-.--+.+..--++..+||+ .|+.. -+ T Consensus 246 GY~AG~~~lidyL~~~aRPFLFSta~~Pa~~~A~~~Av~~l~~~~~l~~kLW~Nt~ylk~~L~~LGydl~~S~tPItPv~ 325 (392) T TIGR01825 246 GYVAGSKELIDYLKARARPFLFSTALPPAVVAALIEAVDVLQESPELMEKLWDNTRYLKAGLSKLGYDLGESETPITPVL 325 (392) T ss_pred CCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEE T ss_conf 42348889999998628986012578807899999999987079314777678899999876761641147668612458 Q ss_pred EECCCCCHHHHHHHHHH---C-CCCEEEEECHHHHHCCCEEEEECCCCC Q ss_conf 71899998899999987---7-998999988728748818997878883 Q gi|254780928|r 410 FLGSSKNFGNQLKYADR---R-NCPLAIIQGTGERSRGMLQIKDLAKGK 454 (496) Q Consensus 410 ~~~~~~sl~~~~~~A~~---~-g~~~viiig~~e~~~~~v~vK~l~~g~ 454 (496) ..+ . +.-+ ++.++ . ||=-.-|+=|. +-.|+-+|||+.|=+ T Consensus 326 ~Gd-e-~~A~--efS~rL~~~yGvFa~sivFPT-Vp~g~ARiR~~~tA~ 369 (392) T TIGR01825 326 IGD-E-KVAQ--EFSRRLLDEYGVFAQSIVFPT-VPRGTARIRNIPTAE 369 (392) T ss_pred ECC-C-HHHH--HHHHHHHHHCCEEEEEEECCC-CCCCCCCCCCCCCHH T ss_conf 765-1-5689--999987775290899842165-669884212465613 No 141 >PRK07564 phosphoglucomutase; Validated Probab=46.78 E-value=6.3 Score=18.67 Aligned_cols=11 Identities=36% Similarity=0.564 Sum_probs=4.9 Q ss_pred HHHHHHHHHCC Q ss_conf 58999998325 Q gi|254780928|r 174 ILDGILEKIGL 184 (496) Q Consensus 174 il~~il~~lgi 184 (496) .+..+++.+|. T Consensus 242 ~~~~il~~~g~ 252 (544) T PRK07564 242 YWKAIAERYGL 252 (544) T ss_pred HHHHHHHHCCC T ss_conf 89999998199 No 142 >PRK13054 lipid kinase; Reviewed Probab=46.47 E-value=19 Score=15.52 Aligned_cols=15 Identities=20% Similarity=-0.183 Sum_probs=9.2 Q ss_pred CCEEEECCCCHHHHH Q ss_conf 988999888838999 Q gi|254780928|r 78 GQWISLRYDLTAPLA 92 (496) Q Consensus 78 g~~l~LRpDlT~~~a 92 (496) ...++.-=|.|+.-+ T Consensus 58 d~vv~~GGDGTv~ev 72 (299) T PRK13054 58 ATVIAGGGDGTLNEV 72 (299) T ss_pred CEEEEECCCHHHHHH T ss_conf 899998772299999 No 143 >TIGR02838 spore_V_AC stage V sporulation protein AC; InterPro: IPR014203 This entry describes stage V sporulation protein AC; a paralog of stage V sporulation protein AE. Both are proteins found to be present in a species, if and only if, that species is one of the Firmicutes capable of endospore formation, as of the time of the publication of the genome of Carboxydothermus hydrogenoformans. Mutants in spoVAC have a stage V sporulation defect.. Probab=45.99 E-value=5.6 Score=19.01 Aligned_cols=37 Identities=32% Similarity=0.488 Sum_probs=25.4 Q ss_pred EEECCC-CCCCCCCCCCC-CCCCCCCEEEECCHHHHHHHHH Q ss_conf 110032-32355211123-4567742133110168999997 Q gi|254780928|r 326 GSVGGG-GRYDGLVSRFK-GQNVPATGFSIGISRLIVALKS 364 (496) Q Consensus 326 ~aI~~G-GRYD~L~~~f~-~~~~pavGfaigverl~~~l~~ 364 (496) +|++-| |=||++...+| |--+|-+|||=.+- -.|||+ T Consensus 64 ~alLTG~G~YDkia~~AGAG~~VPvTGFANam~--S~AlEh 102 (141) T TIGR02838 64 SALLTGLGVYDKIAQFAGAGSIVPVTGFANAMV--SAALEH 102 (141) T ss_pred HHHHHCCCHHHHHHHHCCCCCCCCCCCCHHHHH--HHHHHH T ss_conf 999715654766775618753146444237899--977742 No 144 >PRK02645 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional Probab=45.60 E-value=20 Score=15.44 Aligned_cols=17 Identities=12% Similarity=0.141 Sum_probs=8.2 Q ss_pred HHHHHHHHHHCCCEEEE Q ss_conf 99999999985984801 Q gi|254780928|r 30 LDSIRNIYENYGFDPIE 46 (496) Q Consensus 30 ~~~l~~~f~~~G~~~I~ 46 (496) ...+.+.++.+|.+-+. T Consensus 21 a~~l~~~L~~rGi~v~~ 37 (304) T PRK02645 21 AERCAKQLEARGIKVLM 37 (304) T ss_pred HHHHHHHHHHCCCEEEE T ss_conf 99999999988899998 No 145 >COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis] Probab=45.23 E-value=20 Score=15.40 Aligned_cols=29 Identities=24% Similarity=0.480 Sum_probs=21.2 Q ss_pred HHHHHHHHHHHHHHCCCEEEEC-CCHHHHH Q ss_conf 9999999999999859848016-5202288 Q gi|254780928|r 26 RNRILDSIRNIYENYGFDPIET-PLLEYSD 54 (496) Q Consensus 26 ~~~i~~~l~~~f~~~G~~~I~t-P~lE~~~ 54 (496) -..|.+.+.+.|+++|-..+.+ |++-..| T Consensus 8 ~~EiR~~FL~FF~~kgH~~v~s~slVP~nD 37 (879) T COG0013 8 TNEIRQKFLDFFEKKGHTVVPSSPLVPRND 37 (879) T ss_pred HHHHHHHHHHHHHHCCCEECCCCCCCCCCC T ss_conf 999999999999877973457888678999 No 146 >pfam01812 5-FTHF_cyc-lig 5-formyltetrahydrofolate cyclo-ligase family. 5-formyltetrahydrofolate cyclo-ligase or methenyl-THF synthetase EC:6.3.3.2 catalyses the interchange of 5-formyltetrahydrofolate (5-FTHF) to 5-10-methenyltetrahydrofolate, this requires ATP and Mg2+. 5-FTHF is used in chemotherapy where it is clinically known as Leucovorin. Probab=43.10 E-value=8.1 Score=17.97 Aligned_cols=26 Identities=31% Similarity=0.663 Sum_probs=18.3 Q ss_pred CCCCCCCCCCCCCCCCCCCCEEEECC Q ss_conf 32323552111234567742133110 Q gi|254780928|r 330 GGGRYDGLVSRFKGQNVPATGFSIGI 355 (496) Q Consensus 330 ~GGRYD~L~~~f~~~~~pavGfaigv 355 (496) |||=||..++.+.+.....||.++.. T Consensus 136 GgGyYDR~L~~~~~~~~~~Igva~~~ 161 (182) T pfam01812 136 GGGYYDRYLARLQGHGPLTVGLAYDE 161 (182) T ss_pred CCCCHHHHHHHCCCCCCEEEEEEEHH T ss_conf 87407789885545698399998202 No 147 >cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases. Probab=42.87 E-value=22 Score=15.17 Aligned_cols=40 Identities=18% Similarity=0.382 Sum_probs=17.6 Q ss_pred HHHHHHHHHHHHHHCCCE--EEEEECCCCCHHHHHHHHHHCCCCE Q ss_conf 999999999999987983--9997189999889999998779989 Q gi|254780928|r 389 SLSKYQMYTQMLRTAGIR--AEMFLGSSKNFGNQLKYADRRNCPL 431 (496) Q Consensus 389 ~~~~~~~ia~~Lr~~Gi~--~e~~~~~~~sl~~~~~~A~~~g~~~ 431 (496) .+....++.+.||++|.+ +-+..+ +..+.. .+|...|+.. T Consensus 146 ~~~~~~~~i~~lr~~~~~~~v~i~vG-G~a~~~--~~a~~~GAD~ 187 (201) T cd02070 146 TMGGMKEVIEALKEAGLRDKVKVMVG-GAPVNQ--EFADEIGADG 187 (201) T ss_pred CHHHHHHHHHHHHHCCCCCCCEEEEE-CCCCCH--HHHHHHCCCE T ss_conf 89999999999997289889859998-801799--9999929887 No 148 >PRK04164 hypothetical protein; Provisional Probab=42.80 E-value=22 Score=15.16 Aligned_cols=65 Identities=18% Similarity=0.187 Sum_probs=36.2 Q ss_pred CCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECC--------------CCCHHHHHHHHHHCCCCE-EEEECHH Q ss_conf 5771489982697689999999999999879839997189--------------999889999998779989-9998872 Q gi|254780928|r 374 EMGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGS--------------SKNFGNQLKYADRRNCPL-AIIQGTG 438 (496) Q Consensus 374 ~~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~--------------~~sl~~~~~~A~~~g~~~-viiig~~ 438 (496) ....+.|-++..+.+ .++++.||++|+.|...... .|+.++.++..++..-.- ..+--++ T Consensus 89 AlG~v~v~Vit~~~~-----~~L~~~LRe~GfgVT~~~geG~~G~v~il~iv~~Rk~~~~l~~~i~~~dP~AFi~~~d~r 163 (183) T PRK04164 89 AIGYITVRVITPEYE-----LELANELREAGYGVTSFDGEGRDGPRMVLFILTKRKREKELLKIIKELDPKAFIISYEPR 163 (183) T ss_pred ECCEEEEEEECCCCC-----HHHHHHHHHCCCCEEEEEEECCCCCEEEEEEEECCCCHHHHHHHHHHHCCCEEEEEECCE T ss_conf 054499999858997-----799999998799769999762888589999994356589999999974998799997466 Q ss_pred HHHCC Q ss_conf 87488 Q gi|254780928|r 439 ERSRG 443 (496) Q Consensus 439 e~~~~ 443 (496) ..+.| T Consensus 164 ~~~gG 168 (183) T PRK04164 164 SIHGG 168 (183) T ss_pred EEECC T ss_conf 88877 No 149 >PRK12809 putative oxidoreductase Fe-S binding subunit; Reviewed Probab=41.73 E-value=23 Score=15.06 Aligned_cols=63 Identities=6% Similarity=-0.001 Sum_probs=34.7 Q ss_pred EEEECCCHHHHHHHHHHHH-HHHHCCCEEEEEECCC----CCHHHHHHHHHHCCCCEEEEECHHHH---HCCCEE Q ss_conf 9982697689999999999-9998798399971899----99889999998779989999887287---488189 Q gi|254780928|r 380 ITTMDHDSDSLSKYQMYTQ-MLRTAGIRAEMFLGSS----KNFGNQLKYADRRNCPLAIIQGTGER---SRGMLQ 446 (496) Q Consensus 380 V~~~~~~~~~~~~~~~ia~-~Lr~~Gi~~e~~~~~~----~sl~~~~~~A~~~g~~~viiig~~e~---~~~~v~ 446 (496) |.++|.+.. |+..++ .+|.-.-.|.+.|..+ +.-.+-+.+|...|+.|..-..+.++ ++|+|+ T Consensus 454 VVVIGGGnt----AmDcaRTA~RlGA~~VtivYRR~~~eMPA~~~Ev~~A~EEGV~f~~~~~P~~i~~de~G~V~ 524 (639) T PRK12809 454 VVVLGGGDT----TMDCLRTSIRLNAASVTCAYRRDEVSMPGSRKEVVNAREEGVEFQFNVQPQYIACDEDGRLT 524 (639) T ss_pred EEEECCCCH----HHHHHHHHHHCCCCEEEECCCCCCCCCCCCCEECCCHHHCCEEEECCCCCEEEEECCCCEEE T ss_conf 999899821----89999999983998775215477457999700301012187389827885799967986399 No 150 >PRK13337 putative lipid kinase; Reviewed Probab=40.62 E-value=24 Score=14.95 Aligned_cols=72 Identities=13% Similarity=0.057 Sum_probs=37.8 Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHH--HHHHHHCCCCCCCCCCCCEEEEECCCC Q ss_conf 987658710379987658866899999999999999998598480165202--288752026755433322168986999 Q gi|254780928|r 1 MGKKTKLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLE--YSDSLGKFLPDEDRPNKGVFSLQDDDG 78 (496) Q Consensus 1 m~k~~~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE--~~~~~~~~~~~~~~~~k~~y~f~D~~g 78 (496) |-|+..+...+-.|-. ..++....+.+.++.+|++....++=. +...+.+... .+.-. T Consensus 1 mmkr~~~I~NP~sG~g--------~~~~~~~~i~~~l~~~g~~~~~~~T~~~g~a~~~a~~~~------------~~~~d 60 (305) T PRK13337 1 MMKRARIIYNPTSGRE--------LFKKNLPDVLQKLEQAGYETSAHATTGPGDATLAARQAA------------ERNFD 60 (305) T ss_pred CCCEEEEEECCCCCCC--------CHHHHHHHHHHHHHHCCCEEEEEEECCHHHHHHHHHHHH------------HCCCC T ss_conf 9845999999756886--------467789999999998799699998278028999999987------------77999 Q ss_pred CEEEECCCCHHHHH Q ss_conf 88999888838999 Q gi|254780928|r 79 QWISLRYDLTAPLA 92 (496) Q Consensus 79 ~~l~LRpDlT~~~a 92 (496) ..++.-=|.|+.-+ T Consensus 61 ~vv~~GGDGTv~ev 74 (305) T PRK13337 61 LVIAAGGDGTLNEV 74 (305) T ss_pred EEEEEECCHHHHHH T ss_conf 89999576289999 No 151 >PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional Probab=39.34 E-value=25 Score=14.82 Aligned_cols=71 Identities=10% Similarity=0.178 Sum_probs=42.1 Q ss_pred EEEECCCHHHHHHHHHHHHHHHHCCC-EEEEEECCCC----CHHHHHHHHHHCCCCEEEEECHHHH---HCCC---EEEE Q ss_conf 99826976899999999999998798-3999718999----9889999998779989999887287---4881---8997 Q gi|254780928|r 380 ITTMDHDSDSLSKYQMYTQMLRTAGI-RAEMFLGSSK----NFGNQLKYADRRNCPLAIIQGTGER---SRGM---LQIK 448 (496) Q Consensus 380 V~~~~~~~~~~~~~~~ia~~Lr~~Gi-~~e~~~~~~~----sl~~~~~~A~~~g~~~viiig~~e~---~~~~---v~vK 448 (496) |.+++.+. .|+..|+.-.+.|- .|.+.|..++ .-..-+..|...|+.|.....+-+. ++|. |++- T Consensus 576 VvVIGGGN----TAMDaARTA~RLGAe~VtivYRRte~EMPA~~eEV~~A~EEGV~F~fL~~Pveiigde~G~V~gv~~~ 651 (993) T PRK12775 576 VVVIGAGN----TAMDCLRVARRLGAATVRCVYRRSEAEAPARIEEIRHAKEEGVDFFFLHSPVEILVTEEGSVRAVRLQ 651 (993) T ss_pred EEEECCCH----HHHHHHHHHHHCCCCEEEEEEECCHHHCCCCHHHHHHHHHCCCEEEECCCCCEEEECCCCEEEEEEEE T ss_conf 99989943----69998899997699867999968856389889999879865939996269716786588639899999 Q ss_pred ECCCCC Q ss_conf 878883 Q gi|254780928|r 449 DLAKGK 454 (496) Q Consensus 449 ~l~~g~ 454 (496) .|+-|+ T Consensus 652 kMeLGE 657 (993) T PRK12775 652 KMELGE 657 (993) T ss_pred EEECCC T ss_conf 816679 No 152 >PRK04452 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional Probab=38.94 E-value=22 Score=15.14 Aligned_cols=33 Identities=33% Similarity=0.399 Sum_probs=24.3 Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCHHH---CCCCCC Q ss_conf 999999999987508884430011010---012212 Q gi|254780928|r 269 FNELVVISELVRKSGYNSNRIKISSTI---VRGLEY 301 (496) Q Consensus 269 l~~l~~i~~~l~~~gv~~~~i~~Dl~l---vRgLdY 301 (496) ++-++++.-.+.++|++.+.|.+||+. ..|++| T Consensus 186 iNlaKqLNi~l~e~Gv~~e~IVmDP~t~alGYGlEy 221 (322) T PRK04452 186 INLAKQLNILLMKLGLPRERIVMDPTTGALGYGLEY 221 (322) T ss_pred HHHHHHHHHHHHHCCCCHHHEEECCCCCCCCCCHHH T ss_conf 788999999999849986767787775445764677 No 153 >pfam03664 Glyco_hydro_62 Glycosyl hydrolase family 62. Family of alpha -L-arabinofuranosidase (EC 3.2.1.55). This enzyme hydrolysed aryl alpha-L-arabinofuranosides and cleaves arabinosyl side chains from arabinoxylan and arabinan. Probab=38.93 E-value=18 Score=15.79 Aligned_cols=33 Identities=24% Similarity=0.471 Sum_probs=20.9 Q ss_pred CEEEEEEECCCCCCCCCCCCCEEEECCCCCCCC Q ss_conf 124899854666776766631011003232355 Q gi|254780928|r 304 GCVYEAILGFPVMNEKQKPVVFGSVGGGGRYDG 336 (496) Q Consensus 304 G~vFE~~~~~~~~~~~~~~~~~~aI~~GGRYD~ 336 (496) .-.||+.--....+..+-...+.+|++||||=. T Consensus 183 ~nLFEA~~VYkv~G~nqYLmiVEAiGs~gRyFR 215 (271) T pfam03664 183 NNLFEAVQVYTVDGQNKYLMIVEAYGSGGRYFR 215 (271) T ss_pred CCEEEEEEEEEECCCCEEEEEEEEECCCCCEEE T ss_conf 556454467997589748999999437985787 No 154 >PRK00439 leuD 3-isopropylmalate dehydratase small subunit; Reviewed Probab=38.68 E-value=25 Score=14.75 Aligned_cols=46 Identities=20% Similarity=0.205 Sum_probs=27.7 Q ss_pred HHHHHHHHHCCCEEEEEECCCCCHHHHHH-HHHHCCCCEEEEECHHHHHCC Q ss_conf 99999999879839997189999889999-998779989999887287488 Q gi|254780928|r 394 QMYTQMLRTAGIRAEMFLGSSKNFGNQLK-YADRRNCPLAIIQGTGERSRG 443 (496) Q Consensus 394 ~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~-~A~~~g~~~viiig~~e~~~~ 443 (496) ...+..|+..||++.+. +|+...+. .|-..|.|.+..-.-++++.| T Consensus 65 E~A~~al~~~Gi~~VIA----~SFa~If~rN~in~Gl~~i~~~~~~~i~~g 111 (163) T PRK00439 65 EHAPLALKAAGVSAVIA----KSFARIFFRNAINIGLPVLECPEADKIEDG 111 (163) T ss_pred HHHHHHHHHCCCCEEEE----HHHHHHHHHHHHHCCCCEEECCCHHHCCCC T ss_conf 99999999859879985----237899983288779956805656544689 No 155 >COG4038 Predicted membrane protein [Function unknown] Probab=38.29 E-value=10 Score=17.33 Aligned_cols=29 Identities=28% Similarity=0.520 Sum_probs=23.1 Q ss_pred CEEEECCCCCCCCCCCCCCCCCCCCCEEEE Q ss_conf 101100323235521112345677421331 Q gi|254780928|r 324 VFGSVGGGGRYDGLVSRFKGQNVPATGFSI 353 (496) Q Consensus 324 ~~~aI~~GGRYD~L~~~f~~~~~pavGfai 353 (496) .+++.+|-||-|-.+.++ +-++|+||.|+ T Consensus 19 s~~~~~gp~~~dpiv~~L-N~EiPtvGVSL 47 (87) T COG4038 19 TLGAAIGPARSDPVVKSL-NLELPTVGVSL 47 (87) T ss_pred HHHHHCCCCCCCCHHHHH-CCCCCCCEEEE T ss_conf 777601886567488886-26777430231 No 156 >PRK02261 methylaspartate mutase subunit S; Provisional Probab=35.54 E-value=28 Score=14.44 Aligned_cols=11 Identities=9% Similarity=0.323 Sum_probs=4.9 Q ss_pred HHHHHHCCCEE Q ss_conf 99999879839 Q gi|254780928|r 397 TQMLRTAGIRA 407 (496) Q Consensus 397 a~~Lr~~Gi~~ 407 (496) ...|++.|+.+ T Consensus 105 ~~~L~~~Gv~~ 115 (137) T PRK02261 105 EKKFKEMGFDR 115 (137) T ss_pred HHHHHHCCCCE T ss_conf 99999779798 No 157 >TIGR02861 SASP_H small acid-soluble spore protein, H-type; InterPro: IPR012610 This family consists of the small acid-soluble spore proteins (SASP) of the H type (sspH). SspH are unique to spores of Bacillus subtilis and are expressed only in the forespore compartment during sporulation of this organism. The sspH genes are monocistronic and are recognised by the forespore-specific sigma factor for RNA polymerase - sigma-G. The specific role of this protein is unclear but is thought to play a role in sporulation under conditions different from that of the common laboratory tests of spore properties .; GO: 0030436 sporulation (sensu Bacteria), 0042601 endospore-forming forespore. Probab=35.43 E-value=29 Score=14.42 Aligned_cols=53 Identities=17% Similarity=0.219 Sum_probs=37.2 Q ss_pred HHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEECC-CCCEEEEECCCHHH Q ss_conf 9999987983999718999988999999877998999988728748818997878-88364331120144 Q gi|254780928|r 397 TQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDLA-KGKELSREIKNNES 465 (496) Q Consensus 397 a~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l~-~g~q~~~~~~~~~~ 465 (496) |++|-++...++++|... | |+|=--|.-++|+.+|+.|. +|++..+++.+++| T Consensus 6 Akei~~S~~~~~V~Y~g~---------------P-V~I~~VDte~~~~A~i~~l~np~~~~~Vpv~~L~E 59 (59) T TIGR02861 6 AKEIAESKEMINVTYKGV---------------P-VYIEHVDTEQSGTARIYSLDNPGKEQDVPVNSLEE 59 (59) T ss_pred HHHHHCCCCCCCEEECCC---------------E-EEEEEECCCCCCCEEEEECCCCCCEEEEECCCCCC T ss_conf 888761787011566696---------------4-79875358989716887528999789740222369 No 158 >TIGR00216 ispH_lytB 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants . LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood . Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response .; GO: 0019288 isopentenyl diphosphate biosynthetic process mevalonate-independent pathway. Probab=34.87 E-value=29 Score=14.37 Aligned_cols=13 Identities=23% Similarity=0.455 Sum_probs=7.6 Q ss_pred HHHHHHHHHH--HCC Q ss_conf 9999999997--518 Q gi|254780928|r 147 MCMMMADTLE--AVG 159 (496) Q Consensus 147 ii~l~~~~l~--~lg 159 (496) .|.++.++++ ..| T Consensus 17 Ai~~ae~~~~d~~~g 31 (354) T TIGR00216 17 AIQMAEEALKDKELG 31 (354) T ss_pred HHHHHHHHHHCCCCC T ss_conf 999999998601278 No 159 >TIGR00326 eubact_ribD riboflavin biosynthesis protein RibD; InterPro: IPR004794 This entry describes the riboflavin biosynthesis protein (ribD) as found in Escherichia coli. The N-terminal domain includes the conserved zinc-binding site region that is shared by proteins such as cytosine deaminase, mammalian apolipoprotein B mRNA editing protein, blasticidin-S deaminase, and Bacillus subtilis competence protein comEB. The C-terminal domain is homologous to the full length of yeast HTP reductase, a protein required for riboflavin biosynthesis. A number of archaeal proteins that may be related to the riboflavin biosynthesis protein contain only the C-terminal domain.; GO: 0008703 5-amino-6-(5-phosphoribosylamino)uracil reductase activity, 0008835 diaminohydroxyphosphoribosylaminopyrimidine deaminase activity, 0009231 riboflavin biosynthetic process. Probab=33.94 E-value=22 Score=15.18 Aligned_cols=31 Identities=13% Similarity=0.178 Sum_probs=21.5 Q ss_pred HHHHHHHHHHCCCEEEEEECCCCCHHHHHHHH Q ss_conf 99999999987983999718999988999999 Q gi|254780928|r 393 YQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYA 424 (496) Q Consensus 393 ~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A 424 (496) ..++..+||+.+|+. +++..+..|-..|..+ T Consensus 305 ~~~~~~~L~~r~~~~-v~vEgG~~l~~~f~~~ 335 (393) T TIGR00326 305 IEEVMEQLGKRGINS-VLVEGGPNLLGSFIDE 335 (393) T ss_pred HHHHHHHHHHCCCCE-EEEECHHHHHHHHHHC T ss_conf 899999987447548-9872158999999745 No 160 >PRK03372 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional Probab=33.86 E-value=30 Score=14.26 Aligned_cols=27 Identities=4% Similarity=0.067 Sum_probs=12.1 Q ss_pred HHHHHHHHHHHCCCCCCCCEEECCCCHHHH Q ss_conf 999999999751888777113036605589 Q gi|254780928|r 147 MCMMMADTLEAVGIKRNDYHIGINNRKILD 176 (496) Q Consensus 147 ii~l~~~~l~~lgl~~~~~~I~in~~~il~ 176 (496) ++..+ +.+...+++ =+-|++||.++|- T Consensus 82 ~L~aa-r~~~~~~iP--ilGiN~G~lGFLt 108 (303) T PRK03372 82 FLRAA-ELARNADVP--VLGVNLGHVGFLA 108 (303) T ss_pred HHHHH-HHHCCCCCC--EEEEECCCCEEEC T ss_conf 99999-984447998--8987259821312 No 161 >cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation. Probab=33.05 E-value=31 Score=14.18 Aligned_cols=25 Identities=12% Similarity=0.228 Sum_probs=11.7 Q ss_pred HHHHHHCCCEEEEEECCCCCHHHHHHH Q ss_conf 999998798399971899998899999 Q gi|254780928|r 397 TQMLRTAGIRAEMFLGSSKNFGNQLKY 423 (496) Q Consensus 397 a~~Lr~~Gi~~e~~~~~~~sl~~~~~~ 423 (496) ...|++.|+..-+-++ .++.....+ T Consensus 95 ~~~l~~~Gv~~vf~pg--t~~~~iv~~ 119 (122) T cd02071 95 YELLKEMGVAEIFGPG--TSIEEIIDK 119 (122) T ss_pred HHHHHHCCCCEEECCC--CCHHHHHHH T ss_conf 9999977998898958--899999999 No 162 >pfam06506 PrpR_N Propionate catabolism activator. This domain is found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. Probab=33.02 E-value=31 Score=14.18 Aligned_cols=42 Identities=14% Similarity=0.219 Sum_probs=27.7 Q ss_pred HHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCCCEEEEECHH Q ss_conf 999999999998798399971899998899999987799899998872 Q gi|254780928|r 391 SKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNCPLAIIQGTG 438 (496) Q Consensus 391 ~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~~viiig~~ 438 (496) .++.....+|.+.|+.+-+ +.. + ..++|.+.|++.+++-..+ T Consensus 110 ~e~~~~i~~l~~~G~~vvV--G~~--~--~~~~A~~~Gl~~vli~sg~ 151 (169) T pfam06506 110 EEARAAVKELKAQGIKVIV--GDG--L--VCDLAEQAGLQGVLIYSGK 151 (169) T ss_pred HHHHHHHHHHHHCCCEEEE--CCC--H--HHHHHHHCCCCEEEEECCH T ss_conf 9999999999986995998--582--8--9999998399579996678 No 163 >pfam05211 NLBH Neuraminyllactose-binding hemagglutinin precursor (NLBH). This family is comprised of several flagellar sheath adhesin proteins also called neuraminyllactose-binding hemagglutinin precursor (NLBH) or N-acetylneuraminyllactose-binding fibrillar hemagglutinin receptor-binding subunits. NLBH is found exclusively in Helicobacter which are gut colonising bacteria and bind to sialic acid rich macromolecules present on the gastric epithelium. Probab=33.01 E-value=31 Score=14.17 Aligned_cols=64 Identities=20% Similarity=0.314 Sum_probs=42.5 Q ss_pred CCCCCHHHHH--HHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCH Q ss_conf 7658866899--9999999999999985984801652022887520267554333221689869998899988883 Q gi|254780928|r 15 FADCPTKEIR--IRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLT 88 (496) Q Consensus 15 ~~D~~p~~~~--~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT 88 (496) +.|-+|.++. ....+...+..+|++.||+-+... ..+-|. . ...+..|...|-+|. +++++|+- T Consensus 45 ~sdni~k~Y~~kF~n~l~~qi~~ilek~GY~v~~fk---D~~~l~----~--~~Kkk~~lvL~m~G~-v~ileD~k 110 (228) T pfam05211 45 YSDNIAKEYENKFKNQLTLQVEEILENQGYKVINFS---DKDDFS----F--AQKKKGYLVLAMNGE-VVILEDPK 110 (228) T ss_pred HCCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEEEC---CHHHCC----H--HHHHHHEEEEECCCC-EEEECCHH T ss_conf 112336789999999999999999985693577624---522236----6--765310689962574-88712636 No 164 >cd03085 PGM1 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction, G-1-P produced from sucrose catabolism is converted to G-6-P, the first intermediate in glycolysis. In the other direction, conversion of G-6-P to G-1-P generates a substrate for synthesis of UDP-glucose which is required for synthesis of a variety of cellular constituents including cell wall polymers and glycoproteins. The PGM1 family also includes a non-enzymatic PGM-related protein (PGM-RP) thought to play a structural role in eukaryotes, as well as pp63/parafusin, a phosphoglycoprotein that plays an important role in calcium-regulated exocytosis in ciliated protozoans. PGM1 belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl t Probab=32.64 E-value=21 Score=15.30 Aligned_cols=12 Identities=25% Similarity=0.210 Sum_probs=6.4 Q ss_pred HHHHHHHHCCCE Q ss_conf 999999985984 Q gi|254780928|r 32 SIRNIYENYGFD 43 (496) Q Consensus 32 ~l~~~f~~~G~~ 43 (496) ...++|-.+|+. T Consensus 68 ~~A~VlaanGi~ 79 (548) T cd03085 68 IIIKIAAANGVG 79 (548) T ss_pred HHHHHHHHCCCE T ss_conf 999999878997 No 165 >cd01645 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from retroviruses (Rtvs). RTs catalyze the conversion of single-stranded RNA into double-stranded viral DNA for integration into host chromosomes. Proteins in this subfamily contain long terminal repeats (LTRs) and are multifunctional enzymes with RNA-directed DNA polymerase, DNA directed DNA polymerase, and ribonuclease hybrid (RNase H) activities. The viral RNA genome enters the cytoplasm as part of a nucleoprotein complex, and the process of reverse transcription generates in the cytoplasm forming a linear DNA duplex via an intricate series of steps. This duplex DNA is colinear with its RNA template, but contains terminal duplications known as LTRs that are not present in viral RNA. It has been proposed that two specialized template switches, known as strand-transfer reactions or "jumps", are required to generate the LTRs. Probab=32.43 E-value=32 Score=14.11 Aligned_cols=77 Identities=14% Similarity=0.081 Sum_probs=40.2 Q ss_pred ECCCCCCCCCCCCCCCCCCCCCEEEECCHHHHHHHHHCCCCCCCCCCCCEEEEEEECCC-HHHHHHHHHHHHHHHHCCCE Q ss_conf 00323235521112345677421331101689999973687766555771489982697-68999999999999987983 Q gi|254780928|r 328 VGGGGRYDGLVSRFKGQNVPATGFSIGISRLIVALKSLESSTNNIKEMGPVLITTMDHD-SDSLSKYQMYTQMLRTAGIR 406 (496) Q Consensus 328 I~~GGRYD~L~~~f~~~~~pavGfaigverl~~~l~~~~~~~~~~~~~~~v~V~~~~~~-~~~~~~~~~ia~~Lr~~Gi~ 406 (496) ...||+|--.+--||-++-||+ |.=-+++++.-+........-..-..++ ++.+.+ ++......++.+.|+++|+. T Consensus 118 ~t~~g~y~~~vlPfGl~naPa~-Fqr~m~~~L~~~~~~~~~~~~~~Y~DDI--lI~s~t~eeh~~~l~~vl~~L~~~gl~ 194 (213) T cd01645 118 KGPAKRYQWKVLPQGMKNSPTI-CQSFVAQALEPFRKQYPDIVIYHYMDDI--LIASDLEGQLREIYEELRQTLLRWGLT 194 (213) T ss_pred CCCCEEEEEEEECCCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEEEEEE--EEECCCHHHHHHHHHHHHHHHHHCCCC T ss_conf 7887058998517634586899-9999999999988638864899984248--995199999999999999999997785 Q ss_pred E Q ss_conf 9 Q gi|254780928|r 407 A 407 (496) Q Consensus 407 ~ 407 (496) + T Consensus 195 l 195 (213) T cd01645 195 I 195 (213) T ss_pred C T ss_conf 3 No 166 >PRK12769 putative oxidoreductase Fe-S binding subunit; Reviewed Probab=31.90 E-value=33 Score=14.06 Aligned_cols=62 Identities=6% Similarity=0.030 Sum_probs=37.5 Q ss_pred EEEECCCHHHHHHHHHHHHHHHHCCC-EEEEEECCCC----CHHHHHHHHHHCCCCEEEEECHHHH---HCCCE Q ss_conf 99826976899999999999998798-3999718999----9889999998779989999887287---48818 Q gi|254780928|r 380 ITTMDHDSDSLSKYQMYTQMLRTAGI-RAEMFLGSSK----NFGNQLKYADRRNCPLAIIQGTGER---SRGML 445 (496) Q Consensus 380 V~~~~~~~~~~~~~~~ia~~Lr~~Gi-~~e~~~~~~~----sl~~~~~~A~~~g~~~viiig~~e~---~~~~v 445 (496) |.+++.+. .|+..++.....|- .|.+.|..++ .-..-++.|...|+.|..-..+.++ ++|+| T Consensus 471 VvVIGGGn----tAmDcaRtA~RlGA~~Vt~vYRR~~~eMPA~~~Ev~~A~EEGV~f~~~~~P~ei~~de~G~V 540 (654) T PRK12769 471 VVVLGGGD----TAMDCVRTALRHGASNVTCAYRRDEANMPGSKKEVKNAREEGANFEFNVQPVALVLDEQGHV 540 (654) T ss_pred EEEECCCH----HHHHHHHHHHHCCCCEEEECCCCCCCCCCCCHHHHHHHHHCCCEEEECCCCEEEEECCCCEE T ss_conf 89988872----46999999997599836604546723499875665578856878994468579997799729 No 167 >TIGR00888 guaA_Nterm GMP synthase, N-terminal domain; InterPro: IPR004739 The N-terminal region of GMP synthase 6.3.5.2 from EC is recognised by this signature. GMP synthase catalyzes the synthesis of GMP from XMP , .ATP + xanthosine 5'-phosphate + L-glutamine + H(2)O = AMP + diphosphate + GMP + L-glutamate ; GO: 0003922 GMP synthase (glutamine-hydrolyzing) activity, 0005524 ATP binding, 0006177 GMP biosynthetic process. Probab=31.60 E-value=16 Score=15.99 Aligned_cols=14 Identities=29% Similarity=0.645 Sum_probs=8.3 Q ss_pred CCCCCEEEECCHHH Q ss_conf 67742133110168 Q gi|254780928|r 345 NVPATGFSIGISRL 358 (496) Q Consensus 345 ~~pavGfaigverl 358 (496) ++|-.|+..|+=-+ T Consensus 70 gVPvLGICYG~Ql~ 83 (195) T TIGR00888 70 GVPVLGICYGMQLM 83 (195) T ss_pred CCCEEEEEHHHHHH T ss_conf 99688762457899 No 168 >COG0752 GlyQ Glycyl-tRNA synthetase, alpha subunit [Translation, ribosomal structure and biogenesis] Probab=31.46 E-value=33 Score=14.01 Aligned_cols=54 Identities=22% Similarity=0.279 Sum_probs=35.4 Q ss_pred CCCCHHHHHHHHHHCCCCCCCCCCCC-------CCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 55411233101333025876444211-------111000121000024578899999999975188877 Q gi|254780928|r 102 IVFPCRTYRIGPVFRNEKHGPGRFRQ-------FIQCDVDNVGSSAETADAEMCMMMADTLEAVGIKRN 163 (496) Q Consensus 102 ~~~p~k~yy~g~vfR~e~p~~Gr~RE-------f~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~~~ 163 (496) .+.|.+..|+++.= ||+.|||-| +||+-+=+= +.+| -+-.+..+.|+.||+... T Consensus 48 GpePw~aAYVqPSR---RP~DGRYGenPNRlq~yyQfQVilK----PsP~-NiQeLYL~SL~~lGid~~ 108 (298) T COG0752 48 GPEPWNAAYVQPSR---RPTDGRYGENPNRLQHYYQFQVIIK----PSPD-NIQELYLGSLEALGIDPL 108 (298) T ss_pred CCCCCCEEEECCCC---CCCCCCCCCCCHHHHHHEEEEEEEC----CCCC-CHHHHHHHHHHHCCCCHH T ss_conf 99764100105677---9988877889266523315789955----8971-189999988998099901 No 169 >TIGR02016 BchX chlorophyllide reductase iron protein subunit X; InterPro: IPR010246 This entry represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase , . This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or 'iron' protein.; GO: 0005524 ATP binding, 0016628 oxidoreductase activity acting on the CH-CH group of donors NAD or NADP as acceptor, 0051539 4 iron 4 sulfur cluster binding, 0015979 photosynthesis, 0030494 bacteriochlorophyll biosynthetic process. Probab=31.32 E-value=33 Score=13.99 Aligned_cols=91 Identities=15% Similarity=0.218 Sum_probs=56.9 Q ss_pred EEEEECCCHHHHHHHHHHHH---HHHHCCCEEE-----EEECCCCCHHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEEC Q ss_conf 89982697689999999999---9998798399-----971899998899999987799899998872874881899787 Q gi|254780928|r 379 LITTMDHDSDSLSKYQMYTQ---MLRTAGIRAE-----MFLGSSKNFGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDL 450 (496) Q Consensus 379 ~V~~~~~~~~~~~~~~~ia~---~Lr~~Gi~~e-----~~~~~~~sl~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l 450 (496) +|++.+.|.+++-.+.+|++ --|+-|=++- ++-+++. +.+-+||.+.|+|.+.-|=-++ ++||| T Consensus 153 Vi~~~sNDrQSly~aNNic~A~~YFr~~GGr~~llGlvvNrDDGs--G~A~~fA~~~gipvLa~iP~d~------~~Rdm 224 (355) T TIGR02016 153 VIVVTSNDRQSLYVANNICSAAEYFRKLGGRSKLLGLVVNRDDGS--GVAEAFAKEVGIPVLAKIPLDR------KVRDM 224 (355) T ss_pred EEEEECCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCC--CHHHHHHHHCCCCEEEECCCCC------HHCCH T ss_conf 377613743688888669889999986188604678898646887--1898989870993475267650------01000 Q ss_pred CCCCEEEEECCCHHHHHHCCCCCEEECHHHHHHHHHHH Q ss_conf 88836433112014432023351030799999999999 Q gi|254780928|r 451 AKGKELSREIKNNESWREARVAQITIPISELVSTVKKI 488 (496) Q Consensus 451 ~~g~q~~~~~~~~~~~~~~~~~q~~v~~~~l~~~~~~~ 488 (496) ...=.-++.+-+.. -|..+|+..+..- T Consensus 225 ddsfdfaiklPevG-----------eP~K~lA~~i~~~ 251 (355) T TIGR02016 225 DDSFDFAIKLPEVG-----------EPFKELADDILLA 251 (355) T ss_pred HCCCHHEEECCCCC-----------CHHHHHHHHHHHH T ss_conf 00001202067667-----------6478999999974 No 170 >PRK04165 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional Probab=31.20 E-value=33 Score=13.98 Aligned_cols=96 Identities=18% Similarity=0.214 Sum_probs=41.2 Q ss_pred CCCEEEECCCCH----HHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHH Q ss_conf 998899988883----8999999951120554112331013330258764442111110001210000245788999999 Q gi|254780928|r 77 DGQWISLRYDLT----APLARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMA 152 (496) Q Consensus 77 ~g~~l~LRpDlT----~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~ 152 (496) ||+.+--|.|.| .++|=.+...+.+...-.|.-.+ +-|+++|.+ |+ .-+|.+-..+...|.|-...+. T Consensus 76 GgE~Vl~RHektF~npt~~av~v~D~m~e~ei~~r~~~i-~~~~~~rvG-----~~--l~~d~vAvr~~s~d~~~fa~~v 147 (454) T PRK04165 76 GGETVLYRHEKTFFNPTGIAVDVSDTMSEEEIDERLKEI-NNFQFERVG-----EI--LKLDAVALRNVSGDPEKFAKAV 147 (454) T ss_pred CCCEEEEECCEEEECCCCEEEEECCCCCHHHHHHHHHHH-HHCEEEEEC-----CE--EEEEEEEEECCCCCHHHHHHHH T ss_conf 781689960101007982699933777789999999986-512567723-----41--1520899991789989999999 Q ss_pred HHHH-HCCCCCCCCEEECCCCHHHHHHHHHHC Q ss_conf 9997-518887771130366055899999832 Q gi|254780928|r 153 DTLE-AVGIKRNDYHIGINNRKILDGILEKIG 183 (496) Q Consensus 153 ~~l~-~lgl~~~~~~I~in~~~il~~il~~lg 183 (496) +... ..+++ +.+---+...+++-++.++ T Consensus 148 k~va~~~~~p---liL~s~dp~vl~aaL~~~~ 176 (454) T PRK04165 148 KKVAETTELP---LILCSFDPAVLKAALEVVA 176 (454) T ss_pred HHHHHHCCCC---EEEEECCHHHHHHHHHHHC T ss_conf 9997216997---7998389999999999745 No 171 >pfam02780 Transketolase_C Transketolase, C-terminal domain. The C-terminal domain of transketolase has been proposed as a regulatory molecule binding site. Probab=30.28 E-value=35 Score=13.88 Aligned_cols=56 Identities=18% Similarity=0.184 Sum_probs=31.4 Q ss_pred CCEEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEE-ECCCCCHHH--HHHHHHHCCCCEEEEE Q ss_conf 771489982697689999999999999879839997-189999889--9999987799899998 Q gi|254780928|r 375 MGPVLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMF-LGSSKNFGN--QLKYADRRNCPLAIIQ 435 (496) Q Consensus 375 ~~~v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~-~~~~~sl~~--~~~~A~~~g~~~viii 435 (496) ..++.|++.+ .....+++.++.|.+.||.+++. +..-+.+.. ..+.+. ....++++ T Consensus 9 G~di~ii~~G---~~~~~al~aa~~L~~~gi~~~vid~~~ikPlD~~~i~~~~~--~~~~vvtv 67 (124) T pfam02780 9 GDDVTIVAYG---SMVHEALEAAEELAAEGISAEVIDLRTVKPLDEDTILESVK--KTGRLVVV 67 (124) T ss_pred CCCEEEEECC---HHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCHHHHHHHHH--CCCCEEEE T ss_conf 8979999847---89999999999987759856997423643667899999873--34868998 No 172 >pfam04953 consensus Probab=29.93 E-value=35 Score=13.84 Aligned_cols=52 Identities=19% Similarity=0.279 Sum_probs=35.8 Q ss_pred HHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCHH Q ss_conf 8999999999751888777113036605589999983256035643345553332200128967 Q gi|254780928|r 146 EMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLHGDDKLNERLIVLRAIDKLDKFGLQ 209 (496) Q Consensus 146 Eii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~lgi~~~~~~~~~~~~~~~idkl~k~~~~ 209 (496) .|-.++.+.|..+|+. +..|.+.+.+-|+..+.. +....+.|+.|. +.+.|. T Consensus 44 ~Ir~~v~etL~~lgV~--~a~v~v~DkGALDc~IrA---------R~~tAv~RA~~~-~~~~w~ 95 (97) T pfam04953 44 AIRQTIRETLAAYGVT--AAQVNVVDKGALDCVIRA---------RVIAAVMRAADI-VDLPWW 95 (97) T ss_pred HHHHHHHHHHHHCCCC--EEEEEEECCCHHHHHHHH---------HHHHHHHHHCCC-CCCCCC T ss_conf 9999999999983973--479999718738999999---------999999985478-778856 No 173 >pfam01071 GARS_A Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain. Phosphoribosylglycinamide synthetase catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by Phosphoribosylglycinamide synthetase is the ATP- dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide. This domain is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase (see pfam02786). Probab=29.67 E-value=35 Score=13.82 Aligned_cols=35 Identities=14% Similarity=0.340 Sum_probs=17.6 Q ss_pred HHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHHCCC Q ss_conf 999999751888777113036605589999983256 Q gi|254780928|r 150 MMADTLEAVGIKRNDYHIGINNRKILDGILEKIGLH 185 (496) Q Consensus 150 l~~~~l~~lgl~~~~~~I~in~~~il~~il~~lgi~ 185 (496) .+-++|++.|++...|.+ +++..=+..+++.+|.| T Consensus 5 ~~r~~l~~~gip~p~~~~-~~~~~ea~~~~~~~g~P 39 (193) T pfam01071 5 FAKDFMKRHGIPTAEYET-FTDPEEAKSYIREAGFP 39 (193) T ss_pred HHHHHHHHCCCCCCCEEE-ECCHHHHHHHHHHCCCC T ss_conf 999999986989999078-78999999999976998 No 174 >PRK11914 diacylglycerol kinase; Reviewed Probab=29.65 E-value=35 Score=13.81 Aligned_cols=52 Identities=12% Similarity=0.010 Sum_probs=23.4 Q ss_pred HHHHHHHHHHHHCCCEEEECCCHHHHH--HHHCCCCCCCCCCCCEEEEECCCCCEEEECCCCHHHH Q ss_conf 999999999998598480165202288--7520267554333221689869998899988883899 Q gi|254780928|r 28 RILDSIRNIYENYGFDPIETPLLEYSD--SLGKFLPDEDRPNKGVFSLQDDDGQWISLRYDLTAPL 91 (496) Q Consensus 28 ~i~~~l~~~f~~~G~~~I~tP~lE~~~--~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRpDlT~~~ 91 (496) +..+.+.+.++.+|+.....++=+..+ .+.+. . ..+.-...++.-=|.|+.- T Consensus 24 ~~~~~i~~~l~~~g~~~~~~~t~~~~~a~~la~~----------a--~~~g~d~vv~~GGDGTv~e 77 (304) T PRK11914 24 HAAERAIARLHHRGVDVVEIVGTDAHHARHLVAA----------A--LAKGTDALVVVGGDGVISN 77 (304) T ss_pred HHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHH----------H--HHCCCCEEEEEECCHHHHH T ss_conf 8999999999987990999932787899999998----------8--8649969999956259889 No 175 >COG5410 Uncharacterized protein conserved in bacteria [Function unknown] Probab=29.43 E-value=25 Score=14.83 Aligned_cols=22 Identities=50% Similarity=0.803 Sum_probs=13.7 Q ss_pred EECCCCCCCCCCCCCCCCCCCCCEEEEC Q ss_conf 1003232355211123456774213311 Q gi|254780928|r 327 SVGGGGRYDGLVSRFKGQNVPATGFSIG 354 (496) Q Consensus 327 aI~~GGRYD~L~~~f~~~~~pavGfaig 354 (496) ..++||||.-+ +||. |+|++-. T Consensus 140 ~~~gGg~yaTs---~gG~---ATG~GaD 161 (305) T COG5410 140 VVDGGGVYATS---LGGQ---ATGFGAD 161 (305) T ss_pred EEECCEEEEEE---CCCC---CCCCCCC T ss_conf 94288788873---0565---4577874 No 176 >cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains. Probab=28.98 E-value=36 Score=13.74 Aligned_cols=25 Identities=4% Similarity=0.034 Sum_probs=12.0 Q ss_pred HHHHHHHCCCEEEEEECCCCCHHHHHH Q ss_conf 999999879839997189999889999 Q gi|254780928|r 396 YTQMLRTAGIRAEMFLGSSKNFGNQLK 422 (496) Q Consensus 396 ia~~Lr~~Gi~~e~~~~~~~sl~~~~~ 422 (496) +...|++.|+.+-+-+ +.++.+.+. T Consensus 100 ~~~~l~~~Gv~~vF~p--Gt~~~e~i~ 124 (128) T cd02072 100 VEKRFKEMGFDRVFAP--GTPPEEAIA 124 (128) T ss_pred HHHHHHHCCCCEEECC--CCCHHHHHH T ss_conf 9999996696857499--879999999 No 177 >cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Probab=28.52 E-value=37 Score=13.69 Aligned_cols=93 Identities=10% Similarity=0.033 Sum_probs=41.3 Q ss_pred EEECCCCCCCCCCCCC-CCCCCCCCEEEECC----HHH-HHHHHHCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHH Q ss_conf 1100323235521112-34567742133110----168-99999736877665557714899826976899999999999 Q gi|254780928|r 326 GSVGGGGRYDGLVSRF-KGQNVPATGFSIGI----SRL-IVALKSLESSTNNIKEMGPVLITTMDHDSDSLSKYQMYTQM 399 (496) Q Consensus 326 ~aI~~GGRYD~L~~~f-~~~~~pavGfaigv----erl-~~~l~~~~~~~~~~~~~~~v~V~~~~~~~~~~~~~~~ia~~ 399 (496) .-.||--||+.|...+ .+.+.--+-|++.- +.+ -.++.+.....+. .| |+.+|...+.... .....+ T Consensus 66 WDTAGqE~y~~lr~~yY~~a~~~ll~Fdvt~~~Sfe~~~~~Wi~Ei~~~~p~----~p--iiLVGnK~DLr~d-~~~l~~ 138 (232) T cd04174 66 WDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCPS----TR--ILLIGCKTDLRTD-LSTLME 138 (232) T ss_pred EECCCCCCCCHHHHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCC----CC--EEEEEECHHCCCC-HHHHHH T ss_conf 8389970100367997406878999996898799998999999999986899----97--8999876021547-577889 Q ss_pred HHHCCCEEEEEECCCCCHHHHHHHHHHCCCC-EE Q ss_conf 9987983999718999988999999877998-99 Q gi|254780928|r 400 LRTAGIRAEMFLGSSKNFGNQLKYADRRNCP-LA 432 (496) Q Consensus 400 Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~~-~v 432 (496) |...+.+. + +.+.....|.+.|+. |+ T Consensus 139 L~~~~~~p-V------t~eeg~~~Ak~iga~~Y~ 165 (232) T cd04174 139 LSNQKQAP-I------SYEQGCALAKQLGAEVYL 165 (232) T ss_pred HHHCCCCC-C------CHHHHHHHHHHCCCCEEE T ss_conf 97568887-5------799999999974997899 No 178 >PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional Probab=27.73 E-value=38 Score=13.60 Aligned_cols=90 Identities=18% Similarity=0.186 Sum_probs=45.5 Q ss_pred HHHHHHHHCCCEEEEEEC--CCCCHHHHHHHHHHCCCCEEEEECHHHHHCC-CEEEEECCCCCEEEEECCCHHHHHH--- Q ss_conf 999999987983999718--9999889999998779989999887287488-1899787888364331120144320--- Q gi|254780928|r 395 MYTQMLRTAGIRAEMFLG--SSKNFGNQLKYADRRNCPLAIIQGTGERSRG-MLQIKDLAKGKELSREIKNNESWRE--- 468 (496) Q Consensus 395 ~ia~~Lr~~Gi~~e~~~~--~~~sl~~~~~~A~~~g~~~viiig~~e~~~~-~v~vK~l~~g~q~~~~~~~~~~~~~--- 468 (496) .-+.+|-+...-+-+..+ .+.+=.+..+-|.+.|+|--.|-+.+++..+ .+.-|++. ++. ..-+.|.. T Consensus 286 ~A~~~L~~~~vDlmiVVGG~NSSNT~rL~EIa~~~g~pty~Ie~a~ei~~~~~i~h~~~~-~~~-----~~~~~wlp~g~ 359 (392) T PRK13371 286 DAMFSLVEEPLDLMVVIGGFNSSNTTHLQEIAIERGIPSYHIDTAERIGSGNSIEHKPLG-KEL-----VTTENWLPAGP 359 (392) T ss_pred HHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHCCCEEEECCHHHCCCCCCCCCCCCC-HHH-----HHHHHHHCCCC T ss_conf 999998754788899946888841899999999859985993887885951112223330-112-----20133310589 Q ss_pred ---CCCCCEEECHHHHHHHHHHHHH Q ss_conf ---2335103079999999999998 Q gi|254780928|r 469 ---ARVAQITIPISELVSTVKKILQ 490 (496) Q Consensus 469 ---~~~~q~~v~~~~l~~~~~~~l~ 490 (496) +..+.-+-|-.=+-+.+.++++ T Consensus 360 ~~IGiTAGAStPd~iVeeVi~ri~~ 384 (392) T PRK13371 360 ITVGITSGASTPDKVVEEVIEKIFA 384 (392) T ss_pred CEEEEECCCCCHHHHHHHHHHHHHH T ss_conf 6799846868709999999999998 No 179 >TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA; InterPro: IPR010222 This entry represents HrpA, one of two related but uncharacterised DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterised, is about 800 amino acids long. Related characterised eukaryotic proteins are RNA helicases associated with pre-mRNA processing.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity. Probab=27.70 E-value=38 Score=13.60 Aligned_cols=126 Identities=26% Similarity=0.317 Sum_probs=77.8 Q ss_pred CCCCC---CCHHHHHHHHHHHHHHHHHHHHCCCEEEE-CCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCEEEECC--- Q ss_conf 98765---88668999999999999999985984801-652022887520267554333221689869998899988--- Q gi|254780928|r 13 RGFAD---CPTKEIRIRNRILDSIRNIYENYGFDPIE-TPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQWISLRY--- 85 (496) Q Consensus 13 ~G~~D---~~p~~~~~~~~i~~~l~~~f~~~G~~~I~-tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~l~LRp--- 85 (496) +|-=| |+|-|-.+|+ -.++.+++.+..++ +|+ |+|-+..+ .+ -+ |.-++||-+.|== T Consensus 296 kGPGDiLIFlpGEREIRD-----aAE~L~k~~~rhtEIlPL------YARLS~~E--Q~-Rv--F~pHsGRRIVLaTNVA 359 (1320) T TIGR01967 296 KGPGDILIFLPGEREIRD-----AAEILRKRNLRHTEILPL------YARLSNKE--QQ-RV--FQPHSGRRIVLATNVA 359 (1320) T ss_pred CCCCCEEEECCCCCCHHH-----HHHHHHCCCCCCEEEECC------HHHCCHHH--CC-CC--CCCCCCCEEEEECCHH T ss_conf 899726763788863689-----999984468787044055------22158644--74-40--0685962345330101 Q ss_pred --CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCC-CC--------CCCCC---------CCCCCCCHHHHHCCCHHHHH Q ss_conf --883899999995112055411233101333025-87--------64442---------11111000121000024578 Q gi|254780928|r 86 --DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNE-KH--------GPGRF---------RQFIQCDVDNVGSSAETADA 145 (496) Q Consensus 86 --DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e-~p--------~~Gr~---------REf~Q~g~eiiG~~~~~~Da 145 (496) =||+|=.|||..-..... =|+.|=.+|=|=. +| .+||. |=+.+-||+ +.....|= T Consensus 360 ETSLTVPGI~YVIDtGtARi--SRYS~RTKVQRLPIEpISQASANQRkGRCGRV~~GICIRLYSE~DFn---sRP~FTDP 434 (1320) T TIGR01967 360 ETSLTVPGIRYVIDTGTARI--SRYSYRTKVQRLPIEPISQASANQRKGRCGRVAPGICIRLYSEEDFN---SRPEFTDP 434 (1320) T ss_pred HHHCCCCCCCCEECCCCCCC--CCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCEEEECCCHHHHC---CCCCCCCC T ss_conf 33057887111356885320--00100330133676603122320068875414777047557757340---78754572 Q ss_pred HHHHH--HHHHHHHCC Q ss_conf 89999--999997518 Q gi|254780928|r 146 EMCMM--MADTLEAVG 159 (496) Q Consensus 146 Eii~l--~~~~l~~lg 159 (496) ||+.+ |.=||+-+- T Consensus 435 EILRTNLAsVIL~M~a 450 (1320) T TIGR01967 435 EILRTNLASVILQMLA 450 (1320) T ss_pred CHHHHHHHHHHHHHHH T ss_conf 0767758999999874 No 180 >PRK10786 ribD bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional Probab=27.36 E-value=39 Score=13.56 Aligned_cols=43 Identities=14% Similarity=0.026 Sum_probs=22.4 Q ss_pred CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCC-CCCCCC-CCCCCHHHH Q ss_conf 883899999995112055411233101333025876-444211-111000121 Q gi|254780928|r 86 DLTAPLARYVAENFDTIVFPCRTYRIGPVFRNEKHG-PGRFRQ-FIQCDVDNV 136 (496) Q Consensus 86 DlT~~~aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~-~Gr~RE-f~Q~g~eii 136 (496) --|+|++..+.... +|+-++|.. +..|. .|+--+ .-+.|+|+. T Consensus 79 GkTpPC~~aIi~ag------I~rVvia~~--DPnp~v~GkGi~~L~~aGI~V~ 123 (367) T PRK10786 79 GRTPPCCDALIAAG------VARVVAAMQ--DPNPQVAGRGLYRLQQAGIDVS 123 (367) T ss_pred CCCCHHHHHHHHHC------CCEEEEECC--CCCCCCCCCHHHHHHHCCCEEE T ss_conf 98945999999828------988999688--9882124636999987698899 No 181 >pfam04800 ETC_C1_NDUFA4 ETC complex I subunit conserved region. Family of pankaryotic NADH-ubiquinone oxidoreductase subunits (EC:1.6.5.3) (EC:1.6.99.3) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein. Probab=27.18 E-value=39 Score=13.54 Aligned_cols=20 Identities=10% Similarity=0.258 Sum_probs=16.2 Q ss_pred CHHHHHHHHHHCCCCEEEEE Q ss_conf 98899999987799899998 Q gi|254780928|r 416 NFGNQLKYADRRNCPLAIIQ 435 (496) Q Consensus 416 sl~~~~~~A~~~g~~~viii 435 (496) +.+.++.||.+.|++|.|+- T Consensus 57 skE~Ai~YA~k~gi~y~V~e 76 (101) T pfam04800 57 TKEAAIAFAERQGWEYDVEE 76 (101) T ss_pred CHHHHHHHHHHCCCEEEEEC T ss_conf 99999999998498289957 No 182 >TIGR01573 cas2 CRISPR-associated protein Cas2; InterPro: IPR003799 This entry describes proteins of unknown function.. Probab=26.93 E-value=33 Score=13.98 Aligned_cols=32 Identities=13% Similarity=0.392 Sum_probs=26.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEEECCCHH Q ss_conf 66899999999999999998598480165202 Q gi|254780928|r 20 TKEIRIRNRILDSIRNIYENYGFDPIETPLLE 51 (496) Q Consensus 20 p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE 51 (496) |++....++...++++....+||+.+.-.++| T Consensus 10 ~~~t~~~~~~~~K~ak~L~~~G~~R~Q~Svf~ 41 (103) T TIGR01573 10 PEDTKGERKRRRKLAKLLEKYGLQRVQYSVFE 41 (103) T ss_pred CCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHH T ss_conf 87674578999999999986340423466664 No 183 >cd07995 TPK Thiamine pyrophosphokinase. Thiamine pyrophosphokinase (TPK, EC:2.7.6.2, also spelled thiamin pyrophosphokinase) catalyzes the transfer of a pyrophosphate group from ATP to vitamin B1 (thiamine) to form the coenzyme thiamine pyrophosphate (TPP). TPP is required for central metabolic functions, and thiamine deficiency is associated with potentially fatal human diseases. The structure of thiamine pyrophosphokinase suggests that the enzyme may operate by a mechanism of pyrophosphoryl transfer similar to those described for pyrophosphokinases functioning in nucleotide biosynthesis. Probab=26.63 E-value=40 Score=13.47 Aligned_cols=11 Identities=36% Similarity=0.761 Sum_probs=7.2 Q ss_pred CCCCCCCCCCC Q ss_conf 23235521112 Q gi|254780928|r 331 GGRYDGLVSRF 341 (496) Q Consensus 331 GGRYD~L~~~f 341 (496) |||.|..++.+ T Consensus 101 GgR~DH~lanl 111 (208) T cd07995 101 GGRLDHTLANL 111 (208) T ss_pred CCCHHHHHHHH T ss_conf 99677899999 No 184 >PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated Probab=25.81 E-value=41 Score=13.38 Aligned_cols=54 Identities=13% Similarity=0.154 Sum_probs=31.4 Q ss_pred CCCCCHHHHHCC---CHHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCHHHHHHHHHHC Q ss_conf 111000121000---02457889999999997518887771130366055899999832 Q gi|254780928|r 128 FIQCDVDNVGSS---AETADAEMCMMMADTLEAVGIKRNDYHIGINNRKILDGILEKIG 183 (496) Q Consensus 128 f~Q~g~eiiG~~---~~~~DaEii~l~~~~l~~lgl~~~~~~I~in~~~il~~il~~lg 183 (496) -.+.|++++-.. ...-+.|.+.-+.+.++.. ..-.+.|.-.+...+++-|..+. T Consensus 34 Q~eaGA~~LDVN~g~~~~de~~~m~~~v~~iq~~--~~~Pl~iDS~~~~aiEaaLk~~~ 90 (268) T PRK07535 34 QVEAGANYLDVNAGTAVEEEPETMEWLVETVQEV--VDVPLCIDSPNPEAIEAGLKVAK 90 (268) T ss_pred HHHCCCCEEEEECCCCCCCHHHHHHHHHHHHHHC--CCCCEEECCCCHHHHHHHHHHCC T ss_conf 9984999899608987746899999999999733--89996761898999999999779 No 185 >COG4635 HemG Flavodoxin [Energy production and conversion / Coenzyme metabolism] Probab=25.55 E-value=42 Score=13.35 Aligned_cols=16 Identities=25% Similarity=0.397 Sum_probs=8.7 Q ss_pred CCCHHHHHHHHHHHHH Q ss_conf 8883899999995112 Q gi|254780928|r 85 YDLTAPLARYVAENFD 100 (496) Q Consensus 85 pDlT~~~aR~~~~~~~ 100 (496) .--|--||++++.++. T Consensus 11 ~GqT~kIA~~iA~~L~ 26 (175) T COG4635 11 DGQTRKIAEYIASHLR 26 (175) T ss_pred CCCHHHHHHHHHHHHH T ss_conf 7758999999999755 No 186 >COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism] Probab=25.33 E-value=42 Score=13.32 Aligned_cols=16 Identities=19% Similarity=0.287 Sum_probs=11.1 Q ss_pred HHHHHHHHHHHHCCCC Q ss_conf 8999999999751888 Q gi|254780928|r 146 EMCMMMADTLEAVGIK 161 (496) Q Consensus 146 Eii~l~~~~l~~lgl~ 161 (496) ..|.++-++++.+|-+ T Consensus 18 RAI~ive~al~~~g~p 33 (294) T COG0761 18 RAIQIVERALEEYGAP 33 (294) T ss_pred HHHHHHHHHHHHCCCC T ss_conf 9999999999971998 No 187 >cd04601 CBS_pair_IMPDH This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key role in the regulation of cell proliferation and differentiation. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain in IMPDH have been associated with retinitis pigmentosa. Probab=25.26 E-value=42 Score=13.31 Aligned_cols=34 Identities=12% Similarity=0.296 Sum_probs=13.3 Q ss_pred HHHHHHHHHHCCCCEEEEECHHHHHCCCEEEEEC Q ss_conf 8899999987799899998872874881899787 Q gi|254780928|r 417 FGNQLKYADRRNCPLAIIQGTGERSRGMLQIKDL 450 (496) Q Consensus 417 l~~~~~~A~~~g~~~viiig~~e~~~~~v~vK~l 450 (496) +...++.=.+.++..+.++.++..=-|-|+.+|+ T Consensus 74 ~~~~~~~m~~~~i~~lpVvd~~~~lvGiIt~~Di 107 (110) T cd04601 74 LEEALELLHEHKIEKLPVVDDEGKLKGLITVKDI 107 (110) T ss_pred HHHHHHHHHHCCCEEEEEECCCCEEEEEEEHHHH T ss_conf 9999999986685199999889999999995984 No 188 >PRK13590 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional Probab=24.14 E-value=41 Score=13.37 Aligned_cols=10 Identities=10% Similarity=0.072 Sum_probs=4.3 Q ss_pred HHHCCCCEEE Q ss_conf 9877998999 Q gi|254780928|r 424 ADRRNCPLAI 433 (496) Q Consensus 424 A~~~g~~~vi 433 (496) |.+.|+++.- T Consensus 519 a~~lG~~~~~ 528 (590) T PRK13590 519 VAALGLPVHR 528 (590) T ss_pred HHHCCCCCCC T ss_conf 9976999740 No 189 >KOG3846 consensus Probab=24.08 E-value=41 Score=13.39 Aligned_cols=33 Identities=27% Similarity=0.495 Sum_probs=18.9 Q ss_pred HHHHHHHHHHCCCCCCCCCCCHHHCCCCCCCCCEEEEE Q ss_conf 99999998750888443001101001221234124899 Q gi|254780928|r 272 LVVISELVRKSGYNSNRIKISSTIVRGLEYYTGCVYEA 309 (496) Q Consensus 272 l~~i~~~l~~~gv~~~~i~~Dl~lvRgLdYYTG~vFE~ 309 (496) .+.+++.++..|= . | .+-+--|..||||..|.+ T Consensus 201 teDILd~IEkngD-e--i--A~v~fSGvqyYTGQ~Fdi 233 (465) T KOG3846 201 TEDILDTIEKNGD-E--I--ALVCFSGVQYYTGQYFDI 233 (465) T ss_pred HHHHHHHHHHCCC-E--E--EEEEEECCEEECCCCCCH T ss_conf 7879999973687-6--9--999950524422532241 No 190 >PRK12778 putative bifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta; Provisional Probab=23.65 E-value=45 Score=13.12 Aligned_cols=57 Identities=11% Similarity=0.069 Sum_probs=34.9 Q ss_pred EEEECCCHHHHHHHHHHHHHHHHCCCE-EEEEECCC----CCHHHHHHHHHHCCCCEEEEECHHHH Q ss_conf 998269768999999999999987983-99971899----99889999998779989999887287 Q gi|254780928|r 380 ITTMDHDSDSLSKYQMYTQMLRTAGIR-AEMFLGSS----KNFGNQLKYADRRNCPLAIIQGTGER 440 (496) Q Consensus 380 V~~~~~~~~~~~~~~~ia~~Lr~~Gi~-~e~~~~~~----~sl~~~~~~A~~~g~~~viiig~~e~ 440 (496) |.+++.+. .|+..|+.....|-. |.+.|..+ +.-..-+.+|...|+.|.....+.+. T Consensus 581 VvVIGGGn----tAmD~artA~RlGAe~V~ivyRR~~~emPA~~~Ei~~A~eEGV~f~~l~~P~~i 642 (760) T PRK12778 581 VAVIGGGN----TAMDSVRTAKRLGAERAMIIYRRSEEEMPARLEEVKHAKEEGIEFLTLHNPIEY 642 (760) T ss_pred EEEECCCH----HHHHHHHHHHHCCCCEEEEEECCCHHCCCCCHHHHHHHHHCCCEEEECCCCEEE T ss_conf 99999976----099999999983998699970377211999989999998579889916897899 No 191 >pfam00604 Flu_PB2 Influenza RNA-dependent RNA polymerase subunit PB2. PB2 can bind 5' end cap structure of RNA. Probab=23.54 E-value=46 Score=13.11 Aligned_cols=11 Identities=27% Similarity=0.280 Sum_probs=5.3 Q ss_pred HHH--HHHHHHCC Q ss_conf 233--10133302 Q gi|254780928|r 107 RTY--RIGPVFRN 117 (496) Q Consensus 107 k~y--y~g~vfR~ 117 (496) |.| |++++-|. T Consensus 113 KvYks~F~r~eRl 125 (759) T pfam00604 113 KVYKSYFERVERL 125 (759) T ss_pred HHHHHHHHHHHHH T ss_conf 6999999999876 No 192 >PRK13799 unknown domain/N-carbamoyl-L-amino acid hydrolase fusion protein; Provisional Probab=23.17 E-value=44 Score=13.18 Aligned_cols=18 Identities=28% Similarity=0.351 Sum_probs=9.6 Q ss_pred HHHHHH-HHHHCCCCEEEE Q ss_conf 889999-998779989999 Q gi|254780928|r 417 FGNQLK-YADRRNCPLAII 434 (496) Q Consensus 417 l~~~~~-~A~~~g~~~vii 434 (496) +.+.++ .|++.|+++.-+ T Consensus 514 l~~~le~aa~~lG~~~~~m 532 (591) T PRK13799 514 LMKQLEAATDAAGVPLFEL 532 (591) T ss_pred HHHHHHHHHHHCCCCCEEE T ss_conf 9999999999779996242 No 193 >TIGR01494 ATPase_P-type ATPase, P-type (transporting), HAD superfamily, subfamily IC; InterPro: IPR001757 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (F-, V- and A-ATPases contain rotary motors) and in the type of ions they transport , . F-ATPases (F1F0-ATPases) in mitochondria, chloroplasts and bacterial plasma membranes are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases) are primarily found in eukaryotic vacuoles, catalysing ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases) are found in Archaea and function like F-ATPases. P-ATPases (E1E2-ATPases) are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles . P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H^+, Na^+, K^+, Mg^2+, Ca^2+, Ag^+ and Ag^2+, Zn^2+, Co^2+, Pb^2+, Ni^2+, Cd^2+, Cu^+ and Cu^2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the several classes of P-type ATPases, including those that transport K^+ (3.6.3.12 from EC), Mg^2+ (3.6.3.2 from EC), Cd^2+ (3.6.3.3 from EC), Cu ^2+ (3.6.3.4 from EC), Zn^2+ (3.6.3.5 from EC), Na^+ (3.6.3.7 from EC), Ca^2+ (3.6.3.8 from EC), Na^+/K^+ (3.6.3.9 from EC), and H^+/K^+ (3.6.3.10 from EC). These P-ATPases are found in both prokaryotes and eukaryotes. More information about this protein can be found at Protein of the Month: ATP Synthases . ; GO: 0005524 ATP binding, 0015662 ATPase activity coupled to transmembrane movement of ions phosphorylative mechanism, 0006810 transport, 0016020 membrane. Probab=23.15 E-value=46 Score=13.06 Aligned_cols=50 Identities=18% Similarity=0.196 Sum_probs=32.8 Q ss_pred EEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHCCC Q ss_conf 4899826976899999999999998798399971899998899999987799 Q gi|254780928|r 378 VLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSSKNFGNQLKYADRRNC 429 (496) Q Consensus 378 v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~~A~~~g~ 429 (496) .+...+..++.....+.+..++|+++||++.+.-+ + +.+...+-|.+.|+ T Consensus 316 ~~lG~~~~~D~lr~~~~~~i~~L~~agi~v~mlTG-D-~~~tA~~ia~~~g~ 365 (478) T TIGR01494 316 ELLGLTAIEDPLREDVKETIEELKRAGIKVWMLTG-D-NVETAIAIAKECGL 365 (478) T ss_pred EEEEEEEEECCCCCCHHHHHHHHHHCCCEEEEEEC-C-CHHHHHHHHHHCCC T ss_conf 07899997345777268999999865998999957-9-87999999985242 No 194 >PRK12446 N-acetylglucosaminyl transferase; Reviewed Probab=23.11 E-value=46 Score=13.05 Aligned_cols=40 Identities=18% Similarity=0.038 Sum_probs=21.1 Q ss_pred HHHHHHCCCEEEEEECCC-CCHHHHHHHHH---HCCCCEEEEECHH Q ss_conf 999998798399971899-99889999998---7799899998872 Q gi|254780928|r 397 TQMLRTAGIRAEMFLGSS-KNFGNQLKYAD---RRNCPLAIIQGTG 438 (496) Q Consensus 397 a~~Lr~~Gi~~e~~~~~~-~sl~~~~~~A~---~~g~~~viiig~~ 438 (496) ..+|-..|+++-+-|-+. -.=..|+..|. +.|+ .+++-++ T Consensus 265 iaEl~~~g~PsIlIP~p~~a~~nHQ~~NA~~l~~~ga--a~vi~e~ 308 (352) T PRK12446 265 IFEFLTLQKPMLLIPLSKFASRGDQILNAESFERQGY--ASVLYEE 308 (352) T ss_pred HHHHHHHCCCEEEECCCCCCCCCHHHHHHHHHHHCCC--EEEEECC T ss_conf 9999982998899628987775759999999997798--8996414 No 195 >TIGR00303 TIGR00303 conserved hypothetical protein TIGR00303; InterPro: IPR002805 Nicotinate mononucleotide (NaMN):5,6-dimethylbenzimidazole (DMB) phosphoribosyltransferase (CobT) plays a central role in the synthesis of alpha-ribazole-5'-phosphate, an intermediate for the lower ligand of cobalamin . It is one of the enzymes of the anaerobic pathway of cobalamin biosynthesis, and one of the four proteins (CobU, CobT, CobC, and CobS) involved in the synthesis of the lower ligand and the assembly of the nucleotide loop , . Vitamin B_12 (cobalamin) is used as a cofactor in a number of enzyme-catalysed reactions in bacteria, archaea and eukaryotes . The biosynthetic pathway to adenosylcobalamin from its five-carbon precursor, 5-aminolaevulinic acid, can be divided into three sections: (1) the biosynthesis of uroporphyrinogen III from 5-aminolaevulinic acid; (2) the conversion of uroporphyrinogen III into the ring-contracted, deacylated intermediate precorrin 6 or cobalt-precorrin 6; and (3) the transformation of this intermediate to form adenosylcobalamin . Cobalamin is synthesised by bacteria and archaea via two alternative routes that differ primarily in the steps of section 2 that lead to the contraction of the macrocycle and excision of the extruded carbon molecule (and its attached methyl group) . One pathway (exemplified by Pseudomonas denitrificans) incorporates molecular oxygen into the macrocycle as a prerequisite to ring contraction, and has consequently been termed the aerobic pathway. The alternative, anaerobic, route (exemplified by Salmonella typhimurium) takes advantage of a chelated cobalt ion, in the absence of oxygen, to set the stage for ring contraction . This entry represents a group of proteins predicted to have nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase activity.. Probab=22.90 E-value=35 Score=13.83 Aligned_cols=36 Identities=22% Similarity=0.298 Sum_probs=18.9 Q ss_pred HHHHHHHHCCCCCCCCEEECCC--------CHHHHHHHHHHCCCH Q ss_conf 9999997518887771130366--------055899999832560 Q gi|254780928|r 150 MMADTLEAVGIKRNDYHIGINN--------RKILDGILEKIGLHG 186 (496) Q Consensus 150 l~~~~l~~lgl~~~~~~I~in~--------~~il~~il~~lgi~~ 186 (496) +|.-+|..||+.. ++.+.=+| +++++.=|...|+.. T Consensus 160 TAlGVL~aLG~dA-~g~VsSS~p~nph~lK~~vV~~gL~~AG~e~ 203 (350) T TIGR00303 160 TALGVLLALGYDA-EGKVSSSMPHNPHELKRKVVREGLKKAGIEK 203 (350) T ss_pred HHHHHHHHCCCCC-CCCCCCCCCCCCHHHHHHHHHHHHHHCCCCC T ss_conf 9999998737375-8504378888728899999999887568766 No 196 >PRK04213 GTP-binding protein; Provisional Probab=22.73 E-value=20 Score=15.36 Aligned_cols=19 Identities=32% Similarity=0.370 Sum_probs=16.3 Q ss_pred CHHHHHHHHHHHHHHHHHC Q ss_conf 7999999999999864204 Q gi|254780928|r 477 PISELVSTVKKILQENKEE 495 (496) Q Consensus 477 ~~~~l~~~~~~~l~~~~~~ 495 (496) -+++|.+.+.+.|.+.+.+ T Consensus 171 Gid~L~~~I~~~L~E~~~~ 189 (195) T PRK04213 171 GIEALKGLINKRLREFKRD 189 (195) T ss_pred CHHHHHHHHHHHCHHHCCC T ss_conf 9999999999967553741 No 197 >PRK01584 alanyl-tRNA synthetase; Provisional Probab=22.69 E-value=47 Score=13.00 Aligned_cols=130 Identities=13% Similarity=0.127 Sum_probs=69.0 Q ss_pred HHHHHHHHHHHHHCCCEEEEC-CCHHHHHHHHCCCCCCCCCCCCEEEEECC-CCCEEEECCCCHHHHHHHHHHHHHHCCC Q ss_conf 999999999999859848016-52022887520267554333221689869-9988999888838999999951120554 Q gi|254780928|r 27 NRILDSIRNIYENYGFDPIET-PLLEYSDSLGKFLPDEDRPNKGVFSLQDD-DGQWISLRYDLTAPLARYVAENFDTIVF 104 (496) Q Consensus 27 ~~i~~~l~~~f~~~G~~~I~t-P~lE~~~~~~~~~~~~~~~~k~~y~f~D~-~g~~l~LRpDlT~~~aR~~~~~~~~~~~ 104 (496) +.|.+.+.+.|+++|-..|.+ |++-..|. .-..++.-|..|.+- .|.. .+. T Consensus 4 ~eiR~~Fl~fF~~kgH~~v~ssslvp~~dp------tllftnAGm~~Fk~~f~G~~---------------------~p~ 56 (593) T PRK01584 4 DELRKKYIDFFKSKGHVEIAGKSLVPENDP------TVLFNTAGMQPLVPYLLGEP---------------------HPS 56 (593) T ss_pred HHHHHHHHHHHHHCCCEECCCCCCCCCCCC------CEEEEECCCCCCCHHHCCCC---------------------CCC T ss_conf 999999999998789888378771779999------83574045101712325888---------------------999 Q ss_pred CHHHHHHHHHHCCC---CCCCCCCCCCCCCCHHHHHCCC--HHHHHHHHHHHHHHHH---HCCCCCCCCEEEC--CCCH- Q ss_conf 11233101333025---8764442111110001210000--2457889999999997---5188877711303--6605- Q gi|254780928|r 105 PCRTYRIGPVFRNE---KHGPGRFRQFIQCDVDNVGSSA--ETADAEMCMMMADTLE---AVGIKRNDYHIGI--NNRK- 173 (496) Q Consensus 105 p~k~yy~g~vfR~e---~p~~Gr~REf~Q~g~eiiG~~~--~~~DaEii~l~~~~l~---~lgl~~~~~~I~i--n~~~- 173 (496) --|....+++.|-. .. |+-| +...||+.|.-| -+---|.|..+++.|. -||++...+.+.+ ++-. T Consensus 57 ~~r~~~~QkCiR~~DldnV--G~~~--H~TfFEMLGn~SFgdYfK~eaI~~awe~lt~~~~l~l~~~rl~vtv~~~D~~~ 132 (593) T PRK01584 57 GDMLVNVQKCLRTGDIDEV--GDLS--HLTFFEMLGNWSLGAYFKEESVKYSFEFLTSPDYLNIPKDKLYVSVFEGDEDI 132 (593) T ss_pred CCCCCCCCCEEECCCHHHC--CCCC--CCHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHEEEEEEECCCCC T ss_conf 9974567531333756336--8887--52777505445233114899999999980663204888324799996058766 Q ss_pred ----HHHHHHHHHCCCHH Q ss_conf ----58999998325603 Q gi|254780928|r 174 ----ILDGILEKIGLHGD 187 (496) Q Consensus 174 ----il~~il~~lgi~~~ 187 (496) =...++..+|+|.+ T Consensus 133 ~~D~E~~~iW~~~Gi~~~ 150 (593) T PRK01584 133 PRDEETAKIWESLGISKD 150 (593) T ss_pred CCCHHHHHHHHHCCCCHH T ss_conf 544889999998199899 No 198 >PRK13059 putative lipid kinase; Reviewed Probab=22.64 E-value=47 Score=12.99 Aligned_cols=72 Identities=18% Similarity=0.054 Sum_probs=34.5 Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCE Q ss_conf 98765871037998765886689999999999999999859848016520228875202675543332216898699988 Q gi|254780928|r 1 MGKKTKLRAELPRGFADCPTKEIRIRNRILDSIRNIYENYGFDPIETPLLEYSDSLGKFLPDEDRPNKGVFSLQDDDGQW 80 (496) Q Consensus 1 m~k~~~~~~~~P~G~~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~tP~lE~~~~~~~~~~~~~~~~k~~y~f~D~~g~~ 80 (496) |+| ..++..+-.|-. ...+..+.+.+.++.+|++.+.+++=+..+.... .+. ..+.-... T Consensus 1 Mkk-~~~I~NP~sG~g--------~~~~~~~~i~~~l~~~~~~~~~~~t~~~~~~~~a--------~~~---~~~~~d~v 60 (294) T PRK13059 1 MKK-VKFIYNPYSGEN--------AIISELDKVIEIHQKYGYLVVPYRISLGCDLKEA--------FKD---IDESYKYI 60 (294) T ss_pred CCE-EEEEECCCCCCC--------CHHHHHHHHHHHHHHCCCEEEEEEEECCCHHHHH--------HHH---HHCCCCEE T ss_conf 977-999999766886--------6688999999999977988999985356089999--------998---87489889 Q ss_pred EEECCCCHHHHH Q ss_conf 999888838999 Q gi|254780928|r 81 ISLRYDLTAPLA 92 (496) Q Consensus 81 l~LRpDlT~~~a 92 (496) ++.-=|.|+.-+ T Consensus 61 v~~GGDGTinev 72 (294) T PRK13059 61 LIAGGDGTVDNV 72 (294) T ss_pred EEEECCCHHHHH T ss_conf 999567889999 No 199 >cd01579 AcnA_Bact_Swivel Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course of the reaction. This is the aconitase-like swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism. This distinct subfamily is found only in bacteria and archea. Its exact characteristics are not known. Probab=22.56 E-value=48 Score=12.98 Aligned_cols=55 Identities=11% Similarity=0.068 Sum_probs=34.2 Q ss_pred HHHHHHHHHCCCEEEEEECCCCCHHHHHH-HHHHCCCCEEEEECHHHHHCCCEEEEECCCCCEEEEE Q ss_conf 99999999879839997189999889999-9987799899998872874881899787888364331 Q gi|254780928|r 394 QMYTQMLRTAGIRAEMFLGSSKNFGNQLK-YADRRNCPLAIIQGTGERSRGMLQIKDLAKGKELSRE 459 (496) Q Consensus 394 ~~ia~~Lr~~Gi~~e~~~~~~~sl~~~~~-~A~~~g~~~viiig~~e~~~~~v~vK~l~~g~q~~~~ 459 (496) ...+..|+..|++|.+.. |+...+. .|-+.|++-+.+.-++. ...+.+|++.+++ T Consensus 65 E~A~~al~~~Gi~aVIA~----SFarIf~rN~in~Gllpl~~~~~~~-------~~~i~~GD~levD 120 (121) T cd01579 65 EHAALAPMYLGVRAVLAK----SFARIHRANLINFGILPLTFADEDD-------YDRFEQGDQLELP 120 (121) T ss_pred HHHHHHHHHCCCEEEEEH----HHHHHHHHHHHHCCCCEEEECCHHH-------HHHHCCCCEEEEC T ss_conf 999999998394599975----8999999878877862088648767-------8874699989840 No 200 >TIGR01268 Phe4hydrox_tetr phenylalanine-4-hydroxylase; InterPro: IPR005961 This entry represents the large, tetrameric form of phenylalanine-4-hydroxylase (PAH; 1.14.16.1 from EC), as found in metazoans. PAH irreversibly converts phenylalanine to tyrosine, and is known to be the rate-limiting step in phenylalanine catabolism in some systems. It is closely related to metazoan tyrosine 3-monooxygenase and tryptophan 5-monoxygenase, and more distantly to monomeric phenylalanine-4-hydroxylases of some Gram-negative bacteria. The member of this family from Drosophila has been described as having both phenylalanine-4-hydroxylase and tryptophan 5-monoxygenase activity . However, a Drosophila member of the tryptophan 5-monoxygenase clade has subsequently been discovered. A deficiency in PAH can lead to phenylketonuria (PKU), an autosomal recessive genetic disorder characterised by an inability to metabolise phenylalanine, resulting in elevated Phe levels in the bloodstream that can lead to mental retardation if left untreated . More information about these proteins can be found at Protein of the Month: Phenylalanine Hydroxylase .; GO: 0004505 phenylalanine 4-monooxygenase activity, 0006559 L-phenylalanine catabolic process. Probab=22.28 E-value=48 Score=12.95 Aligned_cols=36 Identities=17% Similarity=0.412 Sum_probs=22.5 Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHCCCEEEE--CCCHH Q ss_conf 6588668999999999999999985984801--65202 Q gi|254780928|r 16 ADCPTKEIRIRNRILDSIRNIYENYGFDPIE--TPLLE 51 (496) Q Consensus 16 ~D~~p~~~~~~~~i~~~l~~~f~~~G~~~I~--tP~lE 51 (496) -+|.++|...|+.|...|..+|..|-++|-. .|+|+ T Consensus 170 v~Yt~eEi~TW~tvf~~L~~LY~thAC~EyNhvFPLL~ 207 (445) T TIGR01268 170 VEYTEEEIETWRTVFKNLTKLYKTHACKEYNHVFPLLQ 207 (445) T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHH T ss_conf 23377878888899998887300013642343143033 No 201 >TIGR02374 nitri_red_nirB nitrite reductase [NAD(P)H], large subunit; InterPro: IPR012744 This entry describes NirB, the large subunit of nitrite reductase [NAD(P)H] (the assimilatory nitrite reductase), which associates with NirD, the small subunit (IPR012748 from INTERPRO). In a few bacteria such as Klebsiella pneumoniae and in fungi, the two regions are fused.; GO: 0008942 nitrite reductase [NAD(P)H] activity, 0050660 FAD binding, 0050661 NADP binding, 0042128 nitrate assimilation. Probab=21.49 E-value=50 Score=12.84 Aligned_cols=15 Identities=33% Similarity=0.605 Sum_probs=7.5 Q ss_pred HHHHHHHHHHCCCHH Q ss_conf 558999998325603 Q gi|254780928|r 173 KILDGILEKIGLHGD 187 (496) Q Consensus 173 ~il~~il~~lgi~~~ 187 (496) .|++.++....+|++ T Consensus 388 ~L~~~v~k~~dlse~ 402 (813) T TIGR02374 388 RLLDMVLKEADLSED 402 (813) T ss_pred HHHHHHHHHHCCCCC T ss_conf 588886544138887 No 202 >KOG0835 consensus Probab=21.23 E-value=51 Score=12.81 Aligned_cols=95 Identities=16% Similarity=0.148 Sum_probs=56.0 Q ss_pred CCCCHHHH--HHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCC Q ss_conf 88883899--9999951120554112331013330258764442111110001210000245788999999999751888 Q gi|254780928|r 84 RYDLTAPL--ARYVAENFDTIVFPCRTYRIGPVFRNEKHGPGRFRQFIQCDVDNVGSSAETADAEMCMMMADTLEAVGIK 161 (496) Q Consensus 84 RpDlT~~~--aR~~~~~~~~~~~p~k~yy~g~vfR~e~p~~Gr~REf~Q~g~eiiG~~~~~~DaEii~l~~~~l~~lgl~ 161 (496) +||+-+-+ +=+++....+. |-+.-.+=+||-|=+ +.++-.|++..|+-........+++..-.++|..||+ T Consensus 62 ~~~~e~vv~ACv~LASKiEE~--Prr~rdVinVFh~L~----~r~~~~~~~~~~~~~~~~~lk~~~ir~e~~ILr~LGF- 134 (367) T KOG0835 62 RHDFEIVVMACVLLASKIEEE--PRRIRDVINVFHYLE----QRRESEAAEHLILARLYINLKMQVIRAERRILRELGF- 134 (367) T ss_pred CCCHHHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHH----HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCC- T ss_conf 336999999999987640126--523767778999999----9975047651456667765203888889999998297- Q ss_pred CCCCEEECCCCHHHHHHHHHHCCCHHH Q ss_conf 777113036605589999983256035 Q gi|254780928|r 162 RNDYHIGINNRKILDGILEKIGLHGDD 188 (496) Q Consensus 162 ~~~~~I~in~~~il~~il~~lgi~~~~ 188 (496) ++++..-| +++-.++..++++... T Consensus 135 --~~Hv~hPh-klii~YLqtL~~~~~~ 158 (367) T KOG0835 135 --DVHVEHPH-KLIIMYLQTLQLPPNL 158 (367) T ss_pred --EEEEECCH-HHHHHHHHHHCCCCCH T ss_conf --35662518-9999999985689722 No 203 >KOG2585 consensus Probab=20.36 E-value=53 Score=12.69 Aligned_cols=56 Identities=13% Similarity=0.062 Sum_probs=32.4 Q ss_pred EEEEEECCCHHHHHHHHHHHHHHHHCCCEEEEEECCC----CCHHHHHHHHHHCCCCEEEEE Q ss_conf 4899826976899999999999998798399971899----998899999987799899998 Q gi|254780928|r 378 VLITTMDHDSDSLSKYQMYTQMLRTAGIRAEMFLGSS----KNFGNQLKYADRRNCPLAIIQ 435 (496) Q Consensus 378 v~V~~~~~~~~~~~~~~~ia~~Lr~~Gi~~e~~~~~~----~sl~~~~~~A~~~g~~~viii 435 (496) |.|++-+.+ .-......++.|+..|+...+++-.. ..++..++.|+...+|.+=.+ T Consensus 269 V~Ilcgpgn--nggdg~v~gRHL~~~G~~~vi~~pk~s~~~~~~~~L~~q~~~~~Ip~v~~~ 328 (453) T KOG2585 269 VAILCGPGN--NGGDGLVCGRHLAQHGYTPVIYYPKRSLNVDLYKSLVKQCDGFSIPSVSEL 328 (453) T ss_pred EEEEECCCC--CCCHHHHHHHHHHHCCCEEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCC T ss_conf 899957987--531257778899870861479962686404689999998447654552347 No 204 >KOG2395 consensus Probab=20.35 E-value=53 Score=12.69 Aligned_cols=54 Identities=22% Similarity=0.342 Sum_probs=29.2 Q ss_pred CCCCCHHHCCCC---------CCCCCEEEEEEECCCCCCCCCCCCCEEEECCCCC------CCCCCCCCCCCCCCCCEEE Q ss_conf 300110100122---------1234124899854666776766631011003232------3552111234567742133 Q gi|254780928|r 288 RIKISSTIVRGL---------EYYTGCVYEAILGFPVMNEKQKPVVFGSVGGGGR------YDGLVSRFKGQNVPATGFS 352 (496) Q Consensus 288 ~i~~Dl~lvRgL---------dYYTG~vFE~~~~~~~~~~~~~~~~~~aI~~GGR------YD~L~~~f~~~~~pavGfa 352 (496) -+.+||. |+|. +|-||.-|..+.. ...+ .|+.|++ ||.+ ..-....+||.|=+ T Consensus 406 vfriDpR-v~~~~kl~~~q~kqy~~k~nFsc~aT-----T~sG-----~IvvgS~~GdIRLYdri-~~~AKTAlPgLG~~ 473 (644) T KOG2395 406 VFRIDPR-VQGKNKLAVVQSKQYSTKNNFSCFAT-----TESG-----YIVVGSLKGDIRLYDRI-GRRAKTALPGLGDA 473 (644) T ss_pred EEEECCC-CCCCCEEEEEECCCCCCCCCCCEEEE-----CCCC-----EEEEEECCCCEEEEHHH-HHHHHHCCCCCCCC T ss_conf 4775543-36763344341010254665413664-----3884-----39985168857864543-23455306666775 Q ss_pred E Q ss_conf 1 Q gi|254780928|r 353 I 353 (496) Q Consensus 353 i 353 (496) | T Consensus 474 I 474 (644) T KOG2395 474 I 474 (644) T ss_pred E T ss_conf 0 No 205 >COG2139 RPL21A Ribosomal protein L21E [Translation, ribosomal structure and biogenesis] Probab=20.23 E-value=53 Score=12.68 Aligned_cols=21 Identities=29% Similarity=0.455 Sum_probs=16.2 Q ss_pred CCCCCCHHHCCCCCC-----CCCEEE Q ss_conf 430011010012212-----341248 Q gi|254780928|r 287 NRIKISSTIVRGLEY-----YTGCVY 307 (496) Q Consensus 287 ~~i~~Dl~lvRgLdY-----YTG~vF 307 (496) ..|.+|||+..|+.+ +||.|. T Consensus 39 V~I~IdpSv~kGmPh~rf~G~TG~Vv 64 (98) T COG2139 39 VHIDIDPSVHKGMPHPRFQGKTGTVV 64 (98) T ss_pred EEEEECCCCCCCCCCCCCCCCCEEEE T ss_conf 99984762026987753047630798 No 206 >COG0212 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism] Probab=20.09 E-value=33 Score=13.98 Aligned_cols=27 Identities=30% Similarity=0.762 Sum_probs=19.6 Q ss_pred CCCCCCCCCCCCCCCCCCCCEEEECCH Q ss_conf 323235521112345677421331101 Q gi|254780928|r 330 GGGRYDGLVSRFKGQNVPATGFSIGIS 356 (496) Q Consensus 330 ~GGRYD~L~~~f~~~~~pavGfaigve 356 (496) |||=||..++.+.+++.+-||.++..- T Consensus 138 GgGyYDR~la~~~~~~~~~ig~~~~~Q 164 (191) T COG0212 138 GGGYYDRYLANLRGRKTPTVGIAYDCQ 164 (191) T ss_pred CCCHHHHHHHHHCCCCCCEEEEEEEEH T ss_conf 865788998763346887789877001 Done!