Query gi|254780903|ref|YP_003065316.1| two-component sensor histidine kinase protein [Candidatus Liberibacter asiaticus str. psy62] Match_columns 766 No_of_seqs 271 out of 20348 Neff 8.4 Searched_HMMs 39220 Date Mon May 30 09:57:37 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780903.hhm -d /home/congqian_1/database/cdd/Cdd.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 PRK11091 aerobic respiration c 100.0 0 0 615.5 44.8 362 238-765 138-504 (779) 2 PRK10841 hybrid sensory kinase 100.0 0 0 586.8 38.4 337 372-765 347-689 (947) 3 PRK09959 hybrid sensory histid 100.0 0 0 549.7 44.8 358 365-765 559-935 (1197) 4 PRK13557 histidine kinase; Pro 100.0 0 0 548.0 44.7 345 252-766 25-392 (538) 5 PRK11107 hybrid sensory histid 100.0 0 0 507.7 54.3 235 526-765 276-517 (920) 6 PRK11360 sensory histidine kin 100.0 0 0 487.1 64.9 335 376-765 255-598 (607) 7 TIGR02966 phoR_proteo phosphat 100.0 0 0 531.6 32.7 332 379-764 3-339 (339) 8 TIGR02956 TMAO_torS TMAO reduc 100.0 0 0 540.5 24.5 250 510-765 465-734 (1052) 9 PRK11006 phoR phosphate regulo 100.0 0 0 512.5 41.0 338 370-766 86-423 (431) 10 PRK11466 hybrid sensory histid 100.0 0 0 513.2 32.5 245 512-765 413-661 (912) 11 PRK13560 hypothetical protein; 100.0 0 0 449.3 52.4 574 98-765 181-802 (807) 12 PRK09303 adaptive-response sen 100.0 0 0 476.0 33.1 242 521-765 127-374 (378) 13 PRK11073 glnL nitrogen regulat 100.0 0 0 420.7 37.8 322 385-765 10-346 (348) 14 PRK10490 sensor protein KdpD; 100.0 0 0 430.2 30.2 225 536-766 657-882 (895) 15 PRK13837 two-component VirA-li 100.0 0 0 418.1 33.2 233 515-766 430-678 (831) 16 PRK10549 signal transduction h 100.0 0 0 416.1 32.4 240 521-765 219-458 (467) 17 PRK10364 sensor protein ZraS; 100.0 0 0 415.5 32.8 223 529-765 225-448 (455) 18 PRK11100 sensory histidine kin 100.0 0 0 413.2 32.9 219 542-766 255-473 (475) 19 PRK09835 sensor kinase CusS; P 100.0 0 0 411.2 32.9 241 521-766 240-480 (482) 20 COG5002 VicK Signal transducti 100.0 0 0 409.3 28.0 347 364-765 92-447 (459) 21 PRK11086 sensory histidine kin 100.0 0 0 351.4 57.3 192 543-766 338-534 (541) 22 PRK09470 cpxA two-component se 100.0 0 0 380.5 31.6 235 521-765 221-456 (461) 23 PRK10604 sensor protein RstB; 100.0 0 0 380.9 29.2 234 521-766 190-423 (433) 24 PRK10755 sensor protein BasS/P 100.0 0 0 371.9 30.3 234 519-766 119-355 (355) 25 PRK10337 sensor protein QseC; 100.0 0 0 369.9 30.7 234 521-764 212-446 (446) 26 COG2205 KdpD Osmosensitive K+ 100.0 0 0 368.9 29.5 223 539-766 656-879 (890) 27 TIGR01386 cztS_silS_copS heavy 100.0 0 0 364.8 23.5 245 517-765 235-483 (483) 28 TIGR02938 nifL_nitrog nitrogen 100.0 0 0 358.4 26.2 463 255-765 4-495 (496) 29 PRK10815 sensor protein PhoQ; 100.0 0 0 352.4 30.3 234 521-766 244-477 (484) 30 PRK09467 envZ osmolarity senso 100.0 1.4E-45 0 347.6 29.3 225 521-765 209-434 (437) 31 PRK09776 putative sensor prote 100.0 4.1E-43 0 329.2 42.1 369 111-496 294-686 (1116) 32 COG4191 Signal transduction hi 100.0 5.2E-43 0 328.5 30.5 249 508-766 347-601 (603) 33 COG4251 Bacteriophytochrome (l 100.0 2.4E-43 0 330.9 25.0 231 527-765 508-740 (750) 34 COG3852 NtrB Signal transducti 100.0 9.1E-41 2.8E-45 312.3 31.2 325 385-766 10-354 (363) 35 COG5000 NtrY Signal transducti 100.0 5.2E-38 1.3E-42 292.4 32.5 332 372-766 360-708 (712) 36 TIGR02916 PEP_his_kin putative 100.0 5.9E-36 1.5E-40 277.5 26.2 204 545-765 488-696 (696) 37 COG3290 CitA Signal transducti 100.0 3.5E-31 9E-36 243.0 48.2 189 547-766 337-531 (537) 38 COG0642 BaeS Signal transducti 100.0 8.4E-34 2.1E-38 262.0 31.4 214 542-766 114-329 (336) 39 PRK09776 putative sensor prote 100.0 3.2E-32 8.1E-37 250.6 29.6 255 239-495 288-554 (1116) 40 COG4192 Signal transduction hi 100.0 5.2E-28 1.3E-32 220.2 24.1 213 542-764 450-664 (673) 41 PRK13560 hypothetical protein; 100.0 1.5E-27 3.8E-32 216.9 25.9 258 238-498 187-476 (807) 42 smart00387 HATPase_c Histidine 100.0 8.2E-28 2.1E-32 218.7 14.5 110 656-766 1-110 (111) 43 pfam02518 HATPase_c Histidine 100.0 3.7E-27 9.5E-32 214.0 14.8 110 656-766 1-110 (111) 44 PRK11359 cAMP phosphodiesteras 99.9 7.2E-25 1.8E-29 197.5 24.9 227 126-376 20-257 (799) 45 PRK13559 hypothetical protein; 99.9 5.8E-22 1.5E-26 176.5 33.1 307 253-765 43-360 (363) 46 cd00075 HATPase_c Histidine ki 99.9 1.2E-25 3E-30 203.2 13.2 102 661-764 1-103 (103) 47 PRK10618 phosphotransfer inter 99.9 1.6E-21 4.2E-26 173.2 33.4 327 374-765 335-667 (881) 48 PRK11359 cAMP phosphodiesteras 99.9 3.5E-22 8.9E-27 178.1 23.5 236 248-490 5-254 (799) 49 KOG0519 consensus 99.9 5.3E-26 1.4E-30 205.6 3.1 233 526-765 202-487 (786) 50 PRK10547 chemotaxis protein Ch 99.9 5.5E-19 1.4E-23 155.0 21.6 142 619-765 334-514 (662) 51 COG0643 CheA Chemotaxis protei 99.8 8.5E-18 2.2E-22 146.4 24.0 167 586-765 364-572 (716) 52 PRK10935 nitrate/nitrite senso 99.8 3.9E-17 1E-21 141.6 27.1 190 548-766 366-562 (568) 53 PRK10600 nitrate/nitrite senso 99.8 1.4E-14 3.5E-19 123.2 26.5 193 543-766 362-556 (569) 54 PRK11644 sensory histidine kin 99.7 1.2E-13 3E-18 116.5 24.4 191 543-766 304-496 (497) 55 pfam08447 PAS_3 PAS fold. The 99.7 1.3E-15 3.3E-20 130.7 11.7 88 277-364 1-90 (90) 56 COG3920 Signal transduction hi 99.7 2.6E-13 6.6E-18 114.0 23.0 188 542-766 18-215 (221) 57 COG2972 Predicted signal trans 99.7 5.1E-13 1.3E-17 111.9 23.8 179 547-766 263-452 (456) 58 COG4585 Signal transduction hi 99.6 8.8E-13 2.3E-17 110.2 24.2 161 577-766 203-365 (365) 59 pfam00989 PAS PAS fold. The PA 99.6 1.9E-14 4.9E-19 122.2 11.5 111 255-367 1-112 (112) 60 COG3850 NarQ Signal transducti 99.6 4.9E-12 1.2E-16 104.8 23.7 188 548-765 374-567 (574) 61 PRK13558 bacterio-opsin activa 99.6 2E-13 5.1E-18 114.8 15.2 138 255-395 158-300 (674) 62 PRK03660 anti-sigma F factor; 99.5 3.6E-13 9.2E-18 113.0 11.6 96 658-764 37-136 (146) 63 COG3275 LytS Putative regulato 99.5 5.5E-11 1.4E-15 97.2 22.3 168 550-766 372-551 (557) 64 pfam08448 PAS_4 PAS fold. The 99.4 1.2E-12 3E-17 109.3 10.4 109 261-372 1-110 (110) 65 TIGR00229 sensory_box PAS doma 99.4 2.7E-12 6.8E-17 106.7 11.3 125 251-377 1-130 (130) 66 COG3851 UhpB Signal transducti 99.4 3.6E-10 9.2E-15 91.3 22.1 189 544-766 304-494 (497) 67 PRK11091 aerobic respiration c 99.3 1.2E-11 3E-16 102.0 10.0 146 99-260 133-287 (779) 68 PRK10060 RNase II stability mo 99.3 8.5E-10 2.2E-14 88.7 18.1 155 257-415 113-288 (663) 69 pfam00512 HisKA His Kinase A ( 99.3 8.8E-12 2.2E-16 103.0 7.4 66 542-611 1-66 (66) 70 COG4564 Signal transduction hi 99.3 6.6E-08 1.7E-12 75.0 26.2 181 554-766 262-447 (459) 71 KOG0787 consensus 99.2 4.3E-09 1.1E-13 83.6 18.3 200 561-764 154-378 (414) 72 PRK13557 histidine kinase; Pro 99.1 1.4E-08 3.5E-13 79.9 16.8 114 126-255 36-157 (538) 73 TIGR02938 nifL_nitrog nitrogen 99.1 4.3E-10 1.1E-14 90.8 9.0 256 126-398 12-287 (496) 74 smart00388 HisKA His Kinase A 99.1 7.5E-10 1.9E-14 89.0 8.3 65 543-611 2-66 (66) 75 cd00082 HisKA Histidine Kinase 99.0 1.4E-09 3.5E-14 87.2 6.7 64 541-607 2-65 (65) 76 cd00130 PAS PAS domain; PAS mo 99.0 2.3E-08 5.9E-13 78.3 12.4 101 265-367 2-103 (103) 77 PRK10060 RNase II stability mo 98.9 1.2E-07 3.1E-12 73.1 15.4 150 126-295 119-291 (663) 78 pfam00989 PAS PAS fold. The PA 98.9 7.4E-09 1.9E-13 81.9 7.9 93 382-474 1-98 (112) 79 COG1389 DNA topoisomerase VI, 98.9 2.5E-08 6.3E-13 78.1 9.5 29 579-607 498-528 (538) 80 PRK11006 phoR phosphate regulo 98.8 7.8E-07 2E-11 67.2 15.2 125 237-378 80-205 (431) 81 COG2202 AtoS FOG: PAS/PAC doma 98.8 1.1E-06 2.8E-11 66.2 15.9 135 238-374 95-232 (232) 82 PRK04184 DNA topoisomerase VI 98.7 1.8E-07 4.5E-12 71.9 9.2 57 107-164 38-97 (533) 83 PRK11360 sensory histidine kin 98.6 1E-06 2.6E-11 66.4 12.1 130 248-382 254-384 (607) 84 PRK13559 hypothetical protein; 98.6 1.5E-05 3.8E-10 58.0 17.5 125 352-486 23-161 (363) 85 pfam08448 PAS_4 PAS fold. The 98.6 2E-07 5E-12 71.6 7.8 102 388-489 1-110 (110) 86 PRK04069 serine-protein kinase 98.6 1.4E-06 3.4E-11 65.5 11.7 97 659-763 41-140 (158) 87 TIGR01052 top6b DNA topoisomer 98.6 2.4E-07 6.1E-12 71.0 7.2 35 381-415 196-231 (662) 88 PRK11073 glnL nitrogen regulat 98.5 3.5E-06 9E-11 62.5 12.8 118 258-383 10-127 (348) 89 COG3829 RocR Transcriptional r 98.5 1.8E-05 4.6E-10 57.4 15.8 136 238-385 99-237 (560) 90 TIGR02040 PpsR-CrtJ transcript 98.5 7.4E-06 1.9E-10 60.2 13.6 275 127-432 5-312 (453) 91 TIGR01925 spIIAB anti-sigma F 98.4 1E-06 2.6E-11 66.4 7.8 94 659-763 38-135 (137) 92 KOG3558 consensus 98.4 2.2E-06 5.5E-11 64.1 9.2 218 127-370 128-379 (768) 93 TIGR00229 sensory_box PAS doma 98.4 2E-06 5.1E-11 64.3 8.9 113 379-491 2-127 (130) 94 PRK10841 hybrid sensory kinase 98.4 0.00028 7.2E-09 48.8 25.1 178 181-382 282-461 (947) 95 COG2202 AtoS FOG: PAS/PAC doma 98.4 0.0001 2.6E-09 52.0 16.6 190 269-464 3-198 (232) 96 KOG0519 consensus 98.3 1E-06 2.6E-11 66.4 5.7 225 524-751 367-619 (786) 97 PRK00095 mutL DNA mismatch rep 98.3 2.4E-06 6.1E-11 63.8 6.1 25 658-682 571-595 (612) 98 COG2172 RsbW Anti-sigma regula 98.2 2.2E-05 5.6E-10 56.8 10.9 96 657-763 37-140 (146) 99 smart00086 PAC Motif C-termina 98.2 2.8E-06 7.3E-11 63.2 6.1 42 329-370 1-43 (43) 100 KOG3558 consensus 98.2 3.7E-05 9.4E-10 55.2 10.8 185 256-454 119-336 (768) 101 TIGR02040 PpsR-CrtJ transcript 98.1 1.5E-05 3.9E-10 57.9 8.1 163 300-462 39-222 (453) 102 PRK13558 bacterio-opsin activa 98.1 0.00017 4.4E-09 50.3 13.5 125 123-263 163-295 (674) 103 smart00091 PAS PAS domain. PAS 98.0 9.5E-06 2.4E-10 59.4 5.1 61 256-318 2-62 (67) 104 COG5002 VicK Signal transducti 98.0 0.0017 4.4E-08 43.1 16.4 134 238-380 93-228 (459) 105 COG3829 RocR Transcriptional r 98.0 0.0016 4.1E-08 43.3 16.0 161 258-431 4-166 (560) 106 COG3290 CitA Signal transducti 97.9 0.0025 6.3E-08 42.0 19.3 286 75-384 38-334 (537) 107 smart00091 PAS PAS domain. PAS 97.8 6.5E-05 1.7E-09 53.4 6.5 56 382-437 1-56 (67) 108 TIGR00585 mutl DNA mismatch re 97.8 7.8E-05 2E-09 52.8 6.8 56 660-718 22-77 (367) 109 TIGR02966 phoR_proteo phosphat 97.7 0.0005 1.3E-08 47.0 10.0 115 253-379 4-120 (339) 110 PRK10820 DNA-binding transcrip 97.7 0.0032 8E-08 41.2 13.3 109 252-370 77-188 (513) 111 PRK10820 DNA-binding transcrip 97.6 0.002 5.1E-08 42.7 11.7 39 128-166 90-128 (513) 112 pfam10090 DUF2328 Uncharacteri 97.6 0.0079 2E-07 38.3 18.8 177 559-760 2-179 (181) 113 KOG3559 consensus 97.6 0.00021 5.3E-09 49.8 6.1 216 128-375 89-337 (598) 114 cd00130 PAS PAS domain; PAS mo 97.5 0.00085 2.2E-08 45.3 8.7 84 391-474 1-88 (103) 115 KOG3560 consensus 97.5 0.00024 6.2E-09 49.3 5.9 222 128-369 121-385 (712) 116 PRK09959 hybrid sensory histid 97.5 0.00075 1.9E-08 45.7 7.9 147 235-384 556-705 (1197) 117 COG5385 Uncharacterized protei 97.5 0.011 2.8E-07 37.3 18.2 193 546-765 18-213 (214) 118 COG0323 MutL DNA mismatch repa 97.3 0.00042 1.1E-08 47.6 5.2 51 614-664 501-551 (638) 119 PTZ00272 heat shock protein 83 97.3 0.0018 4.7E-08 42.9 8.0 27 130-159 63-89 (701) 120 PRK11086 sensory histidine kin 97.0 0.03 7.6E-07 34.2 27.2 291 65-381 34-336 (541) 121 COG0326 HtpG Molecular chapero 97.0 0.0015 3.9E-08 43.5 5.1 95 618-715 452-552 (623) 122 TIGR01924 rsbW_low_gc anti-sig 97.0 0.002 5E-08 42.7 5.6 91 660-756 43-137 (161) 123 PRK05218 heat shock protein 90 96.9 0.0014 3.6E-08 43.7 4.6 28 129-159 62-89 (612) 124 KOG3559 consensus 96.8 0.013 3.3E-07 36.8 8.9 180 266-468 89-303 (598) 125 PTZ00130 heat shock protein 90 96.3 0.0073 1.9E-07 38.6 4.7 27 680-706 653-679 (824) 126 COG5000 NtrY Signal transducti 96.3 0.091 2.3E-06 30.7 17.4 129 245-381 360-488 (712) 127 KOG0501 consensus 96.2 0.012 2.9E-07 37.2 5.1 103 263-372 32-138 (971) 128 pfam08447 PAS_3 PAS fold. The 96.1 0.02 5.2E-07 35.4 6.2 75 404-478 1-84 (90) 129 COG5381 Uncharacterized protei 96.1 0.016 4E-07 36.2 5.5 90 655-748 54-158 (184) 130 PRK10364 sensor protein ZraS; 95.8 0.15 3.8E-06 29.1 16.6 102 45-154 12-114 (455) 131 KOG3560 consensus 94.3 0.39 1E-05 26.1 16.4 71 399-469 290-362 (712) 132 KOG3753 consensus 94.3 0.055 1.4E-06 32.3 3.7 41 400-440 339-379 (1114) 133 KOG0019 consensus 93.9 0.094 2.4E-06 30.6 4.3 21 681-701 535-555 (656) 134 KOG3561 consensus 93.8 0.11 2.9E-06 30.0 4.5 329 125-467 102-450 (803) 135 PTZ00108 DNA topoisomerase II; 93.7 0.082 2.1E-06 31.0 3.6 17 265-281 821-837 (1506) 136 PTZ00109 DNA gyrase subunit b; 93.7 0.019 4.8E-07 35.6 0.4 43 326-368 409-452 (941) 137 pfam07310 PAS_5 PAS domain. Th 93.4 0.55 1.4E-05 25.1 8.6 94 266-364 40-136 (137) 138 TIGR01058 parE_Gpos DNA topois 93.3 0.15 3.7E-06 29.2 4.5 44 320-363 248-291 (655) 139 KOG1979 consensus 93.3 0.13 3.4E-06 29.5 4.2 29 110-138 26-54 (694) 140 KOG0020 consensus 93.2 0.21 5.2E-06 28.1 5.0 12 265-276 324-335 (785) 141 COG3283 TyrR Transcriptional r 93.1 0.61 1.6E-05 24.7 9.5 39 128-166 90-128 (511) 142 KOG1977 consensus 92.4 0.39 1E-05 26.1 5.6 16 729-744 1067-1082(1142) 143 TIGR01059 gyrB DNA gyrase, B s 92.3 0.11 2.9E-06 30.0 2.7 124 546-674 609-746 (818) 144 TIGR01055 parE_Gneg DNA topois 92.3 0.1 2.6E-06 30.3 2.5 60 328-397 258-318 (647) 145 PRK05559 DNA topoisomerase IV 92.3 0.015 3.9E-07 36.3 -1.8 39 330-368 252-290 (633) 146 smart00433 TOP2c Topoisomerase 92.2 0.02 5E-07 35.5 -1.3 39 330-368 219-257 (594) 147 pfam08269 Cache_2 Cache domain 91.3 0.98 2.5E-05 23.2 7.8 79 78-159 8-86 (95) 148 PRK13374 purine nucleoside pho 91.2 0.63 1.6E-05 24.6 5.5 10 307-316 19-28 (233) 149 PRK05819 deoD purine nucleosid 90.2 0.87 2.2E-05 23.6 5.5 10 307-316 18-27 (235) 150 PRK05644 gyrB DNA gyrase subun 89.6 0.035 9E-07 33.6 -2.0 42 327-368 255-296 (725) 151 pfam08348 PAS_6 YheO-like PAS 89.4 1.4 3.6E-05 22.1 7.6 49 327-377 67-116 (118) 152 COG0187 GyrB Type IIA topoisom 88.1 0.086 2.2E-06 30.8 -0.8 37 327-363 252-288 (635) 153 COG2461 Uncharacterized conser 86.1 0.92 2.3E-05 23.4 3.5 107 381-490 289-401 (409) 154 pfam08670 MEKHLA MEKHLA domain 83.0 2.9 7.4E-05 19.8 7.9 50 384-434 34-85 (148) 155 TIGR01815 TrpE-clade3 anthrani 81.1 0.56 1.4E-05 25.0 0.7 88 665-765 536-636 (726) 156 KOG0355 consensus 80.6 2.4 6.2E-05 20.4 3.8 83 659-747 712-812 (842) 157 TIGR02373 photo_yellow photoac 80.4 1.8 4.5E-05 21.4 3.1 56 386-441 22-77 (126) 158 PRK11388 DNA-binding transcrip 80.1 3.6 9.2E-05 19.1 20.2 60 238-297 183-245 (639) 159 KOG0859 consensus 78.3 3.7 9.5E-05 19.0 4.2 12 594-605 140-151 (217) 160 PRK03124 S-adenosylmethionine 76.4 4.6 0.00012 18.4 6.4 83 643-725 7-108 (127) 161 KOG1229 consensus 74.4 1.5 3.9E-05 21.8 1.3 35 130-164 169-203 (775) 162 PRK09966 hypothetical protein; 69.4 6.6 0.00017 17.2 15.5 66 74-145 40-105 (407) 163 pfam05127 DUF699 Putative ATPa 69.2 4 0.0001 18.8 2.5 44 693-736 76-120 (160) 164 COG0093 RplN Ribosomal protein 66.7 6.7 0.00017 17.2 3.2 30 333-362 68-100 (122) 165 TIGR01622 SF-CC1 splicing fact 64.8 8 0.00021 16.6 3.7 26 136-161 126-151 (531) 166 PRK02770 S-adenosylmethionine 64.8 8 0.00021 16.6 5.6 81 641-721 18-117 (139) 167 TIGR02865 spore_II_E stage II 64.5 8.2 0.00021 16.6 4.3 122 595-734 435-584 (794) 168 PRK01706 S-adenosylmethionine 56.5 11 0.00028 15.6 6.2 75 643-717 9-103 (123) 169 TIGR02470 sucr_synth sucrose s 56.3 11 0.00028 15.7 2.8 88 654-757 601-694 (790) 170 PRK00529 elongation factor P; 56.1 11 0.00029 15.6 4.7 58 650-707 77-143 (186) 171 pfam07568 HisKA_2 Histidine ki 55.8 11 0.00029 15.6 8.6 73 550-635 2-74 (76) 172 PRK11178 uridine phosphorylase 54.0 12 0.00031 15.4 5.0 11 306-316 21-31 (251) 173 TIGR02035 D_Ser_am_lyase D-ser 53.1 4.8 0.00012 18.2 0.5 26 100-125 32-57 (431) 174 pfam11212 DUF2999 Protein of u 52.2 13 0.00033 15.2 3.9 54 555-615 27-81 (82) 175 TIGR01067 rplN_bact ribosomal 49.8 14 0.00035 14.9 3.0 31 333-363 74-107 (128) 176 COG0397 Uncharacterized conser 49.0 14 0.00036 14.8 4.8 23 136-158 31-53 (488) 177 TIGR00868 hCaCC calcium-activa 44.9 16 0.00042 14.4 2.7 30 689-718 646-675 (874) 178 PRK12299 obgE GTPase ObgE; Rev 44.9 16 0.00042 14.4 5.8 12 622-633 315-326 (334) 179 KOG1135 consensus 44.5 6.1 0.00016 17.5 -0.1 47 654-705 696-743 (764) 180 PRK13719 conjugal transfer tra 44.4 17 0.00043 14.3 8.7 41 380-420 17-57 (220) 181 COG1444 Predicted P-loop ATPas 44.3 17 0.00043 14.3 2.5 19 326-344 383-403 (758) 182 PTZ00054 60S ribosomal protein 43.6 17 0.00044 14.3 5.1 32 332-363 85-119 (139) 183 TIGR01634 tail_P2_I phage tail 43.5 13 0.00034 15.1 1.5 82 298-383 48-131 (139) 184 PRK12297 obgE GTPase ObgE; Rev 43.2 17 0.00044 14.2 5.8 12 265-276 90-101 (429) 185 TIGR03330 SAM_DCase_Bsu S-aden 43.0 17 0.00045 14.2 5.5 74 644-717 7-99 (112) 186 TIGR02789 nickel_nikB nickel A 42.5 15 0.00038 14.6 1.7 13 379-391 223-235 (315) 187 PRK13858 type IV secretion sys 42.4 18 0.00046 14.1 5.5 73 554-636 55-136 (148) 188 TIGR01818 ntrC nitrogen regula 41.6 18 0.00047 14.0 3.6 36 534-569 310-346 (471) 189 PRK00029 hypothetical protein; 40.8 19 0.00048 14.0 4.1 23 136-158 31-53 (487) 190 TIGR02749 prenyl_cyano solanes 40.3 19 0.00048 13.9 1.9 25 373-397 166-190 (325) 191 pfam02675 AdoMet_dc S-adenosyl 39.9 19 0.0005 13.9 5.5 66 652-717 11-94 (107) 192 PRK08383 putative monovalent c 39.6 20 0.0005 13.8 4.2 52 665-718 108-160 (167) 193 COG3284 AcoR Transcriptional a 38.6 20 0.00052 13.7 6.0 55 238-292 198-259 (606) 194 PRK07831 short chain dehydroge 38.6 18 0.00045 14.1 1.6 25 359-383 69-93 (261) 195 COG0536 Obg Predicted GTPase [ 38.3 20 0.00052 13.7 4.6 16 621-636 320-335 (369) 196 PRK12298 obgE GTPase ObgE; Rev 36.1 22 0.00056 13.5 5.7 13 622-634 321-333 (380) 197 TIGR00107 deoD purine nucleosi 35.8 22 0.00057 13.4 2.4 61 257-327 79-146 (234) 198 TIGR03673 rpl14p_arch 50S ribo 35.4 23 0.00058 13.4 3.6 34 332-365 77-113 (131) 199 PRK03578 hscB co-chaperone Hsc 35.1 14 0.00036 14.8 0.6 30 280-309 4-39 (176) 200 COG2200 Rtn c-di-GMP phosphodi 34.8 23 0.00059 13.3 7.7 22 720-741 178-199 (256) 201 PRK06841 short chain dehydroge 34.0 24 0.00061 13.2 1.6 22 362-383 65-86 (255) 202 PRK11564 stationary phase indu 33.8 24 0.00061 13.2 6.5 20 620-639 254-273 (426) 203 TIGR01605 PYST-D Plasmodium yo 33.7 22 0.00056 13.5 1.4 11 731-741 13-23 (55) 204 PRK01356 hscB co-chaperone Hsc 33.7 22 0.00057 13.4 1.4 27 283-309 3-35 (166) 205 COG5388 Uncharacterized protei 33.2 24 0.00062 13.1 4.0 82 282-368 78-160 (209) 206 PRK12426 elongation factor P; 33.2 24 0.00062 13.1 3.5 52 653-704 80-140 (185) 207 PRK08571 rpl14p 50S ribosomal 33.1 24 0.00062 13.1 5.2 33 332-364 78-113 (132) 208 PRK06935 2-deoxy-D-gluconate 3 33.1 25 0.00063 13.1 1.6 22 360-381 65-86 (258) 209 pfam03281 Mab-21 Mab-21 protei 32.2 25 0.00065 13.0 3.8 14 621-634 335-348 (360) 210 TIGR01120 rpiB ribose 5-phosph 31.2 15 0.00038 14.7 0.2 40 634-675 18-59 (143) 211 KOG3938 consensus 30.9 27 0.00068 12.9 2.7 34 252-289 77-110 (334) 212 pfam07328 VirD1 T-DNA border e 30.3 27 0.00069 12.8 5.5 41 554-604 55-95 (147) 213 TIGR01108 oadA oxaloacetate de 29.7 28 0.00071 12.7 5.5 167 243-421 6-199 (616) 214 pfam08446 PAS_2 PAS fold. The 29.4 28 0.00072 12.7 8.3 24 400-423 24-47 (107) 215 PRK01773 hscB co-chaperone Hsc 29.3 25 0.00063 13.1 1.1 27 283-309 3-35 (173) 216 KOG4426 consensus 28.3 29 0.00074 12.6 1.4 69 560-633 512-589 (656) 217 pfam01899 MNHE Na+/H+ ion anti 28.1 29 0.00075 12.6 4.3 51 664-717 48-98 (106) 218 TIGR02386 rpoC_TIGR DNA-direct 28.1 29 0.00075 12.6 1.3 11 654-664 854-864 (1552) 219 KOG0242 consensus 28.1 30 0.00075 12.5 2.8 13 280-292 143-155 (675) 220 TIGR02451 anti_sig_ChrR anti-s 28.0 25 0.00063 13.1 0.9 25 692-717 208-232 (234) 221 KOG2036 consensus 27.8 30 0.00076 12.5 2.6 82 584-666 882-968 (1011) 222 PRK06114 short chain dehydroge 27.4 30 0.00077 12.5 1.6 19 362-380 70-88 (262) 223 TIGR00021 rpiA ribose 5-phosph 27.4 30 0.00077 12.5 3.7 55 652-711 137-195 (236) 224 MTH00204 ND4 NADH dehydrogenas 27.1 31 0.00078 12.4 1.6 17 663-679 469-485 (486) 225 PRK00294 hscB co-chaperone Hsc 26.9 28 0.00072 12.7 1.0 29 281-309 3-37 (173) 226 KOG3491 consensus 26.9 31 0.00079 12.4 2.6 23 51-73 37-59 (65) 227 TIGR02885 spore_sigF RNA polym 26.9 31 0.00079 12.4 4.9 59 245-317 94-158 (231) 228 TIGR02110 PQQ_syn_pqqF coenzym 26.1 15 0.00037 14.8 -0.6 30 107-136 170-199 (737) 229 TIGR02748 GerC3_HepT heptapren 25.9 32 0.00082 12.3 1.5 99 228-334 52-157 (325) 230 PRK00458 S-adenosylmethionine 25.5 33 0.00083 12.2 4.8 73 644-716 19-112 (127) 231 PRK04542 elongation factor P; 25.1 33 0.00085 12.2 4.2 25 396-420 74-98 (189) 232 pfam08066 PMC2NT PMC2NT (NUC01 25.0 33 0.00085 12.2 5.1 53 582-635 24-76 (91) 233 PRK04025 S-adenosylmethionine 25.0 33 0.00085 12.2 5.8 74 643-716 7-100 (139) 234 PRK06124 gluconate 5-dehydroge 24.9 33 0.00085 12.2 1.6 23 654-676 222-244 (259) 235 PRK05014 hscB co-chaperone Hsc 24.7 34 0.00086 12.1 1.1 26 284-309 3-34 (171) 236 KOG3822 consensus 24.5 34 0.00087 12.1 4.0 11 396-406 210-220 (516) 237 pfam03671 Ufm1 Ubiquitin fold 24.4 34 0.00087 12.1 1.0 19 695-713 47-66 (76) 238 PRK02991 D-serine dehydratase; 24.0 14 0.00036 14.8 -1.0 21 104-124 43-63 (443) 239 TIGR00459 aspS_bact aspartyl-t 23.9 33 0.00083 12.2 0.9 91 651-752 514-613 (653) 240 COG1666 Uncharacterized protei 23.9 35 0.00089 12.0 6.7 66 619-684 12-83 (165) 241 COG1134 TagH ABC-type polysacc 23.7 35 0.00089 12.0 2.8 16 552-567 122-137 (249) 242 PRK07985 oxidoreductase; Provi 23.6 35 0.0009 12.0 1.5 13 365-377 107-119 (294) 243 PRK09804 putative cryptic C4-d 23.5 14 0.00035 14.9 -1.1 21 543-563 302-322 (455) 244 pfam04701 Pox_D2 Pox virus D2 23.5 35 0.0009 12.0 2.6 50 628-678 81-133 (143) 245 COG1586 SpeD S-adenosylmethion 23.0 36 0.00092 11.9 5.1 62 653-714 28-108 (136) 246 cd06447 D-Ser-dehyd D-Serine d 22.7 16 0.00042 14.4 -0.9 18 107-124 21-38 (404) 247 TIGR00658 orni_carb_tr ornithi 22.6 37 0.00094 11.8 1.4 20 311-330 204-223 (341) 248 PRK02625 DNA-directed RNA poly 22.2 28 0.00072 12.7 0.3 51 337-390 238-293 (627) 249 PRK06701 short chain dehydroge 22.1 38 0.00096 11.8 1.5 24 361-384 98-121 (289) 250 TIGR02986 restrict_Alw26I type 22.0 38 0.00096 11.8 1.2 65 264-336 25-103 (461) 251 pfam07492 Trehalase_Ca-bi Neut 21.6 38 0.00098 11.7 1.7 15 689-703 10-24 (30) 252 PRK12820 bifunctional aspartyl 21.2 28 0.00072 12.7 0.1 15 129-143 37-51 (706) 253 TIGR01433 CyoA ubiquinol oxida 21.1 39 0.001 11.6 1.6 22 215-236 35-56 (228) 254 PRK06128 oxidoreductase; Provi 21.0 39 0.001 11.6 1.5 18 363-380 111-128 (300) 255 PRK11034 clpA ATP-dependent Cl 20.8 40 0.001 11.6 9.6 82 620-701 656-750 (758) 256 PRK05483 rplN 50S ribosomal pr 20.8 40 0.001 11.6 4.0 32 332-363 67-101 (122) 257 cd06257 DnaJ DnaJ domain or J- 20.6 40 0.001 11.6 1.3 26 284-309 2-31 (55) No 1 >PRK11091 aerobic respiration control sensor protein ArcB; Provisional Probab=100.00 E-value=0 Score=615.49 Aligned_cols=362 Identities=25% Similarity=0.381 Sum_probs=329.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHH Q ss_conf 89999999999999999999999722597459897689789997889977299943305898899976081205899999 Q gi|254780903|r 238 RQAKKNKENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIA 317 (766) Q Consensus 238 ~dit~~r~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a 317 (766) ..+.+|++++..|.+....+|.+++++|+.+|--|+++.++-+|++|++++|++.++..+. +-.+++.|+-.+.+... T Consensus 138 ~e~~~r~~~q~~l~~~~~llRs~~D~~Pdli~~rd~~g~f~gCNrafe~~~G~~e~eliG~--t~~d~~~~e~a~~~~~~ 215 (779) T PRK11091 138 NEIKEREETQIELEQQSSLLRSFLDASPDLVYYRNEDGEFSGCNRAMELLTGKSEKQLVGL--TPKDVYSPEAAEKVIET 215 (779) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCHHHHHHHCCCHHHHCCC--CHHHHCCHHHHHHHHHH T ss_conf 9999989999999998899998850287515787798765341099998809998998499--83552799889999973 Q ss_pred HHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEE Q ss_conf 99972489848999998869898899889999998379606-99999844617999999999999999999985445515 Q gi|254780903|r 318 RSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEALV 396 (766) Q Consensus 318 ~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i~ 396 (766) .+.+.+.+.+...|-++..+||+..|+..+-.|++|..|++ +++|+.+||||||++|++| T Consensus 216 D~~v~~~~~~~~~e~w~~~~dG~~~~~e~~k~P~~d~~g~~~G~~g~~rDITerk~aeeaL------------------- 276 (779) T PRK11091 216 DEKVFRHNVSLTYEQWLDYPDGRKACFELRKVPFYDRVGKRHGLMGFGRDITERKRYQDAL------------------- 276 (779) T ss_pred HHHHHHCCCCCEEEEEEECCCCCEEEEEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHH------------------- T ss_conf 8999864798211134664898667899864013538997887863001601778999999------------------- Q ss_pred EECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCCCCCEEEEEEECCCEEEEECCEECCCCC Q ss_conf 88349969970178988839997894289717881652013789998521124564058999169628742232456997 Q gi|254780903|r 397 LWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPERSQDMSKEIKLADSRWLQINEWCTHDGG 476 (766) Q Consensus 397 ~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~dg~~~~i~~~~~~dg~ 476 (766) T Consensus 277 -------------------------------------------------------------------------------- 276 (779) T PRK11091 277 -------------------------------------------------------------------------------- 276 (779) T ss_pred -------------------------------------------------------------------------------- T ss_conf -------------------------------------------------------------------------------- Q ss_pred EEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 89998862010001122322222221100001788998644457999999999999999988789999999987675222 Q gi|254780903|r 477 TISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANAKYQVEKERAETANKTKSEFLAKMSHELRT 556 (766) Q Consensus 477 ~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrt 556 (766) |+||++|++|+|+||||||| T Consensus 277 ------------------------------------------------------------E~AsraKS~FLAnMSHEIRT 296 (779) T PRK11091 277 ------------------------------------------------------------EKASRDKTTFISTISHELRT 296 (779) T ss_pred ------------------------------------------------------------HHHHHHHHHHHHHHHHHHCH T ss_conf ------------------------------------------------------------99999999999872687565 Q ss_pred HHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHH Q ss_conf 47899999999860346889938999999999999999999977767788874198301203316999999999999999 Q gi|254780903|r 557 PLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSS 636 (766) Q Consensus 557 PL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~ 636 (766) |||+|+|++++|.+. ++ ++++++|++.|..|+++|+.+|||||||||||+|+++++.++||+.++++++...+.+. T Consensus 297 PLNgIlG~seLL~~t---~L-~~eQre~l~~I~~S~~~Ll~LINDILD~SKIEaGkl~l~~~~fdl~~ll~~v~~~~~~~ 372 (779) T PRK11091 297 PLNGIVGLSRMLLDT---EL-TAEQEKYLKTIHVSAITLGNIFNDIIDMDKMDRRKLQLDNQPVDFTDFLADLENLSGLQ 372 (779) T ss_pred HHHHHHHHHHHHHCC---CC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHHHHHHHHH T ss_conf 399999999998079---99-99999999999999999999999999999996699678877675999999999999999 Q ss_pred HHHCCCEEEEEECCCCE--EEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEE-CCEEEEEEEECCCCCCHHHHHHHC Q ss_conf 98479589998089978--998689999999998865653468988899999997-998999999788978977854304 Q gi|254780903|r 637 AQSKNIKIEKKIPSELF--FNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKI-GQCVIITIADTGIGIPKSALEKIG 713 (766) Q Consensus 637 ~~~k~i~l~~~~~~~l~--v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~-~~~v~i~V~D~G~GI~~e~~~~iF 713 (766) +.+|++.+.+++++++| +.+|+.+|+|||.||++||+|||+. |.|++++... ++.++|+|+|||+|||++.+++|| T Consensus 373 A~~Kgl~l~~~~~~~lP~~v~gD~~RLrQIL~NLlsNAIKFT~~-G~V~l~v~~~~~~~l~f~V~DTGiGI~~e~l~~IF 451 (779) T PRK11091 373 AEQKGLRFDLEPLLPLPHKVITDGTRLRQILWNLISNAVKFTQQ-GQVTVRVRYEDGDMLHFEVEDSGIGIPEDELDKIF 451 (779) T ss_pred HHHCCCEEEEEECCCCCCEEECCHHHHHHHHHHHHHHHHHCCCC-CCEEEEEEECCCCEEEEEEEECCCCCCHHHHHHHH T ss_conf 99749889999789998628638999999999999999773899-97799999827988999999579999999999870 Q ss_pred CCEEECCCCCCC-CCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf 650531467556-7788761689999999962986999979899529999735 Q gi|254780903|r 714 QPFEPLHNQYDQ-SIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 714 ~pF~q~~~~~t~-~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) +||+|++++.++ .++||||||+|||+||++|||+|+|+|++|+||||+|+|| T Consensus 452 ~~F~Q~~~s~~~r~~~GTGLGLaI~k~LvelMGG~I~V~S~~G~GStFt~~Lp 504 (779) T PRK11091 452 AMYYQVKDSHGGKPATGTGIGLAVSRRLAQNMGGDITVTSEEGKGSTFTLTIH 504 (779) T ss_pred CCCEECCCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCEEEEEEE T ss_conf 57560667877767788760799999999984997999955998717999997 No 2 >PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional Probab=100.00 E-value=0 Score=586.81 Aligned_cols=337 Identities=24% Similarity=0.346 Sum_probs=297.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHEEEEC-CCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCCC Q ss_conf 9999999999999999985445515883-499699701789888399978942897178816520137899985211245 Q gi|254780903|r 372 HLEKRYAEADQRLSKAIECTSEALVLWD-KNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPERS 450 (766) Q Consensus 372 ~ae~~l~ese~rlr~~ie~~~~~i~~~D-~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 450 (766) +...+|.|+|+.-|.+++++|.|+++.. .||..+..|..+...+..-. +.++ .......+ .. T Consensus 347 ~~a~~l~e~e~fnr~~i~~apvg~~~l~~~dg~~~~~n~~~~~~~~~~~-------------~~~~-~~~~~~~~---~~ 409 (947) T PRK10841 347 SNALRLEEHEQFNRKIVASAPVGICILRTSDGTNILSNELAHNYLNMLT-------------HEDR-QRLTQIIC---GQ 409 (947) T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCEEECHHHHHHHHHHCC-------------CCHH-HHHHHHHH---CC T ss_conf 7788998788877889861771379997068863310389999876237-------------5528-99999986---13 Q ss_pred CCEEEEEEECCCEEEEECCEECCCCC---EEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH Q ss_conf 64058999169628742232456997---899988620100011223222222211000017889986444579999999 Q gi|254780903|r 451 QDMSKEIKLADSRWLQINEWCTHDGG---TISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANA 527 (766) Q Consensus 451 ~~~~~e~~~~dg~~~~i~~~~~~dg~---~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~ 527 (766) ..-..++...+++.++++-.+++..| .+++..||+.+ +++++ T Consensus 410 ~~~~~~~~~~~~~~l~~~~~~~ry~~~~v~~c~~~Disar-----------------------------------~~~e~ 454 (947) T PRK10841 410 QVNFVDVLTSNNTNLQISFVHSRYRNENVAICVLVDVSAR-----------------------------------VKMEE 454 (947) T ss_pred CCCCEEEEECCCCEEEEEEEEEEECCCCEEEEEEEECHHH-----------------------------------HHHHH T ss_conf 7883489935985799998653126860799999854078-----------------------------------99999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999988789999999987675222478999999998603468899389999999999999999999777677888 Q gi|254780903|r 528 KYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSK 607 (766) Q Consensus 528 ~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~sr 607 (766) .|++.++.||+||++||+|||+||||||||||+|+|++|||++. ++ ++++++|++.|+.|++.|+.+||||||||| T Consensus 455 ~L~~a~~AAE~AN~AKS~FLAnMSHEIRTPLnGIlG~lELL~~t---~L-~~~Qr~~l~tI~~Ss~~LL~lINDILDfSK 530 (947) T PRK10841 455 SLQEMAQAAEQASQSKSMFLATVSHELRTPLYGIIGNLDLLQTK---EL-PKGVDRLVTAMNNSSSLLLKIISDILDFSK 530 (947) T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCHHHCHHHHHHHHHHHHHCCC---CC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999999999998998758564361289999999998079---99-989999999999999999999999999998 Q ss_pred HHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE--EEECHHHHHHHHHHHHHHHHHCCCCCCEEEEE Q ss_conf 7419830120331699999999999999998479589998089978--99868999999999886565346898889999 Q gi|254780903|r 608 IETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF--FNADKRIIKKILFPILSNSIKFTNNNGKMMIR 685 (766) Q Consensus 608 ieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~--v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~ 685 (766) ||+|+++++.++||+.++++++...+.+.+.+|++.|...+++++| +.+|+.+|+|||.||++||||||+. |.|.|+ T Consensus 531 IEAGkl~Le~~~F~l~~lv~~v~~~~~~~A~~K~L~L~~~idp~vP~~v~GDp~RLrQIL~NLLsNAIKFT~~-G~I~L~ 609 (947) T PRK10841 531 IESEQLKIEPREFSPREVMNHITANYLPLVVKKQLGLYCFIEPDVPVSLNGDPMRLQQVISNLLSNAIKFTDT-GCIILH 609 (947) T ss_pred HHCCCCEEEEECCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCEEECHHHHHHHHHHHHHHHEEECCC-CEEEEE T ss_conf 8049847985256899999999999999999739879999799999658606889999999988777466799-589999 Q ss_pred EEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf 99979989999997889789778543046505314675567788761689999999962986999979899529999735 Q gi|254780903|r 686 TSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 686 ~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) ++..+++++|+|+|||+|||++.+++||+||+|++++.++++|||||||+|||+||++|||+|+|+|++|+||+|+|+|| T Consensus 610 V~~~~~~L~fsV~DTGIGIsee~~~~LFepF~QaD~S~tR~yGGTGLGLAI~krLVeLMGG~I~VeSe~G~GStFtf~LP 689 (947) T PRK10841 610 VRVDGDYLSFRVRDTGVGIPAKEVVRLFDPFFQVGTGVQRNFQGTGLGLAICEKLINMMDGDISVDSEPGMGSQFTVRIP 689 (947) T ss_pred EEECCCEEEEEEEECCCCCCHHHHHHHHCHHHCCCCCCCCCCCCCCCHHHHHHHHHHHCCCEEEEEECCCCEEEEEEEEE T ss_conf 99849999999998289989999998847111578754345799874199999999975995899916998079999975 No 3 >PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional Probab=100.00 E-value=0 Score=549.70 Aligned_cols=358 Identities=23% Similarity=0.319 Sum_probs=276.2 Q ss_pred ECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHH--HCCCCCHHHHCCC--HHHHHH Q ss_conf 446179999999999999999999854455158834996997017898883999789--4289717881652--013789 Q gi|254780903|r 365 MDLTEKYHLEKRYAEADQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHV--LVPGNARSIIQDA--QTRPII 440 (766) Q Consensus 365 ~DITErK~ae~~l~ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~--~~~~~~~~~~~~~--~~~~~~ 440 (766) +-|-.||++|.+|++.....+.++|++|.++++.|.+|+++.||.+|+..|+-+... ..+....+..... ...... T Consensus 559 r~ir~R~~ae~~L~~ql~f~~~L~d~iP~pi~v~d~~g~~i~~N~a~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 638 (1197) T PRK09959 559 RSVRRRKVIQGDLENQISFRKALSDSLPNPTYVVNWQGNVISHNSAFEHYFTADYYKNAMLPLENSESPFKDVFSNTHEV 638 (1197) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHCCCHHHHCCCCCCCCCCHHHHHHHHHHHH T ss_conf 99999999999999889999999836998769982556122411888987523144421356532222156777777899 Q ss_pred HHHHHCCCCCCCEEEEEEECCC-------EEEEECCEECCCC-CEEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHH Q ss_conf 9985211245640589991696-------2874223245699-7899988620100011223222222211000017889 Q gi|254780903|r 441 EYRTSDPERSQDMSKEIKLADS-------RWLQINEWCTHDG-GTISVGTDITLLKHNQAQLRESKRRLKATINDLSTSR 512 (766) Q Consensus 441 ~~~~~~~~~~~~~~~e~~~~dg-------~~~~i~~~~~~dg-~~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 512 (766) ..............++ ..+| .|......+..++ ++++...|| T Consensus 639 ~~~~~~~~~~~~~~~~--~~~g~~~~~i~~w~~~~~~~~~~~~~~i~gw~DI---------------------------- 688 (1197) T PRK09959 639 TAETKENRTIYTQVFE--IDNGIEKRCINHWHTLCNLPASDHAVYICGWQDI---------------------------- 688 (1197) T ss_pred HHHHHHCCCCCCEEEE--CCCCCCCEEEEEEEEEECCCCCCCEEEECCEEEH---------------------------- T ss_conf 8753101210001453--0577542367753100037644440101154641---------------------------- Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHH Q ss_conf 98644457999999999999999988789999999987675222478999999998603468899389999999999999 Q gi|254780903|r 513 QILERQKTELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSG 592 (766) Q Consensus 513 ~~~~~~~~~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~ 592 (766) ++.+++++.|+++|++||+||++||+|||+||||||||||+|+|++++|... ++..++..++++.|+.|+ T Consensus 689 -------Terk~~e~~L~~Ak~~Ae~An~AKS~FLA~MSHEIRTPLn~IiG~~eLL~~~---~l~~~q~~~~l~~~~~Sa 758 (1197) T PRK09959 689 -------TETRDLIHALEVERNKAINATVAKSQFLATMSHEIRTPISSIMGFLELLSGS---GLSKEQRVEAISLAYATG 758 (1197) T ss_pred -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHHCC---CCCHHHHHHHHHHHHHHH T ss_conf -------2899999999999999999988888888747353165689999999998468---999899999999999999 Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCC--CEEEECHHHHHHHHHHHHH Q ss_conf 99999977767788874198301203316999999999999999984795899980899--7899868999999999886 Q gi|254780903|r 593 QHLLNMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSE--LFFNADKRIIKKILFPILS 670 (766) Q Consensus 593 ~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~--l~v~~D~~~l~QVl~NLi~ 670 (766) +.|+.||||||||||||+|+++++++++|+.+++++++..+.+.+.+|++.|.++...+ ..+.+|+.+|+|||.||++ T Consensus 759 ~~LL~LInDILD~SKIEaG~l~l~~~~~~l~~li~~v~~~~~~~A~~K~l~l~~~~~~p~~~~v~~D~~Rl~QIL~NLls 838 (1197) T PRK09959 759 QSLLGLIGEILDVDKIESGNYQLQPQWVDIPTLVQNTCHSFGAIAASKSIALSCSSTFPEHYLVKIDPQAFKQVLSNLLS 838 (1197) T ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCEECCCHHHHHHHHHHHHH T ss_conf 99999888889998985388621452017999999999999999996796899955898751352678899999999987 Q ss_pred HHHHCCCCCCEEEEEEEEE--C---CEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCC Q ss_conf 5653468988899999997--9---9899999978897897785430465053146755677887616899999999629 Q gi|254780903|r 671 NSIKFTNNNGKMMIRTSKI--G---QCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHG 745 (766) Q Consensus 671 NAik~t~~~g~I~i~~~~~--~---~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hg 745 (766) ||+|||+. |.|.|++... + ..+.|+|+|||||||++.+++||+||+|++ .+++++||||||+|||++|++|| T Consensus 839 NAIKFT~~-G~V~i~~~~~~~~~~~~~l~~~V~DTGiGI~~~~~~~iF~pF~Q~s--~~r~~~GTGLGLaI~k~LvelMg 915 (1197) T PRK09959 839 NALKFTTE-GAVKITTSLGHIDDNHAVIKMTIMDSGSGLSQEEQQQLFKRYSQTS--AGRQQTGSGLGLMICKELIKNMQ 915 (1197) T ss_pred HHCCCCCC-CEEEEEEEEEECCCCEEEEEEEEEECCCCCCHHHHHHHCCCCCCCC--CCCCCCCCCCHHHHHHHHHHHCC T ss_conf 53746879-7899999986517980699999997787889889975367862477--88788984835999999999879 Q ss_pred CEEEEEEECCCCEEEEEECC Q ss_conf 86999979899529999735 Q gi|254780903|r 746 GRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 746 G~I~v~S~~g~Gttf~i~LP 765 (766) |+|+|+|++|+||+|+|+|| T Consensus 916 G~I~v~S~~G~GS~F~~~lp 935 (1197) T PRK09959 916 GDLSLESHPGIGTTFTITIP 935 (1197) T ss_pred CEEEEEECCCCCEEEEEEEE T ss_conf 92899935999449999997 No 4 >PRK13557 histidine kinase; Provisional Probab=100.00 E-value=0 Score=548.00 Aligned_cols=345 Identities=18% Similarity=0.319 Sum_probs=300.4 Q ss_pred HHHHHHHHHHHCCCCCEEEEEC---CCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCC-CHHHHHHHHHHHHCCCCE Q ss_conf 9999999997225974598976---897899978899772999433058988999760812-058999999997248984 Q gi|254780903|r 252 EANICVETALSRGRCGLWNFNF---DNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYD-NKKICEIARSVTGKHVKQ 327 (766) Q Consensus 252 ese~rl~~al~~a~~GiWd~D~---~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPd-Dr~~~~~a~~~~~~~~~~ 327 (766) +..+.|.++++.+++.+|..|+ ++..+|||+++++|+||+++|..+.. +.-+.||+ |++.+...++.+. .+.. T Consensus 25 ~~~~~~~~~v~~~~~~~~~~d~~~~Dg~I~~vN~af~~~tGYs~eEviGk~--~~~L~~p~~~~~~~~~~~~~i~-~~~~ 101 (538) T PRK13557 25 HRSDIFFAAVETTRMPMIVTDPRQPDNPIVFANRAFLEMTGYAAEEIIGNN--CRFLQGPETDRATVADVRDAIA-ERRE 101 (538) T ss_pred HHHHHHHHHHHHCCCCEEEECCCCCCCEEEEECHHHHHHHCCCHHHHCCCC--HHHCCCCCCCHHHHHHHHHHHH-CCCC T ss_conf 889999999960797389935899998799983999998795999986999--8770898899999999999997-5993 Q ss_pred EEEEEEEECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCEEEE Q ss_conf 8999998869898899889999998379606-999998446179999999999999999999854455158834996997 Q gi|254780903|r 328 LDQIFHMRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEALVLWDKNDRLVM 406 (766) Q Consensus 328 ~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i~~~D~~g~i~~ 406 (766) |..|.+.+++||+.+|+.....|++|++|++ +++|+.+||||||++|++|++++. T Consensus 102 ~~~E~~n~rKDG~~~w~~~~i~pv~d~~G~~~~~~~i~~DITerk~~E~~L~qaqk------------------------ 157 (538) T PRK13557 102 IATEILNYRKDGSSFWNALFVSPVYNDAGDLVYFFGSQLDVSRRRDAEDALRQAQK------------------------ 157 (538) T ss_pred EEEEEEEECCCCCEEEEEEEEEEEECCCCCEEEEEEEEECHHHHHHHHHHHHHHHH------------------------ T ss_conf 68799998799999999989999998999999999988344499999999999999------------------------ Q ss_pred ECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCCCCCEEEEEEECCCEEEEECCEECCCCCEEEEEEEEEH Q ss_conf 01789888399978942897178816520137899985211245640589991696287422324569978999886201 Q gi|254780903|r 407 CNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPERSQDMSKEIKLADSRWLQINEWCTHDGGTISVGTDITL 486 (766) Q Consensus 407 ~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~dg~~~~i~~~~~~dg~~v~v~~~i~~ 486 (766) T Consensus 158 -------------------------------------------------------------------------------- 157 (538) T PRK13557 158 -------------------------------------------------------------------------------- 157 (538) T ss_pred -------------------------------------------------------------------------------- T ss_conf -------------------------------------------------------------------------------- Q ss_pred HHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 00011223222222211000017889986444579999999999999999887899999999876752224789999999 Q gi|254780903|r 487 LKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSE 566 (766) Q Consensus 487 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~e 566 (766) .+++++|+++||||||||||+|+||++ T Consensus 158 -----------------------------------------------------lealg~~~a~isHEirnPL~~I~G~~~ 184 (538) T PRK13557 158 -----------------------------------------------------MEALGQLTGGIAHDFNNLLQVMSGYLD 184 (538) T ss_pred -----------------------------------------------------HHHHHHHHHHHHHHHHCHHHHHHHHHH T ss_conf -----------------------------------------------------999999998878876269999999999 Q ss_pred HHHCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEE Q ss_conf 986034688-9938999999999999999999977767788874198301203316999999999999999984795899 Q gi|254780903|r 567 VIKKEIFGE-LGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIE 645 (766) Q Consensus 567 ll~~~~~~~-~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~ 645 (766) +|......+ ...++..++++.|..+++++..||+++|+||| +..++.+++||+++++++..+++.. ..+++.+. T Consensus 185 lL~~~~~~~~~~~~~~~~~l~~i~~~~~r~~~Li~~lL~fsr----~~~l~~~~~~l~~lv~~~~~l~~~~-~~~~i~l~ 259 (538) T PRK13557 185 VLQMALSKPDADRERIARSVEHIRAAAERAATLTQQLLAFAR----KQKLDGRVVNLNGLVSGMGEMAERT-LGDAVTIE 259 (538) T ss_pred HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC----CCCCCCEEECHHHHHHHHHHHHHHH-HCCCEEEE T ss_conf 998640168889999999999999999999999999999758----2768771772999999999999998-52991999 Q ss_pred EEECCCCE-EEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEE---------------CCEEEEEEEECCCCCCHHHH Q ss_conf 98089978-998689999999998865653468988899999997---------------99899999978897897785 Q gi|254780903|r 646 KKIPSELF-FNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKI---------------GQCVIITIADTGIGIPKSAL 709 (766) Q Consensus 646 ~~~~~~l~-v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~---------------~~~v~i~V~D~G~GI~~e~~ 709 (766) .++++++| +.+|+.+|+|||+||++||+||++++|.|+|+++.. +++++|+|+|||+|||++.+ T Consensus 260 ~~~~~~l~~~~~D~~~l~qvl~NLl~NA~~a~~~gg~i~i~~~~~~~~~~~~~~~~~~~~g~~v~i~V~DtG~GI~~e~~ 339 (538) T PRK13557 260 TDLAPDLWNCRIDPTQAEVALLNVLINARDAMPEGGRVTVRTENVEITEHDLAMYHQLPPGRYVSIAVTDTGSGMPPEIL 339 (538) T ss_pred EEECCCCCEEEECHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEECCCCCCCCCCCCCCCCEEEEEEEECCCCCCHHHH T ss_conf 98079887087558999999999898799865789759999987641542100124578887899999986898898999 Q ss_pred HHHCCCEEECCCCCCCCCC-CCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 4304650531467556778-87616899999999629869999798995299997359 Q gi|254780903|r 710 EKIGQPFEPLHNQYDQSIG-GFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 710 ~~iF~pF~q~~~~~t~~~~-GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) +|||+||| +||..+ ||||||+|||+||++|||+|+|+|++|+||||+|+||. T Consensus 340 ~rIFepFf-----ttk~~~~GtGLGLaIv~~iV~~~gG~I~v~S~~G~GttF~v~lP~ 392 (538) T PRK13557 340 ARVMEPFF-----TTKEEGKGTGLGLSMVYGFAKQSGGAVRIYSEVGEGTTVRLYFPA 392 (538) T ss_pred HHHHCCCE-----EECCCCCCCCCCHHHHHHHHHHCCCEEEEEECCCCCEEEEEEEEC T ss_conf 97725010-----422457877724999999999879959999328987799999867 No 5 >PRK11107 hybrid sensory histidine kinase BarA; Provisional Probab=100.00 E-value=0 Score=507.68 Aligned_cols=235 Identities=34% Similarity=0.529 Sum_probs=218.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999887899999999876752224789999999986034688993899999999999999999997776778 Q gi|254780903|r 526 NAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEM 605 (766) Q Consensus 526 ~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~ 605 (766) +.++..+|++|++||++||+|+||||||||||||+|+||++++.+.. + ++.+++|++.|..++++|+.+||||||| T Consensus 276 n~el~~ak~~A~~A~r~Ks~FLAnmSHEiRTPLn~IiG~~~ll~~~~---l-~~~q~~~l~~i~~s~~~Ll~lIndiLD~ 351 (920) T PRK11107 276 NVELDLAKKRAQEAARIKSEFLANMSHELRTPLNGVIGFTRQTLKTP---L-TPTQRDYLQTIERSANNLLAIINDILDF 351 (920) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCHHHHCHHHHHHHHHHHHHHCCC---C-CHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 89999999999999999999999664865421999999999985699---9-9999999999999999999999999999 Q ss_pred HHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE--EEECHHHHHHHHHHHHHHHHHCCCCCCEEE Q ss_conf 887419830120331699999999999999998479589998089978--998689999999998865653468988899 Q gi|254780903|r 606 SKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF--FNADKRIIKKILFPILSNSIKFTNNNGKMM 683 (766) Q Consensus 606 srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~--v~~D~~~l~QVl~NLi~NAik~t~~~g~I~ 683 (766) ||||+|+++++..+||+.+++++++.++.+.+.+|+++|.+++++++| |.+|+.+|+|||.||++||+|||+. |.|. T Consensus 352 SkiEag~l~le~~~f~l~~~~~~v~~~~~~~a~~k~l~l~~~~~~~~p~~v~gD~~Rl~QIl~NLl~NAiKfT~~-G~I~ 430 (920) T PRK11107 352 SKLEAGKLILENIPFSLRETLDEVVTLLAHSAHEKGLELTLNIDPDVPDNVIGDPLRLQQIITNLVGNAIKFTES-GNID 430 (920) T ss_pred HHHHCCCCEEEECCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCEEECHHHHHHHHHHHHHHHHHCCCC-CCEE T ss_conf 998459836740167899999999999999999739879999789997306538999999999999999971889-9379 Q ss_pred EEEEEEC---C--EEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCE Q ss_conf 9999979---9--8999999788978977854304650531467556778876168999999996298699997989952 Q gi|254780903|r 684 IRTSKIG---Q--CVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGT 758 (766) Q Consensus 684 i~~~~~~---~--~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gt 758 (766) |++.... + .+.|+|+|||+|||++.+++||+||+|+++++++++|||||||+|||+||++|||+|+|+|++|+|| T Consensus 431 v~v~~~~~~~~~~~l~~~V~DTGiGI~~~~~~~iF~~F~q~d~s~~r~~gGtGLGLaI~k~Lv~~mgG~I~v~S~~g~GS 510 (920) T PRK11107 431 ILVELRALSDEKVQLEVQIRDTGIGISERQQSQLFQAFRQADASISRRHGGTGLGLVITQKLVNEMGGDISFHSQPNRGS 510 (920) T ss_pred EEEEEEECCCCEEEEEEEEEEECCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEECCCCCE T ss_conf 99999964798489999999970586999999785420156765445679877429999999998099179995489974 Q ss_pred EEEEECC Q ss_conf 9999735 Q gi|254780903|r 759 IVTICMP 765 (766) Q Consensus 759 tf~i~LP 765 (766) ||+|+|| T Consensus 511 ~F~Ftlp 517 (920) T PRK11107 511 TFWFHLP 517 (920) T ss_pred EEEEEEE T ss_conf 8999998 No 6 >PRK11360 sensory histidine kinase AtoS; Provisional Probab=100.00 E-value=0 Score=487.12 Aligned_cols=335 Identities=26% Similarity=0.374 Sum_probs=255.2 Q ss_pred HHHHHHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHH-HHHHHHCCCCCCCEE Q ss_conf 9999999999999854455158834996997017898883999789428971788165201378-999852112456405 Q gi|254780903|r 376 RYAEADQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPI-IEYRTSDPERSQDMS 454 (766) Q Consensus 376 ~l~ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 454 (766) +|++.......+++++.+|++..|.+|+++.+|+++.+++|++.+++++. ++..+.+...... ....+.......... T Consensus 255 ~L~~~~~~~e~IL~sm~dGVIaiD~~G~I~~~N~~A~~llg~~~~e~ig~-~~~~l~~~~~~~~~~~~~l~~~~~~~~~~ 333 (607) T PRK11360 255 ALREARTLNELIIENAADGIIAIDRQGDITTMNPAAEVITGYQRHELVGQ-PYSMLFDNTQFYSPVLDTLEHGTEHVALE 333 (607) T ss_pred HHHHHHHHHHHHHHHHCCEEEEECCCCCEEEECHHHHHHHCCCHHHHCCC-CHHHHCCCHHHHHHHHHHHHCCCCCCCEE T ss_conf 99999998999986104669999799949998389999858797898596-79995795767799999985377421248 Q ss_pred EEEEECCCE-EEEECCEECCC--C---CEEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 899916962-87422324569--9---78999886201000112232222222110000178899864445799999999 Q gi|254780903|r 455 KEIKLADSR-WLQINEWCTHD--G---GTISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANAK 528 (766) Q Consensus 455 ~e~~~~dg~-~~~i~~~~~~d--g---~~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~ 528 (766) .+....++. ++.++..+..+ | |.+.+..|+|+.++. +++ T Consensus 334 ~~~~~~~~~~~l~~~~s~~~~~~g~~~G~v~~~~DiTe~~~l-----------------------------------e~~ 378 (607) T PRK11360 334 ISFPGRDRTIELSVTTSRLHDTHGEMIGAVVIFSDLTARKRL-----------------------------------QRR 378 (607) T ss_pred EEECCCCCEEEEEEEEEEEECCCCCEEEEEEEEEECCHHHHH-----------------------------------HHH T ss_conf 996058834999999853576898588999999957789999-----------------------------------999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999887899999999876752224789999999986034688993899999999999999999997776778887 Q gi|254780903|r 529 YQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKI 608 (766) Q Consensus 529 l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~sri 608 (766) +. ++|. ..++++|+|++||||||||++|.||+++|.++.. ++..++|++.|.+.++||.++|+|+|+|||. T Consensus 379 l~----~~er-laalGe~~A~vaHElRnPLt~I~g~~elL~~~~~----~~~~~~~l~~i~~e~~Rl~~li~~lL~~sr~ 449 (607) T PRK11360 379 MA----RAER-LAALGELMAGVAHEIRNPLTAIRGYVQILRQQTS----DPIHQEYLSVVLREVDSLNKVIQQLLEFSRP 449 (607) T ss_pred HH----HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 99----9999-9999999999899871549999999999866899----8799999999999999999999999985277 Q ss_pred HCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE-EEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEE Q ss_conf 419830120331699999999999999998479589998089978-9986899999999988656534689888999999 Q gi|254780903|r 609 ETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF-FNADKRIIKKILFPILSNSIKFTNNNGKMMIRTS 687 (766) Q Consensus 609 eag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~-v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~ 687 (766) +.. +.+++|+++++++++..+++.+.++++.+..++++++| +.+|+.+|+|||.||+.||+||+|++|+|+|++. T Consensus 450 ~~~----~~~~v~l~~l~~~~~~~~~~~~~~~~i~l~~~~~~~~~~v~~D~~~l~qvl~NLi~NAi~a~~~~g~I~i~~~ 525 (607) T PRK11360 450 RHS----QWQQVSLNALVEEVLVLVQTAGVQARVDFITELDNELPPINADRELLKQVLLNILINAVQAISARGKIRIRTW 525 (607) T ss_pred CCC----CCCEECHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCCCEEEEEEE T ss_conf 888----8847869999999999999988867968999818988769988899999999999996286289967999999 Q ss_pred EE-CCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf 97-9989999997889789778543046505314675567788761689999999962986999979899529999735 Q gi|254780903|r 688 KI-GQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 688 ~~-~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) .. ++.+.|+|+|||+|||++.++|||+||| |++.+||||||||||+||+.|||+|+|+|++|+||+|+|+|| T Consensus 526 ~~~~~~v~i~V~D~G~GI~~e~~~~IFepF~------ttk~~GtGLGLaI~k~Ive~hgG~I~v~S~~g~GT~F~i~LP 598 (607) T PRK11360 526 QYSDSQQAISIEDNGCGIDLELLKKIFDPFF------TTKASGTGLGLALSQRIINAHQGDIRVASLPGYGTTFTLILP 598 (607) T ss_pred EECCCEEEEEEEECCCCCCHHHHHHHCCCCC------CCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCEEEEEEEE T ss_conf 9369879999998676869899964558975------489998133799999999988998999966999869999980 No 7 >TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR; InterPro: IPR014310 Members of this protein are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter found in most Proteobacteria, and related proteins from Gram-positive organisms are excluded. The phoR gene usually is adjacent to the response regulator phoB gene (IPR011879 from INTERPRO).. Probab=100.00 E-value=0 Score=531.62 Aligned_cols=332 Identities=21% Similarity=0.336 Sum_probs=298.4 Q ss_pred HHHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCC-CCC--EEE Q ss_conf 99999999998544551588349969970178988839997894289717881652013789998521124-564--058 Q gi|254780903|r 379 EADQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPER-SQD--MSK 455 (766) Q Consensus 379 ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~--~~~ 455 (766) ..-.+|+.+++++|+|++++|.++.|.+||++++++||+.-..-.+.. +...-++|.+..+++.... ... ... T Consensus 3 ~~~~rf~~a~~AlPDavv~ld~~~~I~W~N~~A~~~LGl~~p~D~Gq~----i~~l~R~P~F~~yl~~~~~t~~p~~L~~ 78 (339) T TIGR02966 3 ALLSRFRAAAQALPDAVVVLDEEGQIEWCNKAAERLLGLRWPDDLGQR----ITNLIRHPEFVEYLAAGRFTSEPEQLEL 78 (339) T ss_pred HHHHHHHHHHHHCCCEEEEECCCCCEEEEEHHHHHHCCCCCCHHHCCC----HHHHCCCHHHHHHHHCCCCCCCCCCEEE T ss_conf 688999999975898299972898378621488986274273450770----2121057679999733555578853110 Q ss_pred E-EEECCCEEEEECCEECCCCCEEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9-991696287422324569978999886201000112232222222110000178899864445799999999999999 Q gi|254780903|r 456 E-IKLADSRWLQINEWCTHDGGTISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANAKYQVEKE 534 (766) Q Consensus 456 e-~~~~dg~~~~i~~~~~~dg~~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~ 534 (766) . ......+.+.+.-.|..++.++-+..|||.+++ T Consensus 79 ~~~p~~~~~~l~~r~~PY~~~~~Ll~~RDvT~l~r--------------------------------------------- 113 (339) T TIGR02966 79 PDSPINEERVLEIRIMPYGEEQKLLVARDVTRLRR--------------------------------------------- 113 (339) T ss_pred CCCCCCCCCEEEEEEEEECCCCEEEEEECHHHHHH--------------------------------------------- T ss_conf 46888866479999997569837999876368999--------------------------------------------- Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 99887899999999876752224789999999986034688993899999999999999999997776778887419830 Q gi|254780903|r 535 RAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKIS 614 (766) Q Consensus 535 ~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~ 614 (766) ..++..+|+||+|||||||||+|.||+|+|.+.... ..++...+|++.|...++||..||+|||.+||||+.... T Consensus 114 ----Le~mRrDFVANVSHELRTPLTVl~GyLEtl~~~~~~-~~~~~~~~~l~~M~~Q~~RM~~LV~dLL~LSrlE~~~~~ 188 (339) T TIGR02966 114 ----LEQMRRDFVANVSHELRTPLTVLRGYLETLEDGPVD-EDPEEWNRALELMQEQSQRMQSLVEDLLTLSRLESAANP 188 (339) T ss_pred ----HHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC T ss_conf ----986534311445211145403556899975523677-880889999999999999999999999888764157888 Q ss_pred CCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEE-CCCCEEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEE Q ss_conf 1203316999999999999999984795899980-899789986899999999988656534689888999999979989 Q gi|254780903|r 615 IDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKI-PSELFFNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCV 693 (766) Q Consensus 615 ~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~-~~~l~v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v 693 (766) ...++||+..+++.+.+.......+|+.+|.+++ ++++.|.||+.+|+++|.|||+|||||||+||+|+|+.+..++.+ T Consensus 189 ~~~~~V~~~~ll~~l~~~A~~ls~~~~h~I~~~~pd~~~~~~G~e~~L~SAf~NLv~NAikYTp~gg~I~v~W~~~~~ga 268 (339) T TIGR02966 189 PEDEPVDVPALLDHLRDEAEALSQGKQHQITFEIPDAGLDLLGNEDELRSAFSNLVSNAIKYTPEGGTITVRWRRDEGGA 268 (339) T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEE T ss_conf 45565687999999999999997118838999823888530144777999999998875300899887999999857803 Q ss_pred EEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEEC Q ss_conf 99999788978977854304650531467556778876168999999996298699997989952999973 Q gi|254780903|r 694 IITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICM 764 (766) Q Consensus 694 ~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~L 764 (766) +|+|+|||+||||+.++||+|+|||||.+.++..|||||||||||.++++|++++.|+|++|+||||+|.+ T Consensus 269 ~fsV~DtG~GI~~eHipRLTERFYRVD~~RSR~tGGTGLGLAIVKH~L~rH~a~L~I~Se~G~GS~F~~~F 339 (339) T TIGR02966 269 EFSVTDTGIGIAPEHIPRLTERFYRVDKSRSRDTGGTGLGLAIVKHVLSRHHARLEIESELGKGSTFSFIF 339 (339) T ss_pred EEEEEECCCCCCHHHCCCCCCEEEEECHHHCCCCCCCCCHHHHHHHHHHCCCCEEEEEEEECCCEEEEEEC T ss_conf 99998779898731377542001230533415788984336899998741487899998853760688759 No 8 >TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS; InterPro: IPR014302 This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (IPR003594 from INTERPRO), HAMP (IPR003660 from INTERPRO), phosphoacceptor (IPR003661 from INTERPRO), and phosphotransfer (IPR008207 from INTERPRO) domains and a response regulator receiver domain (IPR001789 from INTERPRO).. Probab=100.00 E-value=0 Score=540.48 Aligned_cols=250 Identities=35% Similarity=0.552 Sum_probs=232.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHH Q ss_conf 889986444579999999999-------9999998878999999998767522247899999999860346889938999 Q gi|254780903|r 510 TSRQILERQKTELSIANAKYQ-------VEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYY 582 (766) Q Consensus 510 ~~~~~~~~~~~~L~~~~~~l~-------~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~ 582 (766) ...+.+..++.||+..|.+|. .++..||+||||||.|||.||||||||||+|+|-++||.+.. + +..++ T Consensus 465 ~LE~~v~~RT~EL~~~N~rLN~E~~~H~kAR~~AE~AnrAKS~FLAtMSHEIRTPlNG~LGT~~LL~d~~---L-~~~Q~ 540 (1052) T TIGR02956 465 SLEQLVAQRTQELKETNERLNAEVLNHAKARAEAEEANRAKSAFLATMSHEIRTPLNGILGTLELLGDTG---L-TSQQQ 540 (1052) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCC---C-CHHHH T ss_conf 9999999988999997467639998799999999997488768874135113201136899997505899---8-88899 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE--EEECH Q ss_conf 99999999999999997776778887419--830120331699999999999999998479589998089978--99868 Q gi|254780903|r 583 EYAQDIHYSGQHLLNMINNILEMSKIETE--KISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF--FNADK 658 (766) Q Consensus 583 ~~l~~I~~~~~~l~~lI~diLd~srieag--~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~--v~~D~ 658 (766) +|++.|++||+.|+.+.||||||||||+| ++++.+++||+..++++++.+++.++..|+|+|.++.++++| ..+|+ T Consensus 541 ~yl~~In~SGe~LL~iLNDILDYSkIEaGGthl~i~~~~fd~~~L~~dv~~Lm~sRA~~Kg~~L~~~~~~~~~~~~~gD~ 620 (1052) T TIGR02956 541 QYLQVINRSGESLLDILNDILDYSKIEAGGTHLSISPRPFDLNKLLEDVHHLMESRAQEKGIQLILNIDEQLPNWWQGDL 620 (1052) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCHHHHHHCCC T ss_conf 99999986227899998467546776108746534556778888999999999987740372567427654278875366 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCE------EEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCH Q ss_conf 9999999998865653468988899999997998------9999997889789778543046505314675567788761 Q gi|254780903|r 659 RIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQC------VIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGL 732 (766) Q Consensus 659 ~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~------v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGL 732 (766) .+|+|||.|||+||||||.. |.|+|++...++. +.|.|.||||||||+.++.||+||.|++.. -|+.||||| T Consensus 621 ~riRQvL~NLvgNaIKFT~~-Gsv~l~~~l~~~~~~gdsel~F~V~DtG~GIae~~~~~lF~aF~Qa~eg-~~~~gGTGL 698 (1052) T TIGR02956 621 RRIRQVLINLVGNAIKFTDR-GSVVLRVSLNDDSSSGDSELLFEVEDTGVGIAEEEQATLFDAFTQADEG-RRKSGGTGL 698 (1052) T ss_pred CHHHHHHHHHHHCCCEECCC-CEEEEEEEECCCCCCCCCEEEEEEEECCCCCCHHHHHHHCCCCCCCCCC-CCCCCCCCC T ss_conf 13447676544132004345-2699998855888986634788886247799879998543310121013-731377650 Q ss_pred HHHHHHHHHHHCCCE---EEEEEECCCCEEEEEECC Q ss_conf 689999999962986---999979899529999735 Q gi|254780903|r 733 GLAISDALTNLHGGR---LKIISQEGKGTIVTICMP 765 (766) Q Consensus 733 GLaI~k~iVe~hgG~---I~v~S~~g~Gttf~i~LP 765 (766) |||||++||+.|||+ |+|+|++|+||||+|+|| T Consensus 699 GLAIs~~Lv~AM~G~GrGl~v~S~~~~GScF~F~lp 734 (1052) T TIGR02956 699 GLAISRRLVEAMDGEGRGLGVESELGQGSCFWFTLP 734 (1052) T ss_pred HHHHHHHHHHHHCCCCCCCEEEEECCCCCEEEEECC T ss_conf 689999999970888765016664587502212423 No 9 >PRK11006 phoR phosphate regulon sensor protein; Provisional Probab=100.00 E-value=0 Score=512.54 Aligned_cols=338 Identities=21% Similarity=0.320 Sum_probs=287.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCC Q ss_conf 99999999999999999998544551588349969970178988839997894289717881652013789998521124 Q gi|254780903|r 370 KYHLEKRYAEADQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPER 449 (766) Q Consensus 370 rK~ae~~l~ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 449 (766) +++..++|.....||+.+.+++|+|+++.|.+|++..||++++++|||...+..+......+..+. ....+...+ T Consensus 86 ~~~~~~~l~~~~~rfr~~~ealpDavvv~d~~g~I~~~N~aAe~l~G~~~~~~~G~~I~~Lir~p~----f~~~~~~~~- 160 (431) T PRK11006 86 NKKRRRELGNLIKRFRSGAESLPDAVVLTTEEGNIFWCNGLAQQLLGLRWPEDNGQNILNLLRYPE----FTQYLKTRD- 160 (431) T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCEEEEHHHHHHHHCCCCHHHCCCCHHHHHCCHH----HHHHHHCCC- T ss_conf 799999999999999999964897699998999588356999998389983326997789808845----999986266- Q ss_pred CCCEEEEEEECCCEEEEECCEECCCCCEEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 56405899916962874223245699789998862010001122322222221100001788998644457999999999 Q gi|254780903|r 450 SQDMSKEIKLADSRWLQINEWCTHDGGTISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANAKY 529 (766) Q Consensus 450 ~~~~~~e~~~~dg~~~~i~~~~~~dg~~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l 529 (766) .....+....+++.+++.-.+..+|..+.+..|||+.++ T Consensus 161 -~~~p~~~~~~~~~~le~~~~p~~~~~~llv~rDiT~~~~---------------------------------------- 199 (431) T PRK11006 161 -FSRPLNLVLNNGRHLEIRVMPYTEGQLLMVARDVTQMHQ---------------------------------------- 199 (431) T ss_pred -CCCCEEEECCCCCEEEEEEEECCCCCEEEEEEECCHHHH---------------------------------------- T ss_conf -557625543887479999977379958999985659999---------------------------------------- Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999998878999999998767522247899999999860346889938999999999999999999977767788874 Q gi|254780903|r 530 QVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIE 609 (766) Q Consensus 530 ~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srie 609 (766) +.+++.+|+||||||||||||+|.||+|+|.+.. ..++...++++.|.++++||..||+|+|++||+| T Consensus 200 ---------lE~~R~dFvAnvSHELRTPLT~I~G~~ElL~~~~---~~~~~~~~~l~~i~~~~~Rm~~LI~dLL~lsrle 267 (431) T PRK11006 200 ---------LEGARRNFFANVSHELRTPLTVLQGYLEMMEEQP---LEGPMREKALHTMREQTQRMEGLVKQLLTLSKIE 267 (431) T ss_pred ---------HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf ---------9999999998620866177999999999985799---9809999999999999999999999999997642 Q ss_pred CCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEE Q ss_conf 19830120331699999999999999998479589998089978998689999999998865653468988899999997 Q gi|254780903|r 610 TEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKI 689 (766) Q Consensus 610 ag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~ 689 (766) ++......+++|+..+++.+...... +.+++..+..+++++++|.+|+.+|+|||.||++||+||||+||+|.|++... T Consensus 268 ~~~~~~~~~~vd~~~ll~~l~~~~~~-l~~~~~~i~~~~~~~~~v~~D~~~L~qvl~NLi~NAikytp~g~~I~I~~~~~ 346 (431) T PRK11006 268 AAPTHLLNEKVDVPMMLRVLEREAQT-LSQKKHTITFEVDDSLKVLGNEDQLRSAISNLVYNAVNHTPEGTHITVRWQRV 346 (431) T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHH-HHHHCCCCCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEE T ss_conf 58752136531399999999999999-98625666556899827997899999999999998997479997799999994 Q ss_pred CCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 99899999978897897785430465053146755677887616899999999629869999798995299997359 Q gi|254780903|r 690 GQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 690 ~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) ++.++|+|+|||+|||++.++|||+||||++++.+++.+||||||||||+||++|||+|+|+|++|+||||+|+||+ T Consensus 347 ~~~~~i~V~D~G~GI~~e~~~riFerFyR~d~~rs~~~gGtGLGLaIvK~Ive~HgG~I~v~S~~g~Gt~F~~~lP~ 423 (431) T PRK11006 347 PHGAEFSVEDNGPGIAPEHIPRLTERFYRVDKARSRQTGGSGLGLAIVKHALNHHDSRLEIESTVGKGTRFSFVLPE 423 (431) T ss_pred CCEEEEEEEECCCCCCHHHHHHHCCCCEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCEEEEEECCC T ss_conf 99899999983878598999986268882888887999955489999999999859989999559985599998486 No 10 >PRK11466 hybrid sensory histidine kinase TorS; Provisional Probab=100.00 E-value=0 Score=513.22 Aligned_cols=245 Identities=29% Similarity=0.512 Sum_probs=226.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHH Q ss_conf 99864445799999999999999998878999999998767522247899999999860346889938999999999999 Q gi|254780903|r 512 RQILERQKTELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYS 591 (766) Q Consensus 512 ~~~~~~~~~~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~ 591 (766) +.....++.+|++++....++|++||+||++||+|+|+||||||||||+|+||+++|... ++ ++++++|++.|..+ T Consensus 413 e~~V~~RT~eL~~~~~~~~~Ar~~AE~AnrAKS~FLA~MSHEIRTPLNgIlG~~eLL~~~---~l-~~~qr~~l~~I~~s 488 (912) T PRK11466 413 AAQVKARTAELQELVIEHRQARAEAEKASQAKSAFLAAMSHEIRTPLYGILGTAQLLADN---PA-LNAQRDDLRAITDS 488 (912) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHCC---CC-CHHHHHHHHHHHHH T ss_conf 999999999999998999999999999999999999871397677599999999998479---99-98999999999999 Q ss_pred HHHHHHHHHHHHHHHHHHCC--CCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE--EEECHHHHHHHHHH Q ss_conf 99999997776778887419--830120331699999999999999998479589998089978--99868999999999 Q gi|254780903|r 592 GQHLLNMINNILEMSKIETE--KISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF--FNADKRIIKKILFP 667 (766) Q Consensus 592 ~~~l~~lI~diLd~srieag--~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~--v~~D~~~l~QVl~N 667 (766) +++|+.+|||||||||||+| +++++.+||++.+++++++.++++.+.+|++.+..++++++| +.+|+.+|+|||.| T Consensus 489 ~~~LL~lInDILD~SkiEaG~~~l~l~~~pf~l~~ll~~v~~~~~~~a~~k~l~l~~~~~~~lp~~v~gD~~RLrQIL~N 568 (912) T PRK11466 489 GESLLTILNDILDYSAIEAGGKNVSVSDEPFEPRPLLESTLQLMSGRVKGRPIRLATDIADDVPSALMGDPRRIRQVITN 568 (912) T ss_pred HHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCEEEECHHHHHHHHHH T ss_conf 99999999999999998189981388611568999999999999999983797899972799986086358899999999 Q ss_pred HHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCE Q ss_conf 88656534689888999999979989999997889789778543046505314675567788761689999999962986 Q gi|254780903|r 668 ILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGR 747 (766) Q Consensus 668 Li~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~ 747 (766) |++||+|||+. |.|.++++..++.++|+|+|||||||++.+++||+||+|++ ++++||||||+|||+||++|||+ T Consensus 569 LlsNAiKFT~~-G~V~l~~~~~~~~l~~~V~DTGiGI~~e~~~~IF~~F~Q~~----~~~gGtGLGLaI~k~LvelMGG~ 643 (912) T PRK11466 569 LLSNALRFTDE-GSIVLRSRTDGEQWLVEVEDSGCGIDPAKLAEIFQPFVQVS----GKRGGTGLGLTISSRLAQAMGGE 643 (912) T ss_pred HHHHHCCCCCC-CEEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHCCCCCCC----CCCCCCCHHHHHHHHHHHHCCCE T ss_conf 99987061899-67999999869789999850899999999998844761588----99899266899999999987997 Q ss_pred EEEEEECCCCEEEEEECC Q ss_conf 999979899529999735 Q gi|254780903|r 748 LKIISQEGKGTIVTICMP 765 (766) Q Consensus 748 I~v~S~~g~Gttf~i~LP 765 (766) |+|+|++|+||+|+|+|| T Consensus 644 I~V~S~~G~GS~F~~~LP 661 (912) T PRK11466 644 LSATSTPEVGSCFCLRLP 661 (912) T ss_pred EEEECCCCCCEEEEEEEE T ss_conf 999716998728999997 No 11 >PRK13560 hypothetical protein; Provisional Probab=100.00 E-value=0 Score=449.31 Aligned_cols=574 Identities=16% Similarity=0.149 Sum_probs=405.9 Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHH---CCCCCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHHHHCCCCCCCH Q ss_conf 100112235548999999999885310---17897899996998089971420555199788960761043205443320 Q gi|254780903|r 98 QNNNIKFDLASQKKAESMLGQLLAKTR---FLSESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELSRSRSRSKTVQM 174 (766) Q Consensus 98 ~~~~~~~d~~~~~~ae~~L~~~~~~~~---~~~~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~ 174 (766) ..+....|+|+||++|.+|.+.+.--. ...++.++..|.+|+++.+|.+++.++|++.++++|.+..+..+.+.+.. T Consensus 181 ~~~g~~~DITERKraE~rl~~ql~flq~LlDnipdpvF~kD~~G~ylgcN~afe~~~G~~re~i~G~ti~Dl~p~e~ad~ 260 (807) T PRK13560 181 QVDGFAEDITERKRAEERIDEALHFLQQLLDNIADPAFWKDEDAKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADD 260 (807) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCEEEECHHHHHHCCCCHHHHCCCCCCCCCCHHHHHH T ss_conf 55567787677778999999999999999854887469977995189620999988099999956861012781556899 Q ss_pred H----HHHCCCCHHEEEEEECCCCCCEEE---EEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 2----321153100001233157782599---997423210123455655456878878999999998888999999999 Q gi|254780903|r 175 S----EASLDQQPYHVLSVNLPHNSGSIL---IINSRVPLLRLWREEVTLEVVFFSIISALLLFILFSYYRQAKKNKEND 247 (766) Q Consensus 175 ~----~~~l~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~a~~~dit~~r~ae 247 (766) - ...++.........+.....|... +.....+..+. .+.+.+.+ ....|||+||+|| T Consensus 261 y~~~d~~~l~~~~~~~~E~~v~~~DG~~~~~~v~~nka~~~d~--------------~g~~~Glv--Gv~~DITeRK~aE 324 (807) T PRK13560 261 YQEADAAKFDADGSQIIEAEFQNKDGRTRPVDVIFNHAEFDDK--------------ENHCAGLV--GAITDISGRRAAE 324 (807) T ss_pred HHHHHHHHHCCCCCEEEEEEEECCCCCEEEEEEEEEEEEECCC--------------CCCEEEEE--EEEEEHHHHHHHH T ss_conf 9875088641887557552037799857579999862233387--------------88665688--8876156778899 Q ss_pred HHHHHHHHHHHHHHHCCCCCEEEEECCCCEEE-ECHHHHHHCCCCHHHCCCCH----------HH---HHHHHCCCCHHH Q ss_conf 99999999999997225974598976897899-97889977299943305898----------89---997608120589 Q gi|254780903|r 248 TILLEANICVETALSRGRCGLWNFNFDNKKFH-LSRSMYEIMGIPYENKTLSF----------RA---IARLIHYDNKKI 313 (766) Q Consensus 248 ~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~-ws~~~~~llG~~~~e~~~s~----------~~---~~~~vHPdDr~~ 313 (766) ++|+|||+|||.++++++.|+|..|++++.++ ||++..+|+||+.++..... +. -...+|||.+.. T Consensus 325 e~LresEer~R~i~E~a~~gI~~~D~~g~i~~~~n~aae~m~G~s~eE~lg~~lw~~~pe~~~e~~~~~~~~~~pdgr~~ 404 (807) T PRK13560 325 RELLEKEDMLRAIIEAAPIAAIGLDADGNICFVNNNAAERMLGWSAAEVMGKPLPGMDPELNEEFWCGDFQEWYPDGRPM 404 (807) T ss_pred HHHHHHHHHHHHHHHHCCCCEEEECCCCCEEEECCHHHHHHHCCCHHHHCCCCCCCCCHHHHHHHCCCCHHHHCCCCCCC T ss_conf 99999899999998736653478626761576126167876268768860774335683441333134065516665634 Q ss_pred HHHH--HHHHHCCCCEEE-EEEEEECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999--999724898489-99998869898899889999998379606-9999984461799999999999999999998 Q gi|254780903|r 314 CEIA--RSVTGKHVKQLD-QIFHMRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEADQRLSKAIE 389 (766) Q Consensus 314 ~~~a--~~~~~~~~~~~~-~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~ese~rlr~~ie 389 (766) .... ...+..++..++ .|+++.++||+.+|+...+.|++|.+|++ +.+|+..||||||++|++|++++ .+++ T Consensus 405 ~~~~c~~a~~~r~g~~~~g~E~~~~RkDGt~~~~~~~~~pL~D~dG~~~gal~i~~DITERKqAEeaLr~sn----~iLE 480 (807) T PRK13560 405 AFDACPMAKTIKGGKIFDGQEVLIEREDDGPADCSAYAEPLHDADGNIIGAIALLVDITERKQVEEQLLLAN----LIVE 480 (807) T ss_pred CCCHHHHHHHHHCCCCCCCCEEEEEECCCCEEEEEECCEEEECCCCCEEEEEEHHHCCHHHHHHHHHHHHHH----HHHH T ss_conf 310123667761378778863799906996577886130225678885331100112427788999999988----8875 Q ss_pred HHHHHEEEECCC-CEEEEECHHHHHHHCCCHHHHCCCC-CHHHHCCCHHHHHHHHHHHCCC----CCCCEEEEEEECCCE Q ss_conf 544551588349-9699701789888399978942897-1788165201378999852112----456405899916962 Q gi|254780903|r 390 CTSEALVLWDKN-DRLVMCNANYQKAYGLPDHVLVPGN-ARSIIQDAQTRPIIEYRTSDPE----RSQDMSKEIKLADSR 463 (766) Q Consensus 390 ~~~~~i~~~D~~-g~i~~~N~~~~~~~g~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~e~~~~dg~ 463 (766) ++|..++.|+.+ +-.+..|.....+|||+.++++.+. .+..+.++.....+...+.... ......+.+..++|. T Consensus 481 nSp~il~~~~~~~gw~ve~vs~~v~~fGYt~eE~isg~~~~~~lvhPeDr~~v~~~l~~~~~~G~~~f~~eyRi~~kdGs 560 (807) T PRK13560 481 NSPLVLFRWKAEEGWPVELVSKNITQFGYEPDEFISGKRMFAAIIHPADLEQVAAEVAEFAAQGVDRFEQEYRILGKGGA 560 (807) T ss_pred CCCCEEEEEECCCCCCEEEECCHHHHHCCCHHHHCCCCEEHHCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCC T ss_conf 29740478751578623752321455088878842423101205797888889999998741575522016888769996 Q ss_pred EEEE--CCEECCC--CC---EEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 8742--2324569--97---899988620100011223222222211000017889986444579999999999999999 Q gi|254780903|r 464 WLQI--NEWCTHD--GG---TISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANAKYQVEKERA 536 (766) Q Consensus 464 ~~~i--~~~~~~d--g~---~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~~a 536 (766) |.++ ...+.+| |. +..+..|||+.|..+ + ++ T Consensus 561 vrWI~~~~~~irDe~G~V~~~~giv~DIT~~k~ae-----------------------------------e-------~l 598 (807) T PRK13560 561 VCWIDDQSAAERDEEGQISHFEGIVIDISERKHAE-----------------------------------E-------KI 598 (807) T ss_pred EEEEEEEEEEECCCCCCEEEEEEEEECCHHHHHHH-----------------------------------H-------HH T ss_conf 89997013561178887544444674352888899-----------------------------------9-------99 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC Q ss_conf 88789999999987675222478999999998603468899389999999999999999999777677888741983012 Q gi|254780903|r 537 ETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISID 616 (766) Q Consensus 537 e~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~ 616 (766) ..+...|.-+|.-|.|-.+|+|..|.+++.|-.+... +++.++.+...++-..-|. +|.+.|.- +-+ T Consensus 599 ~asL~EKE~LLkEIHHRVKNNLQiIsSLL~LQar~~~----d~ear~aL~esq~RI~SmA-lVHe~Ly~--------S~d 665 (807) T PRK13560 599 KAALTEKEVLLKEIHHRVKNNLQIISSLLDLQAEKLH----DEEAKCAFAESQDRICAMA-LAHEKLYQ--------SED 665 (807) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC----CHHHHHHHHHHHHHHHHHH-HHHHHHHC--------CCC T ss_conf 9999988999998776752039999999998876559----9999999999999999999-99999856--------999 Q ss_pred EEEECHHHHHHHHHHHHHHHHHHC--CCEEEEEECCCCEEEECH-HHHHHHHHHHHHHHHHCCCC---CCEEEEEEEEEC Q ss_conf 033169999999999999999847--958999808997899868-99999999988656534689---888999999979 Q gi|254780903|r 617 KQNADLIPIINEGIRLIGSSAQSK--NIKIEKKIPSELFFNADK-RIIKKILFPILSNSIKFTNN---NGKMMIRTSKIG 690 (766) Q Consensus 617 ~~~~dl~~~i~~~~~~~~~~~~~k--~i~l~~~~~~~l~v~~D~-~~l~QVl~NLi~NAik~t~~---~g~I~i~~~~~~ 690 (766) ...+|+.+.+++.+..+....... .|.+.++.+ ++.+..|. ..|..|+.+|++||+||..+ .|.|+|+.+..+ T Consensus 666 l~~Id~~~yi~~L~~~L~~s~~~~~~~I~l~vd~d-~~~L~~d~AiPLgLIlnELVtNAlKHAF~~~~~G~I~Isl~~~~ 744 (807) T PRK13560 666 LADIDFLDYIESLTAHLKNSFAIDFGRIDCKIDAD-DGCLDIDKAIPCGLIISELLSNALKHAFPDGAAGNIKVEIREQG 744 (807) T ss_pred CCEECHHHHHHHHHHHHHHHHCCCCCEEEEEEECC-CCEECHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEECC T ss_conf 76572999999999999997378986389999736-70565888767999999999998986089999827999999867 Q ss_pred -CEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf -989999997889789778543046505314675567788761689999999962986999979899529999735 Q gi|254780903|r 691 -QCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 691 -~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) +.+.++|+|||+|||+. |++ ..+.+|||.||+.+|++.+|+|.++|. .||+|+|++| T Consensus 745 ~~~v~L~V~DnG~GlP~~-----fd~-----------~~s~sLGL~LV~~Lv~QL~G~l~i~s~--~Gt~f~I~FP 802 (807) T PRK13560 745 DGMVNLCVADDGIGLPAG-----FDF-----------RAAETLGLQLVCALVKQLDGEIALDSR--GGARFNIRFP 802 (807) T ss_pred CCEEEEEEEECCCCCCCC-----CCC-----------CCCCCCHHHHHHHHHHHCCCEEEEECC--CCEEEEEEEE T ss_conf 998999998798158999-----897-----------889997699999999974989999859--9869999971 No 12 >PRK09303 adaptive-response sensory kinase; Validated Probab=100.00 E-value=0 Score=476.00 Aligned_cols=242 Identities=27% Similarity=0.399 Sum_probs=218.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH----HHHHHH Q ss_conf 9999999999999999887899999999876752224789999999986034688993899999999999----999999 Q gi|254780903|r 521 ELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHY----SGQHLL 596 (766) Q Consensus 521 ~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~----~~~~l~ 596 (766) .|++..-.++++++++.++.++|++|+|+||||||||||+|.||+++|+....++.. +...++++.+.+ ..++|. T Consensus 127 ~l~d~~~~Lrqe~E~L~e~~r~K~~Fla~vSHELRTPLTaI~g~~e~L~~~~~~~~~-~~~~~~l~~l~~~~~~~~~~L~ 205 (378) T PRK09303 127 QLSDELFVLRQENETLLEQLKFKDRLLAMLAHDLRTPLTAASLAVETLELGQIDPSE-ELSPALIEQLQDQARRQLEEIE 205 (378) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHCCCCCCCC-HHHHHHHHHHHHHHHHHHHHHH T ss_conf 878899999998999999999999999973676153199999999998642579741-6679999999999999999999 Q ss_pred HHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE-EEECHHHHHHHHHHHHHHHHHC Q ss_conf 997776778887419830120331699999999999999998479589998089978-9986899999999988656534 Q gi|254780903|r 597 NMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF-FNADKRIIKKILFPILSNSIKF 675 (766) Q Consensus 597 ~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~-v~~D~~~l~QVl~NLi~NAik~ 675 (766) .||+|+|++||+++|++.++++++||.+++.+++..+++.+.+|++++..++++++| |++|+.+|+|||.|||+||+|| T Consensus 206 ~LI~DLLd~sr~e~g~l~l~~~~~dL~~lv~evi~~~~~~a~~k~i~l~~dip~dlp~V~aD~~rL~QVl~NLL~NAiKy 285 (378) T PRK09303 206 RLITDLLEVGRTRWEALQFNPQKLDLGSLCQEVILELEKRWLAKSLEIQTDIPSDLPSVYADQRRIRQVLLNLLDNAIKY 285 (378) T ss_pred HHHHHHHHHHHHHCCCCEEEEEEECHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCEEEECHHHHHHHHHHHHHHHHHH T ss_conf 99999999988753886314688769999999999989899838978999768999728768999999999999999985 Q ss_pred CCCCCEEEEEE-EEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEEC Q ss_conf 68988899999-99799899999978897897785430465053146755677887616899999999629869999798 Q gi|254780903|r 676 TNNNGKMMIRT-SKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQE 754 (766) Q Consensus 676 t~~~g~I~i~~-~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~ 754 (766) ||+||.|+|++ ...++.|.|+|+|||+|||++.+++||+||+|++. +++.+||||||||||+||++|||+|||+|++ T Consensus 286 T~~gG~I~I~~~~~~~~~V~isV~DtG~GIp~e~~~rIFe~F~R~~~--s~~~~GtGLGLaIvk~IVe~HgG~I~V~S~~ 363 (378) T PRK09303 286 TPEGGTITLTMLHRTTQKVQVSICDTGPGIPEEEQERIFEDRVRLPR--DEGTEGYGIGLSVCRRIVEVHYGQIWVDSEP 363 (378) T ss_pred CCCCCEEEEEEEEECCCEEEEEEEEECCCCCHHHHHHHCCCCEECCC--CCCCCCEEHHHHHHHHHHHHCCCEEEEEECC T ss_conf 89998699999981399899999980788898999875636344568--9998831279999999999879979999439 Q ss_pred CCCEEEEEECC Q ss_conf 99529999735 Q gi|254780903|r 755 GKGTIVTICMP 765 (766) Q Consensus 755 g~Gttf~i~LP 765 (766) |+||||+|+|| T Consensus 364 g~GS~Ft~tLP 374 (378) T PRK09303 364 GQGSCFHFTLP 374 (378) T ss_pred CCCEEEEEEEE T ss_conf 98359999982 No 13 >PRK11073 glnL nitrogen regulation protein NR(II); Provisional Probab=100.00 E-value=0 Score=420.71 Aligned_cols=322 Identities=18% Similarity=0.292 Sum_probs=245.3 Q ss_pred HHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHH-HHHHHHCCCCCCCEEEEEEECCC- Q ss_conf 9999854455158834996997017898883999789428971788165201378-99985211245640589991696- Q gi|254780903|r 385 SKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPI-IEYRTSDPERSQDMSKEIKLADS- 462 (766) Q Consensus 385 r~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~e~~~~dg- 462 (766) ..++++++++|+++|.+|++++||++++++||++.+++++....+.+........ ....+............. ..+| T Consensus 10 ~~Il~~~~d~Iiv~D~~g~I~~~N~aa~~l~g~~~~~~~G~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ 88 (348) T PRK11073 10 GQILNSLINSILLLDDNLAIHYANPAAQQLLAQSSRKLFGTPLPELLSYFSLNIELMQESLQAGQGFTDNEVTL-VIDGR 88 (348) T ss_pred HHHHHHHHHHHEEECCCCCEEEECHHHHHHHCCCHHHHCCCCHHHHHCCCCCCHHHHHHHHHCCCCCCCCEEEE-EECCE T ss_conf 99998660796499897970128399999978598998599689984665301899999997389741323999-98996 Q ss_pred -EEEEECCEECCCCCEEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf -2874223245699789998862010001122322222221100001788998644457999999999999999988789 Q gi|254780903|r 463 -RWLQINEWCTHDGGTISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANAKYQVEKERAETANK 541 (766) Q Consensus 463 -~~~~i~~~~~~dg~~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~~ae~an~ 541 (766) .|+.++..+..++..+....+++..+ ++++++.+ .++ .. T Consensus 89 ~~~~~~~~~~~~~~~~l~~~~di~~~k-----------------------------------~l~~e~~~---~~~--~~ 128 (348) T PRK11073 89 SHILSLTAQRLPEGMILLEMAPMDNQR-----------------------------------RLSQEQLQ---HAQ--QV 128 (348) T ss_pred EEEEEEEEEECCCCEEEEEEEECHHHH-----------------------------------HHHHHHHH---HHH--HH T ss_conf 999999999825868999999627999-----------------------------------99999999---999--99 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEC Q ss_conf 99999998767522247899999999860346889938999999999999999999977767788874198301203316 Q gi|254780903|r 542 TKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNAD 621 (766) Q Consensus 542 ~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~d 621 (766) ++++|++++||||||||++|.|++++|.+.. .++...+|++.|..++++|.++|+++|+++|... ..+.+ T Consensus 129 ~~~e~~~~iaHelrnPL~~I~g~~~ll~~~~----~d~~~~e~~~~i~~~~~rl~~li~~ll~~~~~~~------~~~~~ 198 (348) T PRK11073 129 AARDLVRGLAHEIKNPLGGLRGAAQLLSKAL----PDPALTEYTKVIIEQADRLRNLVDRLLGPQRPGT------HITES 198 (348) T ss_pred HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHC----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC------CCCCC T ss_conf 9999998401874785799999999997417----9989999999999999999999999864412688------77547 Q ss_pred HHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE-EEECHHHHHHHHHHHHHHHHHC-CCCCCEEEEEEEEECC-------- Q ss_conf 99999999999999998479589998089978-9986899999999988656534-6898889999999799-------- Q gi|254780903|r 622 LIPIINEGIRLIGSSAQSKNIKIEKKIPSELF-FNADKRIIKKILFPILSNSIKF-TNNNGKMMIRTSKIGQ-------- 691 (766) Q Consensus 622 l~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~-v~~D~~~l~QVl~NLi~NAik~-t~~~g~I~i~~~~~~~-------- 691 (766) +..+++++..++.... .+++.+..+.++.+| +.+|+.+|+|||.|||+||+|| ++.+|+|.|+++...+ T Consensus 199 l~~~~~~~~~~~~~~~-~~~i~i~~~~~~~~~~i~~d~~~l~qVl~NLl~NAik~~~~~~g~i~i~~~~~~~~~i~~~~~ 277 (348) T PRK11073 199 IHKVAERVVQLVSLEL-PDNVRLIRDYDPSLPELAHDPDQIEQVLLNIVRNALQALGPEGGEITLRTRTAFQLTLHGERY 277 (348) T ss_pred HHHHHHHHHHHHHHHC-CCCCEEEEEECCCCCEEEECHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCC T ss_conf 9999999999999856-578099996078887264468788999999999999983669977999996433322145323 Q ss_pred --EEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf --89999997889789778543046505314675567788761689999999962986999979899529999735 Q gi|254780903|r 692 --CVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 692 --~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) .+.|+|+|||+|||++.++|||+||+ +| +.+||||||+|||+||+.|||+|+|+|+||+ |+|+|+|| T Consensus 278 ~~~~~i~V~D~G~GI~~e~~~~iF~pf~-----tt-k~~GtGLGL~ivk~ive~hgG~I~v~S~~g~-t~F~i~lP 346 (348) T PRK11073 278 RLAARIDIEDNGPGIPPHLQDTLFYPMV-----SG-REGGTGLGLSIARNLIDQHSGKIEFTSWPGH-TEFSVYLP 346 (348) T ss_pred CEEEEEEEEECCCCCCHHHHHHHCCCCC-----CC-CCCCCCHHHHHHHHHHHHCCCEEEEEEECCE-EEEEEEEE T ss_conf 3048999999088789899997377836-----79-9898177899999999986998999982891-99999996 No 14 >PRK10490 sensor protein KdpD; Provisional Probab=100.00 E-value=0 Score=430.24 Aligned_cols=225 Identities=23% Similarity=0.465 Sum_probs=206.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 98878999999998767522247899999999860346889938999999999999999999977767788874198301 Q gi|254780903|r 536 AETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISI 615 (766) Q Consensus 536 ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~ 615 (766) +.+.++.|+.||+.+||||||||++|.|++++|...... ..++..+++..|.+.+.++.+||+|||||||||+|.+.+ T Consensus 657 ~aE~ErLRsalLssVSHDLRTPLtsI~G~a~~L~~~~~~--~~~~~~~~~~~I~~e~~rL~rLV~nLLdmsRle~G~l~l 734 (895) T PRK10490 657 ASEREQLRNALLAALSHDLRTPLTVLFGQAEILTLDLAS--EGSPHARQASEIRQHVLNTTRLVNNLLDMARIQSGGFNL 734 (895) T ss_pred HHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC T ss_conf 777778999999860343578699999999998547778--828899999999999999999999999998763699766 Q ss_pred CEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE-EEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEE Q ss_conf 20331699999999999999998479589998089978-99868999999999886565346898889999999799899 Q gi|254780903|r 616 DKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF-FNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVI 694 (766) Q Consensus 616 ~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~-v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~ 694 (766) +++++++.+++.+++..+++.+.+++|.+ ++++++| |.+|+.+|+|||.||+.||+||||++|.|.|+++..++.+. T Consensus 735 ~~~~~~l~evv~~al~~~~~~~~~~~i~v--~~~~~~~~v~~D~~lleQVL~NLl~NAiKytp~~~~I~v~a~~~~~~v~ 812 (895) T PRK10490 735 KKEWLTLEEVVGSALQMLEPGLSQHPINL--SLPEPLTLIHVDGPLFERVLINLLENAVKYAGAQAEIGIDAHVEGENLQ 812 (895) T ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCCEEE--EECCCCCEEEECHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCEEE T ss_conf 46420699999999999986612696799--9569870698789999999999999999858999709999999799999 Q ss_pred EEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 999978897897785430465053146755677887616899999999629869999798995299997359 Q gi|254780903|r 695 ITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 695 i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) |+|.|+|+|||++.+++||++|+|.+.. +..+||||||||||+||+.|||+|+++|.+|+||+|+|+||. T Consensus 813 i~V~D~G~GIp~~~~~~IFe~F~R~~~~--~~~~GtGLGLaI~k~IveAhGG~I~~~s~~ggGa~F~~~LPl 882 (895) T PRK10490 813 LDVWDNGPGIPPGQEQLIFDKFARGNKE--SAVPGVGLGLAICRAIVDVHGGTITAENRPEGGACFRVTLPQ 882 (895) T ss_pred EEEEEECCCCCHHHHHHHCCCCCCCCCC--CCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCEEEEEEEECC T ss_conf 9999808987979999755687128999--999974478999999999879989999569980699998329 No 15 >PRK13837 two-component VirA-like sensor kinase; Provisional Probab=100.00 E-value=0 Score=418.08 Aligned_cols=233 Identities=22% Similarity=0.381 Sum_probs=203.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHH Q ss_conf 64445799999999999999998878999999998767522247899999999860346889938999999999999999 Q gi|254780903|r 515 LERQKTELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQH 594 (766) Q Consensus 515 ~~~~~~~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~ 594 (766) ..+..+|-+.++++|++. +.+.+.+++.++|+|||||||++|+||++++...... .++..++++.|.++++| T Consensus 430 ~~r~etER~~LE~qL~qA-----QKmEAiG~LAgGIAHDFNNiLt~I~G~aeLa~~~l~~---~~~~~~~L~~I~~aa~R 501 (831) T PRK13837 430 RRRLETERDALERRLEHA-----RRLEAVGTLASGIAHNFNNILGAILGYAEMALNKLRR---HSRARRHIDEIISSGDR 501 (831) T ss_pred HHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---CCHHHHHHHHHHHHHHH T ss_conf 988799999999999999-----9999999999899998700899999999998620699---84778999999999999 Q ss_pred HHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCC-EEEECHHHHHHHHHHHHHHHH Q ss_conf 9999777677888741983012033169999999999999999847958999808997-899868999999999886565 Q gi|254780903|r 595 LLNMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSEL-FFNADKRIIKKILFPILSNSI 673 (766) Q Consensus 595 l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l-~v~~D~~~l~QVl~NLi~NAi 673 (766) ..+||++||+||| +...+++++||++++++++.+++...+ ++|++..++++++ +|.+|+.+|+|||+||+.||. T Consensus 502 a~~Lv~qLL~FSR----~~~~~~~~vdl~~lv~e~~~llr~~l~-~~I~l~~~~~~~~~~V~aD~~QL~QVllNL~~NA~ 576 (831) T PRK13837 502 ARLIIDQILTFGR----KGERRTKPFSLSELVTEIAPLLRVSLP-PTVELDFDFDQEPAVVEGNPAQLQQVILNLCKNAA 576 (831) T ss_pred HHHHHHHHHHHHC----CCCCCCCEECHHHHHHHHHHHHHHHCC-CCEEEEEECCCCCCEEEECHHHHHHHHHHHHHHHH T ss_conf 9999999999858----999977177499999999999998758-98699997189885388879999999999999999 Q ss_pred HCCCCCCEEEEEEEEE---------------CCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHH Q ss_conf 3468988899999997---------------9989999997889789778543046505314675567788761689999 Q gi|254780903|r 674 KFTNNNGKMMIRTSKI---------------GQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISD 738 (766) Q Consensus 674 k~t~~~g~I~i~~~~~---------------~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k 738 (766) ++++++|+|+|++... +++|+|+|+|||+|||++.++||||||| ||| .+|||||||+|+ T Consensus 577 dAM~~gG~l~I~~~~~~~~~~~~~~~~~~~~G~yv~L~VsDtG~GI~~e~l~RIFEPFF-----TTK-~~GTGLGLAvV~ 650 (831) T PRK13837 577 QAMDENGRVDIRLSRVDLRKPKVLAHGTAPPGRYVLLRVSDTGRGIDEAVLPHIFEPFF-----TTR-ARGTGLGLATVH 650 (831) T ss_pred HHCCCCCEEEEEEEEEECCCHHHHCCCCCCCCCEEEEEEEECCCCCCHHHHHHHCCCCC-----CCC-CCCCCCCHHHHH T ss_conf 97679986999985553363232115778998989999986799989899966048986-----788-998874699999 Q ss_pred HHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 9999629869999798995299997359 Q gi|254780903|r 739 ALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 739 ~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) +||+.|||.|.|+|+||+||+|+|+||. T Consensus 651 gIV~~hgG~I~V~S~pG~GTtF~v~LP~ 678 (831) T PRK13837 651 GIVSAHAGYIDVQSTVGRGTRFDVYLPP 678 (831) T ss_pred HHHHHCCCEEEEECCCCCCEEEEEEEEC T ss_conf 9999869869997269997189998317 No 16 >PRK10549 signal transduction histidine-protein kinase BaeS; Provisional Probab=100.00 E-value=0 Score=416.15 Aligned_cols=240 Identities=22% Similarity=0.375 Sum_probs=219.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999998878999999998767522247899999999860346889938999999999999999999977 Q gi|254780903|r 521 ELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMIN 600 (766) Q Consensus 521 ~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~ 600 (766) |+.++.+......++++...+.+.+|++++||||||||++|.|++|+|+++... ...+++..|...+.+|.++|+ T Consensus 219 Eig~La~~fN~Ma~~Le~~~~~rr~f~a~iSHELRTPLt~i~g~le~l~d~~~~-----~~~e~l~~i~~e~~rl~~Lv~ 293 (467) T PRK10549 219 ELGKLAQDFNQLASTLEKNQQMRRDFMADISHELRTPLAVLRGELEAIQDGVRK-----FTPESVASLQAEVGTLTKLVD 293 (467) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHCCCC-----CCHHHHHHHHHHHHHHHHHHH T ss_conf 799999999999999999999999999988887515899999999998716554-----579999999999999999999 Q ss_pred HHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 76778887419830120331699999999999999998479589998089978998689999999998865653468988 Q gi|254780903|r 601 NILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADKRIIKKILFPILSNSIKFTNNNG 680 (766) Q Consensus 601 diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAik~t~~~g 680 (766) |+|++|+.+.|.+.++.+++|+.+++++++..+++.+.++++++..++++++++.+|+.+|+|||.||++||+||++++| T Consensus 294 dLl~ls~~~~~~~~~~~~~vdl~~ll~~~~~~~~~~~~~~~i~l~~~~~~~~~v~~D~~~L~qvl~NLl~NAikyt~~~g 373 (467) T PRK10549 294 DLHQLSLSDEGALAYQKTPVDLVPLLEVAGGAFRERFASRGLTLQFSLPDSATVFGDPDRLMQLFNNLLENSLRYTDSGG 373 (467) T ss_pred HHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCEEEECHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 99999875456754467333389999999999999998459589997598846997799999999999999998489998 Q ss_pred EEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEE Q ss_conf 89999999799899999978897897785430465053146755677887616899999999629869999798995299 Q gi|254780903|r 681 KMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIV 760 (766) Q Consensus 681 ~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf 760 (766) .|.|++...++.++|+|+|+|+|||++.+++||+||||++++.++..+||||||||||+||+.|||+|+++|.+|+||+| T Consensus 374 ~I~I~~~~~~~~v~i~V~D~G~GI~~e~l~~IFe~Fyr~d~sr~r~~gGsGLGLaIvk~Iv~~HgG~I~v~s~~~~G~~f 453 (467) T PRK10549 374 SLHISAEQHDKTLRLTFADSAPGVSDEQLQKLFERFYRTEGSRNRASGGSGLGLAICLNIVEAHNGRIIAAHSPFGGVSI 453 (467) T ss_pred EEEEEEEEECCEEEEEEEEECCCCCHHHHHHHCCCCEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCEEEE T ss_conf 79999999799999999981888798999986689873888888999961289999999999839989999679985799 Q ss_pred EEECC Q ss_conf 99735 Q gi|254780903|r 761 TICMP 765 (766) Q Consensus 761 ~i~LP 765 (766) +|+|| T Consensus 454 ~i~LP 458 (467) T PRK10549 454 TVELP 458 (467) T ss_pred EEEEE T ss_conf 99952 No 17 >PRK10364 sensor protein ZraS; Provisional Probab=100.00 E-value=0 Score=415.49 Aligned_cols=223 Identities=28% Similarity=0.458 Sum_probs=202.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999887899999999876752224789999999986034688993899999999999999999997776778887 Q gi|254780903|r 529 YQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKI 608 (766) Q Consensus 529 l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~sri 608 (766) ++++..+.|+. .+.+++.|++||||||||++|.||++++.++.. .+++.+++++.|.+.++|+.++|+++|+|+| T Consensus 225 Lq~el~r~EKL-AaLG~LAAgVAHEIRNPLtsI~G~AqlL~~~~~---~~~e~~e~~~iI~~E~~RL~~iI~~LL~faR- 299 (455) T PRK10364 225 LQDEMKRKEKL-VALGHLAAGVAHEIRNPLSSIKGLAKYFAERAP---AGGEAHQLAQVMAKEADRLNRVVSELLELVK- 299 (455) T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC- T ss_conf 99999999899-999999999899885649999999999867699---9857999999999999999999999998728- Q ss_pred HCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE-EEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEE Q ss_conf 419830120331699999999999999998479589998089978-9986899999999988656534689888999999 Q gi|254780903|r 609 ETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF-FNADKRIIKKILFPILSNSIKFTNNNGKMMIRTS 687 (766) Q Consensus 609 eag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~-v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~ 687 (766) ...++.+++|+++++++++.++++.+..|+|++..+.++++| |.+|+.+|+|||+||+.||+++++++|+|+|++. T Consensus 300 ---p~~~~~~~vdL~~li~~~l~l~~~~a~~k~I~l~~~~~~~lp~I~~D~~~L~QVl~NLl~NAi~A~~~gg~I~I~~~ 376 (455) T PRK10364 300 ---PTHLALQAVDLNTLINHSLQLVSQDANSREIQLRFTANDTLPEIQADPDRLTQVLLNLYLNAIQAIGQHGVISVTAS 376 (455) T ss_pred ---CCCCCCCEECHHHHHHHHHHHHHHHHHHCCEEEEEECCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCCCEEEEEEE T ss_conf ---99898848849999999999998688648909999738888759888999999999999999997589977999999 Q ss_pred EECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf 979989999997889789778543046505314675567788761689999999962986999979899529999735 Q gi|254780903|r 688 KIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 688 ~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) ..++.++|+|+|||+|||+|.++|||+||| +| +.+||||||+|||+||+.|||+|+++|++|+||+|+|+|| T Consensus 377 ~~~~~V~I~V~DnG~GIp~E~l~rIFePFf-----TT-K~~GTGLGLaIv~~IVe~HgG~I~v~S~~G~GT~FtI~LP 448 (455) T PRK10364 377 ESGAGVKISVTDSGKGIAADQLEAIFTPYF-----TT-KAEGTGLGLAVVHNIVEQHGGTIQVASQEGKGATFTLWLP 448 (455) T ss_pred ECCCEEEEEEEECCCCCCHHHHHHHCCCCC-----CC-CCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCEEEEEEEE T ss_conf 859989999997699979789878658976-----48-9897028899999999988997999955999879999982 No 18 >PRK11100 sensory histidine kinase CreC; Provisional Probab=100.00 E-value=0 Score=413.19 Aligned_cols=219 Identities=24% Similarity=0.429 Sum_probs=203.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEC Q ss_conf 99999998767522247899999999860346889938999999999999999999977767788874198301203316 Q gi|254780903|r 542 TKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNAD 621 (766) Q Consensus 542 ~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~d 621 (766) ...+|++++||||||||++|.|++|+|+.. ..+++.++|++.|.+.++||.+||+|+|++||+|++....+++++| T Consensus 255 ~~e~fva~vSHELRTPLt~I~g~~ElL~~~----~~~e~~~~~l~~I~~e~~RL~~LV~~LL~larle~~~~~~~~~~vd 330 (475) T PRK11100 255 YVEQYVQTLTHELKSPLAAIRGAAELLQED----PPPEDRQRFTGNILAQSARLQQLIDRLLELARLEQRQELEVLEPVA 330 (475) T ss_pred HHHHHHHHCHHHHHHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEC T ss_conf 999999854086511799999999997389----9989999999999999999999999999998751588767554875 Q ss_pred HHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECC Q ss_conf 99999999999999998479589998089978998689999999998865653468988899999997998999999788 Q gi|254780903|r 622 LIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTG 701 (766) Q Consensus 622 l~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G 701 (766) +.+++++++..+++.+.+|++++..+.+ ++.|.+|+.+|+||+.||+.||+||+|++|.|+|++...++.++|+|+|+| T Consensus 331 l~~ll~~~~~~~~~~~~~~~i~l~~~~~-~~~v~~D~~~L~qvl~NLl~NAikys~~~g~I~I~~~~~~~~~~i~V~D~G 409 (475) T PRK11100 331 LAALLEELVEAREAQAAAKGITLRLRPD-DAAVLGDPFLLRQALGNLLDNAIDFTPEGGTITLSAERDGEQVALSVEDSG 409 (475) T ss_pred HHHHHHHHHHHHHHHHHHCCEEEEEECC-CCEEEECHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCEEEEEEEECC T ss_conf 9999999999999999868929999578-766970899999999999999997389997799999996999999999848 Q ss_pred CCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 97897785430465053146755677887616899999999629869999798995299997359 Q gi|254780903|r 702 IGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 702 ~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) +|||++.+++||+|||++.... .+.+||||||||||.||++|||+|+++|.+|+||+|+|+||| T Consensus 410 ~GIp~e~l~~IFerFys~~r~~-~~~~GsGLGLsIvk~Iv~~HgG~I~v~s~~~~Gt~f~i~LP~ 473 (475) T PRK11100 410 PGIPDYALPRIFERFYSLPRPA-NGRKSTGLGLAFVREVARLHGGEVTLRNRPEGGVLATLTLPR 473 (475) T ss_pred CCCCHHHHHHHCCCCCCCCCCC-CCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCEEEEEEECCC T ss_conf 8878899988616780377799-998863079999999999859989999669980799999389 No 19 >PRK09835 sensor kinase CusS; Provisional Probab=100.00 E-value=0 Score=411.19 Aligned_cols=241 Identities=18% Similarity=0.321 Sum_probs=221.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999998878999999998767522247899999999860346889938999999999999999999977 Q gi|254780903|r 521 ELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMIN 600 (766) Q Consensus 521 ~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~ 600 (766) |+.++...+....++++.+.....+|++++||||||||++|.|+++++... +...+++++++..+.+..+||.++|+ T Consensus 240 El~~La~~fN~M~~rl~~~~~~~~~f~a~vSHELRTPLt~i~~~~e~~l~~---~~~~~~~~~~l~~~~~e~~rl~~lv~ 316 (482) T PRK09835 240 ELEQLVLSFNHMIERIEDVFTRQSNFSADIAHEIRTPITNLITQTEIALSQ---SRSQKELEDVLYSNLEELTRMAKMVS 316 (482) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---CCCHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 799999999999999999999999999998898718999999999998538---99869999999999999999999999 Q ss_pred HHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 76778887419830120331699999999999999998479589998089978998689999999998865653468988 Q gi|254780903|r 601 NILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADKRIIKKILFPILSNSIKFTNNNG 680 (766) Q Consensus 601 diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAik~t~~~g 680 (766) ++|++||.|.+....+.+++|+.+++.+++..+.+.+++|++++..+. +++.|.+|+.+|+|+|.|||+||+||+|+|| T Consensus 317 ~lL~lar~e~~~~~~~~~~~dl~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~~v~~d~~~l~~~l~NLl~NAikys~~g~ 395 (482) T PRK09835 317 DMLFLAQADNNQLIPEKKMLNLADEVGKVFDFFEALAEDRGVELRFVG-DPCQVAGDPLMLRRALSNLLSNALRYTPEGE 395 (482) T ss_pred HHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEC-CCEEEEECHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 999987743588766673456999999999999999986892899827-8708998799999999999999998489998 Q ss_pred EEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEE Q ss_conf 89999999799899999978897897785430465053146755677887616899999999629869999798995299 Q gi|254780903|r 681 KMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIV 760 (766) Q Consensus 681 ~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf 760 (766) .|+|++...++.+.|+|+|+|+|||++.+++||+||||++.+.+++.+||||||||||+||+.|||+|+++|+ ++||+| T Consensus 396 ~i~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iFerFyR~d~sr~~~~~G~GLGLaIvk~Iv~~hgG~i~v~s~-~~Gt~f 474 (482) T PRK09835 396 AIVVRCQTVDHQVQVVVENPGTPIAPEHLPRLFDRFYRVDPSRQRKGEGSGIGLAIVKSIVVAHKGTVAVTSD-ARGTRF 474 (482) T ss_pred EEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEC-CCCEEE T ss_conf 6999999829989999996587889899987667975189888899994648999999999982998999963-991899 Q ss_pred EEECCC Q ss_conf 997359 Q gi|254780903|r 761 TICMPQ 766 (766) Q Consensus 761 ~i~LP~ 766 (766) +|+||| T Consensus 475 ~i~lPr 480 (482) T PRK09835 475 VISLPR 480 (482) T ss_pred EEEEEC T ss_conf 999307 No 20 >COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms] Probab=100.00 E-value=0 Score=409.32 Aligned_cols=347 Identities=23% Similarity=0.428 Sum_probs=276.4 Q ss_pred EECCCHHHHHHHHHHHHH-HHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHH Q ss_conf 844617999999999999-9999999854455158834996997017898883999789428971788165201378999 Q gi|254780903|r 364 AMDLTEKYHLEKRYAEAD-QRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEY 442 (766) Q Consensus 364 ~~DITErK~ae~~l~ese-~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~ 442 (766) .-|.|++-+..++..++| .+|..++..+.+|++..|..|++++.|+.+.+++|.+.+++.+....+.+.-.+...... T Consensus 92 fn~Lt~~~~~aq~n~e~Er~kL~SvlayMtDGViATdRrG~iI~iN~~A~k~L~~~~E~~~~~~i~elL~i~d~y~~~d- 170 (459) T COG5002 92 FNDLTKRVQEAQANTEQERRKLDSVLAYMTDGVIATDRRGKIILINKPALKMLGVSKEDALGRSILELLKIEDTYTFED- 170 (459) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCEEEECCHHHHHHCCCHHHHHCCCHHHHHCCCCCEEHHH- T ss_conf 9789999999987678888889989998707657645778689935079998486778771653788857754302888- Q ss_pred HHHCCCCCCCEEEEEEE-CCCEEEEEC--CEECC---CCCEEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHH Q ss_conf 85211245640589991-696287422--32456---9978999886201000112232222222110000178899864 Q gi|254780903|r 443 RTSDPERSQDMSKEIKL-ADSRWLQIN--EWCTH---DGGTISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILE 516 (766) Q Consensus 443 ~~~~~~~~~~~~~e~~~-~dg~~~~i~--~~~~~---dg~~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 516 (766) -+ +...+...+... ..+..++++ ..+.. -.|++.|..|+|+.. T Consensus 171 L~---e~~~s~lld~~~~~E~~~lrv~Fs~i~rEsGfisGlIaVlhDvTEqe---------------------------- 219 (459) T COG5002 171 LV---EKNDSLLLDSSDEEEGYVLRVNFSVIQRESGFISGLIAVLHDVTEQE---------------------------- 219 (459) T ss_pred HH---HCCCCEEEEECCCCCCEEEEEEEEEEEECCCCCCEEEEEEECCCHHH---------------------------- T ss_conf 87---25982898604788637999988888511466440699873143878---------------------------- Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 44579999999999999999887899999999876752224789999999986034688993899999999999999999 Q gi|254780903|r 517 RQKTELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLL 596 (766) Q Consensus 517 ~~~~~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~ 596 (766) +..+...+|.||+||||||||++..+|+|.|..++..+ .+-...++..-.+..+||. T Consensus 220 ---------------------k~e~ErRefvanvSHElRTPltsmksyLEALe~ga~~d--~eiAp~Fl~vt~~ETeRMi 276 (459) T COG5002 220 ---------------------KVERERREFVANVSHELRTPLTSMKSYLEALEEGAWED--KEIAPRFLRVTLNETERMI 276 (459) T ss_pred ---------------------HHHHHHHHHHHHCCHHHCCCHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHHHHHHH T ss_conf ---------------------88999999988614031473678999999974687447--1232689987478899999 Q ss_pred HHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCE-EEEEECC-CCEEEECHHHHHHHHHHHHHHHHH Q ss_conf 99777677888741983012033169999999999999999847958-9998089-978998689999999998865653 Q gi|254780903|r 597 NMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIK-IEKKIPS-ELFFNADKRIIKKILFPILSNSIK 674 (766) Q Consensus 597 ~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~-l~~~~~~-~l~v~~D~~~l~QVl~NLi~NAik 674 (766) +||||+|.+||++..+..++++-+++...+...+.-+...+.+..+. +..++|. +.+|..|+..+.||+.|+|+||+| T Consensus 277 RlV~DLl~lsr~d~~~~qln~e~inft~fl~~ii~R~e~~~~~e~~~~~vR~~p~~~~~veiD~DK~tQVldNii~NA~K 356 (459) T COG5002 277 RLVNDLLQLSRMDNARYQLNKEWINFTAFLNEIINRFEMILKKETIARFVRDIPKQDIWVEIDPDKMTQVLDNIISNALK 356 (459) T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECHHHHHHHHHHHHHHHHH T ss_conf 99999987725763256665788874889999999999987567788999608888648996706899999999877752 Q ss_pred CCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEEC Q ss_conf 46898889999999799899999978897897785430465053146755677887616899999999629869999798 Q gi|254780903|r 675 FTNNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQE 754 (766) Q Consensus 675 ~t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~ 754 (766) |+|+||+|++++...++.+.++|+|.|.|||++.+++||++|+|++...+++.|||||||||+|.||+.|||+||++|+. T Consensus 357 YsP~Gg~Itv~~~~~~~~v~iSI~D~G~gIPk~d~~~iFdrfyRvdkARsR~~gGTGLGLaIakeiV~~hgG~iWA~s~~ 436 (459) T COG5002 357 YSPDGGRITVSVKQRETWVEISISDQGLGIPKEDLEKIFDRFYRVDKARSRKMGGTGLGLAIAKEIVQAHGGRIWAESEE 436 (459) T ss_pred CCCCCCEEEEEEEEECCEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCEEEEECCC T ss_conf 48999739999963075899997468889984068999998852236654037877612999999999709857776045 Q ss_pred CCCEEEEEECC Q ss_conf 99529999735 Q gi|254780903|r 755 GKGTIVTICMP 765 (766) Q Consensus 755 g~Gttf~i~LP 765 (766) |+||||+|+|| T Consensus 437 gkgtt~~ftLP 447 (459) T COG5002 437 GKGTTFSFTLP 447 (459) T ss_pred CCCEEEEEEEC T ss_conf 88617999954 No 21 >PRK11086 sensory histidine kinase DcuS; Provisional Probab=100.00 E-value=0 Score=351.42 Aligned_cols=192 Identities=21% Similarity=0.237 Sum_probs=148.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECH Q ss_conf 99999987675222478999999998603468899389999999999999999999777677888741983012033169 Q gi|254780903|r 543 KSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADL 622 (766) Q Consensus 543 k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl 622 (766) ..+++...+||++|||+.|.|++++-+ .++..+|+..+ .......++.+++--+ . T Consensus 338 ~~e~Lra~sHE~~n~L~~I~Gll~l~~--------~d~~~~~i~~~---~~~~~~~~~~l~~~i~----------~---- 392 (541) T PRK11086 338 YADALRAQSHEFMNKLHVILGLLHLKS--------YDQLEDYILKT---ANNYQEEIGSLLGKIK----------S---- 392 (541) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCH--------HHHHHHHHHHH---HHHHHHHHHHHHHHCC----------C---- T ss_conf 999987611666405799988886430--------89999999999---9999999999998611----------6---- Q ss_pred HHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHH---HHHHHHHHHHHHHHHCCC--CCCEEEEEEEEECCEEEEEE Q ss_conf 9999999999999998479589998089978998689---999999998865653468--98889999999799899999 Q gi|254780903|r 623 IPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADKR---IIKKILFPILSNSIKFTN--NNGKMMIRTSKIGQCVIITI 697 (766) Q Consensus 623 ~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~---~l~QVl~NLi~NAik~t~--~~g~I~i~~~~~~~~v~i~V 697 (766) .++...+.--...+.++++.|.++.+..+|...|+. +|.|||.||+.||+||++ ++|+|.|+....++.+.|+| T Consensus 393 -p~la~~Llgk~~~a~E~gi~L~i~~~~~l~~~~~~~~~~~l~tVlgNLidNAi~A~~~~~~g~V~v~l~~~~~~l~i~V 471 (541) T PRK11086 393 -PVIAGFLLGKISRARELGITLIISEDSQLPDSDDEDQVHELITILGNLIENALEAVSNEEGGEISVSLHYRHGWLHIEV 471 (541) T ss_pred -HHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCEEEEEE T ss_conf -8889999988999996698599706776778886466657999999999999997316899679999998899899999 Q ss_pred EECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 978897897785430465053146755677887616899999999629869999798995299997359 Q gi|254780903|r 698 ADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 698 ~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) +|||+|||++.+++||+||| +| +.+||||||||||++|+.|||+|+|+|++|+||+|+|+||+ T Consensus 472 ~D~G~GI~~e~~~~IFerg~-----St-K~~g~GLGLaIvk~iVe~~gG~I~veS~~g~GT~Fti~LP~ 534 (541) T PRK11086 472 SDDGPGIAPEEIEAIFDKGY-----ST-KGSNRGVGLYLVKQSVENLGGSIAVESEPGIGTQFFVQIPW 534 (541) T ss_pred EECCCCCCHHHHHHHCCCCC-----CC-CCCCCCCCHHHHHHHHHHCCCEEEEEECCCCCEEEEEEECC T ss_conf 97798859779988717987-----41-89991103999999999859989999669993799999606 No 22 >PRK09470 cpxA two-component sensor protein; Provisional Probab=100.00 E-value=0 Score=380.53 Aligned_cols=235 Identities=25% Similarity=0.371 Sum_probs=207.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999998878999999998767522247899999999860346889938999999999999999999977 Q gi|254780903|r 521 ELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMIN 600 (766) Q Consensus 521 ~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~ 600 (766) |+.++.+......++++++.....+|++++||||||||+.|.++.+++.+.. ++ .+.++.|.+.+++|.++|+ T Consensus 221 Ei~~La~~fN~M~~~L~~~~~~q~~f~advSHELRTPLt~i~~~~~ll~~~~-~~------~~~l~~i~~e~~rl~~li~ 293 (461) T PRK09470 221 EFRAAGASFNQMVTALERMMSSQQRLLSDISHELRTPLTRLQLATALLRRRQ-GE------SKELERIETEAQRLDSMIN 293 (461) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCC-CC------HHHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999999999999998645553278999999999864044-78------5999999999999999999 Q ss_pred HHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECC-CCEEEECHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 76778887419830120331699999999999999998479589998089-97899868999999999886565346898 Q gi|254780903|r 601 NILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPS-ELFFNADKRIIKKILFPILSNSIKFTNNN 679 (766) Q Consensus 601 diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~-~l~v~~D~~~l~QVl~NLi~NAik~t~~~ 679 (766) ++|++||.+.+. .+..+++|+.++++++++.+...+..+++.+.++.++ .++|.+|+.+|+||+.||+.||+||+++ T Consensus 294 ~lL~lsr~~~~~-~~~~e~~~l~~l~~~v~~~~~~~a~~~~~~l~~~~~~~~~~v~~d~~~l~~vl~NLl~NAikys~~- 371 (461) T PRK09470 294 DLLVLSRNQVKN-HLVRETIKANSLWSEVLEDAAFEAEQMGKSLTVNQPPGPWPINGNPNALESALENIVRNALRYSHT- 371 (461) T ss_pred HHHHHHHHCCCC-CCCCCEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEEECHHHHHHHHHHHHHHHHHHCCC- T ss_conf 999997620546-555651539999999999999999975976999727875489978999999999999999974899- Q ss_pred CEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEE Q ss_conf 88999999979989999997889789778543046505314675567788761689999999962986999979899529 Q gi|254780903|r 680 GKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTI 759 (766) Q Consensus 680 g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gtt 759 (766) .|+|++...++.+.|+|+|+|+|||++.+++||+||||++.+.+++.+||||||||||+||+.|||+|+++|.++.||+ T Consensus 372 -~i~v~~~~~~~~~~i~V~D~G~GI~~e~l~~iFepFyR~d~sr~~~~gG~GLGLaIv~~iv~~hgG~i~~~~~~~~G~~ 450 (461) T PRK09470 372 -KIEVGFSVDKDGLTITVDDDGPGVPEEEREQIFRPFYRVDEARDRESGGTGLGLAIVENAIQQHRGWVKAEDSPLGGLR 450 (461) T ss_pred -CEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCEEE T ss_conf -5899999999999999997799989999987627972289888899997138899999999982998999977998569 Q ss_pred EEEECC Q ss_conf 999735 Q gi|254780903|r 760 VTICMP 765 (766) Q Consensus 760 f~i~LP 765 (766) |+|+|| T Consensus 451 ~~i~LP 456 (461) T PRK09470 451 LTIWLP 456 (461) T ss_pred EEEEEE T ss_conf 999965 No 23 >PRK10604 sensor protein RstB; Provisional Probab=100.00 E-value=0 Score=380.91 Aligned_cols=234 Identities=20% Similarity=0.328 Sum_probs=204.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999998878999999998767522247899999999860346889938999999999999999999977 Q gi|254780903|r 521 ELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMIN 600 (766) Q Consensus 521 ~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~ 600 (766) ++.++.+......++.+..-..+.+|++++||||||||+.|.+.++++.. +. .++ .+.+.+...+|.++|+ T Consensus 190 Ei~~La~~FN~Ma~~l~~~~~~~r~f~a~vSHELRTPLt~i~~~lell~~----~~-~~e----~~~l~~~i~~l~~lv~ 260 (433) T PRK10604 190 SFERLGVAFNQMADNINALIASKKQLIDGIAHELRTPLVRLRYRLEMSDN----LS-AAE----SQALNRDIGQLEALIE 260 (433) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCHHHHHHHHHHHHCC----CC-HHH----HHHHHHHHHHHHHHHH T ss_conf 59999999999999999999999999874024431689999999997049----98-578----9999999999999999 Q ss_pred HHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 76778887419830120331699999999999999998479589998089978998689999999998865653468988 Q gi|254780903|r 601 NILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADKRIIKKILFPILSNSIKFTNNNG 680 (766) Q Consensus 601 diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAik~t~~~g 680 (766) ++|++||++.+...++++++|+.+++.+++..+++...++++.+... .++..+.+|+.+|+|++.||++||+||+ +| T Consensus 261 ~lL~larl~~~~~~l~~~~~dl~~~i~~~~~~~~~~~~~~~i~l~~~-~~~~~~~~D~~~l~~~l~NLl~NA~kys--~~ 337 (433) T PRK10604 261 ELLTYARLDRPQNELHLSEPDLPAWLSTHLADIQAVTPEKTVRLKTP-HQGDYGALDMRLMERVLDNLLNNALRYS--HS 337 (433) T ss_pred HHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEECC-CCCCEEEECHHHHHHHHHHHHHHHHHCC--CC T ss_conf 99999763689787877023699999999999997655996799717-9886698789999999999999998718--99 Q ss_pred EEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEE Q ss_conf 89999999799899999978897897785430465053146755677887616899999999629869999798995299 Q gi|254780903|r 681 KMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIV 760 (766) Q Consensus 681 ~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf 760 (766) +|.|++...++.++|+|+|+|+|||++.+++||+||+|++.+.+++.+|+||||||||+||+.|||+|+++|.+|+||+| T Consensus 338 ~v~v~~~~~~~~~~i~V~D~G~GI~~e~~~~IFepFyR~d~sr~~~~gG~GLGLaIvk~Iv~~hgG~i~v~s~~~gGa~f 417 (433) T PRK10604 338 TVETSLLLDGDQATLIVEDDGPGIAPEERERIFEPFVRLDPSRDRATGGCGLGLAIVHSIALAMGGSVNCDTSELGGARF 417 (433) T ss_pred CEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCCEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCEEEE T ss_conf 78999999999999999977878898999986579452888889999961388999999999819989999669984799 Q ss_pred EEECCC Q ss_conf 997359 Q gi|254780903|r 761 TICMPQ 766 (766) Q Consensus 761 ~i~LP~ 766 (766) +|+||. T Consensus 418 ~i~LP~ 423 (433) T PRK10604 418 SFSWPV 423 (433) T ss_pred EEEECC T ss_conf 999779 No 24 >PRK10755 sensor protein BasS/PmrB; Provisional Probab=100.00 E-value=0 Score=371.90 Aligned_cols=234 Identities=18% Similarity=0.328 Sum_probs=202.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHH Q ss_conf 57999999999999999988789999999987675222478999999998603468899389999999999999999999 Q gi|254780903|r 519 KTELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNM 598 (766) Q Consensus 519 ~~~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~l 598 (766) ..|+.++.+.+.+..++++.+.....+|++++||||||||++|.|++|++++... . ..+.+.+..++|..+ T Consensus 119 ~dEl~~L~~~fN~M~~rL~~~~~~qr~Fia~~SHELRTPLt~I~~~lEll~~~~~-----~----~~~~~~~~i~rl~~l 189 (355) T PRK10755 119 TLEIEAVTSALNQLVSRLTSTLDNERLFTADVAHELRTPLAGVRLHLELLAKTHH-----I----DVAPLIARLDQMMHS 189 (355) T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCC-----C----CHHHHHHHHHHHHHH T ss_conf 7189999999999999999999999999997577740389999999999737575-----3----199999999999999 Q ss_pred HHHHHHHHHHHCCCCCCCEEEEC-HHHHHHHHHHHHHHHHHHCCCEEEEEEC-CCCEEEECHHHHHHHHHHHHHHHHHCC Q ss_conf 77767788874198301203316-9999999999999999847958999808-997899868999999999886565346 Q gi|254780903|r 599 INNILEMSKIETEKISIDKQNAD-LIPIINEGIRLIGSSAQSKNIKIEKKIP-SELFFNADKRIIKKILFPILSNSIKFT 676 (766) Q Consensus 599 I~diLd~srieag~~~~~~~~~d-l~~~i~~~~~~~~~~~~~k~i~l~~~~~-~~l~v~~D~~~l~QVl~NLi~NAik~t 676 (766) |+++|+++|++.+....+.++++ +.+++......+.+.+..++..+.+..+ .+++|.+|+.+|+||+.||++||+||+ T Consensus 190 i~~LL~Lar~~~~~~~~~~~~~~ll~~li~~~~~~l~~~~~~~~~~l~~~~~~~~~~v~~D~~lL~~vl~NLi~NAikys 269 (355) T PRK10755 190 VSQLLQLARAGQSFSSGNYQTVKLLEDVILPSYDELSTMLEQRQQTLLLPESAADITVQGDATLLRLLLRNLVENAHRYS 269 (355) T ss_pred HHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCEEEEECHHHHHHHHHHHHHHHHHHC T ss_conf 99999998588864345442132599999999999999999759959996588771899689999999999999899748 Q ss_pred CCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEEC-C Q ss_conf 898889999999799899999978897897785430465053146755677887616899999999629869999798-9 Q gi|254780903|r 677 NNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQE-G 755 (766) Q Consensus 677 ~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~-g 755 (766) |+||.|.|+....+ .++++|+|+|+|||++.+++||+||+|+++ +.+|+||||||||+||+.|||+|+++|+| | T Consensus 270 ~~g~~I~I~l~~~~-~~~i~V~D~G~GI~~e~~~~iFerFyR~d~----~~gGsGLGLaIvk~Iv~~HgG~I~l~s~~~g 344 (355) T PRK10755 270 PEGSNITIKLQEDG-GAVMAVEDEGPGIDESKCGELSKAFVRMDS----RYGGIGLGLSIVSRITQLHHGQFFLQNRQER 344 (355) T ss_pred CCCCEEEEEEEECC-CEEEEEEECCCCCCHHHHHHHCCCCCCCCC----CCCCCCHHHHHHHHHHHHCCCEEEEEECCCC T ss_conf 99976999999779-889999987999897999885588613899----9998758999999999991998999987989 Q ss_pred CCEEEEEECCC Q ss_conf 95299997359 Q gi|254780903|r 756 KGTIVTICMPQ 766 (766) Q Consensus 756 ~Gttf~i~LP~ 766 (766) .||+|+|+||| T Consensus 345 gGt~~~v~LPk 355 (355) T PRK10755 345 SGTRAWVWLKK 355 (355) T ss_pred CEEEEEEEECC T ss_conf 87899999479 No 25 >PRK10337 sensor protein QseC; Provisional Probab=100.00 E-value=0 Score=369.92 Aligned_cols=234 Identities=19% Similarity=0.269 Sum_probs=205.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999998878999999998767522247899999999860346889938999999999999999999977 Q gi|254780903|r 521 ELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMIN 600 (766) Q Consensus 521 ~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~ 600 (766) |+..+...+....++.+++.....+|.+++||||||||++|.+.+|++.... ..++.+++++..|....+||.+||+ T Consensus 212 El~~L~~a~N~ml~rl~~~~~~~r~F~adaAHELRTPLt~i~~~~e~~~~~~---~~~~~~~~~l~~i~~~~~rl~~lv~ 288 (446) T PRK10337 212 EVRPLVEALNQLFARTHAMMVRERRFTSDAAHELRSPLTALKVQTEVAQLSD---DDPQARKKALLQLHSGIDRATRLVD 288 (446) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCC---CCHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 8999999999999999999999999999788875168999999999984279---9989999999999999999999999 Q ss_pred HHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCC-CEEEECHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 767788874198301203316999999999999999984795899980899-7899868999999999886565346898 Q gi|254780903|r 601 NILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSE-LFFNADKRIIKKILFPILSNSIKFTNNN 679 (766) Q Consensus 601 diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~-l~v~~D~~~l~QVl~NLi~NAik~t~~~ 679 (766) ++|.+||++++.....++++||.+++++++..+.+.+..+++++.++.++. +++.+|+..|+|++.|||.||+||+|+| T Consensus 289 ~LL~Lar~d~~~~~~~~~~v~l~~l~~~~v~~~~~~a~~~~i~l~~~~~~~~~~~~~d~~ll~~~l~NLl~NAikytp~g 368 (446) T PRK10337 289 QLLTLSRLDSLDNLQDVAEIPLEDLLQSAVMDIYHTAQQAKIDVRLTLNAHGIKRTGQPLLLSLLVRNLLDNAVRYSPQG 368 (446) T ss_pred HHHHHHHHHCCCCCCCCCEECHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCEEEECCHHHHHHHHHHHHHHHHHHCCCC T ss_conf 99998775446565678175299999999999999999759779996288770671689999999999999999748999 Q ss_pred CEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEE Q ss_conf 88999999979989999997889789778543046505314675567788761689999999962986999979899529 Q gi|254780903|r 680 GKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTI 759 (766) Q Consensus 680 g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gtt 759 (766) |.|.|+.... .++|+|||+|||++.++||||||||.++ +..+|+|||||||++|+++|||+|+++|.|+.|++ T Consensus 369 ~~I~v~~~~~----~l~V~D~G~GIp~e~~~~iFeRFyR~~~---~~~~GsGLGLaIV~~I~~~hgG~i~l~~~~~GG~~ 441 (446) T PRK10337 369 SVVDVTLNAR----NFTVRDNGPGVTPEALARIGERFYRPPG---QTATGSGLGLSIVQRIAKLHGMNVSFGNAEEGGFE 441 (446) T ss_pred CEEEEEEECC----EEEEEECCCCCCHHHHHHHCCCCCCCCC---CCCCCCCHHHHHHHHHHHHHCCEEEEEECCCCEEE T ss_conf 7699999807----7999976999999999874279706999---99998267499999999981998999978989279 Q ss_pred EEEEC Q ss_conf 99973 Q gi|254780903|r 760 VTICM 764 (766) Q Consensus 760 f~i~L 764 (766) |+|+. T Consensus 442 ~~vt~ 446 (446) T PRK10337 442 AKVSW 446 (446) T ss_pred EEEEC T ss_conf 99969 No 26 >COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms] Probab=100.00 E-value=0 Score=368.88 Aligned_cols=223 Identities=25% Similarity=0.468 Sum_probs=205.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEE Q ss_conf 78999999998767522247899999999860346889938999999999999999999977767788874198301203 Q gi|254780903|r 539 ANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQ 618 (766) Q Consensus 539 an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~ 618 (766) ..+..+-||+.+||||||||++|.|.++.|.... ..++++...+.+..|.+.+++|.++|++||||+||++|-++++++ T Consensus 656 ~E~lRsaLL~sISHDLRTPLt~i~Gaa~tL~~~~-~~l~~~~~aeLl~~I~ees~~L~rlV~NLLdmTRi~sG~~~l~~~ 734 (890) T COG2205 656 RERLRSALLASISHDLRTPLTAIMGAAETLLLDG-EALSPEDRAELLSSIREESERLTRLVTNLLDMTRLQSGGVNLKLD 734 (890) T ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC T ss_conf 9999999998741024672898861488864234-015937699999999999999999999877677771378641445 Q ss_pred EECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE-EEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEE Q ss_conf 31699999999999999998479589998089978-99868999999999886565346898889999999799899999 Q gi|254780903|r 619 NADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF-FNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITI 697 (766) Q Consensus 619 ~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~-v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V 697 (766) +..+.+++.+++.-++.....+. +.++++++++ +.+|...+.|||.|||.||+||+|++.+|.|.+....+.++|+| T Consensus 735 ~~~veEvVg~Al~r~~k~~~~~~--i~v~~~~dl~li~~D~~LieQVLiNLleNA~Kyap~~s~I~I~~~~~~~~v~~~V 812 (890) T COG2205 735 WVLVEEVVGEALQRLRKRFTGHK--IVVSVPVDLPLIHVDSPLIEQVLINLLENALKYAPPGSEIRINAGVERENVVFSV 812 (890) T ss_pred HHHHHHHHHHHHHHHHHHCCCCE--EEEECCCCCCEEECCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCEEEEEE T ss_conf 20399999999998663047835--8995588871676478899999999998787428999769999998245699999 Q ss_pred EECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 978897897785430465053146755677887616899999999629869999798995299997359 Q gi|254780903|r 698 ADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 698 ~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) .|+|+|||++.+++||+||++.++.. ...|+|||||||++||+.|||+|++++.++.|++|+|+||. T Consensus 813 ~DeGpGIP~~~~~~IFD~F~r~~~~~--~~~G~GLGLsIc~~iv~ahgG~I~a~~~~~gGa~f~~~LP~ 879 (890) T COG2205 813 IDEGPGIPEGELERIFDKFYRGNKES--ATRGVGLGLAICRGIVEAHGGTISAENNPGGGAIFVFTLPV 879 (890) T ss_pred EECCCCCCHHHHHHHHHHHHCCCCCC--CCCCCCCCHHHHHHHHHHCCCEEEEEECCCCCEEEEEEEEC T ss_conf 71899988567887646541488877--88876622999999999748868987769993589999406 No 27 >TIGR01386 cztS_silS_copS heavy metal sensor kinase; InterPro: IPR006290 Members of this family contain a sensor histidine kinase domain (IPR003661 from INTERPRO) and a domain found in bacterial signal proteins (IPR003660 from INTERPRO). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. ; GO: 0000155 two-component sensor activity, 0016775 phosphotransferase activity nitrogenous group as acceptor, 0000160 two-component signal transduction system (phosphorelay), 0007600 sensory perception. Probab=100.00 E-value=0 Score=364.83 Aligned_cols=245 Identities=23% Similarity=0.367 Sum_probs=228.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 44579999999999999999887899999999876752224789999999986034688993899999999999999999 Q gi|254780903|r 517 RQKTELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLL 596 (766) Q Consensus 517 ~~~~~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~ 596 (766) ..-.||+++........+|+|.+-+-.++|-|.++|||||||+..++-+|....+. =..+.|++.+..=...-+||. T Consensus 235 ~~P~EL~~l~~~FNaML~RLEd~f~rLs~FSaDlAHElRTPltNL~~~tQVaLS~~---R~~~eY~e~l~snlEEl~RL~ 311 (483) T TIGR01386 235 RLPAELRELAQSFNAMLDRLEDAFQRLSQFSADLAHELRTPLTNLLGQTQVALSRP---RSGEEYREVLESNLEELERLS 311 (483) T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCCHHHHHHHHHEEECCC---CCHHHHHHHHHHHHHHHHHHH T ss_conf 47866899999999998889999999973171456664012544566500200568---898899999986189999999 Q ss_pred HHHHHHHHHHHHHCCCCCCCEEEECHHHHHH-HHHHHHHHHHHHCC--CEEEEEECCCCEEEECHHHHHHHHHHHHHHHH Q ss_conf 9977767788874198301203316999999-99999999998479--58999808997899868999999999886565 Q gi|254780903|r 597 NMINNILEMSKIETEKISIDKQNADLIPIIN-EGIRLIGSSAQSKN--IKIEKKIPSELFFNADKRIIKKILFPILSNSI 673 (766) Q Consensus 597 ~lI~diLd~srieag~~~~~~~~~dl~~~i~-~~~~~~~~~~~~k~--i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAi 673 (766) ++|+|+|=++|-+.++..++.+.+||++=++ .+.+.+.+.+++++ +.|.++..| ..+.||+..++.+|.|||+||+ T Consensus 312 rMv~DMLFLAraD~~~~~~~~~~ldL~ae~~l~~~~~fE~lAee~~Piv~l~v~G~P-~~~~gD~~lfrRA~sNLLsNA~ 390 (483) T TIGR01386 312 RMVEDMLFLARADNGRLALEREELDLAAELALKVAEYFEPLAEERGPIVSLRVEGEP-AEVRGDALLFRRALSNLLSNAL 390 (483) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCC-CEEECCHHHHHHHHHHHHHHHH T ss_conf 999899989985234567778751278888788887742027678866899983242-0560247888999999999998 Q ss_pred HCCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCC-CCCCCCHHHHHHHHHHHHCCCEEEEEE Q ss_conf 3468988899999997998999999788978977854304650531467556-778876168999999996298699997 Q gi|254780903|r 674 KFTNNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQ-SIGGFGLGLAISDALTNLHGGRLKIIS 752 (766) Q Consensus 674 k~t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~-~~~GtGLGLaI~k~iVe~hgG~I~v~S 752 (766) +|||+||.|+|++....|.+.|.|+|+|.||||+.++||||+|||+|.+.+. +..||||||||||+|++.|||++.|+| T Consensus 391 rhtp~g~~I~v~~~~~~d~~~~~v~N~G~~Ip~e~L~rLFdRFYR~D~aR~~G~~~g~GLGLAIV~SI~~~HGG~~~aeS 470 (483) T TIGR01386 391 RHTPAGSTIDVRVERRADEVRVSVENTGDGIPPEHLSRLFDRFYRVDPARSNGSQEGTGLGLAIVRSIMEAHGGRAEAES 470 (483) T ss_pred HHCCCCCEEEEEEEECCCEEEEEEECCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCHHHHHHHHHHHHCCCEEEEEE T ss_conf 60899885899996147756899835879998523565553002676333276645676048999999982398689986 Q ss_pred ECCCCEEEEEECC Q ss_conf 9899529999735 Q gi|254780903|r 753 QEGKGTIVTICMP 765 (766) Q Consensus 753 ~~g~Gttf~i~LP 765 (766) .++.=|+|.+.+| T Consensus 471 ~~~~~t~F~l~fp 483 (483) T TIGR01386 471 EADGKTRFKLRFP 483 (483) T ss_pred CCCCEEEEEEECC T ss_conf 4892489876339 No 28 >TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL; InterPro: IPR014285 NifL modulates the activity of the nitrogen fixation positive regulator protein NifA, acting as a negative regulator by binding NifA. NifA and NifL are encoded by adjacent genes.. Probab=100.00 E-value=0 Score=358.40 Aligned_cols=463 Identities=17% Similarity=0.228 Sum_probs=354.5 Q ss_pred HHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHH--HHCCCCHHHHHHHHHHHHCCCCEEEEEE Q ss_conf 99999972259745989768978999788997729994330589889997--6081205899999999724898489999 Q gi|254780903|r 255 ICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIAR--LIHYDNKKICEIARSVTGKHVKQLDQIF 332 (766) Q Consensus 255 ~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~--~vHPdDr~~~~~a~~~~~~~~~~~~~e~ 332 (766) +-+|.+++.|++.|=..|+.-+.+|.|++|.++.||.++|..+..+++++ ..+| +.|...+..+.. .+||.=.. T Consensus 4 e~~RqtVdqAp~AISITDlKANILyaN~AF~~iTGY~~eE~iGkNES~LSn~tTPp---eVYQaLWg~la~-qkPW~G~L 79 (496) T TIGR02938 4 ELYRQTVDQAPVAISITDLKANILYANDAFSEITGYAKEEVIGKNESVLSNRTTPP---EVYQALWGSLAE-QKPWAGKL 79 (496) T ss_pred HHHHHHHHHCCCEEEECCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCH---HHHHHHHHHHHH-CCCCCCCE T ss_conf 56888662288036431014569999566321558656211125540126858871---799999988630-58986510 Q ss_pred EEECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCEEEEECHHH Q ss_conf 98869898899889999998379606-99999844617999999999999999999985445515883499699701789 Q gi|254780903|r 333 HMRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEALVLWDKNDRLVMCNANY 411 (766) Q Consensus 333 Ri~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~ 411 (766) =-||+||+..=-.....|+-|+.|.+ ||+|.++||||..++|++.+.+...+.++++++|.++++.|..||++.-|+.| T Consensus 80 lNRrkDg~lYLAeLtvaPvlneaGeT~hflGMHRd~tElh~Leq~V~nQ~l~iE~VV~aaPva~vllD~~gRv~LdN~~y 159 (496) T TIGR02938 80 LNRRKDGELYLAELTVAPVLNEAGETTHFLGMHRDVTELHRLEQRVANQKLLIEAVVDAAPVAAVLLDEQGRVVLDNLEY 159 (496) T ss_pred ECCCCCCCHHHHHHCCCCHHCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCEEECCHHH T ss_conf 00011653002220202000146881587325454357889988897646789999878654100056998688167768 Q ss_pred HHHHCCCHHHHCCCCCH----HHHCCCHHHHHHHHHHHCCCCCCCEEEEEEECCC---EEEEECCEEC------------ Q ss_conf 88839997894289717----8816520137899985211245640589991696---2874223245------------ Q gi|254780903|r 412 QKAYGLPDHVLVPGNAR----SIIQDAQTRPIIEYRTSDPERSQDMSKEIKLADS---RWLQINEWCT------------ 472 (766) Q Consensus 412 ~~~~g~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~dg---~~~~i~~~~~------------ 472 (766) +++.- ++.-.-|- +.+.+....+. ...-.........+..+-.+.| ||+.+..+-. T Consensus 160 k~La~----DL~v~epa~~~l~lLre~~~e~~-~~~~~q~~afsn~E~rfD~ggGR~~RWlSc~g~~i~~e~~~ad~fF~ 234 (496) T TIGR02938 160 KKLAS----DLKVEEPAELLLKLLREELAEDL-EELENQEKAFSNKELRFDRGGGRSARWLSCAGRVIRIEEDSADSFFA 234 (496) T ss_pred HHHHH----HCCCCCCHHHHHHHHHHHHHHHH-HHHCCCCCEECCCEEEEECCCCCCCCCEEECCCEEEEECCCCCEEEC T ss_conf 87874----21414417999998508765278-65202110101540354168878850102023235311364011561 Q ss_pred --CCCCEEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf --699789998862010001122322222221100001788998644457999999999999999988789999999987 Q gi|254780903|r 473 --HDGGTISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANAKYQVEKERAETANKTKSEFLAKM 550 (766) Q Consensus 473 --~dg~~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~~ae~an~~k~efla~i 550 (766) ..+++.-+-.||+.++..++... + .+-+.+-++.|+.| ..|.-|.|. T Consensus 235 ~~e~~yLLLti~Dis~lr~~Qe~~R--------------------------l-~aLqAlmAEEE~le---~~rEtl~AA- 283 (496) T TIGR02938 235 AAEKRYLLLTIDDISELRKKQERAR--------------------------L-SALQALMAEEEKLE---ALRETLSAA- 283 (496) T ss_pred CCCCCCEEEEEHHHHHHHHHHHHHH--------------------------H-HHHHHHHHHHHHHH---HHHHHHHHH- T ss_conf 6899830566364788899999999--------------------------9-99899998998888---876668888- Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHH Q ss_conf 67522247899999999860346889938999999999999999999977767788874198301203316999999999 Q gi|254780903|r 551 SHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPIINEGI 630 (766) Q Consensus 551 sHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~ 630 (766) =|-|..|||.|.....+|++++-++.++......++.+..++...++-.....=- +..-...||+||+++++++ T Consensus 284 Ihrl~gP~NlisaA~~~L~RRlGD~AGn~a~~~~lqqa~~ag~e~~e~L~~~IP~------s~~e~~~pVNlN~~lrdvi 357 (496) T TIGR02938 284 IHRLQGPLNLISAAISVLERRLGDDAGNDAVAALLQQALAAGREALEALEKVIPQ------SDAEAVVPVNLNQVLRDVI 357 (496) T ss_pred HHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCC------CCCCCCCCCCHHHHHHHHH T ss_conf 8885287107889999863205832379799999999988639999975057887------7244546642778999999 Q ss_pred HHHHHHHHHCCCEEEEEECCCCE-EEECHHHHHHHHHHHHHHHHHCCCCCC----EEEEEEEEECCEEEEEEEECCCCCC Q ss_conf 99999998479589998089978-998689999999998865653468988----8999999979989999997889789 Q gi|254780903|r 631 RLIGSSAQSKNIKIEKKIPSELF-FNADKRIIKKILFPILSNSIKFTNNNG----KMMIRTSKIGQCVIITIADTGIGIP 705 (766) Q Consensus 631 ~~~~~~~~~k~i~l~~~~~~~l~-v~~D~~~l~QVl~NLi~NAik~t~~~g----~I~i~~~~~~~~v~i~V~D~G~GI~ 705 (766) .++.+++-..||.+++.....|| |.|-+.+++..|=.|+.|||+.|...+ ...|.++..++-|+++|.|+||||| T Consensus 358 ~l~T~rLLA~GIvVdW~Pa~~LP~~~G~e~~lRslfK~LvdNAIeaM~~~~~~RREL~i~t~~~~~li~~~i~DsGPGIP 437 (496) T TIGR02938 358 TLLTERLLAAGIVVDWQPAAVLPAVLGSESRLRSLFKALVDNAIEAMAQKGVKRRELSILTAVEDDLIRVEIEDSGPGIP 437 (496) T ss_pred HHHHHHHHHCCCEECCCCCCCCCHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCEEEEEEEECCCCCC T ss_conf 86105575575415165610162220785257899999999999985307841023101022308568999973587987 Q ss_pred HHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf 778543046505314675567788761689999999962986999979899529999735 Q gi|254780903|r 706 KSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 706 ~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) ++-.-|+|||||..+++. +-.|-|.||+.++.||..|+|=|.|+..+-.|+...+.+| T Consensus 438 ~dlr~kvFEPFFttK~~~--Gr~h~G~GL~vaqeiVa~H~G~i~~D~dy~eGCri~vef~ 495 (496) T TIGR02938 438 ADLRLKVFEPFFTTKASS--GRKHVGMGLAVAQEIVAKHAGLIDVDDDYREGCRIVVEFE 495 (496) T ss_pred CCCCEEEECCCCCCCCCC--CCCCCCCCCHHHHHHHHHCCCEEEECCCCCCCCEEEEEEC T ss_conf 244225236732268887--7842334626889997504987973688877735777623 No 29 >PRK10815 sensor protein PhoQ; Provisional Probab=100.00 E-value=0 Score=352.41 Aligned_cols=234 Identities=17% Similarity=0.238 Sum_probs=205.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999998878999999998767522247899999999860346889938999999999999999999977 Q gi|254780903|r 521 ELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMIN 600 (766) Q Consensus 521 ~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~ 600 (766) |+..+...+....++.+.+.....+|++++||||||||++|.|+++.+..+. ...+ +....+....+||.++|+ T Consensus 244 Ei~~La~~fN~ml~rl~~~~~rqr~F~adaSHELRTPLa~l~~~le~L~~~~---~~~~---~~~~~~le~i~Rl~~li~ 317 (484) T PRK10815 244 ELTSLVRNLNRLLKSERERYDKYRTTLTDLTHSLKTPLAVLQSTLRSLRTEK---MSVS---DAEPVMLEQISRISQQIG 317 (484) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCCHHHHHHHHHHHHHCCC---CCHH---HHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999999999999985443643456999999999974699---8878---999999999999999999 Q ss_pred HHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHHHHHHHHHHHHHHHHHCCCCCC Q ss_conf 76778887419830120331699999999999999998479589998089978998689999999998865653468988 Q gi|254780903|r 601 NILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADKRIIKKILFPILSNSIKFTNNNG 680 (766) Q Consensus 601 diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAik~t~~~g 680 (766) ++|+.++++++...+..+.+++..++++++..+...+.+|++.+..++++++.+.+|+..|.|++.||+.||+||++++ T Consensus 318 ~lL~~a~~~~~~~~~~~e~~~l~~ll~~l~~~l~~~~~~k~i~l~~~~~~~~~~~gd~~~l~~~l~NLldNAikys~~~- 396 (484) T PRK10815 318 YYLHRASMRGEGTLLSRELHPVAPLLDNLTSALNKVYQRKGVNISLDISPEISFVGEQNDFMEVMGNVLDNACKYCLEF- 396 (484) T ss_pred HHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCEEEECCHHHHHHHHHHHHHHHHHHCCCC- T ss_conf 9999987038986302555669999999999999999964977999648760795578999999999999999728886- Q ss_pred EEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEE Q ss_conf 89999999799899999978897897785430465053146755677887616899999999629869999798995299 Q gi|254780903|r 681 KMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIV 760 (766) Q Consensus 681 ~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf 760 (766) |.|+++..++.++|.|+|+|+|||++.+++||+||+|++.+ ..|+||||||||.||+.|||+|+++|.|+.||+| T Consensus 397 -v~I~~~~~~~~~~I~V~D~GpGIp~e~~~~IFeRF~R~d~~----r~GsGLGLaIvk~Iv~~hgG~I~l~~s~~gG~~f 471 (484) T PRK10815 397 -VEISARQTDEHLHIVVEDDGPGIPESKRELIFDRGQRVDTL----RPGQGVGLAVAREITEQYEGKIVASESPLGGARM 471 (484) T ss_pred -EEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCCCCCCCC----CCCCCHHHHHHHHHHHHCCCEEEEEECCCCCEEE T ss_conf -79999996999999999739999989998624688779999----9985767999999999889989999569992489 Q ss_pred EEECCC Q ss_conf 997359 Q gi|254780903|r 761 TICMPQ 766 (766) Q Consensus 761 ~i~LP~ 766 (766) +|++|| T Consensus 472 ~I~F~~ 477 (484) T PRK10815 472 EVIFGR 477 (484) T ss_pred EEEECC T ss_conf 999738 No 30 >PRK09467 envZ osmolarity sensor protein; Provisional Probab=100.00 E-value=1.4e-45 Score=347.63 Aligned_cols=225 Identities=22% Similarity=0.347 Sum_probs=186.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999998878999999998767522247899999999860346889938999999999999999999977 Q gi|254780903|r 521 ELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMIN 600 (766) Q Consensus 521 ~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~ 600 (766) |+.++.+...+..++.++....+.+|++++||||||||+.|.+++|+|..+ ++ ...+.|.+..++|.++|+ T Consensus 209 Ev~~l~~aFN~M~~~l~~~~~~r~~~la~vSHeLRTPLT~irl~~e~l~~~------~~---~~~~~i~~~i~~m~~li~ 279 (437) T PRK09467 209 EVRSVTRAFNQMSAGIKQLEDDRALLMAGVSHDLRTPLTRIRLATEMMSEE------DG---YLAESINKDIEECNAIIE 279 (437) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCC------HH---HHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999999999999753444327899999998746753------18---999999999999999999 Q ss_pred HHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCC-CEEEECHHHHHHHHHHHHHHHHHCCCCC Q ss_conf 767788874198301203316999999999999999984795899980899-7899868999999999886565346898 Q gi|254780903|r 601 NILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSE-LFFNADKRIIKKILFPILSNSIKFTNNN 679 (766) Q Consensus 601 diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~-l~v~~D~~~l~QVl~NLi~NAik~t~~~ 679 (766) ++|+|+|.+. ....+++|+++++++++.... ..+..+..+.++. ..+.+|+.+|+|+|.||+.||+||+ + T Consensus 280 ~~L~~~r~~~---~~~~~~~dl~~l~~~~~~~~~----~~~~~i~~~~~~~~~~v~~d~~~l~r~l~NLi~NA~ky~--~ 350 (437) T PRK09467 280 QFIDYLRTDQ---EMPMEMADLNALLGEVIAAES----GYEREIETALYPGPIEVPMNPIAIKRALANLVVNAARYG--N 350 (437) T ss_pred HHHHHHHHCC---CCCCCCCCHHHHHHHHHHHHH----CCCCEEEEECCCCCEEEEECHHHHHHHHHHHHHHHHHCC--C T ss_conf 9999986215---566751159999999999875----549838996288764898579999999999999887607--9 Q ss_pred CEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEE Q ss_conf 88999999979989999997889789778543046505314675567788761689999999962986999979899529 Q gi|254780903|r 680 GKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTI 759 (766) Q Consensus 680 g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gtt 759 (766) |.|.|++...++.+.|+|.|+|+|||++.+++||+||+|++++. ..+||||||||||+||+.|||+|+++|.++.|++ T Consensus 351 ~~i~V~~~~~~~~~~i~V~D~GpGI~~e~l~~if~pF~R~d~sR--~~~GsGLGLaIv~~Iv~~HgG~i~l~~~~~gGl~ 428 (437) T PRK09467 351 GWIKVSSGTEGNRAWFQVEDNGPGIPEEQIKHLFQPFTRGDSAR--GSSGTGLGLAIVKRIVDQHQGKVELGNREEGGLS 428 (437) T ss_pred CEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCCCCCCCCC--CCCCEEHHHHHHHHHHHHCCCEEEEEECCCCCEE T ss_conf 83999999868999999997599999899987616852188899--9997728899999999986998999977999459 Q ss_pred EEEECC Q ss_conf 999735 Q gi|254780903|r 760 VTICMP 765 (766) Q Consensus 760 f~i~LP 765 (766) |+|+|| T Consensus 429 ~~i~lP 434 (437) T PRK09467 429 ARAWLP 434 (437) T ss_pred EEEEEC T ss_conf 999971 No 31 >PRK09776 putative sensor protein; Provisional Probab=100.00 E-value=4.1e-43 Score=329.22 Aligned_cols=369 Identities=15% Similarity=0.164 Sum_probs=273.8 Q ss_pred HHHHHHHHHHHHHHCC---CCCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHHHHCCCCCCCHHHH----HCCCCH Q ss_conf 9999999988531017---897899996998089971420555199788960761043205443320232----115310 Q gi|254780903|r 111 KAESMLGQLLAKTRFL---SESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELSRSRSRSKTVQMSEA----SLDQQP 183 (766) Q Consensus 111 ~ae~~L~~~~~~~~~~---~~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~----~l~~~~ 183 (766) +..+.|.+++.++|.. +...+++++.+|+++.+|++.++++||+.+++.+.+..+..+|+....... .+.|.. T Consensus 294 ~~~~~l~~SE~rfR~~~e~saiGmAlV~~dGr~l~VN~alc~mlGYs~~ELl~ltf~diThPdDl~~dl~~~~~LlaGei 373 (1116) T PRK09776 294 AERKHISESETRFRNAMEYSAIGMALVGTEGQWLQVNKALCQFLGYSQEELRGLTFQQLTWPEDLNKDLQQVEKLLSGEI 373 (1116) T ss_pred HHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCEEEECHHHHHHHCCCHHHHHHCCHHHHCCCCCHHHHHHHHHHHHCCCC T ss_conf 88888776799999998746664699868981898169999884989999852989881696217778999999976996 Q ss_pred -HEEEE-EECCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf -00012-3315778259999742321012345565545687887899999999888899999999999999999999997 Q gi|254780903|r 184 -YHVLS-VNLPHNSGSILIINSRVPLLRLWREEVTLEVVFFSIISALLLFILFSYYRQAKKNKENDTILLEANICVETAL 261 (766) Q Consensus 184 -~~~~~-~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~a~~~dit~~r~ae~~l~ese~rl~~al 261 (766) .+... +-.+.++..+|+........+... .+. .+++...|||++|++|++++++++|++.+. T Consensus 374 ~~y~lEKRyirkDG~~vW~~ltvSlvRd~~G----~p~------------~fI~~v~DIterK~aE~~lr~l~erl~la~ 437 (1116) T PRK09776 374 NSYSMEKRYYNRDGDVVWALLAVSLVRDTDG----TPL------------YFIAQIEDINELKRTEQVNERLMERITLAN 437 (1116) T ss_pred CCCCCEEEEECCCCCEEEEEEEEEEEECCCC----CEE------------EEEEEEEECHHHHHHHHHHHHHHHHHHHHH T ss_conf 6454112467369979999989999976999----844------------899999733377999999999999999998 Q ss_pred HCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCCE Q ss_conf 22597459897689789997889977299943305898899976081205899999999724898489999988698988 Q gi|254780903|r 262 SRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHASGAD 341 (766) Q Consensus 262 ~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~~ 341 (766) +++++|+|+||+.++.++||+++++|+|++++. ..+.+.|.+.+||||+..+....+.......+|+.|||++++||++ T Consensus 438 ea~~iGiwe~d~~~~~i~~~~r~~~l~g~~~~~-~~~~~~w~~~ihPdD~~~v~~~~~~~l~~~~~~d~E~Rl~~~dG~~ 516 (1116) T PRK09776 438 EAGGIGIWEWDLKPNIISWDKRMFELYEIPPHI-KPNWQVWYACLHPEDRQRVEKEIRDALQGRSPFKLEFRIVVPDGEI 516 (1116) T ss_pred HHCCCCEEEEECCCCCEECCHHHHHHHCCCCCC-CCCHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCE T ss_conf 624766355205665021137899984888222-6688999872391568999999999971588756046788479978 Q ss_pred EEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHH Q ss_conf 99889999998379606-99999844617999999999999999999985445515883499699701789888399978 Q gi|254780903|r 342 IWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDH 420 (766) Q Consensus 342 ~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~ 420 (766) +|++.++.+++|++|.+ +++|+..||||||++|++|.+++++++..+++++++++.+|.+++++++|+++++++||+.+ T Consensus 517 r~i~~~a~~~~d~~G~~~r~~G~~~DITe~K~~eeaL~e~~erl~~~l~si~d~vi~tD~~~ri~~~Npaae~~tG~~~~ 596 (1116) T PRK09776 517 RHIRALANRVLNKDGEVERLLGINMDMTEVRQLNEALFEEKERLHITLDSIGEAVVCTDAAMKVTFMNPVAEKMTGWTQE 596 (1116) T ss_pred EEEEEEEEEEECCCCCEEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCEEEECHHHHHHHCCCHH T ss_conf 99986214898689988988731323207789999999999999999834022489973788678886999998298879 Q ss_pred HHCCCCCHHHHC--CCHHHHH----HHHHHHCCCCC-CCEEEEEEECCCEEE--E--ECCEECCCC---CEEEEEEEEEH Q ss_conf 942897178816--5201378----99985211245-640589991696287--4--223245699---78999886201 Q gi|254780903|r 421 VLVPGNARSIIQ--DAQTRPI----IEYRTSDPERS-QDMSKEIKLADSRWL--Q--INEWCTHDG---GTISVGTDITL 486 (766) Q Consensus 421 ~~~~~~~~~~~~--~~~~~~~----~~~~~~~~~~~-~~~~~e~~~~dg~~~--~--i~~~~~~dg---~~v~v~~~i~~ 486 (766) +..+......+. .....+. ........... .......+..+|... + +++.+..+| |.|.+..|||+ T Consensus 597 e~~G~~~~~v~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~G~~~~v~~s~~pi~~~~g~~~g~V~v~~Dit~ 676 (1116) T PRK09776 597 EALGVPLLTVLHITFGDNGPLMENPVEICLADTSRSYLEQDVVLHSRSGGSYDVQYSIAPLSTLDGENIGSVLVFQDVTE 676 (1116) T ss_pred HHCCCCHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCEEEEEEEECCCCCCCCCEEEEEEEECCHHH T ss_conf 98499878970036644211112199999740787331235368826996899997304513477855447985201229 Q ss_pred HHCCCCCCCC Q ss_conf 0001122322 Q gi|254780903|r 487 LKHNQAQLRE 496 (766) Q Consensus 487 ~~~~~~~~~~ 496 (766) .|..+.++.. T Consensus 677 ~k~~~~~l~~ 686 (1116) T PRK09776 677 SRAMLRQLSY 686 (1116) T ss_pred HHHHHHHHHH T ss_conf 9999999987 No 32 >COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms] Probab=100.00 E-value=5.2e-43 Score=328.50 Aligned_cols=249 Identities=22% Similarity=0.377 Sum_probs=213.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHH Q ss_conf 1788998644457999999999999999988789--99999998767522247899999999860346889938999999 Q gi|254780903|r 508 LSTSRQILERQKTELSIANAKYQVEKERAETANK--TKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYA 585 (766) Q Consensus 508 ~~~~~~~~~~~~~~L~~~~~~l~~~~~~ae~an~--~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l 585 (766) +......+...+.+.++++..++...+.+-+|++ +.+++.+.+|||||+||.+|..|++-... +...--.+...+.+ T Consensus 347 L~~~n~~l~~EIaer~~ae~~LR~~QdeLvQA~kLA~LGQmSA~iaHElNQPLaaiRt~adna~~-lLergr~e~a~~Nl 425 (603) T COG4191 347 LTRANARLQAEIAEREQAEAALRRAQDELVQAGKLAALGQMSAGIAHELNQPLAAIRTYADNARL-LLERGRTEEARENL 425 (603) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-HHHCCCHHHHHHHH T ss_conf 88766888889998887899999878999987778998888888788743708999867778999-98758867777679 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECC-CCEEEECHHHHHHH Q ss_conf 99999999999997776778887419830120331699999999999999998479589998089-97899868999999 Q gi|254780903|r 586 QDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPS-ELFFNADKRIIKKI 664 (766) Q Consensus 586 ~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~-~l~v~~D~~~l~QV 664 (766) ..|..-.+||..++..+-.|+| |-.-..+++.+.++|++++.+++++....+..+..+.++ +++|.+++.+|+|| T Consensus 426 ~~I~~LteRma~It~~Lk~FAr----k~~~a~~~v~l~~ai~~Al~ll~~R~~~~~~~l~~~~~~~~~~V~~~~iRLeQV 501 (603) T COG4191 426 ERISALTERMAAITAHLKSFAR----KSRDAAGPVSLREAIEGALELLRGRLRAAGVELELDLPDAPLWVMANEIRLEQV 501 (603) T ss_pred HHHHHHHHHHHHHHHHHHHHHC----CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCEEECCHHHHHHH T ss_conf 9999999999889999999833----676666776579999999999887641367626504898775564132209999 Q ss_pred HHHHHHHHHHCC--CCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCC-CCCHHHHHHHHHH Q ss_conf 999886565346--8988899999997998999999788978977854304650531467556778-8761689999999 Q gi|254780903|r 665 LFPILSNSIKFT--NNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIG-GFGLGLAISDALT 741 (766) Q Consensus 665 l~NLi~NAik~t--~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~-GtGLGLaI~k~iV 741 (766) |.|||+||++++ ++.++|.|++...++.|+|+|+|||+||||+.+.++|+||| |||+.+ |.||||+||+.|+ T Consensus 502 LvNLl~NALDA~~~~~~~~i~i~~~~~~~~v~l~VrDnGpGi~~e~~~~lFePF~-----TtK~~~~GLGLGLaIS~~i~ 576 (603) T COG4191 502 LVNLLQNALDAMAGQEDRRLSIRAQREGGQVVLTVRDNGPGIAPEALPHLFEPFF-----TTKPVGKGLGLGLAISQNIA 576 (603) T ss_pred HHHHHHHHHHHHCCCCCCEEEEEEEECCCEEEEEECCCCCCCCHHHHHHHCCCCC-----CCCCCCCCCCHHHHHHHHHH T ss_conf 9999998999845887871699987159869999826999989789986137750-----36766677560289899899 Q ss_pred HHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 9629869999798995299997359 Q gi|254780903|r 742 NLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 742 e~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) .-+||+|.+.+.++.|+.|+|+||+ T Consensus 577 ~d~GGsL~v~n~~~~Ga~F~i~L~~ 601 (603) T COG4191 577 RDLGGSLEVANHPEGGASFTIELRR 601 (603) T ss_pred HHHCCEEEEECCCCCCEEEEEEEEC T ss_conf 9818807940278884489999615 No 33 >COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms] Probab=100.00 E-value=2.4e-43 Score=330.91 Aligned_cols=231 Identities=23% Similarity=0.353 Sum_probs=209.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999998878999999998767522247899999999860346889938999999999999999999977767788 Q gi|254780903|r 527 AKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMS 606 (766) Q Consensus 527 ~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~s 606 (766) +.+......+|.+|.....|.+.+|||+++||+.|.+|++++.+.+.+.+ ++++++++..|.+....|..||+|+|.|| T Consensus 508 eela~l~r~lersn~el~~f~yv~sHdlqePl~~I~~~a~lL~~~~~~~~-d~~~~~~i~~~~~~~~~~~~lidd~l~~s 586 (750) T COG4251 508 EELAQLRRELERSNAELRAFAYVASHDLQEPLRQISNYAQLLSERYSDAL-DEEAKEFITFISRLTSLMQQLIDDLLTYS 586 (750) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99998998876515899999998610466799999999976663436665-75889999999999999999999774231 Q ss_pred HHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE-EEECHHHHHHHHHHHHHHHHHCC-CCCCEEEE Q ss_conf 87419830120331699999999999999998479589998089978-99868999999999886565346-89888999 Q gi|254780903|r 607 KIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF-FNADKRIIKKILFPILSNSIKFT-NNNGKMMI 684 (766) Q Consensus 607 rieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~-v~~D~~~l~QVl~NLi~NAik~t-~~~g~I~i 684 (766) ++ |......+++|+.+++++++..+.....+.++.+.+. + +| |.+|+.++.||+.|||.||+||. |++..|.| T Consensus 587 ~l--~~~~~~l~~td~~~vv~~vl~~l~~ri~dtgaei~i~--~-lp~v~~d~~~l~qv~~NLi~Naik~~~~e~~~i~I 661 (750) T COG4251 587 KL--GLTEAPLQPTDVQKVVDKVLLELSQRIADTGAEIRIA--P-LPVVAADATQLGQVFQNLIANAIKFGGPENPDIEI 661 (750) T ss_pred HH--CCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCEEEEC--C-CCEEECCHHHHHHHHHHHHHHHEECCCCCCCCEEE T ss_conf 20--5545777775267899999973453112565247862--5-64464088899999999876552107888981588 Q ss_pred EEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEEC Q ss_conf 99997998999999788978977854304650531467556778876168999999996298699997989952999973 Q gi|254780903|r 685 RTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICM 764 (766) Q Consensus 685 ~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~L 764 (766) ++...++.++|.|+|||+||.++..+|||.+|.|.++ +.++.|||+||+|||+|+|.|+|+|||||++|+|+||.|+| T Consensus 662 ~~~r~ed~~t~sV~dng~Gi~~a~~~riF~iFqRl~s--~~~y~gtG~GL~I~kkI~e~H~G~i~vEs~~gEgsTF~f~l 739 (750) T COG4251 662 SAERQEDEWTFSVRDNGIGIDPAYFERIFVIFQRLHS--RDEYLGTGLGLAICKKIAERHQGRIWVESTPGEGSTFYFTL 739 (750) T ss_pred EEECCCCCEEEEECCCCCCCCHHHHHHHHHHHHHCCC--HHHHCCCCCCHHHHHHHHHHHCCEEEEEECCCCCEEEEEEE T ss_conf 5332587307985478777698999888998870375--65514777338999999998484588860478741689984 Q ss_pred C Q ss_conf 5 Q gi|254780903|r 765 P 765 (766) Q Consensus 765 P 765 (766) | T Consensus 740 p 740 (750) T COG4251 740 P 740 (750) T ss_pred E T ss_conf 0 No 34 >COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms] Probab=100.00 E-value=9.1e-41 Score=312.27 Aligned_cols=325 Identities=15% Similarity=0.242 Sum_probs=239.9 Q ss_pred HHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCCCCCEEEEEEEC-CCE Q ss_conf 9999854455158834996997017898883999789428971788165201378999852112456405899916-962 Q gi|254780903|r 385 SKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPERSQDMSKEIKLA-DSR 463 (766) Q Consensus 385 r~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~-dg~ 463 (766) ..++++++..+.+.|.++.+.|+|++++.+|+.+..-+.+.+ ...+.+....-...-............++..+. +|. T Consensus 10 ~~~Ln~~~~pVl~vd~~~~i~yaN~aAe~~~~~Sa~~L~~~~-l~~l~~~gs~ll~ll~q~~~~~~~~~~~~v~l~~~g~ 88 (363) T COG3852 10 GAILNNLINPVLLVDDELAIHYANPAAEQLLAVSARRLAGTR-LSELLPFGSLLLSLLDQVLERGQPVTEYEVTLVILGR 88 (363) T ss_pred HHHHHCCCCCEEEECCCCCEEECCHHHHHHHHHHHHHHHCCC-HHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEEEECCC T ss_conf 768745578569982778289608889999997788882487-7887177728899998999835885101024420786 Q ss_pred --EEEECCE--ECCCCCEEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf --8742232--456997899988620100011223222222211000017889986444579999999999999999887 Q gi|254780903|r 464 --WLQINEW--CTHDGGTISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANAKYQVEKERAETA 539 (766) Q Consensus 464 --~~~i~~~--~~~dg~~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~~ae~a 539 (766) .+..... ...+|..+-...-+ .+ ...+.+ ++.+ -.+ T Consensus 89 ~~~v~~~v~~v~~~~G~vlle~~~~--------------------------~~---------~~ridr---e~~q--~a~ 128 (363) T COG3852 89 SHIVDLTVAPVPEEPGSVLLEFHPR--------------------------DM---------QRRLDR---EQTQ--HAQ 128 (363) T ss_pred CCEEEEEEEECCCCCCEEEEEECHH--------------------------HH---------HHHHHH---HHHH--HHH T ss_conf 5237899862268997489995325--------------------------77---------767669---9998--888 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEE Q ss_conf 89999999987675222478999999998603468899389999999999999999999777677888741983012033 Q gi|254780903|r 540 NKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQN 619 (766) Q Consensus 540 n~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~ 619 (766) +++...+..+.+||++|||..|.|.++||.....+ +..++|.+.|.+.++|+.+|++.+.-||- ....+..+ T Consensus 129 ~~a~~~L~r~LAHEIKNPL~GiRGAAQLLe~~lpd----~~~~~lt~lIieE~DRl~~LVDRme~~~~----~rp~~r~~ 200 (363) T COG3852 129 QRAVKGLVRGLAHEIKNPLGGIRGAAQLLERALPD----EALRELTQLIIEEADRLRNLVDRLEVLGP----QRPGDRVP 200 (363) T ss_pred HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCC----HHHHHHHHHHHHHHHHHHHHHHHHHHCCC----CCCCCCCC T ss_conf 88999999877887228531014499999745898----67789999999999999999999875087----89855354 Q ss_pred ECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE-EEECHHHHHHHHHHHHHHHHHCCC----CCCEEEEEEEEEC---- Q ss_conf 1699999999999999998479589998089978-998689999999998865653468----9888999999979---- Q gi|254780903|r 620 ADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF-FNADKRIIKKILFPILSNSIKFTN----NNGKMMIRTSKIG---- 690 (766) Q Consensus 620 ~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~-v~~D~~~l~QVl~NLi~NAik~t~----~~g~I~i~~~~~~---- 690 (766) ++++++++.+..++...+.. +|.|.-+++|++| +++|+.+|.|||+||+.||..+.. ++|+|+++++..- T Consensus 201 ~NIH~VLerV~~lv~~e~~~-~i~l~rdYDPSLP~v~~d~DqliQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~~i 279 (363) T COG3852 201 VNIHEVLERVRALVEAEFAD-NVRLIRDYDPSLPEVLGDRDQLIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQLTI 279 (363) T ss_pred CHHHHHHHHHHHHHHCCCCC-CEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCEEEEC T ss_conf 31999999999998543677-55885027998853236989999999999999999716778778569997224258871 Q ss_pred ------CEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEEC Q ss_conf ------98999999788978977854304650531467556778876168999999996298699997989952999973 Q gi|254780903|r 691 ------QCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICM 764 (766) Q Consensus 691 ------~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~L 764 (766) -.+.++|.|||+|||++.++++|.||. |.+.+||||||+|+++||..|||.|+++|.||. |+|+|.| T Consensus 280 ~g~r~rl~l~leViDNGPGVP~~L~~~lF~P~V------s~r~~GsGLGLala~~li~qH~G~Ie~~S~Pg~-T~Frvll 352 (363) T COG3852 280 AGTRYRLALPLEVIDNGPGVPPDLQDHLFYPMV------SGREGGTGLGLALAQNLIDQHGGKIEFDSWPGR-TVFRVLL 352 (363) T ss_pred CCCEEEEEEEEEEECCCCCCCHHHHHHCCCCCC------CCCCCCCCCCHHHHHHHHHHCCCEEEEECCCCC-EEEEEEE T ss_conf 674246631169861899998678643002302------068898661489999989852978987426894-5899986 Q ss_pred CC Q ss_conf 59 Q gi|254780903|r 765 PQ 766 (766) Q Consensus 765 P~ 766 (766) |- T Consensus 353 P~ 354 (363) T COG3852 353 PI 354 (363) T ss_pred EC T ss_conf 33 No 35 >COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms] Probab=100.00 E-value=5.2e-38 Score=292.37 Aligned_cols=332 Identities=19% Similarity=0.283 Sum_probs=253.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCCCC Q ss_conf 99999999999999999854455158834996997017898883999789428971788165201378999852112456 Q gi|254780903|r 372 HLEKRYAEADQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPERSQ 451 (766) Q Consensus 372 ~ae~~l~ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 451 (766) ++..++.++.+.+..+++..+.|++.+|.+|++..+|+..++++|.|..++.+.. ...+.|.-.....+. ... ... T Consensus 360 ~ak~~~e~rr~f~E~VLsgvtaGVi~~d~~g~i~t~N~~ae~~l~~~~~~~~G~~-lsa~ap~~~~vf~~~--~a~-~~~ 435 (712) T COG5000 360 RAKDALEQRRRFLEAVLSGLTAGVIGFDNRGCITTVNPSAEQILGKPFDQLLGQS-LSAIAPELEEVFAEA--GAA-ART 435 (712) T ss_pred HHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEEECCHHHHHHCCCHHHHHCHH-HHHHHHHHHHHHHHH--HHH-CCC T ss_conf 8788899999889999815850389974787077626017888468706764402-664213789999976--540-387 Q ss_pred CEEEEEEEC---CCEEEEECCEEC---CCCCEEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 405899916---962874223245---69978999886201000112232222222110000178899864445799999 Q gi|254780903|r 452 DMSKEIKLA---DSRWLQINEWCT---HDGGTISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIA 525 (766) Q Consensus 452 ~~~~e~~~~---dg~~~~i~~~~~---~dg~~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~ 525 (766) ....++.+. +.+-+.+...+. .++|+|.+.-|||++-..+. T Consensus 436 ~~~~ev~~~r~g~~rtl~Vq~t~~~~d~~~gyVvt~DDITdLV~AQR--------------------------------- 482 (712) T COG5000 436 DKRVEVKLAREGEERTLNVQATREPEDNGNGYVVTFDDITDLVIAQR--------------------------------- 482 (712) T ss_pred CCCEEEECCCCCCCEEEEEEEEECCCCCCCCEEEEECCHHHHHHHHH--------------------------------- T ss_conf 74201000147874156667532144468856999635089999999--------------------------------- Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999887899999999876752224789999999986034688993--8999999999999999999977767 Q gi|254780903|r 526 NAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGS--VKYYEYAQDIHYSGQHLLNMINNIL 603 (766) Q Consensus 526 ~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~--e~~~~~l~~I~~~~~~l~~lI~diL 603 (766) +.+.++-+--++||++|||++|.-.+|-+..++-..+.. +...++.+.|.+....+.+++++.- T Consensus 483 --------------s~AW~dVArRIAHEIKNPLTPIQLSAERl~rk~gk~i~eDrevfd~~tdTIirQV~dI~rMVdeF~ 548 (712) T COG5000 483 --------------SAAWGDVARRIAHEIKNPLTPIQLSAERLLRKLGKEIDEDREVFDRCTDTIIRQVEDIKRMVDEFR 548 (712) T ss_pred --------------HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf --------------878999999998872499862200289999883741234899999999999999999999999999 Q ss_pred HHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCC-CEEEECHHHHHHHHHHHHHHHHHCC------ Q ss_conf 788874198301203316999999999999999984795899980899-7899868999999999886565346------ Q gi|254780903|r 604 EMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSE-LFFNADKRIIKKILFPILSNSIKFT------ 676 (766) Q Consensus 604 d~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~-l~v~~D~~~l~QVl~NLi~NAik~t------ 676 (766) +|+| ..++.++..||++++.++..+.... ..+|.+..+.+.. +...+|+++|.|||.||+.||..+. T Consensus 549 afAR----mP~p~~e~~dL~~ll~e~~~L~e~~--~~~i~f~~e~g~epl~~~~D~~~l~Qvf~NliKNA~EAi~~~~~~ 622 (712) T COG5000 549 AFAR----MPAPKLEKSDLRALLKEVSFLYEIG--NDHIVFAAEFGGEPLIGMADATLLGQVFGNLLKNAAEAIEAVEAE 622 (712) T ss_pred HHHC----CCCCCCCCCHHHHHHHHHHHHHHCC--CCCEEEEEECCCCCEEEECCHHHHHHHHHHHHHHHHHHHHHCCCC T ss_conf 8714----8998777422999999999999626--877699753189862532489999999999987199875310134 Q ss_pred -CCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEE-C Q ss_conf -89888999999979989999997889789778543046505314675567788761689999999962986999979-8 Q gi|254780903|r 677 -NNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQ-E 754 (766) Q Consensus 677 -~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~-~ 754 (766) ++++.|+++....++.+++.|.|||.|.|.|.+.|+||||- |.+.+||||||+|||+|||-|||++..... . T Consensus 623 e~~~~~i~~~~~~~~g~i~v~V~DNGkG~p~e~r~r~~EPYv------Ttr~KGTGLGLAiVKkIvEeHGG~leL~da~d 696 (712) T COG5000 623 ERRTALIRVSLDDADGRIVVDVIDNGKGFPRENRHRALEPYV------TTREKGTGLGLAIVKKIVEEHGGRLELHNAPD 696 (712) T ss_pred CCCCCEEEEEEECCCCEEEEEEECCCCCCCHHHHHHHCCCCE------ECCCCCCCCCHHHHHHHHHHCCCEEEECCCCC T ss_conf 677643899984479849999810898799678643236714------21656666239999999996388277247899 Q ss_pred CCCEEEEEECCC Q ss_conf 995299997359 Q gi|254780903|r 755 GKGTIVTICMPQ 766 (766) Q Consensus 755 g~Gttf~i~LP~ 766 (766) -.|+.+.+.+|. T Consensus 697 ~~GA~i~i~fp~ 708 (712) T COG5000 697 FDGAMIRIKFPL 708 (712) T ss_pred CCCCEEEEECCC T ss_conf 997679998365 No 36 >TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase; InterPro: IPR014265 Proteins in this entry are putative periplasmic sensor signal transduction histidine kinases. They all contain a GAF domain that is present in phytochromes and cGMP-specific phosphodiesterases, and which has been experimentally proven to be involved in protein:protein interactions. They also contain a C-terminal histidine kinase domain, which is composed of a dimerisation sub-domain and an ATP/ADP-binding phosphotransfer, or catalytic, sub-domain. The proteins in this entry are found strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria, where members of IPR014264 from INTERPRO and IPR014266 from INTERPRO also occur.. Probab=100.00 E-value=5.9e-36 Score=277.51 Aligned_cols=204 Identities=19% Similarity=0.355 Sum_probs=174.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-CCCEEEECHH Q ss_conf 999987675222478999999998603468899389999999999999999999777677888741983-0120331699 Q gi|254780903|r 545 EFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKI-SIDKQNADLI 623 (766) Q Consensus 545 efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~-~~~~~~~dl~ 623 (766) .+-+-+=|||+|-.....-...-.+++.. ++|=+.|.+++|..+.+||..|+.++.. ++. +-+.+.||+. T Consensus 488 R~SaFvVHDLKNLvaQLSL~l~NA~~Hk~---NPeFq~DmL~Tv~~~v~RM~~ll~qLr~------~~~p~~~~~~~~l~ 558 (696) T TIGR02916 488 RMSAFVVHDLKNLVAQLSLLLRNAERHKD---NPEFQDDMLETVESAVNRMKKLLAQLRE------KGLPEEEKKTVDLV 558 (696) T ss_pred CCEEEEEEHHHHHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHC------CCCCCHHHHEEHHH T ss_conf 80342110258999999999998874178---9668999999899999999999999730------68974056410389 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCC--CEEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEEC-CEEEEEEEEC Q ss_conf 9999999999999984795899980899--789986899999999988656534689888999999979-9899999978 Q gi|254780903|r 624 PIINEGIRLIGSSAQSKNIKIEKKIPSE--LFFNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIG-QCVIITIADT 700 (766) Q Consensus 624 ~~i~~~~~~~~~~~~~k~i~l~~~~~~~--l~v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~-~~v~i~V~D~ 700 (766) ++++++.+.-+.+ +..+++... +.+ +.|.+|+.+|+.|+.||+-||+++||+.|+|.|++.+.+ +.++|+|+|| T Consensus 559 ~L~~~~~~~k~~q--~p~~e~~~~-~~~~rl~~~a~~erl~rV~gHL~QNAlEAT~~~G~V~~~~~~~~~~~a~i~i~D~ 635 (696) T TIGR02916 559 DLLRRVIASKRAQ--QPRPEVSIE-DTDFRLSVRADRERLERVLGHLVQNALEATPEEGRVKIRVERECGGAAVIEIEDS 635 (696) T ss_pred HHHHHHHHHHHHC--CCCEEEEEC-CCCEEEEEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCEEEEEEEEC T ss_conf 9999999998631--894489971-7541788875288899999999998886049996289998741888227999865 Q ss_pred CCCCCHHH-HHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf 89789778-543046505314675567788761689999999962986999979899529999735 Q gi|254780903|r 701 GIGIPKSA-LEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 701 G~GI~~e~-~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) |+||+++. ++|+|.||. +||+..|.|+|.+=||++|+.|||+|+|+|+||+||+|++.|| T Consensus 636 G~GM~~~FiR~rLF~PF~-----tTK~~aGMGIG~YE~~~yv~e~GG~i~V~S~pG~Gt~ftl~LP 696 (696) T TIGR02916 636 GCGMSEAFIRERLFKPFD-----TTKGNAGMGIGVYECRQYVEELGGRIEVESTPGKGTIFTLVLP 696 (696) T ss_pred CCCCCHHHHHHHCCCCCC-----CCCCCCCCCCCHHHHHHHHHHHCCCEEEEEECCCCEEEEEECC T ss_conf 789985899840789975-----4456678720189999999983890588863588548887449 No 37 >COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms] Probab=100.00 E-value=3.5e-31 Score=243.04 Aligned_cols=189 Identities=26% Similarity=0.355 Sum_probs=149.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHH Q ss_conf 99876752224789999999986034688993899999999999999999997776778887419830120331699999 Q gi|254780903|r 547 LAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPII 626 (766) Q Consensus 547 la~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i 626 (766) |-..+||+.|-|++|.|+.++-. -++..+|+..+. +.-.++++.+.. +.. ++++ T Consensus 337 LRaq~HEfmNkLhtI~GLlql~~--------yd~a~~~I~~~~---~~qq~~~~~l~~-------~i~--------~~~l 390 (537) T COG3290 337 LRAQSHEFMNKLHTILGLLQLGE--------YDDALDYIQQES---EEQQELIDSLSE-------KIK--------DPVL 390 (537) T ss_pred HHHHHHHHHHHHHHHHHHHHHCC--------HHHHHHHHHHHH---HHHHHHHHHHHH-------HCC--------CHHH T ss_conf 98852888888999987885053--------789999999987---640456899998-------512--------0888 Q ss_pred HHHHHHHHHHHHHCCCEEEEEECCCC---EEEECHHHHHHHHHHHHHHHHHCCC---CCCEEEEEEEEECCEEEEEEEEC Q ss_conf 99999999999847958999808997---8998689999999998865653468---98889999999799899999978 Q gi|254780903|r 627 NEGIRLIGSSAQSKNIKIEKKIPSEL---FFNADKRIIKKILFPILSNSIKFTN---NNGKMMIRTSKIGQCVIITIADT 700 (766) Q Consensus 627 ~~~~~~~~~~~~~k~i~l~~~~~~~l---~v~~D~~~l~QVl~NLi~NAik~t~---~~g~I~i~~~~~~~~v~i~V~D~ 700 (766) ...+---..++.+++++|.++....+ |-.-++.-+--|+-|||.||+.++- ++..|.+.....++.++|+|+|| T Consensus 391 Ag~LlgK~~rArElgv~l~Id~~S~l~~~p~~~~~~~litIlGNLidNA~eA~~~~~~~k~I~l~i~~~~~~lvieV~D~ 470 (537) T COG3290 391 AGFLLGKISRARELGVSLIIDPNSQLPQLPSELQPHDLVTILGNLIDNALEALLAPEENKEIELSLSDRGDELVIEVADT 470 (537) T ss_pred HHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCEEEEEEECC T ss_conf 99988689999972965997579867889876676789999999887788885155789679999983698799999579 Q ss_pred CCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 897897785430465053146755677887616899999999629869999798995299997359 Q gi|254780903|r 701 GIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 701 G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) ||||||+..++||+.=+ .||..+|.|.||++||++|+.+||.|+++|+.+.||+|+++||+ T Consensus 471 G~GI~~~~~~~iFe~G~-----Stk~~~~rGiGL~Lvkq~V~~~~G~I~~~s~~~~Gt~F~i~iP~ 531 (537) T COG3290 471 GPGIPPEVRDKIFEKGV-----STKNTGGRGIGLYLVKQLVERLGGSIEVESEKGQGTRFSIYIPK 531 (537) T ss_pred CCCCCHHHHHHHHHCCC-----CCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCEEEEEECCC T ss_conf 99989688777873484-----14677887612889999998749669995078981499998888 No 38 >COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms] Probab=100.00 E-value=8.4e-34 Score=262.00 Aligned_cols=214 Identities=36% Similarity=0.590 Sum_probs=189.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CCCCEEEE Q ss_conf 99999998767522247899999999860346889938999999999999999999977767788874198-30120331 Q gi|254780903|r 542 TKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEK-ISIDKQNA 620 (766) Q Consensus 542 ~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~-~~~~~~~~ 620 (766) .+..|++.++||+|||++++.++++++... .. ....+++..+....+++..++++++++++++.+. .....+.+ T Consensus 114 ~~~~~~~~~~hel~~pl~~~~~~~~~~~~~---~~--~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 188 (336) T COG0642 114 AKREFLANISHELRTPLTAIRGLLELLLEG---LL--DPQRELLEIIEEEAERLLRLVNDLLDLSRLEAGTKLKLLLELV 188 (336) T ss_pred HHHHHHHHHHHHHCCHHHHHHHHHHHHHCC---CC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC T ss_conf 999999999888589799999999997414---65--2599999999999999999999999999764457442234645 Q ss_pred CHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEEC Q ss_conf 69999999999999999847958999808997899868999999999886565346898889999999799899999978 Q gi|254780903|r 621 DLIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADT 700 (766) Q Consensus 621 dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~ 700 (766) ++..++.++...+......+.+.+....++...+.+|+..+.|||.||++||+||++ ++.|.|++...++.++++|+|+ T Consensus 189 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~l~~vl~nLi~NAi~~~~-~~~i~i~~~~~~~~i~i~V~D~ 267 (336) T COG0642 189 DLAELLEEVVRLLAPLAQEKGIELAVDLPELPYVLGDPERLRQVLVNLLSNAIKYTP-GGEITISVRQDDEQVTISVEDT 267 (336) T ss_pred CHHHHHHHHHHHHHHHHHHCCEEEEEECCCCEEEEECHHHHHHHHHHHHHHHHHHCC-CCEEEEEEEECCCEEEEEEECC T ss_conf 599999999999998766348489982376607860788999999999998998668-9859999996387799999807 Q ss_pred CCCCCHHHHHHHCCCEEECCCCCCCCCC-CCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 8978977854304650531467556778-87616899999999629869999798995299997359 Q gi|254780903|r 701 GIGIPKSALEKIGQPFEPLHNQYDQSIG-GFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 701 G~GI~~e~~~~iF~pF~q~~~~~t~~~~-GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) |+|||++.++++|+||++. +..+ ||||||+|||++++.|||+++++|.+|.||+|+|+||. T Consensus 268 G~Gi~~~~~~~if~~~~~~-----~~~~~g~GlGL~i~~~~~~~~~g~i~~~~~~~~Gt~~~i~lP~ 329 (336) T COG0642 268 GPGIPEEELERIFEPFFRT-----DKSRSGTGLGLAIVKRIVELHGGTISVESEPGKGTTFTIRLPL 329 (336) T ss_pred CCCCCHHHHHHHHCCCCCC-----CCCCCCCCHHHHHHHHHHHHCCCEEEEECCCCCCEEEEEEEEC T ss_conf 8997988999881886347-----9998988632999999999879989995079997799999847 No 39 >PRK09776 putative sensor protein; Provisional Probab=100.00 E-value=3.2e-32 Score=250.59 Aligned_cols=255 Identities=12% Similarity=0.165 Sum_probs=207.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHH-HHH Q ss_conf 9999999999999999999999722597459897689789997889977299943305898899976081205899-999 Q gi|254780903|r 239 QAKKNKENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKIC-EIA 317 (766) Q Consensus 239 dit~~r~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~-~~a 317 (766) -....|+....+++||+|||.+++.++.|++..+++++++++|+++|+|+||++++... -.|.+++||||...- ... T Consensus 288 ~~~~~r~~~~~l~~SE~rfR~~~e~saiGmAlV~~dGr~l~VN~alc~mlGYs~~ELl~--ltf~diThPdDl~~dl~~~ 365 (1116) T PRK09776 288 VMYAFRAERKHISESETRFRNAMEYSAIGMALVGTEGQWLQVNKALCQFLGYSQEELRG--LTFQQLTWPEDLNKDLQQV 365 (1116) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCEEEECHHHHHHHCCCHHHHHH--CCHHHHCCCCCHHHHHHHH T ss_conf 99999988888776799999998746664699868981898169999884989999852--9898816962177789999 Q ss_pred HHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEE Q ss_conf 99972489848999998869898899889999998379606-99999844617999999999999999999985445515 Q gi|254780903|r 318 RSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEALV 396 (766) Q Consensus 318 ~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i~ 396 (766) .+...|+.+.|..|.|++++||+++|+....+++||++|+| +++|++.||||||++|+++++++++++.+.|+.+.++| T Consensus 366 ~~LlaGei~~y~lEKRyirkDG~~vW~~ltvSlvRd~~G~p~~fI~~v~DIterK~aE~~lr~l~erl~la~ea~~iGiw 445 (1116) T PRK09776 366 EKLLSGEINSYSMEKRYYNRDGDVVWALLAVSLVRDTDGTPLYFIAQIEDINELKRTEQVNERLMERITLANEAGGIGIW 445 (1116) T ss_pred HHHHCCCCCCCCCEEEEECCCCCEEEEEEEEEEEECCCCCEEEEEEEEEECHHHHHHHHHHHHHHHHHHHHHHHCCCCEE T ss_conf 99976996645411246736997999998999997699984489999973337799999999999999999862476635 Q ss_pred EECCCCEEEEECHHHHHHHCCCHHHHCCC-CCHHHHCCCHHHHHHHHH--HHCCCCCCCEEEEEEECCC--EEEEECCE- Q ss_conf 88349969970178988839997894289-717881652013789998--5211245640589991696--28742232- Q gi|254780903|r 397 LWDKNDRLVMCNANYQKAYGLPDHVLVPG-NARSIIQDAQTRPIIEYR--TSDPERSQDMSKEIKLADS--RWLQINEW- 470 (766) Q Consensus 397 ~~D~~g~i~~~N~~~~~~~g~~~~~~~~~-~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~e~~~~dg--~~~~i~~~- 470 (766) .||.....+.+|..+.+++|++.+..... .+.+.++|++........ ..........+|+....|| +|+..... T Consensus 446 e~d~~~~~i~~~~r~~~l~g~~~~~~~~~~~w~~~ihPdD~~~v~~~~~~~l~~~~~~d~E~Rl~~~dG~~r~i~~~a~~ 525 (1116) T PRK09776 446 EWDLKPNIISWDKRMFELYEIPPHIKPNWQVWYACLHPEDRQRVEKEIRDALQGRSPFKLEFRIVVPDGEIRHIRALANR 525 (1116) T ss_pred EEECCCCCEECCHHHHHHHCCCCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCEEEEEEEEEE T ss_conf 52056650211378999848882226688999872391568999999999971588756046788479978999862148 Q ss_pred -ECCCCC---EEEEEEEEEHHHCCCCCCC Q ss_conf -456997---8999886201000112232 Q gi|254780903|r 471 -CTHDGG---TISVGTDITLLKHNQAQLR 495 (766) Q Consensus 471 -~~~dg~---~v~v~~~i~~~~~~~~~~~ 495 (766) +..+|. .+.+..|||+.|+.++.+. T Consensus 526 ~~d~~G~~~r~~G~~~DITe~K~~eeaL~ 554 (1116) T PRK09776 526 VLNKDGEVERLLGINMDMTEVRQLNEALF 554 (1116) T ss_pred EECCCCCEEEEEEEEECCCHHHHHHHHHH T ss_conf 98689988988731323207789999999 No 40 >COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms] Probab=99.97 E-value=5.2e-28 Score=220.19 Aligned_cols=213 Identities=21% Similarity=0.333 Sum_probs=180.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEC Q ss_conf 99999998767522247899999999860346889938999999999999999999977767788874198301203316 Q gi|254780903|r 542 TKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNAD 621 (766) Q Consensus 542 ~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~d 621 (766) ..++-+..+|||++.||||...|.=-...- ..+..++....++++|..-.+|+..+|+.+..|+|-.++..+ .+||+ T Consensus 450 vVGqTmTslaHEinQPLnAmsaYLFsA~~A-~e~~~s~qa~~~L~kie~L~eR~~~Iv~sLRqF~Rk~s~~~~--lqpV~ 526 (673) T COG4192 450 VVGQTMTSLAHEINQPLNAMSAYLFSARLA-LEEAPSAQAATSLDKIENLTERMGKIVNSLRQFARKNSSDES--LQPVR 526 (673) T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-HHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC--CCCCC T ss_conf 987788888988557568899999987888-851745889989998877999999999999999752577787--64110 Q ss_pred HHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHHHHHHHHHHHHHHHHHCCC-CCCEEEEEEEE-ECCEEEEEEEE Q ss_conf 99999999999999998479589998089978998689999999998865653468-98889999999-79989999997 Q gi|254780903|r 622 LIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADKRIIKKILFPILSNSIKFTN-NNGKMMIRTSK-IGQCVIITIAD 699 (766) Q Consensus 622 l~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAik~t~-~~g~I~i~~~~-~~~~v~i~V~D 699 (766) |+.+++.+.+++..+.+.+.+.+..-. ++++|.||...++|||+||+.||.+++. ..+.|.|.+-. .++..++.|.| T Consensus 527 L~~~v~~AweLl~~khk~rQ~~Li~pt-D~~~V~gd~v~ieQVlvNl~~NaldA~~h~~p~i~~~~~~~~~e~l~i~i~D 605 (673) T COG4192 527 LNSVVEQAWELLQTKHKRRQIKLINPT-DDLMVMGDAVSIEQVLVNLIVNALDASTHFAPWIKLIALGTEQEMLRIAIID 605 (673) T ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCC-CCCEECCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCEEEEEEC T ss_conf 999999999999854200024423776-5300000156499999999998886641578627998642764215899844 Q ss_pred CCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEEC Q ss_conf 88978977854304650531467556778876168999999996298699997989952999973 Q gi|254780903|r 700 TGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICM 764 (766) Q Consensus 700 ~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~L 764 (766) ||.|-|-+..+|+|.||. |.+.-|.|||||||.++++.|.|++.+-|..-+|+.+...+ T Consensus 606 nGqGwp~~l~dkLl~PFt------tsK~vgLGlGLSIsqSlmeqmqG~l~lAStLt~nA~ViL~f 664 (673) T COG4192 606 NGQGWPHELVDKLLTPFT------TSKEVGLGLGLSISQSLMEQMQGRLALASTLTKNAMVILEF 664 (673) T ss_pred CCCCCCHHHHHHHCCCCC------CCCCCCCCCCHHHHHHHHHHHCCCCHHHHHCCCCCEEEEEE T ss_conf 899984567788607766------43100555325678999998427444865513574899998 No 41 >PRK13560 hypothetical protein; Provisional Probab=99.97 E-value=1.5e-27 Score=216.89 Aligned_cols=258 Identities=14% Similarity=0.042 Sum_probs=192.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCC-HHHHHH Q ss_conf 8999999999999999999999972259745989768978999788997729994330589889997608120-589999 Q gi|254780903|r 238 RQAKKNKENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDN-KKICEI 316 (766) Q Consensus 238 ~dit~~r~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdD-r~~~~~ 316 (766) -|||+||++|.+++++...++.++++.|+-++--|.++.+++||..++.++||++++..+. . ..++ -|+. .+.+.. T Consensus 187 ~DITERKraE~rl~~ql~flq~LlDnipdpvF~kD~~G~ylgcN~afe~~~G~~re~i~G~-t-i~Dl-~p~e~ad~y~~ 263 (807) T PRK13560 187 EDITERKRAEERIDEALHFLQQLLDNIADPAFWKDEDAKVFGCNDAACLACGFRREEIIGM-S-IHDF-APAQPADDYQE 263 (807) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCEEEECHHHHHHCCCCHHHHCCC-C-CCCC-CCHHHHHHHHH T ss_conf 8767777899999999999999985488746997799518962099998809999995686-1-0127-81556899987 Q ss_pred HHHHHHCCCCEEEEEEEEECCCCCEE--EEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99997248984899999886989889--9889999998379606-99999844617999999999999999999985445 Q gi|254780903|r 317 ARSVTGKHVKQLDQIFHMRHASGADI--WIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSE 393 (766) Q Consensus 317 a~~~~~~~~~~~~~e~Ri~~~DG~~~--Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~ 393 (766) .............+|-.++.+||..+ |+.....+++|..|.+ .++|+..||||||++|++|++++++||.++|+++. T Consensus 264 ~d~~~l~~~~~~~~E~~v~~~DG~~~~~~v~~nka~~~d~~g~~~GlvGv~~DITeRK~aEe~LresEer~R~i~E~a~~ 343 (807) T PRK13560 264 ADAAKFDADGSQIIEAEFQNKDGRTRPVDVIFNHAEFDDKENHCAGLVGAITDISGRRAAERELLEKEDMLRAIIEAAPI 343 (807) T ss_pred HHHHHHCCCCCEEEEEEEECCCCCEEEEEEEEEEEEECCCCCCEEEEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 50886418875575520377998575799998622333878866568888761567788999999989999999873665 Q ss_pred HEEEECCCCEEEEE-CHHHHHHHCCCHHHHCCCCCH---------------HHHCCCHHHH-HHH----HHHHCCCCCCC Q ss_conf 51588349969970-178988839997894289717---------------8816520137-899----98521124564 Q gi|254780903|r 394 ALVLWDKNDRLVMC-NANYQKAYGLPDHVLVPGNAR---------------SIIQDAQTRP-IIE----YRTSDPERSQD 452 (766) Q Consensus 394 ~i~~~D~~g~i~~~-N~~~~~~~g~~~~~~~~~~~~---------------~~~~~~~~~~-~~~----~~~~~~~~~~~ 452 (766) +|+..|.+|+++++ |++..+++||+.+++.+.+.+ ....|+.+.. ... ........... T Consensus 344 gI~~~D~~g~i~~~~n~aae~m~G~s~eE~lg~~lw~~~pe~~~e~~~~~~~~~~pdgr~~~~~~c~~a~~~r~g~~~~g 423 (807) T PRK13560 344 AAIGLDADGNICFVNNNAAERMLGWSAAEVMGKPLPGMDPELNEEFWCGDFQEWYPDGRPMAFDACPMAKTIKGGKIFDG 423 (807) T ss_pred CEEEECCCCCEEEECCHHHHHHHCCCHHHHCCCCCCCCCHHHHHHHCCCCHHHHCCCCCCCCCCHHHHHHHHHCCCCCCC T ss_conf 34786267615761261678762687688607743356834413331340655166656343101236677613787788 Q ss_pred EEEEEEECCC--EEEEECCEECC--CCC---EEEEEEEEEHHHCCCCCCCCCC Q ss_conf 0589991696--28742232456--997---8999886201000112232222 Q gi|254780903|r 453 MSKEIKLADS--RWLQINEWCTH--DGG---TISVGTDITLLKHNQAQLRESK 498 (766) Q Consensus 453 ~~~e~~~~dg--~~~~i~~~~~~--dg~---~v~v~~~i~~~~~~~~~~~~~~ 498 (766) .+.....+|| .|..++..+.. ||. .+.+..|||++|..++.+.... T Consensus 424 ~E~~~~RkDGt~~~~~~~~~pL~D~dG~~~gal~i~~DITERKqAEeaLr~sn 476 (807) T PRK13560 424 QEVLIEREDDGPADCSAYAEPLHDADGNIIGAIALLVDITERKQVEEQLLLAN 476 (807) T ss_pred CEEEEEECCCCEEEEEECCEEEECCCCCEEEEEEHHHCCHHHHHHHHHHHHHH T ss_conf 63799906996577886130225678885331100112427788999999988 No 42 >smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. Probab=99.96 E-value=8.2e-28 Score=218.74 Aligned_cols=110 Identities=38% Similarity=0.673 Sum_probs=104.0 Q ss_pred ECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHH Q ss_conf 86899999999988656534689888999999979989999997889789778543046505314675567788761689 Q gi|254780903|r 656 ADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLA 735 (766) Q Consensus 656 ~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLa 735 (766) +|+.+|.||+.||++||+||+++++.|+|++...++.+.|.|+|||+|||++.++++|+||++.+.. ....+|+||||+ T Consensus 1 ~d~~~l~~il~Nli~NAik~~~~~~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~-~~~~~g~GlGL~ 79 (111) T smart00387 1 GDPDRLRQVLSNLLDNAIKYTPEGGRITVTLERDGDHLEITVEDNGPGIPPEDLEKIFEPFFRTDGR-SRKIGGTGLGLS 79 (111) T ss_pred CCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCEEEEEEEECCCCCCHHHHHHCCCCCEECCCC-CCCCCCCCHHHH T ss_conf 9889999999999999999677997899999983999999999889973989996426994777999-988797664899 Q ss_pred HHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 9999999629869999798995299997359 Q gi|254780903|r 736 ISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 736 I~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) |||.++++|||+|+++|++++||+|+|+||- T Consensus 80 i~~~i~~~~~G~i~i~s~~~~Gt~~~i~lP~ 110 (111) T smart00387 80 IVKKLVELHGGEISVESEPGGGTTFTITLPL 110 (111) T ss_pred HHHHHHHHCCCEEEEEECCCCEEEEEEEEEC T ss_conf 9999999879989999659981899999981 No 43 >pfam02518 HATPase_c Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase. This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90. Probab=99.95 E-value=3.7e-27 Score=213.99 Aligned_cols=110 Identities=35% Similarity=0.628 Sum_probs=104.2 Q ss_pred ECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHH Q ss_conf 86899999999988656534689888999999979989999997889789778543046505314675567788761689 Q gi|254780903|r 656 ADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLA 735 (766) Q Consensus 656 ~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLa 735 (766) +|+.+|.||+.||++||+||++++|.|.|++...++.++|+|+|||+|||++.++++|+||+|.+.. .+..+|+||||+ T Consensus 1 ~d~~~l~~i~~nll~NAik~~~~~~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~-~~~~~g~GlGL~ 79 (111) T pfam02518 1 GDEDRLRQVLSNLLDNAIKHAPAGGEIEVTLERDGGRLRITVEDNGIGIPPEDLPKIFEPFFRTDKD-SRKVGGTGLGLS 79 (111) T ss_pred CCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCCEECCCC-CCCCCCCCHHHH T ss_conf 9889999999999999999779997599999995999999999899995989998874991777999-977797764799 Q ss_pred HHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 9999999629869999798995299997359 Q gi|254780903|r 736 ISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 736 I~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) +||.+++.|||+|+++|++++||+|+|+||. T Consensus 80 i~~~~~~~~~g~i~~~s~~~~Gt~~~i~lp~ 110 (111) T pfam02518 80 IVRKLVELHGGTITVESEPGGGTTFTFTLPL 110 (111) T ss_pred HHHHHHHHCCCEEEEEECCCCEEEEEEEEEE T ss_conf 9999999879989999659983899999970 No 44 >PRK11359 cAMP phosphodiesterase; Provisional Probab=99.95 E-value=7.2e-25 Score=197.46 Aligned_cols=227 Identities=11% Similarity=0.026 Sum_probs=157.2 Q ss_pred CCCCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHHHHCCCCCCCHHH----HHCCC-CHH----EEEEEECCCCCC Q ss_conf 789789999699808997142055519978896076104320544332023----21153-100----001233157782 Q gi|254780903|r 126 LSESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELSRSRSRSKTVQMSE----ASLDQ-QPY----HVLSVNLPHNSG 196 (766) Q Consensus 126 ~~~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~----~~l~~-~~~----~~~~~~~~~~~~ 196 (766) .+...|+++|.+|+|+++||+++.++||+.++++|.......+........ ....+ ... .......+.++. T Consensus 20 ~s~~GIviiD~~GrIv~~N~aa~~l~GYs~eEllG~~~~~L~p~d~~~~~~~~l~~~~~~g~~~~~g~~~E~~~~RKDGs 99 (799) T PRK11359 20 QNMMGAVLINENDEVMFFNPAAEKLWGYKREEVIGNNIDMLIPRDLRPAHPEYIRHNREGGKARVEGMSRELQLEKKDGS 99 (799) T ss_pred HCCCEEEEECCCCCEEEECHHHHHHHCCCHHHHCCCCHHHHCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCC T ss_conf 18854999969990998718999987929999859988992785333123999998774265544564048999858888 Q ss_pred EEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCC Q ss_conf 59999742321012345565545687887899999999888899999999999999999999997225974598976897 Q gi|254780903|r 197 SILIINSRVPLLRLWREEVTLEVVFFSIISALLLFILFSYYRQAKKNKENDTILLEANICVETALSRGRCGLWNFNFDNK 276 (766) Q Consensus 197 ~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~a~~~dit~~r~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~ 276 (766) .+++.....+.....+. ..++..+|||+++ +++++++++..++++++.++|.||.++. T Consensus 100 ~~~velsvs~i~~~g~i------------------~~l~ivrDITee~----a~~e~~r~l~~~ld~~~~~I~i~D~~g~ 157 (799) T PRK11359 100 KIWTRFALSKVSAEGKV------------------YYLALVRDASVEM----AQKEQTRQLIIAVDHLDRPVIVLDPERH 157 (799) T ss_pred EEEEEEEEEEECCCCCE------------------EEEEEEEECCHHH----HHHHHHHHHHHHHHCCCCEEEEECCCCC T ss_conf 99999999776479928------------------9999999768999----9999999999998626872999918987 Q ss_pred EEEECHHHHHHCCCCHHHCCCCHHHHHHHH-CCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECC Q ss_conf 899978899772999433058988999760-8120589999999972489848999998869898899889999998379 Q gi|254780903|r 277 KFHLSRSMYEIMGIPYENKTLSFRAIARLI-HYDNKKICEIARSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTIS 355 (766) Q Consensus 277 ~i~ws~~~~~llG~~~~e~~~s~~~~~~~v-HPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~ 355 (766) .++||+++.+|+||++++..+. .+..++ +|++.............+...+..|++++++||+++|++..+.|++|.. T Consensus 158 i~~vN~a~~el~Gy~~eEl~G~--~~~~ll~~pe~~~~~~~~~~~~l~~~~~~~~E~~~~~kdG~~~wv~~s~~pi~d~~ 235 (799) T PRK11359 158 IVQCNRAFTEMFGYCISEASGM--QPDTLLNIPEFPADNRIRLQQLLWKTARDQDEFLLLTRTGEKIWIKASISPVYDVL 235 (799) T ss_pred EEEECHHHHHHHCCCHHHHCCC--CHHHHHCCCCCCHHHHHHHHHHHHCCCCCEEEEEEECCCCCEEEEEEEEEEEECCC T ss_conf 8998778999859987897489--88998348788479999999998648973058999826997999998988998488 Q ss_pred CEE-EEEEEEECCCHHHHHHHH Q ss_conf 606-999998446179999999 Q gi|254780903|r 356 GGM-NIIGIAMDLTEKYHLEKR 376 (766) Q Consensus 356 G~~-~~iGi~~DITErK~ae~~ 376 (766) |.+ +++++..||||+|++++. T Consensus 236 g~~~~~v~i~~DITErr~~~~l 257 (799) T PRK11359 236 AHLQNLVMTFSDITEERQIRQL 257 (799) T ss_pred CCEEEEEEEEEECCHHHHHHHH T ss_conf 9888999999731588899999 No 45 >PRK13559 hypothetical protein; Provisional Probab=99.94 E-value=5.8e-22 Score=176.47 Aligned_cols=307 Identities=13% Similarity=0.175 Sum_probs=216.7 Q ss_pred HHHHHHHHHHCCCCCEEEEECCC---CEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEE Q ss_conf 99999999722597459897689---789997889977299943305898899976081205899999999724898489 Q gi|254780903|r 253 ANICVETALSRGRCGLWNFNFDN---KKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLD 329 (766) Q Consensus 253 se~rl~~al~~a~~GiWd~D~~~---~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~ 329 (766) |...|..|+++.++-+...|+.. -.+|||+++++|.||+.++..+.. |.-+-+|+.-.........+...+.++. T Consensus 43 ~~~~~~~a~~~~r~a~~itd~~~~d~PIiy~N~aF~~lTGYs~~EviGrn--crfLqGp~t~~~~v~~ir~ai~~~~~~~ 120 (363) T PRK13559 43 SGRLFEQAMEQTRMAMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRN--CRFLQGAGTDPAAVAKIRAAIAAERVVV 120 (363) T ss_pred CCHHHHHHHHHCCCCEEEECCCCCCCCEEEECHHHHHHHCCCHHHHCCCC--CHHCCCCCCCHHHHHHHHHHHHCCCCEE T ss_conf 31479999974774389968999999889988799976398979984999--2410899999899999999998399469 Q ss_pred EEEEEECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCEEEEEC Q ss_conf 99998869898899889999998379606-99999844617999999999999999999985445515883499699701 Q gi|254780903|r 330 QIFHMRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEALVLWDKNDRLVMCN 408 (766) Q Consensus 330 ~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i~~~D~~g~i~~~N 408 (766) .+++..+|||+.+|......|++|++|++ +++|+..||||+|+.+.+-+. T Consensus 121 ~el~nyrKDGs~fwn~l~isPV~D~~G~v~~fig~q~DvTd~~~~~a~e~~----------------------------- 171 (363) T PRK13559 121 VELLNYRKDGSPFWNALHLGPIYDEDGKLLYFFGSQWDVTDIRAVRALEAH----------------------------- 171 (363) T ss_pred EEEEEECCCCCEEEEEEEEEEEECCCCCEEEEEEEEEEECCCCCHHHHHHH----------------------------- T ss_conf 999998269982477689888798999799999999851554204558999----------------------------- Q ss_pred HHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCCCCCEEEEEEECCCEEEEECCEECCCCCEEEEEEEEEHHH Q ss_conf 78988839997894289717881652013789998521124564058999169628742232456997899988620100 Q gi|254780903|r 409 ANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPERSQDMSKEIKLADSRWLQINEWCTHDGGTISVGTDITLLK 488 (766) Q Consensus 409 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~dg~~~~i~~~~~~dg~~v~v~~~i~~~~ 488 (766) T Consensus 172 -------------------------------------------------------------------------------- 171 (363) T PRK13559 172 -------------------------------------------------------------------------------- 171 (363) T ss_pred -------------------------------------------------------------------------------- T ss_conf -------------------------------------------------------------------------------- Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 01122322222221100001788998644457999999999999999988789999999987675222478999999998 Q gi|254780903|r 489 HNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVI 568 (766) Q Consensus 489 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell 568 (766) +..++.-|.|=.+|-|..|.+.+.+- T Consensus 172 ------------------------------------------------------~~~LlrEl~HRVKN~LavV~Si~rlq 197 (363) T PRK13559 172 ------------------------------------------------------ERRLAREVDHRSKNVFAVVDSIVRLT 197 (363) T ss_pred ------------------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf ------------------------------------------------------99999998887661999999999965 Q ss_pred HCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEE Q ss_conf 60346889938999999999999999999977767788874198301203316999999999999999984795899980 Q gi|254780903|r 569 KKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKI 648 (766) Q Consensus 569 ~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~ 648 (766) .+. . +. .++.+.+..-..-|..+=+.+|. .-..+.++|.+++...+.-+.+ .+..+.++. T Consensus 198 ~R~---~-~~---~~~~~~l~~RI~ALa~aH~~Ll~---------~~~~~~v~l~~ll~~~l~~~~~----~~~ri~~~g 257 (363) T PRK13559 198 GRA---D-DA---SLYAAAIQERVQALARAHETLLD---------ERGWETVEVEELIRAQVAPYAP----RGTRVAFEG 257 (363) T ss_pred CCC---C-CH---HHHHHHHHHHHHHHHHHHHHHHC---------CCCCCCEEHHHHHHHHHHHCCC----CCCEEEEEC T ss_conf 347---9-84---99999999999999999999865---------7776623299999999985078----886699988 Q ss_pred CCCCEEEEC-HHHHHHHHHHHHHHHHHCC---CCCCEEEEEEE--EECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCC Q ss_conf 899789986-8999999999886565346---89888999999--97998999999788978977854304650531467 Q gi|254780903|r 649 PSELFFNAD-KRIIKKILFPILSNSIKFT---NNNGKMMIRTS--KIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQ 722 (766) Q Consensus 649 ~~~l~v~~D-~~~l~QVl~NLi~NAik~t---~~~g~I~i~~~--~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~ 722 (766) + ++.+..+ ...|.-||--|+.||+||. .++|+|.|+.. ..++.+.+.+.|+|.|.++. T Consensus 258 p-~v~l~~~~A~~L~LilhELaTNA~KyGals~~~G~V~V~w~~~~~~~~l~l~W~E~Ggp~v~~--------------- 321 (363) T PRK13559 258 P-GIRLGAASVQPLGLVLHELAVNAIKHGALSADAGRISISWRPSREGGGLVLDWQEQGGPTPPK--------------- 321 (363) T ss_pred C-CEEECHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEECCCCCEEEEEEECCCCCCCCC--------------- T ss_conf 9-756868887789999999987088735667899779999998178987999997789999989--------------- Q ss_pred CCCCCCCCCHHHHHHHHHH-HHCCCEEEEEEECCCCEEEEEECC Q ss_conf 5567788761689999999-962986999979899529999735 Q gi|254780903|r 723 YDQSIGGFGLGLAISDALT-NLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 723 ~t~~~~GtGLGLaI~k~iV-e~hgG~I~v~S~~g~Gttf~i~LP 765 (766) ..++|+|.-++.+.+ ...||++..+=.+ .|..++|++| T Consensus 322 ----p~~~GFGs~LI~~~v~~qL~G~v~~~~~~-~Gl~~~i~~P 360 (363) T PRK13559 322 ----LQKRGFGTVIISAMVESQLKGQIEKDWAD-DGLLARIEIP 360 (363) T ss_pred ----CCCCCCHHHHHHHHHHHHCCCEEEEEECC-CEEEEEEEEE T ss_conf ----99998569999999898759879999879-9089999996 No 46 >cd00075 HATPase_c Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins Probab=99.94 E-value=1.2e-25 Score=203.20 Aligned_cols=102 Identities=38% Similarity=0.661 Sum_probs=95.1 Q ss_pred HHHHHHHHHHHHHHCCCC-CCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHH Q ss_conf 999999988656534689-8889999999799899999978897897785430465053146755677887616899999 Q gi|254780903|r 661 IKKILFPILSNSIKFTNN-NGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDA 739 (766) Q Consensus 661 l~QVl~NLi~NAik~t~~-~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~ 739 (766) |+|||.||++||+||+++ .+.|+|++...++.+.|+|+|||+|||++.++++|+||++... ++..+|+||||++||. T Consensus 1 l~~vl~nLl~NAik~~~~~~~~I~i~~~~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~--~~~~~g~GlGL~i~~~ 78 (103) T cd00075 1 LQQVLLNLLSNAIKHTPEGGGRITISVERDGDHLEIRVEDNGPGIPEEDLERIFERFSDGSR--SRKGGGTGLGLSIVKK 78 (103) T ss_pred CHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCEEEEEEEECCCCCCHHHHHHCCCCCCCCCC--CCCCCCCCCHHHHHHH T ss_conf 96999999999998678999489999998399999999977994088999760697501788--8778986505999999 Q ss_pred HHHHCCCEEEEEEECCCCEEEEEEC Q ss_conf 9996298699997989952999973 Q gi|254780903|r 740 LTNLHGGRLKIISQEGKGTIVTICM 764 (766) Q Consensus 740 iVe~hgG~I~v~S~~g~Gttf~i~L 764 (766) +++.|||+|+++|++|+||+|+|+| T Consensus 79 i~~~~~G~i~i~s~~~~Gt~~~i~l 103 (103) T cd00075 79 LVELHGGRIEVESEPGGGTTFTITL 103 (103) T ss_pred HHHHCCCEEEEEECCCCCEEEEEEC T ss_conf 9998899899996599919999989 No 47 >PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional Probab=99.93 E-value=1.6e-21 Score=173.25 Aligned_cols=327 Identities=18% Similarity=0.254 Sum_probs=236.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHEEEEC-CCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCCCCC Q ss_conf 99999999999999985445515883-49969970178988839997894289717881652013789998521124564 Q gi|254780903|r 374 EKRYAEADQRLSKAIECTSEALVLWD-KNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPERSQD 452 (766) Q Consensus 374 e~~l~ese~rlr~~ie~~~~~i~~~D-~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 452 (766) -.+|+-.+..-+.++.++|-|+.++| ...+.+.+|+-+..++-.=+ ..-+.. +.. ++.-.-...... T Consensus 335 ~~eL~~~~~l~~eIIs~lP~GlLVYdF~sN~~i~SNkIAdhLLPhl~--------LqkI~~---MA~-qH~GvIQ~tInN 402 (881) T PRK10618 335 SGELRILRAINEEIVSLLPLGLLVYDFSSNRTVISNKIADHLLPHLN--------LQKITT---MAE-QHQGVIQATINN 402 (881) T ss_pred HHHHHHHHHHHHHHHHCCCCEEEEEECCCCCEEEHHHHHHHHCCCCC--------HHHHHH---HHH-HHCCEEEEEECC T ss_conf 88999998868889854875069997468957730267886557667--------899999---999-737868998836 Q ss_pred EEEEEEECCCEEEEECCEECCCCCEEEEEEEEEHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 05899916962874223245699789998862010001122322222221100001788998644457999999999999 Q gi|254780903|r 453 MSKEIKLADSRWLQINEWCTHDGGTISVGTDITLLKHNQAQLRESKRRLKATINDLSTSRQILERQKTELSIANAKYQVE 532 (766) Q Consensus 453 ~~~e~~~~dg~~~~i~~~~~~dg~~v~v~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~l~~~ 532 (766) ..||+++.... ..+..+... +.+ .+ ++ .-.+++++.+ T Consensus 403 evYEIr~~rSq--------~~p~T~LFi------i~D----------------qD----kE---------vLvnKkLq~A 439 (881) T PRK10618 403 ELYEIRMFRSQ--------VAPRTQLFI------IRD----------------QD----RE---------VLVNKKLQQA 439 (881) T ss_pred EEEEEEEEECC--------CCCCEEEEE------EEC----------------CC----HH---------HHHHHHHHHH T ss_conf 06788854225--------787537999------975----------------75----89---------9988999999 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 99998878999999998767522247899999999860346889938999999999999999999977767788874198 Q gi|254780903|r 533 KERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEK 612 (766) Q Consensus 533 ~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~ 612 (766) ...-++--+++..|+.||++||+.|+..+.-.+.-+... . + .+.+..+...+.++.++|++|--.-++|++. T Consensus 440 qreYeKN~qaRk~~l~Ni~~el~~Pl~~l~~~~~~l~~~----~-~---~~~l~~L~~qs~~i~~lidnI~Lln~LEsq~ 511 (881) T PRK10618 440 QREYEKNQQARRAFLQNIGDELKEPVQSLAELAAQLNAP----E-S---QQLLKQLAEQADVLVRLIDNIQLANMLENDE 511 (881) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC----C-H---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 999986699999999999999877899999999986252----4-4---6799999999999999998899998886056 Q ss_pred CCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECC--CCEEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEE- Q ss_conf 30120331699999999999999998479589998089--978998689999999998865653468988899999997- Q gi|254780903|r 613 ISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPS--ELFFNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKI- 689 (766) Q Consensus 613 ~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~--~l~v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~- 689 (766) -+...++|.+.++|++++...-|.+..||+.|....-. +-...+|+..|+.|+.=|+.=||--| .-|+|++.+..+ T Consensus 512 W~~~~~~Fsl~~Lid~~l~e~Lp~i~~KGL~L~~hn~l~~~~~~~gD~~aLrkil~lLl~YaitTT-~~GKItl~v~~~~ 590 (881) T PRK10618 512 WKSEQTLFSLQDLIDEVVPEVLPAIKRKGLQLLIHNHLKANDMRRGDRDALRKILLLLLQYAVTTT-QYGKITLEVDQDE 590 (881) T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHCCCCHHHHHHHHHHHHHHHHHCC-CCCEEEEEEECCC T ss_conf 765677104999999999987689874270333234798899704789999999999998881114-4525999982587 Q ss_pred --CCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf --9989999997889789778543046505314675567788761689999999962986999979899529999735 Q gi|254780903|r 690 --GQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 690 --~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) .+.+.|.|.|||.|++.+.++.+=-||- .+....+-..|+||-.++|+.+...|||...+.|.++-||.++|+|| T Consensus 591 ~~~~~l~i~i~DTG~Gls~~El~Nl~~PFl-~~t~~Dry~~~SGlTf~LC~qLc~KlgG~l~I~Sk~~iGT~Y~i~lp 667 (881) T PRK10618 591 SSEERLTFRILDTGEGVSIHEIDNLHFPFL-NQTQGDRYGKASGLTFWLCNQLCRKLGGHLNIKSREDLGTRYSVHLK 667 (881) T ss_pred CCCCEEEEEEECCCCCCCHHHHHHCCCCCC-CCHHHHHCCCCCCCHHHHHHHHHHHHCCEEEEECCCCCCCCEEEEEC T ss_conf 778638999954788878888855379776-83122111378872999999999984896788415677664799842 No 48 >PRK11359 cAMP phosphodiesterase; Provisional Probab=99.92 E-value=3.5e-22 Score=178.08 Aligned_cols=236 Identities=13% Similarity=0.152 Sum_probs=175.5 Q ss_pred HHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHH-HHHHHH---C Q ss_conf 999999999999972259745989768978999788997729994330589889997608120589999-999972---4 Q gi|254780903|r 248 TILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEI-ARSVTG---K 323 (766) Q Consensus 248 ~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~-a~~~~~---~ 323 (766) ++..+++.+|+.+++.+++|++..|.+++.++||+++++||||++++..+. .+..++|+++...... ...... . T Consensus 5 ~~~~~~~~~fr~~lE~s~~GIviiD~~GrIv~~N~aa~~l~GYs~eEllG~--~~~~L~p~d~~~~~~~~l~~~~~~g~~ 82 (799) T PRK11359 5 DADNAADGIFFPALEQNMMGAVLINENDEVMFFNPAAEKLWGYKREEVIGN--NIDMLIPRDLRPAHPEYIRHNREGGKA 82 (799) T ss_pred CCCCCCHHHHHHHHHHCCCEEEEECCCCCEEEECHHHHHHHCCCHHHHCCC--CHHHHCCCCCCHHHHHHHHHHHHCCCC T ss_conf 013454799999996188549999699909987189999879299998599--889927853331239999987742655 Q ss_pred CCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCE Q ss_conf 89848999998869898899889999998379606999998446179999999999999999999854455158834996 Q gi|254780903|r 324 HVKQLDQIFHMRHASGADIWIQVRAQMMRTISGGMNIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEALVLWDKNDR 403 (766) Q Consensus 324 ~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i~~~D~~g~ 403 (766) ....+..|++++++||+.+|++....++ +.+|++.++++++|||+++. +++++.++..++++++++++++|.+++ T Consensus 83 ~~~g~~~E~~~~RKDGs~~~velsvs~i-~~~g~i~~l~ivrDITee~a----~~e~~r~l~~~ld~~~~~I~i~D~~g~ 157 (799) T PRK11359 83 RVEGMSRELQLEKKDGSKIWTRFALSKV-SAEGKVYYLALVRDASVEMA----QKEQTRQLIIAVDHLDRPVIVLDPERH 157 (799) T ss_pred CCCCCEEEEEEECCCCCEEEEEEEEEEE-CCCCCEEEEEEEEECCHHHH----HHHHHHHHHHHHHCCCCEEEEECCCCC T ss_conf 4456404899985888899999999776-47992899999997689999----999999999998626872999918987 Q ss_pred EEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHC---CCCCCCEEEEEEECCCE--EEEECCEEC--CCC- Q ss_conf 9970178988839997894289717881652013789998521---12456405899916962--874223245--699- Q gi|254780903|r 404 LVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSD---PERSQDMSKEIKLADSR--WLQINEWCT--HDG- 475 (766) Q Consensus 404 i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~e~~~~dg~--~~~i~~~~~--~dg- 475 (766) ++++|++|++++||+.+++.+.++.+.+..+.........+.. .......++.....||+ |...+..+. .+| T Consensus 158 i~~vN~a~~el~Gy~~eEl~G~~~~~ll~~pe~~~~~~~~~~~~l~~~~~~~~E~~~~~kdG~~~wv~~s~~pi~d~~g~ 237 (799) T PRK11359 158 IVQCNRAFTEMFGYCISEASGMQPDTLLNIPEFPADNRIRLQQLLWKTARDQDEFLLLTRTGEKIWIKASISPVYDVLAH 237 (799) T ss_pred EEEECHHHHHHHCCCHHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHCCCCCEEEEEEECCCCCEEEEEEEEEEEECCCCC T ss_conf 89987789998599878974898899834878847999999999864897305899982699799999898899848898 Q ss_pred --CEEEEEEEEEHHHCC Q ss_conf --789998862010001 Q gi|254780903|r 476 --GTISVGTDITLLKHN 490 (766) Q Consensus 476 --~~v~v~~~i~~~~~~ 490 (766) +++.+..|||+.+.. T Consensus 238 ~~~~v~i~~DITErr~~ 254 (799) T PRK11359 238 LQNLVMTFSDITEERQI 254 (799) T ss_pred EEEEEEEEEECCHHHHH T ss_conf 88999999731588899 No 49 >KOG0519 consensus Probab=99.92 E-value=5.3e-26 Score=205.64 Aligned_cols=233 Identities=25% Similarity=0.303 Sum_probs=202.3 Q ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999887899999--9998767522247899999999860346889938999999999999999999977767 Q gi|254780903|r 526 NAKYQVEKERAETANKTKSE--FLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNIL 603 (766) Q Consensus 526 ~~~l~~~~~~ae~an~~k~e--fla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diL 603 (766) .-.+.+.....+.+...+++ |++++|||||+|++. |....+ .++..+..++.+.+.++.++..++.++++++ T Consensus 202 ~~~~~~~~~~~e~~~~~~sq~~~~~~~sHeir~p~~~--~~~~~~----~~t~~~~~~~~~~~~~~~~~~~~~s~ln~i~ 275 (786) T KOG0519 202 LVELQKKLASDEAAVWSPSQKGFLATLSHEIRTPLNG--GMLGGL----SDTDLDSDQRLILNTDRVSAKSLLSLLNDIL 275 (786) T ss_pred HHHHHHHHCCCCCHHCCCCCHHCCCCCCCEEECCCCC--CCCCEE----ECCCCCHHHHHHHCCCHHHHHCHHHHHHHHH T ss_conf 5212566512530002742011134456324434445--664122----0344215689874300122000013777764 Q ss_pred HHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE--EEECHHHHHHHHHHHHHHHHHCCCCCCE Q ss_conf 78887419830120331699999999999999998479589998089978--9986899999999988656534689888 Q gi|254780903|r 604 EMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF--FNADKRIIKKILFPILSNSIKFTNNNGK 681 (766) Q Consensus 604 d~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~--v~~D~~~l~QVl~NLi~NAik~t~~~g~ 681 (766) |.+++++|.+.+.-.+||+..+++.++..+.+.+.+|++.+....+.+.| +.+|+.++.||+.|+++||+||++. |. T Consensus 276 d~~~v~~g~~~l~~~rf~l~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~p~~v~~de~~~~qv~~n~v~naik~t~~-~~ 354 (786) T KOG0519 276 DLSKVESGKGELVAKRFDLRTLLNFVISLLSELSQAKYAILVLDLSSGVPRNVRGDEARLRQVIANLVSNAIKFTHA-GH 354 (786) T ss_pred HHCCCCCCCCCCEECCCCHHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCC-CC T ss_conf 01135323554032234526666777877666551367346520787776420356101100033320144354446-62 Q ss_pred EEEEEEEEC------------------------------------------------CEEEEEEEECCCCCCHHHHHH-H Q ss_conf 999999979------------------------------------------------989999997889789778543-0 Q gi|254780903|r 682 MMIRTSKIG------------------------------------------------QCVIITIADTGIGIPKSALEK-I 712 (766) Q Consensus 682 I~i~~~~~~------------------------------------------------~~v~i~V~D~G~GI~~e~~~~-i 712 (766) |.++....+ -.-.+.+.|+|+||+.+.... + T Consensus 355 i~~~~~~~~~~~~~~~~l~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~~~~~i~~~~~~~~~ 434 (786) T KOG0519 355 LEESVIAREELSESNDVLLRAKEEAHMAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPDSGLEIQTVMRSSNV 434 (786) T ss_pred EEEEEEECHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHEEECCCCCEEEEECCCCHHH T ss_conf 24666512110046789975457765351556678887413312422042122357665202236664068502330465 Q ss_pred CCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf 46505314675567788761689999999962986999979899529999735 Q gi|254780903|r 713 GQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 713 F~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) |.+|-|+....++.++|||+|+.+|++++++++|.+.+.+.+..|++|+|++| T Consensus 435 ~~~~~q~~~~~~~~~~gt~~~~~i~~~l~~l~~~~~~~~~~~~~~~t~~~~~~ 487 (786) T KOG0519 435 FTSLIQADPDITRLYGGTGLGESIVFSLVELMSGEISDISCISLGKTFSFTLD 487 (786) T ss_pred HHHHHCCCHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEC T ss_conf 55451466100345687645332223288998867432110034752223312 No 50 >PRK10547 chemotaxis protein CheA; Provisional Probab=99.86 E-value=5.5e-19 Score=154.98 Aligned_cols=142 Identities=24% Similarity=0.415 Sum_probs=115.8 Q ss_pred EECHHHHHHHHHHHHHHHHHH--CCCEEEEEECCCCEEEECHHHHHHH---HHHHHHHHHHCC------------CCCCE Q ss_conf 316999999999999999984--7958999808997899868999999---999886565346------------89888 Q gi|254780903|r 619 NADLIPIINEGIRLIGSSAQS--KNIKIEKKIPSELFFNADKRIIKKI---LFPILSNSIKFT------------NNNGK 681 (766) Q Consensus 619 ~~dl~~~i~~~~~~~~~~~~~--k~i~l~~~~~~~l~v~~D~~~l~QV---l~NLi~NAik~t------------~~~g~ 681 (766) .+.+..+....-++++..+.+ |.+.|.+...+ +..|+.-|.++ |+.||.||++|. |+.|+ T Consensus 334 MvP~~~lf~r~~R~VRdlar~~gK~V~L~i~G~d---telDr~Ile~L~dPL~HLlRNAvDHGIE~peeR~a~GKp~~G~ 410 (662) T PRK10547 334 MMPMEYVFSRFPRLVRDLAGKLGKQVELTLVGSS---TELDKSLIERIIDPLTHLVRNSLDHGIELPEKRLAAGKNSVGN 410 (662) T ss_pred CEEHHHHHHHHHHHHHHHHHHHCCEEEEEEECCC---EEEHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCEEE T ss_conf 5218998888789999999986982599996686---7771999998887999998742430489988998759997279 Q ss_pred EEEEEEEECCEEEEEEEECCCCCCHHHH---------------------HHHCCC-EEECCCCCCCCCCCCCHHHHHHHH Q ss_conf 9999999799899999978897897785---------------------430465-053146755677887616899999 Q gi|254780903|r 682 MMIRTSKIGQCVIITIADTGIGIPKSAL---------------------EKIGQP-FEPLHNQYDQSIGGFGLGLAISDA 739 (766) Q Consensus 682 I~i~~~~~~~~v~i~V~D~G~GI~~e~~---------------------~~iF~p-F~q~~~~~t~~~~GtGLGLaI~k~ 739 (766) |+++++..+++|+|+|+|+|-||+.+.. .-||.| |.+.+. .+...|-|.||-+||+ T Consensus 411 I~l~a~~~g~~v~I~v~DDGrGiD~e~Ir~kAv~kGL~~~e~lsd~e~~~LIF~PGFSTa~~--Vt~lSGRGVGmDVV~~ 488 (662) T PRK10547 411 LILSAEHQGGNICIEVTDDGAGLNRERILAKAASQGLAVSENMSDDEVGMLIFAPGFSTAEQ--VTDVSGRGVGMDVVKR 488 (662) T ss_pred EEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCCCC--CCCCCCCCCCHHHHHH T ss_conf 99999985999999998189998999999999984999853389999999971799862322--3568886646899999 Q ss_pred HHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf 99962986999979899529999735 Q gi|254780903|r 740 LTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 740 iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) -|+.+||+|.|+|++|+||+|+++|| T Consensus 489 ~v~~l~G~v~v~S~~G~GT~F~l~lP 514 (662) T PRK10547 489 NIQEMGGHVEIQSKQGTGTTIRILLP 514 (662) T ss_pred HHHHCCCEEEEEEECCCCEEEEEECC T ss_conf 99982998999960898079999788 No 51 >COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms] Probab=99.84 E-value=8.5e-18 Score=146.40 Aligned_cols=167 Identities=20% Similarity=0.406 Sum_probs=127.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHH--HCCCEEEEEECCCCEEEECHHHHHH Q ss_conf 99999999999997776778887419830120331699999999999999998--4795899980899789986899999 Q gi|254780903|r 586 QDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQ--SKNIKIEKKIPSELFFNADKRIIKK 663 (766) Q Consensus 586 ~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~--~k~i~l~~~~~~~l~v~~D~~~l~Q 663 (766) +........+.+++.+|-+-- |.. ..+.+..++..--++++..+. .|.|+|.++..+ ...|+.-|.+ T Consensus 364 ~el~~~~~~l~~~~~~LQd~v------m~~--RMvP~~~vf~RfpR~VRdla~~lgK~V~L~ieG~~---telDksIlE~ 432 (716) T COG0643 364 EELDEALRQLSRLTTDLQDEV------MKI--RMVPFEQVFSRFPRMVRDLARKLGKQVELVIEGED---TELDKSILER 432 (716) T ss_pred HHHHHHHHHHHHHHHHHHHHH------HHH--HCEEHHHHHHHCCHHHHHHHHHHCCEEEEEEECCC---EEEHHHHHHH T ss_conf 999999999999999999999------997--00039998744409999999986991699996487---1342989988 Q ss_pred H---HHHHHHHHHHC------------CCCCCEEEEEEEEECCEEEEEEEECCCCCCHHH-------------------- Q ss_conf 9---99988656534------------689888999999979989999997889789778-------------------- Q gi|254780903|r 664 I---LFPILSNSIKF------------TNNNGKMMIRTSKIGQCVIITIADTGIGIPKSA-------------------- 708 (766) Q Consensus 664 V---l~NLi~NAik~------------t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~-------------------- 708 (766) + |+.||.||++| -|+.|+|++++...++.++|+|+|+|-||+++. T Consensus 433 l~dPL~HLvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~~~gn~ivIev~DDG~Gid~ekI~~KAiErGli~~~~a~~lS 512 (716) T COG0643 433 LGDPLTHLVRNAVDHGIETPEERRAAGKPEEGTITLSAYHEGNNIVIEVSDDGAGIDREKIREKAIERGLITEEEAETLS 512 (716) T ss_pred HCCCHHHHHHCCHHCCCCCHHHHHHCCCCCCCEEEEEEECCCCEEEEEEEECCCCCCHHHHHHHHHHCCCCCHHHHCCCC T ss_conf 64669988850011058988999875989863699999837986999995689987999999999982998867752079 Q ss_pred ----HHHHCCC-EEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf ----5430465-05314675567788761689999999962986999979899529999735 Q gi|254780903|r 709 ----LEKIGQP-FEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 709 ----~~~iF~p-F~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) ..-||.| |.+.+. -+...|-|.||=+||+-|+.+||+|.|+|++|+||+|++.|| T Consensus 513 d~Ei~~LIF~PGFSTa~~--VtdvSGRGVGMDVVk~~I~~LgG~I~V~S~~G~GT~Fti~LP 572 (716) T COG0643 513 DEEILNLIFAPGFSTAEQ--VTDVSGRGVGMDVVKTNIEQLGGSISVSSEPGKGTTFTIRLP 572 (716) T ss_pred HHHHHHHHHCCCCCCCHH--HHCCCCCCCCHHHHHHHHHHCCCEEEEEECCCCCEEEEEECC T ss_conf 999998873699873411--101657765789999999973998999962789769999668 No 52 >PRK10935 nitrate/nitrite sensor protein NarQ; Provisional Probab=99.84 E-value=3.9e-17 Score=141.62 Aligned_cols=190 Identities=20% Similarity=0.279 Sum_probs=133.8 Q ss_pred HHHHHHHHHHHHHHHHHHH----HHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHH Q ss_conf 9876752224789999999----986034688993899999999999999999997776778887419830120331699 Q gi|254780903|r 548 AKMSHELRTPLNAILGFSE----VIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLI 623 (766) Q Consensus 548 a~isHelrtPL~aI~g~~e----ll~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~ 623 (766) +.|+|||-.+|.-.+.|.. ++.+.+......++..+.+..+.+.......=+..+|.-.| . .....+|. T Consensus 366 ~~IARELHDsLaQ~Ls~lkiq~~lL~~~l~~~~~~~~~~~~l~~i~~~l~~a~~qlReLl~~fR-----l--~l~~~~L~ 438 (568) T PRK10935 366 ATIARELHDSLAQVLSYLKIQLTLLKRSLPKSCDNAKAESIIADFDEGLSDAYRQLRELLTTFR-----L--TIQEANLG 438 (568) T ss_pred HHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-----C--CCCCCCHH T ss_conf 8999984412665789999999999987422565388999999999999999999999999832-----2--67756879 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEEEEC-CCCEEEECH-HHHHHHHHHHHHHHHHCCCCCCEEEEEEEEEC-CEEEEEEEEC Q ss_conf 99999999999999847958999808-997899868-99999999988656534689888999999979-9899999978 Q gi|254780903|r 624 PIINEGIRLIGSSAQSKNIKIEKKIP-SELFFNADK-RIIKKILFPILSNSIKFTNNNGKMMIRTSKIG-QCVIITIADT 700 (766) Q Consensus 624 ~~i~~~~~~~~~~~~~k~i~l~~~~~-~~l~v~~D~-~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~-~~v~i~V~D~ 700 (766) +.++..++.++.+ .++.+.+++. ++.++..+. ..+-||+.+.++|++||+ ..++|+|++...+ +.+.++|+|| T Consensus 439 ~AL~~~~~~~~~q---~~~~i~l~~~l~~~~l~~~~~i~llrIvqEALtN~~KHA-~A~~V~V~~~~~~~~~v~l~V~Dn 514 (568) T PRK10935 439 SALEEMLDQLRNQ---TSAKITLDCRLPSQALDAQQQVHLLQIIREATLNAIKHA-NASEIAVSCVTNPDGEVTVSIRDD 514 (568) T ss_pred HHHHHHHHHHHHH---CCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHC-CCCEEEEEEEECCCCEEEEEEEEC T ss_conf 9999999999751---194699970688777888899999999999999999808-998799999974898799999779 Q ss_pred CCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 897897785430465053146755677887616899999999629869999798995299997359 Q gi|254780903|r 701 GIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 701 G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) |+|||+.. . .+.++||.|.+.-++.+||++.++|.||.||++++++|. T Consensus 515 G~Gf~~~~-----------------~-~~~h~GL~iMrERa~~lgG~l~i~s~p~~GT~V~l~~P~ 562 (568) T PRK10935 515 GVGIGELK-----------------E-PEGHYGLNIMHERASRLGGTLTFSQNPGGGTTVSLTFPS 562 (568) T ss_pred CCCCCCCC-----------------C-CCCCCCHHHHHHHHHHCCCEEEEEECCCCCEEEEEEECC T ss_conf 94789878-----------------8-899857599999999669989999779996699998589 No 53 >PRK10600 nitrate/nitrite sensor protein NarX; Provisional Probab=99.75 E-value=1.4e-14 Score=123.23 Aligned_cols=193 Identities=12% Similarity=0.174 Sum_probs=137.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECH Q ss_conf 99999987675222478999999998603468899389999999999999999999777677888741983012033169 Q gi|254780903|r 543 KSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADL 622 (766) Q Consensus 543 k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl 622 (766) ++-.+--+-..+-+.|+.+.--+++++... +..+++.++.+..|.........-+..+|.--| .+ ...-+| T Consensus 362 R~~IARELHDslaQ~Ls~Lkiq~~~l~~~~--~~~~~~~~~~l~~i~~~~~~a~~~lReLl~~fR-----~~--l~~~~l 432 (569) T PRK10600 362 RATIARELHDSIAQSLSCMKMQVSCLQMQG--DALPESSRELLSQIRNELNASWAQLRELLTTFR-----LQ--LTEPGL 432 (569) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-----CC--CCCCCH T ss_conf 999999988887222789999999999730--579888999999999999999999999999835-----57--775667 Q ss_pred HHHHHHHHHHHHHHHHHCCCEEEEEECCCC-EEEE-CHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEEC Q ss_conf 999999999999999847958999808997-8998-68999999999886565346898889999999799899999978 Q gi|254780903|r 623 IPIINEGIRLIGSSAQSKNIKIEKKIPSEL-FFNA-DKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADT 700 (766) Q Consensus 623 ~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l-~v~~-D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~ 700 (766) .+-++..++.++.+. ++.+.+++..+. ++.. -...+-||+..-++|++||... .+|+|+....++.+.++|+|| T Consensus 433 ~~aL~~~i~~~~~~~---g~~i~l~~~~~~~~l~~~~~i~l~rIvqEALsNv~KHA~A-~~v~V~l~~~~~~~~l~I~Dd 508 (569) T PRK10600 433 RPALEASCEEFSARF---GFPVKLDYQLPPRLVPSHQAIHLLQIAREALSNALKHAQA-SEVVVTVAQNDNQVKLSVQDN 508 (569) T ss_pred HHHHHHHHHHHHHHC---CCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCC-CEEEEEEEECCCEEEEEEEEC T ss_conf 999999999999760---9779999558866798789999999999999999970899-879999997699899999889 Q ss_pred CCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 897897785430465053146755677887616899999999629869999798995299997359 Q gi|254780903|r 701 GIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 701 G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) |+|+|++ ...+.+.||.|-+.=++..||++.++|.||+||++++++|. T Consensus 509 G~Gf~~~------------------~~~~~h~GL~iMrERa~~lgG~l~i~s~p~~GT~V~l~f~P 556 (569) T PRK10600 509 GCGVPEN------------------AERSNHYGLIIMRDRAQSLRGDCSVRRRESGGTEVVVTFIP 556 (569) T ss_pred CCCCCCC------------------CCCCCCCCHHHHHHHHHHCCCEEEEEECCCCCEEEEEEECC T ss_conf 9898988------------------88899978159999999769989998669995899999758 No 54 >PRK11644 sensory histidine kinase UhpB; Provisional Probab=99.69 E-value=1.2e-13 Score=116.48 Aligned_cols=191 Identities=17% Similarity=0.251 Sum_probs=134.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECH Q ss_conf 99999987675222478999999998603468899389999999999999999999777677888741983012033169 Q gi|254780903|r 543 KSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADL 622 (766) Q Consensus 543 k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl 622 (766) +.+..--.--|+-+-|++|.-.+.++++...+ +...++..+.|...+.++.+-+.+++.-=| ....+.+.| T Consensus 304 Rr~IARELHDEiGQ~LTAIr~~a~~i~r~~~~---~~~~~~~a~~I~~l~~~i~~~vR~ll~~LR------P~~LDdLGL 374 (497) T PRK11644 304 RRDVARELHDEIGQTITAIRTQASIVKRLAAD---NASVKQSGQLIEQLSLGVYDAVRRLLGRLR------PRQLDDLTL 374 (497) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHCC------CCCHHHCCH T ss_conf 99999970003405999999999998632699---766899999999999999999999998609------031112489 Q ss_pred HHHHHHHHHHHHHHHHHCCCEEEEEECCCCE-EE-ECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEEC Q ss_conf 9999999999999998479589998089978-99-868999999999886565346898889999999799899999978 Q gi|254780903|r 623 IPIINEGIRLIGSSAQSKNIKIEKKIPSELF-FN-ADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADT 700 (766) Q Consensus 623 ~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~-v~-~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~ 700 (766) .+.++..++.+... ..++.+..+...+.. +. .-...+-.|...-++|++||... .+|.|+....++.+.++|+|| T Consensus 375 ~~AL~~Lv~e~~~~--~~gi~~~l~~~~~~~~L~~~~~itlYRIvQEaLTNi~KHA~A-~~V~I~L~~~~~~l~L~I~DD 451 (497) T PRK11644 375 EQAIRSLMRELELE--DRGIVSHLDWQIDESALSETQRVTLFRVCQEGLNNIVKHADA-SAVTIQGWQQDERLMLVIEDN 451 (497) T ss_pred HHHHHHHHHHHHHH--CCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCC-CEEEEEEEECCCEEEEEEEEC T ss_conf 99999999987652--579559998268766798246889999999999999973788-769999997699899999889 Q ss_pred CCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 897897785430465053146755677887616899999999629869999798995299997359 Q gi|254780903|r 701 GIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 701 G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) |+|++++. .+ .|+||.--|.=|+..||++.++|++ ||+..|+||+ T Consensus 452 G~Gf~~~~---------------~~----~G~GL~GMrERV~aLGG~l~I~S~~--GT~I~V~LP~ 496 (497) T PRK11644 452 GSGLPPGS---------------GQ----QGFGLRGMQERVSALGGTLTISCTH--GTRLSVTLPQ 496 (497) T ss_pred CCCCCCCC---------------CC----CCCCCHHHHHHHHHCCCEEEEEECC--CCEEEEECCC T ss_conf 98989898---------------99----9989267999999749979998289--9779995899 No 55 >pfam08447 PAS_3 PAS fold. The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. Probab=99.67 E-value=1.3e-15 Score=130.66 Aligned_cols=88 Identities=22% Similarity=0.344 Sum_probs=80.4 Q ss_pred EEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHH-HHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECC Q ss_conf 899978899772999433058988999760812058999999-9972489848999998869898899889999998379 Q gi|254780903|r 277 KFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIAR-SVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTIS 355 (766) Q Consensus 277 ~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~-~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~ 355 (766) .+|||+++++||||+|++...++..|.+++||||++.+..+. +.+.+....++.|||++++||+++|+..++.+++|++ T Consensus 1 v~y~s~~~~~i~G~~~~e~~~~~~~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~~e~R~~~~dG~~~wi~~~~~~~~d~~ 80 (90) T pfam08447 1 IIYWSPRFEEILGYTPEELKSSYEDWLDLVHPEDRERVRRALQEFSLKKGEPYSGEYRIRRKDGEYRWVEARGRPIRDEN 80 (90) T ss_pred CEEECHHHHHHHCCCCHHCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCEEEEEEEEEEEECCC T ss_conf 99999899998499901107998899987190568899988788886058740468999815993999999999999999 Q ss_pred CEE-EEEEEE Q ss_conf 606-999998 Q gi|254780903|r 356 GGM-NIIGIA 364 (766) Q Consensus 356 G~~-~~iGi~ 364 (766) |++ +++||+ T Consensus 81 G~~~~~~Gi~ 90 (90) T pfam08447 81 GKPVRVIGVA 90 (90) T ss_pred CCEEEEEEEC T ss_conf 9999999689 No 56 >COG3920 Signal transduction histidine kinase [Signal transduction mechanisms] Probab=99.66 E-value=2.6e-13 Score=114.04 Aligned_cols=188 Identities=21% Similarity=0.297 Sum_probs=139.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC---CEE Q ss_conf 99999998767522247899999999860346889938999999999999999999977767788874198301---203 Q gi|254780903|r 542 TKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISI---DKQ 618 (766) Q Consensus 542 ~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~---~~~ 618 (766) .|.-++.-+.|-++|-|..|.+.+.+-.+...++ ..+++.. ..+.+..||.+ +-.+ ... T Consensus 18 ~~~~ll~Ei~HRVKNnLqiIsSll~lq~r~~~~~-----~~e~~~~----------~~~Ri~sla~~---He~L~~s~~~ 79 (221) T COG3920 18 EKELLLREIHHRVKNNLQIISSLLRLQARKFEDE-----VLEALRE----------SQNRIQSLALI---HELLYKSGDD 79 (221) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH-----HHHHHHH----------HHHHHHHHHHH---HHHHCCCCCC T ss_conf 8999999999998879999999999777523667-----8999999----------98899999999---9998068865 Q ss_pred EECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECH-HHHHHHHHHHHHHHHHCCC---CCCEEEEEEEEECCE-- Q ss_conf 3169999999999999999847958999808997899868-9999999998865653468---988899999997998-- Q gi|254780903|r 619 NADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADK-RIIKKILFPILSNSIKFTN---NNGKMMIRTSKIGQC-- 692 (766) Q Consensus 619 ~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~-~~l~QVl~NLi~NAik~t~---~~g~I~i~~~~~~~~-- 692 (766) .++...+++.+...+.+....+.+.+.....+++.+..|. ..|.-|+--|++||+||.. ++|+|.|+....++. T Consensus 80 ~~~~~~y~~~L~~~l~~~~~~~~~~~~~~~~~~~~l~~d~A~~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~~~~ 159 (221) T COG3920 80 TWDFASYLELLASNLFPSYGGKDIRLILDSGPNVFLDPDTAVPLGLIVHELVTNALKHAFLSRPGGEIRITLSREGDGGR 159 (221) T ss_pred CCCHHHHHHHHHHHHHHHCCCCCCEEEEECCCCEEECHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEECCCCCE T ss_conf 17599999999999887627887527882288622673678899999999999889861788899779999998479971 Q ss_pred EEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHH-HHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 9999997889789778543046505314675567788761689999999-9629869999798995299997359 Q gi|254780903|r 693 VIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALT-NLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 693 v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iV-e~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) ..+.|.|+|.|+|.+. . . ...|+|+.+++.+| ++.||.+...+.. ||+|+|++|. T Consensus 160 ~~l~v~deg~G~~~~~---------------~-~-~~~g~G~~Lv~~lv~~q~~g~~~~~~~~--Gt~~~i~~~~ 215 (221) T COG3920 160 FLLTVWDEGGGPPVEA---------------P-L-SRGGFGLQLVERLVPEQLGGELEDERPD--GTEFRLRFPL 215 (221) T ss_pred EEEEEEECCCCCCCCC---------------C-C-CCCCCHHHHHHHHHHHHCCCEEEEECCC--CEEEEEEEEC T ss_conf 7999987898988888---------------8-7-8998379999999999679727997499--7799999886 No 57 >COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms] Probab=99.65 E-value=5.1e-13 Score=111.90 Aligned_cols=179 Identities=26% Similarity=0.261 Sum_probs=120.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHH Q ss_conf 99876752224789999999986034688993899999999999999999997776778887419830120331699999 Q gi|254780903|r 547 LAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPII 626 (766) Q Consensus 547 la~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i 626 (766) .-.-.|.|.|-|++|.++++.-. . +++.+.+...++.+. .++++ ....+++.+=+ T Consensus 263 sqi~pHfL~NtL~~I~~~~~~~~--------~---~~~~~~v~~l~~llR------~~l~~--------~~~~~~l~~E~ 317 (456) T COG2972 263 SQINPHFLYNTLETIRMLAEEDD--------P---EEAAKVVKALSKLLR------YSLSN--------LDNIVTLEIEL 317 (456) T ss_pred HCCCCHHHHHHHHHHHHHHHHCC--------H---HHHHHHHHHHHHHHH------HHHHC--------CCCCCCHHHHH T ss_conf 21261689999999999987357--------9---999999999999999------75006--------55534199999 Q ss_pred HHHHHHHHHHHHHCCCEEEEEECCCCE---E-EECHHHHHHHHHHHHHHHHHCC----CCCCEEEEEEEEECCEEEEEEE Q ss_conf 999999999998479589998089978---9-9868999999999886565346----8988899999997998999999 Q gi|254780903|r 627 NEGIRLIGSSAQSKNIKIEKKIPSELF---F-NADKRIIKKILFPILSNSIKFT----NNNGKMMIRTSKIGQCVIITIA 698 (766) Q Consensus 627 ~~~~~~~~~~~~~k~i~l~~~~~~~l~---v-~~D~~~l~QVl~NLi~NAik~t----~~~g~I~i~~~~~~~~v~i~V~ 698 (766) .-+...+. +++.++....+++.+.. . ..|| +-+|.+|+.||++|. .++|.|.|.+...++.++++|+ T Consensus 318 ~~~~kyl~--iq~~r~~~~le~~~~i~~~~~~l~~p---~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~~~~~i~i~i~ 392 (456) T COG2972 318 LLIEKYLE--IQKLRIGDRLEVPLPIDEELEPLIDP---KLVLQPLVENAIEHGIEPKRPGGSIAISAKKQDDVIQISIS 392 (456) T ss_pred HHHHHHHH--HHHCCCCEEEEEEECCCCCCCCCCCH---HHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCEEEEEEC T ss_conf 99999999--99819987999972037533202327---88988879999998620469995799999405879999977 Q ss_pred ECCCCCCHHHHHHHCCCEEECCCCCCCCCCC-CCHHHHHHHHHHHHCCCE--EEEEEECCCCEEEEEECCC Q ss_conf 7889789778543046505314675567788-761689999999962986--9999798995299997359 Q gi|254780903|r 699 DTGIGIPKSALEKIGQPFEPLHNQYDQSIGG-FGLGLAISDALTNLHGGR--LKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 699 D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~G-tGLGLaI~k~iVe~hgG~--I~v~S~~g~Gttf~i~LP~ 766 (766) |||+||+++....+.. +.++ +|+||+=++...+.|-|. +.++|++|+||+..+++|+ T Consensus 393 Dng~g~~~~~~~~~~~-----------~~~~r~giGL~Nv~~rl~~~~g~~~~~i~s~~~~gt~v~~~~~~ 452 (456) T COG2972 393 DNGPGIDEEKLEGLST-----------KGENRSGIGLSNVKERLKLYFGEPGLSIDSQPGKGTFVQIIIPK 452 (456) T ss_pred CCCCCCCHHHHHHHHH-----------CCCCCCCCCHHHHHHHHHHCCCCCCEEEEEECCCCEEEEEEEEH T ss_conf 6999958788866764-----------15777773588799999871897621799964895899999863 No 58 >COG4585 Signal transduction histidine kinase [Signal transduction mechanisms] Probab=99.64 E-value=8.8e-13 Score=110.19 Aligned_cols=161 Identities=19% Similarity=0.301 Sum_probs=105.0 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCC-CEEE Q ss_conf 938999999999999999999977767788874198301203316999999999999999984795899980899-7899 Q gi|254780903|r 577 GSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSE-LFFN 655 (766) Q Consensus 577 ~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~-l~v~ 655 (766) +.++.++.++.+.+- +.+-++++...-+ .+.+...+-..+.+.....+...-..-++++.....+. .++. T Consensus 203 ~~e~~~~~l~~i~~~---~~e~l~evR~~v~------~Lrp~~l~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~ 273 (365) T COG4585 203 DAEKAQEELKEIEKL---LREALQEVRALVR------DLRPVELEGLGLVEALRALLADFEERTGITVDLSLGSELERLP 273 (365) T ss_pred CHHHHHHHHHHHHHH---HHHHHHHHHHHHH------HCCCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEECCCCCCCCC T ss_conf 848899999999999---9999999999999------7197322121179999999999877508378861576446799 Q ss_pred -ECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHH Q ss_conf -8689999999998865653468988899999997998999999788978977854304650531467556778876168 Q gi|254780903|r 656 -ADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGL 734 (766) Q Consensus 656 -~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGL 734 (766) .-...+-.++.-.++||+||+.. .+|.|+....++.++++|.|||.|.+++. . |+|+|| T Consensus 274 ~~~e~~l~rivQEaltN~~rHa~A-~~v~V~l~~~~~~l~l~V~DnG~Gf~~~~----------------~---~~~~GL 333 (365) T COG4585 274 PEAEDALFRIVQEALTNAIRHAQA-TEVRVTLERTDDELRLEVIDNGVGFDPDK----------------E---GGGFGL 333 (365) T ss_pred HHHHHHHHHHHHHHHHHHHHCCCC-CEEEEEEEECCCEEEEEEEECCCCCCCCC----------------C---CCCCCH T ss_conf 689999999999999899875784-56999999829889999998997889764----------------5---777667 Q ss_pred HHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 99999999629869999798995299997359 Q gi|254780903|r 735 AISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 735 aI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) .--|.=|+..||++.++|.||+||++++++|- T Consensus 334 ~~mreRv~~lgG~l~i~S~~g~Gt~i~i~lPl 365 (365) T COG4585 334 LGMRERVEALGGTLTIDSAPGQGTTVTITLPL 365 (365) T ss_pred HHHHHHHHHCCCEEEEEECCCCCEEEEEEEEC T ss_conf 66999999869989998559997799999509 No 59 >pfam00989 PAS PAS fold. The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. Probab=99.59 E-value=1.9e-14 Score=122.21 Aligned_cols=111 Identities=16% Similarity=0.243 Sum_probs=97.9 Q ss_pred HHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHH-HHHHHHHCCCCEEEEEEE Q ss_conf 9999997225974598976897899978899772999433058988999760812058999-999997248984899999 Q gi|254780903|r 255 ICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICE-IARSVTGKHVKQLDQIFH 333 (766) Q Consensus 255 ~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~-~a~~~~~~~~~~~~~e~R 333 (766) +||+.+++++++|+|.+|.++..++||+++++||||++++..+ ..+..++||+|..... ...+.+..+......|++ T Consensus 1 er~r~i~e~~~~~i~~~D~~g~i~~~N~a~~~l~G~~~~el~G--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 78 (112) T pfam00989 1 EDLRAILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIG--KSLLDLIPEEDDAEVAELLRQALLQGEESRGGEVS 78 (112) T ss_pred CHHHHHHHHHHHHEEEECCCCCEEEECCCCCCCCCCCHHHHCC--CCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEE T ss_conf 9799999834246199989999999916533225863667437--52012457534399999999999819976887765 Q ss_pred EECCCCCEEEEEEEEEEEEECCCEEEEEEEEECC Q ss_conf 8869898899889999998379606999998446 Q gi|254780903|r 334 MRHASGADIWIQVRAQMMRTISGGMNIIGIAMDL 367 (766) Q Consensus 334 i~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DI 367 (766) ++++||+.+|+..++.|++|++|.++++|+++|| T Consensus 79 ~~~~dG~~~~~~~~~~pi~d~~g~~g~v~i~rDI 112 (112) T pfam00989 79 FRVPDGRPRHVEVRASPVRDAGGEIGFLGVLRDI 112 (112) T ss_pred EECCCCCEEEEEEEEEEEECCCCCEEEEEEEECC T ss_conf 2879998999999999999199999999999849 No 60 >COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms] Probab=99.59 E-value=4.9e-12 Score=104.82 Aligned_cols=188 Identities=24% Similarity=0.359 Sum_probs=141.5 Q ss_pred HHHHHHHHHHHHHHHHHHHH----HHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHH Q ss_conf 98767522247899999999----86034688993899999999999999999997776778887419830120331699 Q gi|254780903|r 548 AKMSHELRTPLNAILGFSEV----IKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLI 623 (766) Q Consensus 548 a~isHelrtPL~aI~g~~el----l~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~ 623 (766) +.|+-||---+.-.+.|..+ |+... .+...++..+.+..|.++.+-.=.=+..+|.=.| .+ .++=+|. T Consensus 374 atIAReLHDSiAQsLS~LkiQvt~L~~~~-~~~~~e~s~~~i~~~r~~Ln~~Y~QLRELLtTFR-----lt--L~e~~L~ 445 (574) T COG3850 374 ATIARELHDSIAQSLSFLKIQVTLLKTAI-PEELPEKAREIIAQIRQGLNDAYRQLRELLTTFR-----LT--LQEAELP 445 (574) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HH--CCCCCHH T ss_conf 99999877899999999999999998427-8656687999999999999999999999999878-----76--0567638 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEEEEC-CCCEEEEC-HHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECC Q ss_conf 99999999999999847958999808-99789986-89999999998865653468988899999997998999999788 Q gi|254780903|r 624 PIINEGIRLIGSSAQSKNIKIEKKIP-SELFFNAD-KRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTG 701 (766) Q Consensus 624 ~~i~~~~~~~~~~~~~k~i~l~~~~~-~~l~v~~D-~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G 701 (766) ..+++++..++.+. +++++.++. ++..+.++ ...+-||+-.=++||+|++ .+.+|.|++...++.+.++|+||| T Consensus 446 ~AL~~~~~~f~~qt---g~~~~l~~qlp~~~lpa~qqvHlLqIvREAlsNa~KHa-~As~i~V~~~~~~g~~~~~VeDnG 521 (574) T COG3850 446 PALEQMLAEFSNQT---GITVTLDYQLPPRALPAHQQVHLLQIVREALSNAIKHA-QASEIKVTVSQNDGQVTLTVEDNG 521 (574) T ss_pred HHHHHHHHHHHHCC---CCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHC-CCCEEEEEEEECCCEEEEEEEECC T ss_conf 99999999997346---97388725689889987899999999999999899852-667589999865964899994288 Q ss_pred CCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf 9789778543046505314675567788761689999999962986999979899529999735 Q gi|254780903|r 702 IGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 702 ~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) +|||+.. ...| --||.|-+.=.+..+|.+++++.+|+||.+.+++| T Consensus 522 ~Gi~~~~-----------------e~~g-HyGL~IM~ERA~~L~~~L~i~~~~~gGT~V~ltf~ 567 (574) T COG3850 522 VGIDEAA-----------------EPSG-HYGLNIMRERAQRLGGQLRIRRREGGGTEVSLTFP 567 (574) T ss_pred CCCCCCC-----------------CCCC-CCCHHHHHHHHHHHCCEEEEEECCCCCEEEEEEEC T ss_conf 3779756-----------------7788-72369999999972575777645999817999956 No 61 >PRK13558 bacterio-opsin activator; Provisional Probab=99.57 E-value=2e-13 Score=114.85 Aligned_cols=138 Identities=14% Similarity=0.164 Sum_probs=111.0 Q ss_pred HHHHHHHHCCCCCEEEE---ECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCC-CHHHHHHHHHHHHCCCCEEEE Q ss_conf 99999972259745989---76897899978899772999433058988999760812-058999999997248984899 Q gi|254780903|r 255 ICVETALSRGRCGLWNF---NFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYD-NKKICEIARSVTGKHVKQLDQ 330 (766) Q Consensus 255 ~rl~~al~~a~~GiWd~---D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPd-Dr~~~~~a~~~~~~~~~~~~~ 330 (766) ++.+.+++.+|+|+--. +++++.+|+|+++.+|.||++++..+....|+.. |+ +.+.+...+. ....+..+.. T Consensus 158 ~~~~ra~d~a~v~i~~a~~~~p~~~i~~~n~a~~eitGy~~~e~~g~~~r~lq~--~~~~~e~~~~~~~-ai~~~~~~~v 234 (674) T PRK13558 158 RLKEQALDEAPIGITISDATDPEEPIIYINDSFEDITGYSPDEVVGANHRFLQG--PKTNEDRVAEFWT-AITEDHDTQV 234 (674) T ss_pred HHHHHHHHCCCCEEEEECCCCCCCCEEEEEHHHHHHCCCCHHHHCCCCHHHHCC--CCCCHHHHHHHHH-HHHCCCCCEE T ss_conf 988756640572599846888887438860123653189817864974012106--8888057999999-9755886334 Q ss_pred EEEEECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHE Q ss_conf 9998869898899889999998379606-9999984461799999999999999999998544551 Q gi|254780903|r 331 IFHMRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEAL 395 (766) Q Consensus 331 e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i 395 (766) ++|..++||..+|....+.|++|++|.+ +|+|+.+||||||++|++|+.....|..+++.+..-| T Consensus 235 e~r~~r~dG~~~w~~~~i~pi~Dedg~v~~~Vg~~~DiteRke~E~~L~~~~~~l~~~L~RiN~LI 300 (674) T PRK13558 235 VLRNYRRDGSLFWNQVDISPIYDEDGTVSHYVGFQMDVSERMAAQQELQGERQSLDRLLDRVNGLM 300 (674) T ss_pred EEEEECCCCCEEEEECCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 533314688378741245521057885899986214477889999999986889999999999999 No 62 >PRK03660 anti-sigma F factor; Provisional Probab=99.50 E-value=3.6e-13 Score=113.00 Aligned_cols=96 Identities=24% Similarity=0.382 Sum_probs=80.1 Q ss_pred HHHHHHHHHHHHHHHHHCC---CCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCC-CCCCCHH Q ss_conf 8999999999886565346---89888999999979989999997889789778543046505314675567-7887616 Q gi|254780903|r 658 KRIIKKILFPILSNSIKFT---NNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQS-IGGFGLG 733 (766) Q Consensus 658 ~~~l~QVl~NLi~NAik~t---~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~-~~GtGLG 733 (766) -..++-++...+.|||+|. .++|.|.|.+...++.+.|.|+|+|+||++ .++.|+||+. ++. ..++||| T Consensus 37 ~~di~lAV~EA~tNaI~H~y~~~~~g~I~I~~~~~~~~l~I~V~D~G~Gid~--~~~~~~P~~t-----~~~~~~~~GlG 109 (146) T PRK03660 37 LTEIKTAVSEAVTNAIIHGYENNPDGIVYIEAEIEDEELEITVRDEGKGIED--VEEARQPLFT-----TKPELERSGMG 109 (146) T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCEEEEEEEECCCCCCC--HHHCCCCCCC-----CCCCCCCCCHH T ss_conf 9999999999999999860367999279999998099999999973789473--7664388776-----68766756405 Q ss_pred HHHHHHHHHHCCCEEEEEEECCCCEEEEEEC Q ss_conf 8999999996298699997989952999973 Q gi|254780903|r 734 LAISDALTNLHGGRLKIISQEGKGTIVTICM 764 (766) Q Consensus 734 LaI~k~iVe~hgG~I~v~S~~g~Gttf~i~L 764 (766) |+++++++ ++++++|.+|+|||++++- T Consensus 110 l~li~~Lm----DeVei~s~~g~GTtV~m~k 136 (146) T PRK03660 110 FTFMESFM----DEVEVESEPGKGTTIRMKK 136 (146) T ss_pred HHHHHHHC----CEEEEEECCCCCEEEEEEE T ss_conf 89999838----8699995599978999999 No 63 >COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms] Probab=99.50 E-value=5.5e-11 Score=97.24 Aligned_cols=168 Identities=24% Similarity=0.267 Sum_probs=118.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC-EEEECHHHHHHH Q ss_conf 7675222478999999998603468899389999999999999999999777677888741983012-033169999999 Q gi|254780903|r 550 MSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISID-KQNADLIPIINE 628 (766) Q Consensus 550 isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~-~~~~dl~~~i~~ 628 (766) =+|=|=|-||+|. .++.. ++|+.++.+ -++=.|-|-. ++-+ .+.++|.+=++. T Consensus 372 nPHFLFNaLNTIs---a~IR~------npdkAreLi--------------l~LS~yfR~N---L~~~~~~~v~L~kEl~~ 425 (557) T COG3275 372 NPHFLFNALNTIS---AVIRR------NPDKARELI--------------LYLSTYFRYN---LENNTQEIVTLSKELEH 425 (557) T ss_pred CHHHHHHHHHHHH---HHHCC------CHHHHHHHH--------------HHHHHHHHHH---HCCCCCEEEEHHHHHHH T ss_conf 7088888888778---88617------827999999--------------9999999987---34787158655999999 Q ss_pred HHHHHHH---HHHHCCCEEEEEECCCCE-EEECHHHHHHHHHHHHHHHHHCC----CCCCEEEEEEEEECCEEEEEEEEC Q ss_conf 9999999---998479589998089978-99868999999999886565346----898889999999799899999978 Q gi|254780903|r 629 GIRLIGS---SAQSKNIKIEKKIPSELF-FNADKRIIKKILFPILSNSIKFT----NNNGKMMIRTSKIGQCVIITIADT 700 (766) Q Consensus 629 ~~~~~~~---~~~~k~i~l~~~~~~~l~-v~~D~~~l~QVl~NLi~NAik~t----~~~g~I~i~~~~~~~~v~i~V~D~ 700 (766) +-.-++. +.++ .+++.+++++.+. +.. |.- ++.-|+.||+|+. .++|+|+|++...+..+.+.|+|| T Consensus 426 v~AYl~IEkARF~~-rL~v~i~id~~l~~~~i-P~f---ilQPLVENAIKHG~~~~~~~g~V~I~V~~~d~~l~i~VeDn 500 (557) T COG3275 426 VNAYLSIEKARFGD-RLDVVIDIDEELRQVQI-PSF---ILQPLVENAIKHGISQLKDTGRVTISVEKEDADLRIEVEDN 500 (557) T ss_pred HHHHHHHHHHHCCC-CEEEEEECCHHHHHCCC-CHH---HHHHHHHHHHHHCCCCHHCCCCEEEEEEEECCEEEEEEECC T ss_conf 99999899864488-44799946877753368-616---67788888887536444208817999998088389999418 Q ss_pred CCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCC---EEEEEEECCCCEEEEEECCC Q ss_conf 8978977854304650531467556778876168999999996298---69999798995299997359 Q gi|254780903|r 701 GIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGG---RLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 701 G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG---~I~v~S~~g~Gttf~i~LP~ 766 (766) |-||+|+ +..|+|+||+.+++=++.|=| -+.++|.+-+||+++|+||- T Consensus 501 g~li~p~------------------~~~g~giGL~nv~~RLk~lyG~~~gl~i~~~~q~gTri~f~lp~ 551 (557) T COG3275 501 GGLIQPD------------------EEDGTGIGLANVHKRLKLLYGDDEGLHIESLEQAGTRIIFRLPL 551 (557) T ss_pred CCCCCCC------------------CCCCCCHHHHHHHHHHHHHCCCCCCCEEEECCCCCCEEEEEECC T ss_conf 8776997------------------78898717889999999864821031378616778689999447 No 64 >pfam08448 PAS_4 PAS fold. The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. Probab=99.44 E-value=1.2e-12 Score=109.34 Aligned_cols=109 Identities=18% Similarity=0.188 Sum_probs=91.9 Q ss_pred HHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCC Q ss_conf 72259745989768978999788997729994330589889997608120589999999972489848999998869898 Q gi|254780903|r 261 LSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHASGA 340 (766) Q Consensus 261 l~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~ 340 (766) ++++++++|..|.+++.++||+++++++|+++++..+. .+.++++|++.+.+....+.+..++.....+ ...+++|. T Consensus 1 ~d~~p~~i~~~D~~g~i~~~N~a~~~~~g~~~~~~iG~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~g~ 77 (110) T pfam08448 1 LDSLPDALAVLDPDGRVRYANAAAAELFGLPPEELLGK--TLAELLPPEDAARLERALRRALEGEEPIDFL-EELLLNGE 77 (110) T ss_pred CCCCCHHHEEECCCCCEEEEEHHHHHHCCCCHHHHCCC--CCHHCCCCHHHHHHHHHHHHHHCCCCEEEEE-EEECCCCC T ss_conf 99857353799499969999347466709898998095--1210068034566777899997389558866-43025885 Q ss_pred EEEEEEEEEEEEECCCEE-EEEEEEECCCHHHH Q ss_conf 899889999998379606-99999844617999 Q gi|254780903|r 341 DIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYH 372 (766) Q Consensus 341 ~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ 372 (766) .+|+..+..|++|++|++ +++++++||||||+ T Consensus 78 ~~~~~~~~~pi~d~~G~~~g~v~~~~DITerKq 110 (110) T pfam08448 78 ERHYELRLTPLRDPDGEVIGVLVISRDITERRR 110 (110) T ss_pred CEEEEEEEEEEECCCCCEEEEEEEEEECCHHCC T ss_conf 200043576689899999999999998833129 No 65 >TIGR00229 sensory_box PAS domain S-box; InterPro: IPR000014 PAS domains are involved in many signalling proteins where they are used as a signal sensor domain. PAS domains appear in archaea, bacteria and eukaryotes. Several PAS-domain proteins are known to detect their signal by way of an associated cofactor. Haeme, flavin, and a 4-hydroxycinnamyl chromophore are used in different proteins. The PAS domain was named after three proteins that it occurs in: Per- period circadian protein Arnt- Ah receptor nuclear translocator protein Sim- single-minded protein. PAS domains are often associated with PAC domains IPR001610 from INTERPRO. It appears that these domains are directly linked, and that together they form the conserved 3D PAS fold. The division between the PAS and PAC domains is caused by major differences in sequences in the region connecting these two motifs . In human PAS kinase, this region has been shown to be very flexible, and adopts different conformations depending on the bound ligand . Probably the most surprising identification of a PAS domain was that in EAG-like K^+-channels . ; GO: 0004871 signal transducer activity, 0007165 signal transduction. Probab=99.42 E-value=2.7e-12 Score=106.71 Aligned_cols=125 Identities=16% Similarity=0.304 Sum_probs=107.1 Q ss_pred HHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHH-HHHHH-CCCCEE Q ss_conf 9999999999722597459897689789997889977299943305898899976081205899999-99972-489848 Q gi|254780903|r 251 LEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIA-RSVTG-KHVKQL 328 (766) Q Consensus 251 ~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a-~~~~~-~~~~~~ 328 (766) ++++++++.+++.+++++|..|..+..++||+++++++||++++..+. . +..++||++.+..... ..... +....+ T Consensus 1 ~~~e~~~~~~~e~~~~~~~~~d~~g~~~~~n~~~~~~~Gy~~~e~~g~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (130) T TIGR00229 1 RESEERYRAIFESSPDAIIVVDLEGNILYVNPAFEELFGYSAEELLGR-N-VLELIPEEDREELRERIERLLETGEREPV 78 (130) T ss_pred CCHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHHCCCHHHHCCC-C-CCCCCCCCHHHHHHHHHHHHHCCCCCCCC T ss_conf 915899999862245426887057615750325777617875895387-5-10002764146899999876326754320 Q ss_pred EEEEEE--ECCCCCEEEEEEEEEEEEECCCE-EEEEEEEECCCHHHHHHHHH Q ss_conf 999998--86989889988999999837960-69999984461799999999 Q gi|254780903|r 329 DQIFHM--RHASGADIWIQVRAQMMRTISGG-MNIIGIAMDLTEKYHLEKRY 377 (766) Q Consensus 329 ~~e~Ri--~~~DG~~~Wi~~r~~~i~d~~G~-~~~iGi~~DITErK~ae~~l 377 (766) ..++++ +++||..+|+.....++++..|. +.+++++.|||++|++++++ T Consensus 79 ~~~~~~~~~~~~G~~~~~~~~~~~~~~~~g~~~~~~~~~~d~t~~~~~~~~l 130 (130) T TIGR00229 79 SEERRVLGRRKDGSEIWVEVSVSPIRDSNGGVLGVLGIVRDITERKEAEEAL 130 (130) T ss_pred EEEEEEEEECCCCCEEEEEEECCCCCCCCCCEEEEEEEEECHHHHHHHHHCC T ss_conf 1234666443789688998730100001377036776652114789988509 No 66 >COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms] Probab=99.42 E-value=3.6e-10 Score=91.34 Aligned_cols=189 Identities=18% Similarity=0.282 Sum_probs=138.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHH Q ss_conf 99999876752224789999999986034688993899999999999999999997776778887419830120331699 Q gi|254780903|r 544 SEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLI 623 (766) Q Consensus 544 ~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~ 623 (766) .+.+--.-.|+-+..+||.--+.+.++- .+ ..+.++..+.|+.-+.+.-.-+..+|.-=| .-....+.+. T Consensus 304 k~vARELHDeIGQnITAIr~Qa~ivkR~--~~--~~q~kqaas~Ie~LslrI~~svrqLL~rLR------P~~LDdL~l~ 373 (497) T COG3851 304 KDVARELHDEIGQNITAIRTQAGIVKRA--AD--NAQVKQAASLIEQLSLRIYDSVRQLLGRLR------PRQLDDLTLE 373 (497) T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHC--CC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHCC------CCCCCCCCHH T ss_conf 9999998998646078999999999865--79--777887889999999899999999987159------7322225789 Q ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCC-CEE-EECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECC Q ss_conf 9999999999999984795899980899-789-98689999999998865653468988899999997998999999788 Q gi|254780903|r 624 PIINEGIRLIGSSAQSKNIKIEKKIPSE-LFF-NADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTG 701 (766) Q Consensus 624 ~~i~~~~~~~~~~~~~k~i~l~~~~~~~-l~v-~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G 701 (766) +.+...++.++ ..+++|....+...+ .+. ..-+.-|..+...+++|-+|+. +...|+|..+..+..++++|+||| T Consensus 374 qai~~l~~Em~--~~ergihcq~~~~~n~~~ldet~rvTLyRl~QE~LNNI~KHA-~AS~V~i~l~~~~e~l~Lei~DdG 450 (497) T COG3851 374 QAIRSLLREME--LEERGIHCQLDWRINETALDETQRVTLYRLCQELLNNICKHA-DASAVTIQLWQQDERLMLEIEDDG 450 (497) T ss_pred HHHHHHHHHHH--HHHCCEEEEEECCCCCCCCCCCEEEEHHHHHHHHHHHHHHCC-CCCEEEEEEEECCCEEEEEEECCC T ss_conf 99999999852--544562798705667667885437728999999999997500-226279999517818999982588 Q ss_pred CCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 97897785430465053146755677887616899999999629869999798995299997359 Q gi|254780903|r 702 IGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 702 ~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) .|+|+. .+=+|+||-=-+.=|...||+...+|. .||.+.|.||+ T Consensus 451 ~Gl~~~-------------------~~v~G~Gl~GmrERVsaLGG~l~lssq--~GTrviVnLPq 494 (497) T COG3851 451 SGLPPG-------------------SGVQGFGLTGMRERVSALGGTLTLSSQ--HGTRVIVNLPQ 494 (497) T ss_pred CCCCCC-------------------CCCCCCCCCHHHHHHHHHCCCEEEEEC--CCCEEEEECCH T ss_conf 678999-------------------985675720089999974782588743--68589994603 No 67 >PRK11091 aerobic respiration control sensor protein ArcB; Provisional Probab=99.34 E-value=1.2e-11 Score=102.03 Aligned_cols=146 Identities=9% Similarity=0.026 Sum_probs=93.7 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHH---HHHCCCCCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHHHHCCCCCCCHH Q ss_conf 00112235548999999999885---310178978999969980899714205551997889607610432054433202 Q gi|254780903|r 99 NNNIKFDLASQKKAESMLGQLLA---KTRFLSESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELSRSRSRSKTVQMS 175 (766) Q Consensus 99 ~~~~~~d~~~~~~ae~~L~~~~~---~~~~~~~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~ 175 (766) ......++.+|+++|..|.+... ..-...++.|+..|.+|+++-+|++++.++|++..+++|.++.+++.++.+... T Consensus 133 ~~~l~~e~~~r~~~q~~l~~~~~llRs~~D~~Pdli~~rd~~g~f~gCNrafe~~~G~~e~eliG~t~~d~~~~e~a~~~ 212 (779) T PRK11091 133 FEDLKNEIKEREETQIELEQQSSLLRSFLDASPDLVYYRNEDGEFSGCNRAMELLTGKSEKQLVGLTPKDVYSPEAAEKV 212 (779) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCHHHHHHHCCCHHHHCCCCHHHHCCHHHHHHH T ss_conf 99999999998999999999889999885028751578779876534109999880999899849983552799889999 Q ss_pred HH----HCCCCHHEEEEEECCC-CCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 32----1153100001233157-782599997423210123455655456878878999999998888999999999999 Q gi|254780903|r 176 EA----SLDQQPYHVLSVNLPH-NSGSILIINSRVPLLRLWREEVTLEVVFFSIISALLLFILFSYYRQAKKNKENDTIL 250 (766) Q Consensus 176 ~~----~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~a~~~dit~~r~ae~~l 250 (766) .. .+..........++.- ++...++.....|.++. .+..+++++ +.+|||+||++++++ T Consensus 213 ~~~D~~v~~~~~~~~~e~w~~~~dG~~~~~e~~k~P~~d~--------------~g~~~G~~g--~~rDITerk~aeeaL 276 (779) T PRK11091 213 IETDEKVFRHNVSLTYEQWLDYPDGRKACFELRKVPFYDR--------------VGKRHGLMG--FGRDITERKRYQDAL 276 (779) T ss_pred HHHHHHHHHCCCCCEEEEEEECCCCCEEEEEEEEEEEECC--------------CCCEEEEEE--EEECCHHHHHHHHHH T ss_conf 9738999864798211134664898667899864013538--------------997887863--001601778999999 Q ss_pred HHH-HHHHHHH Q ss_conf 999-9999999 Q gi|254780903|r 251 LEA-NICVETA 260 (766) Q Consensus 251 ~es-e~rl~~a 260 (766) ++. +..-+.+ T Consensus 277 E~AsraKS~FL 287 (779) T PRK11091 277 EKASRDKTTFI 287 (779) T ss_pred HHHHHHHHHHH T ss_conf 99999999999 No 68 >PRK10060 RNase II stability modulator; Provisional Probab=99.31 E-value=8.5e-10 Score=88.66 Aligned_cols=155 Identities=14% Similarity=0.139 Sum_probs=107.4 Q ss_pred HHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCC-HHHHHHHHHHHHCCCCEEEEEEEEE Q ss_conf 999972259745989768978999788997729994330589889997608120-5899999999724898489999988 Q gi|254780903|r 257 VETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDN-KKICEIARSVTGKHVKQLDQIFHMR 335 (766) Q Consensus 257 l~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdD-r~~~~~a~~~~~~~~~~~~~e~Ri~ 335 (766) -...++.++.|+...|..++.+.+|+++.+|.||+.+|..+.. .+.-+..+.+ ...+...+ ....++..|.-|...+ T Consensus 113 Aa~Vfe~a~egI~ItD~~~~I~~vN~af~~iTGy~~~eviG~n-~~~l~~s~~~~~~~~~~~~-~~l~~~~~w~gE~w~r 190 (663) T PRK10060 113 AEQVVSEANSVIVILDSRGNIQRFNRLCEEYTGLKEHDVIGQS-VFKLFMSRREAAASRRNIR-GFFRSGNAYEVERWIK 190 (663) T ss_pred HHHHHHCCCCEEEEECCCCCEEEEHHHHHHHHCCCHHHHCCCC-HHHHHCCCCCCHHHHHHHH-HHHHCCCCEEEEEEEE T ss_conf 9999854586499997999988786797788689999918998-7998357554488999999-9997498189888874 Q ss_pred CCCCCEEEEEEEEEEEEECCCEE--EEEEEEECCCHHHHHHHHHHHH---------------HHHHHHHHHHH---HHHE Q ss_conf 69898899889999998379606--9999984461799999999999---------------99999999854---4551 Q gi|254780903|r 336 HASGADIWIQVRAQMMRTISGGM--NIIGIAMDLTEKYHLEKRYAEA---------------DQRLSKAIECT---SEAL 395 (766) Q Consensus 336 ~~DG~~~Wi~~r~~~i~d~~G~~--~~iGi~~DITErK~ae~~l~es---------------e~rlr~~ie~~---~~~i 395 (766) ++||...+ ..+...+.+..|+. +++++..||||||++|++|+.. .+++..++... ..++ T Consensus 191 ~k~G~~~~-~~~~~~v~~~~~~~~~~~i~~f~DITe~k~~ee~l~~lA~~D~LTgLPNR~~~~~rL~~ai~~~~~~~~Av 269 (663) T PRK10060 191 TRKGQRLF-LFRNKFVHSGSGKNEIFLICSGTDITEERRAQERLRILANTDSITGLPNRNAIQELIDHAIAQADNNQVGI 269 (663) T ss_pred ECCCCEEE-EEEEEEEECCCCCEEEEEEEEEEECCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEE T ss_conf 05896457-98878776078970699999888804899999999987367742386628999999999997176993899 Q ss_pred EEECCCCEEEEECHHHHHHH Q ss_conf 58834996997017898883 Q gi|254780903|r 396 VLWDKNDRLVMCNANYQKAY 415 (766) Q Consensus 396 ~~~D~~g~i~~~N~~~~~~~ 415 (766) +..|.|+ +..+|..+-.-. T Consensus 270 lfiDLD~-FK~INDt~GH~~ 288 (663) T PRK10060 270 VYLDLDN-FKKVNDAYGHMF 288 (663) T ss_pred EEEECCC-CCHHHHCCCCHH T ss_conf 9997867-683446627088 No 69 >pfam00512 HisKA His Kinase A (phosphoacceptor) domain. dimerization and phosphoacceptor domain of histidine kinases. Probab=99.29 E-value=8.8e-12 Score=102.98 Aligned_cols=66 Identities=47% Similarity=0.718 Sum_probs=59.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 9999999876752224789999999986034688993899999999999999999997776778887419 Q gi|254780903|r 542 TKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETE 611 (766) Q Consensus 542 ~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag 611 (766) +|++|++++||||||||++|.|++++++.... +++..++++.|.++++++.++|+++|+|||+++| T Consensus 1 ~k~~f~~~isHelrtPL~~i~~~~~~l~~~~~----~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~e~g 66 (66) T pfam00512 1 AKSEFLANLSHELRTPLTAIRGYLELLLDTEL----SEEQREYLETILRSAERLLRLINDLLDLSRIEAG 66 (66) T ss_pred CHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCC----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 98899998729871848888748899887232----7999999997689999999999999999865489 No 70 >COG4564 Signal transduction histidine kinase [Signal transduction mechanisms] Probab=99.27 E-value=6.6e-08 Score=74.99 Aligned_cols=181 Identities=17% Similarity=0.240 Sum_probs=127.2 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEC---HHHHHHHHH Q ss_conf 22247899999999860346889938999999999999999999977767788874198301203316---999999999 Q gi|254780903|r 554 LRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNAD---LIPIINEGI 630 (766) Q Consensus 554 lrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~d---l~~~i~~~~ 630 (766) +.+.|-+..-..|+.......|.+- .-..|.+++..|..-|+.+.-.|- .+.+..+| |...++..+ T Consensus 262 IsQ~LVs~k~~lela~~ql~~p~~~-----a~~aieKaa~aL~~Ai~EVRRiSH------~LRP~~LDDLGL~aALe~L~ 330 (459) T COG4564 262 ISQNLVSVKCALELAARQLNPPKGG-----AHPAIEKAADALNGAIKEVRRISH------DLRPRALDDLGLTAALEALL 330 (459) T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCC-----CCHHHHHHHHHHHHHHHHHHHHCC------CCCHHHHHHHHHHHHHHHHH T ss_conf 7777799999999996267799888-----750156678999989999998502------35745554430799999999 Q ss_pred HHHHHHHHHCCCEEEEEECCCC-E-EEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHH Q ss_conf 9999999847958999808997-8-9986899999999988656534689888999999979989999997889789778 Q gi|254780903|r 631 RLIGSSAQSKNIKIEKKIPSEL-F-FNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTGIGIPKSA 708 (766) Q Consensus 631 ~~~~~~~~~k~i~l~~~~~~~l-~-v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~ 708 (766) +.++ ...++.++.+.+... . .-.-...|..|...-++|--+++ ...+|+|.....++.|.+.|+|||.|.|-+. T Consensus 331 ~~f~---~~tg~~itle~~~~p~~l~~e~~talyRv~QEaltNIErHa-~Atrv~ill~~~~d~vql~vrDnG~GF~~~~ 406 (459) T COG4564 331 EDFK---ERTGIEITLEFDTQPGKLKPEVATALYRVVQEALTNIERHA-GATRVTILLQQMGDMVQLMVRDNGVGFSVKE 406 (459) T ss_pred HHHH---HCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHC-CCEEEEEEECCCCCCEEEEEECCCCCCCCHH T ss_conf 9864---36683799970578644782788899999999987788606-8717999861577606999823899856165 Q ss_pred HHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECCC Q ss_conf 5430465053146755677887616899999999629869999798995299997359 Q gi|254780903|r 709 LEKIGQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMPQ 766 (766) Q Consensus 709 ~~~iF~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP~ 766 (766) . ...-.||||---+.-++..||+..|+|.|. ||..++.||. T Consensus 407 ~----------------~~~~~GiGLRNMrERma~~GG~~~v~s~p~-GTel~v~Lp~ 447 (459) T COG4564 407 A----------------LQKRHGIGLRNMRERMAHFGGELEVESSPQ-GTELTVLLPL 447 (459) T ss_pred H----------------CCCCCCCCCCCHHHHHHHHCCEEEEEECCC-CCEEEEEECC T ss_conf 3----------------167556451009999997486589975698-7279998140 No 71 >KOG0787 consensus Probab=99.23 E-value=4.3e-09 Score=83.56 Aligned_cols=200 Identities=21% Similarity=0.290 Sum_probs=142.3 Q ss_pred HHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHCCCCC------CCEEEECHHHHHHHHHHHH Q ss_conf 9999999860346889938999999999999999999977767-78887419830------1203316999999999999 Q gi|254780903|r 561 ILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNIL-EMSKIETEKIS------IDKQNADLIPIINEGIRLI 633 (766) Q Consensus 561 I~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diL-d~srieag~~~------~~~~~~dl~~~i~~~~~~~ 633 (766) +.|..|.-.... +|...+..+.+++....+=--+.-|+|.-+ -|+ .|+-. .-...+++.++|.++.+.. T Consensus 154 A~Gl~E~~~~~~-dp~~~~~iqyFLdr~y~sRIsiRMLv~qh~~l~~---~~kp~~~~~iG~I~~~c~v~~vi~~a~e~a 229 (414) T KOG0787 154 AQGLIEYREKDG-DPVTEKNIQYFLDRFYMSRISIRMLVNQHLLLFA---SGKPDHPRHIGIIDPRCSVKKVIKDASENA 229 (414) T ss_pred HHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEC---CCCCCCCCEEEEECCCCCHHHHHHHHHHHH T ss_conf 988999998528-8406778999999999988999999865552002---799987664433179999999999999999 Q ss_pred HHHHHHCC---CEEEEEECCCCEEE-ECHHHHHHHHHHHHHHHHHCCC----CCC----EEEEEEEEECCEEEEEEEECC Q ss_conf 99998479---58999808997899-8689999999998865653468----988----899999997998999999788 Q gi|254780903|r 634 GSSAQSKN---IKIEKKIPSELFFN-ADKRIIKKILFPILSNSIKFTN----NNG----KMMIRTSKIGQCVIITIADTG 701 (766) Q Consensus 634 ~~~~~~k~---i~l~~~~~~~l~v~-~D~~~l~QVl~NLi~NAik~t~----~~g----~I~i~~~~~~~~v~i~V~D~G 701 (766) +-....+- =++..+....+.-. +=|..|..++..|+.||..+|- ..+ .|.|.+-..++.+.|.|+|-| T Consensus 230 r~lCd~yy~~sPel~i~~~~a~~~~vyvPshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gdeDl~ikISDrG 309 (414) T KOG0787 230 RFLCDQYYLNSPELIIEGHNALSFTVYVPSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDEDLLIKISDRG 309 (414) T ss_pred HHHHHHHCCCCCEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCEEEEEECCC T ss_conf 99999863379706753766676760456189999999999999999997444888899859998638863589971378 Q ss_pred CCCCHHHHHHHCCCEEEC------CCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEEC Q ss_conf 978977854304650531------467556778876168999999996298699997989952999973 Q gi|254780903|r 702 IGIPKSALEKIGQPFEPL------HNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICM 764 (766) Q Consensus 702 ~GI~~e~~~~iF~pF~q~------~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~L 764 (766) -|||.+..+++|.--+-. ++..+..-.|.|.||.|||-..+-.||.+.+.|=.|-||-..|+| T Consensus 310 GGV~~~~~drlf~Y~ySTa~~~~~d~~~~~plaGfG~GLPisrlYa~yf~Gdl~L~SleG~GTD~yI~L 378 (414) T KOG0787 310 GGVPHRDIDRLFSYMYSTAPAPSSDNNRTAPLAGFGFGLPISRLYARYFGGDLKLQSLEGIGTDVYIYL 378 (414) T ss_pred CCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCEEEEEEECCCCCEEEEE T ss_conf 996805789998661256889877887767666555687379999999488705785203544268995 No 72 >PRK13557 histidine kinase; Provisional Probab=99.13 E-value=1.4e-08 Score=79.90 Aligned_cols=114 Identities=13% Similarity=0.132 Sum_probs=70.1 Q ss_pred CCCCEEEEEC---CCCCEEEECCCHHHHCCCCHHHHCCCCHHHHCCCCCCCHH-----HHHCCCCHHEEEEEECCCCCCE Q ss_conf 7897899996---9980899714205551997889607610432054433202-----3211531000012331577825 Q gi|254780903|r 126 LSESFILLAQ---PNELVFASSTKNSHYIGKKIGEIIPELSRSRSRSKTVQMS-----EASLDQQPYHVLSVNLPHNSGS 197 (766) Q Consensus 126 ~~~~~i~i~d---~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~-----~~~l~~~~~~~~~~~~~~~~~~ 197 (766) .+.+.++++| +||+|+++|++++.++||+.+|++|+.......++..... .....+..........+.++.. T Consensus 36 ~~~~~~~~~d~~~~Dg~I~~vN~af~~~tGYs~eEviGk~~~~L~~p~~~~~~~~~~~~~i~~~~~~~~E~~n~rKDG~~ 115 (538) T PRK13557 36 TTRMPMIVTDPRQPDNPIVFANRAFLEMTGYAAEEIIGNNCRFLQGPETDRATVADVRDAIAERREIATEILNYRKDGSS 115 (538) T ss_pred HCCCCEEEECCCCCCCEEEEECHHHHHHHCCCHHHHCCCCHHHCCCCCCCHHHHHHHHHHHHCCCCEEEEEEEECCCCCE T ss_conf 07973899358999987999839999987959999869998770898899999999999997599368799998799999 Q ss_pred EEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999742321012345565545687887899999999888899999999999999999 Q gi|254780903|r 198 ILIINSRVPLLRLWREEVTLEVVFFSIISALLLFILFSYYRQAKKNKENDTILLEANI 255 (766) Q Consensus 198 ~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~a~~~dit~~r~ae~~l~ese~ 255 (766) .|+.....+..+.-...+ ..++..+|||++|++|++|+++++ T Consensus 116 ~w~~~~i~pv~d~~G~~~----------------~~~~i~~DITerk~~E~~L~qaqk 157 (538) T PRK13557 116 FWNALFVSPVYNDAGDLV----------------YFFGSQLDVSRRRDAEDALRQAQK 157 (538) T ss_pred EEEEEEEEEEECCCCCEE----------------EEEEEEECHHHHHHHHHHHHHHHH T ss_conf 999989999998999999----------------999988344499999999999999 No 73 >TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL; InterPro: IPR014285 NifL modulates the activity of the nitrogen fixation positive regulator protein NifA, acting as a negative regulator by binding NifA. NifA and NifL are encoded by adjacent genes.. Probab=99.12 E-value=4.3e-10 Score=90.78 Aligned_cols=256 Identities=10% Similarity=0.062 Sum_probs=174.8 Q ss_pred CCCCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHHHHCCCCCCCHHHHHCCCCHHEEEEEECCCCCCEEEEEEECC Q ss_conf 78978999969980899714205551997889607610432054433202321153100001233157782599997423 Q gi|254780903|r 126 LSESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELSRSRSRSKTVQMSEASLDQQPYHVLSVNLPHNSGSILIINSRV 205 (766) Q Consensus 126 ~~~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 205 (766) .++-+|-|+|-..+|+|+|.++..++||..+|++|+......-...+....-.|-+. -....+|......+.+ T Consensus 12 qAp~AISITDlKANILyaN~AF~~iTGY~~eE~iGkNES~LSn~tTPpeVYQaLWg~-------la~qkPW~G~LlNRrk 84 (496) T TIGR02938 12 QAPVAISITDLKANILYANDAFSEITGYAKEEVIGKNESVLSNRTTPPEVYQALWGS-------LAEQKPWAGKLLNRRK 84 (496) T ss_pred HCCCEEEECCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH-------HHHCCCCCCCEECCCC T ss_conf 288036431014569999566321558656211125540126858871799999988-------6305898651000011 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHH Q ss_conf 21012345565545687887899999999888899999999999999999999997225974598976897899978899 Q gi|254780903|r 206 PLLRLWREEVTLEVVFFSIISALLLFILFSYYRQAKKNKENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMY 285 (766) Q Consensus 206 ~~~~~~r~~~~~~~~~~~~~~~~~~~~~~a~~~dit~~r~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~ 285 (766) ....+.=..+.. ++.+.+|...- .++.|||+|+..+=++..+.-..-+++.++++|...--.|..++.+-=|..++ T Consensus 85 Dg~lYLAeLtva--PvlneaGeT~h--flGMHRd~tElh~Leq~V~nQ~l~iE~VV~aaPva~vllD~~gRv~LdN~~yk 160 (496) T TIGR02938 85 DGELYLAELTVA--PVLNEAGETTH--FLGMHRDVTELHRLEQRVANQKLLIEAVVDAAPVAAVLLDEQGRVVLDNLEYK 160 (496) T ss_pred CCCHHHHHHCCC--CHHCCCCCCEE--EECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCEEECCHHHH T ss_conf 653002220202--00014688158--73254543578899888976467899998786541000569986881677688 Q ss_pred HHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCE-EEEEEEEECCCCC-EEEEEEEEEEEEECCCEE----- Q ss_conf 772999433058988999760812058999999997248984-8999998869898-899889999998379606----- Q gi|254780903|r 286 EIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQ-LDQIFHMRHASGA-DIWIQVRAQMMRTISGGM----- 358 (766) Q Consensus 286 ~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~-~~~e~Ri~~~DG~-~~Wi~~r~~~i~d~~G~~----- 358 (766) .+-- +-.... +-..+.+++-|+-++.+...+ ..+.. -..|.|+-...|. -||+.+.|..++-+++.. T Consensus 161 ~La~-DL~v~e-pa~~~l~lLre~~~e~~~~~~----~q~~afsn~E~rfD~ggGR~~RWlSc~g~~i~~e~~~ad~fF~ 234 (496) T TIGR02938 161 KLAS-DLKVEE-PAELLLKLLREELAEDLEELE----NQEKAFSNKELRFDRGGGRSARWLSCAGRVIRIEEDSADSFFA 234 (496) T ss_pred HHHH-HCCCCC-CHHHHHHHHHHHHHHHHHHHC----CCCCEECCCEEEEECCCCCCCCCEEECCCEEEEECCCCCEEEC T ss_conf 7874-214144-179999985087652786520----2110101540354168878850102023235311364011561 Q ss_pred -----EEEEEEECCCHHHHHHHHHH--------HHHHHHHHHHHHHHHHEEEE Q ss_conf -----99999844617999999999--------99999999998544551588 Q gi|254780903|r 359 -----NIIGIAMDLTEKYHLEKRYA--------EADQRLSKAIECTSEALVLW 398 (766) Q Consensus 359 -----~~iGi~~DITErK~ae~~l~--------ese~rlr~~ie~~~~~i~~~ 398 (766) ++.=|+-|||++|+-+++.| ..|+++..+=|+...+|+-. T Consensus 235 ~~e~~yLLLti~Dis~lr~~Qe~~Rl~aLqAlmAEEE~le~~rEtl~AAIhrl 287 (496) T TIGR02938 235 AAEKRYLLLTIDDISELRKKQERARLSALQALMAEEEKLEALRETLSAAIHRL 287 (496) T ss_pred CCCCCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 68998305663647888999999999998999989988888766688888885 No 74 >smart00388 HisKA His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases. Probab=99.07 E-value=7.5e-10 Score=89.05 Aligned_cols=65 Identities=48% Similarity=0.764 Sum_probs=57.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC Q ss_conf 999999876752224789999999986034688993899999999999999999997776778887419 Q gi|254780903|r 543 KSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETE 611 (766) Q Consensus 543 k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag 611 (766) +++|++++|||+||||++|.+++++++.. +.. ++..++++.|..+++++..+|+++|+|||++.| T Consensus 2 ~~~~~~~isHelrtPL~~i~~~~~~l~~~---~~~-~~~~~~~~~i~~~~~~~~~li~~il~~sr~~~~ 66 (66) T smart00388 2 KREFLANLSHELRTPLTAIRGYLELLEDT---ELS-EEQREYLETILRSAERLLRLINDLLDLSRIEAG 66 (66) T ss_pred HHHHHHHHHHHHHCHHHHHHHHHHHHHCC---CCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC T ss_conf 88999997698708188899998865302---799-999999998899999999999999999873699 No 75 >cd00082 HisKA Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-autophosphorylation by the catalytic domain of the histidine kinase. They subsequently transfer the phosphoryl group to the Asp acceptor residue of a response regulator protein. Two-component signalling systems, consisting of a histidine protein kinase that senses a signal input and a response regulator that mediates the output, are ancient and evolutionarily conserved signaling mechanisms in prokaryotes and eukaryotes. Probab=98.98 E-value=1.4e-09 Score=87.18 Aligned_cols=64 Identities=42% Similarity=0.713 Sum_probs=57.8 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999987675222478999999998603468899389999999999999999999777677888 Q gi|254780903|r 541 KTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSK 607 (766) Q Consensus 541 ~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~sr 607 (766) .++++|++++||||||||++|.|+++++...... ++...++++.|.++++++..+|+++|+++| T Consensus 2 ~~~~~~~a~iaHelrtPL~~i~~~~~~l~~~~~~---~~~~~~~~~~i~~~~~~l~~lv~~~l~~~~ 65 (65) T cd00082 2 QAKGEFLANVSHELRTPLTAIRGALELLEEELLD---DEEQREYLERIREEAERLLRLINDLLDLSR 65 (65) T ss_pred CHHHHHHHHHHHHHCCHHHHHHCCHHHHHHCCCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 3599999987298704888886014898856688---699999999999999999999999998609 No 76 >cd00130 PAS PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction. Probab=98.96 E-value=2.3e-08 Score=78.29 Aligned_cols=101 Identities=16% Similarity=0.274 Sum_probs=87.6 Q ss_pred CCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCCEEEE Q ss_conf 97459897689789997889977299943305898899976081205899999999724898489999988698988998 Q gi|254780903|r 265 RCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHASGADIWI 344 (766) Q Consensus 265 ~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi 344 (766) +.|+|.+|.++..++||+++++++|+++++.... .+.+++||+|...+.............+..++++.+++|+++|+ T Consensus 2 ~~~i~~~d~~g~i~~~N~~~~~~~g~~~~e~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 79 (103) T cd00130 2 PDGVIVLDLDGRILYANPAAEQLLGYSPEELIGK--SLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVIWV 79 (103) T ss_pred CEEEEEECCCCCEEEECHHHHHHHCCCHHHHCCC--CHHHEECCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCEEEE T ss_conf 6289999798989999889999879887891699--65424552116999999999997499852489999999999999 Q ss_pred EEEEEEEEECCCEE-EEEEEEECC Q ss_conf 89999998379606-999998446 Q gi|254780903|r 345 QVRAQMMRTISGGM-NIIGIAMDL 367 (766) Q Consensus 345 ~~r~~~i~d~~G~~-~~iGi~~DI 367 (766) .....+..+.+|.. .++++..|| T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~di 103 (103) T cd00130 80 LVSLTPIRDEGGEVIGLLGVVRDI 103 (103) T ss_pred EEEEEEEECCCCCEEEEEEEEECC T ss_conf 999999999998999999999829 No 77 >PRK10060 RNase II stability modulator; Provisional Probab=98.94 E-value=1.2e-07 Score=73.09 Aligned_cols=150 Identities=13% Similarity=0.152 Sum_probs=81.3 Q ss_pred CCCCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCH-HHHCCCCCCCH----HHHHCCCCHHEEEEEECCCCCCEEEE Q ss_conf 78978999969980899714205551997889607610-43205443320----23211531000012331577825999 Q gi|254780903|r 126 LSESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELS-RSRSRSKTVQM----SEASLDQQPYHVLSVNLPHNSGSILI 200 (766) Q Consensus 126 ~~~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~-~~~~~~~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~~~ 200 (766) .+...|+|+|++|+|+.+||+++.+.||+.+|++|+.+ ..+..+..... +...+.......-..+.+...|.... T Consensus 119 ~a~egI~ItD~~~~I~~vN~af~~iTGy~~~eviG~n~~~l~~s~~~~~~~~~~~~~~l~~~~~w~gE~w~r~k~G~~~~ 198 (663) T PRK10060 119 EANSVIVILDSRGNIQRFNRLCEEYTGLKEHDVIGQSVFKLFMSRREAAASRRNIRGFFRSGNAYEVERWIKTRKGQRLF 198 (663) T ss_pred CCCCEEEEECCCCCEEEEHHHHHHHHCCCHHHHCCCCHHHHHCCCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCEEE T ss_conf 45864999979999887867977886899999189987998357554488999999999749818988887405896457 Q ss_pred EEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHCC- Q ss_conf 9742321012345565545687887899999999888899999999999999---------------999999997225- Q gi|254780903|r 201 INSRVPLLRLWREEVTLEVVFFSIISALLLFILFSYYRQAKKNKENDTILLE---------------ANICVETALSRG- 264 (766) Q Consensus 201 ~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~a~~~dit~~r~ae~~l~e---------------se~rl~~al~~a- 264 (766) .|+... +..+.+... ...++.+.|||++|++|+.++. -.+|++.++... T Consensus 199 ---------~~~~~~-----v~~~~~~~~-~~~i~~f~DITe~k~~ee~l~~lA~~D~LTgLPNR~~~~~rL~~ai~~~~ 263 (663) T PRK10060 199 ---------LFRNKF-----VHSGSGKNE-IFLICSGTDITEERRAQERLRILANTDSITGLPNRNAIQELIDHAIAQAD 263 (663) T ss_pred ---------EEEEEE-----EECCCCCEE-EEEEEEEEECCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHCC T ss_conf ---------988787-----760789706-99999888804899999999987367742386628999999999997176 Q ss_pred --CCCEEEEECCCCEEEECHHHHHHCCCCHHHC Q ss_conf --9745989768978999788997729994330 Q gi|254780903|r 265 --RCGLWNFNFDNKKFHLSRSMYEIMGIPYENK 295 (766) Q Consensus 265 --~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~ 295 (766) ..++.-.|+++-+ .+|+. +|..-.+. T Consensus 264 ~~~~AvlfiDLD~FK-~INDt----~GH~~GD~ 291 (663) T PRK10060 264 NNQVGIVYLDLDNFK-KVNDA----YGHMFGDQ 291 (663) T ss_pred CCCEEEEEEECCCCC-HHHHC----CCCHHHHH T ss_conf 993899999786768-34466----27088999 No 78 >pfam00989 PAS PAS fold. The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. Probab=98.90 E-value=7.4e-09 Score=81.86 Aligned_cols=93 Identities=16% Similarity=0.286 Sum_probs=66.9 Q ss_pred HHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHH---HHCCCCCCCEEEEEE Q ss_conf 99999998544551588349969970178988839997894289717881652013789998---521124564058999 Q gi|254780903|r 382 QRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYR---TSDPERSQDMSKEIK 458 (766) Q Consensus 382 ~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~e~~ 458 (766) +||+.++|++|++++.+|.+|+++++|+++++++||+.+++++....+.+++.......... +.........+.... T Consensus 1 er~r~i~e~~~~~i~~~D~~g~i~~~N~a~~~l~G~~~~el~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 80 (112) T pfam00989 1 EDLRAILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLIPEEDDAEVAELLRQALLQGEESRGGEVSFR 80 (112) T ss_pred CHHHHHHHHHHHHEEEECCCCCEEEECCCCCCCCCCCHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEEEE T ss_conf 97999998342461999899999999165332258636674375201245753439999999999981997688776528 Q ss_pred ECCC--EEEEECCEECCC Q ss_conf 1696--287422324569 Q gi|254780903|r 459 LADS--RWLQINEWCTHD 474 (766) Q Consensus 459 ~~dg--~~~~i~~~~~~d 474 (766) .+|| .|+.++..+..| T Consensus 81 ~~dG~~~~~~~~~~pi~d 98 (112) T pfam00989 81 VPDGRPRHVEVRASPVRD 98 (112) T ss_pred CCCCCEEEEEEEEEEEEC T ss_conf 799989999999999991 No 79 >COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair] Probab=98.86 E-value=2.5e-08 Score=78.08 Aligned_cols=29 Identities=14% Similarity=0.155 Sum_probs=13.3 Q ss_pred HHHHHHHHHH--HHHHHHHHHHHHHHHHHHH Q ss_conf 8999999999--9999999999777677888 Q gi|254780903|r 579 VKYYEYAQDI--HYSGQHLLNMINNILEMSK 607 (766) Q Consensus 579 e~~~~~l~~I--~~~~~~l~~lI~diLd~sr 607 (766) +.+.+.+..+ ..-..++.+++.+-+++.- T Consensus 498 ~~i~~~~~~~~~~~~ve~~~~~~~~~~~~v~ 528 (538) T COG1389 498 EDIREKLAKLMEKKIVERLVKLVAEGLELVT 528 (538) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC T ss_conf 1355899999878899999876412443341 No 80 >PRK11006 phoR phosphate regulon sensor protein; Provisional Probab=98.79 E-value=7.8e-07 Score=67.25 Aligned_cols=125 Identities=12% Similarity=0.108 Sum_probs=84.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHH-CCCCHHHHH Q ss_conf 8899999999999999999999997225974598976897899978899772999433058988999760-812058999 Q gi|254780903|r 237 YRQAKKNKENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLI-HYDNKKICE 315 (766) Q Consensus 237 ~~dit~~r~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~v-HPdDr~~~~ 315 (766) ++...+.++....|...-+||+.++++.|+|+.-.|.++...+||++..+||||..++..+. ....++ +|+ ...+. T Consensus 80 ~~~~~~~~~~~~~l~~~~~rfr~~~ealpDavvv~d~~g~I~~~N~aAe~l~G~~~~~~~G~--~I~~Lir~p~-f~~~~ 156 (431) T PRK11006 80 HQMQLRNKKRRRELGNLIKRFRSGAESLPDAVVLTTEEGNIFWCNGLAQQLLGLRWPEDNGQ--NILNLLRYPE-FTQYL 156 (431) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCEEEEHHHHHHHHCCCCHHHCCC--CHHHHHCCHH-HHHHH T ss_conf 99999879999999999999999996489769999899958835699999838998332699--7789808845-99998 Q ss_pred HHHHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEEEECCCHHHHHHHHHH Q ss_conf 999997248984899999886989889988999999837960699999844617999999999 Q gi|254780903|r 316 IARSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTISGGMNIIGIAMDLTEKYHLEKRYA 378 (766) Q Consensus 316 ~a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DITErK~ae~~l~ 378 (766) ... .++....+...+|. .+..+..|+. +|. .+.+++|||++|++|+..+ T Consensus 157 ------~~~--~~~~p~~~~~~~~~--~le~~~~p~~--~~~--~llv~rDiT~~~~lE~~R~ 205 (431) T PRK11006 157 ------KTR--DFSRPLNLVLNNGR--HLEIRVMPYT--EGQ--LLMVARDVTQMHQLEGARR 205 (431) T ss_pred ------HCC--CCCCCEEEECCCCC--EEEEEEEECC--CCC--EEEEEEECCHHHHHHHHHH T ss_conf ------626--65576255438874--7999997737--995--8999985659999999999 No 81 >COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms] Probab=98.78 E-value=1.1e-06 Score=66.21 Aligned_cols=135 Identities=21% Similarity=0.343 Sum_probs=104.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHH-HHHHHHCCCCHHHHHH Q ss_conf 899999999999999999999997225974598976897899978899772999433058988-9997608120589999 Q gi|254780903|r 238 RQAKKNKENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFR-AIARLIHYDNKKICEI 316 (766) Q Consensus 238 ~dit~~r~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~-~~~~~vHPdDr~~~~~ 316 (766) .+++..+..+..++..+.+++.+++..++++|.+|.++..++||+.+.+++|+++.+...... .+....+++.. .... T Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 173 (232) T COG2202 95 RDITERKRAEEALRESEERLRALLEASPDGIWVLDEDGRILYANPAAEELLGYSPEEELGRGLSDLIHPEDEERR-ELEL 173 (232) T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCEEEECHHHHHHHCCCHHHHHCCCHHHHCCCCCHHHH-HHHH T ss_conf 115778889999875799999999568967999909998999758999986979899827760654034630466-7899 Q ss_pred HHHHHHCCCCEEEEEEEEECCCCCE-EEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHH Q ss_conf 9999724898489999988698988-99889999998379606-9999984461799999 Q gi|254780903|r 317 ARSVTGKHVKQLDQIFHMRHASGAD-IWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLE 374 (766) Q Consensus 317 a~~~~~~~~~~~~~e~Ri~~~DG~~-~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae 374 (766) ...........+..++++..++|.. .|......+... .|.+ .+.+...|+|++++++ T Consensus 174 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~d~~~~~~~~ 232 (232) T COG2202 174 ARALAEGRGGPLEIEYRVRRKDGERVRWILSRISPVRD-DGEIVGVVGIARDITERKQAE 232 (232) T ss_pred HHHHHCCCCCCEEEEEEEEECCCCEEEEEEEEECCCCC-CCCEEEEEEEEECHHHHHHHC T ss_conf 99975245764058999994389799999987313246-885778999987346899749 No 82 >PRK04184 DNA topoisomerase VI subunit B; Validated Probab=98.68 E-value=1.8e-07 Score=71.90 Aligned_cols=57 Identities=11% Similarity=0.092 Sum_probs=23.9 Q ss_pred HHHHHH-HHHHHHHHHHHHCCCCCEEEEECCCC--CEEEECCCHHHHCCCCHHHHCCCCHH Q ss_conf 548999-99999988531017897899996998--08997142055519978896076104 Q gi|254780903|r 107 ASQKKA-ESMLGQLLAKTRFLSESFILLAQPNE--LVFASSTKNSHYIGKKIGEIIPELSR 164 (766) Q Consensus 107 ~~~~~a-e~~L~~~~~~~~~~~~~~i~i~d~~g--~i~~~n~~~~~~~G~~~~~~~~~~~~ 164 (766) +..+++ ++.|..-+.. +++++..|-+..-+. -.+.+-..++.+....+..++|+... T Consensus 38 ttvkE~VdNsLDAcEe~-gILPdI~v~I~~~~~~~y~v~VeDNGpGI~~~~ip~vFGk~L~ 97 (533) T PRK04184 38 TTVKELVDNSLDACEEA-GILPDIKVEIRRVGEDYYRVIVEDNGPGIPPEQIPKVFGKLLY 97 (533) T ss_pred HHHHHHHHCCHHHHHHH-CCCCCEEEEEEECCCCEEEEEEECCCCCCCHHHHHHHHHHHHC T ss_conf 99999973317668860-8898659999983785699999448899886788899988850 No 83 >PRK11360 sensory histidine kinase AtoS; Provisional Probab=98.64 E-value=1e-06 Score=66.41 Aligned_cols=130 Identities=15% Similarity=0.151 Sum_probs=99.4 Q ss_pred HHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCE Q ss_conf 99999999999997225974598976897899978899772999433058988999760812058999999997248984 Q gi|254780903|r 248 TILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQ 327 (766) Q Consensus 248 ~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~ 327 (766) ..|++.+...+.++++..+|+.-.|.++..+.||+++.+||||++++..+. .+..++++.+ ...........+... T Consensus 254 ~~L~~~~~~~e~IL~sm~dGVIaiD~~G~I~~~N~~A~~llg~~~~e~ig~--~~~~l~~~~~--~~~~~~~~l~~~~~~ 329 (607) T PRK11360 254 QALREARTLNELIIENAADGIIAIDRQGDITTMNPAAEVITGYQRHELVGQ--PYSMLFDNTQ--FYSPVLDTLEHGTEH 329 (607) T ss_pred HHHHHHHHHHHHHHHHHCCEEEEECCCCCEEEECHHHHHHHCCCHHHHCCC--CHHHHCCCHH--HHHHHHHHHHCCCCC T ss_conf 999999998999986104669999799949998389999858797898596--7999579576--779999998537742 Q ss_pred EEEEEEEECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHHHH Q ss_conf 8999998869898899889999998379606-999998446179999999999999 Q gi|254780903|r 328 LDQIFHMRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEADQ 382 (766) Q Consensus 328 ~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~ese~ 382 (766) .+.+..+.++|| ..++.....++.+.+|.. +.+.+.+||||+|++|+++++++. T Consensus 330 ~~~~~~~~~~~~-~~~l~~~~s~~~~~~g~~~G~v~~~~DiTe~~~le~~l~~~er 384 (607) T PRK11360 330 VALEISFPGRDR-TIELSVTTSRLHDTHGEMIGAVVIFSDLTARKRLQRRMARAER 384 (607) T ss_pred CCEEEEECCCCC-EEEEEEEEEEEECCCCCEEEEEEEEEECCHHHHHHHHHHHHHH T ss_conf 124899605883-4999999853576898588999999957789999999999999 No 84 >PRK13559 hypothetical protein; Provisional Probab=98.62 E-value=1.5e-05 Score=58.00 Aligned_cols=125 Identities=19% Similarity=0.231 Sum_probs=77.1 Q ss_pred EECCCE-EEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCC---CEEEEECHHHHHHHCCCHHHHCCCCC Q ss_conf 837960-69999984461799999999999999999998544551588349---96997017898883999789428971 Q gi|254780903|r 352 RTISGG-MNIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEALVLWDKN---DRLVMCNANYQKAYGLPDHVLVPGNA 427 (766) Q Consensus 352 ~d~~G~-~~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i~~~D~~---g~i~~~N~~~~~~~g~~~~~~~~~~~ 427 (766) ++.+++ .+.++.-.|.+ ..+...|..+++....++++.|+. +-|+|+|++|++++||+.+++++..+ T Consensus 23 ~~~~~~~~~~~~~~~~~~---------~~~~~~~~~a~~~~r~a~~itd~~~~d~PIiy~N~aF~~lTGYs~~EviGrnc 93 (363) T PRK13559 23 FDADRKELAAIHDPRDFR---------GASGRLFEQAMEQTRMAMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNC 93 (363) T ss_pred CCCCCCCEEEECCCCCCC---------CCCCHHHHHHHHHCCCCEEEECCCCCCCCEEEECHHHHHHHCCCHHHHCCCCC T ss_conf 054446012343631124---------54314799999747743899689999998899887999763989799849992 Q ss_pred HHHHCCCHHHHHHHHHHHCC-CCCCCEEEEEE--ECCC--EEEE--ECCEECCCCCEE---EEEEEEEH Q ss_conf 78816520137899985211-24564058999--1696--2874--223245699789---99886201 Q gi|254780903|r 428 RSIIQDAQTRPIIEYRTSDP-ERSQDMSKEIK--LADS--RWLQ--INEWCTHDGGTI---SVGTDITL 486 (766) Q Consensus 428 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~e~~--~~dg--~~~~--i~~~~~~dg~~v---~v~~~i~~ 486 (766) . .+..++..+.....+... ........+.. .+|| .|.. +++.+..+|..+ .+-.|+|+ T Consensus 94 r-fLqGp~t~~~~v~~ir~ai~~~~~~~~el~nyrKDGs~fwn~l~isPV~D~~G~v~~fig~q~DvTd 161 (363) T PRK13559 94 R-FLQGAGTDPAAVAKIRAAIAAERVVVVELLNYRKDGSPFWNALHLGPIYDEDGKLLYFFGSQWDVTD 161 (363) T ss_pred H-HCCCCCCCHHHHHHHHHHHHCCCCEEEEEEEECCCCCEEEEEEEEEEEECCCCCEEEEEEEEEEECC T ss_conf 4-1089999989999999999839946999999826998247768988879899979999999985155 No 85 >pfam08448 PAS_4 PAS fold. The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. Probab=98.61 E-value=2e-07 Score=71.56 Aligned_cols=102 Identities=20% Similarity=0.298 Sum_probs=70.7 Q ss_pred HHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCCCCCEE-EEEEECCC--EE Q ss_conf 9854455158834996997017898883999789428971788165201378999852112456405-89991696--28 Q gi|254780903|r 388 IECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPERSQDMS-KEIKLADS--RW 464 (766) Q Consensus 388 ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~e~~~~dg--~~ 464 (766) +|++|++|++.|.+|++++||+++++++|++.+++++.++++.+.+...............+..... ......+| +| T Consensus 1 ~d~~p~~i~~~D~~g~i~~~N~a~~~~~g~~~~~~iG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 80 (110) T pfam08448 1 LDSLPDALAVLDPDGRVRYANAAAAELFGLPPEELLGKTLAELLPPEDAARLERALRRALEGEEPIDFLEELLLNGEERH 80 (110) T ss_pred CCCCCHHHEEECCCCCEEEEEHHHHHHCCCCHHHHCCCCCHHCCCCHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCEE T ss_conf 99857353799499969999347466709898998095121006803456677789999738955886643025885200 Q ss_pred EEECCEECCC--C---CEEEEEEEEEHHHC Q ss_conf 7422324569--9---78999886201000 Q gi|254780903|r 465 LQINEWCTHD--G---GTISVGTDITLLKH 489 (766) Q Consensus 465 ~~i~~~~~~d--g---~~v~v~~~i~~~~~ 489 (766) +.++..|..| | +++.+..|||+.|+ T Consensus 81 ~~~~~~pi~d~~G~~~g~v~~~~DITerKq 110 (110) T pfam08448 81 YELRLTPLRDPDGEVIGVLVISRDITERRR 110 (110) T ss_pred EEEEEEEEECCCCCEEEEEEEEEECCHHCC T ss_conf 043576689899999999999998833129 No 86 >PRK04069 serine-protein kinase RsbW; Provisional Probab=98.59 E-value=1.4e-06 Score=65.54 Aligned_cols=97 Identities=19% Similarity=0.294 Sum_probs=74.7 Q ss_pred HHHHHHHHHHHHHHHHCC---CCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHH Q ss_conf 999999999886565346---89888999999979989999997889789778543046505314675567788761689 Q gi|254780903|r 659 RIIKKILFPILSNSIKFT---NNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLA 735 (766) Q Consensus 659 ~~l~QVl~NLi~NAik~t---~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLa 735 (766) ..++-++.--+.|||+|. .+.+.|.|.....++.+.|.|+|+|.|++++....-..|+...+. -......|+||+ T Consensus 41 ~di~LAV~EA~tNaI~Hay~~~~~~~i~i~~~~~~~~l~i~V~D~G~gfD~~~~~~~~~P~~~~~~--l~~~~~gGlGl~ 118 (158) T PRK04069 41 EDLKIAVSEACTNAVQHAYKEEEVGEINIRFEIYEDRLEIVVADNGDSFDYETTKSKIGPYDPSEP--IDDLREGGLGLF 118 (158) T ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHCCCCCCCCCCCCC--HHHCCCCCCHHH T ss_conf 889999999999999975156999479999999599999999991748795674324588888886--111367874099 Q ss_pred HHHHHHHHCCCEEEEEEECCCCEEEEEE Q ss_conf 9999999629869999798995299997 Q gi|254780903|r 736 ISDALTNLHGGRLKIISQEGKGTIVTIC 763 (766) Q Consensus 736 I~k~iVe~hgG~I~v~S~~g~Gttf~i~ 763 (766) +.+++++ .+.++| +.||+++.+ T Consensus 119 lI~~lmD----eV~~~~--~~Gt~v~m~ 140 (158) T PRK04069 119 LIETLMD----DVTVYK--DSGVTVSMT 140 (158) T ss_pred HHHHHCC----EEEEEE--CCCEEEEEE T ss_conf 9997525----589990--898299999 No 87 >TIGR01052 top6b DNA topoisomerase VI, B subunit; InterPro: IPR005734 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . This entry represents subunit B of topoisomerase VI, a type IIB topoisomerase found predominantly in archaea, but also in a few eukayotes, such as the plant Arabidopsis thaliana . This enzyme assembles as a heterotetramer, consisting of two A subunits required for DNA cleavage and two B subunits required for ATP hydrolysis. The B subunit is structurally similar to the ATPase domain of type IIA topoisomerases, but the A subunit is distinct, and instead shares homology with the Spo11 protein that mediates double-strand DNA breaks during meiotic recombination in eukaryotes . Therefore, though related to type IIA topoisomerases, topoisomerase VI may have a distinctive mechanism of action. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0006265 DNA topological change, 0006268 DNA unwinding during replication, 0005694 chromosome. Probab=98.57 E-value=2.4e-07 Score=70.99 Aligned_cols=35 Identities=9% Similarity=0.127 Sum_probs=22.7 Q ss_pred HHHHHHHHHHHH-HHEEEECCCCEEEEECHHHHHHH Q ss_conf 999999998544-55158834996997017898883 Q gi|254780903|r 381 DQRLSKAIECTS-EALVLWDKNDRLVMCNANYQKAY 415 (766) Q Consensus 381 e~rlr~~ie~~~-~~i~~~D~~g~i~~~N~~~~~~~ 415 (766) -+.||..-=..| .-|++.|++|.+..++....++= T Consensus 196 yEYlrrt~~anPHA~I~l~~PdG~~~~F~R~~~~iP 231 (662) T TIGR01052 196 YEYLRRTAVANPHAKIVLVEPDGEIYVFPRSTDEIP 231 (662) T ss_pred HHHHHHHHHHCCCCEEEEECCCCCEEECCCCCCCCC T ss_conf 589899875186408998869863775366312376 No 88 >PRK11073 glnL nitrogen regulation protein NR(II); Provisional Probab=98.55 E-value=3.5e-06 Score=62.52 Aligned_cols=118 Identities=11% Similarity=0.077 Sum_probs=80.8 Q ss_pred HHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECC Q ss_conf 99972259745989768978999788997729994330589889997608120589999999972489848999998869 Q gi|254780903|r 258 ETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHA 337 (766) Q Consensus 258 ~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~ 337 (766) ..++++.+.|+.-.|.++..++||+++.++|||++++..+. .+..+.++.+.+. ....+.........+.+..+. . T Consensus 10 ~~Il~~~~d~Iiv~D~~g~I~~~N~aa~~l~g~~~~~~~G~--~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~-~ 85 (348) T PRK11073 10 GQILNSLINSILLLDDNLAIHYANPAAQQLLAQSSRKLFGT--PLPELLSYFSLNI-ELMQESLQAGQGFTDNEVTLV-I 85 (348) T ss_pred HHHHHHHHHHHEEECCCCCEEEECHHHHHHHCCCHHHHCCC--CHHHHHCCCCCCH-HHHHHHHHCCCCCCCCEEEEE-E T ss_conf 99998660796499897970128399999978598998599--6899846653018-999999973897413239999-8 Q ss_pred CCCEEEEEEEEEEEEECCCEEEEEEEEECCCHHHHHHHHHHHHHHH Q ss_conf 8988998899999983796069999984461799999999999999 Q gi|254780903|r 338 SGADIWIQVRAQMMRTISGGMNIIGIAMDLTEKYHLEKRYAEADQR 383 (766) Q Consensus 338 DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DITErK~ae~~l~ese~r 383 (766) ||..+|+..+..|+.+ + .++....|||++|++++++.+.... T Consensus 86 ~~~~~~~~~~~~~~~~--~--~~l~~~~di~~~k~l~~e~~~~~~~ 127 (348) T PRK11073 86 DGRSHILSLTAQRLPE--G--MILLEMAPMDNQRRLSQEQLQHAQQ 127 (348) T ss_pred CCEEEEEEEEEEECCC--C--EEEEEEEECHHHHHHHHHHHHHHHH T ss_conf 9969999999998258--6--8999999627999999999999999 No 89 >COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms] Probab=98.52 E-value=1.8e-05 Score=57.39 Aligned_cols=136 Identities=15% Similarity=0.182 Sum_probs=88.5 Q ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHH-CCCCHHHHH Q ss_conf 899999999999-999999999997225974598976897899978899772999433058988999760-812058999 Q gi|254780903|r 238 RQAKKNKENDTI-LLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLI-HYDNKKICE 315 (766) Q Consensus 238 ~dit~~r~ae~~-l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~v-HPdDr~~~~ 315 (766) .++++....-+. ++...++|+.+++....|+...|-.+..++||.++..++|+++++.... ...+++ -++|-.. T Consensus 99 ~~~~e~~~~~~~~l~~~~~~l~~il~~~~~~l~vvD~~G~~i~~N~~~~~~~gl~~e~~~gk--~~~~v~~~~~~s~~-- 174 (560) T COG3829 99 LDISEALELIEENLRQLRQRLEAILDSIDDGLLVVDEDGIIIYYNKAYAKLLGLSPEEVLGK--HLLDVVSAGEDSTL-- 174 (560) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCEEEECHHHHHHHCCCHHHHCCC--CHHHHHHCCCCCEE-- T ss_conf 51498999999999999999999986256745998699968998477898839998998197--18988723677410-- Q ss_pred HHHHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCE-EEEEEEEECCCHHHHHHHHHHHHHHHHH Q ss_conf 999997248984899999886989889988999999837960-6999998446179999999999999999 Q gi|254780903|r 316 IARSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTISGG-MNIIGIAMDLTEKYHLEKRYAEADQRLS 385 (766) Q Consensus 316 ~a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~-~~~iGi~~DITErK~ae~~l~ese~rlr 385 (766) .+ ....+++....+-.. .|... +..+ .|++ .+|. .+.+++..|+++-+.+..++.+++..++ T Consensus 175 --l~-vl~~~kp~~~~~~~~--~~~~~-i~~~-~pv~-~~g~l~G~v~~~~~~~~l~~l~~~~~~~~~~~~ 237 (560) T COG3829 175 --LE-VLRTGKPIRDVVQTY--NGNKI-IVNV-APVY-ADGQLIGVVGISKDVSELERLTRELEESEGLLR 237 (560) T ss_pred --HH-HHHCCCCCEEEEEEE--CCCCE-EEEE-CCEE-CCCCEEEEEEEECCHHHHHHHHHHHHHHHHHHC T ss_conf --11-341588512035530--48734-6764-4473-178278899752024888999999998753220 No 90 >TIGR02040 PpsR-CrtJ transcriptional regulator PpsR; InterPro: IPR011785 This entry represents the transcriptional regulator PpsR which is strictly associated with photosynthetic proteobacteria and found in photosynthetic operons. PpsR has been reported to be a repressor . These proteins contain a Helix-Turn-Helix motif of the "fis" type.. Probab=98.51 E-value=7.4e-06 Score=60.20 Aligned_cols=275 Identities=14% Similarity=0.161 Sum_probs=162.1 Q ss_pred CCCEEEEECCCCCEEEE--CC------CHHHHCCCCHHHHCCCCHHHHCC-----CCCCC-------HHHHHCC---CCH Q ss_conf 89789999699808997--14------20555199788960761043205-----44332-------0232115---310 Q gi|254780903|r 127 SESFILLAQPNELVFAS--ST------KNSHYIGKKIGEIIPELSRSRSR-----SKTVQ-------MSEASLD---QQP 183 (766) Q Consensus 127 ~~~~i~i~d~~g~i~~~--n~------~~~~~~G~~~~~~~~~~~~~~~~-----~~~~~-------~~~~~l~---~~~ 183 (766) +.|+-++.|.+|.|..+ ++ ...+..|++..|++-+-..++.. +...+ ......+ ..| T Consensus 5 ~~Dv~L~~d~~Gvvre~~~~~~~~s~~~~~~W~G~~w~ei~~~es~~k~~~~l~~a~~~g~~a~r~~~~~~~~P~~~ElP 84 (453) T TIGR02040 5 AADVTLLLDAEGVVREVALSNDELSAEALSEWLGRRWEEIVTEESKEKVEALLSEAKRTGVGAVRVELNRFVLPSDLELP 84 (453) T ss_pred CCCCEEEECCCCCEEEEECCCCCCCHHHHCCCCCCCHHHHCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCCC T ss_conf 47703555178707764428855241413024588444413577899999999714688885777766541179997244 Q ss_pred HEEEEEECCC---CCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHH Q ss_conf 0001233157---78259999742321012345565545687887899999999888899999999----9999999999 Q gi|254780903|r 184 YHVLSVNLPH---NSGSILIINSRVPLLRLWREEVTLEVVFFSIISALLLFILFSYYRQAKKNKEN----DTILLEANIC 256 (766) Q Consensus 184 ~~~~~~~~~~---~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~a~~~dit~~r~a----e~~l~ese~r 256 (766) -.+....++. ....+..+-+. -|....+ -.+.-.+++| --.+|+.|.| T Consensus 85 ~~F~~~~L~~sdGk~~~vLa~Grd------Lr~vA~l-------------------qq~lv~AQ~AmErDYW~lR~~EtR 139 (453) T TIGR02040 85 MEFVLVRLGASDGKDEGVLALGRD------LRAVAEL-------------------QQRLVEAQQAMERDYWKLREMETR 139 (453) T ss_pred EEEEEECCCCCCCCCCCEEEECCC------CHHHHHH-------------------HHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 034676167878888735888465------2478999-------------------999999987888879998667544 Q ss_pred HHHHHHCCCCCEEEEECCCCEEE-ECHHHHHHCCCCHH--HCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEE Q ss_conf 99997225974598976897899-97889977299943--3058988999760812058999999997248984899999 Q gi|254780903|r 257 VETALSRGRCGLWNFNFDNKKFH-LSRSMYEIMGIPYE--NKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFH 333 (766) Q Consensus 257 l~~al~~a~~GiWd~D~~~~~i~-ws~~~~~llG~~~~--e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~R 333 (766) ||..++.+++++--.|..++++. .|+..-.|||-... +.+.+ ..+..-+..-+++.+..........+.. .+.+ T Consensus 140 YR~ll~~s~davllv~~st~rileaN~~A~~lLg~~~~~rd~LvG-~~~~~e~~~~~~~~l~~~l~~~~atg~A--~~~~ 216 (453) T TIGR02040 140 YRLLLEVSSDAVLLVDVSTGRILEANSAAAALLGAEGQRRDSLVG-REFPQELEEREREELELLLREVRATGKA--AEVR 216 (453) T ss_pred HHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHCCCCCCCHHHHC-CHHHCCCCCCCHHHHHHHHHHHHHCCCC--CCCE T ss_conf 433541148867998536534778679999985026775012311-1343146645436899999864301577--8717 Q ss_pred EECCCCCEEEEEEEEEEEEECCCEEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHH Q ss_conf 88698988998899999983796069999984461799999999999999999998544551588349969970178988 Q gi|254780903|r 334 MRHASGADIWIQVRAQMMRTISGGMNIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEALVLWDKNDRLVMCNANYQK 413 (766) Q Consensus 334 i~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~ 413 (766) +.-+++.-.|. ..++..+ .++.++|.-=.--|-+....+....+ ...|..++++.|++|+..|.+|++..+|.+|.+ T Consensus 217 i~l~~~~~~~~-v~~s~~r-~~~~~~fL~~l~~~~~~~~~~~~~s~-~sml~~l~~~~pDaiv~~D~~G~i~~aN~aFl~ 293 (453) T TIGR02040 217 ILLAESRKELL-VVVSLFR-QDSESLFLVRLSPAGASAAVGDVLSE-NSMLAKLVEEAPDAIVVVDADGRIKRANEAFLE 293 (453) T ss_pred EEECCCCCCEE-EEEEEEE-CCCCCHHHEEECCCCCCCCCCCCCCC-HHHHHHHHHHCCCEEEEECCCCCHHHHHHHHHH T ss_conf 87457887317-8877640-23664101130311244677776674-278999997429879997788732888899998 Q ss_pred HHCCCHHHHCCCCCHHHHC Q ss_conf 8399978942897178816 Q gi|254780903|r 414 AYGLPDHVLVPGNARSIIQ 432 (766) Q Consensus 414 ~~g~~~~~~~~~~~~~~~~ 432 (766) +...+..+-+.|...+... T Consensus 294 l~~~ss~~~v~G~~L~~wL 312 (453) T TIGR02040 294 LVEVSSKEAVRGRTLDRWL 312 (453) T ss_pred HHHHCCHHHHCCCCHHHHH T ss_conf 9871775453133235541 No 91 >TIGR01925 spIIAB anti-sigma F factor; InterPro: IPR010194 This entry describes the SpoIIAB anti-sigma F factor. Sigma F regulates spore development in B subtilis. SpoIIAB binds to sigma F, preventing formation of the transcription complex at the promoter . SpoIIAA (anti-anti-sigma F factor) binds to SpoIIAB to inhibit association with sigma F, however SpoIIAB can phosphorylate SpoIIAA, causing disassociation of the SpoIIAA/B complex . The SpoIIE phosphatase dephosphorylates SpoIIAA.; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0016989 sigma factor antagonist activity, 0006468 protein amino acid phosphorylation, 0030435 sporulation, 0045892 negative regulation of transcription DNA-dependent. Probab=98.44 E-value=1e-06 Score=66.38 Aligned_cols=94 Identities=24% Similarity=0.333 Sum_probs=79.7 Q ss_pred HHHHHHHHHHHHHHHHCCC---CCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCC-CCCHHH Q ss_conf 9999999998865653468---988899999997998999999788978977854304650531467556778-876168 Q gi|254780903|r 659 RIIKKILFPILSNSIKFTN---NNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIG-GFGLGL 734 (766) Q Consensus 659 ~~l~QVl~NLi~NAik~t~---~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~-GtGLGL 734 (766) .-++-++..=+.|||=|.- .+|.|.|++...++.+.++|.|+|+|| +.+++--+|.| |+|+.- -+|+|- T Consensus 38 ~diK~~VSEAVTNAIIHGYE~~~~~~V~I~~~~~d~~~~~~v~D~G~GI--~~lE~A~~PLy-----TskPeLERSGMGF 110 (137) T TIGR01925 38 TDIKTAVSEAVTNAIIHGYEENKEGVVIISATIEDDEVSITVRDEGIGI--ENLEEAREPLY-----TSKPELERSGMGF 110 (137) T ss_pred HHHHHHHHHHHHCCEEECEEECCCCEEEEEEEEECCEEEEEEEECCCCH--HHHHHHCCCCC-----CCCCCCCCCCCCE T ss_conf 5554333223212053145637997789999960548999986467572--33785326645-----7998722067860 Q ss_pred HHHHHHHHHCCCEEEEEEECCCCEEEEEE Q ss_conf 99999999629869999798995299997 Q gi|254780903|r 735 AISDALTNLHGGRLKIISQEGKGTIVTIC 763 (766) Q Consensus 735 aI~k~iVe~hgG~I~v~S~~g~Gttf~i~ 763 (766) .|- |..=-.|.|+|++++||+..+. T Consensus 111 TvM----E~FMD~~~v~S~~~~GT~I~~~ 135 (137) T TIGR01925 111 TVM----ESFMDDVEVDSEKEKGTKIILK 135 (137) T ss_pred EEE----CCCCCCEEEEECCCCCCEEEEE T ss_conf 121----1124512686238998468875 No 92 >KOG3558 consensus Probab=98.43 E-value=2.2e-06 Score=64.08 Aligned_cols=218 Identities=13% Similarity=0.144 Sum_probs=135.3 Q ss_pred CCCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHHHHCCCCCCCHHHHHCCCC---------------HHEEEEE-- Q ss_conf 89789999699808997142055519978896076104320544332023211531---------------0000123-- Q gi|254780903|r 127 SESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELSRSRSRSKTVQMSEASLDQQ---------------PYHVLSV-- 189 (766) Q Consensus 127 ~~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~---------------~~~~~~~-- 189 (766) -+.+|++++.+|.++|.+-....++|.+..|++|.+..++.++-....+...+... +.+.... T Consensus 128 LDGFVm~l~~dG~~lYiSEtVS~yLGLSQvELTG~SvFDfiHP~DheE~~eqL~l~~~~p~~~es~~~~teRsFflRMKs 207 (768) T KOG3558 128 LDGFVMALTQDGDFLYISETVSIYLGLSQVELTGSSVFDFIHPCDHEEIAEQLGLRLTTPEVKESTDTSTERSFFLRMKS 207 (768) T ss_pred CCCEEEEECCCCCEEEEECHHHHHHCCCCEEEECCHHHHCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEEEE T ss_conf 24438998167877998203576617110243054132125766789999874335688762324567543257998531 Q ss_pred ---------ECCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf ---------3157782599997423210123455655456878----878999999998888999999999999999999 Q gi|254780903|r 190 ---------NLPHNSGSILIINSRVPLLRLWREEVTLEVVFFS----IISALLLFILFSYYRQAKKNKENDTILLEANIC 256 (766) Q Consensus 190 ---------~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~----~~~~~~~~~~~a~~~dit~~r~ae~~l~ese~r 256 (766) .+...++.+.-..-.- ..+.. ..-+.++.. ..+.|++...+. +--. .|-+ T Consensus 208 TLT~RGRtlnlKSa~yKvlh~tgh~---rv~~~-~sh~s~~~g~~~Pl~~lV~~a~alp-~ps~------------~Eip 270 (768) T KOG3558 208 TLTKRGRTLNLKSAGYKVLHCTGHL---RVYNN-PSHNSPLCGYKEPLLGLVALAEALP-PPSY------------TEIP 270 (768) T ss_pred EECCCCCEEEEECCCEEEEEEEEEE---EECCC-CCCCCCCCCCCCCCHHEEEEECCCC-CCCC------------CCCC T ss_conf 5516773566501422689886345---40467-7777755576655210045411379-9865------------6666 Q ss_pred HHHHHHCCCCC--EEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEE Q ss_conf 99997225974--5989768978999788997729994330589889997608120589999999972489848999998 Q gi|254780903|r 257 VETALSRGRCG--LWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHM 334 (766) Q Consensus 257 l~~al~~a~~G--iWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri 334 (766) + .|+ +-..+++-+..|++++.-+++||.|++.++ ..+.+++|+.|.+.+......+..++....--||+ T Consensus 271 L-------~~~~FvtRhs~DmkityCedRisdlm~y~PeeLvG--rS~Ye~~Ha~Ds~~v~KSh~dL~~KGQv~TgyYR~ 341 (768) T KOG3558 271 L-------DCHMFVTRHSLDMKITYCEDRISDLMDYEPEELVG--RSCYEFVHALDSDRVRKSHHDLLTKGQVVTGYYRL 341 (768) T ss_pred C-------CCCEEEEEEECCEEEEEECHHHHHHHCCCHHHHHC--HHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHH T ss_conf 5-------77516776414516888735678876479788626--04887633765667788899997547451067788 Q ss_pred ECCCCCEEEEEEEEEEEEECC-CEE-EEEEEEECCCHH Q ss_conf 869898899889999998379-606-999998446179 Q gi|254780903|r 335 RHASGADIWIQVRAQMMRTIS-GGM-NIIGIAMDLTEK 370 (766) Q Consensus 335 ~~~DG~~~Wi~~r~~~i~d~~-G~~-~~iGi~~DITEr 370 (766) ..++|.|+|+...+.++.+.. ++. .+|.+.-=|+.+ T Consensus 342 lak~GGyvWlQTqATVi~~tkn~q~q~IicVnYVlS~~ 379 (768) T KOG3558 342 LAKNGGYVWLQTQATVIYNTKNPQEQNIICVNYVLSNI 379 (768) T ss_pred HHHCCCEEEEEEEEEEEECCCCCCCCEEEEEEEEECCC T ss_conf 77449769998654798558889851589998661343 No 93 >TIGR00229 sensory_box PAS domain S-box; InterPro: IPR000014 PAS domains are involved in many signalling proteins where they are used as a signal sensor domain. PAS domains appear in archaea, bacteria and eukaryotes. Several PAS-domain proteins are known to detect their signal by way of an associated cofactor. Haeme, flavin, and a 4-hydroxycinnamyl chromophore are used in different proteins. The PAS domain was named after three proteins that it occurs in: Per- period circadian protein Arnt- Ah receptor nuclear translocator protein Sim- single-minded protein. PAS domains are often associated with PAC domains IPR001610 from INTERPRO. It appears that these domains are directly linked, and that together they form the conserved 3D PAS fold. The division between the PAS and PAC domains is caused by major differences in sequences in the region connecting these two motifs . In human PAS kinase, this region has been shown to be very flexible, and adopts different conformations depending on the bound ligand . Probably the most surprising identification of a PAS domain was that in EAG-like K^+-channels . ; GO: 0004871 signal transducer activity, 0007165 signal transduction. Probab=98.42 E-value=2e-06 Score=64.30 Aligned_cols=113 Identities=18% Similarity=0.355 Sum_probs=80.1 Q ss_pred HHHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCC----CCCCEE Q ss_conf 9999999999854455158834996997017898883999789428971788165201378999852112----456405 Q gi|254780903|r 379 EADQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPE----RSQDMS 454 (766) Q Consensus 379 ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~ 454 (766) +++.+++.+++++++++++.|.+|.++++|+++++++||+.+++.+......+.+............... ...... T Consensus 2 ~~e~~~~~~~e~~~~~~~~~d~~g~~~~~n~~~~~~~Gy~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (130) T TIGR00229 2 ESEERYRAIFESSPDAIIVVDLEGNILYVNPAFEELFGYSAEELLGRNVLELIPEEDREELRERIERLLETGEREPVSEE 81 (130) T ss_pred CHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHHCCCHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCEEE T ss_conf 15899999862245426887057615750325777617875895387510002764146899999876326754320123 Q ss_pred EEE--EECCC--EEEEECCEECC--CCC---EEEEEEEEEHHHCCC Q ss_conf 899--91696--28742232456--997---899988620100011 Q gi|254780903|r 455 KEI--KLADS--RWLQINEWCTH--DGG---TISVGTDITLLKHNQ 491 (766) Q Consensus 455 ~e~--~~~dg--~~~~i~~~~~~--dg~---~v~v~~~i~~~~~~~ 491 (766) +.. ...|| .|..++..+.. .|+ ++.+..|||+.+..+ T Consensus 82 ~~~~~~~~~G~~~~~~~~~~~~~~~~g~~~~~~~~~~d~t~~~~~~ 127 (130) T TIGR00229 82 RRVLGRRKDGSEIWVEVSVSPIRDSNGGVLGVLGIVRDITERKEAE 127 (130) T ss_pred EEEEEECCCCCEEEEEEECCCCCCCCCCEEEEEEEEECHHHHHHHH T ss_conf 4666443789688998730100001377036776652114789988 No 94 >PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional Probab=98.40 E-value=0.00028 Score=48.79 Aligned_cols=178 Identities=15% Similarity=0.132 Sum_probs=102.7 Q ss_pred CCHHEEEEEECCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH-HHHHHHHHHHHHHHHHHHH Q ss_conf 3100001233157782599997423210123455655456878878999999-9988889-9999999999999999999 Q gi|254780903|r 181 QQPYHVLSVNLPHNSGSILIINSRVPLLRLWREEVTLEVVFFSIISALLLFI-LFSYYRQ-AKKNKENDTILLEANICVE 258 (766) Q Consensus 181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~-~~a~~~d-it~~r~ae~~l~ese~rl~ 258 (766) |-..+.....++..++.++..-|....+...+-.....+.+ .....+++.. ..-|.+- ..-+.+.-..|.|+|+-=+ T Consensus 282 ~~~~l~~~k~l~~~~~~~vy~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~~~~~rr~~~pa~~~a~~l~e~e~fnr 360 (947) T PRK10841 282 GFRELVLKKNLPPSSLSIVYSVPVDTVLERIRMLILNAILL-NVLSGAVLFTLARMFERRIFIPAESNALRLEEHEQFNR 360 (947) T ss_pred CHHHHHHHCCCCCCCEEEEEEEEHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH T ss_conf 81778752448966338999948899887617999999999-99999999999999886642735677889987888778 Q ss_pred HHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCC Q ss_conf 99722597459897689789997889977299943305898899976081205899999999724898489999988698 Q gi|254780903|r 259 TALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHAS 338 (766) Q Consensus 259 ~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~D 338 (766) ++++.||+|+-......|....|.... ..|..+..++|+.+... ...++...|. + +...+ T Consensus 361 ~~i~~apvg~~~l~~~dg~~~~~n~~~--------------~~~~~~~~~~~~~~~~~---~~~~~~~~~~-~--~~~~~ 420 (947) T PRK10841 361 KIVASAPVGICILRTSDGTNILSNELA--------------HNYLNMLTHEDRQRLTQ---IICGQQVNFV-D--VLTSN 420 (947) T ss_pred HHHHHCCCEEEEEECCCCCEEECHHHH--------------HHHHHHCCCCHHHHHHH---HHHCCCCCCE-E--EEECC T ss_conf 898617713799970688633103899--------------99876237552899999---9861378834-8--99359 Q ss_pred CCEEEEEEEEEEEEECCCEEEEEEEEECCCHHHHHHHHHHHHHH Q ss_conf 98899889999998379606999998446179999999999999 Q gi|254780903|r 339 GADIWIQVRAQMMRTISGGMNIIGIAMDLTEKYHLEKRYAEADQ 382 (766) Q Consensus 339 G~~~Wi~~r~~~i~d~~G~~~~iGi~~DITErK~ae~~l~ese~ 382 (766) |+... ....+.|-. |+--++++..|||+||+.|+.|+++.. T Consensus 421 ~~~l~--~~~~~~ry~-~~~v~~c~~~Disar~~~e~~L~~a~~ 461 (947) T PRK10841 421 NTNLQ--ISFVHSRYR-NENVAICVLVDVSARVKMEESLQEMAQ 461 (947) T ss_pred CCEEE--EEEEEEEEC-CCCEEEEEEEECHHHHHHHHHHHHHHH T ss_conf 85799--998653126-860799999854078999999999999 No 95 >COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms] Probab=98.37 E-value=0.0001 Score=52.02 Aligned_cols=190 Identities=13% Similarity=0.244 Sum_probs=115.7 Q ss_pred EEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCCEEEEEEEE Q ss_conf 98976897899978899772999433058988999760812058999999997248984899999886989889988999 Q gi|254780903|r 269 WNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHASGADIWIQVRA 348 (766) Q Consensus 269 Wd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~ 348 (766) +.++......+.+.....++++.+..... +.....+.+...........................++...|+.... T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (232) T COG2202 3 LVLDRDGRIIYANEAAEELLGYSAEELLG----LLLALHPEDRDRLRELLRRLLAGEELLSEELRLVRKDGEERWVELSA 78 (232) T ss_pred EEECCCCCEEEECHHHHHHHCCCHHHHHC----CHHCCCHHHHHHHHHHHHHHHHCCCCHHHEEEEEECCCCEEEEEEEE T ss_conf 47716664244415568875334465531----02101045677888999997630000001023541367447887410 Q ss_pred EEEEECC-CEE-EEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCC Q ss_conf 9998379-606-99999844617999999999999999999985445515883499699701789888399978942897 Q gi|254780903|r 349 QMMRTIS-GGM-NIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGN 426 (766) Q Consensus 349 ~~i~d~~-G~~-~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~ 426 (766) ... ... +.. ...+. .|+++.+..++.++..+.+++.++++.+++++.+|.++.++++|+.+.+++|++..+..... T Consensus 79 ~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~ 156 (232) T COG2202 79 APL-RDGEGRVLGLLGL-RDITERKRAEEALRESEERLRALLEASPDGIWVLDEDGRILYANPAAEELLGYSPEEELGRG 156 (232) T ss_pred EEE-ECCCCHHHHHHHH-CHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCEEEECHHHHHHHCCCHHHHHCCC T ss_conf 011-1233035555301-11577888999987579999999956896799990999899975899998697989982776 Q ss_pred CHHHHCCCHHH----HHHHHHHHCCCCCCCEEEEEEECCCEE Q ss_conf 17881652013----789998521124564058999169628 Q gi|254780903|r 427 ARSIIQDAQTR----PIIEYRTSDPERSQDMSKEIKLADSRW 464 (766) Q Consensus 427 ~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~e~~~~dg~~ 464 (766) ........... .................+.....+|.+ T Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 198 (232) T COG2202 157 LSDLIHPEDEERRELELARALAEGRGGPLEIEYRVRRKDGER 198 (232) T ss_pred HHHHCCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEEECCCCE T ss_conf 065403463046678999997524576405899999438979 No 96 >KOG0519 consensus Probab=98.34 E-value=1e-06 Score=66.39 Aligned_cols=225 Identities=17% Similarity=0.198 Sum_probs=173.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999998878999999998767522247899999999860346889938999999999999999999977767 Q gi|254780903|r 524 IANAKYQVEKERAETANKTKSEFLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNIL 603 (766) Q Consensus 524 ~~~~~l~~~~~~ae~an~~k~efla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diL 603 (766) ..+..++..++++..++.+...++..++|..++|.+.+++...++.+...-... ..-.++...++...+..+++.-. T Consensus 367 ~~~~~l~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~---~~~~i~~~~~~~~~~~~~~q~~~ 443 (786) T KOG0519 367 ESNDVLLRAKEEAHMAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPD---SGLEIQTVMRSSNVFTSLIQADP 443 (786) T ss_pred HHHHHHHHHHHHHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHEEECCC---CCEEEEECCCCHHHHHHHHCCCH T ss_conf 467899754577653515566788874133124220421223576652022366---64068502330465554514661 Q ss_pred HHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCE--EEECHHHHHHHHHHHHHHHHH--CCCCC Q ss_conf 78887419830120331699999999999999998479589998089978--998689999999998865653--46898 Q gi|254780903|r 604 EMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELF--FNADKRIIKKILFPILSNSIK--FTNNN 679 (766) Q Consensus 604 d~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~--v~~D~~~l~QVl~NLi~NAik--~t~~~ 679 (766) +.++-..|..........|..++...+.........+...+...+..+.+ +..|..++.|++.+..+|+.+ ++..+ T Consensus 444 ~~~~~~~gt~~~~~i~~~l~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~ 523 (786) T KOG0519 444 DITRLYGGTGLGESIVFSLVELMSGEISDISCISLGKTFSFTLDLLTNLPKSVVGDEKRLFQIILDFNGMLALLIDTKLG 523 (786) T ss_pred HCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCHHHHHHCCCCC T ss_conf 00345687645332223288998867432110034752223312356887310110344544555430122232003357 Q ss_pred CE--EEEEEEE---------------------ECC-EEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHH Q ss_conf 88--9999999---------------------799-89999997889789778543046505314675567788761689 Q gi|254780903|r 680 GK--MMIRTSK---------------------IGQ-CVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLA 735 (766) Q Consensus 680 g~--I~i~~~~---------------------~~~-~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLa 735 (766) .. +.+.... ..+ .+++.++++..|+........|.-|.+....+++...+.++.++ T Consensus 524 ~~~~~~~~~~~~~~~vd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~ 603 (786) T KOG0519 524 REQIFQVLAELLGISVDVSLSLSLAFWFLDLSLSDLEVCKQIEDNEEGSNNGDISSSNPLHKSLRDLTSKLSSGSGLSLA 603 (786) T ss_pred CCEEEEEEECCCCCCCCCCCCHHHHHHHCCCCCCCHHHHEEEECCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCC T ss_conf 62069998012665411144310566643666100244223310303467777204565540034542002455542012 Q ss_pred HHHHHHHHCCCEEEEE Q ss_conf 9999999629869999 Q gi|254780903|r 736 ISDALTNLHGGRLKII 751 (766) Q Consensus 736 I~k~iVe~hgG~I~v~ 751 (766) .|...++.+.|.+++. T Consensus 604 ~~~~~~~~~~~~~~~~ 619 (786) T KOG0519 604 LCPENSQLMEGNIGLV 619 (786) T ss_pred CCHHHHHHHHCCCCCC T ss_conf 3656777753143355 No 97 >PRK00095 mutL DNA mismatch repair protein; Reviewed Probab=98.26 E-value=2.4e-06 Score=63.76 Aligned_cols=25 Identities=12% Similarity=0.042 Sum_probs=10.2 Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCEE Q ss_conf 8999999999886565346898889 Q gi|254780903|r 658 KRIIKKILFPILSNSIKFTNNNGKM 682 (766) Q Consensus 658 ~~~l~QVl~NLi~NAik~t~~~g~I 682 (766) ...++.++-+|-.=---|+-++|+- T Consensus 571 ~~Em~~Ll~~L~~~~~P~~CPHGRP 595 (612) T PRK00095 571 LEEMNALLRQLEATENPGTCPHGRP 595 (612) T ss_pred HHHHHHHHHHHHCCCCCCCCCCCCC T ss_conf 9999999999972899695989992 No 98 >COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms] Probab=98.25 E-value=2.2e-05 Score=56.78 Aligned_cols=96 Identities=25% Similarity=0.221 Sum_probs=69.0 Q ss_pred CHHHHHHHHHHHHHHHHHCCCC----CCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCC-CCC Q ss_conf 6899999999988656534689----88899999997998999999788978977854304650531467556778-876 Q gi|254780903|r 657 DKRIIKKILFPILSNSIKFTNN----NGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIG-GFG 731 (766) Q Consensus 657 D~~~l~QVl~NLi~NAik~t~~----~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~-GtG 731 (766) |-.+++-++.-++.||++|... .|.|.|.....++.+.+.|.|.|.|| +..+..++|-+ ++.... .-| T Consensus 37 ~~~~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~~~~~i~i~D~G~~~--~~~~~~~~~~~-----~~~~~~~~~G 109 (146) T COG2172 37 DIADLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDDGKLEIRIWDQGPGI--EDLEESLGPGD-----TTAEGLQEGG 109 (146) T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEECCCEEEEEEEECCCCC--CCHHHHCCCCC-----CCCCCCCCCC T ss_conf 9999999999999899997630389986599999970993999999579898--78888538888-----8887532473 Q ss_pred HHHHHHHHHHHHCCCEEEEEEECCC---CEEEEEE Q ss_conf 1689999999962986999979899---5299997 Q gi|254780903|r 732 LGLAISDALTNLHGGRLKIISQEGK---GTIVTIC 763 (766) Q Consensus 732 LGLaI~k~iVe~hgG~I~v~S~~g~---Gttf~i~ 763 (766) +||.+.++++. ++.++++++. +++++.+ T Consensus 110 ~Gl~l~~~~~D----~~~~~~~~~~~~~~~~~~~~ 140 (146) T COG2172 110 LGLFLAKRLMD----EFSYERSEDGRNRLTKITLR 140 (146) T ss_pred CCHHHHHHHHE----EEEEEEECCCCEEEEEEEEC T ss_conf 13788862110----79999606985589999962 No 99 >smart00086 PAC Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain). PAC motif occurs C-terminal to a subset of all known PAS motifs. It is proposed to contribute to the PAS domain fold. Probab=98.23 E-value=2.8e-06 Score=63.20 Aligned_cols=42 Identities=31% Similarity=0.649 Sum_probs=38.9 Q ss_pred EEEEEEECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHH Q ss_conf 999998869898899889999998379606-999998446179 Q gi|254780903|r 329 DQIFHMRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEK 370 (766) Q Consensus 329 ~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITEr 370 (766) ..|||++++||+++|+..++.|++|.+|++ +++|+.+||||+ T Consensus 1 ~~e~r~~~~dG~~~w~~~~~~~~~~~~g~~~~~i~~~~DIte~ 43 (43) T smart00086 1 TVEYRLRRKDGSYIWVLVSASPIRDEDGEVEGILGVVRDITER 43 (43) T ss_pred CEEEEEECCCCCEEEEEEEEEEEECCCCCEEEEEEEEEECCCC T ss_conf 9699999889999999999999999898999999999717798 No 100 >KOG3558 consensus Probab=98.18 E-value=3.7e-05 Score=55.17 Aligned_cols=185 Identities=9% Similarity=0.096 Sum_probs=107.4 Q ss_pred HHHHHHHCCCCC-EEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHC-------CCC- Q ss_conf 999997225974-59897689789997889977299943305898899976081205899999999724-------898- Q gi|254780903|r 256 CVETALSRGRCG-LWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGK-------HVK- 326 (766) Q Consensus 256 rl~~al~~a~~G-iWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~-------~~~- 326 (766) .+..-.-.+=+| +.-.+-+++.+|.|+..--.+|++.-|. +...+.+++||-|-+.+......... ... T Consensus 119 ~l~~~iLqsLDGFVm~l~~dG~~lYiSEtVS~yLGLSQvEL--TG~SvFDfiHP~DheE~~eqL~l~~~~p~~~es~~~~ 196 (768) T KOG3558 119 HLGDHILQSLDGFVMALTQDGDFLYISETVSIYLGLSQVEL--TGSSVFDFIHPCDHEEIAEQLGLRLTTPEVKESTDTS 196 (768) T ss_pred HHHHHHHHHCCCEEEEECCCCCEEEEECHHHHHHCCCCEEE--ECCHHHHCCCCCCHHHHHHHHCCCCCCCCCCCCCCCC T ss_conf 52014876324438998167877998203576617110243--0541321257667899998743356887623245675 Q ss_pred -EEEEEEEEE---CCCCC--------EEEEEEEEEEE-EECCCE--E---------EEEEEEECCCHHHHHHHHHHHHHH Q ss_conf -489999988---69898--------89988999999-837960--6---------999998446179999999999999 Q gi|254780903|r 327 -QLDQIFHMR---HASGA--------DIWIQVRAQMM-RTISGG--M---------NIIGIAMDLTEKYHLEKRYAEADQ 382 (766) Q Consensus 327 -~~~~e~Ri~---~~DG~--------~~Wi~~r~~~i-~d~~G~--~---------~~iGi~~DITErK~ae~~l~ese~ 382 (766) ..++-.||+ .+-|. |+-+++.|..- ++..+. + .++-++.-|---+-.|-.| T Consensus 197 teRsFflRMKsTLT~RGRtlnlKSa~yKvlh~tgh~rv~~~~sh~s~~~g~~~Pl~~lV~~a~alp~ps~~EipL----- 271 (768) T KOG3558 197 TERSFFLRMKSTLTKRGRTLNLKSAGYKVLHCTGHLRVYNNPSHNSPLCGYKEPLLGLVALAEALPPPSYTEIPL----- 271 (768) T ss_pred CCEEEEEEEEEEECCCCCEEEEECCCEEEEEEEEEEEECCCCCCCCCCCCCCCCCHHEEEEECCCCCCCCCCCCC----- T ss_conf 432579985315516773566501422689886345404677777755576655210045411379986566665----- Q ss_pred HHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCCCCCEE Q ss_conf 999999854455158834996997017898883999789428971788165201378999852112456405 Q gi|254780903|r 383 RLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPERSQDMS 454 (766) Q Consensus 383 rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 454 (766) ++ ...+.-...|-++++|.+.+.++.||..+++++...|+.+++.+..........-..++...+ T Consensus 272 ------~~-~~FvtRhs~DmkityCedRisdlm~y~PeeLvGrS~Ye~~Ha~Ds~~v~KSh~dL~~KGQv~T 336 (768) T KOG3558 272 ------DC-HMFVTRHSLDMKITYCEDRISDLMDYEPEELVGRSCYEFVHALDSDRVRKSHHDLLTKGQVVT 336 (768) T ss_pred ------CC-CEEEEEEECCEEEEEECHHHHHHHCCCHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCH T ss_conf ------77-516776414516888735678876479788626048876337656677888999975474510 No 101 >TIGR02040 PpsR-CrtJ transcriptional regulator PpsR; InterPro: IPR011785 This entry represents the transcriptional regulator PpsR which is strictly associated with photosynthetic proteobacteria and found in photosynthetic operons. PpsR has been reported to be a repressor . These proteins contain a Helix-Turn-Helix motif of the "fis" type.. Probab=98.14 E-value=1.5e-05 Score=57.94 Aligned_cols=163 Identities=17% Similarity=0.198 Sum_probs=120.7 Q ss_pred HHHHHHHCCCCHHHHHHHHHHH-HCCCCEEEEEEE-EECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCC---H---- Q ss_conf 8999760812058999999997-248984899999-8869898899889999998379606-9999984461---7---- Q gi|254780903|r 300 RAIARLIHYDNKKICEIARSVT-GKHVKQLDQIFH-MRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLT---E---- 369 (766) Q Consensus 300 ~~~~~~vHPdDr~~~~~a~~~~-~~~~~~~~~e~R-i~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DIT---E---- 369 (766) ..|.+++.|+.+++++...+.+ .....++..+.- +..|.+..+++.....-.-+.+|++ +++.+.+|.= | T Consensus 39 ~~w~ei~~~es~~k~~~~l~~a~~~g~~a~r~~~~~~~~P~~~ElP~~F~~~~L~~sdGk~~~vLa~GrdLr~vA~lqq~ 118 (453) T TIGR02040 39 RRWEEIVTEESKEKVEALLSEAKRTGVGAVRVELNRFVLPSDLELPMEFVLVRLGASDGKDEGVLALGRDLRAVAELQQR 118 (453) T ss_pred CCHHHHCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCCCCEEEECCCCHHHHHHHHH T ss_conf 84444135778999999997146888857777665411799972440346761678788887358884652478999999 Q ss_pred ----HHHHH---HHHHHHHHHHHHHHHHHHHHEEEEC-CCCEEEEECHHHHHHHCCCHH---HHCCCCCHHHHCCCHHHH Q ss_conf ----99999---9999999999999985445515883-499699701789888399978---942897178816520137 Q gi|254780903|r 370 ----KYHLE---KRYAEADQRLSKAIECTSEALVLWD-KNDRLVMCNANYQKAYGLPDH---VLVPGNARSIIQDAQTRP 438 (766) Q Consensus 370 ----rK~ae---~~l~ese~rlr~~ie~~~~~i~~~D-~~g~i~~~N~~~~~~~g~~~~---~~~~~~~~~~~~~~~~~~ 438 (766) |+-.| .++|+.|.|||.++|-+.++++++| +++|++.+|+++..++|-... .++|......+......+ T Consensus 119 lv~AQ~AmErDYW~lR~~EtRYR~ll~~s~davllv~~st~rileaN~~A~~lLg~~~~~rd~LvG~~~~~e~~~~~~~~ 198 (453) T TIGR02040 119 LVEAQQAMERDYWKLREMETRYRLLLEVSSDAVLLVDVSTGRILEANSAAAALLGAEGQRRDSLVGREFPQELEEREREE 198 (453) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHCCCCCCCHHHHCCHHHCCCCCCCHHH T ss_conf 99998788887999866754443354114886799853653477867999998502677501231113431466454368 Q ss_pred HHHHHHHCCCCCCCEEEEEEECCC Q ss_conf 899985211245640589991696 Q gi|254780903|r 439 IIEYRTSDPERSQDMSKEIKLADS 462 (766) Q Consensus 439 ~~~~~~~~~~~~~~~~~e~~~~dg 462 (766) .....-.....+.....++.++++ T Consensus 199 l~~~l~~~~atg~A~~~~i~l~~~ 222 (453) T TIGR02040 199 LELLLREVRATGKAAEVRILLAES 222 (453) T ss_pred HHHHHHHHHHCCCCCCCEEEECCC T ss_conf 999998643015778717874578 No 102 >PRK13558 bacterio-opsin activator; Provisional Probab=98.14 E-value=0.00017 Score=50.31 Aligned_cols=125 Identities=11% Similarity=0.076 Sum_probs=70.2 Q ss_pred HHCCCCCEEEEEC---CCCCEEEECCCHHHHCCCCHHHHCCCCHHHHCCCC----CCCHHHHHC-CCCHHEEEEEECCCC Q ss_conf 1017897899996---99808997142055519978896076104320544----332023211-531000012331577 Q gi|254780903|r 123 TRFLSESFILLAQ---PNELVFASSTKNSHYIGKKIGEIIPELSRSRSRSK----TVQMSEASL-DQQPYHVLSVNLPHN 194 (766) Q Consensus 123 ~~~~~~~~i~i~d---~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~----~~~~~~~~l-~~~~~~~~~~~~~~~ 194 (766) +...++..|.+.| ++.+++++|+++.++.||...+++|+......... ....+...+ .+.......+..+.. T Consensus 163 a~d~a~v~i~~a~~~~p~~~i~~~n~a~~eitGy~~~e~~g~~~r~lq~~~~~~e~~~~~~~ai~~~~~~~ve~r~~r~d 242 (674) T PRK13558 163 ALDEAPIGITISDATDPEEPIIYINDSFEDITGYSPDEVVGANHRFLQGPKTNEDRVAEFWTAITEDHDTQVVLRNYRRD 242 (674) T ss_pred HHHCCCCEEEEECCCCCCCCEEEEEHHHHHHCCCCHHHHCCCCHHHHCCCCCCHHHHHHHHHHHHCCCCCEEEEEEECCC T ss_conf 66405725998468888874388601236531898178649740121068888057999999975588633453331468 Q ss_pred CCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 825999974232101234556554568788789999999988889999999999999999999999722 Q gi|254780903|r 195 SGSILIINSRVPLLRLWREEVTLEVVFFSIISALLLFILFSYYRQAKKNKENDTILLEANICVETALSR 263 (766) Q Consensus 195 ~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~a~~~dit~~r~ae~~l~ese~rl~~al~~ 263 (766) +..+|......++.+. .+.+.-. .++.+|||+||++|++|+.-++-|...|++ T Consensus 243 G~~~w~~~~i~pi~De--------------dg~v~~~--Vg~~~DiteRke~E~~L~~~~~~l~~~L~R 295 (674) T PRK13558 243 GSLFWNQVDISPIYDE--------------DGTVSHY--VGFQMDVSERMAAQQELQGERQSLDRLLDR 295 (674) T ss_pred CCEEEEECCCCCCCCC--------------CCCEEEE--EEECCCHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 8378741245521057--------------8858999--862144778899999999868899999999 No 103 >smart00091 PAS PAS domain. PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels ([1]; Ponting & Aravind, in press). Probab=98.01 E-value=9.5e-06 Score=59.43 Aligned_cols=61 Identities=16% Similarity=0.239 Sum_probs=40.7 Q ss_pred HHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHH Q ss_conf 999997225974598976897899978899772999433058988999760812058999999 Q gi|254780903|r 256 CVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIAR 318 (766) Q Consensus 256 rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~ 318 (766) +++.+++..+.|+|.+|.++..++||+++.++|||++++..+. .+..++||+|++.+.... T Consensus 2 ~~~~~~~~~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~e~~g~--~~~~~~~~~~~~~~~~~~ 62 (67) T smart00091 2 RLRAILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGK--SLLELIHPEDREEVQEAL 62 (67) T ss_pred HHHHHHHHHHHHHEEECCCCCEEEECHHHHHHHCCCHHHHCCC--CHHHHCCHHHHHHHHHHH T ss_conf 7999999655798588699948998859999889099999599--899946998999999999 No 104 >COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms] Probab=98.00 E-value=0.0017 Score=43.12 Aligned_cols=134 Identities=14% Similarity=0.148 Sum_probs=97.6 Q ss_pred HHHHH-HHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHH Q ss_conf 89999-99999999999999999972259745989768978999788997729994330589889997608120589999 Q gi|254780903|r 238 RQAKK-NKENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEI 316 (766) Q Consensus 238 ~dit~-~r~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~ 316 (766) .+.++ -+.|+..+..-+.|++..+.-..+|+.-.|-.+..+..|.....|+|.+.++.... ...++..-+|-=.+ T Consensus 93 n~Lt~~~~~aq~n~e~Er~kL~SvlayMtDGViATdRrG~iI~iN~~A~k~L~~~~E~~~~~--~i~elL~i~d~y~~-- 168 (459) T COG5002 93 NDLTKRVQEAQANTEQERRKLDSVLAYMTDGVIATDRRGKIILINKPALKMLGVSKEDALGR--SILELLKIEDTYTF-- 168 (459) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCEEEECCHHHHHHCCCHHHHHCC--CHHHHHCCCCCEEH-- T ss_conf 78999999998767888888998999870765764577868993507999848677877165--37888577543028-- Q ss_pred HHHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHH Q ss_conf 999972489848999998869898899889999998379606-9999984461799999999999 Q gi|254780903|r 317 ARSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEA 380 (766) Q Consensus 317 a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~es 380 (766) +.+....+.+-.+.+ .+++..-++++..+++.+.|.. +++.+..|+|||.+.|++.++. T Consensus 169 --~dL~e~~~s~lld~~---~~~E~~~lrv~Fs~i~rEsGfisGlIaVlhDvTEqek~e~ErRef 228 (459) T COG5002 169 --EDLVEKNDSLLLDSS---DEEEGYVLRVNFSVIQRESGFISGLIAVLHDVTEQEKVERERREF 228 (459) T ss_pred --HHHHHCCCCEEEEEC---CCCCCEEEEEEEEEEEECCCCCCEEEEEEECCCHHHHHHHHHHHH T ss_conf --888725982898604---788637999988888511466440699873143878889999999 No 105 >COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms] Probab=97.98 E-value=0.0016 Score=43.32 Aligned_cols=161 Identities=12% Similarity=0.131 Sum_probs=113.9 Q ss_pred HHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECC Q ss_conf 99972259745989768978999788997729994330589889997608120589999999972489848999998869 Q gi|254780903|r 258 ETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHA 337 (766) Q Consensus 258 ~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~ 337 (766) +..++...+|.-..|..++..+.|.-...+++-...... ++ .....+.+-..+.+. .........+...+ T Consensus 4 ~~~l~~~~~~~~vi~~~~~~~~~~~~a~~~~~~~~~~~i-~~-~~~~i~~~~~~~~v~--------~~~~~~~~~~~~~~ 73 (560) T COG3829 4 EGILKSILDGPVVIDKNTGIDVANALALAKRQKNAEAVI-GR-PLREILETLGMERVE--------QSRDKELTERLKLK 73 (560) T ss_pred HHHHHHCCCCEEEEECCCCEEEECHHHHHHHHCCEEEEE-CC-CHHHHHCCCCCCEEE--------CCCCCCEEEEEECC T ss_conf 445665046408997177547603377765105447874-23-411111125862341--------06765201355406 Q ss_pred CCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHH-HHHHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHH Q ss_conf 898899889999998379606-9999984461799999999-99999999999854455158834996997017898883 Q gi|254780903|r 338 SGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRY-AEADQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAY 415 (766) Q Consensus 338 DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l-~ese~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~ 415 (766) + .+-+-.. .+..++.+++ .++.+..|++|....-+.. +...++|+.+++.+.+++++.|.+|+++++|+++..++ T Consensus 74 -~-~~~~~~~-~~~~~~~~~~~g~~~~~~~~~e~~~~~~~~l~~~~~~l~~il~~~~~~l~vvD~~G~~i~~N~~~~~~~ 150 (560) T COG3829 74 -V-KRIVVVG-KTPVDEQGRVVGVLEVFLDISEALELIEENLRQLRQRLEAILDSIDDGLLVVDEDGIIIYYNKAYAKLL 150 (560) T ss_pred -C-EEEEECC-CCEEECCCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCCCEEEECHHHHHHH T ss_conf -4-0489817-852412774445512545149899999999999999999998625674599869996899847789883 Q ss_pred CCCHHHHCCCCCHHHH Q ss_conf 9997894289717881 Q gi|254780903|r 416 GLPDHVLVPGNARSII 431 (766) Q Consensus 416 g~~~~~~~~~~~~~~~ 431 (766) |++.+++++....+.+ T Consensus 151 gl~~e~~~gk~~~~v~ 166 (560) T COG3829 151 GLSPEEVLGKHLLDVV 166 (560) T ss_pred CCCHHHHCCCCHHHHH T ss_conf 9998998197189887 No 106 >COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms] Probab=97.92 E-value=0.0025 Score=42.00 Aligned_cols=286 Identities=13% Similarity=0.079 Sum_probs=144.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCEEEEECCCCCEEEECCCHHHHCCC Q ss_conf 6888999899999999999985010011223554899999999988531017-897899996998089971420555199 Q gi|254780903|r 75 YAQQEKMTNQTSLMLTEAIEIIFQNNNIKFDLASQKKAESMLGQLLAKTRFL-SESFILLAQPNELVFASSTKNSHYIGK 153 (766) Q Consensus 75 ~~~~~~~~~~~~~lla~~~~~~~~~~~~~~d~~~~~~ae~~L~~~~~~~~~~-~~~~i~i~d~~g~i~~~n~~~~~~~G~ 153 (766) +...+....+.+...|..++. .....+.-..++.+..++....+.+.. ..++|++.|.+| |-...|..+. .|+ T Consensus 38 ~~~~~~q~~~~Al~~Ar~vA~----~p~v~e~l~~~~~~~~iq~~~~~i~~~t~a~fIVV~d~~g-IR~~HP~per-IGk 111 (537) T COG3290 38 SDTLRDQLEHKALSTARTVAS----NPEVIEALENKDQEARIQAIAEAIRSITDADFIVVGDMKG-IRLTHPNPER-IGK 111 (537) T ss_pred HHHHHHHHHHHHHHHHHHHHC----CHHHHHHHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCCC-CEECCCCHHH-HCC T ss_conf 999999999899999999853----9899999865992045899999998651961899956886-2404899588-389 Q ss_pred CHH-----H-HCCCCHHHHCCCCCCCHHHHHCCCCHHEEEEEECCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 788-----9-6076104320544332023211531000012331577825999974232101234556554568788789 Q gi|254780903|r 154 KIG-----E-IIPELSRSRSRSKTVQMSEASLDQQPYHVLSVNLPHNSGSILIINSRVPLLRLWREEVTLEVVFFSIISA 227 (766) Q Consensus 154 ~~~-----~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~ 227 (766) +.. . +-|+.-... ..+.....+.+........ ...-|.|.+-... +....|......+..+..-... T Consensus 112 p~~ggde~a~~~G~~yvS~----~kGslg~s~R~~~PI~d~~--g~~IGvVsVG~~l-~~i~~~i~~~~~~l~~~~vl~l 184 (537) T COG3290 112 PFQGGDEEAALAGESYVST----AKGSLGKSLRAKVPIFDED--GKQIGVVSVGYLL-SEIDDVILEFLRPLALIVVLGL 184 (537) T ss_pred CCCCCCHHHHHCCCEEEEE----EECCCHHHHEEECCEECCC--CCEEEEEEEEEEH-HHHHHHHHHHHHHHHHHHHHHH T ss_conf 7668888898578606998----5213024013404458799--9788899986672-6589999998998999999999 Q ss_pred HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHH Q ss_conf 99999998888999999----99999999999999997225974598976897899978899772999433058988999 Q gi|254780903|r 228 LLLFILFSYYRQAKKNK----ENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIA 303 (766) Q Consensus 228 ~~~~~~~a~~~dit~~r----~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~ 303 (766) .++.++..+..-..++. +.++..+-.++| ...+++...|+.-||..+....+|.+.++|+|+.......-...+. T Consensus 185 ligl~ga~~la~~ikr~~~glEP~EIa~l~~er-~A~l~si~EGviAvd~~G~It~~N~~A~~ll~~~~~~~~~ig~~i~ 263 (537) T COG3290 185 LIGLLGAWILARHIKRQMLGLEPEEIATLLEER-QAMLQSIKEGVIAVDKKGVITLINQAAQKLLGLRQPSGDPIGRSIV 263 (537) T ss_pred HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH-HHHHHHHHCEEEEECCCCEEEEHHHHHHHHHCCCCCCCCCCCCCCE T ss_conf 999999999999999998289979999999999-9999876362899878985761128899984656767564466103 Q ss_pred HHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEEEECCCHHHHHHHHHHHHHHH Q ss_conf 76081205899999999724898489999988698988998899999983796069999984461799999999999999 Q gi|254780903|r 304 RLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTISGGMNIIGIAMDLTEKYHLEKRYAEADQR 383 (766) Q Consensus 304 ~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DITErK~ae~~l~ese~r 383 (766) ..+.|| -.... ........++.++|+ +|. |+...-.|++-.+...+++.+++|=||-+.+-++|..-... T Consensus 264 ~v~~p~-~~l~~----vl~~~~~~~~~e~~~---ng~--~~i~nr~pI~~~~~~~GaI~tFRdktei~~L~eqLt~vr~y 333 (537) T COG3290 264 EVLPPD-SDLPE----VLETGKPQHDEEIRI---NGR--LLVANRVPIRSGGQIVGAIITFRDKTEIKKLTEQLTGVRQY 333 (537) T ss_pred EEECCC-CCCHH----HHHCCCCCCCHHHHC---CCE--EEEEEECCEEECCEEEEEEEEEECHHHHHHHHHHHHHHHHH T ss_conf 761563-67577----875077631134414---775--99998523788897768999876377899999999989999 Q ss_pred H Q ss_conf 9 Q gi|254780903|r 384 L 384 (766) Q Consensus 384 l 384 (766) . T Consensus 334 a 334 (537) T COG3290 334 A 334 (537) T ss_pred H T ss_conf 9 No 107 >smart00091 PAS PAS domain. PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels ([1]; Ponting & Aravind, in press). Probab=97.82 E-value=6.5e-05 Score=53.39 Aligned_cols=56 Identities=16% Similarity=0.328 Sum_probs=49.1 Q ss_pred HHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHH Q ss_conf 99999998544551588349969970178988839997894289717881652013 Q gi|254780903|r 382 QRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTR 437 (766) Q Consensus 382 ~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~ 437 (766) .+++.++++++++++++|.+|++++||+++.+++|++.+++.+...++.+++.+.. T Consensus 1 ~~~~~~~~~~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~ 56 (67) T smart00091 1 ERLRAILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDRE 56 (67) T ss_pred CHHHHHHHHHHHHHEEECCCCCEEEECHHHHHHHCCCHHHHCCCCHHHHCCHHHHH T ss_conf 97999999655798588699948998859999889099999599899946998999 No 108 >TIGR00585 mutl DNA mismatch repair protein MutL; InterPro: IPR014763 This entry represents DNA mismatch repair proteins, such as MutL. The dimeric MutL protein has a key function in communicating mismatch recognition by MutS to downstream repair processes. Mismatch repair contributes to the overall fidelity of DNA replication by targeting mispaired bases that arise through replication errors during homologous recombination and as a result of DNA damage. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex .. Probab=97.81 E-value=7.8e-05 Score=52.83 Aligned_cols=56 Identities=21% Similarity=0.295 Sum_probs=42.8 Q ss_pred HHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEE Q ss_conf 99999999886565346898889999999799899999978897897785430465053 Q gi|254780903|r 660 IIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEP 718 (766) Q Consensus 660 ~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q 718 (766) ..-.|+=-|+-||+++. .-+|.|.....|= =.|.|+|||.||++++++.+.+||.+ T Consensus 22 ~p~~vVKELvENSLDAG--At~I~v~~~~gG~-~~I~V~DNG~Gi~~~d~~~~~~~haT 77 (367) T TIGR00585 22 RPASVVKELVENSLDAG--ATKIEVEIEEGGL-KLIEVSDNGSGIDKEDLELACERHAT 77 (367) T ss_pred HHHHHHHHHHHHHHCCC--CCEEEEEEEECCE-EEEEEEECCCCCCHHHHHHHHCCCCC T ss_conf 27999999887312148--8589999962653-58999977856777779986123577 No 109 >TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR; InterPro: IPR014310 Members of this protein are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter found in most Proteobacteria, and related proteins from Gram-positive organisms are excluded. The phoR gene usually is adjacent to the response regulator phoB gene (IPR011879 from INTERPRO).. Probab=97.74 E-value=0.0005 Score=46.99 Aligned_cols=115 Identities=10% Similarity=0.020 Sum_probs=76.5 Q ss_pred HHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHH-CCCCHHHHHHHHHHHHCCCCEEEEE Q ss_conf 999999997225974598976897899978899772999433058988999760-8120589999999972489848999 Q gi|254780903|r 253 ANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLI-HYDNKKICEIARSVTGKHVKQLDQI 331 (766) Q Consensus 253 se~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~v-HPdDr~~~~~a~~~~~~~~~~~~~e 331 (766) --.||+.++++-|+|+.-.|-.+...|||+...++||+.-..+.+ ..+..++ ||+ ...|.. +.-. ...+=..+ T Consensus 4 ~~~rf~~a~~AlPDavv~ld~~~~I~W~N~~A~~~LGl~~p~D~G--q~i~~l~R~P~-F~~yl~--~~~~-t~~p~~L~ 77 (339) T TIGR02966 4 LLSRFRAAAQALPDAVVVLDEEGQIEWCNKAAERLLGLRWPDDLG--QRITNLIRHPE-FVEYLA--AGRF-TSEPEQLE 77 (339) T ss_pred HHHHHHHHHHHCCCEEEEECCCCCEEEEEHHHHHHCCCCCCHHHC--CCHHHHCCCHH-HHHHHH--CCCC-CCCCCCEE T ss_conf 889999999758982999728983786214889862742734507--70212105767-999973--3555-57885311 Q ss_pred EEEE-CCCCCEEEEEEEEEEEEECCCEEEEEEEEECCCHHHHHHHHHHH Q ss_conf 9988-69898899889999998379606999998446179999999999 Q gi|254780903|r 332 FHMR-HASGADIWIQVRAQMMRTISGGMNIIGIAMDLTEKYHLEKRYAE 379 (766) Q Consensus 332 ~Ri~-~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DITErK~ae~~l~e 379 (766) +. .+-++-+-+..+..|.-++ +.+-+++|||+-+|+|+--++ T Consensus 78 --~~~~p~~~~~~l~~r~~PY~~~----~~Ll~~RDvT~l~rLe~mRrD 120 (339) T TIGR02966 78 --LPDSPINEERVLEIRIMPYGEE----QKLLVARDVTRLRRLEQMRRD 120 (339) T ss_pred --ECCCCCCCCCEEEEEEEEECCC----CEEEEEECHHHHHHHHHHHHH T ss_conf --0468888664799999975698----379998763689999865343 No 110 >PRK10820 DNA-binding transcriptional regulator TyrR; Provisional Probab=97.68 E-value=0.0032 Score=41.22 Aligned_cols=109 Identities=10% Similarity=0.079 Sum_probs=67.4 Q ss_pred HHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEE Q ss_conf 99999999972259745989768978999788997729994330589889997608120589999999972489848999 Q gi|254780903|r 252 EANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQI 331 (766) Q Consensus 252 ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e 331 (766) +.+..+++++++.++|++.+|..+....+|+++.++||++.++..+. ....+++.-+...+ ...+.... .. T Consensus 77 r~~~~L~alLdsl~dgV~svD~~G~I~~~N~aa~~i~~~~~~~~~G~--~i~~~~~~~~~~~~-----l~~~~~~~--~~ 147 (513) T PRK10820 77 REHLALSALLEALPEPVLSIDMKSKVELANPASCQLFGQSEERLRNH--TAAQLINGFNFLRW-----LESEPQDS--HN 147 (513) T ss_pred HHHHHHHHHHHHCCCCEEEECCCCCEEEEHHHHHHHHCCCHHHHCCC--CHHHHCCCCCHHHH-----HHCCCCCC--CC T ss_conf 68889999997389978998599819976399999849896887797--99997187569999-----86289876--63 Q ss_pred EEEECCCCCEEEEEEEEEEEEECCCEEEEEEE---EECCCHH Q ss_conf 99886989889988999999837960699999---8446179 Q gi|254780903|r 332 FHMRHASGADIWIQVRAQMMRTISGGMNIIGI---AMDLTEK 370 (766) Q Consensus 332 ~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi---~~DITEr 370 (766) .++. -+|.-..+...-..+.|++|...++|. ..|.++. T Consensus 148 ~~~~-~~~~~~~~~~~pi~~~~~~~~~~~~GaV~~lk~~~~~ 188 (513) T PRK10820 148 EHVV-INGQNFLMEITPVYLQDENDQHVLTGAVVMLRSTIRM 188 (513) T ss_pred EEEE-ECCCEEEEEEEEEEECCCCCCCEEEEEEEEECCHHHH T ss_conf 5998-7696789997678752778860366689882468999 No 111 >PRK10820 DNA-binding transcriptional regulator TyrR; Provisional Probab=97.63 E-value=0.002 Score=42.67 Aligned_cols=39 Identities=8% Similarity=0.027 Sum_probs=19.9 Q ss_pred CCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHHHH Q ss_conf 978999969980899714205551997889607610432 Q gi|254780903|r 128 ESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELSRSR 166 (766) Q Consensus 128 ~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~ 166 (766) ++.|+.+|.+|+|+.+|++++.++|.+..+++|+..... T Consensus 90 ~dgV~svD~~G~I~~~N~aa~~i~~~~~~~~~G~~i~~~ 128 (513) T PRK10820 90 PEPVLSIDMKSKVELANPASCQLFGQSEERLRNHTAAQL 128 (513) T ss_pred CCCEEEECCCCCEEEEHHHHHHHHCCCHHHHCCCCHHHH T ss_conf 997899859981997639999984989688779799997 No 112 >pfam10090 DUF2328 Uncharacterized protein conserved in bacteria (DUF2328). Members of this family of hypothetical bacterial proteins have no known function. Probab=97.57 E-value=0.0079 Score=38.34 Aligned_cols=177 Identities=14% Similarity=0.110 Sum_probs=115.4 Q ss_pred HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHH Q ss_conf 89999999986034688993899999999999999999997776778887419830120331699999999999999998 Q gi|254780903|r 559 NAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQ 638 (766) Q Consensus 559 ~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~ 638 (766) .+|....|+|...- . ....+.++-|.+|+.....- |.|.|+--|... .-+.+|..++-+-+-..++ T Consensus 2 GAI~NGLELL~~~~--~---~~~~~~m~LI~~Sa~~A~aR----l~F~RlAfGaag-~~~~i~~~e~~~~~~~~~~---- 67 (181) T pfam10090 2 GAIVNGLELLDDEG--D---PEMGPEMALIRESARNASAR----LRFFRLAFGAAG-AGQQIDLAEAKSVLEGYLA---- 67 (181) T ss_pred CCHHHHHHHHCCCC--C---CCCHHHHHHHHHHHHHHHHH----HHHHHHHHCCCC-CCCCCCHHHHHHHHHHHHH---- T ss_conf 31255588870789--8---64168999999999999999----999999808468-8885699999999999983---- Q ss_pred HCCCEEEEEECCCCEEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEE-CCEEEEEEEECCCCCCHHHHHHHCCCEE Q ss_conf 479589998089978998689999999998865653468988899999997-9989999997889789778543046505 Q gi|254780903|r 639 SKNIKIEKKIPSELFFNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKI-GQCVIITIADTGIGIPKSALEKIGQPFE 717 (766) Q Consensus 639 ~k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~-~~~v~i~V~D~G~GI~~e~~~~iF~pF~ 717 (766) ...+++.++.+.+. . +...-+.++||+-=+..++|-||.|+|..... +..+.++-+=.-+.++++..+-+=..= T Consensus 68 ~~r~~l~W~~~~~~---~-~k~~vklllnl~l~~~~AlprGG~i~V~~~~~~~~~~~v~a~g~r~~~~~~~~~~L~g~~- 142 (181) T pfam10090 68 GGRITLDWQLERDL---L-PKPEVKLLLNLLLIAEDALPRGGEIDVGEGSDGAGGWRVTAEGERLRIDPDLWAALAGGA- 142 (181) T ss_pred CCCEEEEECCCCCC---C-CHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCEEEEEEEECCCCCCHHHHHHHCCCC- T ss_conf 88538983587454---8-879999999999999975477877899984178975999997046789978999856999- Q ss_pred ECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEE Q ss_conf 3146755677887616899999999629869999798995299 Q gi|254780903|r 718 PLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIV 760 (766) Q Consensus 718 q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf 760 (766) ........-.=-+....+.+..|++|.++.+.. +.+| T Consensus 143 -----~~~~l~~~~VQ~~~l~~la~~~G~~l~~~~~~~-~i~l 179 (181) T pfam10090 143 -----PEEELDARNVQFYLLPLLAREAGGTLSYEITED-GIVL 179 (181) T ss_pred -----CCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCC-EEEE T ss_conf -----877899876499999999998699117886497-7998 No 113 >KOG3559 consensus Probab=97.57 E-value=0.00021 Score=49.75 Aligned_cols=216 Identities=12% Similarity=0.095 Sum_probs=132.2 Q ss_pred CCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHHHHCCCCCCCHHHHHCCCCHHEEEEE-------------E---- Q ss_conf 97899996998089971420555199788960761043205443320232115310000123-------------3---- Q gi|254780903|r 128 ESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELSRSRSRSKTVQMSEASLDQQPYHVLSV-------------N---- 190 (766) Q Consensus 128 ~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-------------~---- 190 (766) +.+|+|++++|.|++.+....-.+|.+.-|+.|.+..+...+.....+...+.....+.... . T Consensus 89 DGF~fvva~dGkimYISETaSvhLGLSQVElTGNsi~eYIH~~D~demna~L~~h~H~qeyeIErsfflrmkCvlakrna 168 (598) T KOG3559 89 DGFIFVVAPDGKIMYISETASVHLGLSQVELTGNSIYEYIHPQDHDEMNAVLTAHQHLQEYEIERSFFLRMKCVLAKRNA 168 (598) T ss_pred CCEEEEEECCCCEEEEECCEEEEECCEEEEEECCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 54599992799889985011345230004650623766406012578988876432444300334311234331000024 Q ss_pred -CCCCCCEEEEE-------E---ECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH Q ss_conf -15778259999-------7---4232101234556554568788789999999988-8899999999999999999999 Q gi|254780903|r 191 -LPHNSGSILII-------N---SRVPLLRLWREEVTLEVVFFSIISALLLFILFSY-YRQAKKNKENDTILLEANICVE 258 (766) Q Consensus 191 -~~~~~~~~~~~-------~---~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~a~-~~dit~~r~ae~~l~ese~rl~ 258 (766) +...+..++-. + ...+-...+.+. +.| +++... ..-+|+ T Consensus 169 glt~sg~kvihcSgylKir~y~~~m~p~dscyqn~-----------glv--AvG~slP~saite---------------- 219 (598) T KOG3559 169 GLTCSGYKVIHCSGYLKIRQYELDMSPNDSCYQNV-----------GLV--AVGHSLPPSAITE---------------- 219 (598) T ss_pred CCCCCCCCEEEECCCCEEEEEEECCCCCCCCCCCC-----------EEE--EECCCCCCCCCEE---------------- T ss_conf 65336863486057606899653258774510001-----------069--9557789541147---------------- Q ss_pred HHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCC Q ss_conf 99722597459897689789997889977299943305898899976081205899999999724898489999988698 Q gi|254780903|r 259 TALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHAS 338 (766) Q Consensus 259 ~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~D 338 (766) +--..++-++...++-..+|.+.+..+++||+|.+... .....+||--|......+-..+...+..-.--||+..+. T Consensus 220 -ikl~sNmFmfraslDlkliF~D~rv~qltgYepqdlie--ktLY~~ih~~D~~~lr~~H~~ll~kGqvtTkYYR~l~k~ 296 (598) T KOG3559 220 -IKLHSNMFMFRASLDLKLIFLDSRVHQLTGYEPQDLIE--KTLYHHIHGCDSFHLRCAHHLLLVKGQVTTKYYRFLLKQ 296 (598) T ss_pred -EEECCCEEEEEEECCEEEEEHHHHHHHHHCCCCHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCC T ss_conf -88546507998621157885044678860899422566--778887511128899888899986143140788987707 Q ss_pred CCEEEEEEEEEEEEECCC-EEEEE-EE--EECCCHHHHHHH Q ss_conf 988998899999983796-06999-99--844617999999 Q gi|254780903|r 339 GADIWIQVRAQMMRTISG-GMNII-GI--AMDLTEKYHLEK 375 (766) Q Consensus 339 G~~~Wi~~r~~~i~d~~G-~~~~i-Gi--~~DITErK~ae~ 375 (766) |.|+|+...+..+.+.-. +++++ .+ +.-++|-|.+.- T Consensus 297 ggwvwvqsyat~vHnSrSSR~~fivSvnyVls~~EyK~LqL 337 (598) T KOG3559 297 GGWVWVQSYATFVHNSRSSRPHFIVSVNYVLSELEYKELQL 337 (598) T ss_pred CCEEEEEEEEEEEECCCCCCCEEEEEEEEEEEHHHHHHHEE T ss_conf 85399997446884254577405776656520010334240 No 114 >cd00130 PAS PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction. Probab=97.52 E-value=0.00085 Score=45.33 Aligned_cols=84 Identities=12% Similarity=0.231 Sum_probs=55.4 Q ss_pred HHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCC--CCCCCEEEEEEECCCE--EEE Q ss_conf 445515883499699701789888399978942897178816520137899985211--2456405899916962--874 Q gi|254780903|r 391 TSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDP--ERSQDMSKEIKLADSR--WLQ 466 (766) Q Consensus 391 ~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~e~~~~dg~--~~~ 466 (766) ++++++++|.+|+++++|+++++++|++.+++.+...++.+++.............. .......++....+|. |+. T Consensus 1 ~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 80 (103) T cd00130 1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVIWVL 80 (103) T ss_pred CCEEEEEECCCCCEEEECHHHHHHHCCCHHHHCCCCHHHEECCHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCEEEEE T ss_conf 96289999798989999889999879887891699654245521169999999999974998524899999999999999 Q ss_pred ECCEECCC Q ss_conf 22324569 Q gi|254780903|r 467 INEWCTHD 474 (766) Q Consensus 467 i~~~~~~d 474 (766) ....+..+ T Consensus 81 ~~~~~~~~ 88 (103) T cd00130 81 VSLTPIRD 88 (103) T ss_pred EEEEEEEC T ss_conf 99999999 No 115 >KOG3560 consensus Probab=97.52 E-value=0.00024 Score=49.27 Aligned_cols=222 Identities=16% Similarity=0.140 Sum_probs=122.3 Q ss_pred CCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHHHHCCCCCCCHHHHHCC----CCHHEE-EEEECCCCCCEEEEEE Q ss_conf 97899996998089971420555199788960761043205443320232115----310000-1233157782599997 Q gi|254780903|r 128 ESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELSRSRSRSKTVQMSEASLD----QQPYHV-LSVNLPHNSGSILIIN 202 (766) Q Consensus 128 ~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~-~~~~~~~~~~~~~~~~ 202 (766) ..+++|+..+|.|.+++..-+.++|....|++.++.++....+.-....-.|. -..... ....+...+......+ T Consensus 121 nGF~lVvt~eg~ifyAS~tIedYLGFhQSDV~HQsVYdlIHseDR~dfqrQLhwa~~ppq~~~s~q~~~e~~~~~~~~~~ 200 (712) T KOG3560 121 NGFALVVTAEGEIFYASATIEDYLGFHQSDVMHQSVYDLIHSEDRQDFQRQLHWAMDPPQVVFSQQPPLETGDDAILRAQ 200 (712) T ss_pred CCEEEEEECCCEEEEEHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHCCCCCCCCCCCCCCEEEE T ss_conf 77599995383699740017765352300101045887742220999999876425874332057873113664100110 Q ss_pred ECC----CCHHH--HHHHHHHHHHHHHHHHHHHHH--------------------------HHHHHH-----HHHHHHHH Q ss_conf 423----21012--345565545687887899999--------------------------999888-----89999999 Q gi|254780903|r 203 SRV----PLLRL--WREEVTLEVVFFSIISALLLF--------------------------ILFSYY-----RQAKKNKE 245 (766) Q Consensus 203 ~~~----~~~~~--~r~~~~~~~~~~~~~~~~~~~--------------------------~~~a~~-----~dit~~r~ 245 (766) ... +..+. -|....+..-+++.+++.+.. ..|++. -.+.+.+ T Consensus 201 ~~~d~~ppens~yleRcficR~RCLLDnTsGFLamdfqGklk~LhGqkkk~~~g~~lpP~LaLf~iatP~~pPS~lEi~- 279 (712) T KOG3560 201 EWGDGTPPENSAYLERCFICRFRCLLDNTSGFLAMDFQGKLKFLHGQKKKAPSGAMLPPRLALFCIATPFLPPSALEIK- 279 (712) T ss_pred CCCCCCCCCCCHHHHHHHEEEEEEEECCCCCEEEEECCCCEEEECCCCCCCCCCCCCCCCEEEEEEECCCCCCHHHHHH- T ss_conf 1676678651057764220267776538755056621232100027744488876478850478985377893165410- Q ss_pred HHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCC Q ss_conf 99999999999999972259745989768978999788997729994330589889997608120589999999972489 Q gi|254780903|r 246 NDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHV 325 (766) Q Consensus 246 ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~ 325 (766) ...++..+.-++ ++-.+-.+...+.++||...|... ..-.++||-||...+..+-......+ T Consensus 280 ~k~~i~rtKhkl----------------Dfa~vs~Dak~k~~lgy~eaEL~~--m~gY~lvH~~D~~y~Aeah~e~iktg 341 (712) T KOG3560 280 MKSAILRTKHKL----------------DFALVSMDAKVKATLGYCEAELHG--MPGYNLVHVEDKVYMAEAHSEGIKTG 341 (712) T ss_pred HHHHHHHCCCCC----------------CCCEECCCHHHHHHHCCCHHHCCC--CCCCCEEEHHHHHHHHHHHHHHHHCC T ss_conf 366665200225----------------654003213355543201544057--87633123223455358899986358 Q ss_pred CEEEEEEEEECCCCCEEEEEEEEEEEEECCCEEE-EEEEEECCCH Q ss_conf 8489999988698988998899999983796069-9999844617 Q gi|254780903|r 326 KQLDQIFHMRHASGADIWIQVRAQMMRTISGGMN-IIGIAMDLTE 369 (766) Q Consensus 326 ~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~-~iGi~~DITE 369 (766) ..=-+.||...++|.|-|+..++..++ .+|+|- ++-+.+-.++ T Consensus 342 eSGmlvyR~qtk~grw~wvqssarlly-kngkPD~vi~thr~l~D 385 (712) T KOG3560 342 ESGMLVYREQTKAGRWAWVQSSARLLY-KNGKPDLVIDTHRGLGD 385 (712) T ss_pred CCCEEEEEEEECCCCEEEEECCCEEEE-ECCCCCEEEECCCCCCC T ss_conf 764489998604783798534662434-16888888845877651 No 116 >PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional Probab=97.48 E-value=0.00075 Score=45.72 Aligned_cols=147 Identities=11% Similarity=0.041 Sum_probs=88.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCC-CHHHHHHHHCCCCHHH Q ss_conf 888899999999999999999999997225974598976897899978899772999433058-9889997608120589 Q gi|254780903|r 235 SYYRQAKKNKENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTL-SFRAIARLIHYDNKKI 313 (766) Q Consensus 235 a~~~dit~~r~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~-s~~~~~~~vHPdDr~~ 313 (766) -..+++.+|++++.+|.+...-.+.++++.|..++-.|.+++.+.+|.++...||-+...... .... ....+++.... T Consensus 556 ~L~r~ir~R~~ae~~L~~ql~f~~~L~d~iP~pi~v~d~~g~~i~~N~a~~~~~~~d~~~~~~~~~~~-~~~~~~~~~~~ 634 (1197) T PRK09959 556 YLLRSVRRRKVIQGDLENQISFRKALSDSLPNPTYVVNWQGNVISHNSAFEHYFTADYYKNAMLPLEN-SESPFKDVFSN 634 (1197) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHCCCHHHHCCCCCCC-CCCHHHHHHHH T ss_conf 99999999999999999889999999836998769982556122411888987523144421356532-22215677777 Q ss_pred HHHHHHHHHCCCCEEEEEEEEECCCC-CEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHHHHHHHHH Q ss_conf 99999997248984899999886989-8899889999998379606-99999844617999999999999999 Q gi|254780903|r 314 CEIARSVTGKHVKQLDQIFHMRHASG-ADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRYAEADQRL 384 (766) Q Consensus 314 ~~~a~~~~~~~~~~~~~e~Ri~~~DG-~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l~ese~rl 384 (766) ..............+...|.+ .+| .-+++.-...+...+.+.. .++|..+||||||++|++|+++.+.= T Consensus 635 ~~~~~~~~~~~~~~~~~~~~~--~~g~~~~~i~~w~~~~~~~~~~~~~~i~gw~DITerk~~e~~L~~Ak~~A 705 (1197) T PRK09959 635 THEVTAETKENRTIYTQVFEI--DNGIEKRCINHWHTLCNLPASDHAVYICGWQDITETRDLIHALEVERNKA 705 (1197) T ss_pred HHHHHHHHHHCCCCCCEEEEC--CCCCCCEEEEEEEEEECCCCCCCEEEECCEEEHHHHHHHHHHHHHHHHHH T ss_conf 789987531012100014530--57754236775310003764444010115464128999999999999999 No 117 >COG5385 Uncharacterized protein conserved in bacteria [Function unknown] Probab=97.46 E-value=0.011 Score=37.33 Aligned_cols=193 Identities=13% Similarity=0.152 Sum_probs=127.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHH Q ss_conf 99987675222478999999998603468899389999999999999999999777677888741983012033169999 Q gi|254780903|r 546 FLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPI 625 (766) Q Consensus 546 fla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~ 625 (766) +.+-+.||+-.|..+|..-+|||.++.. ..+.++.|..|+..+. +.|.|+|+--|-.-..-..+|-.+. T Consensus 18 LcsRvCHDiISPvgAInnGLeLLdeg~a-------ddDAm~LIrsSArnas----~rLqFaR~AFGAsgSag~~iDtgea 86 (214) T COG5385 18 LCSRVCHDIISPVGAINNGLELLDEGGA-------DDDAMDLIRSSARNAS----VRLQFARLAFGASGSAGASIDTGEA 86 (214) T ss_pred HHHHHHHHCCCCHHHHHCHHHHHCCCCC-------CHHHHHHHHHHHHHHH----HHHHHHHHHHCCCCCCCCCCCCHHH T ss_conf 9998875404817776032566426896-------4789999999765178----8877889872555543335660669 Q ss_pred HHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECCC--C Q ss_conf 99999999999984795899980899789986899999999988656534689888999999979989999997889--7 Q gi|254780903|r 626 INEGIRLIGSSAQSKNIKIEKKIPSELFFNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTGI--G 703 (766) Q Consensus 626 i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G~--G 703 (766) =.-+...+. .+| -++.++.+..+ ...++. ..++||+-=|--..|.||.+.++.+..+..-+|+|.-.|. - T Consensus 87 ek~A~~~~a---~ek-pe~~W~g~r~~---~~Kn~v-kllLNl~lia~~aiPrGG~~~vtle~~e~d~rfsi~akG~m~R 158 (214) T COG5385 87 EKAAQDFFA---NEK-PELTWNGPRAI---LPKNRV-KLLLNLFLIAYGAIPRGGSLVVTLENPETDARFSIIAKGRMMR 158 (214) T ss_pred HHHHHHHHH---CCC-CCCCCCCCHHH---CCCCHH-HHHHHHHHHHCCCCCCCCEEEEEEECCCCCCEEEEEECCCCCC T ss_conf 999999986---238-71235587422---475058-9999999997055788982689953677674389983275344 Q ss_pred CCHHHHHHH-CCCEEECCCCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCEEEEEECC Q ss_conf 897785430-46505314675567788761689999999962986999979899529999735 Q gi|254780903|r 704 IPKSALEKI-GQPFEPLHNQYDQSIGGFGLGLAISDALTNLHGGRLKIISQEGKGTIVTICMP 765 (766) Q Consensus 704 I~~e~~~~i-F~pF~q~~~~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S~~g~Gttf~i~LP 765 (766) .||+.++-+ .+|- ....++.-.-=+-.--+++.-|++|.|++... -..|+-..| T Consensus 159 vppk~lel~~G~~~-------eE~vdahsVQpyYt~lLa~eAgm~I~v~~~~e-~iv~~A~v~ 213 (214) T COG5385 159 VPPKFLELHSGEPP-------EEAVDAHSVQPYYTLLLAEEAGMTISVHATAE-RIVFTAWVV 213 (214) T ss_pred CCHHHHHHHCCCCC-------CCCCCCCCCCHHHHHHHHHHCCCEEEEEECCC-EEEEEEECC T ss_conf 79899865059984-------22478753039999999997098689996364-379997514 No 118 >COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair] Probab=97.33 E-value=0.00042 Score=47.56 Aligned_cols=51 Identities=10% Similarity=0.018 Sum_probs=25.1 Q ss_pred CCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHHHHHHH Q ss_conf 012033169999999999999999847958999808997899868999999 Q gi|254780903|r 614 SIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADKRIIKKI 664 (766) Q Consensus 614 ~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~~l~QV 664 (766) -+-+..++|.+--...+..-...+...++.+....+..+.|..=|..++|. T Consensus 501 LliP~~~~l~~~e~~~~~~~~~~l~~~G~~i~~~g~~~~~v~~vP~~l~~~ 551 (638) T COG0323 501 LLIPIRLELSPEEADVLEEHKEELEKLGFEIESFGENSVAVRSVPAMLGKA 551 (638) T ss_pred CCCCEEEECCHHHHHHHHHHHHHHHHCCEEEEECCCCEEEEEECCHHHCCC T ss_conf 444825414989999999989999867889997389469998168243542 No 119 >PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional Probab=97.28 E-value=0.0018 Score=42.91 Aligned_cols=27 Identities=4% Similarity=0.199 Sum_probs=17.2 Q ss_pred EEEEECCCCCEEEECCCHHHHCCCCHHHHC Q ss_conf 899996998089971420555199788960 Q gi|254780903|r 130 FILLAQPNELVFASSTKNSHYIGKKIGEII 159 (766) Q Consensus 130 ~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~ 159 (766) +-+..|.+.+.+.....+. |.+-++++ T Consensus 63 I~I~~D~~~~tltI~D~GI---GMt~~el~ 89 (701) T PTZ00272 63 IRVVPDKENKTLTVEDNGI---GMTKADLV 89 (701) T ss_pred EEEEECCCCCEEEEEECCC---CCCHHHHH T ss_conf 9999758789799994388---88999999 No 120 >PRK11086 sensory histidine kinase DcuS; Provisional Probab=97.03 E-value=0.03 Score=34.16 Aligned_cols=291 Identities=13% Similarity=0.060 Sum_probs=135.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCC-CEEEEECCCCCEEEE Q ss_conf 9999999967688899989999999999998501001122355489999999998853101789-789999699808997 Q gi|254780903|r 65 TSSIIKVTTRYAQQEKMTNQTSLMLTEAIEIIFQNNNIKFDLASQKKAESMLGQLLAKTRFLSE-SFILLAQPNELVFAS 143 (766) Q Consensus 65 ~~~~~~i~~~~~~~~~~~~~~~~lla~~~~~~~~~~~~~~d~~~~~~ae~~L~~~~~~~~~~~~-~~i~i~d~~g~i~~~ 143 (766) +..++.......+.+......+...|..++.. ..+...... +.....++.+....+..++ ++|++.|.+|. .++ T Consensus 34 ~~~~~~~~~~~~~~~~~~~~~a~~~A~~vA~~---p~v~~~~~~-~~~~~~lq~~~~~ir~~~~~~fIvv~d~~gi-r~s 108 (541) T PRK11086 34 VVHLLYFSQISDMTRDGLAEKALAVARTVADS---PIVIQGLQK-KPQESGIQTYAEAVRKRNDLLFIVVTDMQGI-RYS 108 (541) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---HHHHHHHHC-CCCCHHHHHHHHHHHHHCCCEEEEEECCCCE-EEE T ss_conf 99999999999999999999999999999769---689998618-9960889999999999729829999869971-853 Q ss_pred CCCHHHHCCCCHHHHCCCCHHHHCCCCCCCHHHHHCCCCHHEEEEEECCCCC----CEEEEEEECCCCHHHHHHHHHHHH Q ss_conf 1420555199788960761043205443320232115310000123315778----259999742321012345565545 Q gi|254780903|r 144 STKNSHYIGKKIGEIIPELSRSRSRSKTVQMSEASLDQQPYHVLSVNLPHNS----GSILIINSRVPLLRLWREEVTLEV 219 (766) Q Consensus 144 n~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~r~~~~~~~ 219 (766) .|. +...|.+... +...+......+.......+ .++.-...++.+.. |.+.+........... ..... T Consensus 109 Hp~-~~~iG~~~~g--~d~~~aL~g~~~~s~~~Gtl--G~s~r~~~Pv~~~~g~~iG~V~VG~~~~~i~~~~-~~~~~-- 180 (541) T PRK11086 109 HPN-PQKIGKPFIG--GDELPALQGKENVSINRGTL--GQSLRVFTPVYDENGKQIGVVAVGISLSEVTQQI-NESRW-- 180 (541) T ss_pred CCC-HHHCCCCCCC--CCHHHHHCCCCEEEEEECCC--CCEEEEEECCCCCCCCEEEEEEEEECHHHHHHHH-HHHHH-- T ss_conf 899-7886997768--87678857763599961455--6457998551838997899999981188899999-99999-- Q ss_pred HHHHHHHHHHHH-HHHHHH--HHHHHH---HHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHH Q ss_conf 687887899999-999888--899999---99999999999999999722597459897689789997889977299943 Q gi|254780903|r 220 VFFSIISALLLF-ILFSYY--RQAKKN---KENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYE 293 (766) Q Consensus 220 ~~~~~~~~~~~~-~~~a~~--~dit~~---r~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~ 293 (766) .++......+++ ++.+++ +-+++. -+.++..+-.++| +.++++.+.|+.-.|.++..+.+|+++.+||+..+. T Consensus 181 ~i~~~~~~~lllg~~~a~~lar~ikr~l~glEP~eIa~l~~er-~aiL~s~~eGVIavD~~g~I~l~N~~A~~ll~~~~~ 259 (541) T PRK11086 181 SIYWSILFGALVGLIGAVILVRVLKKILFGLEPYEISTLFEQR-QAMLQSIKEGVIAVDDRGEVTLINDEAQRLFYKKGQ 259 (541) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH-HHHHHHHHCEEEEECCCCEEEEECHHHHHHHCCCCC T ss_conf 9999999999999999999999999986379999999999999-999853001699975898799984999987433588 Q ss_pred H-CCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEEEECCCHHHH Q ss_conf 3-058988999760812058999999997248984899999886989889988999999837960699999844617999 Q gi|254780903|r 294 N-KTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTISGGMNIIGIAMDLTEKYH 372 (766) Q Consensus 294 e-~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DITErK~ 372 (766) + ...+ ....+ +.|++. ..+.........+.+.++ +|.. +.....|+...+...+.+.+.+|+||.++ T Consensus 260 ~~~~~g-~~~~~-~~~~~~-----l~~vl~~~~~~~d~e~~~---~~~~--l~~~~~pi~~~g~~~G~V~~~rD~TE~~~ 327 (541) T PRK11086 260 EDDPLS-TDVHS-WSPVSR-----LKEVLRTGTPRRDEEINI---NGRL--LLTNTVPVRVNGEIIGAISTFRDKTEVRQ 327 (541) T ss_pred CCCCCC-CCHHH-HCCCHH-----HHHHHHCCCCCCEEEEEE---CCEE--EEEEEEEEEECCEEEEEEEEEECHHHHHH T ss_conf 743125-51777-275455-----999984488531079998---9989--99997776548906899999844278999 Q ss_pred HHHHHHHHH Q ss_conf 999999999 Q gi|254780903|r 373 LEKRYAEAD 381 (766) Q Consensus 373 ae~~l~ese 381 (766) ++++|.... T Consensus 328 L~~~L~~v~ 336 (541) T PRK11086 328 LAQRLDGVV 336 (541) T ss_pred HHHHHHHHH T ss_conf 999999999 No 121 >COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones] Probab=96.98 E-value=0.0015 Score=43.51 Aligned_cols=95 Identities=16% Similarity=0.102 Sum_probs=45.7 Q ss_pred EEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEE-----ECHHHHHHHHHHHHHHHHHCC-CCCCEEEEEEEEECC Q ss_conf 33169999999999999999847958999808997899-----868999999999886565346-898889999999799 Q gi|254780903|r 618 QNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFN-----ADKRIIKKILFPILSNSIKFT-NNNGKMMIRTSKIGQ 691 (766) Q Consensus 618 ~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~-----~D~~~l~QVl~NLi~NAik~t-~~~g~I~i~~~~~~~ 691 (766) +.+-+.+-|++..-..-+..+.|.+.-....+..+.-. .+....++.+--|+.=.-+.. .....|+++.+..+. T Consensus 452 eVL~l~d~iDe~~l~~~~e~egk~~~~i~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~k~~L~~~vk~Vr~s~rl~ds 531 (623) T COG0326 452 EVLLLTDRIDEFMLTMLPEFEGKPFKSITKGDLDLELLEEEDEADSEEEKKEFKPLLERVKEILGDKVKDVRLSHRLTDS 531 (623) T ss_pred EEEECCCCCHHHHHHHHHHCCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCC T ss_conf 79954765217876410320576334512354433335011220057777778999999999846732115730346789 Q ss_pred EEEEEEEECCCCCCHHHHHHHCCC Q ss_conf 899999978897897785430465 Q gi|254780903|r 692 CVIITIADTGIGIPKSALEKIGQP 715 (766) Q Consensus 692 ~v~i~V~D~G~GI~~e~~~~iF~p 715 (766) -.++.+...++. .+++|++.. T Consensus 532 pa~l~~~~~~~~---~~m~r~l~~ 552 (623) T COG0326 532 PACLTTDGADLS---TQMERLLKA 552 (623) T ss_pred CCEEECCCCCHH---HHHHHHHHH T ss_conf 634554766635---999999985 No 122 >TIGR01924 rsbW_low_gc anti-sigma B factor; InterPro: IPR010193 This entry describes the anti-sigma B factor also known as serine-protein kinase RsbW. Sigma B controls the general stress regulon in B subtilis and is activated by cell stresses such as stationary phase and heat shock. RsbW binds to sigma B and prevents formation of the transcription complex at the promoter . RsbV (anti-anti-sigma factor) binds to RsbW to inhibit association with sigma B, however RsbW can phosphorylate RsbV, causing disassociation of the RsbV/RsbW complex . Low ATP level or environmental stress causes the dephosphorylation of RsbV .; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0016989 sigma factor antagonist activity, 0006468 protein amino acid phosphorylation, 0045892 negative regulation of transcription DNA-dependent. Probab=96.96 E-value=0.002 Score=42.68 Aligned_cols=91 Identities=18% Similarity=0.240 Sum_probs=67.0 Q ss_pred HHHHHHHHHHHHHHHCCC---CC-CEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCCCCCHHHH Q ss_conf 999999998865653468---98-88999999979989999997889789778543046505314675567788761689 Q gi|254780903|r 660 IIKKILFPILSNSIKFTN---NN-GKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIGGFGLGLA 735 (766) Q Consensus 660 ~l~QVl~NLi~NAik~t~---~~-g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~GtGLGLa 735 (766) =||=.+.-=|.|||||.- ++ |.|+|+...-+|.+.|.|+|+|-=.+-+....=-.||-.-+.--.=+.| ||||. T Consensus 43 D~KIAVSEA~TN~V~HAYke~~nvG~~~i~F~iyEDklev~vsD~G~SFD~d~~k~~lGPyd~~~~i~~L~eG--GLGLF 120 (161) T TIGR01924 43 DLKIAVSEACTNAVKHAYKEEENVGEISIEFEIYEDKLEVIVSDEGDSFDLDTKKQELGPYDKSEDIDQLREG--GLGLF 120 (161) T ss_pred HHHHHHHHHHCCCEEEEECCCCCEEEEEEEEEEEEEEEEEEEECCCCCCCHHHHHHHCCCCCCCCCHHHHHCC--CCHHH T ss_conf 0677665553033112230898367899888788757899982078641110025325897957875432017--71366 Q ss_pred HHHHHHHHCCCEEEEEEECCC Q ss_conf 999999962986999979899 Q gi|254780903|r 736 ISDALTNLHGGRLKIISQEGK 756 (766) Q Consensus 736 I~k~iVe~hgG~I~v~S~~g~ 756 (766) +. |-.==.+++....|. T Consensus 121 Li----etLMD~V~~~~~sGV 137 (161) T TIGR01924 121 LI----ETLMDEVKVYEDSGV 137 (161) T ss_pred HH----HCCCCEEEEEECCCE T ss_conf 45----103761699832860 No 123 >PRK05218 heat shock protein 90; Provisional Probab=96.93 E-value=0.0014 Score=43.72 Aligned_cols=28 Identities=14% Similarity=0.133 Sum_probs=16.5 Q ss_pred CEEEEECCCCCEEEECCCHHHHCCCCHHHHC Q ss_conf 7899996998089971420555199788960 Q gi|254780903|r 129 SFILLAQPNELVFASSTKNSHYIGKKIGEII 159 (766) Q Consensus 129 ~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~ 159 (766) .+-+..|.+.+.+.....+. |.+.+|+. T Consensus 62 ~I~I~~d~~~~tl~I~D~GI---GMt~~El~ 89 (612) T PRK05218 62 RIRISFDKEARTLTISDNGI---GMTREEVI 89 (612) T ss_pred EEEEEECCCCCEEEEEECCC---CCCHHHHH T ss_conf 69999759899899995388---88999999 No 124 >KOG3559 consensus Probab=96.85 E-value=0.013 Score=36.81 Aligned_cols=180 Identities=12% Similarity=0.163 Sum_probs=103.7 Q ss_pred CC-EEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEE------------- Q ss_conf 74-5989768978999788997729994330589889997608120589999999972489848999------------- Q gi|254780903|r 266 CG-LWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQI------------- 331 (766) Q Consensus 266 ~G-iWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e------------- 331 (766) +| ++..+.+++.+|.|+..---+|++.-| ++...+.+.|||.|.+.+......-. ....+++| T Consensus 89 DGF~fvva~dGkimYISETaSvhLGLSQVE--lTGNsi~eYIH~~D~demna~L~~h~-H~qeyeIErsfflrmkCvlak 165 (598) T KOG3559 89 DGFIFVVAPDGKIMYISETASVHLGLSQVE--LTGNSIYEYIHPQDHDEMNAVLTAHQ-HLQEYEIERSFFLRMKCVLAK 165 (598) T ss_pred CCEEEEEECCCCEEEEECCEEEEECCEEEE--EECCHHHHHHCCCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH T ss_conf 545999927998899850113452300046--50623766406012578988876432-444300334311234331000 Q ss_pred ---------EEEECCCCCEEEEEEEEEEEE-ECCC----EEEEEEEEE-----CCCHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf ---------998869898899889999998-3796----069999984-----461799999999999999999998544 Q gi|254780903|r 332 ---------FHMRHASGADIWIQVRAQMMR-TISG----GMNIIGIAM-----DLTEKYHLEKRYAEADQRLSKAIECTS 392 (766) Q Consensus 332 ---------~Ri~~~DG~~~Wi~~r~~~i~-d~~G----~~~~iGi~~-----DITErK~ae~~l~ese~rlr~~ie~~~ 392 (766) |..+|..|-+ ..+-..+. +..+ +++++.+.. -|||-|-- .. T Consensus 166 rnaglt~sg~kvihcSgyl---Kir~y~~~m~p~dscyqn~glvAvG~slP~saiteikl~-----------------sN 225 (598) T KOG3559 166 RNAGLTCSGYKVIHCSGYL---KIRQYELDMSPNDSCYQNVGLVAVGHSLPPSAITEIKLH-----------------SN 225 (598) T ss_pred HCCCCCCCCCCEEEECCCC---EEEEEEECCCCCCCCCCCCEEEEECCCCCCCCCEEEEEC-----------------CC T ss_conf 0246533686348605760---689965325877451000106995577895411478854-----------------65 Q ss_pred HHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCCC--CCEEEEEEECCCEEEEEC Q ss_conf 5515883499699701789888399978942897178816520137899985211245--640589991696287422 Q gi|254780903|r 393 EALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPERS--QDMSKEIKLADSRWLQIN 468 (766) Q Consensus 393 ~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~e~~~~dg~~~~i~ 468 (766) ..++....|-.+++...+..+++||++.+++.++.|..++..+..........-..++ ...-|+..+..|-|.++- T Consensus 226 mFmfraslDlkliF~D~rv~qltgYepqdliektLY~~ih~~D~~~lr~~H~~ll~kGqvtTkYYR~l~k~ggwvwvq 303 (598) T KOG3559 226 MFMFRASLDLKLIFLDSRVHQLTGYEPQDLIEKTLYHHIHGCDSFHLRCAHHLLLVKGQVTTKYYRFLLKQGGWVWVQ 303 (598) T ss_pred EEEEEEECCEEEEEHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCEEEEE T ss_conf 079986211578850446788608994225667788875111288998888999861431407889877078539999 No 125 >PTZ00130 heat shock protein 90; Provisional Probab=96.30 E-value=0.0073 Score=38.61 Aligned_cols=27 Identities=11% Similarity=0.037 Sum_probs=16.1 Q ss_pred CEEEEEEEEECCEEEEEEEECCCCCCH Q ss_conf 889999999799899999978897897 Q gi|254780903|r 680 GKMMIRTSKIGQCVIITIADTGIGIPK 706 (766) Q Consensus 680 g~I~i~~~~~~~~v~i~V~D~G~GI~~ 706 (766) ..|.|+-|..+.-+|+.-.+.|..-.. T Consensus 653 ~~V~vS~RL~dSP~~LVa~e~G~SanM 679 (824) T PTZ00130 653 FKVEISRRLVDAPCAVVSTEWGLSGQM 679 (824) T ss_pred EEEEECCCCCCCCEEEECCCCCCCHHH T ss_conf 089832775788828981787888889 No 126 >COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms] Probab=96.30 E-value=0.091 Score=30.68 Aligned_cols=129 Identities=16% Similarity=0.132 Sum_probs=83.7 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCC Q ss_conf 99999999999999997225974598976897899978899772999433058988999760812058999999997248 Q gi|254780903|r 245 ENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKH 324 (766) Q Consensus 245 ~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~ 324 (766) ++-+++++++.-++..++....|+.-.|-.+....+|++..+|||.+..+..+. + ++-+-|+=-..+..+ .... T Consensus 360 ~ak~~~e~rr~f~E~VLsgvtaGVi~~d~~g~i~t~N~~ae~~l~~~~~~~~G~--~-lsa~ap~~~~vf~~~-~a~~-- 433 (712) T COG5000 360 RAKDALEQRRRFLEAVLSGLTAGVIGFDNRGCITTVNPSAEQILGKPFDQLLGQ--S-LSAIAPELEEVFAEA-GAAA-- 433 (712) T ss_pred HHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEEECCHHHHHHCCCHHHHHCH--H-HHHHHHHHHHHHHHH-HHHC-- T ss_conf 878889999988999981585038997478707762601788846870676440--2-664213789999976-5403-- Q ss_pred CCEEEEEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEEEECCCHHHHHHHHHHHHH Q ss_conf 984899999886989889988999999837960699999844617999999999999 Q gi|254780903|r 325 VKQLDQIFHMRHASGADIWIQVRAQMMRTISGGMNIIGIAMDLTEKYHLEKRYAEAD 381 (766) Q Consensus 325 ~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DITErK~ae~~l~ese 381 (766) ...+..+.-+-+ -|+.+-++.++.....+ +.-.++-++-|||+--.|+....-++ T Consensus 434 ~~~~~~ev~~~r-~g~~rtl~Vq~t~~~~d-~~~gyVvt~DDITdLV~AQRs~AW~d 488 (712) T COG5000 434 RTDKRVEVKLAR-EGEERTLNVQATREPED-NGNGYVVTFDDITDLVIAQRSAAWGD 488 (712) T ss_pred CCCCCEEEECCC-CCCCEEEEEEEEECCCC-CCCCEEEEECCHHHHHHHHHHHHHHH T ss_conf 877420100014-78741566675321444-68856999635089999999878999 No 127 >KOG0501 consensus Probab=96.15 E-value=0.012 Score=37.16 Aligned_cols=103 Identities=10% Similarity=0.113 Sum_probs=66.7 Q ss_pred CCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCC--CHHHHHHHHHHHH-CCCCEEEEEEEEECCCC Q ss_conf 25974598976897899978899772999433058988999760812--0589999999972-48984899999886989 Q gi|254780903|r 263 RGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYD--NKKICEIARSVTG-KHVKQLDQIFHMRHASG 339 (766) Q Consensus 263 ~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPd--Dr~~~~~a~~~~~-~~~~~~~~e~Ri~~~DG 339 (766) -++.-+-||- .+|.|+.+|.+-||...+.... ...-+++|-| |.+.++..++.+. .+... .|.-+..++- T Consensus 32 L~NAQiVD~P----iVY~NdgFcKlsGY~RAevMQK-s~tc~FMyGEltdk~ti~k~~~t~eN~~~~q--fEillyKKN~ 104 (971) T KOG0501 32 LANAQIVDWP----IVYCNDGFCKLSGYHRAEVMQK-SCTCSFMYGELTDKGTIEKVRQTLENYETNQ--FEILLYKKNR 104 (971) T ss_pred ECCCEEECCC----EEEECCCCHHCCCCCHHHHHCC-CCEEEEEECCCCCHHHHHHHHHHHHHHHHCC--EEEEEEECCC T ss_conf 4355253140----5883476211247459988625-6423332013345116999999997543121--2367661589 Q ss_pred CEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHH Q ss_conf 8899889999998379606-99999844617999 Q gi|254780903|r 340 ADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYH 372 (766) Q Consensus 340 ~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ 372 (766) ..+|+.....|++++...+ -+..+..|||.-|+ T Consensus 105 TPvW~~vqiAPIrNe~d~VVLfLctFkDIT~~KQ 138 (971) T KOG0501 105 TPVWLLVQIAPIRNEKDKVVLFLCTFKDITALKQ 138 (971) T ss_pred CCEEEEEEEECCCCCCCEEEEEEEECCCCHHHCC T ss_conf 8559999840235777518999951146443238 No 128 >pfam08447 PAS_3 PAS fold. The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. Probab=96.11 E-value=0.02 Score=35.38 Aligned_cols=75 Identities=9% Similarity=0.204 Sum_probs=46.0 Q ss_pred EEEECHHHHHHHCCCHHHHCCCC--CHHHHCCCHHHHHHHHHH---HCCCCCCCEEEEEEECCC--EEEEECCEEC--CC Q ss_conf 99701789888399978942897--178816520137899985---211245640589991696--2874223245--69 Q gi|254780903|r 404 LVMCNANYQKAYGLPDHVLVPGN--ARSIIQDAQTRPIIEYRT---SDPERSQDMSKEIKLADS--RWLQINEWCT--HD 474 (766) Q Consensus 404 i~~~N~~~~~~~g~~~~~~~~~~--~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~e~~~~dg--~~~~i~~~~~--~d 474 (766) ++++|+++.+++||+++++.+.. ..+.++|++......... .........++++..+|| +|+.....+. .+ T Consensus 1 v~y~s~~~~~i~G~~~~e~~~~~~~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~~e~R~~~~dG~~~wi~~~~~~~~d~~ 80 (90) T pfam08447 1 IIYWSPRFEEILGYTPEELKSSYEDWLDLVHPEDRERVRRALQEFSLKKGEPYSGEYRIRRKDGEYRWVEARGRPIRDEN 80 (90) T ss_pred CEEECHHHHHHHCCCCHHCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCEEEEEEEEEEEECCC T ss_conf 99999899998499901107998899987190568899988788886058740468999815993999999999999999 Q ss_pred CCEE Q ss_conf 9789 Q gi|254780903|r 475 GGTI 478 (766) Q Consensus 475 g~~v 478 (766) |..+ T Consensus 81 G~~~ 84 (90) T pfam08447 81 GKPV 84 (90) T ss_pred CCEE T ss_conf 9999 No 129 >COG5381 Uncharacterized protein conserved in bacteria [Function unknown] Probab=96.07 E-value=0.016 Score=36.18 Aligned_cols=90 Identities=22% Similarity=0.355 Sum_probs=53.3 Q ss_pred EECHHHHHH---HHHH-HHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHH------CCCE----EECC Q ss_conf 986899999---9999-886565346898889999999799899999978897897785430------4650----5314 Q gi|254780903|r 655 NADKRIIKK---ILFP-ILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKI------GQPF----EPLH 720 (766) Q Consensus 655 ~~D~~~l~Q---Vl~N-Li~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~i------F~pF----~q~~ 720 (766) .+|...++. -+.| ||.||+||.. +|.|.|.+........+.|+.--.+=......++ .+|- +|.+ T Consensus 54 r~dy~evrhsvgYl~NELiENAVKfra-~geIvieasl~s~~f~~kvsN~vd~~t~~~f~~ll~~it~gDP~dLlieRiE 132 (184) T COG5381 54 RADYDEVRHSVGYLANELIENAVKFRA-TGEIVIEASLYSHKFIFKVSNIVDLPTTIDFENLLKVITEGDPLDLLIERIE 132 (184) T ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCCC-CCCEEEEEEECCCEEEEEECCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHH T ss_conf 441888734588989999986660157-9858999983140688873035788518889999999860792999999998 Q ss_pred CCCCC-CCCCCCHHHHHHHHHHHHCCCEE Q ss_conf 67556-77887616899999999629869 Q gi|254780903|r 721 NQYDQ-SIGGFGLGLAISDALTNLHGGRL 748 (766) Q Consensus 721 ~~~t~-~~~GtGLGLaI~k~iVe~hgG~I 748 (766) .+-+. ...|+||||-.- +.-+|-+. T Consensus 133 anA~~~d~~gSglGLLTl---msDYgA~f 158 (184) T COG5381 133 ANALESDCEGSGLGLLTL---MSDYGAQF 158 (184) T ss_pred HHCCCCCCCCCCCCCEEH---HHHHCCEE T ss_conf 603588876566410001---23423326 No 130 >PRK10364 sensor protein ZraS; Provisional Probab=95.80 E-value=0.15 Score=29.10 Aligned_cols=102 Identities=8% Similarity=0.093 Sum_probs=45.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 25788765899999999999999999996768889998999999999999850100112235548999999999885310 Q gi|254780903|r 45 FSSFNQTIPMISMVFLVFIATSSIIKVTTRYAQQEKMTNQTSLMLTEAIEIIFQNNNIKFDLASQKKAESMLGQLLAKTR 124 (766) Q Consensus 45 ~~~~rr~ip~~i~~fli~~~~~~~~~i~~~~~~~~~~~~~~~~lla~~~~~~~~~~~~~~d~~~~~~ae~~L~~~~~~~~ 124 (766) -.|+-..+|. +.++.+....++.+.+..|+.+...+..+.--+..+-+..+-...- ..-+.. ...++..+.... T Consensus 12 ~~~~~~~~~~---~~~~~~~~~~~~~~~~~~r~~~~~~~~l~~~g~~li~a~eag~r~g--m~~~~~-~~~~q~ll~e~a 85 (455) T PRK10364 12 AKWLSAILPV---VIVGLVGLFAVTVIRDYGRETAAARQTLLEKGSVLIRALESGSRVG--MGMRMH-HAQQQALLEEMA 85 (455) T ss_pred HHHHHHHHHH---HHHHHHHHHHEEEECCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHH--CCCCCH-HHHHHHHHHHHH T ss_conf 9999999999---9999998871357510125899999999998899999987032021--552420-479999999971 Q ss_pred CCCC-CEEEEECCCCCEEEECCCHHHHCCCC Q ss_conf 1789-78999969980899714205551997 Q gi|254780903|r 125 FLSE-SFILLAQPNELVFASSTKNSHYIGKK 154 (766) Q Consensus 125 ~~~~-~~i~i~d~~g~i~~~n~~~~~~~G~~ 154 (766) ..++ .++.++|.+|+|++-+.. ...|.+ T Consensus 86 ~q~~v~~~~v~d~~g~i~~hs~~--~~~g~~ 114 (455) T PRK10364 86 GQPGVLWFAVTDEQGTIIMHSNS--GMVGKQ 114 (455) T ss_pred CCCCEEEEEEECCCCCEEEECCH--HHCCCC T ss_conf 59986999998899638984785--644885 No 131 >KOG3560 consensus Probab=94.27 E-value=0.39 Score=26.08 Aligned_cols=71 Identities=11% Similarity=0.088 Sum_probs=53.1 Q ss_pred CCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHH--HHHHHCCCCCCCEEEEEEECCCEEEEECC Q ss_conf 349969970178988839997894289717881652013789--99852112456405899916962874223 Q gi|254780903|r 399 DKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPII--EYRTSDPERSQDMSKEIKLADSRWLQINE 469 (766) Q Consensus 399 D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~e~~~~dg~~~~i~~ 469 (766) -.|+.++-|..+...++||.+.++.++.-|+.++-++..... ..........+-..|+.+.++|+|.++-. T Consensus 290 klDfa~vs~Dak~k~~lgy~eaEL~~m~gY~lvH~~D~~y~Aeah~e~iktgeSGmlvyR~qtk~grw~wvqs 362 (712) T KOG3560 290 KLDFALVSMDAKVKATLGYCEAELHGMPGYNLVHVEDKVYMAEAHSEGIKTGESGMLVYREQTKAGRWAWVQS 362 (712) T ss_pred CCCCCEECCCHHHHHHHCCCHHHCCCCCCCCEEEHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCEEEEEC T ss_conf 2565400321335554320154405787633123223455358899986358764489998604783798534 No 132 >KOG3753 consensus Probab=94.27 E-value=0.055 Score=32.27 Aligned_cols=41 Identities=5% Similarity=0.044 Sum_probs=22.7 Q ss_pred CCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHH Q ss_conf 49969970178988839997894289717881652013789 Q gi|254780903|r 400 KNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPII 440 (766) Q Consensus 400 ~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~ 440 (766) ...-+..+..+..-++||-..++++......+++.++.... T Consensus 339 ptClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~ 379 (1114) T KOG3753 339 PTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMV 379 (1114) T ss_pred CCCEEEECCHHHHHHHCCCCHHHHCCCHHHHHCCCCHHHHH T ss_conf 86003413254422320472655264165531677428999 No 133 >KOG0019 consensus Probab=93.93 E-value=0.094 Score=30.58 Aligned_cols=21 Identities=19% Similarity=0.352 Sum_probs=11.9 Q ss_pred EEEEEEEEECCEEEEEEEECC Q ss_conf 899999997998999999788 Q gi|254780903|r 681 KMMIRTSKIGQCVIITIADTG 701 (766) Q Consensus 681 ~I~i~~~~~~~~v~i~V~D~G 701 (766) .|+|+-+....-++|.+..-| T Consensus 535 kV~vs~RlvssPc~I~t~~~g 555 (656) T KOG0019 535 KVTVNNRLVSHPAMITTLEYG 555 (656) T ss_pred EEEECCCCCCCCEEEEECCCC T ss_conf 999537546885289850001 No 134 >KOG3561 consensus Probab=93.80 E-value=0.11 Score=30.01 Aligned_cols=329 Identities=8% Similarity=0.013 Sum_probs=148.8 Q ss_pred CCCCCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHHHHCCCCCCCHHHHHCC--CCHHEEEEEECCCCCCEEEEEE Q ss_conf 17897899996998089971420555199788960761043205443320232115--3100001233157782599997 Q gi|254780903|r 125 FLSESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELSRSRSRSKTVQMSEASLD--QQPYHVLSVNLPHNSGSILIIN 202 (766) Q Consensus 125 ~~~~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~~~~~~~~~~~~~~~ 202 (766) .+.+.+++++..+|+|++++.....++||...|+++.+.+.+..+...+.....+- ........+.+....+.. . . T Consensus 102 eAlDGF~fvV~cdG~IvyVSeSVT~~L~y~QsDL~~qSly~ilhp~d~~~~~~ql~~r~~e~~f~~r~l~~~~~~~-~-~ 179 (803) T KOG3561 102 EALDGFLFVVNCDGRIVYVSESVTSVLGYLQSDLMGQSLYDILHPLDNDKPREQLSPRSNEHTFNCRLLDGKTGPP-P-E 179 (803) T ss_pred HHHCCEEEEEECCCEEEEEECCHHHHHCCCHHHHHCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCC-H-H T ss_conf 9746748999657459999554477658687887334198760843247636012664222350032213678986-5-7 Q ss_pred ECCCCHHHHHHHHHHHHHH---HHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEE Q ss_conf 4232101234556554568---78878999-------9999988889999999999999999999999722597459897 Q gi|254780903|r 203 SRVPLLRLWREEVTLEVVF---FSIISALL-------LFILFSYYRQAKKNKENDTILLEANICVETALSRGRCGLWNFN 272 (766) Q Consensus 203 ~~~~~~~~~r~~~~~~~~~---~~~~~~~~-------~~~~~a~~~dit~~r~ae~~l~ese~rl~~al~~a~~GiWd~D 272 (766) +........+..+...-.- |.+...+. -.+.++ .+-.+.....+ +--...|+.... +- -|+|- T Consensus 180 E~~~~~~~~~~~~~~~~~s~e~~~~~i~~~~~~~~~~~~~~~~-~r~~~p~~~~~--~~~id~~~~~~a---Rr-sfe~r 252 (803) T KOG3561 180 EAVKFYGNFQCFTNSQPKSIEGFQSTICRQRRKAEGDRVCFGV-SRLTTPQLIGE--MCIIDTRLCEGA---RR-SFECR 252 (803) T ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCC-CCCCCHHHCCC--EECCCCCCCCCC---CC-CHHHH T ss_conf 7654331012234467532234213300103456667554432-22354112032--000355101134---43-53355 Q ss_pred CCCCEEEECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEE- Q ss_conf 6897899978899772999433058988999760812058999999997248984899999886989889988999999- Q gi|254780903|r 273 FDNKKFHLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMM- 351 (766) Q Consensus 273 ~~~~~i~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i- 351 (766) +. +.+.++.-+-||.+-+....+... ...|-+|...+........-....-..-||...++-+|+|+......- T Consensus 253 ~r----~~~~r~~p~~gy~~~~~~g~~~~~-~~~~~~~~~~y~~~h~~g~~~s~~~~c~~~~~t~~~q~~~~~~d~~i~~ 327 (803) T KOG3561 253 MR----FCDHRAPPIIGYEPFEVLGTSRNY-DYYHKDDLPNYRVIHCTGYIKSAGPSCKYRFLTKGQQWIWLPQDDYISY 327 (803) T ss_pred HH----HCCCCCCCCCCCCCEEECCCCCCC-CCCCCCCCCCEEEEEEEEEEECCCCCCEECCCCCCCCCCCCCCCCCCCC T ss_conf 24----315567764444530004523464-3445576421578740046721687530021245545323674445465 Q ss_pred EECCCEEEEE-EEEECCCHHH-HHHHHHHHH-HHHHHHHHHHH-HHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCC Q ss_conf 8379606999-9984461799-999999999-99999999854-455158834996997017898883999789428971 Q gi|254780903|r 352 RTISGGMNII-GIAMDLTEKY-HLEKRYAEA-DQRLSKAIECT-SEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNA 427 (766) Q Consensus 352 ~d~~G~~~~i-Gi~~DITErK-~ae~~l~es-e~rlr~~ie~~-~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~ 427 (766) ..-++++.++ -....+|-+- +......-. +.-.+..-... .+-+.-...+|.++++-.....+.||...++.+..+ T Consensus 328 ~~~~s~p~~v~~~~~~vs~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~sr~~~~g~~~~~dqr~~~i~~~~~~~~~g~ss 407 (803) T KOG3561 328 HQWNSKPCLVAIGRLVVSYAEVRVPSRADMSIEGPRQQPSSPQSSEFISRSSSDGSFTFVDQRASAILGYQPQELLGRSS 407 (803) T ss_pred CCCCCCCCEEEECCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCEECCCCCCCCCCCCCCHHHCCCCC T ss_conf 45578743367435101033125862346765665445567653111104676786201455644223668543327663 Q ss_pred HHHHCCCHHHHHHHH---HHHCCCCCCCEEEEEEECCCEEEEE Q ss_conf 788165201378999---8521124564058999169628742 Q gi|254780903|r 428 RSIIQDAQTRPIIEY---RTSDPERSQDMSKEIKLADSRWLQI 467 (766) Q Consensus 428 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~e~~~~dg~~~~i 467 (766) +...+..+..+.... ............+.....+|.|... T Consensus 408 ~~s~h~~d~~~~~~s~~~~~~~s~~~~~~~yr~~~~n~~~~~~ 450 (803) T KOG3561 408 YESSHPADSSPLSESLKQVQALSEQRSTLLYRFRSKNGSSIPN 450 (803) T ss_pred CCCCCCCCCCHHHCHHHHHHHHCCCCCCCCCCCCCCCCCCCCC T ss_conf 0025755543012469999870466543222454678875434 No 135 >PTZ00108 DNA topoisomerase II; Provisional Probab=93.67 E-value=0.082 Score=31.01 Aligned_cols=17 Identities=18% Similarity=0.251 Sum_probs=7.1 Q ss_pred CCCEEEEECCCCEEEEC Q ss_conf 97459897689789997 Q gi|254780903|r 265 RCGLWNFNFDNKKFHLS 281 (766) Q Consensus 265 ~~GiWd~D~~~~~i~ws 281 (766) |+|-|-.-+.+|.-..| T Consensus 821 P~GqFGtR~~GGkDaas 837 (1506) T PTZ00108 821 PCGQFGSRKEGGKDASA 837 (1506) T ss_pred CCCCCCCCCCCCCCCCC T ss_conf 57875254558875556 No 136 >PTZ00109 DNA gyrase subunit b; Provisional Probab=93.66 E-value=0.019 Score=35.60 Aligned_cols=43 Identities=14% Similarity=0.224 Sum_probs=26.6 Q ss_pred CEEEEEEEEECCCCCE-EEEEEEEEEEEECCCEEEEEEEEECCC Q ss_conf 8489999988698988-998899999983796069999984461 Q gi|254780903|r 326 KQLDQIFHMRHASGAD-IWIQVRAQMMRTISGGMNIIGIAMDLT 368 (766) Q Consensus 326 ~~~~~e~Ri~~~DG~~-~Wi~~r~~~i~d~~G~~~~iGi~~DIT 368 (766) ....+|+.+.+-+|.| -.+.+.+.-+.+.+|++|.-|.-.=+| T Consensus 409 ~~i~ve~al~w~~~~y~e~i~SFvNnI~T~dGGTH~~GFrsALt 452 (941) T PTZ00109 409 KNIHIDLRLKWLQGEYHEHIISFVNNVNTTDGGTHVDALKYAIS 452 (941) T ss_pred CCEEEEEEEEECCCCCCCEEEEEECCCCCCCCCCHHHHHHHHHH T ss_conf 67579999996578875058877436668999737999999999 No 137 >pfam07310 PAS_5 PAS domain. This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long. This region is is distantly similar to other PAS domains. Probab=93.45 E-value=0.55 Score=25.06 Aligned_cols=94 Identities=9% Similarity=0.035 Sum_probs=71.0 Q ss_pred CCEEEEECCCCEE--EECHHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCCEEE Q ss_conf 7459897689789--99788997729994330589889997608120589999999972489848999998869898899 Q gi|254780903|r 266 CGLWNFNFDNKKF--HLSRSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHASGADIW 343 (766) Q Consensus 266 ~GiWd~D~~~~~i--~ws~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~~~W 343 (766) +-+-+.+..+... ..-...+++||++... ..+.++..|++++.+............+..........+|.... T Consensus 40 ~file~~~~~~~r~RlaGt~l~~~~G~d~~G-----~~~~~l~~~~~r~~~~~~l~~v~~~~~p~~~~~~~~~~~g~~~~ 114 (137) T pfam07310 40 VFILERDAPGGAPFRLAGTRLCALFGRELRG-----IPFSALWTEASRREIARVLDVVFDRTLPVLAGVDAEARNGRSLH 114 (137) T ss_pred CEEEEEECCCCEEEEEECHHHHHHHCCCCCC-----CCHHHHHCHHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCCCEE T ss_conf 3899984799679998178899982998889-----78899619677999999999997589439999778638987015 Q ss_pred EEEEEEEEEECCCEE-EEEEEE Q ss_conf 889999998379606-999998 Q gi|254780903|r 344 IQVRAQMMRTISGGM-NIIGIA 364 (766) Q Consensus 344 i~~r~~~i~d~~G~~-~~iGi~ 364 (766) .+.---|+.+++|.+ +++|+. T Consensus 115 ~e~LlLPL~~d~g~vdriLG~l 136 (137) T pfam07310 115 FELLLLPLATRSGTPDRFLGLL 136 (137) T ss_pred EEEEECCCCCCCCCHHHHHHCC T ss_conf 4355525789999722333104 No 138 >TIGR01058 parE_Gpos DNA topoisomerase IV, B subunit; InterPro: IPR005740 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . This entry represents subunit B (parE) of topoisomerase IV from Gram positive bacteria. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication . Topoisomerase IV consists of two polypeptide subunits, parC (subunit A), which is homologous to gyrA of topoisomerase II, and parE (subunit B), which is homologous to gyrB of topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome. Probab=93.34 E-value=0.15 Score=29.18 Aligned_cols=44 Identities=16% Similarity=0.141 Sum_probs=29.9 Q ss_pred HHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEE Q ss_conf 97248984899999886989889988999999837960699999 Q gi|254780903|r 320 VTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTISGGMNIIGI 363 (766) Q Consensus 320 ~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi 363 (766) .+.++...+++|+-+.-.||.-=-+.+.+--++..+|++|=-|. T Consensus 248 ~f~ge~~~i~Ve~afQfnd~~~e~ilSF~N~vkT~eGG~HE~g~ 291 (655) T TIGR01058 248 YFEGEKNGIEVEVAFQFNDGDSENILSFANSVKTKEGGTHENGF 291 (655) T ss_pred EEEECCCCEEEEEEEEECCCCCCEEEEEEEEEEECCCCCCHHHH T ss_conf 88764762589999974278875379864003406887207889 No 139 >KOG1979 consensus Probab=93.34 E-value=0.13 Score=29.49 Aligned_cols=29 Identities=10% Similarity=0.098 Sum_probs=15.5 Q ss_pred HHHHHHHHHHHHHHHCCCCCEEEEECCCC Q ss_conf 99999999988531017897899996998 Q gi|254780903|r 110 KKAESMLGQLLAKTRFLSESFILLAQPNE 138 (766) Q Consensus 110 ~~ae~~L~~~~~~~~~~~~~~i~i~d~~g 138 (766) .+..+++.+.+.....+....|-|.-.+| T Consensus 26 ~RP~NAlKEliENSLDA~ST~I~V~vk~G 54 (694) T KOG1979 26 QRPVNALKELIENSLDANSTSIDVLVKDG 54 (694) T ss_pred HCHHHHHHHHHHCCCCCCCCEEEEEEECC T ss_conf 35578999998614157985699998159 No 140 >KOG0020 consensus Probab=93.19 E-value=0.21 Score=28.13 Aligned_cols=12 Identities=17% Similarity=0.598 Sum_probs=7.8 Q ss_pred CCCEEEEECCCC Q ss_conf 974598976897 Q gi|254780903|r 265 RCGLWNFNFDNK 276 (766) Q Consensus 265 ~~GiWd~D~~~~ 276 (766) .--+|||.+-++ T Consensus 324 ~kT~wdWel~Nd 335 (785) T KOG0020 324 EKTVWDWELLND 335 (785) T ss_pred HHCCHHHHHHCC T ss_conf 030011545425 No 141 >COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism] Probab=93.10 E-value=0.61 Score=24.69 Aligned_cols=39 Identities=10% Similarity=0.054 Sum_probs=25.3 Q ss_pred CCEEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHHHH Q ss_conf 978999969980899714205551997889607610432 Q gi|254780903|r 128 ESFILLAQPNELVFASSTKNSHYIGKKIGEIIPELSRSR 166 (766) Q Consensus 128 ~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~~~ 166 (766) ++.|+-+|..|.+..+||++++++|.+.+++.|...... T Consensus 90 ~~pVlsvd~kg~v~~aNpAa~~l~~~~~~~~~g~~~~~l 128 (511) T COG3283 90 PEPVLSVDMKGKVDMANPAACQLFGRKEDRLRGHTAAQL 128 (511) T ss_pred CCCEEEECCCCCEEECCHHHHHHHCCCHHHHCCCCHHHH T ss_conf 875687527774332588999984888354057569986 No 142 >KOG1977 consensus Probab=92.39 E-value=0.39 Score=26.09 Aligned_cols=16 Identities=31% Similarity=0.245 Sum_probs=10.1 Q ss_pred CCCHHHHHHHHHHHHC Q ss_conf 8761689999999962 Q gi|254780903|r 729 GFGLGLAISDALTNLH 744 (766) Q Consensus 729 GtGLGLaI~k~iVe~h 744 (766) |-||-+.=|-.|++.. T Consensus 1067 gD~L~~qEc~~lI~~L 1082 (1142) T KOG1977 1067 GDGLSLQECCRLIEAL 1082 (1142) T ss_pred CCCCCHHHHHHHHHHH T ss_conf 7765789999999988 No 143 >TIGR01059 gyrB DNA gyrase, B subunit; InterPro: IPR011557 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively. This entry represents the B subunit (gyrB) as found predominantly in bacteria, but does not include the topoisomerase II enzymes composed of a single polypeptide, as are found in most eukaryotes. GyrB has two functional domains: an N-terminal ATPase and a C-terminal responsible for subunit interactions, the latter differing between subunit B and single polypeptide topoisomerase II . More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome. Probab=92.31 E-value=0.11 Score=29.98 Aligned_cols=124 Identities=13% Similarity=0.085 Sum_probs=54.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHH-HHHHHHHHHHHHHHHHHHH------HH----HHHH--H-HHCC Q ss_conf 999876752224789999999986034688993899-9999999999999999977------76----7788--8-7419 Q gi|254780903|r 546 FLAKMSHELRTPLNAILGFSEVIKKEIFGELGSVKY-YEYAQDIHYSGQHLLNMIN------NI----LEMS--K-IETE 611 (766) Q Consensus 546 fla~isHelrtPL~aI~g~~ell~~~~~~~~~~e~~-~~~l~~I~~~~~~l~~lI~------di----Ld~s--r-ieag 611 (766) |+..|.-.+..+...+..+.+++...++.+...-+. .+..-.+...-+....+-. .. ..++ + ++. T Consensus 609 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~E~~~~~~~~~~~~~~~~~~f~~~vvR~G~~~- 687 (818) T TIGR01059 609 LINRLERKAIRFSEELLIYQDLLEKELLEYESAVKYWLQGALYIYSDKEKEEAKTQLPVHKNAEKELFESSVVRHGLDT- 687 (818) T ss_pred HHHHHHHHHCCCHHHHHHHHHHHCHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEECCCCC- T ss_conf 7999987404355788875553022220014688889999998875565788887422356778875412114437763- Q ss_pred CCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECHHHHHHHHHHHHHHHHH Q ss_conf 830120331699999999999999998479589998089978998689999999998865653 Q gi|254780903|r 612 KISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADKRIIKKILFPILSNSIK 674 (766) Q Consensus 612 ~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NAik 674 (766) ...|..+-+.+.++.+.+-..+.+.--. .+............ -..+.||+..|+.++-| T Consensus 688 ~~~L~~~q~~~~e~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~ 746 (818) T TIGR01059 688 DYILEKEQLELFEYGEIISLELSLQGLF--ETRAKLIRKNKKFE--INSLEEALDKLVELGRK 746 (818) T ss_pred CHHHHHHHHHHHHHHHHHHHHCCHHHHH--HHHHHHCCCCCCCC--CCCHHHHHHHHHHCCCC T ss_conf 2001666643323454344211034554--43432100122310--02589999999840789 No 144 >TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit; InterPro: IPR005737 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis , . DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA . Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils . This entry represents subunit B (parE) of topoisomerase IV from Gram negative bacteria. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication . Topoisomerase IV consists of two polypeptide subunits, parC (subunit A), which is homologous to gyrA of topoisomerase II, and parE (subunit B), which is homologous to gyrB of topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase .; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome. Probab=92.30 E-value=0.1 Score=30.35 Aligned_cols=60 Identities=15% Similarity=0.291 Sum_probs=33.7 Q ss_pred EEEEEEEEC-CCCCEEEEEEEEEEEEECCCEEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHEEE Q ss_conf 899999886-9898899889999998379606999998446179999999999999999999854455158 Q gi|254780903|r 328 LDQIFHMRH-ASGADIWIQVRAQMMRTISGGMNIIGIAMDLTEKYHLEKRYAEADQRLSKAIECTSEALVL 397 (766) Q Consensus 328 ~~~e~Ri~~-~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DITErK~ae~~l~ese~rlr~~ie~~~~~i~~ 397 (766) ...++-+.+ ++|...-..+.+..+....|++|.-| +.+.+-.+-..|....+..|-++-+ T Consensus 258 ~~~~WAl~W~~~~~~~~~~SY~N~iPT~QGGTH~~G----------L~~~lL~a~~~f~E~~~~~P~~~~L 318 (647) T TIGR01055 258 EAVEWALLWLPEGGELLMESYVNLIPTIQGGTHVNG----------LRQGLLDALREFCEMRNLLPRGVKL 318 (647) T ss_pred HHCCEEEEECCCCCHHHHHCCCCCCCCCCCCCHHHH----------HHHHHHHHHHHHHHHHCCCCCEEEC T ss_conf 100244663278840032041101578988710457----------8999999999988875188640221 No 145 >PRK05559 DNA topoisomerase IV subunit B; Reviewed Probab=92.28 E-value=0.015 Score=36.29 Aligned_cols=39 Identities=18% Similarity=0.215 Sum_probs=17.3 Q ss_pred EEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEEEECCC Q ss_conf 999988698988998899999983796069999984461 Q gi|254780903|r 330 QIFHMRHASGADIWIQVRAQMMRTISGGMNIIGIAMDLT 368 (766) Q Consensus 330 ~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DIT 368 (766) .|+-+.+.++.-.-+.+.+.-+...+|+.|+-|+..=|| T Consensus 252 veval~~~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~ 290 (633) T PRK05559 252 VEWALAWLEGGSENIESYVNLIPTPDGGTHENGFREGLL 290 (633) T ss_pred EEEEEEECCCCCCEEEEEECCCCCCCCCCHHHHHHHHHH T ss_conf 999999447888447656887057999876788998999 No 146 >smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE Probab=92.22 E-value=0.02 Score=35.48 Aligned_cols=39 Identities=21% Similarity=0.133 Sum_probs=20.4 Q ss_pred EEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEEEECCC Q ss_conf 999988698988998899999983796069999984461 Q gi|254780903|r 330 QIFHMRHASGADIWIQVRAQMMRTISGGMNIIGIAMDLT 368 (766) Q Consensus 330 ~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DIT 368 (766) .|+-+.+.++.-.-+.+.+.-+...+|+.|+-|+..-|| T Consensus 219 ~eva~~~s~~~~~~~~SFvN~I~T~~GGTHv~gf~~al~ 257 (594) T smart00433 219 VEVAFQYTDGYSENIVSFVNNIATTEGGTHENGFKDALT 257 (594) T ss_pred EEEEEEECCCCCCCCCEEEEEEECCCCCCHHHHHHHHHH T ss_conf 999999659887210002314788999848899999999 No 147 >pfam08269 Cache_2 Cache domain. Probab=91.31 E-value=0.98 Score=23.22 Aligned_cols=79 Identities=11% Similarity=0.171 Sum_probs=49.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCEEEECCCHHHHCCCCHHH Q ss_conf 89998999999999999850100112235548999999999885310178978999969980899714205551997889 Q gi|254780903|r 78 QEKMTNQTSLMLTEAIEIIFQNNNIKFDLASQKKAESMLGQLLAKTRFLSESFILLAQPNELVFASSTKNSHYIGKKIGE 157 (766) Q Consensus 78 ~~~~~~~~~~lla~~~~~~~~~~~~~~d~~~~~~ae~~L~~~~~~~~~~~~~~i~i~d~~g~i~~~n~~~~~~~G~~~~~ 157 (766) .....++.+......+...... ......++.+|++...+.+...+...+..+|+.|.+|+.+ ++|.-+.+.|..+.+ T Consensus 8 rk~~lk~~v~~a~s~i~~~~~~--~~~G~ls~~eA~~~a~~~l~~~ryg~~gY~fi~d~~g~~l-~hP~~p~l~G~n~~~ 84 (95) T pfam08269 8 RKAELKAVVESALSIIKEYYQQ--AQKGKLTREEAQAQAKALLRALRYDGDGYFFAYDSNGTNV-MHPIKPELVGKNLSN 84 (95) T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCEE-ECCCCCCCCCCCCCC T ss_conf 9999999999999999999999--8779999999999999999853478985699980999889-878991106977663 Q ss_pred HC Q ss_conf 60 Q gi|254780903|r 158 II 159 (766) Q Consensus 158 ~~ 159 (766) +. T Consensus 85 ~~ 86 (95) T pfam08269 85 LK 86 (95) T ss_pred CC T ss_conf 89 No 148 >PRK13374 purine nucleoside phosphorylase; Provisional Probab=91.15 E-value=0.63 Score=24.60 Aligned_cols=10 Identities=0% Similarity=-0.204 Sum_probs=4.4 Q ss_pred CCCCHHHHHH Q ss_conf 8120589999 Q gi|254780903|r 307 HYDNKKICEI 316 (766) Q Consensus 307 HPdDr~~~~~ 316 (766) -|-|-.+++. T Consensus 19 ~~GDP~Ra~~ 28 (233) T PRK13374 19 MPGDPLRAKY 28 (233) T ss_pred ECCCHHHHHH T ss_conf 4689899999 No 149 >PRK05819 deoD purine nucleoside phosphorylase; Reviewed Probab=90.15 E-value=0.87 Score=23.58 Aligned_cols=10 Identities=0% Similarity=-0.204 Sum_probs=4.5 Q ss_pred CCCCHHHHHH Q ss_conf 8120589999 Q gi|254780903|r 307 HYDNKKICEI 316 (766) Q Consensus 307 HPdDr~~~~~ 316 (766) -|-|-.+++. T Consensus 18 ~~GDP~Ra~~ 27 (235) T PRK05819 18 MPGDPLRAKY 27 (235) T ss_pred ECCCHHHHHH T ss_conf 3789799999 No 150 >PRK05644 gyrB DNA gyrase subunit B; Validated Probab=89.62 E-value=0.035 Score=33.64 Aligned_cols=42 Identities=17% Similarity=0.181 Sum_probs=23.4 Q ss_pred EEEEEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEEEECCC Q ss_conf 489999988698988998899999983796069999984461 Q gi|254780903|r 327 QLDQIFHMRHASGADIWIQVRAQMMRTISGGMNIIGIAMDLT 368 (766) Q Consensus 327 ~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DIT 368 (766) ....|.-+.+.||----+.+.+.-+...+|+.|.-|.-.=+| T Consensus 255 ~i~vEvAlqw~d~~~e~i~SFvN~I~T~eGGTHv~Gfr~aLt 296 (725) T PRK05644 255 GIGVEVAMQWNDSYSENVLCFTNNIPTRDGGTHLAGFRAALT 296 (725) T ss_pred CEEEEEEEEECCCCCCEEEEEECCEECCCCCCHHHHHHHHHH T ss_conf 806999998547766314554214355889818899999999 No 151 >pfam08348 PAS_6 YheO-like PAS domain. This family contains various hypothetical bacterial proteins that are similar to the E. coli protein YheO. Their function is unknown, but are likely to be involved in signalling based on the presence of this PAS domain. Probab=89.37 E-value=1.4 Score=22.09 Aligned_cols=49 Identities=14% Similarity=0.222 Sum_probs=39.5 Q ss_pred EEEEEEEEECCCCCEEEEEEEEEEEEECCCEE-EEEEEEECCCHHHHHHHHH Q ss_conf 48999998869898899889999998379606-9999984461799999999 Q gi|254780903|r 327 QLDQIFHMRHASGADIWIQVRAQMMRTISGGM-NIIGIAMDLTEKYHLEKRY 377 (766) Q Consensus 327 ~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~-~~iGi~~DITErK~ae~~l 377 (766) .+-.-|..+.+||+ -+++...+++|++|++ +++++..|||.-..+.+-| T Consensus 67 ~~~~~Y~~~~~dGr--~lkSsT~~ird~~g~~iG~LCIN~Dis~~~~~~~~L 116 (118) T pfam08348 67 DVLGNYETRTADGR--LLKSSTIVIRDSDGKPIGMLCINLDVSVFDGAQQFL 116 (118) T ss_pred CCCCCCEEECCCCC--EEEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHH T ss_conf 72526402779998--999999999999999999999865508999999986 No 152 >COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair] Probab=88.15 E-value=0.086 Score=30.84 Aligned_cols=37 Identities=16% Similarity=0.142 Sum_probs=22.4 Q ss_pred EEEEEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEE Q ss_conf 4899999886989889988999999837960699999 Q gi|254780903|r 327 QLDQIFHMRHASGADIWIQVRAQMMRTISGGMNIIGI 363 (766) Q Consensus 327 ~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi 363 (766) ....|+-+.+-||.---+.+.+.-+...+|++|..|. T Consensus 252 ~~~vEvA~q~~d~~~e~~~SFvNnI~T~eGGTH~~Gf 288 (635) T COG0187 252 GIAVEVALQWNDGYSENILSFVNNIPTREGGTHEAGF 288 (635) T ss_pred CEEEEEEEEEECCCCEEEEEEECCCCCCCCCHHHHHH T ss_conf 6379999998068844799864585589986089999 No 153 >COG2461 Uncharacterized conserved protein [Function unknown] Probab=86.05 E-value=0.92 Score=23.44 Aligned_cols=107 Identities=17% Similarity=0.246 Sum_probs=70.6 Q ss_pred HHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHHHHHHCCCCCCCEEEEEEEC Q ss_conf 99999999854455158834996997017898883999789428971788165201378999852112456405899916 Q gi|254780903|r 381 DQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIEYRTSDPERSQDMSKEIKLA 460 (766) Q Consensus 381 e~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 460 (766) -+.+.+++.+.|.-|-.+|.++++.+.++. .++|-.+...+ |.....++|+.....+..-++....+.....+.-.. T Consensus 289 ~~e~naif~~lP~Ditfvdk~diV~ffs~~-~rif~rt~svi--Gr~v~~chpPksv~iv~ki~~~fksG~kd~~efw~~ 365 (409) T COG2461 289 LEELNAIFKHLPVDITFVDKNDIVRFFSGG-ERIFPRTPSVI--GRRVQLCHPPKSVHIVEKILKDFKSGEKDFAEFWIN 365 (409) T ss_pred HHHHHHHHHHCCCCEEEECCCCEEEECCCC-CEECCCCHHHH--CCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHCC T ss_conf 999999995388732785456627844896-32013376761--871557899842789999999865377456777455 Q ss_pred C-CEEEEECCEECC--CCCEE---EEEEEEEHHHCC Q ss_conf 9-628742232456--99789---998862010001 Q gi|254780903|r 461 D-SRWLQINEWCTH--DGGTI---SVGTDITLLKHN 490 (766) Q Consensus 461 d-g~~~~i~~~~~~--dg~~v---~v~~~i~~~~~~ 490 (766) . +....++....+ +|.+. -|..|||+++.- T Consensus 366 ~~~~~i~i~Y~av~de~ge~~g~le~~qdi~~i~~l 401 (409) T COG2461 366 MGDKFIHIRYFAVKDEEGEYLGTLEVVQDITRIKEL 401 (409) T ss_pred CCCCEEEEEEEEEECCCCCEEEEEHHHHHHHHHHHC T ss_conf 787358999999875888366542232203777742 No 154 >pfam08670 MEKHLA MEKHLA domain. The MEKHLA domain shares similarity with the PAS domain and is found in the 3' end of plant HD-ZIP III homeobox genes, and bacterial proteins. Probab=82.98 E-value=2.9 Score=19.81 Aligned_cols=50 Identities=10% Similarity=0.001 Sum_probs=26.5 Q ss_pred HHHHHHHHHHHEEEEC--CCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCC Q ss_conf 9999985445515883--49969970178988839997894289717881652 Q gi|254780903|r 384 LSKAIECTSEALVLWD--KNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDA 434 (766) Q Consensus 384 lr~~ie~~~~~i~~~D--~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~ 434 (766) ++.++ +.|.+|+-++ .+-.++|.|.+..++++++-+++....+.....+. T Consensus 34 ~k~L~-~ap~ail~h~~~~dP~f~yaN~aaL~l~e~~w~el~~lpsr~tae~~ 85 (148) T pfam08670 34 LKALW-HHPDAVLCHSLKADPVFNYANQAALDLLETTWVELQDLPSRKTAEES 85 (148) T ss_pred HHHHH-CCCCEEEECCCCCCCEEEEHHHHHHHHHCCCHHHHHCCCHHHHCCHH T ss_conf 99996-39978997679989746541499999966889998459666516835 No 155 >TIGR01815 TrpE-clade3 anthranilate synthase; InterPro: IPR010112 This entry represents a small clade of anthranilate synthases from alpha proteobacteria and Nostoc (a cyanobacterium). This enzyme is the first step in the pathway for the biosynthesis of tryprophan from chorismate.; GO: 0004049 anthranilate synthase activity, 0000162 tryptophan biosynthetic process. Probab=81.14 E-value=0.56 Score=24.99 Aligned_cols=88 Identities=25% Similarity=0.447 Sum_probs=58.3 Q ss_pred HHHHHHHHHHCCCCCCEEE-EEEE--------EECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCC--CCCHH Q ss_conf 9998865653468988899-9999--------97998999999788978977854304650531467556778--87616 Q gi|254780903|r 665 LFPILSNSIKFTNNNGKMM-IRTS--------KIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIG--GFGLG 733 (766) Q Consensus 665 l~NLi~NAik~t~~~g~I~-i~~~--------~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~--GtGLG 733 (766) |+.=|.|=+.-| |-.|| ++.. ...|-|+++ =|+|=|.+ |+-=.+++....+... |-=|| T Consensus 536 FVHTLAnY~RqT--GAsVTTlRh~~ae~~fd~~rPDLVVLS---PGPGrP~d-----Fdv~~Ti~aa~ar~lP~FGVCLG 605 (726) T TIGR01815 536 FVHTLANYLRQT--GASVTTLRHSFAEELFDEERPDLVVLS---PGPGRPKD-----FDVKETIKAALARDLPVFGVCLG 605 (726) T ss_pred HHHHHHHHHHHC--CCEEEECCCHHHHHHHHCCCCCEEEEC---CCCCCCCC-----CCHHHHHHHHHHCCCCEEEEHHH T ss_conf 377778887634--875530430478999732799889868---73123875-----44788999999728985774134 Q ss_pred HHHHHHHHHHCCCEEEEEEEC--CCCEEEEEECC Q ss_conf 899999999629869999798--99529999735 Q gi|254780903|r 734 LAISDALTNLHGGRLKIISQE--GKGTIVTICMP 765 (766) Q Consensus 734 LaI~k~iVe~hgG~I~v~S~~--g~Gttf~i~LP 765 (766) | +.|||..||.+.+=..| ||-|.+.|.=| T Consensus 606 L---Qg~vEafGG~L~vL~~P~HGK~srirVl~p 636 (726) T TIGR01815 606 L---QGLVEAFGGELDVLAIPVHGKASRIRVLEP 636 (726) T ss_pred H---HHHHHHHCCCCCCCCCCCCCCCCEEEEECC T ss_conf 6---899987467213578887886336888368 No 156 >KOG0355 consensus Probab=80.64 E-value=2.4 Score=20.36 Aligned_cols=83 Identities=11% Similarity=0.223 Sum_probs=41.3 Q ss_pred HHHHHHHHHHHHHHH-------HCCCCC-CEEE-EEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCCC- Q ss_conf 999999999886565-------346898-8899-999997998999999788978977854304650531467556778- Q gi|254780903|r 659 RIIKKILFPILSNSI-------KFTNNN-GKMM-IRTSKIGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSIG- 728 (766) Q Consensus 659 ~~l~QVl~NLi~NAi-------k~t~~~-g~I~-i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~~- 728 (766) .-|.+-+.||-.|-+ +|+... ..++ +--...++.+....-|.|--|+|+..+-| |-.=+. ..+| T Consensus 712 ~sl~~ti~~l~q~~~gkdaa~~ryi~t~l~~~tr~~f~~~dd~ll~~~~~~~~~vep~y~pi~--p~vlvn----gaegi 785 (842) T KOG0355 712 QSLMSTIVNLAQDFVGKDAASARYIFTKLSPLTRLLFPPADDLLLKYLNEDGQRVEPEYCPII--PMVLVN----GAEGI 785 (842) T ss_pred HHHHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHCCCCCCHHHHHHHCCCCCCCCCCCCCCE--EEEEEE----CCCCC T ss_conf 769999998887505884023678988527365402788832676652257867175224414--688850----56545 Q ss_pred CCCHHHH--------HHHHHHHHCCCE Q ss_conf 8761689--------999999962986 Q gi|254780903|r 729 GFGLGLA--------ISDALTNLHGGR 747 (766) Q Consensus 729 GtGLGLa--------I~k~iVe~hgG~ 747 (766) |||---. |++.+=.+..|. T Consensus 786 GtGws~~i~n~n~~~iv~~~r~~~~~~ 812 (842) T KOG0355 786 GTGWSTFIPNYNPREIVKNIRRLINGE 812 (842) T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHCCC T ss_conf 567656688889899999998863699 No 157 >TIGR02373 photo_yellow photoactive yellow protein; InterPro: IPR012130 Members of this family are photoactive yellow protein, a cytosolic, 14-kDa light-sensing protein which has a 4-hydroxycinnamyl (p-coumaric acid) chromophore covalently linked to a Cys residue. The enzyme 4-coumarate--CoA ligase as described by IPR012743 from INTERPRO is required for its biosynthesis. The modified Cys is in a PAS domain, frequently found in signal transducing proteins. Members are known in alpha and gamma Proteobacteria that include Rhodobacter capsulatus, Halorhodospira halophila, Rhodospirillum centenum, etc.; GO: 0009881 photoreceptor activity, 0007602 phototransduction, 0018298 protein-chromophore linkage. Probab=80.45 E-value=1.8 Score=21.36 Aligned_cols=56 Identities=13% Similarity=0.112 Sum_probs=48.1 Q ss_pred HHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHHHHCCCCCHHHHCCCHHHHHHH Q ss_conf 99985445515883499699701789888399978942897178816520137899 Q gi|254780903|r 386 KAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDHVLVPGNARSIIQDAQTRPIIE 441 (766) Q Consensus 386 ~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~ 441 (766) +-+|++|-|-+.+|..|+|...|.+-.++.|-.++.++++..+..+.|.-..+... T Consensus 22 A~~d~LpfGAiqlD~~G~I~~YN~aEg~l~GR~P~~VIGrnFF~evAPCt~~~~F~ 77 (126) T TIGR02373 22 AQLDSLPFGAIQLDGSGRILKYNAAEGELTGRDPERVIGRNFFKEVAPCTDIPEFS 77 (126) T ss_pred CCCCCCCCCEEEECCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC T ss_conf 64225541048866988302110110001387977322743423327888884432 No 158 >PRK11388 DNA-binding transcriptional regulator DhaR; Provisional Probab=80.13 E-value=3.6 Score=19.12 Aligned_cols=60 Identities=13% Similarity=0.117 Sum_probs=40.9 Q ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCC Q ss_conf 899999999999999999---999997225974598976897899978899772999433058 Q gi|254780903|r 238 RQAKKNKENDTILLEANI---CVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTL 297 (766) Q Consensus 238 ~dit~~r~ae~~l~ese~---rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~ 297 (766) ++|..+-..+....+... .+...++....|+.-||.++..+..|+...++||.++..... T Consensus 183 ~~Ie~~L~~~~~~~~~~~~l~~~~~~l~~~~~gvla~d~~G~i~~~N~~A~~~L~~~~~~~~g 245 (639) T PRK11388 183 REVGNLLLTDSLLAESNRHLNQLNALLESMDDGVIAWDEQGNLQFLNAQAARLLRLDATASQG 245 (639) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCEEHHHHHHHHHHCCCHHHHCC T ss_conf 999999999999999999987768886488762899889991740048999885988456447 No 159 >KOG0859 consensus Probab=78.26 E-value=3.7 Score=19.03 Aligned_cols=12 Identities=17% Similarity=0.448 Sum_probs=5.6 Q ss_pred HHHHHHHHHHHH Q ss_conf 999997776778 Q gi|254780903|r 594 HLLNMINNILEM 605 (766) Q Consensus 594 ~l~~lI~diLd~ 605 (766) -|.+-|+.+||= T Consensus 140 vM~eNIekvldR 151 (217) T KOG0859 140 VMMENIEKVLDR 151 (217) T ss_pred HHHHHHHHHHHC T ss_conf 999979999824 No 160 >PRK03124 S-adenosylmethionine decarboxylase proenzyme; Provisional Probab=76.39 E-value=4.6 Score=18.37 Aligned_cols=83 Identities=10% Similarity=0.015 Sum_probs=56.1 Q ss_pred EEEEEEC-CCCEEEECHHHHHHHHHHHHHHH---------HHCCCCC---------CEEEEEEEEECCEEEEEEEECCCC Q ss_conf 8999808-99789986899999999988656---------5346898---------889999999799899999978897 Q gi|254780903|r 643 KIEKKIP-SELFFNADKRIIKKILFPILSNS---------IKFTNNN---------GKMMIRTSKIGQCVIITIADTGIG 703 (766) Q Consensus 643 ~l~~~~~-~~l~v~~D~~~l~QVl~NLi~NA---------ik~t~~~---------g~I~i~~~~~~~~v~i~V~D~G~G 703 (766) .+..++- .+..+..|...+++++...+..+ -||.|.| ++|+|.+..+.+++.+-|==-|.. T Consensus 7 Hli~Dl~gc~~~~L~d~~~l~~~l~~a~~~~gatil~~~~h~F~P~GvT~v~lLaESHisiHTwPE~g~aavDiftCg~~ 86 (127) T PRK03124 7 HVIAELYGCDFDKLNDMEFIEDIMVDAALKAGAEVREVAFHKFAPQGVSGVVVISESHLTIHTWPEHGYAAVDVFTCGDR 86 (127) T ss_pred EEEEEEECCCHHHCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCEEEEEEEECCEEEEEECCCCCEEEEEEEECCCC T ss_conf 99999988783668799999999999999849979878838659996899999402168999667688599999945999 Q ss_pred CCHHHHHHHCCCEEECCCCCCC Q ss_conf 8977854304650531467556 Q gi|254780903|r 704 IPKSALEKIGQPFEPLHNQYDQ 725 (766) Q Consensus 704 I~~e~~~~iF~pF~q~~~~~t~ 725 (766) +.|+..-+....+++.+...++ T Consensus 87 ~~P~~a~~~L~~~lk~~~~~~~ 108 (127) T PRK03124 87 VDPWDAANYIAEGLNAKTREAI 108 (127) T ss_pred CCHHHHHHHHHHHHCCCCEEEE T ss_conf 9999999999998598927999 No 161 >KOG1229 consensus Probab=74.40 E-value=1.5 Score=21.79 Aligned_cols=35 Identities=14% Similarity=0.202 Sum_probs=16.3 Q ss_pred EEEEECCCCCEEEECCCHHHHCCCCHHHHCCCCHH Q ss_conf 89999699808997142055519978896076104 Q gi|254780903|r 130 FILLAQPNELVFASSTKNSHYIGKKIGEIIPELSR 164 (766) Q Consensus 130 ~i~i~d~~g~i~~~n~~~~~~~G~~~~~~~~~~~~ 164 (766) +|-+.|.+..|.|+||+++.+.|+.-.+++|+... T Consensus 169 AiEI~~ddhViQYVNpAfE~mmG~hkgEliGke~a 203 (775) T KOG1229 169 AIEICDDDHVIQYVNPAFENMMGCHKGELIGKEEA 203 (775) T ss_pred HHEECCCHHHHHHHCHHHHHHHCCHHHHHCCCCHH T ss_conf 32004634689873578886331010212377222 No 162 >PRK09966 hypothetical protein; Provisional Probab=69.40 E-value=6.6 Score=17.24 Aligned_cols=66 Identities=11% Similarity=0.037 Sum_probs=40.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCEEEECC Q ss_conf 768889998999999999999850100112235548999999999885310178978999969980899714 Q gi|254780903|r 74 RYAQQEKMTNQTSLMLTEAIEIIFQNNNIKFDLASQKKAESMLGQLLAKTRFLSESFILLAQPNELVFASST 145 (766) Q Consensus 74 ~~~~~~~~~~~~~~lla~~~~~~~~~~~~~~d~~~~~~ae~~L~~~~~~~~~~~~~~i~i~d~~g~i~~~n~ 145 (766) ..-..+.-+++.+.++|..++.-.....+-.|... ++..|...-... .-..+.|.|++|++++.-+ T Consensus 40 ~~~~l~~ya~~nl~l~A~tls~~~eaAlvF~D~~a---A~e~L~~l~~~~---~v~~a~V~d~~g~~~A~w~ 105 (407) T PRK09966 40 SVLTLKQYAQKNLALTAATMTYSLEAAVVFADGPA---ATETLAALGQQG---QFSTAEVRDKQQNILASWH 105 (407) T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCHHHCCCCHHH---HHHHHHHHHCCC---CEEEEEEECCCCCEEEECC T ss_conf 99999999997899999987630202501288999---999999854677---7679999989999888712 No 163 >pfam05127 DUF699 Putative ATPase (DUF699). This putative domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often associated with pfam00583. This domain is found in isolation in the uncharacterized protein HI1254 from Haemophilus influenzae. Probab=69.22 E-value=4 Score=18.82 Aligned_cols=44 Identities=18% Similarity=0.329 Sum_probs=35.6 Q ss_pred EEEEEEECCCCCCHHHHHHHCCCEEE-CCCCCCCCCCCCCHHHHH Q ss_conf 99999978897897785430465053-146755677887616899 Q gi|254780903|r 693 VIITIADTGIGIPKSALEKIGQPFEP-LHNQYDQSIGGFGLGLAI 736 (766) Q Consensus 693 v~i~V~D~G~GI~~e~~~~iF~pF~q-~~~~~t~~~~GtGLGLaI 736 (766) .-+-|-|--.+||...+.++.+.|.+ +=++|..+|+|||=|+++ T Consensus 76 ~DllvVDEAAaIP~p~L~~ll~~~~rvvfaTTihGYEGtGRgF~l 120 (160) T pfam05127 76 ADLLVVDEAAAIPLPLLKQLLEGFPRVVFATTVHGYEGTGRGFSL 120 (160) T ss_pred CCEEEEEHHHCCCHHHHHHHHHHCCEEEEEEECCCCCCCCHHHHH T ss_conf 768997324218889999998508869999633651145812456 No 164 >COG0093 RplN Ribosomal protein L14 [Translation, ribosomal structure and biogenesis] Probab=66.66 E-value=6.7 Score=17.18 Aligned_cols=30 Identities=23% Similarity=0.339 Sum_probs=25.3 Q ss_pred EEECCCCCEEEEEEEEEEEEECCCEE---EEEE Q ss_conf 98869898899889999998379606---9999 Q gi|254780903|r 333 HMRHASGADIWIQVRAQMMRTISGGM---NIIG 362 (766) Q Consensus 333 Ri~~~DG~~~Wi~~r~~~i~d~~G~~---~~iG 362 (766) .++++||+++-+...+-++-+++|.| +..| T Consensus 68 ~~rR~DGs~i~FddNA~Viin~~g~PrGtrI~G 100 (122) T COG0093 68 EVRRPDGSYIKFDDNAAVIINPDGEPRGTRIFG 100 (122) T ss_pred CEECCCCCEEEECCCEEEEECCCCCCCCCEEEC T ss_conf 508699888986785599989999855335856 No 165 >TIGR01622 SF-CC1 splicing factor, CC1-like family; InterPro: IPR006509 These sequences represent a subfamily of RNA splicing factors including the Pad-1 protein (Neurospora crassa), CAPER (mouse) and CC1.3 (human). All are characterised by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 human paralogs, two) RNA recognition domains. These splicing factors are closely related to the U2AF splicing factor family (IPR006529 from INTERPRO). ; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus. Probab=64.79 E-value=8 Score=16.62 Aligned_cols=26 Identities=4% Similarity=-0.078 Sum_probs=12.9 Q ss_pred CCCCEEEECCCHHHHCCCCHHHHCCC Q ss_conf 99808997142055519978896076 Q gi|254780903|r 136 PNELVFASSTKNSHYIGKKIGEIIPE 161 (766) Q Consensus 136 ~~g~i~~~n~~~~~~~G~~~~~~~~~ 161 (766) +|.+-+++.+-...+--+.+.|++.+ T Consensus 126 RD~rTVf~~qL~~k~~~Rd~~EFFs~ 151 (531) T TIGR01622 126 RDARTVFVLQLALKARERDLYEFFSK 151 (531) T ss_pred HCCHHHHHHHHHHCCCCCCHHHHHHH T ss_conf 01133444503112773311232442 No 166 >PRK02770 S-adenosylmethionine decarboxylase proenzyme; Provisional Probab=64.79 E-value=8 Score=16.62 Aligned_cols=81 Identities=7% Similarity=-0.051 Sum_probs=54.4 Q ss_pred CCEEEEEEC-CCCEEEECHHHHHHHHHHHHHHH---------HHCCCCC---------CEEEEEEEEECCEEEEEEEECC Q ss_conf 958999808-99789986899999999988656---------5346898---------8899999997998999999788 Q gi|254780903|r 641 NIKIEKKIP-SELFFNADKRIIKKILFPILSNS---------IKFTNNN---------GKMMIRTSKIGQCVIITIADTG 701 (766) Q Consensus 641 ~i~l~~~~~-~~l~v~~D~~~l~QVl~NLi~NA---------ik~t~~~---------g~I~i~~~~~~~~v~i~V~D~G 701 (766) |-.+..++- .+..+..|...|++++...+.-+ -||.|.| ++|.|.++.+.+++.+-|==-| T Consensus 18 G~Hli~Dlygc~~~~L~d~~~l~~~l~~a~~~~g~til~~~~hkF~P~GvT~v~lLaESHiSiHTWPE~gyaavDiftCG 97 (139) T PRK02770 18 GKHCILELYDCDAEKLNDEAFLRTTLTEAAKRAGATLLNLITHRFEPQGVTALALLAESHISIHTWPESGYAAVDVFTCG 97 (139) T ss_pred CCEEEEEEECCCHHHCCCHHHHHHHHHHHHHHCCCEEEEEEEEEECCCCEEEEEEECCCEEEEEECCCCCEEEEEEEECC T ss_conf 67999999877924477999999999999998799798889998079968999993042789996676884999998059 Q ss_pred CCCCHHHHHHHCCCEEECCC Q ss_conf 97897785430465053146 Q gi|254780903|r 702 IGIPKSALEKIGQPFEPLHN 721 (766) Q Consensus 702 ~GI~~e~~~~iF~pF~q~~~ 721 (766) -+..|+..-+.....+..+. T Consensus 98 ~~~~P~~a~~~L~~~l~~~~ 117 (139) T PRK02770 98 DHTMPEKACQYLIEELMAKR 117 (139) T ss_pred CCCCHHHHHHHHHHHHCCCE T ss_conf 99999999999999859882 No 167 >TIGR02865 spore_II_E stage II sporulation protein E; InterPro: IPR014221 This entry contains the stage II sporulation protein E (SpoIIE), which is a multiple membrane spanning protein with two separable functions. It plays a role in the switch to polar cell division during sporulation and it has phosphatase activity, located in the C-terminal region, which is required to activate sigma-F. All members of this entry are found in endospore-forming Gram-positive bacteria. A homologous protein, not a member of this entry, is found in the Cyanobacterium-like (and presumably non-spore-forming) photosynthesizer Heliobacillus mobilis.. Probab=64.47 E-value=8.2 Score=16.58 Aligned_cols=122 Identities=17% Similarity=0.253 Sum_probs=65.0 Q ss_pred HHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHHHHHH--CCCEEEEEECCCCEEEECHHHHHHHHHHHHHHH Q ss_conf 999977767788874198301203316999999999999999984--795899980899789986899999999988656 Q gi|254780903|r 595 LLNMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGSSAQS--KNIKIEKKIPSELFFNADKRIIKKILFPILSNS 672 (766) Q Consensus 595 l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~~~~~--k~i~l~~~~~~~l~v~~D~~~l~QVl~NLi~NA 672 (766) +.+.+++++++-++ ...+.++--+-++++.+-+..+....++ |.|.-+ +.=+...=+||+.-|=-|- T Consensus 435 l~~~~~~~~~~y~~---~~~w~~rl~e~r~l~a~Ql~gv~~~~~~~~~ei~~~--------~~f~~~~E~~I~~~L~k~g 503 (794) T TIGR02865 435 LVKTTEEILNNYKI---NEMWRKRLEEGRELVAEQLKGVAESVEDIAKEINKE--------ISFNQLLEEKIIRALNKNG 503 (794) T ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHCCHHHHHHHHHHHHHCC T ss_conf 99999999876888---899999988989999999751999999999986301--------2201667999999984438 Q ss_pred HHCC------CCCCEEEEEEEEECC------------------EEEEEEEECCCCCCHH-HHHHHCCCEEECCCCCCCCC Q ss_conf 5346------898889999999799------------------8999999788978977-85430465053146755677 Q gi|254780903|r 673 IKFT------NNNGKMMIRTSKIGQ------------------CVIITIADTGIGIPKS-ALEKIGQPFEPLHNQYDQSI 727 (766) Q Consensus 673 ik~t------~~~g~I~i~~~~~~~------------------~v~i~V~D~G~GI~~e-~~~~iF~pF~q~~~~~t~~~ 727 (766) |++. .++|++.|+...... .=.+.|+|..|||.++ ...++ -|. .|+++ T Consensus 504 I~~~~v~~y~~~~g~~~v~~~~~~c~g~~~~~k~I~p~i~~~~g~~~~v~~~~c~~~~~ng~C~~--~F~-----~~~~y 576 (794) T TIGR02865 504 IEVEDVLIYNTEGGRIIVELTIAACGGKGECEKKIAPIISEVTGELMVVKDERCSIDPKNGRCHL--TFE-----ETPKY 576 (794) T ss_pred CCEEEEEEEECCCCCEEEEEEECCCCCCCCCCCCCCCHHHHHCCCEEEEECCCCCCCCCCCEEEE--ECC-----CCCCH T ss_conf 90557988875998258998733788987651025413245114345652233586899871367--505-----78023 Q ss_pred C-CCCHHH Q ss_conf 8-876168 Q gi|254780903|r 728 G-GFGLGL 734 (766) Q Consensus 728 ~-GtGLGL 734 (766) . -||.|- T Consensus 577 ~v~t~~~~ 584 (794) T TIGR02865 577 HVSTGVAK 584 (794) T ss_pred HHHHHHHH T ss_conf 65556553 No 168 >PRK01706 S-adenosylmethionine decarboxylase proenzyme; Validated Probab=56.46 E-value=11 Score=15.63 Aligned_cols=75 Identities=13% Similarity=0.099 Sum_probs=50.5 Q ss_pred EEEEEECC-CCEEEECHHHHHHHHHHHHHHH---------HHCCCCC---------CEEEEEEEEECCEEEEEEEECCCC Q ss_conf 89998089-9789986899999999988656---------5346898---------889999999799899999978897 Q gi|254780903|r 643 KIEKKIPS-ELFFNADKRIIKKILFPILSNS---------IKFTNNN---------GKMMIRTSKIGQCVIITIADTGIG 703 (766) Q Consensus 643 ~l~~~~~~-~l~v~~D~~~l~QVl~NLi~NA---------ik~t~~~---------g~I~i~~~~~~~~v~i~V~D~G~G 703 (766) .+..++-. +.....|...|++++.+.+.-+ -||.|.| ++|.|.+..+.+++.+-|==-|-. T Consensus 9 Hli~Dl~gc~~~~L~d~~~l~~~l~~a~~~~~~tvl~~~~h~F~p~GvT~v~lLaESHiSiHTwPE~g~aaiDiFTCG~~ 88 (123) T PRK01706 9 HIIVDLWGVDFSLLDDMYFLEHHLVHAADLSGAHVLNVSTKEFDPHGVTVLVLLSESHLSIHTYPEKNFAAIDCYTCGTT 88 (123) T ss_pred EEEEEEECCCHHHCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCEEEEEEEECCEEEEEECCCCCEEEEEEECCCCC T ss_conf 99999988783467699999999999999869989977738779998899999750268999756588799999857998 Q ss_pred CCHHHH-HHHCCCEE Q ss_conf 897785-43046505 Q gi|254780903|r 704 IPKSAL-EKIGQPFE 717 (766) Q Consensus 704 I~~e~~-~~iF~pF~ 717 (766) ++|+.. +.|-+.|. T Consensus 89 ~~p~~a~~~L~~~l~ 103 (123) T PRK01706 89 VEPQIAIDYIVSILK 103 (123) T ss_pred CCHHHHHHHHHHHHC T ss_conf 999999999999749 No 169 >TIGR02470 sucr_synth sucrose synthase; InterPro: IPR012820 This entry represents sucrose synthase an enzyme that despite its name, generally uses rather produces sucrose. Sucrose plus UDP (or ADP) becomes D-fructose plus UDP-glucose (or ADP-glucose), which is then available for cell wall (or starch) biosynthesis. The enzyme is homologous to sucrose phosphate synthase, which catalyses the penultimate step in sucrose synthesis. Sucrose synthase is found, so far, exclusively in plants and cyanobacteria.; GO: 0016157 sucrose synthase activity. Probab=56.30 E-value=11 Score=15.66 Aligned_cols=88 Identities=22% Similarity=0.319 Sum_probs=53.5 Q ss_pred EEECHHHHHHH--HHHHHHHHHHCCCCCCEEE-EEEEE---ECCEEEEEEEECCCCCCHHHHHHHCCCEEECCCCCCCCC Q ss_conf 99868999999--9998865653468988899-99999---799899999978897897785430465053146755677 Q gi|254780903|r 654 FNADKRIIKKI--LFPILSNSIKFTNNNGKMM-IRTSK---IGQCVIITIADTGIGIPKSALEKIGQPFEPLHNQYDQSI 727 (766) Q Consensus 654 v~~D~~~l~QV--l~NLi~NAik~t~~~g~I~-i~~~~---~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q~~~~~t~~~ 727 (766) =--|+....+| +-|||. +|.= +|+|+ |+++. ..+.+.=.|+|+ -|| =.++-+||.|= .| =. T Consensus 601 ~S~DrEE~~Ei~kmh~lid---~Y~L-~G~iRWi~~q~~~~~~GElYR~IAD~-~Gi--FVQPA~yEAFG-----LT-v~ 667 (790) T TIGR02470 601 ESKDREEQAEIEKMHNLID---QYQL-HGQIRWIGAQLNRVRNGELYRYIADT-KGI--FVQPALYEAFG-----LT-VV 667 (790) T ss_pred CCCCHHHHHHHHHHHHHHH---HHCC-CCCEEEEEECCCCCCCCEEEEEEECC-CCC--EECCCHHHHHH-----HH-HH T ss_conf 4678789999999999888---6466-97167700006853146467644257-750--33330444532-----57-99 Q ss_pred CCCCHHHHHHHHHHHHCCCEEEEEEECCCC Q ss_conf 887616899999999629869999798995 Q gi|254780903|r 728 GGFGLGLAISDALTNLHGGRLKIISQEGKG 757 (766) Q Consensus 728 ~GtGLGLaI~k~iVe~hgG~I~v~S~~g~G 757 (766) +-.==|| =.+...|||-.+|--.--.| T Consensus 668 EAM~cGL---PTFAT~~GGP~EII~dgvsG 694 (790) T TIGR02470 668 EAMTCGL---PTFATRFGGPLEIIQDGVSG 694 (790) T ss_pred HHHHCCC---HHHHHHCCCCEEEEEECCCC T ss_conf 9863011---24676268963687728835 No 170 >PRK00529 elongation factor P; Validated Probab=56.11 E-value=11 Score=15.59 Aligned_cols=58 Identities=16% Similarity=0.315 Sum_probs=33.8 Q ss_pred CCCEEEECHHHHHHHHHH--HHHHHHHCCCCCCEEEEEEEE-------ECCEEEEEEEECCCCCCHH Q ss_conf 997899868999999999--886565346898889999999-------7998999999788978977 Q gi|254780903|r 650 SELFFNADKRIIKKILFP--ILSNSIKFTNNNGKMMIRTSK-------IGQCVIITIADTGIGIPKS 707 (766) Q Consensus 650 ~~l~v~~D~~~l~QVl~N--Li~NAik~t~~~g~I~i~~~~-------~~~~v~i~V~D~G~GI~~e 707 (766) .+..+..|..-..|+-++ +++++.+|.-+|-.+.|.... .+..|.+.|.++-+|+--+ T Consensus 77 g~~~~FMd~etyEQi~l~~~~ig~~~~~L~e~~~v~v~~~~~~~i~v~lP~~V~l~V~et~p~vKGd 143 (186) T PRK00529 77 GEMYVFMDTETYEQIEVPAEQVGDAAKFLKEGMEVTVTFYNGEPISVELPNTVELEVTETEPGVKGD 143 (186) T ss_pred CCCEEEECCCCCCCEECCHHHHHHHHHHHCCCCEEEEEEECCEEEEEECCCEEEEEEEECCCCCCCC T ss_conf 9953997699741143478897778874237978999998999985558985999999889964444 No 171 >pfam07568 HisKA_2 Histidine kinase. This is the dimerization and phosphoacceptor domain of a sub-family of histidine kinases. It shares sequence similarity with pfam00512 and pfam07536. It is usually found adjacent to a C-terminal ATPase domain (pfam02518). This domain is found in a wide range of Bacteria and also several Archaea. Probab=55.82 E-value=11 Score=15.56 Aligned_cols=73 Identities=12% Similarity=0.062 Sum_probs=49.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHH Q ss_conf 76752224789999999986034688993899999999999999999997776778887419830120331699999999 Q gi|254780903|r 550 MSHELRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPIINEG 629 (766) Q Consensus 550 isHelrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~ 629 (766) +.|=.+|-|..|.++..+-..... ++..++.+..+..-..-+..+=+ .|. ..-+...+|+.+.+++. T Consensus 2 v~HRVKNnLq~i~sll~lq~~~~~----~~~~~~~l~~~~~RI~a~a~vH~-~Ly--------~~~~~~~v~~~~yl~~L 68 (76) T pfam07568 2 IHHRVKNNLQVISSLLRLQARRAK----DEEVKEALRESQNRVLSMALIHE-ELY--------KSEDLDTVDFSEYLEKL 68 (76) T ss_pred CHHHHHHHHHHHHHHHHHHHHHCC----CHHHHHHHHHHHHHHHHHHHHHH-HHH--------CCCCCCEECHHHHHHHH T ss_conf 038898579999999998734259----99999999999999999999999-997--------69997846399999999 Q ss_pred HHHHHH Q ss_conf 999999 Q gi|254780903|r 630 IRLIGS 635 (766) Q Consensus 630 ~~~~~~ 635 (766) +..+.. T Consensus 69 ~~~l~~ 74 (76) T pfam07568 69 TENLFS 74 (76) T ss_pred HHHHHH T ss_conf 999997 No 172 >PRK11178 uridine phosphorylase; Provisional Probab=53.99 E-value=12 Score=15.35 Aligned_cols=11 Identities=18% Similarity=0.030 Sum_probs=4.5 Q ss_pred HCCCCHHHHHH Q ss_conf 08120589999 Q gi|254780903|r 306 IHYDNKKICEI 316 (766) Q Consensus 306 vHPdDr~~~~~ 316 (766) +-|-|-.++.. T Consensus 21 il~GDP~Rv~~ 31 (251) T PRK11178 21 IVPGDPERVEK 31 (251) T ss_pred EECCCHHHHHH T ss_conf 96799899999 No 173 >TIGR02035 D_Ser_am_lyase D-serine ammonia-lyase; InterPro: IPR011780 This family consists of D-serine ammonia-lyases, pyridoxal-phosphate enzymes that convert D-serine to pyruvate and NH3. These enzyme are also called D-serine dehydratase and D-serine deaminase and was previously designated 4.2.1.14 from EC. It is homologous to an enzyme that acts on threonine and may itself act weakly on threonine.; GO: 0008721 D-serine ammonia-lyase activity, 0030170 pyridoxal phosphate binding, 0046416 D-amino acid metabolic process. Probab=53.15 E-value=4.8 Score=18.25 Aligned_cols=26 Identities=12% Similarity=0.091 Sum_probs=14.2 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 01122355489999999998853101 Q gi|254780903|r 100 NNIKFDLASQKKAESMLGQLLAKTRF 125 (766) Q Consensus 100 ~~~~~d~~~~~~ae~~L~~~~~~~~~ 125 (766) ..+....++.+.|+++|.++-|-... T Consensus 32 ~~~~l~~~~~~~A~~RL~RFAP~ia~ 57 (431) T TIGR02035 32 PKVGLKAQEVAEAEARLQRFAPYIAK 57 (431) T ss_pred CCCCCHHHHHHHHHHHHHHCCHHHHH T ss_conf 34783055699999886411005775 No 174 >pfam11212 DUF2999 Protein of unknown function (DUF2999). This family of proteins with unknown function appears to be restricted to Gammaproteobacteria. Probab=52.19 E-value=13 Score=15.16 Aligned_cols=54 Identities=19% Similarity=0.332 Sum_probs=30.8 Q ss_pred HHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHCCCCCC Q ss_conf 224789999999986034688993899999999999999999997776-7788874198301 Q gi|254780903|r 555 RTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNI-LEMSKIETEKISI 615 (766) Q Consensus 555 rtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~di-Ld~srieag~~~~ 615 (766) .|||.+.--..++ | +..|+.+..+.....+-.-+.+-++.+ |||||+|+.+-++ T Consensus 27 eNP~~AM~~i~qL------G-ip~eKLQ~lm~~VM~nP~LIkeAv~elgLdfskve~Akakl 81 (82) T pfam11212 27 ENPLMAMATIQQL------G-IPPEKLQQLMMLVMQNPALIKEAVEELGLDFSKVEAAKAKL 81 (82) T ss_pred HCHHHHHHHHHHC------C-CCHHHHHHHHHHHHCCHHHHHHHHHHHCCCHHHHHHHHHHC T ss_conf 2979999999980------8-99999999999997192889999999678789999998753 No 175 >TIGR01067 rplN_bact ribosomal protein L14; InterPro: IPR005745 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . Ribosomal protein L14 is one of the proteins from the large ribosomal subunit. In bacteria, L14 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins which have been grouped on the basis of sequence similarities . L14 is a protein of 119 to 137 amino-acid residues. This family distinguishes bacterial and most organellar examples of ribosomal protein L14 from all archaeal and eukaryotic forms. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit. Probab=49.84 E-value=14 Score=14.91 Aligned_cols=31 Identities=19% Similarity=0.222 Sum_probs=25.9 Q ss_pred EEECCCCCEEEEEEEEEEEEECCCEE---EEEEE Q ss_conf 98869898899889999998379606---99999 Q gi|254780903|r 333 HMRHASGADIWIQVRAQMMRTISGGM---NIIGI 363 (766) Q Consensus 333 Ri~~~DG~~~Wi~~r~~~i~d~~G~~---~~iGi 363 (766) -++|+||+++-+...+-++-+.++.| |++|- T Consensus 74 ~~~R~dG~~i~Fd~NAcVll~~~~~P~GTRifGP 107 (128) T TIGR01067 74 EVRRKDGSYIRFDDNACVLLNKNKEPRGTRIFGP 107 (128) T ss_pred CCCCCCCCEEEECCCEEEEEECCCCCCEEEEEEC T ss_conf 8388999788818927999816988830178601 No 176 >COG0397 Uncharacterized conserved protein [Function unknown] Probab=49.03 E-value=14 Score=14.82 Aligned_cols=23 Identities=13% Similarity=0.120 Sum_probs=15.3 Q ss_pred CCCCEEEECCCHHHHCCCCHHHH Q ss_conf 99808997142055519978896 Q gi|254780903|r 136 PNELVFASSTKNSHYIGKKIGEI 158 (766) Q Consensus 136 ~~g~i~~~n~~~~~~~G~~~~~~ 158 (766) ++-+.+..|+.....+|.+...+ T Consensus 31 ~~~~L~~~n~~la~~LgLd~~~~ 53 (488) T COG0397 31 PNPRLRWRNDRLAATLGLDPSLL 53 (488) T ss_pred CCCEEEEECHHHHHHCCCCHHHC T ss_conf 88555432786787629986762 No 177 >TIGR00868 hCaCC calcium-activated chloride channel protein 1; InterPro: IPR004727 This entry represents a family of Ca(2+)-regulated chloride channels (CLCA) which includes bovine, murine and human proteins , . Each CLCA exhibits a distinct, often overlapping, tissue expression pattern. With the exception of the truncated, secreted protein hCLCA3 , they are synthesized as an approximately 125 kDa precursor transmembrane glycoprotein that is rapidly cleaved into 90 and 35 kDa subunits. The human proteins have been shown to affect a large number of cell functions including chloride conductance, epithelial secretion, cell-cell adhesion, apoptosis, cell cycle control, mucus production in asthma, and blood pressure. The CLCA proteins expressed on the luminal surface of lung vascular endothelia (bCLCA2; mCLCA1; hCLCA2) serve as adhesion molecules for lung metastatic cancer cells, mediating vascular arrest and lung colonization. Expression of hCLCA2 in normal mammary epithelium is consistently lost in human breast cancer and in all tumorigenic breast cancer cell lines. Re-expression of hCLCA2 in human breast cancer cells abrogates tumorigenicity in nude mice, implying that hCLCA2 acts as a tumour suppressor in breast cancer.. Probab=44.93 E-value=16 Score=14.39 Aligned_cols=30 Identities=20% Similarity=0.286 Sum_probs=27.1 Q ss_pred ECCEEEEEEEECCCCCCHHHHHHHCCCEEE Q ss_conf 799899999978897897785430465053 Q gi|254780903|r 689 IGQCVIITIADTGIGIPKSALEKIGQPFEP 718 (766) Q Consensus 689 ~~~~v~i~V~D~G~GI~~e~~~~iF~pF~q 718 (766) .|..+.++.-|||.|=+.-.-|=|+-+||+ T Consensus 646 ~Gh~vtLELlDNGAGAD~~KNDGiYsRYFT 675 (874) T TIGR00868 646 NGHTVTLELLDNGAGADTVKNDGIYSRYFT 675 (874) T ss_pred CCCEEEEEEEECCCCCCCCCCCCCEEEEEE T ss_conf 997899886417766566005831220120 No 178 >PRK12299 obgE GTPase ObgE; Reviewed Probab=44.90 E-value=16 Score=14.39 Aligned_cols=12 Identities=8% Similarity=0.130 Sum_probs=4.5 Q ss_pred HHHHHHHHHHHH Q ss_conf 999999999999 Q gi|254780903|r 622 LIPIINEGIRLI 633 (766) Q Consensus 622 l~~~i~~~~~~~ 633 (766) +.+++..+.+.+ T Consensus 315 l~eL~~~i~~~L 326 (334) T PRK12299 315 LDELLRALWEFL 326 (334) T ss_pred HHHHHHHHHHHH T ss_conf 999999999999 No 179 >KOG1135 consensus Probab=44.53 E-value=6.1 Score=17.50 Aligned_cols=47 Identities=21% Similarity=0.312 Sum_probs=25.4 Q ss_pred EEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECC-CCCC Q ss_conf 998689999999998865653468988899999997998999999788-9789 Q gi|254780903|r 654 FNADKRIIKKILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTG-IGIP 705 (766) Q Consensus 654 v~~D~~~l~QVl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G-~GI~ 705 (766) +.+|+ +|.+.=.=|..+.+++-..||-.. ..++.|-++..|+| ++|. T Consensus 696 ~igd~-rLadfKq~L~~kgi~aEf~ggglL----~~~g~VavRk~d~G~i~ie 743 (764) T KOG1135 696 LIGDL-RLADFKQLLTEKGIQAEFKGGGLL----VCNGCVAVRKVDTGKITIE 743 (764) T ss_pred EECCH-HHHHHHHHHHHCCEEEEEECCCEE----EECCEEEEEECCCCEEEEE T ss_conf 63670-299999998737837898258489----9788899998079617882 No 180 >PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional Probab=44.42 E-value=17 Score=14.34 Aligned_cols=41 Identities=12% Similarity=0.130 Sum_probs=34.5 Q ss_pred HHHHHHHHHHHHHHHEEEECCCCEEEEECHHHHHHHCCCHH Q ss_conf 99999999985445515883499699701789888399978 Q gi|254780903|r 380 ADQRLSKAIECTSEALVLWDKNDRLVMCNANYQKAYGLPDH 420 (766) Q Consensus 380 se~rlr~~ie~~~~~i~~~D~~g~i~~~N~~~~~~~g~~~~ 420 (766) -.+.+.+++...|-+.++-+.+|.++.+|.+|.+.|.-... T Consensus 17 l~~sl~~~i~~~~~PvCIRn~sG~Fi~~N~~F~~~F~~~~~ 57 (220) T PRK13719 17 LLESLTAFIDDYSIPACIRNEDGSFIFFNTLFSKEFLGSLQ 57 (220) T ss_pred HHHHHHHHHHCCCCCEEEECCCCCCCCCCHHHHHHHHHCCC T ss_conf 79999999971899648977899830152789999874113 No 181 >COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only] Probab=44.30 E-value=17 Score=14.32 Aligned_cols=19 Identities=26% Similarity=0.552 Sum_probs=9.1 Q ss_pred CEEEEEEEEECCCCC--EEEE Q ss_conf 848999998869898--8998 Q gi|254780903|r 326 KQLDQIFHMRHASGA--DIWI 344 (766) Q Consensus 326 ~~~~~e~Ri~~~DG~--~~Wi 344 (766) ..++.+..+|.+-|. ..|+ T Consensus 383 ~~~~l~ePIRya~gDPiE~wl 403 (758) T COG1444 383 HELELEEPIRYAPGDPIEKWL 403 (758) T ss_pred EEEECCCCCCCCCCCCHHHHH T ss_conf 998546873168999679999 No 182 >PTZ00054 60S ribosomal protein L23; Provisional Probab=43.62 E-value=17 Score=14.25 Aligned_cols=32 Identities=25% Similarity=0.279 Sum_probs=25.4 Q ss_pred EEEECCCCCEEEEEEEEEEEEECCCEE---EEEEE Q ss_conf 998869898899889999998379606---99999 Q gi|254780903|r 332 FHMRHASGADIWIQVRAQMMRTISGGM---NIIGI 363 (766) Q Consensus 332 ~Ri~~~DG~~~Wi~~r~~~i~d~~G~~---~~iGi 363 (766) .-++++||+++-+...+.++-|++|+| ++.|- T Consensus 85 k~~rR~DGs~I~FddNA~Viin~~g~pkGTrIfGP 119 (139) T PTZ00054 85 KAWRRREGYFIYFEDNAGVIVNPKGEMKGSAITGP 119 (139) T ss_pred CCEECCCCCEEEECCCEEEEECCCCCEEEEEEECC T ss_conf 34271899999977876999999998814168371 No 183 >TIGR01634 tail_P2_I phage tail protein I; InterPro: IPR006521 These sequences represent the family of phage P2 protein I and related tail proteins from a number of temperate phage of Gram-negative bacteria.. Probab=43.51 E-value=13 Score=15.06 Aligned_cols=82 Identities=11% Similarity=0.048 Sum_probs=33.3 Q ss_pred CHHHHHHHHCCCC--HHHHHHHHHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEEEECCCHHHHHHH Q ss_conf 9889997608120--58999999997248984899999886989889988999999837960699999844617999999 Q gi|254780903|r 298 SFRAIARLIHYDN--KKICEIARSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTISGGMNIIGIAMDLTEKYHLEK 375 (766) Q Consensus 298 s~~~~~~~vHPdD--r~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi~~DITErK~ae~ 375 (766) |...|.+ --||- |+....|...-..+|.. ...=|++.+=|..+-|..-=+ .++.|.||-+-+..|+|+.=-.|+ T Consensus 48 SVD~W~~-~Wp~~vKR~~ir~A~~~~~~KGt~-~avR~Vves~G~~v~i~EWWq--~~P~~~pgTF~L~~~l~~~G~~~~ 123 (139) T TIGR01634 48 SVDRWDS-TWPEKVKRDVIRSAYLIQRHKGTV-KAVRRVVESFGGLVDITEWWQ--TEPAGAPGTFELTLTLSGSGGDEE 123 (139) T ss_pred CCCCCCC-CCCHHHHHHHHHHHHHHHCCCCCH-HHHHHHHCCCCCEEEEECCCC--CCCCCCCCCEEEEEEECCCCCCHH T ss_conf 3566456-785324589999999985357861-323333203465011010224--774336964378875227885478 Q ss_pred HHHHHHHH Q ss_conf 99999999 Q gi|254780903|r 376 RYAEADQR 383 (766) Q Consensus 376 ~l~ese~r 383 (766) -..+-+.. T Consensus 124 t~~~~~~l 131 (139) T TIGR01634 124 TVLEVERL 131 (139) T ss_pred HHHHHHHH T ss_conf 89999998 No 184 >PRK12297 obgE GTPase ObgE; Reviewed Probab=43.17 E-value=17 Score=14.20 Aligned_cols=12 Identities=8% Similarity=-0.069 Sum_probs=4.3 Q ss_pred CCCEEEEECCCC Q ss_conf 974598976897 Q gi|254780903|r 265 RCGLWNFNFDNK 276 (766) Q Consensus 265 ~~GiWd~D~~~~ 276 (766) |+|.-.+|.+++ T Consensus 90 P~GT~v~d~~~~ 101 (429) T PRK12297 90 PVGTTVKDAETG 101 (429) T ss_pred CCCCEEEECCCC T ss_conf 897678866899 No 185 >TIGR03330 SAM_DCase_Bsu S-adenosylmethionine decarboxylase proenzyme, Bacillus form. Members of this protein family are the single chain precursor of the two chains of the mature S-adenosylmethionine decarboxylase as found in Methanocaldococcus jannaschii, Bacillus subtilis, and a wide range of other species. It differs substantially in architecture from the form as found in Escherichia coli, and lacks any extended homology to the eukaryotic form (TIGR00535). Probab=42.99 E-value=17 Score=14.19 Aligned_cols=74 Identities=12% Similarity=-0.009 Sum_probs=49.2 Q ss_pred EEEEECC-CCEEEECHHHHHHHHHHHHHHH---------HHCCCCC---------CEEEEEEEEECCEEEEEEEECCCCC Q ss_conf 9998089-9789986899999999988656---------5346898---------8899999997998999999788978 Q gi|254780903|r 644 IEKKIPS-ELFFNADKRIIKKILFPILSNS---------IKFTNNN---------GKMMIRTSKIGQCVIITIADTGIGI 704 (766) Q Consensus 644 l~~~~~~-~l~v~~D~~~l~QVl~NLi~NA---------ik~t~~~---------g~I~i~~~~~~~~v~i~V~D~G~GI 704 (766) +..++-. +..+..|...+++++.+.+..+ -+|.|.| ++|.|.+..+.+++.+-|==-|... T Consensus 7 li~Dl~gc~~~~L~d~~~l~~~l~~a~~~~~~~il~~~~~~f~p~GvT~v~ll~ESHisiHTwPE~g~aaiDiftCg~~~ 86 (112) T TIGR03330 7 LIVDLYGCDPEKLDDVEFIEEILLEAAKVAGATLVASHFHKFSPGGVSGVVLLAESHISIHTWPEYGYAAVDVFTCGDHS 86 (112) T ss_pred EEEEEECCCHHHCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCEEEEEEECCCEEEEEECCCCCEEEEEEEECCCCC T ss_conf 99999777957877999999999999998699799888697499979999993243699998678884999998638999 Q ss_pred CHHHHHHHCCCEE Q ss_conf 9778543046505 Q gi|254780903|r 705 PKSALEKIGQPFE 717 (766) Q Consensus 705 ~~e~~~~iF~pF~ 717 (766) .|+..-+....++ T Consensus 87 ~p~~a~~~l~~~f 99 (112) T TIGR03330 87 DPEKAFEYLVEAL 99 (112) T ss_pred CHHHHHHHHHHHH T ss_conf 9999999999972 No 186 >TIGR02789 nickel_nikB nickel ABC transporter, permease subunit NikB; InterPro: IPR014156 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain . The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , . The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family consists of the NikB family of nickel ABC transporter permeases. Operons that contain this protein also contain a homologous permease subunit NikC. Nickel is used in cells as part of urease or certain hydrogenases or superoxide dismutases.. Probab=42.53 E-value=15 Score=14.65 Aligned_cols=13 Identities=23% Similarity=-0.005 Sum_probs=5.6 Q ss_pred HHHHHHHHHHHHH Q ss_conf 9999999999854 Q gi|254780903|r 379 EADQRLSKAIECT 391 (766) Q Consensus 379 ese~rlr~~ie~~ 391 (766) ..++-||.++... T Consensus 223 ~~~H~Lrna~~p~ 235 (315) T TIGR02789 223 IRRHILRNAILPM 235 (315) T ss_pred HHHHHCCCCHHHH T ss_conf 8863241110256 No 187 >PRK13858 type IV secretion system T-DNA border endonuclease VirD1; Provisional Probab=42.37 E-value=18 Score=14.12 Aligned_cols=73 Identities=26% Similarity=0.270 Sum_probs=35.8 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHCCCCCCCEEEECHHH Q ss_conf 22247899999999860346889938999999999999999999977767788---------874198301203316999 Q gi|254780903|r 554 LRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILEMS---------KIETEKISIDKQNADLIP 624 (766) Q Consensus 554 lrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd~s---------rieag~~~~~~~~~dl~~ 624 (766) +|--..-|-||.|+= .+.++.++.|..+.-.+..-||++|.-. ..++.|..+-++--||.. T Consensus 55 iRvAvRRIgGFlEiD----------A~Tr~~me~i~~sIg~ls~ni~~l~~a~a~~~~~dlea~~aeR~afG~~fa~Ld~ 124 (148) T PRK13858 55 IRVAVRRIGGFLEID----------AKTREKMEAILQSIGTLSSNINALLSAYAENPRPDLEAFRAERIAFGKEFADLDG 124 (148) T ss_pred HHHHHHHHHHHHHCC----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHH T ss_conf 999999970055412----------9899999999999999988999999998449986389999999999899998899 Q ss_pred HHHHHHHHHHHH Q ss_conf 999999999999 Q gi|254780903|r 625 IINEGIRLIGSS 636 (766) Q Consensus 625 ~i~~~~~~~~~~ 636 (766) ++...+..-+.+ T Consensus 125 lLrsilsVSRRR 136 (148) T PRK13858 125 LLRSILSVSRRR 136 (148) T ss_pred HHHHHHHHHHHH T ss_conf 999999998862 No 188 >TIGR01818 ntrC nitrogen regulation protein NR(I); InterPro: IPR010114 This entry represents Nitrogen regulatory protein C (NtrC), which is a bacterial enhancer-binding protein that activates the transcription of genes encoding enzymes required for nitrogen metabolism. It is phosphorylated by NtrB and interacts with sigma-54. One of the best studied examples is its activation of the gene glnA, which encodes the enzyme glutamine synthetase.. NtrC is composed of three domains , . The 124 residue N-terminal domain is homologous to receiver domains of other response regulator proteins in two-component signal transduction systems , . The 240 residue central domain of NtrC is homologous to a domain found in all activators of the sigma-54 RNA polymerase holoenzyme , . The C-terminal domain has been indicated to contain the determinants necessary for both DNA-binding and dimerization of full-length NtrC.; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0009399 nitrogen fixation, 0050906 detection of stimulus during sensory perception. Probab=41.56 E-value=18 Score=14.04 Aligned_cols=36 Identities=28% Similarity=0.279 Sum_probs=21.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH Q ss_conf 9998878999999998767522247899999-99986 Q gi|254780903|r 534 ERAETANKTKSEFLAKMSHELRTPLNAILGF-SEVIK 569 (766) Q Consensus 534 ~~ae~an~~k~efla~isHelrtPL~aI~g~-~ell~ 569 (766) +|-|...+....||+..+.++-=+...+..- .+.|. T Consensus 310 ER~eDi~~L~rhFL~~a~~~l~~~~k~L~~~~~~~L~ 346 (471) T TIGR01818 310 ERREDIPRLARHFLALAAKELDVEPKLLSPEALEALK 346 (471) T ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHH T ss_conf 2266899999999999887428651134889999997 No 189 >PRK00029 hypothetical protein; Validated Probab=40.81 E-value=19 Score=13.96 Aligned_cols=23 Identities=13% Similarity=0.160 Sum_probs=15.5 Q ss_pred CCCCEEEECCCHHHHCCCCHHHH Q ss_conf 99808997142055519978896 Q gi|254780903|r 136 PNELVFASSTKNSHYIGKKIGEI 158 (766) Q Consensus 136 ~~g~i~~~n~~~~~~~G~~~~~~ 158 (766) ++-+++..|+.....+|.....+ T Consensus 31 ~~p~l~~~n~~la~~lgl~~~~~ 53 (487) T PRK00029 31 PAPRLRFRNDELAALLGLDPEEL 53 (487) T ss_pred CCCEEEEECHHHHHHCCCCHHHC T ss_conf 99878985899998769880325 No 190 >TIGR02749 prenyl_cyano solanesyl diphosphate synthase; InterPro: IPR014120 This entry contains solanesyl diphosphate synthases from cyanobacteria or plastid-containing eukaryotes. A member from Arabidopsis (where both plastoquinone and ubiquinone contain the C(45) prenyl moiety) was characterised by heterologous expression as a solanesyl diphosphate synthase.. Probab=40.27 E-value=19 Score=13.95 Aligned_cols=25 Identities=16% Similarity=0.230 Sum_probs=10.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHEEE Q ss_conf 9999999999999999854455158 Q gi|254780903|r 373 LEKRYAEADQRLSKAIECTSEALVL 397 (766) Q Consensus 373 ae~~l~ese~rlr~~ie~~~~~i~~ 397 (766) .|+=+..|=-+-..++-+++-|..+ T Consensus 166 le~YleKSyYKTASL~AaSskaAAv 190 (325) T TIGR02749 166 LEDYLEKSYYKTASLVAASSKAAAV 190 (325) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 8876656446789999999899888 No 191 >pfam02675 AdoMet_dc S-adenosylmethionine decarboxylase. This family contains several S-adenosylmethionine decarboxylase proteins from bacterial and archaebacterial species. S-adenosylmethionine decarboxylase (AdoMetDC), a key enzyme in the biosynthesis of spermidine and spermine, is first synthesized as a proenzyme, which is cleaved post translationally to form alpha and beta subunits. The alpha subunit contains a covalently bound pyruvoyl group derived from serine that is essential for activity. Probab=39.87 E-value=19 Score=13.86 Aligned_cols=66 Identities=12% Similarity=-0.009 Sum_probs=47.7 Q ss_pred CEEEECHHHHHHHHHHHHHHH---------HHCCCCC---------CEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHC Q ss_conf 789986899999999988656---------5346898---------8899999997998999999788978977854304 Q gi|254780903|r 652 LFFNADKRIIKKILFPILSNS---------IKFTNNN---------GKMMIRTSKIGQCVIITIADTGIGIPKSALEKIG 713 (766) Q Consensus 652 l~v~~D~~~l~QVl~NLi~NA---------ik~t~~~---------g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF 713 (766) ..+..|...+++++.+++.-+ -+|.|.| +.|.|.+..+.+++.+-|==-|.++.|+..-+.. T Consensus 11 ~~~L~d~~~i~~~l~~a~~~~~~tvl~~~~~~f~p~Gvt~v~ll~ESHisiHTwPE~g~aaiDiftCg~~~~p~~a~~~l 90 (107) T pfam02675 11 ADLLNDAERLERILREAAKAAGATLLGIAFHKFEPQGVSGVALLAESHISIHTWPEYGYAAVDVFTCGEHADPWKALEYL 90 (107) T ss_pred HHHCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCEEEEEEECCCEEEEEECCCCCCEEEEEECCCCCCCHHHHHHHH T ss_conf 46787999999999999998799899999897599988999992266389998268893899997178989999999999 Q ss_pred CCEE Q ss_conf 6505 Q gi|254780903|r 714 QPFE 717 (766) Q Consensus 714 ~pF~ 717 (766) ..+| T Consensus 91 ~~~f 94 (107) T pfam02675 91 KEAL 94 (107) T ss_pred HHHH T ss_conf 9972 No 192 >PRK08383 putative monovalent cation/H+ antiporter subunit E; Reviewed Probab=39.55 E-value=20 Score=13.82 Aligned_cols=52 Identities=27% Similarity=0.441 Sum_probs=40.7 Q ss_pred HHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECCCCCC-HHHHHHHCCCEEE Q ss_conf 99988656534689888999999979989999997889789-7785430465053 Q gi|254780903|r 665 LFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTGIGIP-KSALEKIGQPFEP 718 (766) Q Consensus 665 l~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~-~e~~~~iF~pF~q 718 (766) -.-++.|.+--|| |++++.+..+++.+.+..-|-..|.. +|..+.|.++|+. T Consensus 108 ~~t~lansITLTP--GTltvdv~~d~~~lyVH~idv~~~~~~~e~~~~I~~~FEk 160 (167) T PRK08383 108 QYTILSNSITLTP--GTLTIEACPEEKALYVHWINIPEGLEWPESSEPVSGPFEK 160 (167) T ss_pred HHHHHHHHHCCCC--CEEEEEECCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHH T ss_conf 8999986331689--7799997499987999998789877704568898677999 No 193 >COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription] Probab=38.64 E-value=20 Score=13.73 Aligned_cols=55 Identities=11% Similarity=0.102 Sum_probs=33.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHC-------CCCCEEEEECCCCEEEECHHHHHHCCCCH Q ss_conf 89999999999999999999999722-------59745989768978999788997729994 Q gi|254780903|r 238 RQAKKNKENDTILLEANICVETALSR-------GRCGLWNFNFDNKKFHLSRSMYEIMGIPY 292 (766) Q Consensus 238 ~dit~~r~ae~~l~ese~rl~~al~~-------a~~GiWd~D~~~~~i~ws~~~~~llG~~~ 292 (766) .++.++-+++.-++..+..+..-+.. ...+..-+|.++..+-.|.+.+.+++.+. T Consensus 198 ~~~ar~IE~~~~~~~~~~~~~lr~~~~p~~~d~~~~~~lavd~~grvl~at~aA~~~La~~~ 259 (606) T COG3284 198 TDAARRIEAELFLAAFEGHWLLRIALAPDYLDSQSEALLAVDQDGRVLGATRAARQLLALTD 259 (606) T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHCCCCCCCCCCCEEEEECCCCHHHHCCHHHHHHHCCCH T ss_conf 99999999999987537526777761855457665400012576655532288997623446 No 194 >PRK07831 short chain dehydrogenase; Provisional Probab=38.62 E-value=18 Score=14.14 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=13.8 Q ss_pred EEEEEEECCCHHHHHHHHHHHHHHH Q ss_conf 9999984461799999999999999 Q gi|254780903|r 359 NIIGIAMDLTEKYHLEKRYAEADQR 383 (766) Q Consensus 359 ~~iGi~~DITErK~ae~~l~ese~r 383 (766) ++.++..|||+....+....+.... T Consensus 69 ~v~~~~~Dvt~~~~v~~~v~~~~~~ 93 (261) T PRK07831 69 RVEGVVCDVTSEAQVDALIDAAVER 93 (261) T ss_pred EEEEEECCCCCHHHHHHHHHHHHHH T ss_conf 2899975689999999999999998 No 195 >COG0536 Obg Predicted GTPase [General function prediction only] Probab=38.29 E-value=20 Score=13.69 Aligned_cols=16 Identities=13% Similarity=0.181 Sum_probs=7.3 Q ss_pred CHHHHHHHHHHHHHHH Q ss_conf 6999999999999999 Q gi|254780903|r 621 DLIPIINEGIRLIGSS 636 (766) Q Consensus 621 dl~~~i~~~~~~~~~~ 636 (766) .+.+++..+.+++... T Consensus 320 g~~~L~~~~~~~l~~~ 335 (369) T COG0536 320 GLDELLRALAELLEET 335 (369) T ss_pred CHHHHHHHHHHHHHHH T ss_conf 8799999999999975 No 196 >PRK12298 obgE GTPase ObgE; Reviewed Probab=36.10 E-value=22 Score=13.45 Aligned_cols=13 Identities=8% Similarity=0.003 Sum_probs=5.4 Q ss_pred HHHHHHHHHHHHH Q ss_conf 9999999999999 Q gi|254780903|r 622 LIPIINEGIRLIG 634 (766) Q Consensus 622 l~~~i~~~~~~~~ 634 (766) +.+++..+.+++. T Consensus 321 ~~~L~~~i~~~l~ 333 (380) T PRK12298 321 TKELCWDLMTFIE 333 (380) T ss_pred HHHHHHHHHHHHH T ss_conf 9999999999998 No 197 >TIGR00107 deoD purine nucleoside phosphorylase; InterPro: IPR004402 Purine nucleoside phosphorylase 2.4.2.1 from EC also called inosine phosphorylase (pnp) cleave guanosine or inosine to respective bases and sugar-1-phosphate molecules. These enzymes are involved in the salvage of nucleotides and nucleosides.; GO: 0004731 purine-nucleoside phosphorylase activity, 0006139 nucleobase nucleoside nucleotide and nucleic acid metabolic process. Probab=35.84 E-value=22 Score=13.43 Aligned_cols=61 Identities=15% Similarity=0.129 Sum_probs=26.3 Q ss_pred HHHHHHCCCCCEEEEECCCC-EE----EECHHHH-HHCCCC-HHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCE Q ss_conf 99997225974598976897-89----9978899-772999-433058988999760812058999999997248984 Q gi|254780903|r 257 VETALSRGRCGLWNFNFDNK-KF----HLSRSMY-EIMGIP-YENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQ 327 (766) Q Consensus 257 l~~al~~a~~GiWd~D~~~~-~i----~ws~~~~-~llG~~-~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~ 327 (766) .+.+++.|.||-..-++.=+ .+ -|+++-+ ++.|.+ |++.... -|-+.++.|.+.+...+-. T Consensus 79 V~~iiRiGSCGA~~~~vkl~D~iiA~~A~tdS~~nr~~f~~~P~D~~~~----------Adf~L~~~A~~tAk~~g~~ 146 (234) T TIGR00107 79 VKTIIRIGSCGAIRPDVKLRDVIIAMGASTDSKVNRVRFVEVPEDFAAI----------ADFELVELAYDTAKALGID 146 (234) T ss_pred CCEEEEEECCCCCCCCCCEEEEEEECCCCCHHHHHHHHCCCCCCCCCCC----------CCHHHHHHHHHHHHHCCCC T ss_conf 4457886213011356760688971142322335555056876443347----------8989999999999867972 No 198 >TIGR03673 rpl14p_arch 50S ribosomal protein L14P. Part of the 50S ribosomal subunit. Forms a cluster with proteins L3 and L24e, part of which may contact the 16S rRNA in 2 intersubunit bridges. Probab=35.41 E-value=23 Score=13.38 Aligned_cols=34 Identities=21% Similarity=0.223 Sum_probs=26.6 Q ss_pred EEEECCCCCEEEEEEEEEEEEECCCEE---EEEEEEE Q ss_conf 998869898899889999998379606---9999984 Q gi|254780903|r 332 FHMRHASGADIWIQVRAQMMRTISGGM---NIIGIAM 365 (766) Q Consensus 332 ~Ri~~~DG~~~Wi~~r~~~i~d~~G~~---~~iGi~~ 365 (766) +.++++||.++-+...+.++-+++|.| ++.|.+- T Consensus 77 k~~rR~DGs~i~FddNa~VLin~~g~P~GTRI~GPV~ 113 (131) T TIGR03673 77 KEYRRPDGTRVKFEDNAVVIVTPDGEPKGTEIKGPVA 113 (131) T ss_pred CCEECCCCCEEEECCCEEEEECCCCCEEEEEEECCCH T ss_conf 7669089999981897699998999990617826404 No 199 >PRK03578 hscB co-chaperone HscB; Provisional Probab=35.12 E-value=14 Score=14.83 Aligned_cols=30 Identities=20% Similarity=0.494 Sum_probs=17.7 Q ss_pred ECHHHHHHCCCCHHH------CCCCHHHHHHHHCCC Q ss_conf 978899772999433------058988999760812 Q gi|254780903|r 280 LSRSMYEIMGIPYEN------KTLSFRAIARLIHYD 309 (766) Q Consensus 280 ws~~~~~llG~~~~e------~~~s~~~~~~~vHPd 309 (766) .+..++++||+++.= ....|..+...+||| T Consensus 4 ~~~nyF~lf~lp~~f~iD~~~L~~~y~~LQ~~~HPD 39 (176) T PRK03578 4 LKDDHFSLFGLPARFALDEAALDAAYRTVQAQVHPD 39 (176) T ss_pred CCCCHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCC T ss_conf 665678882999767779999999999999987967 No 200 >COG2200 Rtn c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms] Probab=34.80 E-value=23 Score=13.31 Aligned_cols=22 Identities=14% Similarity=0.132 Sum_probs=7.4 Q ss_pred CCCCCCCCCCCCHHHHHHHHHH Q ss_conf 4675567788761689999999 Q gi|254780903|r 720 HNQYDQSIGGFGLGLAISDALT 741 (766) Q Consensus 720 ~~~~t~~~~GtGLGLaI~k~iV 741 (766) |.++.+......-+..++++|| T Consensus 178 D~~fv~~i~~~~~~~~iv~~iv 199 (256) T COG2200 178 DRSFVRDLETDARDQAIVRAIV 199 (256) T ss_pred CHHHHHHHCCCCHHHHHHHHHH T ss_conf 6999986303831179999999 No 201 >PRK06841 short chain dehydrogenase; Provisional Probab=33.98 E-value=24 Score=13.22 Aligned_cols=22 Identities=23% Similarity=0.326 Sum_probs=11.9 Q ss_pred EEEECCCHHHHHHHHHHHHHHH Q ss_conf 9984461799999999999999 Q gi|254780903|r 362 GIAMDLTEKYHLEKRYAEADQR 383 (766) Q Consensus 362 Gi~~DITErK~ae~~l~ese~r 383 (766) .+..|||+....++...+..++ T Consensus 65 ~~~~Dvt~~~~v~~~v~~~~~~ 86 (255) T PRK06841 65 GLVCDVSDSQSVEAAVAAAISA 86 (255) T ss_pred EEEEECCCHHHHHHHHHHHHHH T ss_conf 9998469999999999999998 No 202 >PRK11564 stationary phase inducible protein CsiE; Provisional Probab=33.79 E-value=24 Score=13.20 Aligned_cols=20 Identities=5% Similarity=0.026 Sum_probs=13.5 Q ss_pred ECHHHHHHHHHHHHHHHHHH Q ss_conf 16999999999999999984 Q gi|254780903|r 620 ADLIPIINEGIRLIGSSAQS 639 (766) Q Consensus 620 ~dl~~~i~~~~~~~~~~~~~ 639 (766) -|=.++++.....+.|..-. T Consensus 254 ~~d~~L~~~L~~HL~PAl~R 273 (426) T PRK11564 254 SDEQGLCDQLYAHLAQALNR 273 (426) T ss_pred CCHHHHHHHHHHHHHHHHHH T ss_conf 88699999999999999999 No 203 >TIGR01605 PYST-D Plasmodium yoelii subtelomeric family PYST-D; InterPro: IPR006492 The proteins in this set represent a paralogous family of Plasmodium yoelii genes preferentially located in the subtelomeric regions of the chromosomes. These genes are generally very short (ca. 50 residues). There are no obvious homologs to these genes in any other organism. . Probab=33.75 E-value=22 Score=13.48 Aligned_cols=11 Identities=55% Similarity=0.800 Sum_probs=7.2 Q ss_pred CHHHHHHHHHH Q ss_conf 61689999999 Q gi|254780903|r 731 GLGLAISDALT 741 (766) Q Consensus 731 GLGLaI~k~iV 741 (766) ||||||.=.|+ T Consensus 13 GLGlSi~LhLI 23 (55) T TIGR01605 13 GLGLSITLHLI 23 (55) T ss_pred CCHHHHHHHHH T ss_conf 00488999999 No 204 >PRK01356 hscB co-chaperone HscB; Provisional Probab=33.67 E-value=22 Score=13.40 Aligned_cols=27 Identities=19% Similarity=0.381 Sum_probs=13.4 Q ss_pred HHHHHCCCCHH------HCCCCHHHHHHHHCCC Q ss_conf 89977299943------3058988999760812 Q gi|254780903|r 283 SMYEIMGIPYE------NKTLSFRAIARLIHYD 309 (766) Q Consensus 283 ~~~~llG~~~~------e~~~s~~~~~~~vHPd 309 (766) .++++||+++. .....|..+...+||| T Consensus 3 NyFelf~l~~~f~iD~~~L~~~y~~LQ~~~HPD 35 (166) T PRK01356 3 NYFQLLGLPQTYNIDLKILEKQYFAMQVKYHPD 35 (166) T ss_pred CHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCC T ss_conf 789883999646779999999999999987978 No 205 >COG5388 Uncharacterized protein conserved in bacteria [Function unknown] Probab=33.21 E-value=24 Score=13.14 Aligned_cols=82 Identities=12% Similarity=0.095 Sum_probs=59.6 Q ss_pred HHHHHHCCCCHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCE-EEE Q ss_conf 8899772999433058988999760812058999999997248984899999886989889988999999837960-699 Q gi|254780903|r 282 RSMYEIMGIPYENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTISGG-MNI 360 (766) Q Consensus 282 ~~~~~llG~~~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~-~~~ 360 (766) -..|.+||.+-. .-.|.++..+-|+.........+.....+.-+.+-.+...|.-.-++.-..|+..++|+ +++ T Consensus 78 TriC~LfGRELr-----~~~F~sLW~~~~~~~~~r~~~~v~~~~tPvl~~~dg~s~~G~sl~fEmLl~PL~~~~g~~~R~ 152 (209) T COG5388 78 TRICDLFGRELR-----GRDFLSLWAEADRLELKRAADGVRKRRTPVLVTADGRSHGGRSLGFEMLLAPLQGASGETDRF 152 (209) T ss_pred CCHHHHHCHHHC-----CCCHHHHCCCCCHHHHHHHHHHHHHCCCCEEEECCHHHCCCCCCCEEEEEECCCCCCCCCCCH T ss_conf 420333365542-----995567536103389999998876425746994120222586533056640134777876301 Q ss_pred EEEEECCC Q ss_conf 99984461 Q gi|254780903|r 361 IGIAMDLT 368 (766) Q Consensus 361 iGi~~DIT 368 (766) .|...-+. T Consensus 153 LGais~~~ 160 (209) T COG5388 153 LGAISPIA 160 (209) T ss_pred HHHCCCCC T ss_conf 21136665 No 206 >PRK12426 elongation factor P; Provisional Probab=33.17 E-value=24 Score=13.13 Aligned_cols=52 Identities=13% Similarity=0.201 Sum_probs=20.7 Q ss_pred EEEECHHHHHHHHHH--HHHHHHHCCCCCCEEEEEEEE-------ECCEEEEEEEECCCCC Q ss_conf 899868999999999--886565346898889999999-------7998999999788978 Q gi|254780903|r 653 FFNADKRIIKKILFP--ILSNSIKFTNNNGKMMIRTSK-------IGQCVIITIADTGIGI 704 (766) Q Consensus 653 ~v~~D~~~l~QVl~N--Li~NAik~t~~~g~I~i~~~~-------~~~~v~i~V~D~G~GI 704 (766) .+..|..-..|+-+. +++++.+|.-+|-.|.|.... .+..|.+.|.++-+++ T Consensus 80 ~~FMd~etyEQ~~v~~~~lg~~~~~L~e~~~v~v~~~~~~~i~v~lP~~V~l~V~et~p~~ 140 (185) T PRK12426 80 YLFLDLGNYEKIYIPKEIMKDNFLFLKAGVTVSALVYDNTVFSVELPHFLELMVSKTDFPG 140 (185) T ss_pred EEEECCCCCCCEECCHHHCCHHHHHHCCCCEEEEEEECCEEEEEECCCEEEEEEEECCCCC T ss_conf 8995799833178145560035653037866999991883899888997999999899996 No 207 >PRK08571 rpl14p 50S ribosomal protein L14P; Reviewed Probab=33.15 E-value=24 Score=13.13 Aligned_cols=33 Identities=21% Similarity=0.244 Sum_probs=26.1 Q ss_pred EEEECCCCCEEEEEEEEEEEEECCCEE---EEEEEE Q ss_conf 998869898899889999998379606---999998 Q gi|254780903|r 332 FHMRHASGADIWIQVRAQMMRTISGGM---NIIGIA 364 (766) Q Consensus 332 ~Ri~~~DG~~~Wi~~r~~~i~d~~G~~---~~iGi~ 364 (766) ..++++||.++-+...+.++-+.+|+| ++.|.+ T Consensus 78 k~~rR~dGs~i~FddNA~VLin~~~~P~GTRI~GPV 113 (132) T PRK08571 78 KEYRRPDGTRVKFEDNAAVIVTPEGTPKGTEIKGPV 113 (132) T ss_pred CCEECCCCCEEEECCCEEEEECCCCCEEEEEEECCH T ss_conf 631848999998189679999899999152794531 No 208 >PRK06935 2-deoxy-D-gluconate 3-dehydrogenase; Provisional Probab=33.07 E-value=25 Score=13.12 Aligned_cols=22 Identities=36% Similarity=0.289 Sum_probs=11.3 Q ss_pred EEEEEECCCHHHHHHHHHHHHH Q ss_conf 9999844617999999999999 Q gi|254780903|r 360 IIGIAMDLTEKYHLEKRYAEAD 381 (766) Q Consensus 360 ~iGi~~DITErK~ae~~l~ese 381 (766) ...+..|+|+....++...+.. T Consensus 65 ~~~~~~Dvs~~~~v~~~v~~~~ 86 (258) T PRK06935 65 VTFVQLDLTKKESAEAVVAEAL 86 (258) T ss_pred EEEEEECCCCHHHHHHHHHHHH T ss_conf 7999904899999999999999 No 209 >pfam03281 Mab-21 Mab-21 protein. Probab=32.23 E-value=25 Score=13.03 Aligned_cols=14 Identities=21% Similarity=0.074 Sum_probs=4.8 Q ss_pred CHHHHHHHHHHHHH Q ss_conf 69999999999999 Q gi|254780903|r 621 DLIPIINEGIRLIG 634 (766) Q Consensus 621 dl~~~i~~~~~~~~ 634 (766) +|..+...+..+.+ T Consensus 335 ~ld~~Ak~~wrl~r 348 (360) T pfam03281 335 ALENAAKQVWRLTR 348 (360) T ss_pred HHHHHHHHHHHHHH T ss_conf 78999999999999 No 210 >TIGR01120 rpiB ribose 5-phosphate isomerase B; InterPro: IPR004785 Ribose 5-phosphate isomerase (5.3.1.6 from EC) forms a homodimer and catalyses the interconversion of D-ribose 5-phosphate and D-ribulose 5-phosphate in the non-oxidative branch of the pentose phosphate pathway. This reaction permits the synthesis of ribose from other sugars, as well as the recycling of sugars from nucleotide breakdown. Two unrelated enzymes can catalyse this reaction: RpiA (found in most organisms) and RpiB (found in some bacteria and eukaryotes). RpiB is also involved in metabolism of the rare sugar, allose, in addition to ribose sugars. The structures of RpiA and RpiB are distinct, RpiB having a Rossmann-type alpha/beta/alpha sandwich topology . This entry represents the RpiB enzyme.; GO: 0004751 ribose-5-phosphate isomerase activity, 0006098 pentose-phosphate shunt. Probab=31.20 E-value=15 Score=14.69 Aligned_cols=40 Identities=13% Similarity=0.081 Sum_probs=23.5 Q ss_pred HHHHHHCCCEEEEEECCCCE--EEECHHHHHHHHHHHHHHHHHC Q ss_conf 99998479589998089978--9986899999999988656534 Q gi|254780903|r 634 GSSAQSKNIKIEKKIPSELF--FNADKRIIKKILFPILSNSIKF 675 (766) Q Consensus 634 ~~~~~~k~i~l~~~~~~~l~--v~~D~~~l~QVl~NLi~NAik~ 675 (766) ..-+.+++.++.-. ...| =.=+|..=+||..-..+|+.++ T Consensus 18 k~fL~~~g~kvid~--GT~~~ertdYP~YAk~V~~av~~g~~~~ 59 (143) T TIGR01120 18 KEFLEDKGFKVIDV--GTLASERTDYPDYAKEVVRAVLEGKAER 59 (143) T ss_pred HHHHCCCCEEEEEE--CCCCCCCCCCCHHHHHHHHHHHCCCCCC T ss_conf 99861398579875--3788676366068999999974487667 No 211 >KOG3938 consensus Probab=30.93 E-value=27 Score=12.88 Aligned_cols=34 Identities=15% Similarity=0.189 Sum_probs=14.8 Q ss_pred HHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCC Q ss_conf 99999999972259745989768978999788997729 Q gi|254780903|r 252 EANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMG 289 (766) Q Consensus 252 ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG 289 (766) |-.+.+..+++.++.-+.-..+.+-. .-|.+||| T Consensus 77 ELY~kIAe~F~Is~~dIlfcTlNshK----vDM~~llg 110 (334) T KOG3938 77 ELYQKIAEAFDISPDDILFCTLNSHK----VDMKRLLG 110 (334) T ss_pred HHHHHHHHHHCCCCCCEEEEECCCCC----CCHHHHHC T ss_conf 99999999856882016999657876----36888736 No 212 >pfam07328 VirD1 T-DNA border endonuclease VirD1. This family consists of several T-DNA border endonuclease VirD1 proteins which appear to be found exclusively in Agrobacterium species. Agrobacterium, a plant pathogen, is capable to stably transform the plant cell with a segment of its own DNA called T-DNA (transferred DNA). This process depends, among others, on the specialized bacterial virulence proteins VirD1 and VirD2 that excise the T-DNA from its adjacent sequences. VirD1 is thought to interact with VirD2 in this process. Probab=30.31 E-value=27 Score=12.81 Aligned_cols=41 Identities=27% Similarity=0.238 Sum_probs=21.6 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 222478999999998603468899389999999999999999999777677 Q gi|254780903|r 554 LRTPLNAILGFSEVIKKEIFGELGSVKYYEYAQDIHYSGQHLLNMINNILE 604 (766) Q Consensus 554 lrtPL~aI~g~~ell~~~~~~~~~~e~~~~~l~~I~~~~~~l~~lI~diLd 604 (766) +|--..-|-||.|+= .+.++.++.|..+.-.+..-|++++. T Consensus 55 iRiAvRRIgGFlEiD----------A~Tr~~me~i~~sIg~ls~ni~~l~~ 95 (147) T pfam07328 55 IRVAVRRIGGFLEID----------AETREKMEAILQSIGILSSNIAALLS 95 (147) T ss_pred HHHHHHHHHHHHHCC----------HHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999970055412----------99999999999999999899999999 No 213 >TIGR01108 oadA oxaloacetate decarboxylase alpha subunit; InterPro: IPR005776 This family describes the bacterial oxaloacetate decarboxylase alpha subunit and its equivalents in archaea . The oxaloacetate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases that present in bacteria and archaea. It a multi subunit enzyme consisting of a peripheral alpha-subunit and integral membrane subunits beta and gamma. The energy released by the decarboxylation reaction of oxaloacetate is coupled to Na+ ion pumping across the membrane.; GO: 0008948 oxaloacetate decarboxylase activity, 0006814 sodium ion transport. Probab=29.67 E-value=28 Score=12.73 Aligned_cols=167 Identities=14% Similarity=0.146 Sum_probs=91.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHCC----CCCEEEEECCCCEEEECHHHHHHCCCCHHHCCC---------------CHHHHH Q ss_conf 9999999999999999997225----974598976897899978899772999433058---------------988999 Q gi|254780903|r 243 NKENDTILLEANICVETALSRG----RCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTL---------------SFRAIA 303 (766) Q Consensus 243 ~r~ae~~l~ese~rl~~al~~a----~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~---------------s~~~~~ 303 (766) .|-|.+.|-..+-|.+.-|-.. ++|+|....=+|-+| |+|.++|+-+|.+-+- ..+-.. T Consensus 6 LRDaHQSL~ATRmRteDMLPi~~~LD~vGfwSLEvWGGATF--DaC~RFL~EDPW~RLR~lk~~~pnT~L~MLLRGQNLl 83 (616) T TIGR01108 6 LRDAHQSLIATRMRTEDMLPILEKLDDVGFWSLEVWGGATF--DACIRFLNEDPWERLRELKKALPNTKLQMLLRGQNLL 83 (616) T ss_pred ECCHHHHHHHHHCCHHHHHHHHHHHHHCCCEEEEECCCHHH--HHHHHHCCCCHHHHHHHHHHHCCCCCHHHHHCCCCCC T ss_conf 52067766753057313689998750249556520244105--5784424888558999999735787512342045423 Q ss_pred HHH-CCCCHHHHHHHHHHHHCCCCEEEEEEEEECCCCCEEEEEEEEEEEEECCCEEEEEEE-EECCCHHHHHHHHHHHHH Q ss_conf 760-812058999999997248984899999886989889988999999837960699999-844617999999999999 Q gi|254780903|r 304 RLI-HYDNKKICEIARSVTGKHVKQLDQIFHMRHASGADIWIQVRAQMMRTISGGMNIIGI-AMDLTEKYHLEKRYAEAD 381 (766) Q Consensus 304 ~~v-HPdDr~~~~~a~~~~~~~~~~~~~e~Ri~~~DG~~~Wi~~r~~~i~d~~G~~~~iGi-~~DITErK~ae~~l~ese 381 (766) .+= .||| .|+...+.+..+|- ..||+.-+=...|-+......++-.+. -|.-|+ +==||=-+-+|.=|.-+ T Consensus 84 GYRHYADD--VVe~FV~~a~~NG~---DVFRiFDALND~RNl~~ai~a~Kk~g~-dHvQg~iSYTtSPvHTl~~yl~la- 156 (616) T TIGR01108 84 GYRHYADD--VVEAFVKKAVENGL---DVFRIFDALNDPRNLQKAIEAAKKHGA-DHVQGAISYTTSPVHTLEKYLELA- 156 (616) T ss_pred CCCCCCHH--HHHHHHHHHHHCCC---EEEEEECCCCCHHHHHHHHHHHHHHCC-CEEEEEEECCCCCHHHHHHHHHHH- T ss_conf 44158436--89999999997598---089951245887789999999997389-789999712468436788899999- Q ss_pred HHHHHHHHHHHHHEEEECCCCEEEE-----ECHHHHHHHC-CCHHH Q ss_conf 9999999854455158834996997-----0178988839-99789 Q gi|254780903|r 382 QRLSKAIECTSEALVLWDKNDRLVM-----CNANYQKAYG-LPDHV 421 (766) Q Consensus 382 ~rlr~~ie~~~~~i~~~D~~g~i~~-----~N~~~~~~~g-~~~~~ 421 (766) +.+++---|.|++.|..|-+.= .-++.-+-+| +|.+- T Consensus 157 ---~~L~~~G~DSI~IKDMaGlLTP~~AYELV~alK~~~~n~pvhL 199 (616) T TIGR01108 157 ---KELLEMGVDSICIKDMAGLLTPKVAYELVSALKKEFGNLPVHL 199 (616) T ss_pred ---HHHHHHCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCEEEEE T ss_conf ---9999818860552020046441589999999974239746886 No 214 >pfam08446 PAS_2 PAS fold. The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. Probab=29.37 E-value=28 Score=12.70 Aligned_cols=24 Identities=21% Similarity=0.303 Sum_probs=10.6 Q ss_pred CCCEEEEECHHHHHHHCCCHHHHC Q ss_conf 499699701789888399978942 Q gi|254780903|r 400 KNDRLVMCNANYQKAYGLPDHVLV 423 (766) Q Consensus 400 ~~g~i~~~N~~~~~~~g~~~~~~~ 423 (766) .+++++.++....+++|.+.+++. T Consensus 24 ~~~~I~qaS~N~~~~lG~~~~~ll 47 (107) T pfam08446 24 PDFRVLQASENAAEMLGLVAQQLL 47 (107) T ss_pred CCCEEEEECCCHHHHHCCCHHHHC T ss_conf 998799985588888585958985 No 215 >PRK01773 hscB co-chaperone HscB; Provisional Probab=29.29 E-value=25 Score=13.09 Aligned_cols=27 Identities=15% Similarity=0.401 Sum_probs=13.6 Q ss_pred HHHHHCCCCHH------HCCCCHHHHHHHHCCC Q ss_conf 89977299943------3058988999760812 Q gi|254780903|r 283 SMYEIMGIPYE------NKTLSFRAIARLIHYD 309 (766) Q Consensus 283 ~~~~llG~~~~------e~~~s~~~~~~~vHPd 309 (766) .++++||+++. .....|..+...+||| T Consensus 3 NyFelf~L~~~f~ID~~~L~~~y~~LQ~~~HPD 35 (173) T PRK01773 3 NPFALFDLPVDFQLDQALLSERYLALQKSLHPD 35 (173) T ss_pred CHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCC T ss_conf 837762999777679999999999999986968 No 216 >KOG4426 consensus Probab=28.35 E-value=29 Score=12.58 Aligned_cols=69 Identities=16% Similarity=0.270 Sum_probs=29.2 Q ss_pred HHHHHHHHHHCCCCCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC--------EEEECHHHHHHHHH Q ss_conf 99999999860346889-9389999999999999999999777677888741983012--------03316999999999 Q gi|254780903|r 560 AILGFSEVIKKEIFGEL-GSVKYYEYAQDIHYSGQHLLNMINNILEMSKIETEKISID--------KQNADLIPIINEGI 630 (766) Q Consensus 560 aI~g~~ell~~~~~~~~-~~e~~~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~--------~~~~dl~~~i~~~~ 630 (766) -|-+|-.+|.++..... .--.+...+..+..++..-..|++-+-.- |++.++ +.-+.+.+.+..++ T Consensus 512 Y~FSFDkML~DrGnTAvYLLYa~tRIcSI~rksg~d~~~l~~~lkkT-----~ki~LDH~~E~kLg~~lLkf~e~v~~~~ 586 (656) T KOG4426 512 YIFSFDKMLEDRGNTAVYLLYAYTRICSIARKSGKDNVDLIKELKKT-----GKIALDHEKEWKLGKHLLKFAEIVEKAL 586 (656) T ss_pred EEEEHHHHHHCCCCCEEHHHHHHHHHHHHHHHCCCCHHHHHHHHHHC-----CCCCCCCHHHHHHHHHHHHHHHHHHHHH T ss_conf 16568888654686100358999999999987177425689999856-----8623677778899999985899999999 Q ss_pred HHH Q ss_conf 999 Q gi|254780903|r 631 RLI 633 (766) Q Consensus 631 ~~~ 633 (766) +.+ T Consensus 587 ~~L 589 (656) T KOG4426 587 DSL 589 (656) T ss_pred HHH T ss_conf 988 No 217 >pfam01899 MNHE Na+/H+ ion antiporter subunit. Subunit of a Na+/H+ Prokaryotic antiporter complex. Probab=28.12 E-value=29 Score=12.55 Aligned_cols=51 Identities=27% Similarity=0.316 Sum_probs=34.5 Q ss_pred HHHHHHHHHHHCCCCCCEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHCCCEE Q ss_conf 999988656534689888999999979989999997889789778543046505 Q gi|254780903|r 664 ILFPILSNSIKFTNNNGKMMIRTSKIGQCVIITIADTGIGIPKSALEKIGQPFE 717 (766) Q Consensus 664 Vl~NLi~NAik~t~~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~~~iF~pF~ 717 (766) .-.-++.|++--|| |++++....+.+.+.+.+-|-- .-+++..+.|-++|+ T Consensus 48 ~~~~llansITLTP--GTltvdv~~d~~~L~VH~ld~~-~~~~~~~~~i~~~~E 98 (106) T pfam01899 48 TGLTILANSITLTP--GTLTIDLDPEERKLYVHWIDVE-TNSPRSSEDIVGPFE 98 (106) T ss_pred HHHHHHHHHHHCCC--CEEEEEEECCCCEEEEEEEECC-CCCHHHHHHHHHHHH T ss_conf 89999998771699--7799998189998999996679-951789988518889 No 218 >TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit; InterPro: IPR012754 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme . The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length . The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kD, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This entry represents the beta-prime subunit, RpoC, found in most bacteria. It excludes some, mainly cyanobacterial, species where RpoC is replaced by two homologous proteins that include an additional domain. One arm of the "claw" is predominantly formed by this subunit, the other being predominantly formed by the beta subunit. The active site of the enzyme is defined by three invariant aspartate residues within the beta-prime subunit .; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006350 transcription. Probab=28.11 E-value=29 Score=12.57 Aligned_cols=11 Identities=0% Similarity=0.138 Sum_probs=6.2 Q ss_pred EEECHHHHHHH Q ss_conf 99868999999 Q gi|254780903|r 654 FNADKRIIKKI 664 (766) Q Consensus 654 v~~D~~~l~QV 664 (766) ..|...+++|. T Consensus 854 ARGN~sq~rQL 864 (1552) T TIGR02386 854 ARGNISQFRQL 864 (1552) T ss_pred CCCCHHHHHHH T ss_conf 64357888887 No 219 >KOG0242 consensus Probab=28.08 E-value=30 Score=12.55 Aligned_cols=13 Identities=0% Similarity=0.084 Sum_probs=8.8 Q ss_pred ECHHHHHHCCCCH Q ss_conf 9788997729994 Q gi|254780903|r 280 LSRSMYEIMGIPY 292 (766) Q Consensus 280 ws~~~~~llG~~~ 292 (766) +|+..+++|..+. T Consensus 143 YNE~I~DLL~~~~ 155 (675) T KOG0242 143 YNERIRDLLNPDG 155 (675) T ss_pred ECCCCCCCCCCCC T ss_conf 5120103458999 No 220 >TIGR02451 anti_sig_ChrR anti-sigma factor, putative, ChrR family; InterPro: IPR012807 The member of this family from Rhodobacter sphaeroides has been shown both to form a complex with sigma(E) and to negatively regulate tetrapyrrole biosynthesis. This protein likely contains (at least) two distinct functional domains as several smaller homologues (excluded in this entry) show homology only to the C-terminal region including a motif: PxHxHxGxE.. Probab=28.00 E-value=25 Score=13.09 Aligned_cols=25 Identities=24% Similarity=0.575 Sum_probs=9.8 Q ss_pred EEEEEEEECCCCCCHHHHHHHCCCEE Q ss_conf 89999997889789778543046505 Q gi|254780903|r 692 CVIITIADTGIGIPKSALEKIGQPFE 717 (766) Q Consensus 692 ~v~i~V~D~G~GI~~e~~~~iF~pF~ 717 (766) -+|++|-|.=+=+ ..-..|||+||+ T Consensus 208 ClClavLd~Pl~f-~~~~~rLl~Pf~ 232 (234) T TIGR02451 208 CLCLAVLDAPLRF-TSGVARLLQPFF 232 (234) T ss_pred CEEEEECCCCHHH-CCCHHHHHHHHC T ss_conf 1477511540111-254124442201 No 221 >KOG2036 consensus Probab=27.75 E-value=30 Score=12.51 Aligned_cols=82 Identities=11% Similarity=0.062 Sum_probs=43.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCC-----CCCCCEEEECHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCEEEECH Q ss_conf 9999999999999997776778887419-----83012033169999999999999999847958999808997899868 Q gi|254780903|r 584 YAQDIHYSGQHLLNMINNILEMSKIETE-----KISIDKQNADLIPIINEGIRLIGSSAQSKNIKIEKKIPSELFFNADK 658 (766) Q Consensus 584 ~l~~I~~~~~~l~~lI~diLd~srieag-----~~~~~~~~~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~~l~v~~D~ 658 (766) .+....+..+++....+++..-+ ||.+ ....++.++.+.+-+++....+..+..++.-.|...--....+.+|. T Consensus 882 ~~all~k~~kk~~~~~~~v~~~~-ie~~l~~~~~~~~e~~~~sl~~dl~e~ake~~~~~r~~~~~L~~~~L~~y~i~gd~ 960 (1011) T KOG2036 882 LLALLTKAMKKLSKYFDEVEEKA-IEETLPREKDRVNEPTPVSLEDDLEEAAKEAEEQMREKQKELKAEELDKYAIIGDE 960 (1011) T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHCHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH T ss_conf 99999999999999999999999-98643234653078675647789999999999999999999875556666642987 Q ss_pred HHHHHHHH Q ss_conf 99999999 Q gi|254780903|r 659 RIIKKILF 666 (766) Q Consensus 659 ~~l~QVl~ 666 (766) ........ T Consensus 961 e~~a~~~~ 968 (1011) T KOG2036 961 EEWAEALE 968 (1011) T ss_pred HHHHHHHH T ss_conf 99999986 No 222 >PRK06114 short chain dehydrogenase; Provisional Probab=27.37 E-value=30 Score=12.46 Aligned_cols=19 Identities=37% Similarity=0.368 Sum_probs=8.7 Q ss_pred EEEECCCHHHHHHHHHHHH Q ss_conf 9984461799999999999 Q gi|254780903|r 362 GIAMDLTEKYHLEKRYAEA 380 (766) Q Consensus 362 Gi~~DITErK~ae~~l~es 380 (766) .+..|+|+....++...+. T Consensus 70 ~~~~Dvt~~~~v~~~v~~~ 88 (262) T PRK06114 70 QIAADVTSKSDLAAAVART 88 (262) T ss_pred EEECCCCCHHHHHHHHHHH T ss_conf 9981689999999999999 No 223 >TIGR00021 rpiA ribose 5-phosphate isomerase A; InterPro: IPR004788 Ribose 5-phosphate isomerase (5.3.1.6 from EC), also known as phosphoriboisomerase, catalyses the conversion of D-ribose 5-phosphate to D-ribulose 5-phosphate in the non-oxidative branch of the pentose phosphate pathway.; GO: 0004751 ribose-5-phosphate isomerase activity, 0009052 pentose-phosphate shunt non-oxidative branch. Probab=27.36 E-value=30 Score=12.46 Aligned_cols=55 Identities=15% Similarity=-0.005 Sum_probs=27.0 Q ss_pred CEEEECHHHHHHHHH--HHHHHHHHCCCCC-CEEEEEEE-EECCEEEEEEEECCCCCCHHHHHH Q ss_conf 789986899999999--9886565346898-88999999-979989999997889789778543 Q gi|254780903|r 652 LFFNADKRIIKKILF--PILSNSIKFTNNN-GKMMIRTS-KIGQCVIITIADTGIGIPKSALEK 711 (766) Q Consensus 652 l~v~~D~~~l~QVl~--NLi~NAik~t~~~-g~I~i~~~-~~~~~v~i~V~D~G~GI~~e~~~~ 711 (766) |||..-|-.-++++. .|-. | -+ -.| +..++|.. ..++ ...|+|||-=|=.-...+ T Consensus 137 LPvEV~Pf~~~~~~~~l~~~~-A-~l-l~Gl~~~~LR~~~v~~~--~~~~TDNGN~IlD~~~~~ 195 (236) T TIGR00021 137 LPVEVVPFAWKATARRLKLEK-A-VL-LLGLGEPTLRKGKVNKG--GPVVTDNGNYILDCHFGK 195 (236) T ss_pred CCEEEECCCCHHHHHHHHHHH-H-HH-HCCCCEEEEEECCCCCC--CEEEEECCCEEEEEECCC T ss_conf 047880368078999899888-7-65-23771278953322798--017960797899977698 No 224 >MTH00204 ND4 NADH dehydrogenase subunit 4; Provisional Probab=27.13 E-value=31 Score=12.43 Aligned_cols=17 Identities=18% Similarity=0.343 Sum_probs=14.9 Q ss_pred HHHHHHHHHHHHCCCCC Q ss_conf 99999886565346898 Q gi|254780903|r 663 KILFPILSNSIKFTNNN 679 (766) Q Consensus 663 QVl~NLi~NAik~t~~~ 679 (766) +.++|++.||++|+|.| T Consensus 469 ~~il~~i~~sv~~~~~~ 485 (486) T MTH00204 469 FPIIDLVKNSLVFSPGG 485 (486) T ss_pred HHHHHHHHHHEECCCCC T ss_conf 98998887742418899 No 225 >PRK00294 hscB co-chaperone HscB; Provisional Probab=26.92 E-value=28 Score=12.69 Aligned_cols=29 Identities=17% Similarity=0.348 Sum_probs=14.4 Q ss_pred CHHHHHHCCCCHHH------CCCCHHHHHHHHCCC Q ss_conf 78899772999433------058988999760812 Q gi|254780903|r 281 SRSMYEIMGIPYEN------KTLSFRAIARLIHYD 309 (766) Q Consensus 281 s~~~~~llG~~~~e------~~~s~~~~~~~vHPd 309 (766) ++..+++||+++.= ....|..+...+||| T Consensus 3 ~~~hF~lf~l~~~f~iD~~~L~~~y~~LQ~~~HPD 37 (173) T PRK00294 3 TPCHFALFDLQPSFRLDLDQLATRYRELAREVHPD 37 (173) T ss_pred CCCHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCC T ss_conf 97664644999767679999999999999986957 No 226 >KOG3491 consensus Probab=26.89 E-value=31 Score=12.40 Aligned_cols=23 Identities=13% Similarity=0.342 Sum_probs=17.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 65899999999999999999996 Q gi|254780903|r 51 TIPMISMVFLVFIATSSIIKVTT 73 (766) Q Consensus 51 ~ip~~i~~fli~~~~~~~~~i~~ 73 (766) +=|+|+-.|..++|+.++++|.- T Consensus 37 vgPwLlglFvFVVcGSa~FqIIr 59 (65) T KOG3491 37 VGPWLLGLFVFVVCGSALFQIIR 59 (65) T ss_pred CCHHHHHHHHHHHHCHHHHHHHH T ss_conf 52289888999861599999999 No 227 >TIGR02885 spore_sigF RNA polymerase sigma-F factor; InterPro: IPR014236 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme . RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognized by the major sigma factors , . Members of this entry represent RNA polymerase sigma factor F. Within the Firmicutes, Sigma-F is specifically, and universally, a component of the endospore formation program, and is expressed in the forespore to turn on the expression of dozens of genes. It is closely related to sigma-G, which is also expressed in the forespore.; GO: 0003677 DNA binding, 0003700 transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, 0006355 regulation of transcription DNA-dependent. Probab=26.85 E-value=31 Score=12.40 Aligned_cols=59 Identities=15% Similarity=0.156 Sum_probs=27.9 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEEEECHHHHHHCCCCHHHCCC------CHHHHHHHHCCCCHHHHHHH Q ss_conf 99999999999999997225974598976897899978899772999433058------98899976081205899999 Q gi|254780903|r 245 ENDTILLEANICVETALSRGRCGLWNFNFDNKKFHLSRSMYEIMGIPYENKTL------SFRAIARLIHYDNKKICEIA 317 (766) Q Consensus 245 ~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i~ws~~~~~llG~~~~e~~~------s~~~~~~~vHPdDr~~~~~a 317 (766) +.-..++..++.|-.-+++.|.- +...+.+|++||+... +.....+.||.||.+.+... T Consensus 94 ~la~k~~~~kE~L~~~l~R~PTi--------------~Elae~lg~~~EEiv~A~Es~~~~~sly~tvh~dDGdPi~Ll 158 (231) T TIGR02885 94 ELARKIRYEKEELTKKLGREPTI--------------NELAEALGVSPEEIVMALESARSLQSLYDTVHEDDGDPILLL 158 (231) T ss_pred HHHHHHHHHHHHHHHHHCCCCCH--------------HHHHHHHCCCHHHHHHHHHCCCCCCHHCCEEECCCCCHHHHH T ss_conf 99999987799999983899888--------------999887587887866442025761011001141794644676 No 228 >TIGR02110 PQQ_syn_pqqF coenzyme PQQ biosynthesis protein PqqF; InterPro: IPR011844 Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site . The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases . Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. This family of metallopeptidases belong to MEROPS peptidase family M16, subfamily M16A (clan ME). In the subset of species that make coenzyme PQQ (pyrrolo-quinoline-quinone), this peptidase is found in the PQQ biosynthesis region and is thought to act as a protease on PqqA (IPR011725 from INTERPRO), a probable peptide precursor of the coenzyme. PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases .; GO: 0008234 cysteine-type peptidase activity, 0008270 zinc ion binding, 0018189 pyrroloquinoline quinone biosynthetic process. Probab=26.10 E-value=15 Score=14.76 Aligned_cols=30 Identities=10% Similarity=0.101 Sum_probs=20.6 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCEEEEECC Q ss_conf 548999999999885310178978999969 Q gi|254780903|r 107 ASQKKAESMLGQLLAKTRFLSESFILLAQP 136 (766) Q Consensus 107 ~~~~~ae~~L~~~~~~~~~~~~~~i~i~d~ 136 (766) ......|.+|+++...+....-+..++..+ T Consensus 170 ~~~~AfQ~AL~~FH~~~Y~A~~M~LwLqGP 199 (737) T TIGR02110 170 LPNDAFQQALRDFHRRHYQAGNMQLWLQGP 199 (737) T ss_pred CCHHHHHHHHHHHHHHHHHHHCCEEECCCC T ss_conf 984899999999999840443040304879 No 229 >TIGR02748 GerC3_HepT heptaprenyl diphosphate synthase component II; InterPro: IPR014119 The proteins in this entry are component II of the heterodimeric heptaprenyl diphosphate synthase. They are found proximate to the gene for component I (IPR009920 from INTERPRO). This enzyme acts in menaquinone-7 isoprenoid side chain biosynthesis.. Probab=25.94 E-value=32 Score=12.28 Aligned_cols=99 Identities=12% Similarity=0.059 Sum_probs=42.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCEE----EECHHHHHHCCCCHHHCC--CCHHH Q ss_conf 999999988889999999999999999999999722597459897689789----997889977299943305--89889 Q gi|254780903|r 228 LLLFILFSYYRQAKKNKENDTILLEANICVETALSRGRCGLWNFNFDNKKF----HLSRSMYEIMGIPYENKT--LSFRA 301 (766) Q Consensus 228 ~~~~~~~a~~~dit~~r~ae~~l~ese~rl~~al~~a~~GiWd~D~~~~~i----~ws~~~~~llG~~~~e~~--~s~~~ 301 (766) |+++.-++-..|..+-|..--+|+ .+.+|-=.--+-|=+-|+.+|+- .|+++..-..| +.. .+.+. T Consensus 52 VLLag~fGP~Ydl~~~K~vAV~LE----LIHMASLVHDDVID~A~LRRG~~Ti~skW~NRiAMYTG----DYlfA~slE~ 123 (325) T TIGR02748 52 VLLAGKFGPDYDLDKIKHVAVALE----LIHMASLVHDDVIDDADLRRGKPTIKSKWDNRIAMYTG----DYLFAKSLET 123 (325) T ss_pred HHHHHHCCCCCCHHHHHHHHHHHH----HHHCCCCCCCCCCCCCCCCCCCHHHCCCCCCEEEEHHH----HHHHHHHHHH T ss_conf 986763077533554656765576----77353202565205876778842012102773220033----5899999999 Q ss_pred HHHHHCCCCHH-HHHHHHHHHHCCCCEEEEEEEE Q ss_conf 99760812058-9999999972489848999998 Q gi|254780903|r 302 IARLIHYDNKK-ICEIARSVTGKHVKQLDQIFHM 334 (766) Q Consensus 302 ~~~~vHPdDr~-~~~~a~~~~~~~~~~~~~e~Ri 334 (766) ...+-.|.=-. ......+.+.|+.++....|++ T Consensus 124 ~t~i~dp~~H~~LS~tivEvc~GEIEQIkDkYN~ 157 (325) T TIGR02748 124 MTEIKDPRAHQILSKTIVEVCLGEIEQIKDKYNF 157 (325) T ss_pred HHCCCCHHHHHHHHHHHHHHHHCCCHHHHCCCCC T ss_conf 8516982788999999998862210100101378 No 230 >PRK00458 S-adenosylmethionine decarboxylase proenzyme; Provisional Probab=25.48 E-value=33 Score=12.23 Aligned_cols=73 Identities=15% Similarity=0.126 Sum_probs=47.3 Q ss_pred EEEEEC-CCCEEEECHHHHHHHHHHHHHHH---------HHCCCCCC----------EEEEEEEEECCEEEEEEEECCCC Q ss_conf 999808-99789986899999999988656---------53468988----------89999999799899999978897 Q gi|254780903|r 644 IEKKIP-SELFFNADKRIIKKILFPILSNS---------IKFTNNNG----------KMMIRTSKIGQCVIITIADTGIG 703 (766) Q Consensus 644 l~~~~~-~~l~v~~D~~~l~QVl~NLi~NA---------ik~t~~~g----------~I~i~~~~~~~~v~i~V~D~G~G 703 (766) +..++- .+..+..|...+++++...+..+ -||.|.+| +|+|.++.+.+++.+-|==-|.- T Consensus 19 li~dlygc~~~~L~d~~~i~~~l~~a~~~~~atil~~~~h~F~P~gGvtgv~llaESHiSIHTWPE~gyaaiDiFTCG~~ 98 (127) T PRK00458 19 VYGNLYGCDEELLKDEERLETIVKEAAKIANMTLLDVKSWKFGPKGGVSVIALVLESHIAIHTWPEYNFATVDVYTCGEH 98 (127) T ss_pred EEEEEECCCHHHCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCCEEEEEEEECCEEEEEECCCCCEEEEEEEECCCC T ss_conf 99999888958978999999999999998699899788486489883799999750368998667687699999863898 Q ss_pred CCH-HHHHHHCCCE Q ss_conf 897-7854304650 Q gi|254780903|r 704 IPK-SALEKIGQPF 716 (766) Q Consensus 704 I~~-e~~~~iF~pF 716 (766) ..| ...+.|=+.| T Consensus 99 ~~P~~a~~~i~~~l 112 (127) T PRK00458 99 TDPMAAFEYIVSQL 112 (127) T ss_pred CCHHHHHHHHHHHH T ss_conf 89999999999872 No 231 >PRK04542 elongation factor P; Provisional Probab=25.09 E-value=33 Score=12.18 Aligned_cols=25 Identities=12% Similarity=0.238 Sum_probs=10.9 Q ss_pred EEECCCCEEEEECHHHHHHHCCCHH Q ss_conf 5883499699701789888399978 Q gi|254780903|r 396 VLWDKNDRLVMCNANYQKAYGLPDH 420 (766) Q Consensus 396 ~~~D~~g~i~~~N~~~~~~~g~~~~ 420 (766) +++.....+.++|+.-.+-+.++.+ T Consensus 74 yLY~dg~~~~FMd~etyEQi~l~~~ 98 (189) T PRK04542 74 FSYVDGDEYVFMDNEDYTPYTFTKD 98 (189) T ss_pred EEEECCCEEEEEECCCHHHEEECHH T ss_conf 9995899179996998332652789 No 232 >pfam08066 PMC2NT PMC2NT (NUC016) domain. This domain is found at the N-terminus of 3'-5' exonucleases with HRDC domains, and also in putative exosome components. Probab=25.05 E-value=33 Score=12.17 Aligned_cols=53 Identities=21% Similarity=0.295 Sum_probs=30.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECHHHHHHHHHHHHHH Q ss_conf 999999999999999997776778887419830120331699999999999999 Q gi|254780903|r 582 YEYAQDIHYSGQHLLNMINNILEMSKIETEKISIDKQNADLIPIINEGIRLIGS 635 (766) Q Consensus 582 ~~~l~~I~~~~~~l~~lI~diLd~srieag~~~~~~~~~dl~~~i~~~~~~~~~ 635 (766) .++-+.+...++||+.++|++|...-... +.....+..++.+-.+.+.+.+-. T Consensus 24 p~~~~~ld~~s~rLl~l~n~ll~~~~~~~-~~~~~~~~~~~e~~w~~vvdv~D~ 76 (91) T pfam08066 24 PEFSQSLDEQSQRLLSLINDLLQSAGSKS-DIPDRSDEDDVEDQWEGVVDVNDS 76 (91) T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCC-CCCCCCCCCCHHHHHHHHHHHHHH T ss_conf 88999999999999999999998447667-887875423188999999999999 No 233 >PRK04025 S-adenosylmethionine decarboxylase proenzyme; Validated Probab=24.96 E-value=33 Score=12.16 Aligned_cols=74 Identities=12% Similarity=0.122 Sum_probs=47.7 Q ss_pred EEEEEEC-CCCEEEECHHHHHHHHHHHHHHH---------HHCCCCC---------CEEEEEEEEECCEEEEEEEECCCC Q ss_conf 8999808-99789986899999999988656---------5346898---------889999999799899999978897 Q gi|254780903|r 643 KIEKKIP-SELFFNADKRIIKKILFPILSNS---------IKFTNNN---------GKMMIRTSKIGQCVIITIADTGIG 703 (766) Q Consensus 643 ~l~~~~~-~~l~v~~D~~~l~QVl~NLi~NA---------ik~t~~~---------g~I~i~~~~~~~~v~i~V~D~G~G 703 (766) .+..++- .+..+..|...|++++.+.+..+ -||.|.| ++|+|.+.++.+++.+-|==-|-= T Consensus 7 Hii~Dl~gc~~~~L~d~~~i~~~~~~Aa~~~gatil~~~~h~F~P~GvTgv~lLaESHiSIHTWPE~g~aavDiFTCGd~ 86 (139) T PRK04025 7 HYIVEAAGCDPEVLGDADKIREIFLEAAKVGNMEVKASYFFKFSPMGVSGVVIVAESHISVHTWPEKGYAALDVYTCGET 86 (139) T ss_pred EEEEEEECCCHHHCCCHHHHHHHHHHHHHHCCCEEEEEEEEECCCCCEEEEEEEEEEEEEEEECCCCCEEEEEEECCCCC T ss_conf 99999967796887899999999999999869989977869859997899999751168999656478699999868998 Q ss_pred CCHHH-HHHHCCCE Q ss_conf 89778-54304650 Q gi|254780903|r 704 IPKSA-LEKIGQPF 716 (766) Q Consensus 704 I~~e~-~~~iF~pF 716 (766) +.|+. .+.|=+.| T Consensus 87 ~~P~~A~~~l~~~l 100 (139) T PRK04025 87 ADPEKAVDYILEQF 100 (139) T ss_pred CCHHHHHHHHHHHH T ss_conf 99999999999984 No 234 >PRK06124 gluconate 5-dehydrogenase; Provisional Probab=24.91 E-value=33 Score=12.15 Aligned_cols=23 Identities=9% Similarity=-0.060 Sum_probs=11.1 Q ss_pred EEECHHHHHHHHHHHHHHHHHCC Q ss_conf 99868999999999886565346 Q gi|254780903|r 654 FNADKRIIKKILFPILSNSIKFT 676 (766) Q Consensus 654 v~~D~~~l~QVl~NLi~NAik~t 676 (766) =.+.|..+-.++.-|++++-.|. T Consensus 222 R~g~pedia~~v~fL~Sd~ssyi 244 (259) T PRK06124 222 RWGRPEEIAGAAVFLASPAASYV 244 (259) T ss_pred CCCCHHHHHHHHHHHHCCHHCCC T ss_conf 98599999999999958443586 No 235 >PRK05014 hscB co-chaperone HscB; Provisional Probab=24.73 E-value=34 Score=12.13 Aligned_cols=26 Identities=23% Similarity=0.611 Sum_probs=14.4 Q ss_pred HHHHCCCCHH------HCCCCHHHHHHHHCCC Q ss_conf 9977299943------3058988999760812 Q gi|254780903|r 284 MYEIMGIPYE------NKTLSFRAIARLIHYD 309 (766) Q Consensus 284 ~~~llG~~~~------e~~~s~~~~~~~vHPd 309 (766) ++++||+++. .....|..+...+||| T Consensus 3 yF~lf~l~~~f~iD~~~L~~~y~~Lq~~~HPD 34 (171) T PRK05014 3 YFTLFGLPARYDIDTQLLSLRYQELQRQVHPD 34 (171) T ss_pred HHHHCCCCCCCCCCHHHHHHHHHHHHHHHCHH T ss_conf 77666999878879999999999999986977 No 236 >KOG3822 consensus Probab=24.54 E-value=34 Score=12.11 Aligned_cols=11 Identities=18% Similarity=0.184 Sum_probs=6.3 Q ss_pred EEECCCCEEEE Q ss_conf 58834996997 Q gi|254780903|r 396 VLWDKNDRLVM 406 (766) Q Consensus 396 ~~~D~~g~i~~ 406 (766) |-.|.-|.+++ T Consensus 210 wkAD~~GNvvF 220 (516) T KOG3822 210 WKADRAGNVVF 220 (516) T ss_pred HHCCCCCCEEE T ss_conf 30475566666 No 237 >pfam03671 Ufm1 Ubiquitin fold modifier 1 protein. This is a family of short ubiquitin-like proteins, that is like neither type-1 or type-2. It is a ubiquitin-fold modifier 1 (Ufm1) that is synthesized in a precursor form of 85 amino-acid residues. In humans the enzyme for Ufm1 is Uba5 and the conjugating enzyme is Ufc1. Prior to activation by Uba5 the extra two amino acids at the C-terminal region of the human pro-Ufm1 protein are removed to expose Gly whose residue is necessary for conjugation to target molecule(s). The mature Ufm1 is conjugated to yet unidentified endogenous proteins,. While Ubiquitin and many Ubls possess the conserved C-terminal di-glycine that is adenylated by each specific E1 or E1-like enzyme, respectively, in an ATP-dependent manner, Ufm1(1-83) possesses a single glycine at its C-terminus, which is followed by a Ser-Cys dipeptide in the precursor form of Ufm1. The C-terminally processed Ufm1(1-83) is specifically activated by Uba5, an E1-like enzyme, and then t Probab=24.40 E-value=34 Score=12.09 Aligned_cols=19 Identities=26% Similarity=0.384 Sum_probs=13.1 Q ss_pred EEEEECCCCCCHHHH-HHHC Q ss_conf 999978897897785-4304 Q gi|254780903|r 695 ITIADTGIGIPKSAL-EKIG 713 (766) Q Consensus 695 i~V~D~G~GI~~e~~-~~iF 713 (766) -.|.++|+||.|.+- ..+| T Consensus 47 AiiTndGvGINP~qtAGnvf 66 (76) T pfam03671 47 AIITNDGIGINPAQSAGNVF 66 (76) T ss_pred EEEECCCCCCCHHHCCCCCH T ss_conf 68945861208454343111 No 238 >PRK02991 D-serine dehydratase; Provisional Probab=23.98 E-value=14 Score=14.84 Aligned_cols=21 Identities=19% Similarity=0.154 Sum_probs=10.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 235548999999999885310 Q gi|254780903|r 104 FDLASQKKAESMLGQLLAKTR 124 (766) Q Consensus 104 ~d~~~~~~ae~~L~~~~~~~~ 124 (766) ....+...|+++|.++-|-.. T Consensus 43 l~~~dv~dA~~Rl~RFAPyla 63 (443) T PRK02991 43 LTEADVQDAEARLQRFAPYLA 63 (443) T ss_pred CCHHHHHHHHHHHHHHHHHHH T ss_conf 998899999999998789999 No 239 >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=23.95 E-value=33 Score=12.23 Aligned_cols=91 Identities=19% Similarity=0.233 Sum_probs=50.5 Q ss_pred CCEEEECHHHHHHHHHHHHHHHHHCCC-----CCCEEEEEEEEECCEEEEEEEECCCCCCHHHH----HHHCCCEEECCC Q ss_conf 978998689999999998865653468-----98889999999799899999978897897785----430465053146 Q gi|254780903|r 651 ELFFNADKRIIKKILFPILSNSIKFTN-----NNGKMMIRTSKIGQCVIITIADTGIGIPKSAL----EKIGQPFEPLHN 721 (766) Q Consensus 651 ~l~v~~D~~~l~QVl~NLi~NAik~t~-----~~g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~----~~iF~pF~q~~~ 721 (766) +.|..-|...|+..=.+-++||-+--= .||.|.|--...-+ .|=.+=+||+|+.. ..|-|.|. T Consensus 514 T~Pk~~~~~~lE~~p~~a~a~aYDlVlNG~ElGGGSiRIh~~~~Q~----~~F~d~Lgid~eea~EkFGFLLeA~~---- 585 (653) T TIGR00459 514 TMPKPEDLEDLETAPEEALAEAYDLVLNGVELGGGSIRIHDPEVQE----KVFEDILGIDPEEAREKFGFLLEAFK---- 585 (653) T ss_pred CCCCCCCHHHHHCCHHHHHHHCCCEEEEEEEECCCEEEECCHHHHH----HHHHHHHCCCHHHHHHHHHHHHHHHH---- T ss_conf 9875122787740745541202876883069887104642878999----99987628898998776356875873---- Q ss_pred CCCCCCCCCCHHHHHHHHHHHHCCCEEEEEE Q ss_conf 7556778876168999999996298699997 Q gi|254780903|r 722 QYDQSIGGFGLGLAISDALTNLHGGRLKIIS 752 (766) Q Consensus 722 ~~t~~~~GtGLGLaI~k~iVe~hgG~I~v~S 752 (766) --|-.|+|-|||| =+|+=++.++=.|+. T Consensus 586 yGaPPHgG~A~Gl---DRL~Mll~~~~nIRD 613 (653) T TIGR00459 586 YGAPPHGGLALGL---DRLVMLLTGTDNIRD 613 (653) T ss_pred CCCCCCHHHHHHH---HHHHHHHCCCCCCCE T ss_conf 5768510155558---999999808997220 No 240 >COG1666 Uncharacterized protein conserved in bacteria [Function unknown] Probab=23.91 E-value=35 Score=12.03 Aligned_cols=66 Identities=14% Similarity=0.143 Sum_probs=45.5 Q ss_pred EECHHHH---HHHHHHHHHHHHHHCCCEEEEEECC--CCEEEE-CHHHHHHHHHHHHHHHHHCCCCCCEEEE Q ss_conf 3169999---9999999999998479589998089--978998-6899999999988656534689888999 Q gi|254780903|r 619 NADLIPI---INEGIRLIGSSAQSKNIKIEKKIPS--ELFFNA-DKRIIKKILFPILSNSIKFTNNNGKMMI 684 (766) Q Consensus 619 ~~dl~~~---i~~~~~~~~~~~~~k~i~l~~~~~~--~l~v~~-D~~~l~QVl~NLi~NAik~t~~~g~I~i 684 (766) .+|+.++ ++++...+..++.=|++.-.++..+ .+.+.+ +.-+|.|++-=|.++.+|-.-++..+.+ T Consensus 12 evd~qEv~NAve~A~kel~sR~Dfkg~~~~iel~e~e~i~l~s~sdf~l~ql~DIl~~kliKRgi~~k~~d~ 83 (165) T COG1666 12 EVDLQEVRNAVENANKELASRFDFKGVKASIELKENETIKLTSESDFQLEQLKDILRSKLIKRGISGKALDI 83 (165) T ss_pred HCCHHHHHHHHHHHHHHHHHHHCCCCCCCEEECCCCCEEEEECCCHHHHHHHHHHHHHHHHHCCCCHHHCCC T ss_conf 413999999999999987655055788421750787159985063666999999999999873997554145 No 241 >COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane] Probab=23.75 E-value=35 Score=12.00 Aligned_cols=16 Identities=25% Similarity=0.615 Sum_probs=6.2 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 7522247899999999 Q gi|254780903|r 552 HELRTPLNAILGFSEV 567 (766) Q Consensus 552 HelrtPL~aI~g~~el 567 (766) -|+..-..-|+-|+|| T Consensus 122 ~ei~~~~~eIieFaEL 137 (249) T COG1134 122 KEIDEKVDEIIEFAEL 137 (249) T ss_pred HHHHHHHHHHHHHHHH T ss_conf 9999888999999877 No 242 >PRK07985 oxidoreductase; Provisional Probab=23.59 E-value=35 Score=11.98 Aligned_cols=13 Identities=15% Similarity=0.115 Sum_probs=5.6 Q ss_pred ECCCHHHHHHHHH Q ss_conf 4461799999999 Q gi|254780903|r 365 MDLTEKYHLEKRY 377 (766) Q Consensus 365 ~DITErK~ae~~l 377 (766) -|||+....+... T Consensus 107 ~Dvs~~~~v~~lv 119 (294) T PRK07985 107 GDLSDEKFARSLV 119 (294) T ss_pred CCCCCHHHHHHHH T ss_conf 6789999999999 No 243 >PRK09804 putative cryptic C4-dicarboxylate transporter DcuD; Provisional Probab=23.54 E-value=14 Score=14.95 Aligned_cols=21 Identities=10% Similarity=0.300 Sum_probs=14.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999876752224789999 Q gi|254780903|r 543 KSEFLAKMSHELRTPLNAILG 563 (766) Q Consensus 543 k~efla~isHelrtPL~aI~g 563 (766) ...|..+|.+-+-+-..-|.+ T Consensus 302 ~~~Ff~GMG~~f~~VV~LIIA 322 (455) T PRK09804 302 VQAFFDGMGTQFANVVTLVVA 322 (455) T ss_pred HHHHHHHHHHHHHHHHHHHHH T ss_conf 999999888999889999986 No 244 >pfam04701 Pox_D2 Pox virus D2 protein. Probab=23.52 E-value=35 Score=11.97 Aligned_cols=50 Identities=18% Similarity=0.198 Sum_probs=28.5 Q ss_pred HHHHHHHHHHHHCCCEEEEEECCCCE---EEECHHHHHHHHHHHHHHHHHCCCC Q ss_conf 99999999998479589998089978---9986899999999988656534689 Q gi|254780903|r 628 EGIRLIGSSAQSKNIKIEKKIPSELF---FNADKRIIKKILFPILSNSIKFTNN 678 (766) Q Consensus 628 ~~~~~~~~~~~~k~i~l~~~~~~~l~---v~~D~~~l~QVl~NLi~NAik~t~~ 678 (766) .+.+.+.+..+.+.+.|........+ ..-|+...+-||++|- ||.||... T Consensus 81 ~i~es~epl~P~~Tv~l~~~~~~~~~~~~~p~~~~~~k~iLLeLF-NsFr~gk~ 133 (143) T pfam04701 81 SVLESIEPLLPDYTVNLSRKNSETPDLQSAPDDPEGTKMILLELF-NSFRFGKG 133 (143) T ss_pred HHHHHHCCCCCCCEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHH-HHHHCCCC T ss_conf 789872445874113421047789865568788411899999998-77631788 No 245 >COG1586 SpeD S-adenosylmethionine decarboxylase [Amino acid transport and metabolism] Probab=23.02 E-value=36 Score=11.91 Aligned_cols=62 Identities=16% Similarity=0.119 Sum_probs=42.5 Q ss_pred EEEECHHHHHHHHHHHH--HHH-------HHCCCCC---------CEEEEEEEEECCEEEEEEEECCCCCCHHHH-HHHC Q ss_conf 89986899999999988--656-------5346898---------889999999799899999978897897785-4304 Q gi|254780903|r 653 FFNADKRIIKKILFPIL--SNS-------IKFTNNN---------GKMMIRTSKIGQCVIITIADTGIGIPKSAL-EKIG 713 (766) Q Consensus 653 ~v~~D~~~l~QVl~NLi--~NA-------ik~t~~~---------g~I~i~~~~~~~~v~i~V~D~G~GI~~e~~-~~iF 713 (766) ....|..+|++++.+-. .|| -||.|.| .+|+|.+.++-+++-|.|--.|.-++|..- +-|- T Consensus 28 ~~l~d~e~l~~i~~eAa~~~gati~~~~~~~f~p~GvSgvvliaESHitiHTwPEyg~A~iDVyTCG~~~~p~~A~~yi~ 107 (136) T COG1586 28 DLLYDAERLEEILLEAAKIAGATILNIAFHKFSPQGVSGVVLIAESHITIHTWPEYGYATIDVYTCGDHIDPLKAFNYLV 107 (136) T ss_pred HHHCCHHHHHHHHHHHHHHHCCEEEEEEEEEECCCCEEEEEEEEEEEEEEECCCCCCCEEEEEECCCCCCCHHHHHHHHH T ss_conf 89436999999999999970978998775884599748999998412368607766856788881589899999999999 Q ss_pred C Q ss_conf 6 Q gi|254780903|r 714 Q 714 (766) Q Consensus 714 ~ 714 (766) + T Consensus 108 ~ 108 (136) T COG1586 108 E 108 (136) T ss_pred H T ss_conf 9 No 246 >cd06447 D-Ser-dehyd D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive antagonist of beta-alanine in the biosynthetic pathway to pentothenate and coenzyme A. D-serine dehydratase is different from other pyridoxal-5'-phosphate-dependent enzymes in that it catalyzes alpha, beta-elimination reactions on amino acids. Probab=22.67 E-value=16 Score=14.41 Aligned_cols=18 Identities=17% Similarity=0.065 Sum_probs=9.2 Q ss_pred HHHHHHHHHHHHHHHHHH Q ss_conf 548999999999885310 Q gi|254780903|r 107 ASQKKAESMLGQLLAKTR 124 (766) Q Consensus 107 ~~~~~ae~~L~~~~~~~~ 124 (766) .+...|+++|.++-|-.. T Consensus 21 ~di~dA~~Rl~RFAP~la 38 (404) T cd06447 21 EDIFDAEARLKRFAPYIA 38 (404) T ss_pred HHHHHHHHHHHHHHHHHH T ss_conf 899999999998789999 No 247 >TIGR00658 orni_carb_tr ornithine carbamoyltransferase; InterPro: IPR002292 The ornithine carbamoyltransferases are a family of enzymes that catalyse the production of citrulline from carbamoyl-phosphate and ornithine . This reaction is part of the arginine biosynthetic pathway, and in some organisms the reaction is also part of the arginine deaminase pathway . In most prokaryotes, and some lower eukaryotes, the enzyme is found in the cytoplasm, but in higher eukaryotes, such as mammals, the enzyme is found in the mitochondrial matrix and functions as part of the urea cycle. In most organisms analysed to date, the enzyme has been shown to consist of a trimer of identical or nonidentical subunits . Extensive similarity has been found within the ornithine carbamoyltransferase family, some of the conserved areas being important in catalysis . The C-terminal region of these enzymes shows a degree of similarity to the aspartate carbamoyltransferases, which are also known to bind carbamoyl- phosphate . This region contains a highly conserved Cys residue (in a His-Cys-Lys-Pro motif) implicated in ornithine binding . ; GO: 0004585 ornithine carbamoyltransferase activity, 0006520 amino acid metabolic process, 0009348 ornithine carbamoyltransferase complex. Probab=22.59 E-value=37 Score=11.85 Aligned_cols=20 Identities=10% Similarity=0.215 Sum_probs=10.1 Q ss_pred HHHHHHHHHHHHCCCCEEEE Q ss_conf 58999999997248984899 Q gi|254780903|r 311 KKICEIARSVTGKHVKQLDQ 330 (766) Q Consensus 311 r~~~~~a~~~~~~~~~~~~~ 330 (766) .+.+..+.+.+...+..++. T Consensus 204 ~~~v~~A~~~a~e~Gg~~~l 223 (341) T TIGR00658 204 AEIVKKAKKIAKENGGSVEL 223 (341) T ss_pred HHHHHHHHHHHHHCCCEEEE T ss_conf 78999999999717985999 No 248 >PRK02625 DNA-directed RNA polymerase subunit gamma; Provisional Probab=22.22 E-value=28 Score=12.70 Aligned_cols=51 Identities=16% Similarity=0.210 Sum_probs=28.1 Q ss_pred CCCCEEEEEEEEEEEEECCCEE--EEEE---EEECCCHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9898899889999998379606--9999---9844617999999999999999999985 Q gi|254780903|r 337 ASGADIWIQVRAQMMRTISGGM--NIIG---IAMDLTEKYHLEKRYAEADQRLSKAIEC 390 (766) Q Consensus 337 ~DG~~~Wi~~r~~~i~d~~G~~--~~iG---i~~DITErK~ae~~l~ese~rlr~~ie~ 390 (766) .+-..-|+-...-|+--++=+| .+-| +.-|+++- =.+....+.+|..+.+. T Consensus 238 S~~rPEWMIL~vLPVlPP~LRP~v~Ldggr~a~sDlN~l---YrriI~rNnrLk~~~~~ 293 (627) T PRK02625 238 TGARPEWMVLDVIPVIPPDLRPMVQLDGGRFATSDLNDL---YRRVINRNNRLARLQEI 293 (627) T ss_pred CCCCCHHEEEECCCCCCCCCCCCEEECCCCCCCCCHHHH---HHHHHHHHHHHHHHHHC T ss_conf 698835078732355898777427866886566665899---99999999999998865 No 249 >PRK06701 short chain dehydrogenase; Provisional Probab=22.14 E-value=38 Score=11.79 Aligned_cols=24 Identities=17% Similarity=0.210 Sum_probs=12.6 Q ss_pred EEEEECCCHHHHHHHHHHHHHHHH Q ss_conf 999844617999999999999999 Q gi|254780903|r 361 IGIAMDLTEKYHLEKRYAEADQRL 384 (766) Q Consensus 361 iGi~~DITErK~ae~~l~ese~rl 384 (766) +.+.-|||+....++...+..+.| T Consensus 98 ~~~~~Dv~d~~~v~~~v~~~~~~f 121 (289) T PRK06701 98 LLIPGDVSDEQFCKDAVEETVREL 121 (289) T ss_pred EEEECCCCCHHHHHHHHHHHHHHH T ss_conf 999847899999999999999985 No 250 >TIGR02986 restrict_Alw26I type II restriction endonuclease, Alw26I/Eco31I/Esp3I family; InterPro: IPR014328 Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin . However, there is still considerable diversity amongst restriction endonucleases , . The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone . There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements , , as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. This entry represents type II restriction endonucleases of the Alw26I/Eco31I/Esp3I family , whose recognition sequences are 5'-GTCTC-3' (Alw26I), 5'-GGTCTC-3' (Eco31I) and 5'-CGTCTC-3' (Esp3I).. Probab=21.99 E-value=38 Score=11.77 Aligned_cols=65 Identities=26% Similarity=0.372 Sum_probs=33.6 Q ss_pred CCCCEEEEECCCCEE-------------EECHHHHHHCCCC-HHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCEEE Q ss_conf 597459897689789-------------9978899772999-43305898899976081205899999999724898489 Q gi|254780903|r 264 GRCGLWNFNFDNKKF-------------HLSRSMYEIMGIP-YENKTLSFRAIARLIHYDNKKICEIARSVTGKHVKQLD 329 (766) Q Consensus 264 a~~GiWd~D~~~~~i-------------~ws~~~~~llG~~-~~e~~~s~~~~~~~vHPdDr~~~~~a~~~~~~~~~~~~ 329 (766) ..+|-|.|-...+.. ||..-.-+ +|++ +.....-|...+.+|||=-.-.+ ..-|...+ T Consensus 25 ~~DG~I~W~~~s~~~~g~F~~~~~~R~~Ww~~KA~e-LGi~G~~~e~~~~s~~ar~IHPt~~kpC-------~~CG~~m~ 96 (461) T TIGR02986 25 GEDGRISWEASSKKTTGKFKEYYQARRKWWEQKADE-LGIPGKDSENGRYSKAARLIHPTGVKPC-------KKCGKEMS 96 (461) T ss_pred CCCCCEEEECCCCCCCCCHHHHHHHHHHHHHHHHHH-CCCCCCCCCHHHHHHHHHHHCCCCCCCH-------HHCCCEEE T ss_conf 898516656268963131077668999999998987-2877688706899999888547885621-------02684466 Q ss_pred EEEEEEC Q ss_conf 9999886 Q gi|254780903|r 330 QIFHMRH 336 (766) Q Consensus 330 ~e~Ri~~ 336 (766) +.|-+.. T Consensus 97 l~Y~Ypn 103 (461) T TIGR02986 97 LGYSYPN 103 (461) T ss_pred EEEECCC T ss_conf 7654113 No 251 >pfam07492 Trehalase_Ca-bi Neutral trehalase Ca2+ binding domain. Neutral trehalases mobilize trehalose accumulated by fungal cells as a protective and storage carbohydrate. This family represents a calcium-binding domain similar to EF hand. Residues 97 and 108 in neutral trehalase from Schizosaccharomyces pombe have been implicated in this interaction. It is thought that this domain may provide a general mechanism for regulating neutral trehalase activity in yeasts and filamentous fungi. Probab=21.62 E-value=38 Score=11.72 Aligned_cols=15 Identities=40% Similarity=0.306 Sum_probs=10.3 Q ss_pred ECCEEEEEEEECCCC Q ss_conf 799899999978897 Q gi|254780903|r 689 IGQCVIITIADTGIG 703 (766) Q Consensus 689 ~~~~v~i~V~D~G~G 703 (766) .++...|+|.|+|+- T Consensus 10 TD~n~QITIeD~GPK 24 (30) T pfam07492 10 TDGNKQITIEDTGPK 24 (30) T ss_pred CCCCEEEEEECCCCE T ss_conf 688707888638983 No 252 >PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional Probab=21.16 E-value=28 Score=12.67 Aligned_cols=15 Identities=33% Similarity=0.386 Sum_probs=8.7 Q ss_pred CEEEEECCCCCEEEE Q ss_conf 789999699808997 Q gi|254780903|r 129 SFILLAQPNELVFAS 143 (766) Q Consensus 129 ~~i~i~d~~g~i~~~ 143 (766) .++-+.|..|.+..+ T Consensus 37 ~FidLRD~~G~vQvv 51 (706) T PRK12820 37 LFIHLRDRNGFIQAV 51 (706) T ss_pred EEEEEEECCCCEEEE T ss_conf 999997289458999 No 253 >TIGR01433 CyoA ubiquinol oxidase, subunit II; InterPro: IPR006333 Members of this domain catalyze the oxidation of ubiquinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. Subunit II is responsible for binding and oxidation of the ubiquinone substrate. This sequence is closely related to QoxA, which oxidizes quinol in Gram-positive bacteria but which is in complex with subunits which utilise cytochrome a in the reduction of molecular oxygen. Slightly more distantly related is subunit II of cytochrome c oxidase which uses cytochrome c as the oxidant . ; GO: 0016682 oxidoreductase activity acting on diphenols and related substances as donors oxygen as acceptor, 0006118 electron transport, 0016020 membrane. Probab=21.08 E-value=39 Score=11.64 Aligned_cols=22 Identities=18% Similarity=0.627 Sum_probs=14.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHH Q ss_conf 6554568788789999999988 Q gi|254780903|r 215 VTLEVVFFSIISALLLFILFSY 236 (766) Q Consensus 215 ~~~~~~~~~~~~~~~~~~~~a~ 236 (766) ++..+-|+.-...+++.+.+|. T Consensus 35 ~a~~~MLlvviPVI~~Tl~FAW 56 (228) T TIGR01433 35 TAFGLMLLVVIPVILLTLFFAW 56 (228) T ss_pred HHHHHHHHHHHHHHHHHHHHHH T ss_conf 9999999999999999998778 No 254 >PRK06128 oxidoreductase; Provisional Probab=21.02 E-value=39 Score=11.63 Aligned_cols=18 Identities=17% Similarity=0.191 Sum_probs=8.6 Q ss_pred EEECCCHHHHHHHHHHHH Q ss_conf 984461799999999999 Q gi|254780903|r 363 IAMDLTEKYHLEKRYAEA 380 (766) Q Consensus 363 i~~DITErK~ae~~l~es 380 (766) +.-|||+....++...+. T Consensus 111 v~~Dvsd~~~~~~~v~~~ 128 (300) T PRK06128 111 VPGDLKDEAFCRQLVERA 128 (300) T ss_pred EECCCCCHHHHHHHHHHH T ss_conf 974789999999999999 No 255 >PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional Probab=20.82 E-value=40 Score=11.60 Aligned_cols=82 Identities=13% Similarity=0.157 Sum_probs=48.3 Q ss_pred ECHHHHHHHHHHHHHHHHHHCCCEEEEEECC-------CC-EEEEC---HHHHHHHHHHHHHHHHHCC--CCCCEEEEEE Q ss_conf 1699999999999999998479589998089-------97-89986---8999999999886565346--8988899999 Q gi|254780903|r 620 ADLIPIINEGIRLIGSSAQSKNIKIEKKIPS-------EL-FFNAD---KRIIKKILFPILSNSIKFT--NNNGKMMIRT 686 (766) Q Consensus 620 ~dl~~~i~~~~~~~~~~~~~k~i~l~~~~~~-------~l-~v~~D---~~~l~QVl~NLi~NAik~t--~~~g~I~i~~ 686 (766) -++..+++-.+..+..++.+++|.|.++-.. +. |.+|- ++.+++-+.+.|+..+=+. .+|+.|.|.. T Consensus 656 ~~l~~Iv~~~l~~l~~rL~~~~i~l~~~~~a~~~l~~~gyd~~~GARpl~R~I~~~i~~~La~~il~g~~~~g~~v~v~~ 735 (758) T PRK11034 656 DVIHQVVDKFIVELQAQLDQKGVSLEVSQEARDWLAEKGYDRAMGARPMARVIQDNLKKPLANELLFGSLVDGGQVTVAL 735 (758) T ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEE T ss_conf 99999999999999999997898599889999999984889453711288999999889999999729888989899999 Q ss_pred EEECCEEEEEEEECC Q ss_conf 997998999999788 Q gi|254780903|r 687 SKIGQCVIITIADTG 701 (766) Q Consensus 687 ~~~~~~v~i~V~D~G 701 (766) ....+.+.|.++-.. T Consensus 736 ~~~~~~l~f~~~~~~ 750 (758) T PRK11034 736 DKEKNELTYGFQSAQ 750 (758) T ss_pred ECCCCEEEEEEECCC T ss_conf 789987999960577 No 256 >PRK05483 rplN 50S ribosomal protein L14; Validated Probab=20.82 E-value=40 Score=11.60 Aligned_cols=32 Identities=22% Similarity=0.261 Sum_probs=23.5 Q ss_pred EEEECCCCCEEEEEEEEEEEEECCCEE---EEEEE Q ss_conf 998869898899889999998379606---99999 Q gi|254780903|r 332 FHMRHASGADIWIQVRAQMMRTISGGM---NIIGI 363 (766) Q Consensus 332 ~Ri~~~DG~~~Wi~~r~~~i~d~~G~~---~~iGi 363 (766) +.++++||.+.-+...+.++-++.|.| ++.|. T Consensus 67 k~~~R~dG~~i~Fd~Na~Vli~~~~~P~GTrI~Gp 101 (122) T PRK05483 67 KGVRRPDGSYIRFDDNAAVLLNNDGEPRGTRIFGP 101 (122) T ss_pred CCEECCCCCEEEECCCEEEEECCCCCEEEEEEECC T ss_conf 53066998888837837999989998836379736 No 257 >cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification. Probab=20.57 E-value=40 Score=11.57 Aligned_cols=26 Identities=31% Similarity=0.614 Sum_probs=15.4 Q ss_pred HHHHCCCCHHH----CCCCHHHHHHHHCCC Q ss_conf 99772999433----058988999760812 Q gi|254780903|r 284 MYEIMGIPYEN----KTLSFRAIARLIHYD 309 (766) Q Consensus 284 ~~~llG~~~~e----~~~s~~~~~~~vHPd 309 (766) +|++||+++.. ....+.......||| T Consensus 2 ~Y~vLgl~~~at~~~Ik~ayr~l~~~~HPD 31 (55) T cd06257 2 YYDILGVPPDASDEEIKKAYRKLALKYHPD 31 (55) T ss_pred HHHHCCCCCCCCHHHHHHHHHHHHHHHCCC T ss_conf 287779999939999999999999881998 Done!