Query 001215
Match_columns 1122
No_of_seqs 588 out of 3834
Neff 8.0
Searched_HMMs 46136
Date Thu Mar 28 18:56:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001215.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001215hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG4251 Bacteriophytochrome (l 100.0 5E-154 1E-158 1295.1 65.7 717 61-1115 9-744 (750)
2 TIGR02938 nifL_nitrog nitrogen 100.0 5.5E-51 1.2E-55 493.9 43.8 465 611-1112 4-494 (494)
3 PRK13560 hypothetical protein; 100.0 1.5E-49 3.3E-54 511.5 54.5 484 591-1113 184-804 (807)
4 PRK11091 aerobic respiration c 100.0 6E-45 1.3E-49 466.1 40.7 359 724-1113 138-508 (779)
5 COG5002 VicK Signal transducti 100.0 1.5E-42 3.2E-47 367.6 26.7 347 724-1116 93-452 (459)
6 PRK11006 phoR phosphate regulo 100.0 1E-36 2.2E-41 363.6 35.0 338 721-1114 78-425 (430)
7 COG3852 NtrB Signal transducti 100.0 3.1E-36 6.6E-41 316.4 32.7 340 745-1114 11-356 (363)
8 PRK13557 histidine kinase; Pro 100.0 7.4E-35 1.6E-39 357.6 41.3 355 734-1114 23-396 (540)
9 PRK10618 phosphotransfer inter 100.0 2.5E-35 5.4E-40 372.5 37.9 329 731-1113 333-673 (894)
10 PRK10841 hybrid sensory kinase 100.0 1.8E-34 3.9E-39 370.3 41.4 329 734-1113 327-668 (924)
11 PRK11360 sensory histidine kin 100.0 3.9E-34 8.4E-39 355.4 42.8 349 731-1115 252-604 (607)
12 PRK11073 glnL nitrogen regulat 100.0 2.5E-34 5.5E-39 333.2 36.8 338 740-1112 6-347 (348)
13 TIGR02966 phoR_proteo phosphat 100.0 2.2E-34 4.9E-39 330.0 33.4 320 737-1109 2-332 (333)
14 PRK09959 hybrid sensory histid 100.0 8.8E-33 1.9E-37 370.0 40.1 367 722-1112 557-936 (1197)
15 PF00360 PHY: Phytochrome regi 100.0 1.7E-35 3.6E-40 306.4 10.7 170 408-579 4-178 (182)
16 COG2205 KdpD Osmosensitive K+ 100.0 3.2E-32 7E-37 319.4 26.3 219 882-1116 655-883 (890)
17 PRK13559 hypothetical protein; 100.0 6.4E-31 1.4E-35 306.4 35.8 311 738-1112 40-359 (361)
18 PRK11086 sensory histidine kin 100.0 1.4E-29 3.1E-34 311.3 44.2 348 704-1115 146-538 (542)
19 COG4191 Signal transduction hi 100.0 3E-30 6.5E-35 295.1 32.1 207 891-1113 388-602 (603)
20 COG5000 NtrY Signal transducti 100.0 6E-30 1.3E-34 290.3 31.9 332 732-1112 361-708 (712)
21 PRK09303 adaptive-response sen 100.0 2.5E-30 5.4E-35 302.9 27.9 218 884-1114 148-379 (380)
22 PRK15053 dpiB sensor histidine 100.0 1.4E-27 3E-32 294.0 43.0 348 704-1115 147-542 (545)
23 TIGR02956 TMAO_torS TMAO reduc 100.0 4.2E-29 9.2E-34 328.2 28.0 226 875-1114 452-685 (968)
24 PRK15347 two component system 100.0 1.2E-28 2.5E-33 322.4 28.7 224 877-1114 388-616 (921)
25 PRK11466 hybrid sensory histid 100.0 8.2E-28 1.8E-32 313.9 28.8 221 879-1113 436-663 (914)
26 PRK10490 sensor protein KdpD; 100.0 4.8E-27 1E-31 300.6 34.9 216 884-1115 661-885 (895)
27 PRK11107 hybrid sensory histid 100.0 1.3E-27 2.7E-32 312.6 28.4 227 879-1113 285-521 (919)
28 PRK13837 two-component VirA-li 100.0 1.4E-25 3.1E-30 287.9 39.4 218 887-1114 450-677 (828)
29 COG3290 CitA Signal transducti 99.9 8.5E-25 1.8E-29 249.6 39.1 357 697-1115 133-534 (537)
30 PRK10364 sensor protein ZraS; 99.9 8.7E-26 1.9E-30 271.8 29.5 214 888-1119 238-455 (457)
31 PRK10815 sensor protein PhoQ; 99.9 1.9E-25 4.1E-30 269.3 27.5 211 886-1115 265-481 (485)
32 PRK10604 sensor protein RstB; 99.9 2.1E-25 4.5E-30 266.3 26.3 209 885-1116 210-427 (433)
33 PRK10755 sensor protein BasS/P 99.9 2.1E-24 4.5E-29 251.2 26.1 210 887-1115 137-353 (356)
34 PRK10549 signal transduction h 99.9 2E-24 4.4E-29 260.5 26.4 218 884-1117 237-463 (466)
35 TIGR03785 marine_sort_HK prote 99.9 1.1E-23 2.4E-28 263.9 28.8 211 886-1111 484-703 (703)
36 PRK09776 putative diguanylate 99.9 4.8E-24 1E-28 283.9 26.4 273 592-881 391-666 (1092)
37 PRK09776 putative diguanylate 99.9 4E-23 8.6E-28 275.2 28.6 268 599-883 271-538 (1092)
38 PRK09835 sensor kinase CusS; P 99.9 5.5E-23 1.2E-27 249.1 27.4 211 885-1112 260-480 (482)
39 PF08446 PAS_2: PAS fold; Int 99.9 5.9E-25 1.3E-29 208.9 7.1 105 68-182 3-110 (110)
40 TIGR01386 cztS_silS_copS heavy 99.9 6.1E-23 1.3E-27 246.7 26.2 207 887-1111 241-457 (457)
41 TIGR02916 PEP_his_kin putative 99.9 1.2E-22 2.6E-27 255.6 29.1 199 888-1111 476-679 (679)
42 PRK10337 sensor protein QseC; 99.9 1.8E-22 3.9E-27 242.5 26.2 206 887-1110 237-449 (449)
43 PRK11100 sensory histidine kin 99.9 2.2E-22 4.8E-27 243.1 27.0 211 887-1113 256-474 (475)
44 PRK09470 cpxA two-component se 99.9 3.4E-22 7.3E-27 240.7 27.1 209 886-1114 242-459 (461)
45 PRK09467 envZ osmolarity senso 99.9 5E-22 1.1E-26 237.6 27.3 204 882-1113 224-434 (435)
46 COG0642 BaeS Signal transducti 99.9 3.4E-21 7.4E-26 219.2 26.6 213 886-1115 114-332 (336)
47 COG4192 Signal transduction hi 99.9 1.9E-21 4.2E-26 213.1 20.6 235 865-1115 424-669 (673)
48 TIGR02040 PpsR-CrtJ transcript 99.9 9.2E-21 2E-25 227.1 24.3 241 604-873 126-368 (442)
49 PRK13560 hypothetical protein; 99.9 3E-20 6.6E-25 239.6 29.6 264 599-883 55-334 (807)
50 PRK11644 sensory histidine kin 99.8 6E-19 1.3E-23 213.0 24.8 192 886-1112 301-494 (495)
51 PRK11359 cyclic-di-GMP phospho 99.8 3.4E-18 7.5E-23 220.5 26.1 249 611-878 12-260 (799)
52 TIGR02040 PpsR-CrtJ transcript 99.8 1.1E-17 2.4E-22 200.5 21.5 234 616-875 1-249 (442)
53 PF02518 HATPase_c: Histidine 99.7 7.1E-17 1.5E-21 154.8 11.8 103 998-1112 1-110 (111)
54 PRK10935 nitrate/nitrite senso 99.7 5.1E-15 1.1E-19 183.3 31.1 195 887-1115 360-562 (565)
55 PRK10600 nitrate/nitrite senso 99.7 7.7E-15 1.7E-19 181.6 25.6 186 894-1114 369-558 (569)
56 COG3920 Signal transduction hi 99.6 6.7E-13 1.5E-17 142.2 25.2 213 864-1114 2-217 (221)
57 PRK10547 chemotaxis protein Ch 99.5 2.8E-13 6.1E-18 165.5 22.7 141 959-1113 343-524 (670)
58 PF08448 PAS_4: PAS fold; Int 99.5 3.7E-13 8.1E-18 127.6 12.0 110 617-731 1-110 (110)
59 PF13426 PAS_9: PAS domain; PD 99.4 7.6E-13 1.7E-17 124.0 12.3 104 621-728 1-104 (104)
60 PF00989 PAS: PAS fold; Inter 99.4 1.6E-12 3.5E-17 123.9 13.3 112 611-726 1-113 (113)
61 COG3850 NarQ Signal transducti 99.4 5.5E-11 1.2E-15 135.7 22.4 189 888-1114 370-570 (574)
62 PRK11091 aerobic respiration c 99.3 8.4E-12 1.8E-16 160.6 17.1 151 593-747 137-287 (779)
63 COG4585 Signal transduction hi 99.3 3.3E-11 7.2E-16 140.8 20.3 154 922-1112 212-365 (365)
64 PF13426 PAS_9: PAS domain; PD 99.3 7.4E-12 1.6E-16 117.2 11.9 103 755-868 2-104 (104)
65 COG3851 UhpB Signal transducti 99.3 4.9E-10 1.1E-14 121.3 23.1 189 889-1111 305-493 (497)
66 smart00387 HATPase_c Histidine 99.3 4.1E-11 9E-16 113.1 13.3 103 998-1112 1-110 (111)
67 PF00989 PAS: PAS fold; Inter 99.3 2.9E-11 6.4E-16 115.1 12.2 112 741-866 1-113 (113)
68 PF01590 GAF: GAF domain; Int 99.3 2.3E-11 4.9E-16 123.1 11.5 153 215-390 1-154 (154)
69 PF08448 PAS_4: PAS fold; Int 99.2 4.5E-11 9.8E-16 113.2 11.0 109 748-871 2-110 (110)
70 PRK04184 DNA topoisomerase VI 99.2 4.2E-11 9.1E-16 141.6 12.7 109 998-1112 32-154 (535)
71 COG4564 Signal transduction hi 99.2 2.6E-09 5.6E-14 114.4 24.5 220 861-1113 221-448 (459)
72 COG0643 CheA Chemotaxis protei 99.2 2.1E-10 4.4E-15 141.2 17.5 163 927-1112 365-573 (716)
73 KOG0519 Sensory transduction h 99.2 6.9E-12 1.5E-16 158.0 1.8 225 884-1114 216-492 (786)
74 PRK10060 RNase II stability mo 99.1 1E-09 2.3E-14 138.0 19.5 170 695-882 70-239 (663)
75 PRK13559 hypothetical protein; 99.1 7.7E-10 1.7E-14 129.1 15.9 131 608-742 40-173 (361)
76 PRK14868 DNA topoisomerase VI 99.1 5.1E-10 1.1E-14 134.5 13.7 112 979-1101 23-148 (795)
77 cd00075 HATPase_c Histidine ki 99.1 7E-10 1.5E-14 102.9 11.9 94 1003-1106 1-101 (103)
78 PRK13558 bacterio-opsin activa 99.1 1.8E-09 4E-14 136.5 17.6 137 611-751 148-287 (665)
79 PRK13557 histidine kinase; Pro 99.1 1.8E-09 4E-14 132.7 16.1 133 604-740 23-158 (540)
80 PRK10060 RNase II stability mo 99.0 3.1E-09 6.6E-14 133.8 17.4 169 604-777 104-288 (663)
81 TIGR01052 top6b DNA topoisomer 99.0 1.5E-09 3.2E-14 127.4 12.6 107 996-1110 22-142 (488)
82 TIGR00229 sensory_box PAS doma 99.0 4.4E-09 9.6E-14 97.0 13.0 120 611-735 3-123 (124)
83 COG3275 LytS Putative regulato 99.0 2.6E-08 5.5E-13 112.4 20.4 135 956-1116 414-555 (557)
84 TIGR01925 spIIAB anti-sigma F 99.0 3.7E-09 8.1E-14 105.4 12.7 95 998-1108 35-134 (137)
85 PRK03660 anti-sigma F factor; 99.0 5.6E-09 1.2E-13 105.3 13.1 99 999-1112 36-140 (146)
86 smart00065 GAF Domain present 99.0 1.8E-08 3.9E-13 98.8 16.1 139 215-392 1-141 (149)
87 COG3829 RocR Transcriptional r 98.9 1.7E-08 3.7E-13 116.9 17.4 230 614-881 4-234 (560)
88 PRK11359 cyclic-di-GMP phospho 98.9 5.6E-08 1.2E-12 125.8 21.1 137 593-737 122-259 (799)
89 PRK04069 serine-protein kinase 98.9 2.2E-08 4.8E-13 102.6 13.5 102 999-1114 39-147 (161)
90 PRK14867 DNA topoisomerase VI 98.9 1.2E-08 2.7E-13 123.0 12.3 104 1001-1112 35-151 (659)
91 PF00512 HisKA: His Kinase A ( 98.8 8.5E-09 1.8E-13 89.4 7.9 64 887-950 2-68 (68)
92 COG2972 Predicted signal trans 98.8 1.3E-07 2.7E-12 113.8 20.4 183 893-1114 265-454 (456)
93 PF13596 PAS_10: PAS domain; P 98.8 2.1E-08 4.5E-13 95.2 10.7 106 613-727 1-106 (106)
94 PRK13558 bacterio-opsin activa 98.8 8.8E-08 1.9E-12 121.3 17.6 126 743-882 150-278 (665)
95 TIGR02938 nifL_nitrog nitrogen 98.8 2.1E-08 4.6E-13 121.5 11.5 128 741-882 4-131 (494)
96 PF14501 HATPase_c_5: GHKL dom 98.8 7.8E-08 1.7E-12 90.3 12.6 98 999-1111 2-100 (100)
97 TIGR00229 sensory_box PAS doma 98.8 7.6E-08 1.6E-12 88.6 11.9 120 741-875 3-123 (124)
98 PF08447 PAS_3: PAS fold; Int 98.7 5.9E-08 1.3E-12 89.0 10.5 86 633-723 1-91 (91)
99 TIGR01924 rsbW_low_gc serine-p 98.7 9.6E-08 2.1E-12 97.6 13.0 101 1000-1114 40-147 (159)
100 PF08447 PAS_3: PAS fold; Int 98.7 1.5E-07 3.1E-12 86.3 10.1 90 766-863 1-91 (91)
101 PRK11360 sensory histidine kin 98.7 4E-07 8.7E-12 113.3 17.4 132 602-740 253-385 (607)
102 cd00130 PAS PAS domain; PAS mo 98.6 7.5E-07 1.6E-11 77.8 12.9 103 620-726 1-103 (103)
103 KOG3558 Hypoxia-inducible fact 98.6 4.9E-07 1.1E-11 105.9 12.9 228 612-868 119-378 (768)
104 TIGR02966 phoR_proteo phosphat 98.5 7.4E-07 1.6E-11 102.0 13.2 114 607-737 2-115 (333)
105 COG5002 VicK Signal transducti 98.5 9.3E-07 2E-11 96.2 12.6 130 599-739 99-228 (459)
106 PF12860 PAS_7: PAS fold 98.5 4.8E-07 1E-11 87.2 9.5 104 617-734 1-115 (115)
107 COG2203 FhlA FOG: GAF domain [ 98.5 7.5E-07 1.6E-11 90.4 10.0 156 201-393 6-165 (175)
108 PRK11388 DNA-binding transcrip 98.4 9.2E-06 2E-10 102.1 19.7 217 612-871 63-311 (638)
109 PF13492 GAF_3: GAF domain; PD 98.4 7.7E-06 1.7E-10 79.7 14.5 128 215-391 1-128 (129)
110 PRK11073 glnL nitrogen regulat 98.3 3.6E-06 7.7E-11 97.7 13.1 117 611-739 7-124 (348)
111 cd00130 PAS PAS domain; PAS mo 98.3 9.7E-06 2.1E-10 70.5 12.5 100 756-866 4-103 (103)
112 COG2202 AtoS FOG: PAS/PAC doma 98.3 5.8E-05 1.3E-09 76.6 19.8 228 624-872 2-231 (232)
113 PRK11006 phoR phosphate regulo 98.3 5.1E-06 1.1E-10 99.5 13.3 121 598-737 85-205 (430)
114 PF13581 HATPase_c_2: Histidin 98.3 7.6E-06 1.6E-10 80.1 11.5 91 999-1103 28-120 (125)
115 KOG0787 Dehydrogenase kinase [ 98.2 6.1E-06 1.3E-10 91.1 11.1 180 920-1114 172-382 (414)
116 PF13596 PAS_10: PAS domain; P 98.2 5.1E-06 1.1E-10 78.8 9.0 105 744-867 2-106 (106)
117 COG3829 RocR Transcriptional r 98.1 2.5E-05 5.4E-10 91.2 14.3 169 606-787 112-327 (560)
118 PRK10820 DNA-binding transcrip 98.1 3.1E-05 6.7E-10 94.5 15.7 112 606-731 75-190 (520)
119 PF13185 GAF_2: GAF domain; PD 98.1 3.5E-05 7.6E-10 77.0 13.3 136 215-390 3-147 (148)
120 PF12860 PAS_7: PAS fold 98.1 1.3E-05 2.9E-10 77.1 8.8 113 748-874 2-115 (115)
121 TIGR01817 nifA Nif-specific re 98.0 0.00021 4.5E-09 88.0 20.0 153 199-392 5-158 (534)
122 PRK11086 sensory histidine kin 98.0 3.4E-05 7.4E-10 95.2 13.1 126 604-745 214-342 (542)
123 PF14598 PAS_11: PAS domain; P 98.0 7.4E-05 1.6E-09 71.5 12.1 100 625-728 6-108 (111)
124 COG1389 DNA topoisomerase VI, 97.9 4.1E-05 8.9E-10 86.5 9.6 102 1000-1110 34-150 (538)
125 COG2202 AtoS FOG: PAS/PAC doma 97.9 0.00024 5.3E-09 71.9 14.5 134 594-732 95-231 (232)
126 PF14598 PAS_11: PAS domain; P 97.9 0.00018 3.8E-09 68.9 11.9 101 757-868 5-108 (111)
127 smart00388 HisKA His Kinase A 97.8 6.5E-05 1.4E-09 63.4 6.6 61 888-948 3-64 (66)
128 COG2172 RsbW Anti-sigma regula 97.7 0.0003 6.6E-09 70.5 12.0 89 998-1101 36-130 (146)
129 COG3604 FhlA Transcriptional r 97.7 0.0019 4.1E-08 74.9 19.7 220 214-471 47-273 (550)
130 PRK05022 anaerobic nitric oxid 97.7 0.0042 9E-08 75.9 23.4 153 202-393 7-159 (509)
131 PRK15429 formate hydrogenlyase 97.7 0.0029 6.2E-08 80.3 22.6 146 213-393 197-344 (686)
132 COG5000 NtrY Signal transducti 97.5 0.00098 2.1E-08 78.4 13.9 126 599-736 358-484 (712)
133 PF13188 PAS_8: PAS domain; PD 97.5 0.00011 2.4E-09 62.6 4.4 47 611-661 1-47 (64)
134 PRK15053 dpiB sensor histidine 97.5 0.00095 2.1E-08 82.6 14.4 122 605-743 216-339 (545)
135 TIGR00585 mutl DNA mismatch re 97.4 0.00076 1.6E-08 77.0 11.3 80 1001-1099 21-114 (312)
136 COG3290 CitA Signal transducti 97.4 0.00091 2E-08 78.5 11.6 123 604-743 208-334 (537)
137 PRK10820 DNA-binding transcrip 97.4 0.00077 1.7E-08 82.4 11.0 111 736-870 75-189 (520)
138 KOG3559 Transcriptional regula 97.4 0.00059 1.3E-08 75.4 8.7 207 615-852 83-312 (598)
139 PRK11061 fused phosphoenolpyru 97.4 0.0049 1.1E-07 78.1 18.2 151 202-392 6-156 (748)
140 KOG3560 Aryl-hydrocarbon recep 97.2 0.0027 5.9E-08 72.9 12.5 237 614-868 114-385 (712)
141 KOG0501 K+-channel KCNQ [Inorg 97.2 0.0011 2.5E-08 76.4 9.3 117 612-732 15-139 (971)
142 PRK09959 hybrid sensory histid 97.2 0.0034 7.4E-08 85.3 15.8 143 595-742 560-704 (1197)
143 cd00082 HisKA Histidine Kinase 97.2 0.0011 2.4E-08 55.3 7.1 59 887-945 4-64 (65)
144 PRK11388 DNA-binding transcrip 97.2 0.012 2.6E-07 74.3 18.7 114 606-732 198-312 (638)
145 KOG0501 K+-channel KCNQ [Inorg 97.0 0.0013 2.9E-08 75.8 7.4 100 763-872 39-139 (971)
146 PF13589 HATPase_c_3: Histidin 97.0 0.0003 6.6E-09 70.0 1.6 91 1004-1111 4-106 (137)
147 smart00091 PAS PAS domain. PAS 96.9 0.0028 6.2E-08 50.1 6.5 64 612-675 2-65 (67)
148 PRK15429 formate hydrogenlyase 96.9 0.38 8.2E-06 61.3 28.5 150 202-392 12-163 (686)
149 COG2461 Uncharacterized conser 96.4 0.008 1.7E-07 67.5 7.6 115 611-735 290-404 (409)
150 PF13188 PAS_8: PAS domain; PD 96.4 0.0031 6.7E-08 53.6 3.3 36 741-780 1-36 (64)
151 PRK00095 mutL DNA mismatch rep 96.2 0.02 4.2E-07 71.5 10.4 55 1001-1069 21-75 (617)
152 PRK05559 DNA topoisomerase IV 96.0 0.013 2.9E-07 72.8 7.7 75 999-1085 34-128 (631)
153 PF10090 DUF2328: Uncharacteri 95.7 0.64 1.4E-05 48.5 17.2 172 903-1101 2-177 (182)
154 PF08670 MEKHLA: MEKHLA domain 95.7 0.15 3.3E-06 50.9 12.0 110 611-726 32-145 (148)
155 COG5385 Uncharacterized protei 95.6 0.93 2E-05 45.1 16.8 188 892-1107 20-211 (214)
156 KOG3558 Hypoxia-inducible fact 95.3 0.023 5E-07 67.9 5.7 98 627-728 280-378 (768)
157 TIGR02373 photo_yellow photoac 95.3 0.079 1.7E-06 50.7 8.3 45 751-795 23-67 (124)
158 KOG1229 3'5'-cyclic nucleotide 95.3 0.013 2.8E-07 65.7 3.3 97 756-862 169-265 (775)
159 TIGR02916 PEP_his_kin putative 95.0 0.69 1.5E-05 59.0 18.3 152 201-392 307-459 (679)
160 TIGR02373 photo_yellow photoac 94.9 0.18 4E-06 48.3 9.4 73 616-688 21-95 (124)
161 COG3283 TyrR Transcriptional r 94.8 0.11 2.4E-06 58.1 8.6 56 611-666 80-135 (511)
162 COG2461 Uncharacterized conser 94.8 0.067 1.5E-06 60.4 7.1 113 741-873 290-402 (409)
163 KOG3753 Circadian clock protei 94.6 0.12 2.7E-06 63.0 9.2 197 623-847 194-416 (1114)
164 COG3852 NtrB Signal transducti 94.5 0.28 6.2E-06 53.9 10.9 112 614-735 10-122 (363)
165 TIGR01059 gyrB DNA gyrase, B s 94.2 0.13 2.8E-06 64.7 8.7 77 999-1087 27-123 (654)
166 PRK05644 gyrB DNA gyrase subun 94.1 0.13 2.8E-06 64.2 8.4 77 999-1087 34-130 (638)
167 PRK10841 hybrid sensory kinase 94.0 0.66 1.4E-05 61.1 15.0 118 600-744 323-441 (924)
168 TIGR01055 parE_Gneg DNA topois 94.0 0.092 2E-06 65.3 6.7 77 999-1087 27-123 (625)
169 smart00433 TOP2c Topoisomerase 93.8 0.061 1.3E-06 66.6 4.7 49 1003-1063 2-50 (594)
170 KOG1229 3'5'-cyclic nucleotide 93.6 0.064 1.4E-06 60.4 3.9 112 605-721 152-264 (775)
171 PF08670 MEKHLA: MEKHLA domain 93.2 1.2 2.5E-05 44.7 11.6 110 741-865 32-144 (148)
172 smart00091 PAS PAS domain. PAS 93.1 0.21 4.5E-06 38.9 5.4 44 743-789 3-46 (67)
173 COG3284 AcoR Transcriptional a 93.1 1.3 2.8E-05 53.7 13.9 179 599-788 62-267 (606)
174 TIGR02851 spore_V_T stage V sp 92.9 3.7 7.9E-05 42.8 15.4 125 215-390 53-179 (180)
175 PRK05218 heat shock protein 90 92.9 0.3 6.5E-06 60.8 8.7 57 996-1066 23-93 (613)
176 PF07568 HisKA_2: Histidine ki 92.5 0.71 1.5E-05 40.8 8.2 72 894-973 2-73 (76)
177 smart00086 PAC Motif C-termina 91.9 0.6 1.3E-05 32.4 6.1 40 829-868 3-42 (43)
178 KOG0519 Sensory transduction h 91.5 0.49 1.1E-05 60.8 8.5 213 882-1097 381-620 (786)
179 COG0323 MutL DNA mismatch repa 91.3 0.23 5E-06 61.9 5.1 54 1002-1069 23-76 (638)
180 PRK14939 gyrB DNA gyrase subun 91.2 0.34 7.4E-06 61.0 6.5 50 1001-1062 36-85 (756)
181 PRK10618 phosphotransfer inter 90.5 1.6 3.5E-05 57.0 12.0 47 600-646 332-379 (894)
182 PRK14083 HSP90 family protein; 89.0 0.4 8.7E-06 59.2 4.6 58 996-1066 20-83 (601)
183 smart00086 PAC Motif C-termina 87.6 1.5 3.3E-05 30.2 5.3 35 694-728 8-42 (43)
184 TIGR01058 parE_Gpos DNA topois 86.9 1 2.2E-05 56.2 6.3 52 999-1062 31-82 (637)
185 PTZ00272 heat shock protein 83 85.8 0.95 2.1E-05 56.8 5.2 52 1006-1066 29-92 (701)
186 COG5381 Uncharacterized protei 85.3 2.5 5.4E-05 41.3 6.5 79 1000-1093 61-158 (184)
187 PF07310 PAS_5: PAS domain; I 84.2 5.4 0.00012 39.6 8.9 86 631-723 51-136 (137)
188 COG0326 HtpG Molecular chapero 83.2 0.96 2.1E-05 55.0 3.5 49 1006-1063 31-91 (623)
189 PTZ00108 DNA topoisomerase 2-l 82.8 2.7 5.8E-05 56.4 7.6 51 1002-1063 57-111 (1388)
190 KOG3561 Aryl-hydrocarbon recep 82.6 0.91 2E-05 56.9 3.1 98 759-867 377-476 (803)
191 KOG3560 Aryl-hydrocarbon recep 81.4 4.2 9.1E-05 47.8 7.5 94 630-728 292-385 (712)
192 KOG3559 Transcriptional regula 79.9 3.2 7E-05 46.9 5.8 87 623-713 227-313 (598)
193 COG1956 GAF domain-containing 78.3 82 0.0018 32.0 14.5 122 215-387 33-157 (163)
194 COG3283 TyrR Transcriptional r 77.0 4.9 0.00011 45.5 6.1 46 741-789 80-125 (511)
195 PLN03128 DNA topoisomerase 2; 76.5 3.4 7.3E-05 54.7 5.5 51 1002-1063 52-103 (1135)
196 PLN03237 DNA topoisomerase 2; 75.0 3.4 7.4E-05 55.3 5.0 77 1002-1089 77-174 (1465)
197 PHA02569 39 DNA topoisomerase 73.9 2 4.2E-05 53.4 2.3 48 1002-1062 45-95 (602)
198 PF14689 SPOB_a: Sensor_kinase 73.8 18 0.00039 30.6 7.5 46 890-939 15-60 (62)
199 PTZ00130 heat shock protein 90 72.1 2.9 6.2E-05 53.0 3.2 49 1007-1064 93-153 (814)
200 PRK14538 putative bifunctional 72.0 52 0.0011 42.7 14.3 231 728-1029 82-329 (838)
201 PF08446 PAS_2: PAS fold; Int 69.2 5.8 0.00012 37.8 3.9 48 624-671 18-69 (110)
202 PRK13837 two-component VirA-li 68.4 1.7E+02 0.0038 38.3 18.7 133 215-391 293-426 (828)
203 PTZ00109 DNA gyrase subunit b; 68.3 1.2 2.6E-05 56.6 -1.2 51 1001-1063 128-178 (903)
204 COG3887 Predicted signaling pr 67.4 41 0.00089 40.9 11.0 103 608-740 72-174 (655)
205 PF07310 PAS_5: PAS domain; I 66.5 23 0.00051 35.0 7.8 85 765-863 52-136 (137)
206 PF08348 PAS_6: YheO-like PAS 63.8 24 0.00053 34.1 7.0 42 693-736 75-116 (118)
207 COG3887 Predicted signaling pr 63.7 1.1E+02 0.0025 37.3 13.7 39 738-779 72-110 (655)
208 PRK14538 putative bifunctional 62.1 40 0.00087 43.7 10.5 46 611-659 102-148 (838)
209 COG0187 GyrB Type IIA topoisom 61.4 2.3 5E-05 51.6 -0.5 52 1001-1064 35-86 (635)
210 KOG1978 DNA mismatch repair pr 61.1 8.2 0.00018 47.3 3.9 49 1003-1065 21-69 (672)
211 KOG3561 Aryl-hydrocarbon recep 60.9 5.7 0.00012 50.2 2.7 98 627-727 378-476 (803)
212 PF04340 DUF484: Protein of un 60.3 1.1E+02 0.0024 33.1 12.3 43 202-246 81-123 (225)
213 PF02743 Cache_1: Cache domain 59.4 21 0.00045 31.6 5.4 59 698-769 10-68 (81)
214 COG3605 PtsP Signal transducti 59.1 1.5E+02 0.0032 36.3 13.4 144 201-388 5-152 (756)
215 PRK10490 sensor protein KdpD; 58.7 3.8E+02 0.0083 35.5 19.1 48 332-392 596-644 (895)
216 PF08348 PAS_6: YheO-like PAS 56.4 44 0.00096 32.3 7.4 50 824-875 66-115 (118)
217 PF05651 Diacid_rec: Putative 55.3 2.2E+02 0.0048 28.2 14.9 109 217-390 3-111 (135)
218 KOG1979 DNA mismatch repair pr 53.7 14 0.00031 44.3 4.2 51 1005-1069 30-80 (694)
219 PRK13719 conjugal transfer tra 49.6 2E+02 0.0044 30.8 11.6 39 610-648 18-56 (217)
220 KOG3753 Circadian clock protei 48.3 31 0.00066 43.4 5.9 83 629-715 339-424 (1114)
221 PRK10600 nitrate/nitrite senso 45.7 6.8E+02 0.015 31.0 19.1 123 202-392 223-346 (569)
222 KOG1977 DNA mismatch repair pr 44.6 36 0.00077 41.9 5.5 53 1001-1068 20-72 (1142)
223 PF14827 Cache_3: Sensory doma 42.9 98 0.0021 29.5 7.6 75 622-727 40-114 (116)
224 PF13192 Thioredoxin_3: Thiore 42.3 29 0.00063 30.4 3.5 25 441-465 52-76 (76)
225 PF14827 Cache_3: Sensory doma 40.0 55 0.0012 31.3 5.3 51 213-271 19-69 (116)
226 KOG0355 DNA topoisomerase type 38.1 35 0.00076 42.9 4.4 57 1000-1068 51-110 (842)
227 KOG0387 Transcription-coupled 34.1 23 0.00051 44.2 2.0 16 229-246 614-629 (923)
228 PF07536 HWE_HK: HWE histidine 32.3 2.6E+02 0.0056 25.1 8.0 69 894-975 2-72 (83)
229 COG3284 AcoR Transcriptional a 30.7 2E+02 0.0042 35.7 8.9 40 734-773 67-106 (606)
230 KOG0020 Endoplasmic reticulum 29.9 60 0.0013 38.3 4.2 15 1047-1061 143-157 (785)
231 COG0813 DeoD Purine-nucleoside 29.5 51 0.0011 35.1 3.3 53 994-1059 17-69 (236)
232 COG2865 Predicted transcriptio 28.8 2.1E+02 0.0045 34.5 8.6 93 1005-1112 273-382 (467)
233 PF03472 Autoind_bind: Autoind 25.9 6E+02 0.013 24.5 10.5 107 223-363 8-119 (149)
234 KOG0019 Molecular chaperone (H 24.8 76 0.0016 38.7 4.0 49 1005-1062 60-118 (656)
235 COG3275 LytS Putative regulato 21.6 2.5E+02 0.0054 33.7 7.2 118 219-391 226-348 (557)
236 PRK13870 transcriptional regul 20.4 7.7E+02 0.017 26.8 10.6 118 204-363 8-130 (234)
237 PF02070 NMU: Neuromedin U; I 20.1 69 0.0015 21.6 1.4 16 69-84 5-20 (25)
No 1
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=100.00 E-value=4.7e-154 Score=1295.08 Aligned_cols=717 Identities=29% Similarity=0.506 Sum_probs=623.7
Q ss_pred chhhHHH-HhhccCCCCCCccceEEEEecCCcEEEEecCChhhhhCCCCCCCCCcccccccccCcchhhccCchhHHHHH
Q 001215 61 SSTVSAY-LQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLFTSSGAAALQ 139 (1122)
Q Consensus 61 ~~~~~~~-~~~i~~~g~iQp~G~ll~~~~~~~~i~~~S~N~~~~lg~~~~~~~~~~~~~~~~lg~~~~~~~~~~~~~~~~ 139 (1122)
...++.| .+|||+||+||||||||++|+.++.|+|+|+||..+||+.|+.+ +|+++.++|+.+....|+
T Consensus 9 ~v~l~nce~ePIHipG~IQPHG~Llvl~~~~~~Vlq~S~N~~~~LG~~~e~l----------~~~tl~~vl~~~qv~~l~ 78 (750)
T COG4251 9 HVTLTNCEREPIHIPGAIQPHGALLVLDEADLMVLQASENCANILGREPEDL----------LGRTLGAVLTSEQVPPLQ 78 (750)
T ss_pred cCcccccccCCccCCCccCCceeEEEeecCCchhhhhhhhHHHHhCCChhhh----------hcCCHHHhcchhhccHHH
Confidence 4677889 99999999999999999999999999999999999999999874 899999999999999999
Q ss_pred HHhccCCCCCCCcEEEeecCCCcceEEEEeecCceEEEEeeecCCCCCccchhhhhhHHHHHHHHHHHhhcCCCCCHHHH
Q 001215 140 KAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLL 219 (1122)
Q Consensus 140 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~~~i~e~Ep~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (1122)
.++..+.....||..+-.+. +..|++++||+++.+|+||||+...+. . ..+.+|+++..++.+||+.+ |+.++
T Consensus 79 ~~l~~~~~~~~np~~~w~~~-~~~fDv~~HR~~~llIlEfEp~~t~e~-~---~~l~f~h~~k~a~~~lq~a~--~l~~l 151 (750)
T COG4251 79 SALTVGGLTTLNPTKMWTRK-GGSFDVSAHRSKELLILEFEPAGTGET-A---SFLGFYHLAKLAMNRLQSAA--NLRDL 151 (750)
T ss_pred HhccccCcccCCchhhhhhc-CCceeEEEEecCcEEEEEEecCccccc-c---cccchHHHHHHHHHHHhcCc--cHHHH
Confidence 99999888888885552222 337999999999999999999754432 1 23357888888999999966 99999
Q ss_pred HHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHhCCeEEeecCCCCcceeec
Q 001215 220 CDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQ 299 (1122)
Q Consensus 220 ~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~~~~r~i~d~~~~~~~~~~ 299 (1122)
|+.+++|||++|||||||+|||++||+|+||||+++++++||||+||||||||+|||+||.+|++|+|+|+.|+|||+.|
T Consensus 152 ~~~~tqeVr~~tGfDRVMlYrF~~d~~G~VIAEak~e~LesyLGl~yPaSDIP~qAR~LY~~N~lRlIpD~~~~~vpv~P 231 (750)
T COG4251 152 LSRTTQEVRRMTGFDRVMLYRFDEDGSGEVIAEAKREDLESYLGLRYPASDIPQQARALYIQNPLRLIPDVSYTPVPVLP 231 (750)
T ss_pred HHHHHHHHHHhcCCceEEEEeecCCCCccEEeccccccchhhhcccCCcccCCHHHHHHHhcCceeecccccCccccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred --CCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEeecCCCCCCChhhHH
Q 001215 300 --DKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFVPFPLRY 377 (1122)
Q Consensus 300 --~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~~pr~~~~~~r~ 377 (1122)
+|.+++|+|||+|.||||||||++||+||||.||||||||+| |+|||||+|||.|||++||++|.
T Consensus 232 avNp~t~~p~DLs~svLRSvSp~H~eYLrNMGV~ASmSISivv~-------------g~LWGLIACHH~sPk~ip~~vR~ 298 (750)
T COG4251 232 AVNPETNEPLDLSYSVLRSVSPIHLEYLRNMGVGASMSISIVVD-------------GKLWGLIACHHQSPKVIPYEVRK 298 (750)
T ss_pred ccCcccCCcccchHHHHhccChHHHHHHHhcCcceeeEEEEEEC-------------CeeEEeeeeccCCCccCCHHHHH
Confidence 589999999999999999999999999999999999999999 99999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhhccCC-CcccccCCcchhhhccCCeEEEEECCeEEEecCCC
Q 001215 378 ACEFLIQVFGVQVNKEVELSAQLREKHILRTQ-TVLCDMLLRDS-PVGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTP 455 (1122)
Q Consensus 378 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~g~al~~~~~~~~~G~~p 455 (1122)
||||+||++|.+|+.+.+.+..-........+ .++..|...++ ..+++...++|++|++||||||+.+|++.++|.||
T Consensus 299 acef~gq~~s~~i~~~e~~~~~d~r~~l~~~~arl~~~ma~~~~~~d~L~~~~~dll~L~~adGaal~fg~~~~~vG~tP 378 (750)
T COG4251 299 ACEFFGQVLSMEISALEQSEDADYRVQLTEHHARLLRYMAHAADFVDGLIDHQDDLLDLMPADGAALCFGGRWHLVGETP 378 (750)
T ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhhhcchhhhhcCCchhhHhhccCCceEEEECCEEEEecCCC
Confidence 99999999999998765533222222222222 35555665555 57888889999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHhccCCCeEEeeccccccCCCCccccccccceEEEEEcCC--CCeEEEeccccceEEeecCCCCCCCC
Q 001215 456 TEEQIKDIAEWLLEYHRGSTGLSTDSLVEAGYPGALALGDAVCGIAAVKITS--KDFLFWFRSHTAKEIKWGGAKHDSGG 533 (1122)
Q Consensus 456 ~~~~~~~l~~~l~~~~~~~~~~~t~~l~~~~~p~~~~~~~~~~g~l~~~i~~--~~~l~wfR~~~~~~v~WaG~p~~~~~ 533 (1122)
+..++..|+.||.++... .+|+||+|+.. ||+++.|+..|||||||+|+. .+||+|||||.++||+|||||+|++.
T Consensus 379 ~~~~v~~Ll~wl~~~~~~-~vf~TdsL~q~-yPda~~~~~vAsGlLAI~is~~~s~~llWFRpEvv~tV~WGG~P~k~~e 456 (750)
T COG4251 379 PRPAVQRLLQWLAEREEG-DVFATDSLSQV-YPDAEDYASVASGLLAIPISRVKSNYLLWFRPEVVQTVNWGGDPEKPYE 456 (750)
T ss_pred ChHHHHHHHHHHhcCCcc-cEEeecccccc-CcchhhhccccceeEEEEeeccccceEEEEchHHheeeccCCCCCCccc
Confidence 999999999999888544 79999999984 999999999999999999997 89999999999999999999999975
Q ss_pred -CCCCCccccCchHHHHHHHhcccccccchhHHHHHHHHHHHHHhhhhhhhhcccceeeeccchhhhHHHHHHHHHHHHH
Q 001215 534 -KDGGRKMHPRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVAEDSKMIVNVPSVDDRIEKIDELRIITNE 612 (1122)
Q Consensus 534 -~~~~~~l~PR~SF~~w~e~v~g~s~pW~~~El~aa~~L~liL~~~l~~~~~~~~~~~~~~r~~~~~~~~~~eL~~~e~~ 612 (1122)
++++.||+||+||+.|+|+|+++|.||+..|++++..|+..+.+..-.- -+++.
T Consensus 457 ~~~~~~rL~PRkSFe~WkE~vRl~s~PWs~~ei~~A~~LR~aiv~ivl~~--------------------aeela----- 511 (750)
T COG4251 457 AGPMGIRLTPRKSFELWKETVRLQSQPWSEVEIEAALELRKAIVGIVLRH--------------------AEELA----- 511 (750)
T ss_pred cCCCCcccCCcccHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHH--------------------HHHHH-----
Confidence 4567899999999999999999999999999999999943333222100 00000
Q ss_pred HHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeC
Q 001215 613 MVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFG 692 (1122)
Q Consensus 613 l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~ 692 (1122)
T Consensus 512 -------------------------------------------------------------------------------- 511 (750)
T COG4251 512 -------------------------------------------------------------------------------- 511 (750)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehh
Q 001215 693 PRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDG 772 (1122)
Q Consensus 693 ~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a 772 (1122)
T Consensus 512 -------------------------------------------------------------------------------- 511 (750)
T COG4251 512 -------------------------------------------------------------------------------- 511 (750)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred HHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCC
Q 001215 773 MEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFGFFDQQGKYVEALLSANKRTNA 852 (1122)
Q Consensus 773 ~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~ 852 (1122)
T Consensus 512 -------------------------------------------------------------------------------- 511 (750)
T COG4251 512 -------------------------------------------------------------------------------- 511 (750)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCC---CCCHHHHHHHHHHH
Q 001215 853 EGKISGILCFLHVASPELQYALQVQRISEQAAANSLNKLEYIRREIRKPLNGIAFMQNLMGTS---DLSEEQKQLLKTSV 929 (1122)
Q Consensus 853 ~G~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~---~l~~~~~~~L~~i~ 929 (1122)
++++..++.+....+|...++|++++||+.|.+++++|... .++++.++++..+.
T Consensus 512 ----------------------~l~r~lersn~el~~f~yv~sHdlqePl~~I~~~a~lL~~~~~~~~d~~~~~~i~~~~ 569 (750)
T COG4251 512 ----------------------QLRRELERSNAELRAFAYVASHDLQEPLRQISNYAQLLSERYSDALDEEAKEFITFIS 569 (750)
T ss_pred ----------------------HHHHHHhhhhHHHHHHHHHhhhhhhHHHHHHHHHHHhhhhccccccChHHHHHHHHHH
Confidence 00111222233334556678999999999999999999654 57889999999999
Q ss_pred HHHHHHHHHHhhh-cccccccccceeeeEEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHH
Q 001215 930 LCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLS 1008 (1122)
Q Consensus 930 ~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~ 1008 (1122)
+....|..||+++ .++++ |.......+.|+.++++.++..+.....+.++++.+.. +| .+.+|+.++.||++
T Consensus 570 ~~~~~~~~lidd~l~~s~l--~~~~~~l~~td~~~vv~~vl~~l~~ri~dtgaei~i~~---lp--~v~~d~~~l~qv~~ 642 (750)
T COG4251 570 RLTSLMQQLIDDLLTYSKL--GLTEAPLQPTDVQKVVDKVLLELSQRIADTGAEIRIAP---LP--VVAADATQLGQVFQ 642 (750)
T ss_pred HHHHHHHHHHHHHhhhhhh--ccccCCCCCcchHHHHHHHHHhcccccccccceEEecc---cc--eeecCHHHHHHHHH
Confidence 9999999999997 99998 56666777999999999999999999999999998765 44 78999999999999
Q ss_pred HHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCC------CCCCCccchHHHH
Q 001215 1009 DFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHS------QGASREGLGLYIS 1082 (1122)
Q Consensus 1009 NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f------~~~~GtGLGL~I~ 1082 (1122)
||+.||+||..+ +.++|+|+....++ .+.|.|.|||+||++.+.+++|..| .++.|+|+||+||
T Consensus 643 NLi~Naik~~~~-e~~~i~I~~~r~ed---------~~t~sV~dng~Gi~~a~~~riF~iFqRl~s~~~y~gtG~GL~I~ 712 (750)
T COG4251 643 NLIANAIKFGGP-ENPDIEISAERQED---------EWTFSVRDNGIGIDPAYFERIFVIFQRLHSRDEYLGTGLGLAIC 712 (750)
T ss_pred HHHhhheecCCC-CCCceEEeeeccCC---------ceEEEecCCCCCcCHHHHHHHHHHHHhcCchhhhcCCCccHHHH
Confidence 999999999975 45799999887777 8899999999999999999999988 4778999999999
Q ss_pred HHHHHHcCcEEEEEecCC-ceEEEEEEEecCCCC
Q 001215 1083 QKLVKLMNGTVQYIREAE-RSSFLILIEFPLAHQ 1115 (1122)
Q Consensus 1083 r~ive~~gG~I~v~s~~g-g~tF~~~l~LP~~~~ 1115 (1122)
|+|++.|+|+||++|.+| |+||.|+ ||....
T Consensus 713 kkI~e~H~G~i~vEs~~gEgsTF~f~--lp~~~~ 744 (750)
T COG4251 713 KKIAERHQGRIWVESTPGEGSTFYFT--LPVGGE 744 (750)
T ss_pred HHHHHHhCceEEEeecCCCceeEEEE--eecCCc
Confidence 999999999999999977 5666664 476554
No 2
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=100.00 E-value=5.5e-51 Score=493.86 Aligned_cols=465 Identities=13% Similarity=0.083 Sum_probs=356.4
Q ss_pred HHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEE
Q 001215 611 NEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRA 690 (1122)
Q Consensus 611 ~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~ 690 (1122)
+.|+.+++++++++|++|.+|+++++|+++++++||++++++|++...+.++.........+...+..+.....++.
T Consensus 4 ~~~~~i~~~~~~~i~~~d~~g~~~~~N~~~~~~~G~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--- 80 (494)
T TIGR02938 4 EAYRQTVDQAPLAISITDLKANILYANDAFTRITGYTKEEIIGKNESVLSNHTTPPEVYQALWGSLAEQKPWAGKLL--- 80 (494)
T ss_pred HHHHHHHHhCCceEEEECCCCcEEEEchhheeecCCCHHHHhCCCchhhcCCCCCHHHHHHHHHHHHhCCcccceee---
Confidence 46899999999999999999999999999999999999999999877776665555444444455544443333322
Q ss_pred eCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeee
Q 001215 691 FGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWN 770 (1122)
Q Consensus 691 ~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N 770 (1122)
..+++|..+|+.....|+++.+|.+.+++++++|||++|++++++++++..++.++++.+. +++++|.+|+++++|
T Consensus 81 -~~~~~g~~~~~~~~~~~~~~~~g~~~~~~~~~~DIt~~k~~e~~l~~~~~~~~~~~~~~~~---~i~~~d~~~~i~~~N 156 (494)
T TIGR02938 81 -NRRKDGELYLAELTVAPVLNEAGETTHFLGMHRDITELHRLEQVVANQKLLIESVVDAAPV---AFVLLDPTGRVILDN 156 (494)
T ss_pred -ccCCCccchhhheeeEEEECCCCCEEEEEEehhhhhHHHHHHHHHHHHHHHHHHHHhcccc---eEEEEcCCCCEEEec
Confidence 2467999999999999999999999999999999999999999999999999999999998 899999999999999
Q ss_pred hhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHh-cCCCcceeEEEEEccCCC-EEEEEEEEee
Q 001215 771 DGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVI-SGQDADKILFGFFDQQGK-YVEALLSANK 848 (1122)
Q Consensus 771 ~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l-~g~~~~~~e~~~~~~dG~-~~~v~~~~~p 848 (1122)
+++++++|+...+..+..+...+ +++... .+.... .+......+..+...+|. .+|+.....+
T Consensus 157 ~~~~~~~g~~~~~~~~~~~~~~~-----------~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 221 (494)
T TIGR02938 157 QEYKKLATDLRVKEPAHTVLDLL-----------REAWRE----ALAENWPQQLAFSNREARFDRGGGRPARWLSCTGSV 221 (494)
T ss_pred hhHHHhhchhhhhHHHHHHHHHh-----------hHHhhh----hhhhcchhhhccccceeeeccCCCceeeEEEecCce
Confidence 99999999998877666532111 112111 111111 111222334455555655 7899888888
Q ss_pred eeCCCCCE---------EEEEEeeecccHHHHHHHHHHHHHHHHH-------HHHHhHHHHHHHhhhhHHHHHHHHHHHh
Q 001215 849 RTNAEGKI---------SGILCFLHVASPELQYALQVQRISEQAA-------ANSLNKLEYIRREIRKPLNGIAFMQNLM 912 (1122)
Q Consensus 849 v~d~~G~i---------~gvv~~l~DITerkq~e~~L~~~ae~~~-------~~k~~fLa~isHELrnPLt~I~g~~~lL 912 (1122)
+.+..|.. .+++++++|||++|+++++++..+.++. ....+++..++|++||||+.|.++++++
T Consensus 222 ~~~~~~~~~~~~~~~~~~~~~~~~~DITe~k~~ee~l~~~al~~~~~~~~~~~~l~~~~~~~~h~lr~pL~~i~~~~~~l 301 (494)
T TIGR02938 222 IGMESDCADSFFCAAEQPYLLLTIADISNLREEQERARLSALQALMAEEERLEAIRETLSAAIHRLQGPMNLISAAISVL 301 (494)
T ss_pred EEeecchhhheeccCCCchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcHHHHHHHHHHHH
Confidence 77666554 3456688999999999987765433221 1223456778899999999999999999
Q ss_pred cCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHHHHHHHHhccccccCCcEEEeecCCCC
Q 001215 913 GTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEV 991 (1122)
Q Consensus 913 ~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~ 991 (1122)
...............+.+...++..++..+ ++.. ........++|+..++++++..++..+..+++.+.++.+...
T Consensus 302 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~~~~dl~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~ 378 (494)
T TIGR02938 302 QRRGDDAGNPASAAMLQQALSAGREHMEALRQVIP---QSPQEIVVPVNLNQILRDVITLSTPRLLAAGIVVDWQPAATL 378 (494)
T ss_pred HhccccccCHHHHHHHHHHHHHHHHHHHHHHHhhc---cCcccccccccHHHHHHHHHHHhHHHHHhCCCEEEEecCCCC
Confidence 765333222333333344444444444444 3322 223445678999999999999999988899999999998887
Q ss_pred cceEEEecHHHHHHHHHHHHHHHhhcCCCCC--CCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCC
Q 001215 992 STMNLHGDKLRLQQVLSDFLTNALIFTPAFE--GSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHS 1069 (1122)
Q Consensus 992 ~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~--g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f 1069 (1122)
+ .+.+|+.+|+|||.||++||+||++... .+.|.|++...++ .+.|+|+|||+|||++.+.++|+||
T Consensus 379 ~--~v~~d~~~l~~vl~Nl~~NAik~~~~~~~~~~~i~i~~~~~~~---------~~~~~V~D~G~Gi~~~~~~~iF~~f 447 (494)
T TIGR02938 379 P--AILGRELQLRSLFKALVDNAIEAMNIKGWKRRELSITTALNGD---------LIVVSILDSGPGIPQDLRYKVFEPF 447 (494)
T ss_pred C--eeecCHHHHHHHHHHHHHHHHHHhhccCCCcceEEEEEEecCC---------EEEEEEEeCCCCCCHHHHHHhcCCC
Confidence 6 6889999999999999999999997421 1357777666655 8899999999999999999999998
Q ss_pred C-----CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecC
Q 001215 1070 Q-----GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPL 1112 (1122)
Q Consensus 1070 ~-----~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~ 1112 (1122)
. ..+|+||||+|||+||+.|||+|+++|.+++|| +|++.||+
T Consensus 448 ~~~~~~~~~G~GlGL~i~~~iv~~~gG~i~~~s~~~~G~-~f~i~lp~ 494 (494)
T TIGR02938 448 FTTKGGSRKHIGMGLSVAQEIVADHGGIIDLDDDYSEGC-RIIVEFRV 494 (494)
T ss_pred cccCCCCCCCCcccHHHHHHHHHHcCCEEEEEECCCCCE-EEEEEecC
Confidence 3 236999999999999999999999999999766 66667774
No 3
>PRK13560 hypothetical protein; Provisional
Probab=100.00 E-value=1.5e-49 Score=511.54 Aligned_cols=484 Identities=15% Similarity=0.146 Sum_probs=377.8
Q ss_pred eeccchhhhHHHHHHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHH
Q 001215 591 VNVPSVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKN 670 (1122)
Q Consensus 591 ~~~r~~~~~~~~~~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~ 670 (1122)
...+|++++++++++|++++++|+.+++++|+++|++|.+|+++++|+++++++||+.++++|+++.++.++...+.+..
T Consensus 184 g~~~DIT~rk~ae~~l~~~~~~l~~l~e~~~~~i~~~d~~g~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~ 263 (807)
T PRK13560 184 GFAEDITERKRAEERIDEALHFLQQLLDNIADPAFWKDEDAKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQE 263 (807)
T ss_pred EEEEccchHHHHHHHHHHHHHHHHHHHhhCCCeEEEEcCCCCEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHHHHH
Confidence 35678999999999999999999999999999999999999999999999999999999999999999988777666655
Q ss_pred HHHHHHcCCcceeEEEEEEEeCCCCCCCeEEEEE--EEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhhc
Q 001215 671 MLSSAFLGIEERNVEIKLRAFGPRETSGPVILVV--NACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIVS 748 (1122)
Q Consensus 671 ~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v~v--~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~e 748 (1122)
.....+..+....++..++ ++||..+|+.+ +..+..|.+|.+.|++++++|||++|++|++|++++++|+.+++
T Consensus 264 ~~~~~~~~~~~~~~e~~~~----~~dG~~~~~~~~~~~~~~~~~~g~~~g~~~~~~DITerk~~e~~L~~se~~l~~l~~ 339 (807)
T PRK13560 264 ADAAKFDADGSQIIEAEFQ----NKDGRTRPVDVIFNHAEFDDKENHCAGLVGAITDISGRRAAERELLEKEDMLRAIIE 339 (807)
T ss_pred HHHHHhccCCceEEEEEEE----cCCCCEEEEEEEecceEEEcCCCCEEEEEEEEEechHHHHHHHHHHHHHHHHHHHHH
Confidence 5555555544444444443 67999986554 55677899999999999999999999999999999999999999
Q ss_pred CCCCCCCCeEEecCCCCeeee-ehhHHHhcCCChHHHhhhhcccccc---------------c-----------------
Q 001215 749 SPSALIPPIFMTDEDGRCLEW-NDGMEKLSGLKREEAIERMLIGEVF---------------T----------------- 795 (1122)
Q Consensus 749 ~~~~li~~I~~~D~dg~ii~~-N~a~~~l~G~~~eeliGk~l~~~i~---------------~----------------- 795 (1122)
+++. +|+.+|.+|+++++ |+++++++||+.++++|+++.+... +
T Consensus 340 ~~~~---~i~~~d~~g~i~~~nn~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 416 (807)
T PRK13560 340 AAPI---AAIGLDADGNICFVNNNAAERMLGWSAAEVMGKPLPGMDPELNEEFWCGDFQEWYPDGRPMAFDACPMAKTIK 416 (807)
T ss_pred hCcc---cEEEEcCCCCEEEecCHHHHHHhCCCHHHHcCCCccccChhhhhhhhhchhhhcCCcCCcchhhhhhHHHHHh
Confidence 9998 89999999999987 5778889999999999875421100 0
Q ss_pred cc------------------------------------------------------------------------------
Q 001215 796 VK------------------------------------------------------------------------------ 797 (1122)
Q Consensus 796 ~~------------------------------------------------------------------------------ 797 (1122)
..
T Consensus 417 ~~~~~~~~e~~~~~~~g~~~~~~~~~~p~~d~~g~~~~~~~~~~DITerk~~E~~L~~~~~~~e~~~~~i~~~~~~~~~~ 496 (807)
T PRK13560 417 GGKIFDGQEVLIEREDDGPADCSAYAEPLHDADGNIIGAIALLVDITERKQVEEQLLLANLIVENSPLVLFRWKAEEGWP 496 (807)
T ss_pred cCCcccCceEEEEcCCCCeEEEEEEEeeeECCCCCEEEEEEEeehhhhHHHHHHHHHHHHHHHhcCCceEEEEecCCCce
Confidence 00
Q ss_pred ----------------------cccccccCcchHHHHHHHHHHHhc-CCCcceeEEEEEccCCCEEEEEEEEeeeeCCCC
Q 001215 798 ----------------------NFGCRVKNHDTLTKLRIVMNKVIS-GQDADKILFGFFDQQGKYVEALLSANKRTNAEG 854 (1122)
Q Consensus 798 ----------------------~~~~~l~~~d~~~~~~~~l~~~l~-g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G 854 (1122)
..+..+.+|++...+...+..... +......++++.+++|.++|+.....|+.|.+|
T Consensus 497 ~~~~~~~~~~~G~~~~e~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~g~~~~~~e~r~~~~dG~~~w~~~~~~~~~d~~G 576 (807)
T PRK13560 497 VELVSKNITQFGYEPDEFISGKRMFAAIIHPADLEQVAAEVAEFAAQGVDRFEQEYRILGKGGAVCWIDDQSAAERDEEG 576 (807)
T ss_pred EEEecchhhhcCCCHHHhhcccchHhhhcChhhHHHHHHHHHHHHhcCCccceeEEEEEcCCCCEEEEEecceeeeCCCC
Confidence 000011223333333333333333 234467788999999999999999999999999
Q ss_pred CEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Q 001215 855 KISGILCFLHVASPELQYALQVQRISEQAAANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQ 934 (1122)
Q Consensus 855 ~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~r 934 (1122)
.+.+++++++|||++|++|+++++.. ..+..|++.|+|||||||++|.++++++.....++....++..+......
T Consensus 577 ~~~~~~g~~~DITerK~aE~~L~~a~----~~~~~~l~~isHelrnpL~~I~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 652 (807)
T PRK13560 577 QISHFEGIVIDISERKHAEEKIKAAL----TEKEVLLKEIHHRVKNNLQIISSLLDLQAEKLHDEEAKCAFAESQDRICA 652 (807)
T ss_pred CEEEEEEEEechHHHHHHHHHHHHHH----HHHHHHHHHhHHHHhChHHHHHHHHHHhhhhcCCHHHHHHHHHHHHHHHH
Confidence 99999999999999999998876543 34778999999999999999999999988777777777777776666666
Q ss_pred HHHHHhhhcccccccccceeeeEEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHH
Q 001215 935 LTNIVDDTDIESIEECYMVLKSGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNA 1014 (1122)
Q Consensus 935 l~~iI~dLd~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NA 1014 (1122)
+..+++.+.. ......+++.+++++++..+...+......+.+.++.+.+. ....+...+.|||.||++||
T Consensus 653 ~~~~~~~l~~--------~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~il~NLl~NA 723 (807)
T PRK13560 653 MALAHEKLYQ--------SEDLADIDFLDYIESLTAHLKNSFAIDFGRIDCKIDADDGC-LDIDKAIPCGLIISELLSNA 723 (807)
T ss_pred HHHHHHHHhc--------cccchhccHHHHHHHHHHHHHHHhccccCceEEEEecCccc-cccccccchHHHHHHHHHHH
Confidence 6655555411 12346789999999999988877666655555555444322 23345677899999999999
Q ss_pred hhcCCCC-CCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCCCCCCccchHHHHHHHHHHcCcEE
Q 001215 1015 LIFTPAF-EGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQGASREGLGLYISQKLVKLMNGTV 1093 (1122)
Q Consensus 1015 ik~t~~~-~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~~~~GtGLGL~I~r~ive~~gG~I 1093 (1122)
+||+.+. ..+.|.|++....+ .++.|+|+|||+|||++.. ...++||||+|||+||++|||+|
T Consensus 724 ik~~~~~~~~~~i~i~~~~~~~--------~~v~i~V~D~G~GI~~~~~--------~~~~~gLGLai~~~iv~~~gG~I 787 (807)
T PRK13560 724 LKHAFPDGAAGNIKVEIREQGD--------GMVNLCVADDGIGLPAGFD--------FRAAETLGLQLVCALVKQLDGEI 787 (807)
T ss_pred HHhhccCCCCceEEEEEEEcCC--------CEEEEEEEeCCCcCCcccc--------ccccCCccHHHHHHHHHHcCCEE
Confidence 9998542 23578888776522 1799999999999999732 33577899999999999999999
Q ss_pred EEEecCCceEEEEEEEecCC
Q 001215 1094 QYIREAERSSFLILIEFPLA 1113 (1122)
Q Consensus 1094 ~v~s~~gg~tF~~~l~LP~~ 1113 (1122)
+++|+ +|+||+|+| |+.
T Consensus 788 ~v~S~-~Gt~F~i~l--P~~ 804 (807)
T PRK13560 788 ALDSR-GGARFNIRF--PMS 804 (807)
T ss_pred EEEcC-CceEEEEEe--cCC
Confidence 99995 456655555 654
No 4
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=100.00 E-value=6e-45 Score=466.13 Aligned_cols=359 Identities=21% Similarity=0.303 Sum_probs=322.3
Q ss_pred EcchhhHHHHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccc
Q 001215 724 QDITGQKLVMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRV 803 (1122)
Q Consensus 724 ~DITerK~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l 803 (1122)
++|+++++++++++++++.++.+++++++ +|++.|.+|++++||+++++++|++.++++|+... ++
T Consensus 138 ~~i~~r~~~~~~l~~~~~~l~~il~~~~~---~i~~~D~~g~i~~~N~a~~~l~G~~~~eliG~~~~-----------~l 203 (779)
T PRK11091 138 NEIKEREETQIELEQQSSLLRSFLDASPD---LVYYRNEDGEFSGCNRAMELLTGKSEKQLIGLTPK-----------DV 203 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCcc---eEEEECCCCcEEeEcHHHHHHhCcCHHHHcCCChH-----------Hh
Confidence 68999999999999999999999999999 89999999999999999999999999999998753 33
Q ss_pred cCcchHHHHHHHHHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHH
Q 001215 804 KNHDTLTKLRIVMNKVISGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQA 883 (1122)
Q Consensus 804 ~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~ 883 (1122)
.+++....+.......+.++.....+..+..++|+.+|+.++..|+.+.+|...|++++++|||+++++++++++.
T Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~pi~~~~g~~~g~v~~~~DITe~k~~e~~l~~a---- 279 (779)
T PRK11091 204 YSPEAAEKVIETDEKVFRHNVSLTYEQWLDYPDGRKACFELRKVPFYDRVGKRHGLMGFGRDITERKRYQDALEKA---- 279 (779)
T ss_pred CCHHHHHHHHHHHHHHHhcCCCeEEEEEEEcCCCCEEEEEEEeeeEEcCCCCEEEEEEEEeehhHHHHHHHHHHHH----
Confidence 3455566666667777788888888999999999999999999999999999999999999999999998776544
Q ss_pred HHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehH
Q 001215 884 AANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLG 962 (1122)
Q Consensus 884 ~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~ 962 (1122)
.+.+.+|++.|+|||||||++|.|+.+++.....+++++++++.+..+++++..+++++ ++++++.++..+++.++++.
T Consensus 280 ~~~~~~~~a~isHelrtPL~~I~g~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~~~~~~~~~~~~~~~~l~ 359 (779)
T PRK11091 280 SRDKTTFISTISHELRTPLNGIVGLSRILLDTELTAEQRKYLKTIHVSAITLGNIFNDIIDMDKMERRKLQLDNQPIDFT 359 (779)
T ss_pred HHHHHHHHHHhhHhhcCcHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHhCCCcEEEeeccCHH
Confidence 34678899999999999999999999999888889999999999999999999999997 99999999999999999999
Q ss_pred HHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEec-ccccCccc
Q 001215 963 EALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQ-KERIGKNI 1041 (1122)
Q Consensus 963 ~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~-~~~~~~~~ 1041 (1122)
++++++...+...+..+++.+.+++++++|. .+.+|+.+|.|||.||+.||+||++ +| .|.|++... ++
T Consensus 360 ~~i~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~v~~d~~~l~qvl~NLl~NAik~~~--~g-~v~i~~~~~~~~------ 429 (779)
T PRK11091 360 DFLADLENLSGLQAEQKGLRFDLEPLLPLPH-KVITDGTRLRQILWNLISNAVKFTQ--QG-GVTVRVRYEEGD------ 429 (779)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEEeCCCCCc-eEEeCHHHHHHHHHHHHHHHHHhCC--CC-cEEEEEEEccCC------
Confidence 9999999999999999999999998887764 6899999999999999999999997 34 788888776 33
Q ss_pred eeEEEEEEEEcCCCCCChhhhhhhcCCCCC---------CCCccchHHHHHHHHHHcCcEEEEEecCCc-eEEEEEEEec
Q 001215 1042 HIVHLEFRITHPAPGIPEKLIHDMFYHSQG---------ASREGLGLYISQKLVKLMNGTVQYIREAER-SSFLILIEFP 1111 (1122)
Q Consensus 1042 ~~~~v~~~V~D~G~GI~~e~~~~iF~~f~~---------~~GtGLGL~I~r~ive~~gG~I~v~s~~gg-~tF~~~l~LP 1111 (1122)
.+.|+|.|+|+|||++.++++|+||.. .+|+||||+|||++|+.|||+|+++|.+|+ ++|+|++|+|
T Consensus 430 ---~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~~~~GtGLGL~i~~~iv~~~gG~i~v~s~~g~Gt~f~i~lP~~ 506 (779)
T PRK11091 430 ---MLTFEVEDSGIGIPEDELDKIFAMYYQVKDSHGGKPATGTGIGLAVSKRLAQAMGGDITVTSEEGKGSCFTLTIHAP 506 (779)
T ss_pred ---EEEEEEEecCCCCCHHHHHHHHHHhhcccCCCCCCCCCCcchHHHHHHHHHHHcCCEEEEEecCCCeEEEEEEEecc
Confidence 699999999999999999999999832 469999999999999999999999999885 5666666665
Q ss_pred CC
Q 001215 1112 LA 1113 (1122)
Q Consensus 1112 ~~ 1113 (1122)
..
T Consensus 507 ~~ 508 (779)
T PRK11091 507 AV 508 (779)
T ss_pred cc
Confidence 54
No 5
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=100.00 E-value=1.5e-42 Score=367.59 Aligned_cols=347 Identities=18% Similarity=0.336 Sum_probs=288.7
Q ss_pred EcchhhH-HHHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhcccccccccccccc
Q 001215 724 QDITGQK-LVMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCR 802 (1122)
Q Consensus 724 ~DITerK-~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~ 802 (1122)
-|.|++. .+++.++....++..++..+.+ |++.+|..|+|+.+|..+.+++|.+.++++|+.... ++..
T Consensus 93 n~Lt~~~~~aq~n~e~Er~kL~SvlayMtD---GViATdRrG~iI~iN~~A~k~L~~~~E~~~~~~i~e-lL~i------ 162 (459)
T COG5002 93 NDLTKRVQEAQANTEQERRKLDSVLAYMTD---GVIATDRRGKIILINKPALKMLGVSKEDALGRSILE-LLKI------ 162 (459)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHcC---ceEeecCCCcEEEeccHHHHHhCcCHHHHhcccHHH-HhCC------
Confidence 3455443 4455566667788899998888 999999999999999999999999999999997632 1111
Q ss_pred ccCcchHHHHHHHHHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHH
Q 001215 803 VKNHDTLTKLRIVMNKVISGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQ 882 (1122)
Q Consensus 803 l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~ 882 (1122)
.+.. .++..+....... ....+ .++..-..+..+-+..+.|-+.|++.+++|+||+.+.|++
T Consensus 163 ---~d~y-----~~~dL~e~~~s~l--ld~~~-~~E~~~lrv~Fs~i~rEsGfisGlIaVlhDvTEqek~e~E------- 224 (459)
T COG5002 163 ---EDTY-----TFEDLVEKNDSLL--LDSSD-EEEGYVLRVNFSVIQRESGFISGLIAVLHDVTEQEKVERE------- 224 (459)
T ss_pred ---ccce-----eHHHHHhcCCcEE--EeecC-CCccEEEEEEEEEEeecccccceeEEEEecccHHHHHHHH-------
Confidence 1111 1233333333322 22333 7788888888888999999999999999999987766654
Q ss_pred HHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHH--HHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEe
Q 001215 883 AAANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEE--QKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEF 959 (1122)
Q Consensus 883 ~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~--~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~ 959 (1122)
+..|.+++|||+||||+++.++++.|+.....+. ...++....+..+||.++++|| .++|++.....++.+.+
T Consensus 225 ----rRefvanvSHElRTPltsmksyLEALe~ga~~d~eiAp~Fl~vt~~ETeRMiRlV~DLl~lsr~d~~~~qln~e~i 300 (459)
T COG5002 225 ----RREFVANVSHELRTPLTSMKSYLEALEEGAWEDKEIAPRFLRVTLNETERMIRLVNDLLQLSRMDNARYQLNKEWI 300 (459)
T ss_pred ----HHHHHHhcchhhcCchHHHHHHHHHHhcCCccChhhhhHHHHHhHHHHHHHHHHHHHHHHHccCcchhhhhhHHHH
Confidence 5679999999999999999999999998866555 7899999999999999999997 99999999999999999
Q ss_pred ehHHHHHHHHHHhccccccCCcE-EEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccC
Q 001215 960 NLGEALDAVMTQVMIPSREHQVQ-FIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIG 1038 (1122)
Q Consensus 960 dL~~vi~~v~~~~~~~~~~~~i~-l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~ 1038 (1122)
++...+..++..+...+....+. +..++|.. ++++..|+.++.||+-|+|+||+||+| +||.|+|++...++
T Consensus 301 nft~fl~~ii~R~e~~~~~e~~~~~vR~~p~~--~~~veiD~DK~tQVldNii~NA~KYsP--~Gg~Itv~~~~~~~--- 373 (459)
T COG5002 301 NFTAFLNEIINRFEMILKKETIARFVRDIPKQ--DIWVEIDPDKMTQVLDNIISNALKYSP--DGGRITVSVKQRET--- 373 (459)
T ss_pred HhHHHHHHHHHHHHHHHhhHHHHHHHhcCCCC--ceEEEeChhHHHHHHHHHHHHHhhcCC--CCCeEEEEEeeeCc---
Confidence 99999999999998886665555 67778876 359999999999999999999999999 68899999998777
Q ss_pred ccceeEEEEEEEEcCCCCCChhhhhhhcCCC--------CCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEe
Q 001215 1039 KNIHIVHLEFRITHPAPGIPEKLIHDMFYHS--------QGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEF 1110 (1122)
Q Consensus 1039 ~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f--------~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~L 1110 (1122)
+++++|.|+|.|||.+.++++|++| ++.+||||||+|+|.||+.|||.||.+|+.|+|| +|++.|
T Consensus 374 ------~v~iSI~D~G~gIPk~d~~~iFdrfyRvdkARsR~~gGTGLGLaIakeiV~~hgG~iWA~s~~gkgt-t~~ftL 446 (459)
T COG5002 374 ------WVEISISDQGLGIPKEDLEKIFDRFYRVDKARSRKMGGTGLGLAIAKEIVQAHGGRIWAESEEGKGT-TFSFTL 446 (459)
T ss_pred ------EEEEEEccCCCCCCchhHHHHHHHHhhhhhhhhhcCCCCchhHHHHHHHHHHhCCeEEEecccCCce-EEEEEe
Confidence 9999999999999999999999998 3778999999999999999999999999988665 566666
Q ss_pred cCCCCC
Q 001215 1111 PLAHQK 1116 (1122)
Q Consensus 1111 P~~~~~ 1116 (1122)
|.....
T Consensus 447 Py~~~~ 452 (459)
T COG5002 447 PYSGEA 452 (459)
T ss_pred cccCcc
Confidence 875443
No 6
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=100.00 E-value=1e-36 Score=363.62 Aligned_cols=338 Identities=16% Similarity=0.194 Sum_probs=269.4
Q ss_pred EEEEcchhhHHHHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhcccccccccccc
Q 001215 721 FVGQDITGQKLVMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFG 800 (1122)
Q Consensus 721 ~v~~DITerK~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~ 800 (1122)
.+.+++++.++.++++++.+++|+.+++++++ +|+++|.+|+|+++|+++++++|++.++++|+++.. ++.
T Consensus 78 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~---~i~~~d~~g~i~~~N~~a~~l~g~~~~~~~g~~~~~-~~~----- 148 (430)
T PRK11006 78 GLYQMQLRNRKRRRELGNLIKRFRSGAESLPD---AVVLTTEEGNIFWCNGLAQQLLGFRWPEDNGQNILN-LLR----- 148 (430)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC---eEEEEcCCCceeHHHHHHHHHhCCCChHhCCCcHHH-Hhc-----
Confidence 44578899999999999999999999999999 899999999999999999999999999999987531 111
Q ss_pred ccccCcchHHHHHHHHHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHH
Q 001215 801 CRVKNHDTLTKLRIVMNKVISGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRIS 880 (1122)
Q Consensus 801 ~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~a 880 (1122)
+.+. ...+ .... ......+...+|+.+. +...|.. ++ +++.+++|||++++.++.
T Consensus 149 -----~~~~---~~~~----~~~~-~~~~~~~~~~~~~~~~--~~~~~~~--~~---~~~~~~~dit~~~~~e~~----- 203 (430)
T PRK11006 149 -----YPEF---TQYL----KTRD-FSRPLTLVLNNGRHLE--IRVMPYT--EG---QLLMVARDVTQMHQLEGA----- 203 (430)
T ss_pred -----CHHH---HHHH----Hhcc-cCCCeEEEcCCCCEEE--EEEEEcC--CC---cEEEEEehhhHHHHHHHH-----
Confidence 1111 1111 1111 1122334456666544 4444543 22 256789999987766533
Q ss_pred HHHHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEE
Q 001215 881 EQAAANSLNKLEYIRREIRKPLNGIAFMQNLMGTSD-LSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGE 958 (1122)
Q Consensus 881 e~~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~-l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~ 958 (1122)
+.+|++.++|||||||++|.++++++.... ..+...++++.+.+.+++|..+++++ ++++++.+........
T Consensus 204 ------~~~~~~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~r~~~~~~~~~~~~ 277 (430)
T PRK11006 204 ------RRNFFANVSHELRTPLTVLQGYLEMMQDQPLEGALREKALHTMREQTQRMEGLVKQLLTLSKIEAAPTIDLNEK 277 (430)
T ss_pred ------HHHHHHHhHHHhcchHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccCCc
Confidence 346899999999999999999999987654 34567788999999999999999997 9999988776666788
Q ss_pred eehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccC
Q 001215 959 FNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIG 1038 (1122)
Q Consensus 959 ~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~ 1038 (1122)
+++..+++.+........ .+++.+.+++++++ .+.+|+.+|.|||.||+.||+||++ +++.|.|++...++
T Consensus 278 ~~~~~~~~~l~~~~~~~~-~~~~~i~~~~~~~~---~i~~d~~~l~~vl~NLl~NAik~~~--~~~~I~i~~~~~~~--- 348 (430)
T PRK11006 278 VDVPMMLRVLEREAQTLS-QGKHTITFEVDNSL---KVFGNEDQLRSAISNLVYNAVNHTP--EGTHITVRWQRVPQ--- 348 (430)
T ss_pred cCHHHHHHHHHHHHHHHh-cCCcEEEEecCCCc---eEEECHHHHHHHHHHHHHHHHhcCC--CCCeEEEEEEEcCC---
Confidence 999999988777665554 67788888887764 6889999999999999999999998 46689998877666
Q ss_pred ccceeEEEEEEEEcCCCCCChhhhhhhcCCCC--------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEe
Q 001215 1039 KNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ--------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEF 1110 (1122)
Q Consensus 1039 ~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~--------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~L 1110 (1122)
.+.|+|.|||+|||++.++++|+||. +.+|+||||+|||++++.|||+|+++|.+++|| +|++.|
T Consensus 349 ------~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~~G~GLGL~ivk~iv~~~gG~i~i~s~~~~Gt-~f~i~l 421 (430)
T PRK11006 349 ------GAEFSVEDNGPGIAPEHIPRLTERFYRVDKARSRQTGGSGLGLAIVKHALSHHDSRLEIESEVGKGT-RFSFVL 421 (430)
T ss_pred ------EEEEEEEEcCCCCCHHHHHHhccCcccccCCCCCCCCCCchHHHHHHHHHHHCCCEEEEEecCCCce-EEEEEe
Confidence 78999999999999999999999983 235899999999999999999999999988665 667777
Q ss_pred cCCC
Q 001215 1111 PLAH 1114 (1122)
Q Consensus 1111 P~~~ 1114 (1122)
|...
T Consensus 422 P~~~ 425 (430)
T PRK11006 422 PERL 425 (430)
T ss_pred chHh
Confidence 8643
No 7
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=100.00 E-value=3.1e-36 Score=316.40 Aligned_cols=340 Identities=20% Similarity=0.275 Sum_probs=266.6
Q ss_pred hhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCC-
Q 001215 745 GIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQ- 823 (1122)
Q Consensus 745 ~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~- 823 (1122)
.++++... ++++.|.+|.|.|+|++++.+||.+...+.+..+ .++++. .......+.+.....
T Consensus 11 ~~Ln~~~~---pVl~vd~~~~i~yaN~aAe~~~~~Sa~~L~~~~l-~~l~~~------------gs~ll~ll~q~~~~~~ 74 (363)
T COG3852 11 AILNNLIN---PVLLVDDELAIHYANPAAEQLLAVSARRLAGTRL-SELLPF------------GSLLLSLLDQVLERGQ 74 (363)
T ss_pred hHHhccCC---ceEEEcCCCcEEecCHHHHHHHHHHHHHHhcCCh-HHHcCC------------CcHHHHHHHHHHHhcC
Confidence 45666666 8999999999999999999999999988888765 333332 112445556655443
Q ss_pred CcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhHHH
Q 001215 824 DADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQAAANSLNKLEYIRREIRKPLN 903 (1122)
Q Consensus 824 ~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~fLa~isHELrnPLt 903 (1122)
...+++..+. .+|....+.+.+.|+....|.+ +..++-+....+..+++.+.+.+. .-.....+++|||||||.
T Consensus 75 ~~~~~~v~l~-~~g~~~~v~~~v~~v~~~~G~v---lle~~~~~~~~ridre~~q~a~~~--a~~~L~r~LAHEIKNPL~ 148 (363)
T COG3852 75 PVTEYEVTLV-ILGRSHIVDLTVAPVPEEPGSV---LLEFHPRDMQRRLDREQTQHAQQR--AVKGLVRGLAHEIKNPLG 148 (363)
T ss_pred Ccccceeeee-ecCccceEEEEEeeccCCCCeE---EEEechhHHHhHhhHHHHHHHHHH--HHHHHHHHHHHHhcCccc
Confidence 3455666665 8999999999999998777764 355555555444444433322221 222345789999999999
Q ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhhcccccccccceeeeEEeehHHHHHHHHHHhccccccCCcEE
Q 001215 904 GIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDTDIESIEECYMVLKSGEFNLGEALDAVMTQVMIPSREHQVQF 983 (1122)
Q Consensus 904 ~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dLd~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~~~i~l 983 (1122)
+|.|.++||+....++..+++.+.|.+.++|+..+++.|.+.. .....+..++++.++++.|...+...+ ..++.+
T Consensus 149 GiRGAAQLLe~~lpd~~~~~lt~lIieE~DRl~~LVDRme~~~---~~rp~~r~~~NIH~VLerV~~lv~~e~-~~~i~l 224 (363)
T COG3852 149 GIRGAAQLLERALPDEALRELTQLIIEEADRLRNLVDRLEVLG---PQRPGDRVPVNIHEVLERVRALVEAEF-ADNVRL 224 (363)
T ss_pred chhhHHHHHHhhCCChHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCCcccccchHHHHHHHHHHHHhccc-CCceEE
Confidence 9999999999987777789999999999999999999984433 244566779999999999999999888 679999
Q ss_pred EeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCC--CCCCeEEEEEEecccc-cCccceeEEEEEEEEcCCCCCChh
Q 001215 984 IRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPA--FEGSSIAFRVIPQKER-IGKNIHIVHLEFRITHPAPGIPEK 1060 (1122)
Q Consensus 984 ~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~--~~g~~I~I~v~~~~~~-~~~~~~~~~v~~~V~D~G~GI~~e 1060 (1122)
..+.++.+| .+++|+.+|.|+|.||+.||.++... ..+|.|.++.+..... ..+.-....+.+.|.|||+|||++
T Consensus 225 ~rdYDPSLP--~v~~d~DqliQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~~i~g~r~rl~l~leViDNGPGVP~~ 302 (363)
T COG3852 225 IRDYDPSLP--EVLGDRDQLIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQLTIAGTRYRLALPLEVIDNGPGVPPD 302 (363)
T ss_pred eecCCCCCc--cccCCHHHHHHHHHHHHHHHHHHhcCCCCCCceEEEEeccceEEEccCceeEeeeeeEEecCCCCCChH
Confidence 999999999 68999999999999999999998753 2447888887554331 222224456778899999999999
Q ss_pred hhhhhcCCC--CCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCC
Q 001215 1061 LIHDMFYHS--QGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1061 ~~~~iF~~f--~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
.++++|.|| .+.+|+||||+|++++|..|||.|.++|.||.++|++. ||..+
T Consensus 303 L~~~lF~P~Vs~r~~GsGLGLala~~li~qH~G~Ie~~S~Pg~T~Frvl--lP~~~ 356 (363)
T COG3852 303 LQDHLFYPMVSGREGGTGLGLALAQNLIDQHGGKIEFDSWPGRTVFRVL--LPIRK 356 (363)
T ss_pred HhhhccccccccCCCCccccHHHHHHHHHhcCCEEEEeccCCceEEEEE--eeccc
Confidence 999999998 68899999999999999999999999999999887664 46655
No 8
>PRK13557 histidine kinase; Provisional
Probab=100.00 E-value=7.4e-35 Score=357.60 Aligned_cols=355 Identities=14% Similarity=0.119 Sum_probs=281.3
Q ss_pred HHHHhHhhhhhhhhcCCCCCCCCeEEecC---CCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHH
Q 001215 734 DKYTRIQGDYVGIVSSPSALIPPIFMTDE---DGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLT 810 (1122)
Q Consensus 734 ~~L~~se~~l~~l~e~~~~li~~I~~~D~---dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~ 810 (1122)
+.....+..|+.++++.+. +|+++|. +|+|+++|+++++++||+.++++|+++. .+.+++...
T Consensus 23 ~~~~~~~~~~~~~~~~~~~---~i~v~d~~~~~g~i~~~N~a~~~~~G~~~~e~~g~~~~-----------~l~~~~~~~ 88 (540)
T PRK13557 23 DVSDHRSDIFFAAVETTRM---PMIVTDPNQPDNPIVFANRAFLEMTGYAAEEIIGNNCR-----------FLQGPETDR 88 (540)
T ss_pred hhhhhhhHHHHHHHHhCcC---cEEEEcCCCCCCCEEEEcHHHHHHhCCCHHHhcCCChH-----------hhcCCCCCH
Confidence 3344557789999999988 8999995 7899999999999999999999999752 233344444
Q ss_pred HHHHHHHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHhH
Q 001215 811 KLRIVMNKVISGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQAAANSLNK 890 (1122)
Q Consensus 811 ~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~f 890 (1122)
.....+...+..+.....++...+++|+.+|+.++..|+.+.+|.+++++++.+|||+++++++++++..+.. ....+
T Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~i~~~~g~~~~~~~~~~dit~~~~~e~~l~~~~~~~--~l~~~ 166 (540)
T PRK13557 89 ATVAEVRDAIAERREIATEILNYRKDGSSFWNALFVSPVYNDAGDLVYFFGSQLDVSRRRDAEDALRQAQKME--ALGQL 166 (540)
T ss_pred HHHHHHHHHHHcCCCceEEEEEEeCCCCEEEEEEEEEEeECCCCCEEEEEEEecChHHHHHHHHHHHHHHHHH--Hhhhh
Confidence 4555566666666666778888899999999999999999999999999999999999999888776544332 23456
Q ss_pred HHHHHHhhhhHHHHHHHHHHHhcCC-----CCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHH
Q 001215 891 LEYIRREIRKPLNGIAFMQNLMGTS-----DLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEA 964 (1122)
Q Consensus 891 La~isHELrnPLt~I~g~~~lL~~~-----~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~v 964 (1122)
++.++|++||||+.|.++++++... .......+.++.+...++++..+++++ ++++.. ......+++..+
T Consensus 167 ~~~i~h~l~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~li~~l~~~~~~~----~~~~~~~~l~~~ 242 (540)
T PRK13557 167 TGGIAHDFNNLLQVMSGYLDVIQAALSHPDADRGRMARSVENIRAAAERAATLTQQLLAFARKQ----RLEGRVLNLNGL 242 (540)
T ss_pred hhhhhHHhhhHHHHHHhHHHHHHHhhccCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcC----CCCCcccCHHHH
Confidence 7889999999999999999887432 234566788999999999999999997 777642 345677999999
Q ss_pred HHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCc-----
Q 001215 965 LDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGK----- 1039 (1122)
Q Consensus 965 i~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~----- 1039 (1122)
++.+...+.... .+++.+.+.+++..+ .+.+|+.+|.|+|.||+.||++|++ .++.|.|++.........
T Consensus 243 i~~~~~~~~~~~-~~~~~i~~~~~~~~~--~~~~d~~~l~~vl~nll~NA~~~~~--~~~~i~i~~~~~~~~~~~~~~~~ 317 (540)
T PRK13557 243 VSGMGELAERTL-GDAVTIETDLAPDLW--NCRIDPTQAEVALLNVLINARDAMP--EGGRVTIRTRNVEIEDEDLAMYH 317 (540)
T ss_pred HHHHHHHHHHhc-CCCeEEEEecCCCCC--ceeeCHHHHHHHHHHHHHHHHHhcc--cCCeEEEEEeeeccCcccccccc
Confidence 999887765433 467888888877765 6888999999999999999999998 456787776532210000
Q ss_pred -cceeEEEEEEEEcCCCCCChhhhhhhcCCCC----CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCC
Q 001215 1040 -NIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ----GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1040 -~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~----~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
......+.|+|.|||+|||++.+.++|+||. ...|+||||+|||++++.|||+|+++|.+++|+ +|++.||..+
T Consensus 318 ~~~~~~~~~i~v~D~G~Gi~~~~~~~if~~~~~~~~~~~g~GlGL~i~~~~v~~~gG~i~~~s~~~~G~-~f~i~lP~~~ 396 (540)
T PRK13557 318 GLPPGRYVSIAVTDTGSGMPPEILARVMDPFFTTKEEGKGTGLGLSMVYGFAKQSGGAVRIYSEVGEGT-TVRLYFPASD 396 (540)
T ss_pred CCCCCCEEEEEEEcCCCCCCHHHHHhccCCCcccCCCCCCCCccHHHHHHHHHHCCCEEEEEecCCCce-EEEEEeeCCC
Confidence 0011268899999999999999999999983 335999999999999999999999999988665 6666677644
No 9
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=100.00 E-value=2.5e-35 Score=372.49 Aligned_cols=329 Identities=17% Similarity=0.202 Sum_probs=259.3
Q ss_pred HHHHHHHhHhhhhhhhhcCCCCCCCCeEEec-CCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchH
Q 001215 731 LVMDKYTRIQGDYVGIVSSPSALIPPIFMTD-EDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTL 809 (1122)
Q Consensus 731 ~aE~~L~~se~~l~~l~e~~~~li~~I~~~D-~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~ 809 (1122)
+...+++..+..++.++++++. |++++| .+|+++.+|+++.+++|...-.-+...
T Consensus 333 ~l~~~L~~~~~l~~~Ii~~lp~---Gilv~D~~~~~Ii~~N~aA~~ll~~~~l~~i~~~--------------------- 388 (894)
T PRK10618 333 SMSHELRILRALNEEIVSNLPL---GLLVYDFESNRTVISNKIADHLLPHLNLQKITTM--------------------- 388 (894)
T ss_pred HHHHHHHHHHHHHHHHHHhCCc---eEEEEECCCCeEEEEhHHHHHHhCccchhhHHHH---------------------
Confidence 4445688888999999999998 899999 778999999999999985421111000
Q ss_pred HHHHHHHHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHH---HHHHHHH
Q 001215 810 TKLRIVMNKVISGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRI---SEQAAAN 886 (1122)
Q Consensus 810 ~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~---ae~~~~~ 886 (1122)
.......+.. ..++...++...... ....+.+.+++|++++...++++++. .++....
T Consensus 389 ---~~~~~~~i~~-----------~i~~~~~eir~~~~~-----~~~~~~l~~l~d~~~~~~~~~~L~~a~~~le~~~~~ 449 (894)
T PRK10618 389 ---AEQHQGVIQA-----------TINNELYEIRMFRSQ-----LAPRTQLFLLRDQDREVLVNKKLQQAQREYEKNQQA 449 (894)
T ss_pred ---HHhcchhhhh-----------hccCceeEEEEeecc-----ccCceEEEEEeehHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0000000000 012222222222111 12235678899999988877776553 3445678
Q ss_pred HHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHH
Q 001215 887 SLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEAL 965 (1122)
Q Consensus 887 k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi 965 (1122)
|.+|++.|+|||||||++|.++++++.....+++++++++.+.++++++.++++++ +++++++|+..++.++|++.+++
T Consensus 450 k~~fla~iSHELRtPL~aI~g~~elL~~~~~~~~~~~~l~~I~~~~~~L~~lI~dILdlsrle~~~~~l~~~~~~L~~ll 529 (894)
T PRK10618 450 RKAFLQNIGDELKQPLQSLAQLAAQLRQTSDEEQQQPELDQLAEQSDVLVRLVDNIQLLNMLETQDWKPEQELFSLQDLI 529 (894)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccceeECHHHHH
Confidence 88999999999999999999999999887778899999999999999999999997 99999999999999999999999
Q ss_pred HHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEE
Q 001215 966 DAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVH 1045 (1122)
Q Consensus 966 ~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~ 1045 (1122)
++++..+...+..+++.+.++++...+ ..+.+|+.+|+|||.|||.||+||++ .| .|.|++....+. ...
T Consensus 530 ~~vl~~~~~~a~~k~i~l~~~~~~~~~-~~v~~D~~~L~QVL~NLL~NAik~t~--~G-~I~I~v~~~~~~------~~~ 599 (894)
T PRK10618 530 DEVLPEVLPAIKRKGLQLLIHNHLKAE-QLRIGDRDALRKILLLLLNYAITTTA--YG-KITLEVDQDESS------PDR 599 (894)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCCC-cEEEecHHHHHHHHHHHHHHHHHhCC--CC-eEEEEEEEccCC------CcE
Confidence 999999999999999999887765443 37899999999999999999999998 34 888888764431 127
Q ss_pred EEEEEEcCCCCCChhhhhhhcCCCCC-------CCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCC
Q 001215 1046 LEFRITHPAPGIPEKLIHDMFYHSQG-------ASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLA 1113 (1122)
Q Consensus 1046 v~~~V~D~G~GI~~e~~~~iF~~f~~-------~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~ 1113 (1122)
+.|+|+|+|+|||++.+++||+||.. .+|+||||+|||+||+.|||+|+++|++|+|| +|+|.||+.
T Consensus 600 l~I~V~DtG~GI~~e~l~~IFePF~t~~~~~~~~~GtGLGLaI~k~Lve~~GG~I~v~S~~g~GT-~F~I~LPl~ 673 (894)
T PRK10618 600 LTIRILDTGAGVSIKELDNLHFPFLNQTQGDRYGKASGLTFFLCNQLCRKLGGHLTIKSREGLGT-RYSIHLKML 673 (894)
T ss_pred EEEEEEECCCCCCHHHHHHhcCccccCCCCCCCCCCcChhHHHHHHHHHHcCCEEEEEECCCCcE-EEEEEEEcc
Confidence 99999999999999999999999831 35999999999999999999999999988654 455555553
No 10
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=100.00 E-value=1.8e-34 Score=370.26 Aligned_cols=329 Identities=24% Similarity=0.351 Sum_probs=266.0
Q ss_pred HHHHhHhhhhhhhhcCCCCCCCCeEEec-CCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHH
Q 001215 734 DKYTRIQGDYVGIVSSPSALIPPIFMTD-EDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKL 812 (1122)
Q Consensus 734 ~~L~~se~~l~~l~e~~~~li~~I~~~D-~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~ 812 (1122)
.++.++++.++.++++.+. +|++++ .+|.++.+|+.+..++|+...+...+ +
T Consensus 327 ~~L~e~e~~~r~iv~~~p~---gi~i~~~~~g~~~~~N~~a~~~~~l~~~~~~~~------------------------~ 379 (924)
T PRK10841 327 LRLEEHEQFNRKIVASAPV---GICILRTSDGTNILSNELAHNYLNMLTHEDRQR------------------------L 379 (924)
T ss_pred HHHHHHHHHHHHHHHhCCc---cEEEEEcCCCcEEEehHHHHHHhccCChhHHHH------------------------H
Confidence 4677888899999999998 888886 79999999999999998754332111 1
Q ss_pred HHHHHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHH---HHHHHHHHh
Q 001215 813 RIVMNKVISGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRIS---EQAAANSLN 889 (1122)
Q Consensus 813 ~~~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~a---e~~~~~k~~ 889 (1122)
...+....... ......+++...+.+...... +.. ..++++.|||++++.++++++.. ++.++.|..
T Consensus 380 ----~~~~~~~~~~~--~~~~~~~~~~~~i~~~~~~~~---~~~-~~i~~~~Dit~r~~~e~~L~~~~~~~e~a~~~k~~ 449 (924)
T PRK10841 380 ----TQIICGQQVNF--VDVLTSNNTNLQISFVHSRYR---NEN-VAICVLVDVSARVKMEESLQEMAQAAEQASQSKSM 449 (924)
T ss_pred ----HHHHhccccce--eeEEcCCCcEEEEEEEeeeec---Cce-EEEEEEEEhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 01111111111 122334555554444333322 222 36789999999999998887654 445567788
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHHHHH
Q 001215 890 KLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEALDAV 968 (1122)
Q Consensus 890 fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi~~v 968 (1122)
|++.|+|||||||++|.|++++|.....+++++++++.+..++++|.++|+++ ++++++.+...++..+|++.++++++
T Consensus 450 fla~iSHELRTPL~~I~g~lelL~~~~~~~~~~~~l~~i~~~~~~L~~lI~dlLd~srie~~~~~l~~~~~~l~~li~~v 529 (924)
T PRK10841 450 FLATVSHELRTPLYGIIGNLDLLQTKELPKGVDRLVTAMNNSSSLLLKIISDILDFSKIESEQLKIEPREFSPREVINHI 529 (924)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceeeeEEecHHHHHHHH
Confidence 99999999999999999999999888888999999999999999999999997 99999999999999999999999999
Q ss_pred HHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEE
Q 001215 969 MTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEF 1048 (1122)
Q Consensus 969 ~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~ 1048 (1122)
+..+...+..+++.+.+.++++.+. .+.+|+.+|+|||.|||.||+||++ .| .|.|++...++ .+.|
T Consensus 530 ~~~~~~~~~~k~i~l~~~i~~~~~~-~v~~D~~~L~qvl~NLl~NAik~t~--~G-~I~I~v~~~~~---------~l~i 596 (924)
T PRK10841 530 TANYLPLVVKKRLGLYCFIEPDVPV-ALNGDPMRLQQVISNLLSNAIKFTD--TG-CIVLHVRVDGD---------YLSF 596 (924)
T ss_pred HHHHHHHHHHcCcEEEEEeCCCCCc-EEEECHHHHHHHHHHHHHHHHhhCC--CC-cEEEEEEEeCC---------EEEE
Confidence 9999999999999999988887653 6999999999999999999999997 34 78888877665 8999
Q ss_pred EEEcCCCCCChhhhhhhcCCCC--------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCC
Q 001215 1049 RITHPAPGIPEKLIHDMFYHSQ--------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLA 1113 (1122)
Q Consensus 1049 ~V~D~G~GI~~e~~~~iF~~f~--------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~ 1113 (1122)
+|+|+|+||+++.++++|+||. ..+|+||||+||+++++.|||+|+++|++|+|+ +|++.||..
T Consensus 597 ~V~DtG~GI~~e~~~~lFepF~~~~~~~~~~~~GtGLGL~I~k~lv~~~gG~I~v~S~~g~Gt-~F~i~LP~~ 668 (924)
T PRK10841 597 RVRDTGVGIPAKEVVRLFDPFFQVGTGVQRNFQGTGLGLAICEKLINMMDGDISVDSEPGMGS-QFTIRIPLY 668 (924)
T ss_pred EEEEcCcCCCHHHHHHHhcccccCCCCCCCCCCCeehhHHHHHHHHHHCCCEEEEEEcCCCcE-EEEEEEECC
Confidence 9999999999999999999983 235999999999999999999999999988654 455555553
No 11
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=100.00 E-value=3.9e-34 Score=355.39 Aligned_cols=349 Identities=19% Similarity=0.266 Sum_probs=291.2
Q ss_pred HHHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHH
Q 001215 731 LVMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLT 810 (1122)
Q Consensus 731 ~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~ 810 (1122)
.+.++++..+..++.++++.++ +++++|.+|+++++|+++.+++|+++++++|+.+. ++++ +..
T Consensus 252 ~~~~~l~~~~~~~~~i~~~~~~---~i~~~d~~g~i~~~N~~~~~l~g~~~~~~~g~~~~-~~~~----------~~~-- 315 (607)
T PRK11360 252 NLAQALRETRSLNELILESIAD---GVIAIDRQGKITTMNPAAEVITGLQRHELVGKPYS-ELFP----------PNT-- 315 (607)
T ss_pred HHHHHHHHHHHHHHHHHHhccC---eEEEEcCCCCEEEECHHHHHHhCCChHHhcCCcHH-HHcC----------Cch--
Confidence 3446677777888999999988 89999999999999999999999999999998752 2222 111
Q ss_pred HHHHHHHHHh-cCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHh
Q 001215 811 KLRIVMNKVI-SGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQAAANSLN 889 (1122)
Q Consensus 811 ~~~~~l~~~l-~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~ 889 (1122)
.+...+...+ .+......++.+..++|... +.++..|+.+.+|++.|++++++|||+++++++++++..+... ..+
T Consensus 316 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~~~~g~~~~~i~~~~Dite~~~~e~~l~~~~~~~~--l~~ 392 (607)
T PRK11360 316 PFASPLLDTLEHGTEHVDLEISFPGRDRTIE-LSVSTSLLHNTHGEMIGALVIFSDLTERKRLQRRVARQERLAA--LGE 392 (607)
T ss_pred hHHHHHHHHHhcCCCccceEEEEEcCCCcEE-EEEEEeeEEcCCCCEEEEEEEEeechHHHHHHHHHHHHHHHHH--HHH
Confidence 1222333333 34445567788888899887 8899999999999999999999999999999998887655443 446
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHHHHH
Q 001215 890 KLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEALDAV 968 (1122)
Q Consensus 890 fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi~~v 968 (1122)
+++.++||++|||+.|.++++++.....+.+..++++.+.+..+++..+++++ ++++... ....++++..+++.+
T Consensus 393 ~~~~~~hel~~~l~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~~~~~~~~ 468 (607)
T PRK11360 393 LVAGVAHEIRNPLTAIRGYVQIWRQQTSDPPSQEYLSVVLREVDRLNKVIDQLLEFSRPRE----SQWQPVSLNALVEEV 468 (607)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHHHHHHHHHHhhCCCc----CccceecHHHHHHHH
Confidence 78999999999999999999998777667788899999999999999999997 8887643 345789999999999
Q ss_pred HHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEE
Q 001215 969 MTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEF 1048 (1122)
Q Consensus 969 ~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~ 1048 (1122)
...+......+++.+.++++++.+ .+.+|+..|++++.||+.||++|++. ++.|.|++....+. .+.|
T Consensus 469 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~l~~~~~nli~na~~~~~~--~~~i~v~~~~~~~~--------~~~i 536 (607)
T PRK11360 469 LQLFQTAGVQARVDFETELDNELP--PIWADPELLKQVLLNILINAVQAISA--RGKIRIRTWQYSDG--------QVAV 536 (607)
T ss_pred HHHHHHhhhccCcEEEEEcCCCCC--eEEECHHHHHHHHHHHHHHHHHHhcC--CCeEEEEEEEcCCC--------EEEE
Confidence 999988877788999988888765 68899999999999999999999873 66999988776550 2899
Q ss_pred EEEcCCCCCChhhhhhhcCCC--CCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCCC
Q 001215 1049 RITHPAPGIPEKLIHDMFYHS--QGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAHQ 1115 (1122)
Q Consensus 1049 ~V~D~G~GI~~e~~~~iF~~f--~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~~ 1115 (1122)
+|+|||+|||++.++++|+|| .+..|+|+||++||++++.|||+|+++|.+++|| +|++.||+.+.
T Consensus 537 ~v~D~G~G~~~~~~~~~f~~~~~~~~~g~glGL~~~~~~~~~~~G~i~~~s~~~~Gt-~~~i~lp~~~~ 604 (607)
T PRK11360 537 SIEDNGCGIDPELLKKIFDPFFTTKAKGTGLGLALSQRIINAHGGDIEVESEPGVGT-TFTLYLPINPQ 604 (607)
T ss_pred EEEeCCCCCCHHHHhhhcCCceeCCCCCCchhHHHHHHHHHHcCCEEEEEEcCCCce-EEEEEecCCCC
Confidence 999999999999999999998 4667999999999999999999999999998665 66667787543
No 12
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=100.00 E-value=2.5e-34 Score=333.19 Aligned_cols=338 Identities=19% Similarity=0.218 Sum_probs=258.8
Q ss_pred hhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHH
Q 001215 740 QGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKV 819 (1122)
Q Consensus 740 e~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~ 819 (1122)
...++.+++++++ |++++|.+|+|+++|+++++++|++.++++|+++. ++++.. ..+. ..+...
T Consensus 6 ~~~~~~il~~~~~---gi~~~d~~~~i~~~N~a~~~~~g~~~~~~~g~~~~-~~~~~~--------~~~~----~~~~~~ 69 (348)
T PRK11073 6 LPDAGQILNSLIN---SILLLDDDLAIHYANPAAQQLLAQSSRKLFGTPLP-ELLSYF--------SLNI----ELMRES 69 (348)
T ss_pred cchHHHHHhcCcC---eEEEECCCCeEeeEcHHHHHHhCCCHHHHcCCCHH-HHcCcc--------hhhH----HHHHHH
Confidence 3457889999999 89999999999999999999999999999998753 232210 1111 122233
Q ss_pred hcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhh
Q 001215 820 ISGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQAAANSLNKLEYIRREIR 899 (1122)
Q Consensus 820 l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~fLa~isHELr 899 (1122)
+..+............+|+.+|+.++..|+. + .+++..++|+|++++.+.++.+.++.. ...++++.++||+|
T Consensus 70 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~--~---~~~~~~~~dit~~~~~~~~~~~~~~~~--~~~~~~~~iaHelr 142 (348)
T PRK11073 70 LQAGQGFTDNEVTLVIDGRSHILSLTAQRLP--E---GMILLEMAPMDNQRRLSQEQLQHAQQV--AARDLVRGLAHEIK 142 (348)
T ss_pred HHcCCcccccceEEEECCceEEEEEEEEEcc--C---ceeEEEEechhHHHHHHHHHHHHHHHH--HHHHHHHhhhHhhc
Confidence 3333322222233456999999999999987 2 346678999999998877765544432 33567889999999
Q ss_pred hHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHHHHHHHHhcccccc
Q 001215 900 KPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEALDAVMTQVMIPSRE 978 (1122)
Q Consensus 900 nPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~ 978 (1122)
|||++|.++++++.+...++..+++++.+...++++..+++++ ++.+.. ....+++..+++.+...+.... .
T Consensus 143 ~pL~~i~~~~~~l~~~~~~~~~~~~~~~i~~~~~~l~~lv~~l~~~~~~~------~~~~~~l~~~~~~~~~~~~~~~-~ 215 (348)
T PRK11073 143 NPLGGLRGAAQLLSKALPDPALTEYTKVIIEQADRLRNLVDRLLGPQRPG------THVTESIHKVAERVVQLVSLEL-P 215 (348)
T ss_pred ChHHHHHHHHHHhhhcCCChHHHHHHHHHHHHHHHHHHHHHHHhcccCCC------CCccccHHHHHHHHHHHHhhhc-c
Confidence 9999999999998876667788899999999999999999997 665432 2456799999999988887655 4
Q ss_pred CCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEeccccc-CccceeEEEEEEEEcCCCCC
Q 001215 979 HQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERI-GKNIHIVHLEFRITHPAPGI 1057 (1122)
Q Consensus 979 ~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~-~~~~~~~~v~~~V~D~G~GI 1057 (1122)
+++.+.++.+++.+ .+.+|+..|.||+.||+.||++|+.. .++.|.|++....... ........+.++|.|||+||
T Consensus 216 ~~i~i~~~~~~~~~--~i~~d~~~l~~vl~nLl~NA~~~~~~-~~~~i~i~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi 292 (348)
T PRK11073 216 DNVRLIRDYDPSLP--ELAHDPDQIEQVLLNIVRNALQALGP-EGGTITLRTRTAFQLTLHGERYRLAARIDIEDNGPGI 292 (348)
T ss_pred CCcEEEEecCCCCC--ceeeCHHHHHHHHHHHHHHHHHHhcc-CCCeEEEEEccccccccCCccCCceEEEEEEeCCCCC
Confidence 67888888877765 68999999999999999999999842 4668888765432100 00111124689999999999
Q ss_pred ChhhhhhhcCCC--CCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecC
Q 001215 1058 PEKLIHDMFYHS--QGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPL 1112 (1122)
Q Consensus 1058 ~~e~~~~iF~~f--~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~ 1112 (1122)
|++.++++|+|| .+..|+||||+||+++++.|||+|+++|.+++++ |++.||+
T Consensus 293 ~~~~~~~iF~~~~~~~~~g~GlGL~i~~~iv~~~gG~i~~~s~~~~~~--f~i~lP~ 347 (348)
T PRK11073 293 PPHLQDTLFYPMVSGREGGTGLGLSIARNLIDQHSGKIEFTSWPGHTE--FSVYLPI 347 (348)
T ss_pred CHHHHhhccCCcccCCCCCccCCHHHHHHHHHHcCCeEEEEecCCceE--EEEEEec
Confidence 999999999998 4667999999999999999999999999988754 5555664
No 13
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=100.00 E-value=2.2e-34 Score=330.03 Aligned_cols=320 Identities=15% Similarity=0.217 Sum_probs=264.8
Q ss_pred HhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHH
Q 001215 737 TRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVM 816 (1122)
Q Consensus 737 ~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l 816 (1122)
.+..++|+.++++.++ +|+++|.+|++++||+++++++|+++++++|+++.... ++++ +.
T Consensus 2 ~~~~~~l~~~~~~~~~---~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~-----------~~~~---~~--- 61 (333)
T TIGR02966 2 SALLSRFRAAAQALPD---AVVVLDEEGQIEWCNPAAERLLGLRWPDDLGQRITNLI-----------RHPE---FV--- 61 (333)
T ss_pred hhHHHHHHHHHHhCcC---cEEEECCCCcEEEEcHHHHHHhCCChHHHcCCcHHHHc-----------cCHH---HH---
Confidence 4556789999999999 89999999999999999999999999999998753221 1221 22
Q ss_pred HHHhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 001215 817 NKVISGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQAAANSLNKLEYIRR 896 (1122)
Q Consensus 817 ~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~fLa~isH 896 (1122)
..+.+... ..++.+..++|..+|+.+...|..+.+ ++++++|||++++.+.. +.++++.++|
T Consensus 62 -~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~p~~~~~-----~~~~~~dit~~~~~~~~-----------~~~~~~~l~h 123 (333)
T TIGR02966 62 -EYLAAGRF-SEPLELPSPINSERVLEIRIAPYGEEQ-----KLLVARDVTRLRRLEQM-----------RRDFVANVSH 123 (333)
T ss_pred -HHHHhccc-CCCeEeecCCCCceEEEEEEEEcCCCc-----eEEEEeCchHHHHHHHH-----------HHHHHHhhhh
Confidence 22222222 223556668888999999999987643 67889999987765533 2357889999
Q ss_pred hhhhHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHHHHHHHHhc
Q 001215 897 EIRKPLNGIAFMQNLMGTS--DLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEALDAVMTQVM 973 (1122)
Q Consensus 897 ELrnPLt~I~g~~~lL~~~--~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi~~v~~~~~ 973 (1122)
++||||+.|.++.+++... ...+...++++.+..+.+++..+++++ ++++++.+.......++++.+++..++..+.
T Consensus 124 ~l~~pL~~i~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~l~~~i~~l~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~ 203 (333)
T TIGR02966 124 ELRTPLTVLRGYLETLADGPDEDPEEWNRALEIMLEQSQRMQSLVEDLLTLSRLESAASPLEDEPVDMPALLDHLRDEAE 203 (333)
T ss_pred hhcccHHHHHHHHHHHHhcccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccccccCHHHHHHHHHHHHH
Confidence 9999999999999988644 445667888999999999999999997 9999988788888999999999999999999
Q ss_pred cccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcC
Q 001215 974 IPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHP 1053 (1122)
Q Consensus 974 ~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~ 1053 (1122)
.....+++.+.+++++. ..+.+|+..|.+||.||+.||++|++ .++.|.|++...++ .+.|.|.|+
T Consensus 204 ~~~~~~~i~i~~~~~~~---~~~~~d~~~l~~vl~nll~Nai~~~~--~~~~i~i~~~~~~~---------~~~i~i~d~ 269 (333)
T TIGR02966 204 ALSQGKNHQITFEIDGG---VDVLGDEDELRSAFSNLVSNAIKYTP--EGGTITVRWRRDGG---------GAEFSVTDT 269 (333)
T ss_pred HHHHHcCcEEEEcCCCC---ceEEECHHHHHHHHHHHHHHhheeCC--CCCeEEEEEEEcCC---------EEEEEEEec
Confidence 99999999999888443 27899999999999999999999987 45689998887766 789999999
Q ss_pred CCCCChhhhhhhcCCCC--------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEE
Q 001215 1054 APGIPEKLIHDMFYHSQ--------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIE 1109 (1122)
Q Consensus 1054 G~GI~~e~~~~iF~~f~--------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~ 1109 (1122)
|+|||++.++++|+||. ...|+||||++|+.+++.|||+|++.|.+++|| +|++.
T Consensus 270 G~gi~~~~~~~if~~~~~~~~~~~~~~~g~glGL~~~~~~~~~~gG~i~~~s~~~~Gt-~~~i~ 332 (333)
T TIGR02966 270 GIGIAPEHLPRLTERFYRVDKSRSRDTGGTGLGLAIVKHVLSRHHARLEIESELGKGS-TFSFI 332 (333)
T ss_pred CCCCCHHHHhhhccCceecCcccccCCCCCcccHHHHHHHHHHCCCEEEEEecCCCCe-EEEEE
Confidence 99999999999999973 246899999999999999999999999988655 45544
No 14
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=100.00 E-value=8.8e-33 Score=370.02 Aligned_cols=367 Identities=14% Similarity=0.165 Sum_probs=268.2
Q ss_pred EEEcchhhHHHHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccc
Q 001215 722 VGQDITGQKLVMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGC 801 (1122)
Q Consensus 722 v~~DITerK~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~ 801 (1122)
..++++.+++++.+++..+..++.++++++. +|+++|.+|+|+++|+++++++|.+.....+....
T Consensus 557 l~~~i~~r~~~~~~l~~~~~~~~~i~~~~~~---~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~~~~~~----------- 622 (1197)
T PRK09959 557 LLRSVRRRKVIQGDLENQISFRKALSDSLPN---PTYVVNWQGNVISHNSAFEHYFTADYYKNAMLPLE----------- 622 (1197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC---cEEEEcCCCcEEEehHHHHHHhCcccccccccccc-----------
Confidence 3478999999999999999999999999998 89999999999999999999999764332221110
Q ss_pred cccCcchHHHHHHHHHHHh-cCCCcceeEEEEEccCCCEEEEEE-EEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHH
Q 001215 802 RVKNHDTLTKLRIVMNKVI-SGQDADKILFGFFDQQGKYVEALL-SANKRTNAEGKISGILCFLHVASPELQYALQVQRI 879 (1122)
Q Consensus 802 ~l~~~d~~~~~~~~l~~~l-~g~~~~~~e~~~~~~dG~~~~v~~-~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ 879 (1122)
...+.....+........ ...........+...+|....+.. ...+.....+...++++.++|||+.++.+++++..
T Consensus 623 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dite~~~~~~~l~~~ 701 (1197)
T PRK09959 623 -NSDSPFKDVFSNAHEVTAETKENRTIYTQVFEIDNGIEKRCINHWHTLCNLPASDHAVYICGWQDITETRDLIHALEVE 701 (1197)
T ss_pred -cccCchhhhHhHHHHHHHHHhhccccceeeEeeecCccceeeeeeeeeeccCCCCceEEEEEEEehhHHHHHHHHHHHH
Confidence 000111111111111100 111111112222333443222221 12222223344557888999999999888777654
Q ss_pred HH---HHHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHHHHHHHHHHhhh-ccccccccccee
Q 001215 880 SE---QAAANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSE-EQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVL 954 (1122)
Q Consensus 880 ae---~~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~-~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l 954 (1122)
.+ +....+.+|++.|+|||||||++|.++++++.....+. ...++++.+..+.+++..+++++ ++++++.+...+
T Consensus 702 ~~~~~~~~~~~~~~~~~isHelrtPL~~i~~~~~ll~~~~~~~~~~~~~l~~~~~~~~~l~~li~~ll~~~~~~~~~~~~ 781 (1197)
T PRK09959 702 RNKAINATVAKSQFLATMSHEIRTPISSIMGFLELLSGSGLSKEQRVEAISLAYATGQSLLGLIGEILDVDKIESGNYQL 781 (1197)
T ss_pred HHHHHHHHHHHHHHHHhcChhhCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcee
Confidence 33 34456788999999999999999999999997655444 44678899999999999999997 999999999999
Q ss_pred eeEEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecc
Q 001215 955 KSGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQK 1034 (1122)
Q Consensus 955 ~~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~ 1034 (1122)
..+++++.+++++++..+...+..+++.+.+...... ...+.+|+.+|.|||.||+.||+||++ +| .+.|.+....
T Consensus 782 ~~~~~~l~~~i~~~~~~~~~~~~~~~i~~~~~~~~~~-~~~v~~d~~~l~qvl~NLl~NAik~~~--~g-~i~i~~~~~~ 857 (1197)
T PRK09959 782 QPQWVDIPTLVQNTCHSFGAIAASKSIALSCSSTFPD-HYLVKIDPQAFKQVLSNLLSNALKFTT--EG-AVKITTSLGH 857 (1197)
T ss_pred eeeeeCHHHHHHHHHHHHHHHHHhcCcEEEEecCCCC-ceEEEECHHHHHHHHHHHHHHHHHhCC--CC-CEEEEEEEee
Confidence 9999999999999999999988889999877653211 126899999999999999999999998 34 5555553321
Q ss_pred cccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEE
Q 001215 1035 ERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILI 1108 (1122)
Q Consensus 1035 ~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l 1108 (1122)
.. .....+.|+|.|+|+|||++.++++|+||. ..+|+||||+|||++++.|||+|+++|.+++|| +|++
T Consensus 858 ~~----~~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~~~Gt-~f~i 932 (1197)
T PRK09959 858 ID----DNHAVIKMTIMDSGSGLSQEEQQQLFKRYSQTSAGRQQTGSGLGLMICKELIKNMQGDLSLESHPGIGT-TFTI 932 (1197)
T ss_pred ec----CCceEEEEEEEEcCCCCCHHHHHHhhccccccccCCCCCCcCchHHHHHHHHHHcCCEEEEEeCCCCcE-EEEE
Confidence 10 011268899999999999999999999983 235999999999999999999999999988544 4444
Q ss_pred EecC
Q 001215 1109 EFPL 1112 (1122)
Q Consensus 1109 ~LP~ 1112 (1122)
.||+
T Consensus 933 ~lP~ 936 (1197)
T PRK09959 933 TIPV 936 (1197)
T ss_pred EEEc
Confidence 5554
No 15
>PF00360 PHY: Phytochrome region; InterPro: IPR013515 Phytochrome belongs to a family of plant photoreceptors that mediate physiological and developmental responses to changes in red and far-red light conditions []. The protein undergoes reversible photochemical conversion between a biologically-inactive red light-absorbing form and the active far-red light-absorbing form. Phytochrome is a dimer of identical 124 kDa subunits, each of which contains a linear tetrapyrrole chromophore, covalently-attached via a Cys residue. This domain represents a region specific to phytochrome proteins.; GO: 0008020 G-protein coupled photoreceptor activity, 0006355 regulation of transcription, DNA-dependent, 0009584 detection of visible light, 0018298 protein-chromophore linkage; PDB: 3C2W_G 3NHQ_B 3G6O_B 3IBR_A 2VEA_A 3ZQ5_A.
Probab=100.00 E-value=1.7e-35 Score=306.39 Aligned_cols=170 Identities=37% Similarity=0.708 Sum_probs=141.0
Q ss_pred HHHHHHHhhcc-CC-CcccccCCcchhhhccCCeEEEEECCeEEEecCCCCHHHHHHHHHHHHhccCCCeEEeecccccc
Q 001215 408 TQTVLCDMLLR-DS-PVGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLVEA 485 (1122)
Q Consensus 408 ~~~~~~~~~~~-~~-~~~~~~~~~~~~~l~~~~g~al~~~~~~~~~G~~p~~~~~~~l~~~l~~~~~~~~~~~t~~l~~~ 485 (1122)
+++.|..++.. .. ..++..+.++||+|++|||+||+++|+++++|.||++++|.+|++||... .+.++|+||+|++
T Consensus 4 ~~~~L~~~~~~~~~~~~~l~~~~~~ll~l~~AdG~al~~~g~~~~~G~~P~~~~i~~L~~wl~~~-~~~~v~~T~~L~~- 81 (182)
T PF00360_consen 4 LQQRLLEALSSSRDLLEALISQAPDLLDLVDADGVALVIDGEVYTFGETPPEEQIRALAEWLREQ-ADGEVFATDSLSE- 81 (182)
T ss_dssp HHHHHHHHHHCSSSHHHHHCTTCCCHHHCTT-SEEEEEETTEEEEEESS--HHHHHHHHHHCCCT-TT-SEEEESBGGG-
T ss_pred HHHHHHHHHccCCChhHhhHhccHHHHhhccCCEEEEEECCEEEEecCCcCHHHHHHHHHHHHhh-CCCccchhhhHhH-
Confidence 34444454444 33 56788899999999999999999999999999999999999999999977 4457999999998
Q ss_pred CCCCccccccccceEEEEEcCC--CCeEEEeccccceEEeecCCCCCCCCC-CCCCccccCchHHHHHHHhcccccccch
Q 001215 486 GYPGALALGDAVCGIAAVKITS--KDFLFWFRSHTAKEIKWGGAKHDSGGK-DGGRKMHPRSSFKAFLEVVKQRSLPWED 562 (1122)
Q Consensus 486 ~~p~~~~~~~~~~g~l~~~i~~--~~~l~wfR~~~~~~v~WaG~p~~~~~~-~~~~~l~PR~SF~~w~e~v~g~s~pW~~ 562 (1122)
.||++.++.+.+||||+++|++ ++||+|||+|++++|+|||||+|++.. +++.+|+||+||++|+|+|+|+|.||+.
T Consensus 82 ~~p~~~~~~~~aaGvLai~l~~~~~~~l~wFR~E~~~~v~WaG~P~k~~~~~~~~~~l~PR~SF~~W~E~v~g~S~pW~~ 161 (182)
T PF00360_consen 82 DYPDAAALAERAAGVLAIPLSSEPRDYLLWFRPEQVQTVNWAGNPEKPVEVDPGGVRLSPRKSFEAWRETVRGRSLPWSD 161 (182)
T ss_dssp TSGGGGGGCCCHSEEEEEEECTTCCEEEEEEE-S--ECEEECSSCGGSCEEECTCCCCCCHCHHHCCCCCCTTBBS---H
T ss_pred hChhhhhhcccCCCcEEEECCCCCCceEEEEecCcceEEEeCCCCCccccCCCCCCCCCChHHHHHHHhHhcCcCCCCCH
Confidence 5999999999999999999986 689999999999999999999998764 3478999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHhhh
Q 001215 563 VEMDAIHSLQLILRGSL 579 (1122)
Q Consensus 563 ~El~aa~~L~liL~~~l 579 (1122)
.|++++..|+..|...+
T Consensus 162 ~d~~~A~~lr~~l~~~~ 178 (182)
T PF00360_consen 162 ADLEAAERLRRALLEVI 178 (182)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999976666554
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=100.00 E-value=3.2e-32 Score=319.37 Aligned_cols=219 Identities=23% Similarity=0.360 Sum_probs=191.9
Q ss_pred HHHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCC--CCCHH-HHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeE
Q 001215 882 QAAANSLNKLEYIRREIRKPLNGIAFMQNLMGTS--DLSEE-QKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSG 957 (1122)
Q Consensus 882 ~~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~--~l~~~-~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~ 957 (1122)
+..+.+..+|+.|||+|||||++|.|.++.|... .++++ ..+.+..|.+.++++.+++.+| |++|+++|.+.++..
T Consensus 655 e~E~lRsaLL~sISHDLRTPLt~i~Gaa~tL~~~~~~l~~~~~aeLl~~I~ees~~L~rlV~NLLdmTRi~sG~~~l~~~ 734 (890)
T COG2205 655 ERERLRSALLASISHDLRTPLTAIMGAAETLLLDGEALSPEDRAELLSSIREESERLTRLVTNLLDMTRLQSGGVNLKLD 734 (890)
T ss_pred HHHHHHHHHHHHhhccccCcHHHHhhhHHHhhhcccccCcHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHhcCCcccccc
Confidence 4455677889999999999999999999998553 44544 7889999999999999999997 999999999999999
Q ss_pred EeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEeccccc
Q 001215 958 EFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERI 1037 (1122)
Q Consensus 958 ~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~ 1037 (1122)
+..+.+++.+++..+......+. +.++++.+++ .+.+|...|+|||.|||.||+||+| .+..|.|.+....+
T Consensus 735 ~~~veEvVg~Al~r~~k~~~~~~--i~v~~~~dl~--li~~D~~LieQVLiNLleNA~Kyap--~~s~I~I~~~~~~~-- 806 (890)
T COG2205 735 WVLVEEVVGEALQRLRKRFTGHK--IVVSVPVDLP--LIHVDSPLIEQVLINLLENALKYAP--PGSEIRINAGVERE-- 806 (890)
T ss_pred hhhHHHHHHHHHHHhhhhcCCce--EEEecCCCCc--eEecCHHHHHHHHHHHHHHHHhhCC--CCCeEEEEEEEecc--
Confidence 99999999999998887776555 6778889887 7999999999999999999999999 47689999999888
Q ss_pred CccceeEEEEEEEEcCCCCCChhhhhhhcCCCC------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEec
Q 001215 1038 GKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFP 1111 (1122)
Q Consensus 1038 ~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP 1111 (1122)
.+.|.|.|+|+|||++.+++||++|+ ...|+||||+||+.||+.|||+|++.+.++||+ +|.+.||
T Consensus 807 -------~v~~~V~DeGpGIP~~~~~~IFD~F~r~~~~~~~~G~GLGLsIc~~iv~ahgG~I~a~~~~~gGa-~f~~~LP 878 (890)
T COG2205 807 -------NVVFSVIDEGPGIPEGELERIFDKFYRGNKESATRGVGLGLAICRGIVEAHGGTISAENNPGGGA-IFVFTLP 878 (890)
T ss_pred -------eEEEEEEeCCCCCChhHHHHhhhhhhcCCCCCCCCCccccHHHHHHHHHHcCCeEEEEEcCCCce-EEEEEee
Confidence 89999999999999999999999982 356999999999999999999999999877654 4555556
Q ss_pred CCCCC
Q 001215 1112 LAHQK 1116 (1122)
Q Consensus 1112 ~~~~~ 1116 (1122)
+...+
T Consensus 879 ~~~~~ 883 (890)
T COG2205 879 VEEDP 883 (890)
T ss_pred cCCCC
Confidence 65443
No 17
>PRK13559 hypothetical protein; Provisional
Probab=100.00 E-value=6.4e-31 Score=306.40 Aligned_cols=311 Identities=13% Similarity=0.109 Sum_probs=241.3
Q ss_pred hHhhhhhhhhcCCCCCCCCeEEecC---CCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHH
Q 001215 738 RIQGDYVGIVSSPSALIPPIFMTDE---DGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRI 814 (1122)
Q Consensus 738 ~se~~l~~l~e~~~~li~~I~~~D~---dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~ 814 (1122)
.+...|+.++++.++ +|+++|. +|.+++||+++++++||+.++++|+... .+.++........
T Consensus 40 ~~~~~~~~~~e~~~~---~i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~-----------~l~~~~~~~~~~~ 105 (361)
T PRK13559 40 ASGRLFEQAMEQTRM---AMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCR-----------FLQGAATDPIAVA 105 (361)
T ss_pred hhhhHHHHHHHhCCC---cEEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChh-----------hhcCCCCCHHHHH
Confidence 446678889999888 8999997 5689999999999999999999998742 1222333344455
Q ss_pred HHHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 001215 815 VMNKVISGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQAAANSLNKLEYI 894 (1122)
Q Consensus 815 ~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~fLa~i 894 (1122)
.+...+.++.....++...+++|..+|+.++..|+.+.+|.+.+++++++|||++++.+++.+ .+.++++.+
T Consensus 106 ~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~d~~G~~~~~v~~~~DITerk~~e~~~~--------~~~~l~~~l 177 (361)
T PRK13559 106 KIRAAIAAEREIVVELLNYRKDGEPFWNALHLGPVYGEDGRLLYFFGSQWDVTDIRAVRALEA--------HERRLAREV 177 (361)
T ss_pred HHHHHhccCCceEEEEEEEcCCCCEEEEEEEEEEEEcCCCCEEEeeeeeeehhcchhhHHHHH--------HHHHHHHHH
Confidence 566677777777888888999999999999999999999999999999999999988764322 234577889
Q ss_pred HHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHHHHHHHHhc
Q 001215 895 RREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEALDAVMTQVM 973 (1122)
Q Consensus 895 sHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi~~v~~~~~ 973 (1122)
+|++||||+.|.++..++... .+..++++.+...+.+|.+++++| +..+ ..++++.+++++++..+.
T Consensus 178 ~H~~~n~L~~i~~~~~l~~~~---~~~~~~~~~i~~~~~~l~~~~~~ll~~~~---------~~~v~l~~~~~~~~~~~~ 245 (361)
T PRK13559 178 DHRSKNVFAVVDSIVRLTGRA---DDPSLYAAAIQERVQALARAHETLLDERG---------WETVEVEELIRAQVAPYA 245 (361)
T ss_pred HHhhhhHHHHHHHHHHhhccC---CCHHHHHHHHHHHHHHHHHHHHHHhccCC---------cCcccHHHHHHHHHHhhc
Confidence 999999999999999988632 234557777888888898888885 5543 467999999999998876
Q ss_pred cccccCCcEEEeecCCCCcceEEEec-HHHHHHHHHHHHHHHhhcCC-CCCCCeEEEEE--EecccccCccceeEEEEEE
Q 001215 974 IPSREHQVQFIRDLPAEVSTMNLHGD-KLRLQQVLSDFLTNALIFTP-AFEGSSIAFRV--IPQKERIGKNIHIVHLEFR 1049 (1122)
Q Consensus 974 ~~~~~~~i~l~~~~~~~~~~~~v~~D-~~~L~QVL~NLL~NAik~t~-~~~g~~I~I~v--~~~~~~~~~~~~~~~v~~~ 1049 (1122)
.. +..+.++.++ + .+..+ ...|.|||.||++||+||.. ...++.|.|++ ...++ .+.+.
T Consensus 246 ~~----~~~i~~~~~~-~---~~~~~~~~~l~~vl~nLi~NA~k~~~~~~~~g~i~v~~~~~~~~~---------~~~i~ 308 (361)
T PRK13559 246 PR----ATRVAFEGPG-I---RLGAASVQPLGLVLHELAVNAIKHGALSADQGRISISWKPSPEGA---------GFRID 308 (361)
T ss_pred CC----CceEEEECCC-e---eeCHHHHHHHHHHHHHHHHhHHHhccccCCCcEEEEEEEecCCCC---------eEEEE
Confidence 43 4455555432 1 33333 35799999999999999942 11456899988 33333 78999
Q ss_pred EEcCCCCCChhhhhhhcCCCCCCCCccchHHHHHHHHHH-cCcEEEEEecCCceEEEEEEEecC
Q 001215 1050 ITHPAPGIPEKLIHDMFYHSQGASREGLGLYISQKLVKL-MNGTVQYIREAERSSFLILIEFPL 1112 (1122)
Q Consensus 1050 V~D~G~GI~~e~~~~iF~~f~~~~GtGLGL~I~r~ive~-~gG~I~v~s~~gg~tF~~~l~LP~ 1112 (1122)
|.|+|.|++++ ..|+|+||.||+++++. |||+|++++.++|++| +|.||+
T Consensus 309 v~d~G~~~~~~-----------~~~~g~Gl~i~~~~v~~~~gG~i~~~~~~~G~~~--~l~~P~ 359 (361)
T PRK13559 309 WQEQGGPTPPK-----------LAKRGFGTVIIGAMVESQLNGQLEKTWSDDGLLA--RIEIPS 359 (361)
T ss_pred EECCCCCCCCC-----------CCCCCcHHHHHHHHHHHHcCCeEEEEEcCCeEEE--EEEEeC
Confidence 99999997763 46889999999999997 9999999998665554 555565
No 18
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=100.00 E-value=1.4e-29 Score=311.29 Aligned_cols=348 Identities=16% Similarity=0.218 Sum_probs=243.1
Q ss_pred EEEEEecCCCCCEEEEEEEEEcchhhHHHHHH--------------------------------------HHhHhhhhhh
Q 001215 704 VNACCTQDTKENVIGVCFVGQDITGQKLVMDK--------------------------------------YTRIQGDYVG 745 (1122)
Q Consensus 704 v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~--------------------------------------L~~se~~l~~ 745 (1122)
....|+++..|.++|++.+..++.+....-.. +.+..+.+++
T Consensus 146 ~~~~p~~~~~~~~iG~v~vg~~~~~i~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~~l~~l~~~ei~~l~~~~~~ 225 (542)
T PRK11086 146 RVFTPVYDENGKQIGVVAVGISLSEVTEQINESRWSIYWSILFGALVGLIGTVILVRVLKRILFGLEPYEISTLFEQRQA 225 (542)
T ss_pred EEEeeeEcCCCCEEEEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence 35578899999999999887776655443221 1233455678
Q ss_pred hhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCCh---HHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcC
Q 001215 746 IVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKR---EEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISG 822 (1122)
Q Consensus 746 l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~---eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g 822 (1122)
+++++++ ||+++|.+|+|++||+++++++|++. ++.+|+... .+... ..+...+..
T Consensus 226 il~~~~~---gIi~~D~~g~I~~~N~~a~~llg~~~~~~~~~~~~~~~-----------~~~~~-------~~~~~~~~~ 284 (542)
T PRK11086 226 MLQSIKE---GVIAVDDRGEVTLINDEAKRLFNYKKGLEDDPLGTDVE-----------SWMPV-------SRLKEVLRT 284 (542)
T ss_pred HHHHhcC---cEEEECCCCeEEEEhHHHHHHhCCCcCCcccccCCcHH-----------HhCCc-------hhHHHHHhc
Confidence 8999988 89999999999999999999998763 344444321 11111 123334444
Q ss_pred CCcc-eeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhH
Q 001215 823 QDAD-KILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQAAANSLNKLEYIRREIRKP 901 (1122)
Q Consensus 823 ~~~~-~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~fLa~isHELrnP 901 (1122)
+... ..+.. .+|. ++.+...|+.+ +|.+.|++++++|+|+.++.++++..... ..++++.++||+|||
T Consensus 285 ~~~~~~~~~~---~~g~--~~~~~~~pi~~-~g~~~g~v~~~rDite~~~l~~~l~~~~~-----~~~~l~~~sHel~np 353 (542)
T PRK11086 285 GTPRRDEEIN---INGR--LLLTNTVPVRV-NGEIIGAIATFRDKTEVRQLAQRLDGMVN-----YADALRAQSHEFMNK 353 (542)
T ss_pred CCCccceEEE---ECCE--EEEEEEEEEeE-CCEEEEEEEEEEEchHHHHHHHHHHHHHH-----HHHHHHhhchhhcCH
Confidence 4332 22222 2454 34556778888 89999999999999998888776654432 234567889999999
Q ss_pred HHHHHHHHHHhcCCCCCHHHHHHHHH-HHHHHHHHHHHHhhhcccccccccceeeeEEeehHHHHHHHHHHhccccccCC
Q 001215 902 LNGIAFMQNLMGTSDLSEEQKQLLKT-SVLCQEQLTNIVDDTDIESIEECYMVLKSGEFNLGEALDAVMTQVMIPSREHQ 980 (1122)
Q Consensus 902 Lt~I~g~~~lL~~~~l~~~~~~~L~~-i~~~~~rl~~iI~dLd~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~~~ 980 (1122)
|+.|.+++++... ++..+++.. +.....++..+++++.- .++...+......+..++
T Consensus 354 L~~I~g~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~ 411 (542)
T PRK11086 354 LHVILGLLHLKSY----DQLEDYILKTANNYQEEIGSLLGKIKS------------------PVIAGFLLGKISRARELG 411 (542)
T ss_pred HHHHHHHHHhCch----HHHHHHHHHHHHHHHHHHHHHHHhccC------------------HHHHHHHHHHHHHHHHcC
Confidence 9999999887542 233333332 23333444555544310 112222222233455678
Q ss_pred cEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChh
Q 001215 981 VQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEK 1060 (1122)
Q Consensus 981 i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e 1060 (1122)
+.+.++.++.++......+...|.|||.||+.||++|++...++.|.|++...++ .+.|+|.|||+|||++
T Consensus 412 ~~~~~~~~~~~~~~~~~~~~~~l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~~~~---------~~~i~V~D~G~gi~~~ 482 (542)
T PRK11086 412 ITLIISEDSQLPDSGDEDQVHELITILGNLIENALEAVGGEEGGEISVSLHYRNG---------WLHCEVSDDGPGIAPD 482 (542)
T ss_pred CEEEEeCCCCCCcccccccHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEEEEcCC---------EEEEEEEECCCCCCHH
Confidence 8888887766553223334568999999999999999864346689998887766 8899999999999999
Q ss_pred hhhhhcCCC--CCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCCC
Q 001215 1061 LIHDMFYHS--QGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAHQ 1115 (1122)
Q Consensus 1061 ~~~~iF~~f--~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~~ 1115 (1122)
.++++|+|| ++.+|+||||+|||++++.|||+|+++|.+++|+ +|++.||....
T Consensus 483 ~~~~iF~~~~~~~~~g~GlGL~iv~~iv~~~~G~i~v~s~~~~G~-~f~i~lP~~~~ 538 (542)
T PRK11086 483 EIDAIFDKGYSTKGSNRGVGLYLVKQSVENLGGSIAVESEPGVGT-QFFVQIPWDGE 538 (542)
T ss_pred HHHHHHhCCCccCCCCCcCcHHHHHHHHHHcCCEEEEEeCCCCcE-EEEEEEeCCCC
Confidence 999999997 4667999999999999999999999999988665 66667777543
No 19
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=99.98 E-value=3e-30 Score=295.07 Aligned_cols=207 Identities=23% Similarity=0.309 Sum_probs=182.9
Q ss_pred HHHHHHhhhhHHHHHHHHHH---HhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHHH
Q 001215 891 LEYIRREIRKPLNGIAFMQN---LMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEALD 966 (1122)
Q Consensus 891 La~isHELrnPLt~I~g~~~---lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi~ 966 (1122)
.+.++||||+||++|..+.+ +|.+....++....+..|..-.+||.+|...| .|++-- .....++.+.++|+
T Consensus 388 SA~iaHElNQPLaaiRt~adna~~lLergr~e~a~~Nl~~I~~LteRma~It~~Lk~FArk~----~~a~~~v~l~~ai~ 463 (603)
T COG4191 388 SAGIAHELNQPLAAIRTYADNARLLLERGRTEEARENLERISALTERMAAITAHLKSFARKS----RDAAGPVSLREAIE 463 (603)
T ss_pred HHHHHHHhcCcHHHHHhHHHHHHHHHHcCChHHHHhHHHHHHHHHHHHHHHHHHHHHHhccC----ccccCCccHHHHHH
Confidence 36789999999999986543 45556678889999999999999999999999 888743 33378999999999
Q ss_pred HHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEE
Q 001215 967 AVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHL 1046 (1122)
Q Consensus 967 ~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v 1046 (1122)
.++..+...++..++.+..++++..+ .|.+++.||+|||.|||.||++++...+.+.|.|.+...++ .+
T Consensus 464 ~Al~ll~~R~~~~~~~l~~~~~~~~~--~V~~~~iRLeQVLvNLl~NALDA~~~~~~~~i~i~~~~~~~---------~v 532 (603)
T COG4191 464 GALELLRGRLRAAGVELELDLPDAPL--WVMANEIRLEQVLVNLLQNALDAMAGQEDRRLSIRAQREGG---------QV 532 (603)
T ss_pred HHHHHHHHhhhccCceeeccCCCCCc--eeecchhhHHHHHHHHHHHHHHHhcCCCCCeeEEEEEecCC---------eE
Confidence 99999999999999999999887543 89999999999999999999999976566799999999888 89
Q ss_pred EEEEEcCCCCCChhhhhhhcCCC--CC--CCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCC
Q 001215 1047 EFRITHPAPGIPEKLIHDMFYHS--QG--ASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLA 1113 (1122)
Q Consensus 1047 ~~~V~D~G~GI~~e~~~~iF~~f--~~--~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~ 1113 (1122)
.++|.|||+||++|.+.++|+|| +| .+|.||||+||++|++.+||+|.+.+.+++|+ .|+|.||.+
T Consensus 533 ~l~VrDnGpGi~~e~~~~lFePF~TtK~~~~GLGLGLaIS~~i~~d~GGsL~v~n~~~~Ga-~F~i~L~~a 602 (603)
T COG4191 533 VLTVRDNGPGIAPEALPHLFEPFFTTKPVGKGLGLGLAISQNIARDLGGSLEVANHPEGGA-SFTIELRRA 602 (603)
T ss_pred EEEEccCCCCCCHHHHHhhcCCccccCcccCCcchhHHHHHHHHHHhCCeEEeecCCCCce-EEEEEeecC
Confidence 99999999999999999999999 45 67999999999999999999999998877766 677787764
No 20
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=99.97 E-value=6e-30 Score=290.31 Aligned_cols=332 Identities=17% Similarity=0.203 Sum_probs=252.4
Q ss_pred HHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHH
Q 001215 732 VMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTK 811 (1122)
Q Consensus 732 aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~ 811 (1122)
+.+++.+....+++++...+. |++.+|.+|++.-+|++++.++|.+-++++|..+. .-...
T Consensus 361 ak~~~e~rr~f~E~VLsgvta---GVi~~d~~g~i~t~N~~ae~~l~~~~~~~~G~~ls----------------a~ap~ 421 (712)
T COG5000 361 AKDALEQRRRFLEAVLSGLTA---GVIGFDNRGCITTVNPSAEQILGKPFDQLLGQSLS----------------AIAPE 421 (712)
T ss_pred HHHHHHHHHHHHHHHHhcCce---eEEEEcCCCeeEeecchHHHHhcCChhHhhcchhh----------------hhhhH
Confidence 334455566667788888888 99999999999999999999999999999998751 22223
Q ss_pred HHHHHHHHhcC-CCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHhH
Q 001215 812 LRIVMNKVISG-QDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQAAANSLNK 890 (1122)
Q Consensus 812 ~~~~l~~~l~g-~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~f 890 (1122)
+...+...-.. ......+..+. +.|+.+...+..+.... + .--|++.++.|||+-..+++. .+...-
T Consensus 422 ~~~vf~~~~a~~~~~~~~ev~~~-r~g~~rtl~Vq~t~~~~-d-~~~gyVvt~DDITdLV~AQRs---------~AW~dV 489 (712)
T COG5000 422 LEEVFAEAGAAARTDKRVEVKLA-REGEERTLNVQATREPE-D-NGNGYVVTFDDITDLVIAQRS---------AAWGDV 489 (712)
T ss_pred HHHHHHHhhhhcCCCccceeecc-cCCCceeeeeeeeeccc-c-cCCceEEEecchHHHHHHHHH---------HHHHHH
Confidence 34444444333 33344555544 45555666666554332 2 223688999999997766543 223334
Q ss_pred HHHHHHhhhhHHHHHHHHHHHhcCC---CCCH---HHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHH
Q 001215 891 LEYIRREIRKPLNGIAFMQNLMGTS---DLSE---EQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGE 963 (1122)
Q Consensus 891 La~isHELrnPLt~I~g~~~lL~~~---~l~~---~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~ 963 (1122)
...++||||||||.|.-.++-|++. ..++ ...+..++|.++...+.+|+++. +|+|. -..+++..||.+
T Consensus 490 ArRIAHEIKNPLTPIQLSAERl~rk~gk~i~eDrevfd~~tdTIirQV~dI~rMVdeF~afARm----P~p~~e~~dL~~ 565 (712)
T COG5000 490 ARRIAHEIKNPLTPIQLSAERLLRKLGKEIDEDREVFDRCTDTIIRQVEDIKRMVDEFRAFARM----PAPKLEKSDLRA 565 (712)
T ss_pred HHHHHHHhcCCCchhhhhHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC----CCCCCCcchHHH
Confidence 4679999999999999877777552 2333 34788999999999999999997 89885 356788999999
Q ss_pred HHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCC-----CCCeEEEEEEecccccC
Q 001215 964 ALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAF-----EGSSIAFRVIPQKERIG 1038 (1122)
Q Consensus 964 vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~-----~g~~I~I~v~~~~~~~~ 1038 (1122)
++.++....... ...+.+..+++.+ ++...+|+..|.|+|.||+.||.++.... .++.|+++....++
T Consensus 566 ll~e~~~L~e~~--~~~i~f~~e~g~e--pl~~~~D~~~l~Qvf~NliKNA~EAi~~~~~~e~~~~~i~~~~~~~~g--- 638 (712)
T COG5000 566 LLKEVSFLYEIG--NDHIVFAAEFGGE--PLIGMADATLLGQVFGNLLKNAAEAIEAVEAEERRTALIRVSLDDADG--- 638 (712)
T ss_pred HHHHHHHHHhcc--CCCeEEEeecCCC--ceeeecCHHHHHHHHHHHHHhHHHHhhhcccccCCcceEEEEEecCCC---
Confidence 999999877644 3578888999988 34788899999999999999999886431 22246666555555
Q ss_pred ccceeEEEEEEEEcCCCCCChhhhhhhcCCC--CCCCCccchHHHHHHHHHHcCcEEEEEecCC-ceEEEEEEEecC
Q 001215 1039 KNIHIVHLEFRITHPAPGIPEKLIHDMFYHS--QGASREGLGLYISQKLVKLMNGTVQYIREAE-RSSFLILIEFPL 1112 (1122)
Q Consensus 1039 ~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f--~~~~GtGLGL~I~r~ive~~gG~I~v~s~~g-g~tF~~~l~LP~ 1112 (1122)
.+.+.|.|||.|+|.+.+.++|||+ ++.+||||||+|+|+|+|.|||.|.....|+ .|. .|.+-||.
T Consensus 639 ------~i~v~V~DNGkG~p~e~r~r~~EPYvTtr~KGTGLGLAiVKkIvEeHGG~leL~da~d~~GA-~i~i~fp~ 708 (712)
T COG5000 639 ------RIVVDVIDNGKGFPRENRHRALEPYVTTREKGTGLGLAIVKKIVEEHGGRLELHNAPDFDGA-MIRIKFPL 708 (712)
T ss_pred ------eEEEEEecCCCCCChHHhhhhccCceecccccccccHHHHHHHHHhcCCeEEecCCCCCCCc-EEEEEccc
Confidence 8999999999999999999999997 7889999999999999999999999988765 233 67777786
No 21
>PRK09303 adaptive-response sensory kinase; Validated
Probab=99.97 E-value=2.5e-30 Score=302.88 Aligned_cols=218 Identities=19% Similarity=0.368 Sum_probs=191.0
Q ss_pred HHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCC-------HHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceee
Q 001215 884 AANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLS-------EEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLK 955 (1122)
Q Consensus 884 ~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~-------~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~ 955 (1122)
...+.+++++++|||||||++|.++++++...... +..+++++.+....++|.++++++ ++++.+.+...++
T Consensus 148 ~~~~~~l~~~iaHeLrtPLt~i~~~~e~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~li~~ll~~~~~~~~~~~~~ 227 (380)
T PRK09303 148 LKFKDRVLAMLAHDLRTPLTAASLALETLELGQIDEDTELKPALIEQLQDQARRQLEEIERLITDLLEVGRTRWEALRFN 227 (380)
T ss_pred HHHHHHHHHHHhHhhcchHHHHHHHHHHHhccCccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCceec
Confidence 34577889999999999999999999999754322 346888999999999999999997 9999999998899
Q ss_pred eEEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEeccc
Q 001215 956 SGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKE 1035 (1122)
Q Consensus 956 ~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~ 1035 (1122)
..++++.+++++++..+...+..+++.+.++++.+.| .+++|+.+|.|||.|||.||+||++ .++.|.|++....+
T Consensus 228 ~~~~~l~~ll~~~~~~~~~~~~~~~i~l~~~~~~~~~--~v~~d~~~l~qvl~NLl~NAik~~~--~~~~I~i~~~~~~~ 303 (380)
T PRK09303 228 PQKLDLGSLCQEVILELEKRWLAKSLEIQTDIPSDLP--SVYADQERIRQVLLNLLDNAIKYTP--EGGTITLSMLHRTT 303 (380)
T ss_pred cccCCHHHHHHHHHHHHHHHHHHcCCEEEEEcCCCCC--eEEeCHHHHHHHHHHHHHHHHhcCC--CCceEEEEEEecCC
Confidence 9999999999999999999999999999999988876 6899999999999999999999998 46689888755333
Q ss_pred ccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEE
Q 001215 1036 RIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIE 1109 (1122)
Q Consensus 1036 ~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~ 1109 (1122)
.++.|+|.|||+|||++.+++||+||. ..+|+||||+||+++++.|||+|++.|.+++|+ +|++.
T Consensus 304 --------~~v~i~V~D~G~GI~~~~~~~iF~pf~~~~~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~~~Gt-~f~i~ 374 (380)
T PRK09303 304 --------QKVQVSICDTGPGIPEEEQERIFEDRVRLPRDEGTEGYGIGLSVCRRIVRVHYGQIWVDSEPGQGS-CFHFT 374 (380)
T ss_pred --------CEEEEEEEEcCCCCCHHHHHHHccCceeCCCCCCCCcccccHHHHHHHHHHcCCEEEEEecCCCcc-EEEEE
Confidence 178999999999999999999999983 346999999999999999999999999988665 66667
Q ss_pred ecCCC
Q 001215 1110 FPLAH 1114 (1122)
Q Consensus 1110 LP~~~ 1114 (1122)
||+.+
T Consensus 375 lP~~~ 379 (380)
T PRK09303 375 LPVYR 379 (380)
T ss_pred EecCC
Confidence 77643
No 22
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=99.97 E-value=1.4e-27 Score=294.01 Aligned_cols=348 Identities=14% Similarity=0.191 Sum_probs=242.3
Q ss_pred EEEEEecCCCCCEEEEEEEEEcchhhHHHH--------------------------------------HHHHhHhhhhhh
Q 001215 704 VNACCTQDTKENVIGVCFVGQDITGQKLVM--------------------------------------DKYTRIQGDYVG 745 (1122)
Q Consensus 704 v~~~pi~d~~G~v~gvv~v~~DITerK~aE--------------------------------------~~L~~se~~l~~ 745 (1122)
..+.|+++.+|+++|++.+...+.+..... .++......++.
T Consensus 147 ~~a~PI~~~~g~~iGvi~v~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~~l~~~e~~~~~~~~~~~~~ 226 (545)
T PRK15053 147 RAKTPIFDDDGKVIGVVSIGYLVSKIDSWRLEFLLPMAGVFVVLLGILMLLSWFFAAHIRRQMMGMEPKQIARVVRQQEA 226 (545)
T ss_pred EEEeeeEcCCCCEEEEEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence 378999999999999988777554433321 111222344567
Q ss_pred hhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCCh--HHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCC
Q 001215 746 IVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKR--EEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQ 823 (1122)
Q Consensus 746 l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~--eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~ 823 (1122)
++++..+ |++++|.+|+|+.+|+++++++|++. ++++|+... ++++. ... +..... .
T Consensus 227 il~~~~e---gii~~D~~g~I~~~N~~a~~ll~~~~~~~~~~g~~~~-~~~~~----------~~~------~~~~~~-~ 285 (545)
T PRK15053 227 LFSSVYE---GLIAVDPHGYITAINRNARKMLGLSSPGRQWLGKPIA-EVVRP----------ADF------FTEQID-E 285 (545)
T ss_pred HHHHhCc---eEEEECCCCeEEeecHHHHHHhCCCCcchhhcCCcHH-HhCCC----------chh------hhhhcC-C
Confidence 8888888 89999999999999999999999975 468888752 22211 100 001111 1
Q ss_pred CcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhHHH
Q 001215 824 DADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQAAANSLNKLEYIRREIRKPLN 903 (1122)
Q Consensus 824 ~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~fLa~isHELrnPLt 903 (1122)
........ .+|. .+.+...|+.. +|.+.|++.+++|+|+....+.++....+.. +.+..++||++|||+
T Consensus 286 ~~~~~~~~---~~~~--~~~~~~~~i~~-~~~~~G~v~~~~d~te~~~l~~~l~~~~~~~-----e~l~~~~he~~n~L~ 354 (545)
T PRK15053 286 KRQDVVAN---FNGL--SVIANREAIRS-GDDLLGAIISFRSKDEISTLNAQLTQIKQYV-----ESLRTLRHEHLNWMS 354 (545)
T ss_pred cccceEEE---ECCE--EEEEEeeeEEE-CCeEEEEEEEEEchHHHHHHHHHHHHHHHHH-----HHHHHHHHHHhhhHH
Confidence 11122222 2443 34456667664 5677899999999999888776665544332 346678999999999
Q ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHHHHHHHHhccccccCCcE
Q 001215 904 GIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEALDAVMTQVMIPSREHQVQ 982 (1122)
Q Consensus 904 ~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~~~i~ 982 (1122)
.|.++.++-+ ..+.++.+...+..+..+++++ .... ...+ ...+......+.++++.
T Consensus 355 ~i~g~l~~~~-------~~~~~~~i~~~s~~~~~l~~~l~~~~~--------------~~~~-~~~l~~~~~~~~~~~i~ 412 (545)
T PRK15053 355 TLNGLLQMKE-------YDRVLEMVQGESQAQQQLIDSLREAFA--------------DRQV-AGLLFGKVQRARELGLK 412 (545)
T ss_pred HHHHHHhhch-------hhHHHHHHHHHHHHHHHHHHHHHHhcc--------------cHHH-HHHHHHHHHHHHHhCCc
Confidence 9999877532 2346666667777778877776 3221 1111 11221222334567788
Q ss_pred EEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCC--CCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChh
Q 001215 983 FIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTP--AFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEK 1060 (1122)
Q Consensus 983 l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~--~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e 1060 (1122)
+.+....++..+....|+..|.|||.||+.||++|+. +.+++.|.|.+...++ .+.|.|+|||+|||++
T Consensus 413 ~~~~~~~~~~~l~~~~~~~~l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~~~~---------~~~i~V~D~G~Gi~~~ 483 (545)
T PRK15053 413 MVIVPGSQLSQLPPGLDSTEFAAIVGNLLDNAFEASLRSDEGNKIVELFLSDEGD---------DVVIEVADQGCGVPES 483 (545)
T ss_pred eEEcCCCccccccccCCHHHHHHHHHHHHHHHHHHHhhCCCCCceEEEEEEECCC---------EEEEEEEeCCCCcCHH
Confidence 8776655543344577999999999999999999952 1134578888877666 7899999999999999
Q ss_pred hhhhhcCCCCC-----CCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCCC
Q 001215 1061 LIHDMFYHSQG-----ASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAHQ 1115 (1122)
Q Consensus 1061 ~~~~iF~~f~~-----~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~~ 1115 (1122)
.++++|++|.. .+|+||||+|||++++.|||+|+++|.+|+|| +|++.||..+.
T Consensus 484 ~~~~iF~~~~~tk~~~~~g~GlGL~ivk~iv~~~~G~i~v~s~~~~Gt-~f~i~lP~~~~ 542 (545)
T PRK15053 484 LRDKIFEQGVSTRADEPGEHGIGLYLIASYVTRCGGVITLEDNDPCGT-LFSIFIPKVKP 542 (545)
T ss_pred HHHHHhCCCCCCCCCCCCCceeCHHHHHHHHHHcCCEEEEEECCCCeE-EEEEEECCCCC
Confidence 99999999831 23799999999999999999999999998776 77778887553
No 23
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. 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 (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=99.97 E-value=4.2e-29 Score=328.16 Aligned_cols=226 Identities=29% Similarity=0.429 Sum_probs=202.1
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccce
Q 001215 875 QVQRISEQAAANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMV 953 (1122)
Q Consensus 875 ~L~~~ae~~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~ 953 (1122)
+.+..+++....|..|++.|+|||||||++|.|+++++.+..++++++++++.+..+++++..+++++ ++++++.+...
T Consensus 452 ~~~~~~~~~~~~~~~~~~~~sHelrtPL~~i~~~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~~i~~ll~~~~~e~~~~~ 531 (968)
T TIGR02956 452 KARAEAEEANRAKSAFLATMSHEIRTPLNGILGTLELLGDTGLTSQQQQYLQVINRSGESLLDILNDILDYSKIEAGHLS 531 (968)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHhhhHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCe
Confidence 34456677778899999999999999999999999999998889999999999999999999999997 99999999999
Q ss_pred eeeEEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEec
Q 001215 954 LKSGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQ 1033 (1122)
Q Consensus 954 l~~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~ 1033 (1122)
++..+|++.+++++++..+...+..+++.+.++++++.|. .+.+|+.+|+|||.|||.||+||++ .| .|.|++...
T Consensus 532 ~~~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~~~~d~~~l~~il~nLi~NAik~~~--~g-~i~i~~~~~ 607 (968)
T TIGR02956 532 ISPRPFDLNALLDDVHHLMVSRAQLKGIQLRLNIPEQLPN-WWQGDGPRIRQVLINLVGNAIKFTD--RG-SVVLRVSLN 607 (968)
T ss_pred eeecccCHHHHHHHHHHHHHHHHHHcCcEEEEEeCCCCCc-eEeeCHHHHHHHHHHHHHHHHhhCC--CC-eEEEEEEEc
Confidence 9999999999999999999999999999999999877653 7899999999999999999999997 34 899888776
Q ss_pred ccccCccceeEE-EEEEEEcCCCCCChhhhhhhcCCCC------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEE
Q 001215 1034 KERIGKNIHIVH-LEFRITHPAPGIPEKLIHDMFYHSQ------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLI 1106 (1122)
Q Consensus 1034 ~~~~~~~~~~~~-v~~~V~D~G~GI~~e~~~~iF~~f~------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~ 1106 (1122)
.+ . +.|+|.|+|+|||++.++++|+||. ..+|+||||+|||++++.|||+|.++|.+++|+ +|
T Consensus 608 ~~---------~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~g~GLGL~i~~~l~~~~gG~i~~~s~~~~Gt-~f 677 (968)
T TIGR02956 608 DD---------SSLLFEVEDTGCGIAEEEQATLFDAFTQADGRRRSGGTGLGLAISQRLVEAMDGELGVESELGVGS-CF 677 (968)
T ss_pred CC---------CeEEEEEEeCCCCCCHHHHHHHHhhhhccCCCCCCCCccHHHHHHHHHHHHcCCEEEEEecCCCcE-EE
Confidence 66 4 8999999999999999999999983 336999999999999999999999999988544 44
Q ss_pred EEEecCCC
Q 001215 1107 LIEFPLAH 1114 (1122)
Q Consensus 1107 ~l~LP~~~ 1114 (1122)
++.||+..
T Consensus 678 ~~~lp~~~ 685 (968)
T TIGR02956 678 WFTLPLTR 685 (968)
T ss_pred EEEEEcCC
Confidence 44555543
No 24
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=99.96 E-value=1.2e-28 Score=322.41 Aligned_cols=224 Identities=30% Similarity=0.417 Sum_probs=201.8
Q ss_pred HHHHHHHHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceee
Q 001215 877 QRISEQAAANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLK 955 (1122)
Q Consensus 877 ~~~ae~~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~ 955 (1122)
++.+++....+..|++.++|||||||++|.++++++.....+++++++++.+..++.++..+++++ ++++++.+...++
T Consensus 388 ~~~~~~~~~~~~~~~~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~~~~i~~~~~~l~~li~~ll~~~~~~~~~~~~~ 467 (921)
T PRK15347 388 KQRAEQANKRKSEHLTTISHEIRTPLNGVLGALELLQNTPLTAEQMDLADTARQCTLSLLAIINNLLDFSRIESGQMTLS 467 (921)
T ss_pred HHHHHHHHHHHHHHHHHhHHHhchhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccce
Confidence 345556667788899999999999999999999999998899999999999999999999999997 9999999999999
Q ss_pred eEEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEeccc
Q 001215 956 SGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKE 1035 (1122)
Q Consensus 956 ~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~ 1035 (1122)
.+++++.+++++++..+...+..+++.+.+.++++++. .+.+|+.+|+|||.|||.||+||++ .| .|.|++...++
T Consensus 468 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~d~~~l~~il~NLl~NAik~~~--~g-~I~i~~~~~~~ 543 (921)
T PRK15347 468 LEETALLPLLDQAMLTIQGPAQSKSLTLRTFVGAHVPL-YLHLDSLRLRQILVNLLGNAVKFTE--TG-GIRLRVKRHEQ 543 (921)
T ss_pred ecccCHHHHHHHHHHHHHHHHHHCCcEEEEEECCCCCc-eEEECHHHHHHHHHHHHHHHhhcCC--CC-CEEEEEEEcCC
Confidence 99999999999999999999999999999888887653 7899999999999999999999997 34 79998887766
Q ss_pred ccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC----CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEec
Q 001215 1036 RIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ----GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFP 1111 (1122)
Q Consensus 1036 ~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~----~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP 1111 (1122)
.+.|+|+|||+|||++.++++|+||. ..+|+||||+||+++++.|||+|+++|++|+|| +|++.||
T Consensus 544 ---------~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~g~GLGL~i~~~~~~~~gG~i~i~s~~~~Gt-~f~i~lp 613 (921)
T PRK15347 544 ---------QLCFTVEDTGCGIDIQQQQQIFTPFYQADTHSQGTGLGLTIASSLAKMMGGELTLFSTPGVGS-CFSLVLP 613 (921)
T ss_pred ---------EEEEEEEEcCCCCCHHHHHHHhcCcccCCCCCCCCchHHHHHHHHHHHcCCEEEEEecCCCce-EEEEEEE
Confidence 89999999999999999999999983 346999999999999999999999999998665 5666667
Q ss_pred CCC
Q 001215 1112 LAH 1114 (1122)
Q Consensus 1112 ~~~ 1114 (1122)
+..
T Consensus 614 ~~~ 616 (921)
T PRK15347 614 LNE 616 (921)
T ss_pred CCC
Confidence 643
No 25
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=99.96 E-value=8.2e-28 Score=313.92 Aligned_cols=221 Identities=26% Similarity=0.381 Sum_probs=195.7
Q ss_pred HHHHHHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccc--cceee
Q 001215 879 ISEQAAANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEEC--YMVLK 955 (1122)
Q Consensus 879 ~ae~~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g--~~~l~ 955 (1122)
..++....+..|++.|+|||||||++|.++++++.....++.++++++.+..+.+++..+++++ ++++++.| ...++
T Consensus 436 ~~~~~~~~~~~~l~~isHelrtPL~~i~~~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~s~~~~~~~~~~~~ 515 (914)
T PRK11466 436 EAEKASQAKSAFLAAMSHEIRTPLYGILGTAQLLADNPALNAQRDDLRAITDSGESLLTILNDILDYSAIEAGGKNVSVS 515 (914)
T ss_pred HHHHHHHHHHHHHHHhHHHHhhHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcceec
Confidence 3445566788899999999999999999999999888888899999999999999999999997 99999887 45677
Q ss_pred eEEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEeccc
Q 001215 956 SGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKE 1035 (1122)
Q Consensus 956 ~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~ 1035 (1122)
.++|++.++++.++..+...+..+++.+.+++++++|. .+.+|+.+|.|||.|||.||+||++ .| .|.|++...++
T Consensus 516 ~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~v~~d~~~l~qil~NLl~NAik~~~--~g-~I~i~~~~~~~ 591 (914)
T PRK11466 516 DEPFEPRPLLESTLQLMSGRVKGRPIRLATDIADDLPT-ALMGDPRRIRQVITNLLSNALRFTD--EG-SIVLRSRTDGE 591 (914)
T ss_pred ccccCHHHHHHHHHHHHHHHHHhCCcEEEEEeCCCCCc-eEEECHHHHHHHHHHHHHHHHHhCC--CC-eEEEEEEEcCC
Confidence 88999999999999999999999999999999887763 6899999999999999999999997 34 89999887666
Q ss_pred ccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC----CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEec
Q 001215 1036 RIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ----GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFP 1111 (1122)
Q Consensus 1036 ~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~----~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP 1111 (1122)
.+.|.|.|+|+|||++.++++|+||. +.+|+||||+||+++++.|||+|.+.|.+++|| +|++.||
T Consensus 592 ---------~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~g~GLGL~i~~~l~~~~gG~i~v~s~~~~Gt-~f~i~lP 661 (914)
T PRK11466 592 ---------QWLVEVEDSGCGIDPAKLAEIFQPFVQVSGKRGGTGLGLTISSRLAQAMGGELSATSTPEVGS-CFCLRLP 661 (914)
T ss_pred ---------EEEEEEEECCCCCCHHHHHHHhchhhcCCCCCCCCcccHHHHHHHHHHcCCEEEEEecCCCCe-EEEEEEE
Confidence 78999999999999999999999983 456899999999999999999999999988644 4444555
Q ss_pred CC
Q 001215 1112 LA 1113 (1122)
Q Consensus 1112 ~~ 1113 (1122)
+.
T Consensus 662 ~~ 663 (914)
T PRK11466 662 LR 663 (914)
T ss_pred cc
Confidence 43
No 26
>PRK10490 sensor protein KdpD; Provisional
Probab=99.96 E-value=4.8e-27 Score=300.59 Aligned_cols=216 Identities=19% Similarity=0.257 Sum_probs=183.2
Q ss_pred HHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEee
Q 001215 884 AANSLNKLEYIRREIRKPLNGIAFMQNLMGTSD--LSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFN 960 (1122)
Q Consensus 884 ~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~--l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~d 960 (1122)
.+.+..+++.++|||||||++|.++.+++.... ......+.++.+.+...++.++++++ ++++++.+...++..+++
T Consensus 661 e~lr~~lla~isHELrtPLt~I~g~~~lL~~~l~~~~~~~~~~~~~i~~~~~~l~~li~~LL~~srl~~~~~~l~~~~~~ 740 (895)
T PRK10490 661 EQLRNALLAALSHDLRTPLTVLFGQAEILTLDLASEGSPHARQASEIRQQVLNTTRLVNNLLDMARIQSGGFNLRKEWLT 740 (895)
T ss_pred HHHHHHHHHHhHHHHhHHHHHHHHHHHHHhhcccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccccC
Confidence 345667899999999999999999999875432 23344567888889999999999997 999999999999999999
Q ss_pred hHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCcc
Q 001215 961 LGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKN 1040 (1122)
Q Consensus 961 L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~ 1040 (1122)
+.+++++++..+......+++.+ +++++.+ .+.+|+..|.|||.|||.||+||++ +++.|.|++...++
T Consensus 741 L~eli~~~l~~l~~~~~~~~i~l--~~~~~~~--~v~~D~~~L~qVL~NLL~NAik~s~--~g~~I~I~~~~~~~----- 809 (895)
T PRK10490 741 LEEVVGSALQMLEPGLSGHPINL--SLPEPLT--LIHVDGPLFERVLINLLENAVKYAG--AQAEIGIDAHVEGE----- 809 (895)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEE--EcCCCCe--EEEECHHHHHHHHHHHHHHHHHhCC--CCCeEEEEEEEeCC-----
Confidence 99999999999988777666655 5666665 7899999999999999999999998 46689999887776
Q ss_pred ceeEEEEEEEEcCCCCCChhhhhhhcCCCC------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCC
Q 001215 1041 IHIVHLEFRITHPAPGIPEKLIHDMFYHSQ------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1041 ~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
.+.|+|.|+|+|||++.++++|+||. ..+|+||||+|||++++.|||+|+++|.+++|| +|++.||+..
T Consensus 810 ----~v~I~V~D~G~GI~~e~~~~IFepF~~~~~~~~~~G~GLGL~Ivk~ive~hGG~I~v~s~~~~Gt-~f~i~LPl~~ 884 (895)
T PRK10490 810 ----RLQLDVWDNGPGIPPGQEQLIFDKFARGNKESAIPGVGLGLAICRAIVEVHGGTIWAENRPEGGA-CFRVTLPLET 884 (895)
T ss_pred ----EEEEEEEECCCCCCHHHHHHhcCCCccCCCCCCCCCccHHHHHHHHHHHHcCCEEEEEECCCCeE-EEEEEeECCC
Confidence 89999999999999999999999983 225899999999999999999999999988655 5666666644
Q ss_pred C
Q 001215 1115 Q 1115 (1122)
Q Consensus 1115 ~ 1115 (1122)
.
T Consensus 885 ~ 885 (895)
T PRK10490 885 P 885 (895)
T ss_pred C
Confidence 3
No 27
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=99.96 E-value=1.3e-27 Score=312.61 Aligned_cols=227 Identities=30% Similarity=0.440 Sum_probs=196.6
Q ss_pred HHHHHHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeE
Q 001215 879 ISEQAAANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSG 957 (1122)
Q Consensus 879 ~ae~~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~ 957 (1122)
.+++....|.+|++.|+|||||||++|.|+++++.....++.++++++.+.++++++..+++++ ++++++.++..++..
T Consensus 285 ~~~~~~~~~~~~l~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~~~~~~~~~~~~~ 364 (919)
T PRK11107 285 RAQEAARIKSEFLANMSHELRTPLNGVIGFTRQTLKTPLTPTQRDYLQTIERSANNLLAIINDILDFSKLEAGKLVLENI 364 (919)
T ss_pred HHHHHHHHHHHHHHHhhHhhcccHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcEEEEe
Confidence 4455566778999999999999999999999999888888999999999999999999999997 999999999999999
Q ss_pred EeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEeccccc
Q 001215 958 EFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERI 1037 (1122)
Q Consensus 958 ~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~ 1037 (1122)
++++.+++++++..+...+..+++.+.++++++.|. .+.+|+.+|+|||.||+.||+||++ .| .|.|++.......
T Consensus 365 ~~~l~~~l~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~~~~d~~~l~~vl~NLl~NAik~~~--~g-~v~i~v~~~~~~~ 440 (919)
T PRK11107 365 PFSLRETLDEVVTLLAHSAHEKGLELTLNIDPDVPD-NVIGDPLRLQQIITNLVGNAIKFTE--SG-NIDILVELRALSN 440 (919)
T ss_pred ecCHHHHHHHHHHHHHHHHHHcCCEEEEEeCCCCCc-eEEeCHHHHHHHHHHHHHHHhhcCC--CC-cEEEEEEEEecCC
Confidence 999999999999999999999999999999887764 6899999999999999999999998 34 6666655432210
Q ss_pred CccceeEEEEEEEEcCCCCCChhhhhhhcCCCC--------CCCCccchHHHHHHHHHHcCcEEEEEecCCc-eEEEEEE
Q 001215 1038 GKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ--------GASREGLGLYISQKLVKLMNGTVQYIREAER-SSFLILI 1108 (1122)
Q Consensus 1038 ~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~--------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg-~tF~~~l 1108 (1122)
....+.|+|.|+|+|||++.+.++|+||. +.+|+||||+|||++++.|||+|+++|.+++ ++|+|++
T Consensus 441 ----~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~~g~GLGL~i~~~i~~~~gG~i~v~s~~~~Gt~f~i~l 516 (919)
T PRK11107 441 ----TKVQLEVQIRDTGIGISERQQSQLFQAFRQADASISRRHGGTGLGLVITQKLVNEMGGDISFHSQPNRGSTFWFHL 516 (919)
T ss_pred ----CeeEEEEEEEEeCCCcCHHHHHHHhhhhccCCCCCCCCCCCcchhHHHHHHHHHHhCCEEEEEecCCCCEEEEEEE
Confidence 12368999999999999999999999983 3469999999999999999999999999884 5666666
Q ss_pred EecCC
Q 001215 1109 EFPLA 1113 (1122)
Q Consensus 1109 ~LP~~ 1113 (1122)
|++..
T Consensus 517 p~~~~ 521 (919)
T PRK11107 517 PLDLN 521 (919)
T ss_pred EeccC
Confidence 55443
No 28
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=99.95 E-value=1.4e-25 Score=287.89 Aligned_cols=218 Identities=17% Similarity=0.171 Sum_probs=178.0
Q ss_pred HHhHHHHHHHhhhhHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHH
Q 001215 887 SLNKLEYIRREIRKPLNGIAFMQNLMGTS-DLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEA 964 (1122)
Q Consensus 887 k~~fLa~isHELrnPLt~I~g~~~lL~~~-~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~v 964 (1122)
...|++.++|||||||++|.++.+++... ...++..++++.+.+..+++..+++++ ++++... ....++++.++
T Consensus 450 l~~~~~~iaHeLrtPL~~I~~~~~~l~~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~----~~~~~~~l~~l 525 (828)
T PRK13837 450 VGTLASGIAHNFNNILGAILGYAEMALNKLARHSRAARYIDEIISAGARARLIIDQILAFGRKGE----RNTKPFDLSEL 525 (828)
T ss_pred HHHHHHHhhHHhhhHHHHHHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC----CCCcEEcHHHH
Confidence 34678999999999999999999987543 345677899999999999999999997 9988543 34678999999
Q ss_pred HHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCcc----
Q 001215 965 LDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKN---- 1040 (1122)
Q Consensus 965 i~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~---- 1040 (1122)
+++++..+.... .+++.+.++.++..+ .+.+|+..|.|||.||+.||+||++ +++.|.|++..........
T Consensus 526 l~~~~~~~~~~~-~~~i~l~~~~~~~~~--~v~~d~~~L~qvl~NLl~NAik~~~--~~g~I~I~~~~~~~~~~~~~~~~ 600 (828)
T PRK13837 526 VTEIAPLLRVSL-PPGVELDFDQDQEPA--VVEGNPAELQQVLMNLCSNAAQAMD--GAGRVDISLSRAKLRAPKVLSHG 600 (828)
T ss_pred HHHHHHHHHHHc-cCCcEEEEEeCCCCc--eEEECHHHHHHHHHHHHHHHHHHcc--cCCeEEEEEEEeecccccccccc
Confidence 999999887654 467888888776644 7899999999999999999999998 4668998887651100000
Q ss_pred --ceeEEEEEEEEcCCCCCChhhhhhhcCCCC--CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCC
Q 001215 1041 --IHIVHLEFRITHPAPGIPEKLIHDMFYHSQ--GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1041 --~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~--~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
....++.|+|.|||+|||++.++++|+||. +.+|+||||+||+++++.|||+|++.|.+|+|+ +|++.||...
T Consensus 601 ~~~~~~~v~i~V~D~G~GI~~e~~~~iFe~F~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~g~Gt-~f~i~LP~~~ 677 (828)
T PRK13837 601 VLPPGRYVLLRVSDTGAGIDEAVLPHIFEPFFTTRAGGTGLGLATVHGIVSAHAGYIDVQSTVGRGT-RFDVYLPPSS 677 (828)
T ss_pred cCCCCCEEEEEEEECCCCCCHHHHHHhhCCcccCCCCCCcchHHHHHHHHHHCCCEEEEEecCCCeE-EEEEEEeCCC
Confidence 012278999999999999999999999983 447999999999999999999999999988655 5666667643
No 29
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=99.95 E-value=8.5e-25 Score=249.58 Aligned_cols=357 Identities=18% Similarity=0.239 Sum_probs=261.3
Q ss_pred CCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHH--------------------------------------HHh
Q 001215 697 SGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDK--------------------------------------YTR 738 (1122)
Q Consensus 697 G~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~--------------------------------------L~~ 738 (1122)
|.--+..=-..|++|++|+++|++.+.--+++.-..-.. +..
T Consensus 133 Gslg~s~R~~~PI~d~~g~~IGvVsVG~~l~~i~~~i~~~~~~l~~~~vl~lligl~ga~~la~~ikr~~~glEP~EIa~ 212 (537)
T COG3290 133 GSLGKSLRAKVPIFDEDGKQIGVVSVGYLLSEIDDVILEFLRPLALIVVLGLLIGLLGAWILARHIKRQMLGLEPEEIAT 212 (537)
T ss_pred ccchhhheeecceECCCCCEEEEEEEeeEhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence 333333334579999999999999998877765443222 123
Q ss_pred HhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChH--HHhhhhccccccccccccccccCcchHHHHHHHH
Q 001215 739 IQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKRE--EAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVM 816 (1122)
Q Consensus 739 se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~e--eliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l 816 (1122)
.-+.-.+++++... |++.+|..|.+..+|.++++++|+... +.+|+.....+.+. -+.
T Consensus 213 l~~er~A~l~si~E---GviAvd~~G~It~~N~~A~~ll~~~~~~~~~ig~~i~~v~~p~----------~~l------- 272 (537)
T COG3290 213 LLEERQAMLQSIKE---GVIAVDKKGVITLINQAAQKLLGLRQPSGDPIGRSIVEVLPPD----------SDL------- 272 (537)
T ss_pred HHHHHHHHHHHhhc---eEEEECCCCeEeehhHHHHHHhcccCcCcccccccceEeeccc----------cCc-------
Confidence 33444577787877 999999999999999999999999865 68888764333211 011
Q ss_pred HHHhc-CCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 001215 817 NKVIS-GQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQAAANSLNKLEYIR 895 (1122)
Q Consensus 817 ~~~l~-g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~~~~k~~fLa~is 895 (1122)
..++. ++....-++ .-+|+ ++.+...|+. .+|+++|++.+++|-||-++..++|....+-+. .|...+
T Consensus 273 ~~vl~~~~~~~~~e~---~~ng~--~~i~nr~pI~-~~~~~~GaI~tFRdktei~~L~eqLt~vr~ya~-----aLRaq~ 341 (537)
T COG3290 273 PEVLETGKPQHDEEI---RINGR--LLVANRVPIR-SGGQIVGAIITFRDKTEIKKLTEQLTGVRQYAE-----ALRAQS 341 (537)
T ss_pred HHHHhcCCcccchhh---hcCCe--EEEEEeccEE-ECCEEeEEEEEEecHHHHHHHHHHHHHHHHHHH-----HHHHhh
Confidence 11122 222222222 22444 3445566665 588999999999999998888877766555443 356679
Q ss_pred HhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhhcccccccccceeeeEEeehHHHHHHHHHHhccc
Q 001215 896 REIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDTDIESIEECYMVLKSGEFNLGEALDAVMTQVMIP 975 (1122)
Q Consensus 896 HELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dLd~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~ 975 (1122)
||..|-|+.|.|++++-+ -++..+++..+.+. -...++.+ +.++. ..++..++-.-...
T Consensus 342 HEfmNkLhtI~GLlql~~----yd~a~~~I~~~~~~---qq~~~~~l-~~~i~-------------~~~lAg~LlgK~~r 400 (537)
T COG3290 342 HEFMNKLHTILGLLQLGE----YDDALDYIQQESEE---QQELIDSL-SEKIK-------------DPVLAGFLLGKISR 400 (537)
T ss_pred HHHHHHHHHHHHHHhhcc----HHHHHHHHHHHHhh---hhhhHHHH-HHhcc-------------cHHHHHHHHhHHHH
Confidence 999999999999999744 34555666555443 33334333 11111 24566666666677
Q ss_pred cccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCC-CCCCCeEEEEEEecccccCccceeEEEEEEEEcCC
Q 001215 976 SREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTP-AFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPA 1054 (1122)
Q Consensus 976 ~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~-~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G 1054 (1122)
+++.|+.+.++....+|...-.-++..+--|+-||+.||+.+.- +.++.+|++++...++ ++.++|.|+|
T Consensus 401 ArElgv~l~Id~~S~l~~~p~~~~~~~litIlGNLidNA~eA~~~~~~~k~I~l~i~~~~~---------~lvieV~D~G 471 (537)
T COG3290 401 ARELGVSLIIDPNSQLPQLPSELQPHDLVTILGNLIDNALEALLAPEENKEIELSLSDRGD---------ELVIEVADTG 471 (537)
T ss_pred HHHcCceEEEcCCCcCCCCCCccChHHHHHHHHHHHHHHHHHhhccCCCcEEEEEEEecCC---------EEEEEEeCCC
Confidence 88999999999999988766778899999999999999999876 4455799999999888 9999999999
Q ss_pred CCCChhhhhhhcCCC--CCC-CCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCCC
Q 001215 1055 PGIPEKLIHDMFYHS--QGA-SREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAHQ 1115 (1122)
Q Consensus 1055 ~GI~~e~~~~iF~~f--~~~-~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~~ 1115 (1122)
+|||++..+++|+.. ++. .+.|+||++|+++|+.+||.|+++|+.+.+| +|++.+|....
T Consensus 472 ~GI~~~~~~~iFe~G~Stk~~~~rGiGL~Lvkq~V~~~~G~I~~~s~~~~Gt-~F~i~iP~~~~ 534 (537)
T COG3290 472 PGIPPEVRDKIFEKGVSTKNTGGRGIGLYLVKQLVERLGGSIEVESEKGQGT-RFSIYIPKVKE 534 (537)
T ss_pred CCCChHHHHHHHhcCccccCCCCCchhHHHHHHHHHHcCceEEEeeCCCCce-EEEEECCCCcc
Confidence 999999999999984 455 7899999999999999999999999877666 78888897654
No 30
>PRK10364 sensor protein ZraS; Provisional
Probab=99.95 E-value=8.7e-26 Score=271.79 Aligned_cols=214 Identities=18% Similarity=0.262 Sum_probs=185.9
Q ss_pred HhHHHHHHHhhhhHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHH
Q 001215 888 LNKLEYIRREIRKPLNGIAFMQNLMGTS-DLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEAL 965 (1122)
Q Consensus 888 ~~fLa~isHELrnPLt~I~g~~~lL~~~-~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi 965 (1122)
.++.+.++||+||||+.|.++++++.+. ...++.+++++.+.+..+++..+++++ ++++. ......++++.+++
T Consensus 238 ~~~~~~laHelrtpL~~i~~~~~~l~~~~~~~~~~~~~~~~i~~~~~~l~~~i~~ll~~~~~----~~~~~~~~~l~~~l 313 (457)
T PRK10364 238 GHLAAGVAHEIRNPLSSIKGLAKYFAERAPAGGEAHQLAQVMAKEADRLNRVVSELLELVKP----THLALQAVDLNDLI 313 (457)
T ss_pred HHHHHHhhHHhccHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHHHHHHHHHHHHhCc----CCCcceEecHHHHH
Confidence 3567889999999999999999988653 334567788889999999999999997 88773 24567889999999
Q ss_pred HHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEE
Q 001215 966 DAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVH 1045 (1122)
Q Consensus 966 ~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~ 1045 (1122)
+.++..+...+.++++.+.++.++..+ .+.+|+.+|.|++.||+.||+||++ +++.|.|++...++ .
T Consensus 314 ~~~~~~~~~~~~~~~i~l~~~~~~~~~--~~~~d~~~l~~il~NLl~NA~k~~~--~~~~I~i~~~~~~~---------~ 380 (457)
T PRK10364 314 NHSLQLVSQDANSREIQLRFTANDTLP--EIQADPDRLTQVLLNLYLNAIQAIG--QHGVISVTASESGA---------G 380 (457)
T ss_pred HHHHHHHHHHHHhcCeEEEEEcCCCCc--eEEECHHHHHHHHHHHHHHHHHhcC--CCCeEEEEEEEeCC---------e
Confidence 999999999999999999999888765 6789999999999999999999987 46699999988777 7
Q ss_pred EEEEEEcCCCCCChhhhhhhcCCC--CCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCCCCCCC
Q 001215 1046 LEFRITHPAPGIPEKLIHDMFYHS--QGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAHQKDAD 1119 (1122)
Q Consensus 1046 v~~~V~D~G~GI~~e~~~~iF~~f--~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~~~~~~ 1119 (1122)
+.|+|.|||+|||++.++++|++| .+.+|+||||+|||++++.|||+|+++|.+++|| +|++.||.......+
T Consensus 381 ~~i~V~D~G~Gi~~~~~~~if~~~~~~k~~g~GlGL~iv~~~v~~~gG~i~i~s~~~~Gt-~f~i~lP~~~~~~~~ 455 (457)
T PRK10364 381 VKISVTDSGKGIAADQLEAIFTPYFTTKAEGTGLGLAVVHNIVEQHGGTIQVASQEGKGA-TFTLWLPVNITRRDP 455 (457)
T ss_pred EEEEEEECCCCCCHHHHHHHhCccccCCCCCCcccHHHHHHHHHHCCCEEEEEeCCCCcE-EEEEEecCCCccCCc
Confidence 999999999999999999999998 4567999999999999999999999999988776 788888886554433
No 31
>PRK10815 sensor protein PhoQ; Provisional
Probab=99.94 E-value=1.9e-25 Score=269.27 Aligned_cols=211 Identities=17% Similarity=0.237 Sum_probs=178.0
Q ss_pred HHHhHHHHHHHhhhhHHHHHHHHHHHhcCCC-CCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHH
Q 001215 886 NSLNKLEYIRREIRKPLNGIAFMQNLMGTSD-LSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGE 963 (1122)
Q Consensus 886 ~k~~fLa~isHELrnPLt~I~g~~~lL~~~~-l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~ 963 (1122)
...+|++.++|||||||+.|.++++.+.... ...+ +....+.+...++.++++++ +.++...+...+..+.+++..
T Consensus 265 ~~~~~l~~isHELRTPLt~I~~~l~~L~~~~~~~~~--~~~~~~~~~i~ri~~~i~~ll~~~~~~~~~~~~~~~~~~l~~ 342 (485)
T PRK10815 265 KYRTTLTDLTHSLKTPLAVLQSTLRSLRSGKQMSVE--QAEPIMLEQISRISQQIGYYLHRASMRSEHNLLSRELHSVAP 342 (485)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcccccceecHHH
Confidence 3446889999999999999999999886643 2322 33345566677888888885 888888887788889999999
Q ss_pred HHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCcccee
Q 001215 964 ALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHI 1043 (1122)
Q Consensus 964 vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~ 1043 (1122)
++++++..+...+..+++.+.++++++. .+.+|+..|.+|+.||+.||+||++ + .|+|++...++
T Consensus 343 ll~~~~~~l~~~~~~~~i~i~~~~~~~~---~v~~d~~~l~~vl~NLi~NAik~~~---~-~i~I~~~~~~~-------- 407 (485)
T PRK10815 343 LLDNLTSALNKVYQRKGVNITLDISPEI---TFVGEKNDFMEVMGNVLDNACKYCL---E-FVEISARQTDE-------- 407 (485)
T ss_pred HHHHHHHHHHHHHHHCCcEEEEecCCCc---EEEeCHHHHHHHHHHHHHHHHHhcC---C-cEEEEEEEeCC--------
Confidence 9999999999988899999999988764 6789999999999999999999997 2 56777766666
Q ss_pred EEEEEEEEcCCCCCChhhhhhhcCCCC----CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCCC
Q 001215 1044 VHLEFRITHPAPGIPEKLIHDMFYHSQ----GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAHQ 1115 (1122)
Q Consensus 1044 ~~v~~~V~D~G~GI~~e~~~~iF~~f~----~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~~ 1115 (1122)
.+.|+|+|+|+|||++.++++|+||. ..+|+||||+||+++++.|||+|.+.|.+++|| +|++.||..+.
T Consensus 408 -~v~I~V~D~G~GI~~e~~~~iF~~f~~~~~~~~G~GLGL~Ivk~iv~~~gG~i~v~s~~~~Gt-~f~i~lp~~~~ 481 (485)
T PRK10815 408 -HLHIVVEDDGPGIPESKRELIFDRGQRADTLRPGQGLGLSVAREITEQYEGKISAGDSPLGGA-RMEVIFGRQHS 481 (485)
T ss_pred -EEEEEEEECCCCcCHHHHHHHhCCcccCCCCCCCcchhHHHHHHHHHHcCCEEEEEECCCCEE-EEEEEEcCCCC
Confidence 88999999999999999999999983 235899999999999999999999999988776 67777787543
No 32
>PRK10604 sensor protein RstB; Provisional
Probab=99.94 E-value=2.1e-25 Score=266.32 Aligned_cols=209 Identities=18% Similarity=0.237 Sum_probs=175.7
Q ss_pred HHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHH
Q 001215 885 ANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGE 963 (1122)
Q Consensus 885 ~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~ 963 (1122)
..+.++++.++|||||||+.|.+.+++++... ++..+ .+.+..+++.++++++ .+++++.+..++..+++++.+
T Consensus 210 ~~~~~l~~~vsHeLrtPL~~i~~~l~~l~~~~--~~~~~---~i~~~~~~l~~li~~ll~~~rl~~~~~~~~~~~~~l~~ 284 (433)
T PRK10604 210 ASKKQLIDGIAHELRTPLVRLRYRLEMSDNLS--AAESQ---ALNRDIGQLEALIEELLTYARLDRPQNELHLSEPDLPA 284 (433)
T ss_pred HHHHHHHHHhhHhhcChHHHHHHHHHHhcCCC--cHHHH---HHHHHHHHHHHHHHHHHHHHhccCCCcccCCCCCCHHH
Confidence 34567889999999999999999999887432 22222 2667788999999997 999999888888999999999
Q ss_pred HHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCcccee
Q 001215 964 ALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHI 1043 (1122)
Q Consensus 964 vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~ 1043 (1122)
++++++..+......+++++.++.++. .+.+|+..+.+++.||+.||+||+. + .|.|++...++
T Consensus 285 ~l~~~i~~~~~~~~~~~i~~~~~~~~~----~~~~d~~~l~~vl~NLl~NAik~~~---~-~I~I~~~~~~~-------- 348 (433)
T PRK10604 285 WLSTHLADIQAVTPEKTVRLDTPHQGD----YGALDMRLMERVLDNLLNNALRYAH---S-RVRVSLLLDGN-------- 348 (433)
T ss_pred HHHHHHHHHHHHhhcCcEEEEecCCCc----eEecCHHHHHHHHHHHHHHHHHhCC---C-eEEEEEEEECC--------
Confidence 999999999888777777776654432 5778999999999999999999985 4 78888887777
Q ss_pred EEEEEEEEcCCCCCChhhhhhhcCCCC--------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCCC
Q 001215 1044 VHLEFRITHPAPGIPEKLIHDMFYHSQ--------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAHQ 1115 (1122)
Q Consensus 1044 ~~v~~~V~D~G~GI~~e~~~~iF~~f~--------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~~ 1115 (1122)
.+.|+|.|||+|||++.++++|+||. +.+|+||||+||+++++.|||+|.+++.+++|+ +|++.||....
T Consensus 349 -~~~I~V~D~G~Gi~~e~~~~if~~f~r~~~~~~~~~~g~GLGL~ivk~i~~~~gG~i~v~s~~~~G~-~f~i~lP~~~~ 426 (433)
T PRK10604 349 -QACLIVEDDGPGIPPEERERVFEPFVRLDPSRDRATGGCGLGLAIVHSIALAMGGSVNCDESELGGA-RFSFSWPVWHN 426 (433)
T ss_pred -EEEEEEEEcCCCCCHHHHhhcCCCCccCCCCCCCCCCCccchHHHHHHHHHHCCCEEEEEecCCCee-EEEEEEeCCCC
Confidence 78999999999999999999999983 235899999999999999999999999988665 66777777654
Q ss_pred C
Q 001215 1116 K 1116 (1122)
Q Consensus 1116 ~ 1116 (1122)
.
T Consensus 427 ~ 427 (433)
T PRK10604 427 L 427 (433)
T ss_pred C
Confidence 3
No 33
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=99.93 E-value=2.1e-24 Score=251.17 Aligned_cols=210 Identities=18% Similarity=0.260 Sum_probs=171.3
Q ss_pred HHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeeh-HHH
Q 001215 887 SLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNL-GEA 964 (1122)
Q Consensus 887 k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL-~~v 964 (1122)
+.++++.++|||||||++|.+.++++..... .+. ..+.+..+++...++++ ++++............+++ .++
T Consensus 137 ~~~~~~~~sHelrtPL~~i~~~~e~l~~~~~-~~~----~~~~~~~~~l~~~i~~ll~~~r~~~~~~~~~~~~~~l~~~~ 211 (356)
T PRK10755 137 ERLFTADVAHELRTPLAGIRLHLELLEKQHH-IDV----APLIARLDQMMHTVEQLLQLARAGQSFSSGHYQTVKLLEDV 211 (356)
T ss_pred HHHHHHHhhHhhcChHHHHHHHHHHHHhccc-hhH----HHHHHHHHHHHHHHHHHHHHHHcccccccccchhhhHHHHH
Confidence 3458899999999999999999988765422 222 23334456788888886 8888766555566677888 999
Q ss_pred HHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeE
Q 001215 965 LDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIV 1044 (1122)
Q Consensus 965 i~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~ 1044 (1122)
+..++..+...+..+++.+.++.++. ...+.+|+..+.+|+.||+.||+||++ +++.|.|++...++
T Consensus 212 i~~~~~~~~~~~~~~~~~~~~~~~~~--~~~v~~d~~~l~~il~nLi~NA~k~~~--~~~~I~I~~~~~~~--------- 278 (356)
T PRK10755 212 ILPSQDELSEMLEQRQQTLLLPESAA--DITVQGDATLLRLLLRNLVENAHRYSP--EGSTITIKLSQEDG--------- 278 (356)
T ss_pred HHHHHHHHHHHHHHhCCeEEeccCCC--ceEEEECHHHHHHHHHHHHHHHHhhCC--CCCcEEEEEEEcCC---------
Confidence 99988888888888888888753332 237899999999999999999999997 46689999877666
Q ss_pred EEEEEEEcCCCCCChhhhhhhcCCCC----CCCCccchHHHHHHHHHHcCcEEEEEecCC-ceEEEEEEEecCCCC
Q 001215 1045 HLEFRITHPAPGIPEKLIHDMFYHSQ----GASREGLGLYISQKLVKLMNGTVQYIREAE-RSSFLILIEFPLAHQ 1115 (1122)
Q Consensus 1045 ~v~~~V~D~G~GI~~e~~~~iF~~f~----~~~GtGLGL~I~r~ive~~gG~I~v~s~~g-g~tF~~~l~LP~~~~ 1115 (1122)
.+.|+|+|||+||+++.++++|++|. ..+|+||||+||+++++.|||+|+++|.++ +|| +|++.||....
T Consensus 279 ~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~g~GlGL~i~~~i~~~~gg~i~i~s~~~~~Gt-~~~i~~p~~~~ 353 (356)
T PRK10755 279 GAVLAVEDEGPGIDESKCGELSKAFVRMDSRYGGIGLGLSIVSRITQLHHGQFFLQNRQERSGT-RAWVWLPKAQN 353 (356)
T ss_pred EEEEEEEECCCCCCHHHHHHhCCCeEeCCCCCCCcCHHHHHHHHHHHHCCCEEEEEECCCCCeE-EEEEEecCCCc
Confidence 78999999999999999999999983 457999999999999999999999999987 665 78888887543
No 34
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=99.93 E-value=2e-24 Score=260.51 Aligned_cols=218 Identities=20% Similarity=0.276 Sum_probs=188.1
Q ss_pred HHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehH
Q 001215 884 AANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLG 962 (1122)
Q Consensus 884 ~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~ 962 (1122)
...+.++++.++||++|||+.|.+.++.+.+... +...+.+..+....+++..+++++ ++++.+.+...+...++++.
T Consensus 237 ~~~~~~~~~~~shel~~pL~~i~~~~~~l~~~~~-~~~~~~l~~~~~~~~~l~~li~~l~~l~~~~~~~~~~~~~~~~~~ 315 (466)
T PRK10549 237 EQMRRDFMADISHELRTPLAVLRGELEAIQDGVR-KFTPESVASLQAEVGTLTKLVDDLHQLSLSDEGALAYRKTPVDLV 315 (466)
T ss_pred HHHHHHHHHHHhHHhCChHHHHHHHHHHHHhccc-cCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccCCCCHH
Confidence 3445678899999999999999999988865422 223456777778888999999997 88888888889999999999
Q ss_pred HHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccce
Q 001215 963 EALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIH 1042 (1122)
Q Consensus 963 ~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~ 1042 (1122)
++++.++..+......+++++.+++++.. .+.+|+..|.|++.|||.||++|++ +++.|.|.+...++
T Consensus 316 ~~l~~~~~~~~~~~~~~~i~i~~~~~~~~---~~~~d~~~l~qvl~nll~NAi~~~~--~~~~I~i~~~~~~~------- 383 (466)
T PRK10549 316 PLLEVAGGAFRERFASRGLTLQLSLPDSA---TVFGDPDRLMQLFNNLLENSLRYTD--SGGSLHISAEQRDK------- 383 (466)
T ss_pred HHHHHHHHHHHHHHHHCCcEEEEecCCCc---EEEeCHHHHHHHHHHHHHHHHHhCC--CCCEEEEEEEEcCC-------
Confidence 99999999999888889999999988764 6789999999999999999999998 46699999888777
Q ss_pred eEEEEEEEEcCCCCCChhhhhhhcCCCCC--------CCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCC
Q 001215 1043 IVHLEFRITHPAPGIPEKLIHDMFYHSQG--------ASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1043 ~~~v~~~V~D~G~GI~~e~~~~iF~~f~~--------~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
.+.|.|.|||+|||++.+.++|+||.. .+|+||||+||+++++.|||++.+++.+++|+ +|++.||+..
T Consensus 384 --~~~i~V~D~G~Gi~~e~~~~lf~~~~~~~~~~~~~~~g~GlGL~iv~~i~~~~~G~l~~~s~~~~G~-~~~i~lP~~~ 460 (466)
T PRK10549 384 --TLRLTFADSAPGVSDEQLQKLFERFYRTEGSRNRASGGSGLGLAICLNIVEAHNGRIIAAHSPFGGV-SITVELPLER 460 (466)
T ss_pred --EEEEEEEecCCCcCHHHHHHhccCcccCCCCcCCCCCCCcHHHHHHHHHHHHcCCEEEEEECCCCeE-EEEEEccCCC
Confidence 899999999999999999999999832 34899999999999999999999999988776 7788888876
Q ss_pred CCC
Q 001215 1115 QKD 1117 (1122)
Q Consensus 1115 ~~~ 1117 (1122)
...
T Consensus 461 ~~~ 463 (466)
T PRK10549 461 DLQ 463 (466)
T ss_pred CCC
Confidence 543
No 35
>TIGR03785 marine_sort_HK proteobacterial dedicated sortase system histidine kinase. This histidine kinase protein is paired with an adjacent response regulator (TIGR03787) gene. It co-occurs with a variant sortase enzyme (TIGR03784), usually in the same gene neighborhood, in proteobacterial species most of which are marine, and with an LPXTG motif-containing sortase target conserved protein (TIGR03788). Sortases and LPXTG proteins are far more common in Gram-positive bacteria, where sortase systems mediate attachment to the cell wall or cross-linking of pilin structures. We give this predicted sensor histidine kinase the gene symbol psdS, for Proteobacterial Dedicated Sortase system Sensor histidine kinase.
Probab=99.92 E-value=1.1e-23 Score=263.86 Aligned_cols=211 Identities=19% Similarity=0.330 Sum_probs=182.9
Q ss_pred HHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHH
Q 001215 886 NSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEA 964 (1122)
Q Consensus 886 ~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~v 964 (1122)
....+.+.++||+||||+.|.+.++.+......++..++++.+.+..+++..+++++ ++++++.+....+.+++++.++
T Consensus 484 ~l~~~s~~lSHELrtPL~~I~~~le~L~~~~~~~~~~~~le~i~~~i~~L~~li~~l~~~arle~~~~~~~~~~~dl~~l 563 (703)
T TIGR03785 484 YLENMSSRLSHELRTPVAVVRSSLENLELQALEQEKQKYLERAREGTERLSMILNNMSEATRLEQAIQSAEVEDFDLSEV 563 (703)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccccceeecHHHH
Confidence 344577899999999999999999999887778888889999999999999999997 8999888777788899999999
Q ss_pred HHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeE
Q 001215 965 LDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIV 1044 (1122)
Q Consensus 965 i~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~ 1044 (1122)
+++++..+......+++.+.++.++ ..+.+|+..|.|++.|||.||+||++ +++.|.|++...++
T Consensus 564 l~~~i~~~~~~~~~~~i~l~i~~~~----~~i~~d~~~L~~il~NLI~NAik~s~--~~~~I~I~~~~~~~--------- 628 (703)
T TIGR03785 564 LSGCMQGYQMTYPPQRFELNIPETP----LVMRGSPELIAQMLDKLVDNAREFSP--EDGLIEVGLSQNKS--------- 628 (703)
T ss_pred HHHHHHHHHHHhhcCCEEEEecCCC----eEEEECHHHHHHHHHHHHHHHHHHCC--CCCeEEEEEEEcCC---------
Confidence 9999999998888887777665433 27899999999999999999999998 46689999887776
Q ss_pred EEEEEEEcCCCCCChhhhhhhcCCCC--C------CCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEec
Q 001215 1045 HLEFRITHPAPGIPEKLIHDMFYHSQ--G------ASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFP 1111 (1122)
Q Consensus 1045 ~v~~~V~D~G~GI~~e~~~~iF~~f~--~------~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP 1111 (1122)
.+.|+|.|+|+|||++.++++|+||. + .+|+||||+|||+|++.|||+|.+.+.+++..++|+|.||
T Consensus 629 ~v~I~V~D~G~GI~~e~~~~IFe~F~t~~~~~~~~~~g~GLGL~Ivr~Iv~~~gG~I~v~s~~~g~Gt~f~I~LP 703 (703)
T TIGR03785 629 HALLTVSNEGPPLPEDMGEQLFDSMVSVRDQGAQDQPHLGLGLYIVRLIADFHQGRIQAENRQQNDGVVFRISLP 703 (703)
T ss_pred EEEEEEEEcCCCCCHHHHHHHhCCCeecCCCCCCCCCCccHHHHHHHHHHHHcCCEEEEEECCCCCeEEEEEEeC
Confidence 89999999999999999999999983 1 2378999999999999999999999987632236777777
No 36
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.92 E-value=4.8e-24 Score=283.95 Aligned_cols=273 Identities=12% Similarity=0.102 Sum_probs=231.1
Q ss_pred eccchhhhHHHHHHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCc-ccccccCCchHHHHH
Q 001215 592 NVPSVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTA-LVDLVAGDSVDVVKN 670 (1122)
Q Consensus 592 ~~r~~~~~~~~~~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~-~~dl~~~~~~~~~~~ 670 (1122)
..+|+++++++++++++.+++++.+++.+++++|.+|.++++++||+++.+++|++.++..+.. +.+.++|++.+.+..
T Consensus 391 ~~~DITerk~~e~~l~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~n~~~~~l~G~~~~~~~~~~~~~~~~~p~d~~~~~~ 470 (1092)
T PRK09776 391 QIEDINELKRTEQVNERLMERITLANEAGGIGIWEWDLKPNIISWDKRMFELYEIPPHIKPTWQVWYACLHPEDRQRVEK 470 (1092)
T ss_pred hHHhhHHHHHHHHHHHHHHHHHHHHHHhcCceEEEEecCCCeEeeCHHHHHHhCCCcccCCCHHHHHHhcCHhHHHHHHH
Confidence 3467888999999999999999999999999999999999999999999999999998854433 447789999999988
Q ss_pred HHHHHHcCCcceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhhcCC
Q 001215 671 MLSSAFLGIEERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIVSSP 750 (1122)
Q Consensus 671 ~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~e~~ 750 (1122)
.+.....++.....+++++ ++|| .+|+.....+++|.+|++.+++++.+|||++|++++++++++++++.++++.
T Consensus 471 ~~~~~~~~~~~~~~e~r~~----~~dG-~~w~~~~~~~~~d~~G~~~~~ig~~~DITerk~~e~~L~~~~~~l~~~l~~~ 545 (1092)
T PRK09776 471 EIRDALQGRSPFKLEFRIV----VKDG-VRHIRALANRVLNKDGEVERLLGINMDMTEVRQLNEALFQEKERLHITLDSI 545 (1092)
T ss_pred HHHHHHhcCCCeeEEEEEE----cCCc-eEEEEEeeEEEECCCCCEEEEEeeeeehhHHHHHHHHHHHHHHHHHHHHhcc
Confidence 9999998887766666554 6789 9999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCc--cee
Q 001215 751 SALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDA--DKI 828 (1122)
Q Consensus 751 ~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~--~~~ 828 (1122)
++ +|+.+|.+|+++++|+++++++||+.++++|++... ++. ..+++....... +......... ...
T Consensus 546 ~~---~i~~~D~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~-~~~-------~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 613 (1092)
T PRK09776 546 GE---AVVCTDMAMKVTFMNPVAEKMTGWTQEEALGVPLLT-VLH-------ITFGDNGPLMEN-IYSCLTSRSAAYLEQ 613 (1092)
T ss_pred cc---EEEEECCCCeEEEEcHHHHHHhCCCHHHHcCCCHHH-Hcc-------cccCCcchhhHH-HHHHHhcCCCccccc
Confidence 98 899999999999999999999999999999987532 221 111222222222 3333333333 456
Q ss_pred EEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHH
Q 001215 829 LFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISE 881 (1122)
Q Consensus 829 e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae 881 (1122)
++.+.+++|+.+|+..+..|+.+.+|++.|++++++|||++|+.++++++.+.
T Consensus 614 ~~~~~~~~G~~~~~~~~~~pi~~~~g~~~g~v~~~~DITe~k~~e~~L~~~a~ 666 (1092)
T PRK09776 614 DVVLHCRSGGSYDVHYSITPLSTLDGENIGSVLVIQDVTESRKMLRQLSYSAS 666 (1092)
T ss_pred eEEEEeCCCcEEEEEEEeeeeecCCCCEEEEEEEEEecchHHHHHHHHHhhcC
Confidence 77788999999999999999999999999999999999999999887765443
No 37
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.91 E-value=4e-23 Score=275.20 Aligned_cols=268 Identities=13% Similarity=0.097 Sum_probs=237.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcC
Q 001215 599 RIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLG 678 (1122)
Q Consensus 599 ~~~~~~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g 678 (1122)
.++.+++|++++++++.++++++++|+.+|.+|+++++|+++++++||+.++++|+++.++++|++.+.....+.....+
T Consensus 271 ~r~~~~~l~~~e~r~~~l~e~~~~~i~~~d~dG~i~~~N~~~~~l~G~~~~el~g~~~~~~~~~~d~~~~~~~~~~~~~~ 350 (1092)
T PRK09776 271 FRAERKHISESETRFRNAMEYSAIGMALVGTEGQWLQVNKALCQFLGYSQEELRGLTFQQLTWPEDLNKDLQQVEKLLSG 350 (1092)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCceEEEEcCCCcEEehhHHHHHHhCCCHHHHccCCceeccCcchhHhHHHHHHHHHcC
Confidence 55667789999999999999999999999999999999999999999999999999999999999988887788777776
Q ss_pred CcceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhhcCCCCCCCCeE
Q 001215 679 IEERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIVSSPSALIPPIF 758 (1122)
Q Consensus 679 ~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~e~~~~li~~I~ 758 (1122)
+.. ..+.+.+ ..++||..+|+.++..+++|.+|++.+++++++|||++|++|+++++++++++.+++..+. ++|
T Consensus 351 ~~~-~~~~e~~--~~~~dG~~~~~~~~~~~~~~~~g~~~~~i~~~~DITerk~~e~~l~~~~~~~~~~~~~~~~---~i~ 424 (1092)
T PRK09776 351 EIN-SYSMEKR--YYRRDGEVVWALLAVSLVRDTDGTPLYFIAQIEDINELKRTEQVNERLMERITLANEAGGI---GIW 424 (1092)
T ss_pred Ccc-ceeeeeE--EEcCCCCEEEEEEEEEEEECCCCCEeeehhhHHhhHHHHHHHHHHHHHHHHHHHHHHhcCc---eEE
Confidence 532 1222222 2378999999999999999999999999999999999999999999999999999999988 899
Q ss_pred EecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEEEEccCCC
Q 001215 759 MTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFGFFDQQGK 838 (1122)
Q Consensus 759 ~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~ 838 (1122)
.+|.++++++||+++.+++|+++++..+... +....+|++.......+...+.++.....++++.++||
T Consensus 425 ~~d~~~~~~~~n~~~~~l~G~~~~~~~~~~~----------~~~~~~p~d~~~~~~~~~~~~~~~~~~~~e~r~~~~dG- 493 (1092)
T PRK09776 425 EWDLKPNIISWDKRMFELYEIPPHIKPTWQV----------WYACLHPEDRQRVEKEIRDALQGRSPFKLEFRIVVKDG- 493 (1092)
T ss_pred EEecCCCeEeeCHHHHHHhCCCcccCCCHHH----------HHHhcCHhHHHHHHHHHHHHHhcCCCeeEEEEEEcCCc-
Confidence 9999999999999999999999888443322 23446688888888888999999999999999999999
Q ss_pred EEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHH
Q 001215 839 YVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQA 883 (1122)
Q Consensus 839 ~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~ 883 (1122)
.+|+.....++.|.+|++.+++++.+|||++|++++++++.+++.
T Consensus 494 ~~w~~~~~~~~~d~~G~~~~~ig~~~DITerk~~e~~L~~~~~~l 538 (1092)
T PRK09776 494 VRHIRALANRVLNKDGEVERLLGINMDMTEVRQLNEALFQEKERL 538 (1092)
T ss_pred eEEEEEeeEEEECCCCCEEEEEeeeeehhHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999988766654
No 38
>PRK09835 sensor kinase CusS; Provisional
Probab=99.91 E-value=5.5e-23 Score=249.11 Aligned_cols=211 Identities=20% Similarity=0.313 Sum_probs=177.9
Q ss_pred HHHHhHHHHHHHhhhhHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehH
Q 001215 885 ANSLNKLEYIRREIRKPLNGIAFMQNLMGTS-DLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLG 962 (1122)
Q Consensus 885 ~~k~~fLa~isHELrnPLt~I~g~~~lL~~~-~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~ 962 (1122)
..+.++++.++|||||||+.|.+..+.+... ....+..+.+..+.+...++..+++++ ++++.+.+.......++++.
T Consensus 260 ~~~~~~~~~laheL~tpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~ll~~~~~~~~~~~~~~~~~~l~ 339 (482)
T PRK09835 260 TRQSNFSADIAHEIRTPITNLITQTEIALSQSRSQKELEDVLYSNLEELTRMAKMVSDMLFLAQADNNQLIPEKKMLDLA 339 (482)
T ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCceeecHH
Confidence 3456788999999999999999888876443 334456677777778888999999997 99998888777888999999
Q ss_pred HHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccce
Q 001215 963 EALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIH 1042 (1122)
Q Consensus 963 ~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~ 1042 (1122)
++++.++..+......+++++.++.++ ..+.+|+..|.+|+.||+.||++|++ +++.|.|++...++
T Consensus 340 ~~i~~~~~~~~~~~~~~~~~~~~~~~~----~~v~~d~~~l~~vl~nll~Na~~~~~--~~~~I~i~~~~~~~------- 406 (482)
T PRK09835 340 DEVGKVFDFFEAWAEERGVELRFVGDP----CQVAGDPLMLRRAISNLLSNALRYTP--AGEAITVRCQEVDH------- 406 (482)
T ss_pred HHHHHHHHHHHHHHhhCCEEEEEeCCC----cEEEECHHHHHHHHHHHHHHHHhcCC--CCCeEEEEEEEeCC-------
Confidence 999999999998888888888776432 26899999999999999999999998 46589999887766
Q ss_pred eEEEEEEEEcCCCCCChhhhhhhcCCCC--------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecC
Q 001215 1043 IVHLEFRITHPAPGIPEKLIHDMFYHSQ--------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPL 1112 (1122)
Q Consensus 1043 ~~~v~~~V~D~G~GI~~e~~~~iF~~f~--------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~ 1112 (1122)
.+.|+|.|+|+|||++.++++|+||. +.+|+||||+||+++++.|||+|+++|.++|++ |++.||.
T Consensus 407 --~~~i~v~d~G~gi~~~~~~~if~~f~~~~~~~~~~~~g~GlGL~i~~~i~~~~~g~i~~~s~~~g~~--~~i~lP~ 480 (482)
T PRK09835 407 --QVQLVVENPGTPIAPEHLPRLFDRFYRVDPSRQRKGEGSGIGLAIVKSIVVAHKGTVAVTSDARGTR--FVISLPR 480 (482)
T ss_pred --EEEEEEEECCCCcCHHHHHHHhCCcccCCCCCCCCCCCcchHHHHHHHHHHHCCCEEEEEECCCcEE--EEEEeeC
Confidence 78999999999999999999999983 235899999999999999999999999876555 4555564
No 39
>PF08446 PAS_2: PAS fold; InterPro: IPR013654 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. ; GO: 0008020 G-protein coupled photoreceptor activity, 0006355 regulation of transcription, DNA-dependent, 0009584 detection of visible light, 0018298 protein-chromophore linkage; PDB: 3S7O_A 2O9B_A 3S7P_A 1ZTU_A 3S7N_A 3S7Q_A 2O9C_A 2OOL_A 3C2W_G 3NHQ_B ....
Probab=99.91 E-value=5.9e-25 Score=208.86 Aligned_cols=105 Identities=31% Similarity=0.535 Sum_probs=93.0
Q ss_pred HhhccCCCCCCccceEEEEecCCcEEEEecCChhhhhCCC---CCCCCCcccccccccCcchhhccCchhHHHHHHHhcc
Q 001215 68 LQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLA---PHAVPNIEQQDALTLGIDVRTLFTSSGAAALQKAANF 144 (1122)
Q Consensus 68 ~~~i~~~g~iQp~G~ll~~~~~~~~i~~~S~N~~~~lg~~---~~~~~~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~ 144 (1122)
+||||+||+|||||||||+|+++++|+|+|+|+.++||++ +++ ++|+++.++|++...+.+++++..
T Consensus 3 ~EPIH~pG~IQphG~LLa~d~~~~~I~~~S~N~~~~lg~~~~~~~~----------llG~~l~~ll~~~~~~~l~~~~~~ 72 (110)
T PF08446_consen 3 REPIHIPGSIQPHGALLALDPDDLRIVQASENIAELLGIPPELPEE----------LLGRPLSELLGAESAERLREALQS 72 (110)
T ss_dssp GS-TTC-SEE-TTSEEEEEETTTTBEEEEETTHHHHHSS----HHH----------HTTCBHHHHSCCCCHHHHHHHCTC
T ss_pred cccccCCCccCCCEEEEEEECCCCEEEEEcCCHHHHhCCccccchh----------hcccCHHHHhCHHHHHHHHHhhhc
Confidence 7999999999999999999999999999999999999998 443 599999999999999999999988
Q ss_pred CCCCCCCcEEEeecCCCcceEEEEeecCceEEEEeeec
Q 001215 145 GEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPV 182 (1122)
Q Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~h~~~~~~i~e~Ep~ 182 (1122)
......+|+.+++..+++.|++++||+++.+||||||+
T Consensus 73 ~~~~~~~~~~~~~~~~~~~f~~~~H~~~~~lilElEp~ 110 (110)
T PF08446_consen 73 ESLSLSNPIALRLRIGGRPFDAIAHRSGGLLILELEPA 110 (110)
T ss_dssp CCCCCCCCEEEEEEEEEEEEEEEEEEETTEEEEEEEE-
T ss_pred cCccccCCeEEEeccCCeeEEEEEEEECCEEEEEEeeC
Confidence 88888889999766778899999999999999999995
No 40
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). 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.
Probab=99.91 E-value=6.1e-23 Score=246.72 Aligned_cols=207 Identities=21% Similarity=0.354 Sum_probs=178.9
Q ss_pred HHhHHHHHHHhhhhHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHH
Q 001215 887 SLNKLEYIRREIRKPLNGIAFMQNLMGTS-DLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEA 964 (1122)
Q Consensus 887 k~~fLa~isHELrnPLt~I~g~~~lL~~~-~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~v 964 (1122)
...+.+.++||+||||+.+.+..+.+... ...+...++++.+....+++.++++++ ++++++........+++++.++
T Consensus 241 ~~~~~~~~~h~l~tpl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ll~~~~~~~~~~~~~~~~~~~~~~ 320 (457)
T TIGR01386 241 LSQFSADLAHELRTPLTNLLGQTQVALSQPRTGEEYREVLESNLEELERLSRMVSDMLFLARADNGQLALERVRLDLAAE 320 (457)
T ss_pred HHHHHHhhhhhhcCcHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccCHHHH
Confidence 34567899999999999999888876443 334556778888888899999999997 9999988888888899999999
Q ss_pred HHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeE
Q 001215 965 LDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIV 1044 (1122)
Q Consensus 965 i~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~ 1044 (1122)
++.++..+......+++++.++.+ ..+.+|+..|.+++.||+.||+||++ +++.|.|++...++
T Consensus 321 ~~~~~~~~~~~~~~~~i~~~~~~~-----~~~~~~~~~l~~~~~nll~Nai~~~~--~~~~I~i~~~~~~~--------- 384 (457)
T TIGR01386 321 LAKVAEYFEPLAEERGVRIRVEGE-----GLVRGDPQMFRRAISNLLSNALRHTP--DGGTITVRIERRSD--------- 384 (457)
T ss_pred HHHHHHHHHHHHHhCCeEEEecCC-----ceEEECHHHHHHHHHHHHHHHHHcCC--CCceEEEEEEecCC---------
Confidence 999999998888888888876643 26899999999999999999999998 45699999888777
Q ss_pred EEEEEEEcCCCCCChhhhhhhcCCCC--------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEec
Q 001215 1045 HLEFRITHPAPGIPEKLIHDMFYHSQ--------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFP 1111 (1122)
Q Consensus 1045 ~v~~~V~D~G~GI~~e~~~~iF~~f~--------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP 1111 (1122)
.+.|+|.|+|+|||++.+.++|++|. ..+|+||||+||+++++.|||++.+++ +++|| +|++.||
T Consensus 385 ~~~i~v~D~G~g~~~~~~~~~~~~~~~~~~~~~~~~~g~GlGL~i~~~~~~~~~G~~~~~~-~~~G~-~~~~~~P 457 (457)
T TIGR01386 385 EVRVSVSNPGPGIPPEHLSRLFDRFYRVDPARSNSGEGTGLGLAIVRSIMEAHGGRASAES-PDGKT-RFILRFP 457 (457)
T ss_pred EEEEEEEeCCCCCCHHHHHHhccccccCCcccCCCCCCccccHHHHHHHHHHCCCEEEEEe-CCCce-EEEEecC
Confidence 89999999999999999999999984 346899999999999999999999999 77665 7777777
No 41
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase. Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes.
Probab=99.91 E-value=1.2e-22 Score=255.60 Aligned_cols=199 Identities=14% Similarity=0.250 Sum_probs=162.3
Q ss_pred HhHHHHHHHhhhhHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHH
Q 001215 888 LNKLEYIRREIRKPLNGIAFMQNLMGTSDL-SEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEAL 965 (1122)
Q Consensus 888 ~~fLa~isHELrnPLt~I~g~~~lL~~~~l-~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi 965 (1122)
.++.+.++||||||++.+....+..+.... ++...++++.+.+..+++.++++++ +.. ...+...+++.+++
T Consensus 476 ~~~~a~i~HdLrn~l~~l~~~l~~~~~~~~~~~~~~~~l~~i~~~~~rl~~ll~~l~~~~------~~~~~~~~~l~~ll 549 (679)
T TIGR02916 476 NRMSAFVVHDLKNLVAQLSLLLRNAERHKDNPEFQDDMLETVENAVNRMKKLLAQLRSKG------LEEEKLCVDLVDLL 549 (679)
T ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHHHHHHHHHHHhcc------cccCCccccHHHHH
Confidence 345678999999999999888777655433 3456778899999999999999887 322 24566889999999
Q ss_pred HHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEE
Q 001215 966 DAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVH 1045 (1122)
Q Consensus 966 ~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~ 1045 (1122)
++++....... ..+.+. ++++ ..+.+|+..|.||+.||+.||+||++ +++.|+|++...++ .
T Consensus 550 ~~~~~~~~~~~--~~~~l~--~~~~---~~v~~d~~~l~~vl~nLl~NAik~~~--~~~~I~I~~~~~~~---------~ 611 (679)
T TIGR02916 550 RRAIASKRAQG--PRPEVS--IDTD---LSVRADRERLERVLGHLVQNALEATP--GEGRVAIRVERECG---------A 611 (679)
T ss_pred HHHHHHhhhhc--CCceEE--eCCC---ceEEECHHHHHHHHHHHHHHHHHhCC--CCCcEEEEEEEcCC---------E
Confidence 99998765432 334443 3444 27899999999999999999999998 45689999987766 8
Q ss_pred EEEEEEcCCCCCChhh-hhhhcCCC--CCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEec
Q 001215 1046 LEFRITHPAPGIPEKL-IHDMFYHS--QGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFP 1111 (1122)
Q Consensus 1046 v~~~V~D~G~GI~~e~-~~~iF~~f--~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP 1111 (1122)
+.|+|+|||+|||++. .+++|+|| .+.+|+|+||++||++++.|||+|+++|.+++|| +|++.||
T Consensus 612 ~~i~V~D~G~Gi~~~~i~~~lF~pf~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~g~Gt-~f~i~LP 679 (679)
T TIGR02916 612 ARIEIEDSGCGMSPAFIRERLFKPFDTTKGAGMGIGVYECRQYVEEIGGRIEVESTPGQGT-IFTLVLP 679 (679)
T ss_pred EEEEEEEcCCCcChHHHHHhcCCCCCCCCCCCcchhHHHHHHHHHHcCCEEEEEecCCCce-EEEEEeC
Confidence 9999999999999998 99999998 3557899999999999999999999999988765 6677766
No 42
>PRK10337 sensor protein QseC; Provisional
Probab=99.90 E-value=1.8e-22 Score=242.46 Aligned_cols=206 Identities=18% Similarity=0.268 Sum_probs=174.3
Q ss_pred HHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCH-HHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHH
Q 001215 887 SLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSE-EQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEA 964 (1122)
Q Consensus 887 k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~-~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~v 964 (1122)
..+|++.++||+||||+.+.+..+.+......+ ....+++.+...++++..++++| .+++++.+......+++++.++
T Consensus 237 ~~~~~~~~ahelrtpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~ll~~~r~~~~~~~~~~~~~~l~~~ 316 (449)
T PRK10337 237 ERRFTSDAAHELRSPLAALKVQTEVAQLSDDDPQARKKALLQLHAGIDRATRLVDQLLTLSRLDSLDNLQDVAEIPLEDL 316 (449)
T ss_pred HHHHHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCcccCHHHH
Confidence 346789999999999999998888776544333 45678888999999999999997 9999887666667889999999
Q ss_pred HHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeE
Q 001215 965 LDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIV 1044 (1122)
Q Consensus 965 i~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~ 1044 (1122)
++.++..+...+..+++++.+++++... .+.+|+..|.+++.||+.||+||++ +++.|.|++..
T Consensus 317 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~--~~~~~~~~l~~vl~Nli~NA~k~~~--~~~~i~i~~~~------------ 380 (449)
T PRK10337 317 LQSAVMDIYHTAQQAGIDVRLTLNAHPV--IRTGQPLLLSLLVRNLLDNAIRYSP--QGSVVDVTLNA------------ 380 (449)
T ss_pred HHHHHHHHHHHHHHcCCEEEEecCCCCc--eeecCHHHHHHHHHHHHHHHHhhCC--CCCeEEEEEEe------------
Confidence 9999999998888899999998876533 6789999999999999999999998 45678777542
Q ss_pred EEEEEEEcCCCCCChhhhhhhcCCCC-----CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEe
Q 001215 1045 HLEFRITHPAPGIPEKLIHDMFYHSQ-----GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEF 1110 (1122)
Q Consensus 1045 ~v~~~V~D~G~GI~~e~~~~iF~~f~-----~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~L 1110 (1122)
..++|+|+|+|||++.++++|+||. ..+|+||||+||++++++|||+|++++.+++|+ +|++.|
T Consensus 381 -~~i~i~D~G~Gi~~~~~~~if~~f~~~~~~~~~g~GlGL~iv~~i~~~~gg~l~~~s~~~~G~-~~~i~~ 449 (449)
T PRK10337 381 -RNFTVRDNGPGVTPEALARIGERFYRPPGQEATGSGLGLSIVRRIAKLHGMNVSFGNAPEGGF-EAKVSW 449 (449)
T ss_pred -eEEEEEECCCCCCHHHHHHhcccccCCCCCCCCccchHHHHHHHHHHHcCCEEEEEecCCCeE-EEEEeC
Confidence 1589999999999999999999983 235899999999999999999999999888664 666653
No 43
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=99.90 E-value=2.2e-22 Score=243.05 Aligned_cols=211 Identities=19% Similarity=0.344 Sum_probs=187.1
Q ss_pred HHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHH
Q 001215 887 SLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEAL 965 (1122)
Q Consensus 887 k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi 965 (1122)
..++++.++||+|||++.+.+.++++......+...++++.+....+++..+++++ .+++++..........+++.+++
T Consensus 256 ~~~~~~~~~h~l~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~ 335 (475)
T PRK11100 256 VEQYVQTLTHELKSPLAAIRGAAELLQEDPPPEDRARFTGNILTQSARLQQLIDRLLELARLEQRQELEVLEPVALAALL 335 (475)
T ss_pred HHHHHHHhhhhhcCcHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCccceeccHHHHH
Confidence 34578899999999999999999998876667778899999999999999999997 99998877777788999999999
Q ss_pred HHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEE
Q 001215 966 DAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVH 1045 (1122)
Q Consensus 966 ~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~ 1045 (1122)
+.++..+......+++++.++++ + ..+.+|...|.+++.||+.||++|+. +++.|.|++...++ .
T Consensus 336 ~~~~~~~~~~~~~~~i~~~~~~~-~---~~~~~~~~~l~~vl~nli~Na~~~~~--~~~~i~i~~~~~~~---------~ 400 (475)
T PRK11100 336 EELVEAREAQAAAKGITLRLRPD-D---ARVLGDPFLLRQALGNLLDNAIDFSP--EGGTITLSAEVDGE---------Q 400 (475)
T ss_pred HHHHHHHHHHHHhCCceEEEeCC-C---ceEEECHHHHHHHHHHHHHHHHHhCC--CCCEEEEEEEEcCC---------E
Confidence 99999999988899999988876 2 27889999999999999999999997 45699999888777 8
Q ss_pred EEEEEEcCCCCCChhhhhhhcCCCC-------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCC
Q 001215 1046 LEFRITHPAPGIPEKLIHDMFYHSQ-------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLA 1113 (1122)
Q Consensus 1046 v~~~V~D~G~GI~~e~~~~iF~~f~-------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~ 1113 (1122)
+.++|.|+|.|||++.++++|++|. ...|+||||+||+++++.|||++.++|.+++|| +|.+.||..
T Consensus 401 ~~i~i~D~G~Gi~~~~~~~i~~~~~~~~~~~~~~~~~GlGL~i~~~~~~~~~G~i~i~s~~~~Gt-~v~i~lp~~ 474 (475)
T PRK11100 401 VALSVEDQGPGIPDYALPRIFERFYSLPRPANGRKSTGLGLAFVREVARLHGGEVTLRNRPEGGV-LATLTLPRH 474 (475)
T ss_pred EEEEEEECCCCCCHHHHHHHHHHHccCCCCCCCCCCcchhHHHHHHHHHHCCCEEEEEEcCCCeE-EEEEEeeCC
Confidence 9999999999999999999999973 236899999999999999999999999987766 777888864
No 44
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=99.90 E-value=3.4e-22 Score=240.73 Aligned_cols=209 Identities=18% Similarity=0.267 Sum_probs=174.4
Q ss_pred HHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHH
Q 001215 886 NSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEA 964 (1122)
Q Consensus 886 ~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~v 964 (1122)
.+.++++.++||++|||+.|.+...++....... ..+..+....+++.+++++| ++++.+.. ..+..+.+++..+
T Consensus 242 ~~~~~~~~~shel~tpl~~i~~~~~~~~~~~~~~---~~~~~i~~~~~~l~~~i~~l~~~~~~~~~-~~~~~~~~~l~~~ 317 (461)
T PRK09470 242 SQQRLLSDISHELRTPLTRLQLATALLRRRQGES---KELERIETEAQRLDSMINDLLVLSRNQQK-NHLERETFKANSL 317 (461)
T ss_pred HHHHHHHhhhHhhCCHHHHHHHHHHHHhhccCCh---HHHHHHHHHHHHHHHHHHHHHHHHHhhcc-cccccceecHHHH
Confidence 3446788999999999999999888886543322 24566777889999999997 88887653 4677889999999
Q ss_pred HHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeE
Q 001215 965 LDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIV 1044 (1122)
Q Consensus 965 i~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~ 1044 (1122)
++.++..+.......++.+.++..++. ..+.+|+..|.+++.||+.||++|++ + .|.|++...++
T Consensus 318 ~~~~~~~~~~~~~~~~~~~~i~~~~~~--~~~~~~~~~l~~~l~nli~NA~~~~~---~-~i~i~~~~~~~--------- 382 (461)
T PRK09470 318 WSEVLEDAKFEAEQMGKSLTVSAPPGP--WPINGNPNALASALENIVRNALRYSH---T-KIEVAFSVDKD--------- 382 (461)
T ss_pred HHHHHHHHHHHHHHCCCeEEEecCCcc--eEEEECHHHHHHHHHHHHHHHHHhCC---C-cEEEEEEEECC---------
Confidence 999999888777778888888754442 37899999999999999999999986 3 67887777666
Q ss_pred EEEEEEEcCCCCCChhhhhhhcCCCC--------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCC
Q 001215 1045 HLEFRITHPAPGIPEKLIHDMFYHSQ--------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1045 ~v~~~V~D~G~GI~~e~~~~iF~~f~--------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
.+.|+|.|+|+||+++.++++|+||. ..+|+||||+||+++++.|||++.+.|.+++|| +|++.||+.+
T Consensus 383 ~~~i~V~D~G~Gi~~~~~~~if~~~~~~~~~~~~~~~g~GlGL~iv~~~v~~~~G~l~~~s~~~~Gt-~~~i~lp~~~ 459 (461)
T PRK09470 383 GLTITVDDDGPGVPEEEREQIFRPFYRVDEARDRESGGTGLGLAIVENAIQQHRGWVKAEDSPLGGL-RLTIWLPLYK 459 (461)
T ss_pred EEEEEEEECCCCCCHHHHHHhcCCCccCCcccCCCCCCcchhHHHHHHHHHHCCCEEEEEECCCCeE-EEEEEeeCCC
Confidence 78999999999999999999999983 235899999999999999999999999988766 7777888754
No 45
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=99.90 E-value=5e-22 Score=237.61 Aligned_cols=204 Identities=19% Similarity=0.278 Sum_probs=164.3
Q ss_pred HHHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEee
Q 001215 882 QAAANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFN 960 (1122)
Q Consensus 882 ~~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~d 960 (1122)
+....+..+++.++|||||||+.|.+..+++... .....+.+.+..++|..+++++ ++.+... .....+++
T Consensus 224 ~~~~~~~~~~~~lsHeLrtPL~~i~~~~e~~~~~-----~~~~~~~i~~~~~~~~~~i~~~l~~~r~~~---~~~~~~~~ 295 (435)
T PRK09467 224 QLEDDRTLLMAGVSHDLRTPLTRIRLATEMMSEE-----DGYLAESINKDIEECNAIIEQFIDYLRTGQ---EMPMEMAD 295 (435)
T ss_pred HHHHHHHHHHHHhhhhccchHHHHHHHHHhcccc-----hHHHHHHHHHHHHHHHHHHHHHHHHhcccC---CCCccccC
Confidence 3445566789999999999999999888877432 2234456677788999999996 7777543 24467899
Q ss_pred hHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCcc
Q 001215 961 LGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKN 1040 (1122)
Q Consensus 961 L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~ 1040 (1122)
+.+++++++.... ..+..+.++++.+. ..+.+|+..|.+++.||+.||+||+. + .|.|++...++
T Consensus 296 l~~~~~~~~~~~~----~~~~~i~~~~~~~~--~~~~~~~~~l~~il~NLl~NA~k~~~---~-~i~i~~~~~~~----- 360 (435)
T PRK09467 296 LNALLGEVIAAES----GYEREIETALQPGP--IEVPMNPIAIKRALANLVVNAARYGN---G-WIKVSSGTEGK----- 360 (435)
T ss_pred HHHHHHHHHHHhh----hcCCeEEEecCCCC--ceEEECHHHHHHHHHHHHHHHHHhCC---C-eEEEEEEecCC-----
Confidence 9999999987665 34556666665543 27899999999999999999999974 4 78888877766
Q ss_pred ceeEEEEEEEEcCCCCCChhhhhhhcCCCC------CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCC
Q 001215 1041 IHIVHLEFRITHPAPGIPEKLIHDMFYHSQ------GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLA 1113 (1122)
Q Consensus 1041 ~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~ 1113 (1122)
.+.|+|.|+|+||+++.++++|+||. ..+|+||||+||+++++.|||++.+.+.+++|+ +|++.||+.
T Consensus 361 ----~~~i~V~D~G~Gi~~~~~~~~~~~f~~~~~~~~~~g~GlGL~iv~~i~~~~~g~l~i~~~~~~G~-~~~i~lp~~ 434 (435)
T PRK09467 361 ----RAWFQVEDDGPGIPPEQLKHLFQPFTRGDSARGSSGTGLGLAIVKRIVDQHNGKVELGNSEEGGL-SARAWLPLT 434 (435)
T ss_pred ----EEEEEEEecCCCcCHHHHHHhcCCcccCCCCCCCCCeehhHHHHHHHHHHCCCEEEEEECCCCcE-EEEEEEeCC
Confidence 78999999999999999999999983 246899999999999999999999998887765 677777764
No 46
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.88 E-value=3.4e-21 Score=219.17 Aligned_cols=213 Identities=30% Similarity=0.452 Sum_probs=177.2
Q ss_pred HHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-ccccccccc-ceeeeEEeehHH
Q 001215 886 NSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECY-MVLKSGEFNLGE 963 (1122)
Q Consensus 886 ~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~-~~l~~~~~dL~~ 963 (1122)
.+..+++.++||+|||++.+.++.+++... ......+.+..+....+++..+++++ ++++++... .......+++..
T Consensus 114 ~~~~~~~~~~hel~~pl~~i~~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ 192 (336)
T COG0642 114 AKREFLANISHELRTPLTAIRGLLELLLEG-LLDPQRELLEIIEEEAERLLRLVNDLLDLSRLEAGTKLKLLLELVDLAE 192 (336)
T ss_pred HHHHHHHhhhhhhcCcHHHHHHHHHHhccC-CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCCCCcCHHH
Confidence 366788999999999999999988866554 22226788888888899999999996 999887652 344477788999
Q ss_pred HHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCcccee
Q 001215 964 ALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHI 1043 (1122)
Q Consensus 964 vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~ 1043 (1122)
++.+++..+......+.+.+....++. ..+.+|+..|.|||.||+.||++|++ ++.|.|.+....+
T Consensus 193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~v~~~~~~l~~vl~nLi~NAi~~~~---~~~i~i~~~~~~~-------- 258 (336)
T COG0642 193 LLEEVVRLLAPLAQEKGIELAVDLPEL---PYVLGDPERLRQVLVNLLSNAIKYTP---GGEITISVRQDDE-------- 258 (336)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecCCC---ceEeeCHHHHHHHHHHHHHHHhccCC---CCeEEEEEEecCC--------
Confidence 999999999988888888888766522 37899999999999999999999998 4599999888776
Q ss_pred EEEEEEEEcCCCCCChhhhhhhcCCCCCC----CCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCCC
Q 001215 1044 VHLEFRITHPAPGIPEKLIHDMFYHSQGA----SREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAHQ 1115 (1122)
Q Consensus 1044 ~~v~~~V~D~G~GI~~e~~~~iF~~f~~~----~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~~ 1115 (1122)
++.++|.|+|+||+++.++++|+||... +|+|+||+||+++++.|||++.+.+.++.|+ +|++.||....
T Consensus 259 -~i~i~V~D~G~Gi~~~~~~~if~~~~~~~~~~~g~GlGL~i~~~~~~~~~g~i~~~~~~~~Gt-~~~i~lP~~~~ 332 (336)
T COG0642 259 -QVTISVEDTGPGIPEEELERIFEPFFRTDKSRSGTGLGLAIVKRIVELHGGTISVESEPGKGT-TFTIRLPLAPA 332 (336)
T ss_pred -eEEEEEEcCCCCCCHHHHHHhccCeeccCCCCCCCCccHHHHHHHHHHcCCEEEEEecCCCce-EEEEEEecccc
Confidence 8999999999999999999999998322 2899999999999999999999999986444 56666677554
No 47
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=99.88 E-value=1.9e-21 Score=213.14 Aligned_cols=235 Identities=19% Similarity=0.285 Sum_probs=188.2
Q ss_pred cccHHHHHHHHHHHHH-HHHHHHHHhH----HHHHHHhhhhHHHHHHHH---HHHhcCCCCCHHHHHHHHHHHHHHHHHH
Q 001215 865 VASPELQYALQVQRIS-EQAAANSLNK----LEYIRREIRKPLNGIAFM---QNLMGTSDLSEEQKQLLKTSVLCQEQLT 936 (1122)
Q Consensus 865 DITerkq~e~~L~~~a-e~~~~~k~~f----La~isHELrnPLt~I~g~---~~lL~~~~l~~~~~~~L~~i~~~~~rl~ 936 (1122)
.|.+|++.|..++... |....+|++. +..++|||++||+++..+ +.+.-+...++....++++|..-.+|+.
T Consensus 424 EveeR~e~ea~L~~~Q~ELiQaAKlAvVGqTmTslaHEinQPLnAmsaYLFsA~~A~e~~~s~qa~~~L~kie~L~eR~~ 503 (673)
T COG4192 424 EVEERQEAEAHLKKTQGELIQAAKLAVVGQTMTSLAHEINQPLNAMSAYLFSARLALEEAPSAQAATSLDKIENLTERMG 503 (673)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHH
Confidence 4445555555554432 2233455543 567899999999999743 4444455667788999999999999999
Q ss_pred HHHhhh-cccccccccceeeeEEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHh
Q 001215 937 NIVDDT-DIESIEECYMVLKSGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNAL 1015 (1122)
Q Consensus 937 ~iI~dL-d~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAi 1015 (1122)
+|++.| .|+|-.++ +-...+++|..++.++...+....+.+.+.+.... |.+ +|.||.++++|||.|++.||+
T Consensus 504 ~Iv~sLRqF~Rk~s~--~~~lqpV~L~~~v~~AweLl~~khk~rQ~~Li~pt--D~~--~V~gd~v~ieQVlvNl~~Nal 577 (673)
T COG4192 504 KIVNSLRQFARKNSS--DESLQPVRLNSVVEQAWELLQTKHKRRQIKLINPT--DDL--MVMGDAVSIEQVLVNLIVNAL 577 (673)
T ss_pred HHHHHHHHHHhccCC--CCCcccccHHHHHHHHHHHHHhhhhhccccccCCc--ccc--eecchhhhHHHHHHHHHHHHH
Confidence 999999 99986443 44568999999999999999999988888886655 333 899999999999999999999
Q ss_pred hcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC--CCCCccchHHHHHHHHHHcCcEE
Q 001215 1016 IFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ--GASREGLGLYISQKLVKLMNGTV 1093 (1122)
Q Consensus 1016 k~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~--~~~GtGLGL~I~r~ive~~gG~I 1093 (1122)
+++.... ++|.|.+..... ..+++.|.|||.|.|-+..+++|.||+ +.-|.||||+||..+++.|.|++
T Consensus 578 dA~~h~~-p~i~~~~~~~~~--------e~l~i~i~DnGqGwp~~l~dkLl~PFttsK~vgLGlGLSIsqSlmeqmqG~l 648 (673)
T COG4192 578 DASTHFA-PWIKLIALGTEQ--------EMLRIAIIDNGQGWPHELVDKLLTPFTTSKEVGLGLGLSISQSLMEQMQGRL 648 (673)
T ss_pred hhhccCC-ceEEEEeecCcc--------cceEEEEecCCCCCchhHHHHhcCCcccccccccccchhHHHHHHHHhcCcc
Confidence 9987643 599988766333 278999999999999999999999994 55699999999999999999999
Q ss_pred EEEecCCceEEEEEEEecCCCC
Q 001215 1094 QYIREAERSSFLILIEFPLAHQ 1115 (1122)
Q Consensus 1094 ~v~s~~gg~tF~~~l~LP~~~~ 1115 (1122)
.+.|.-.++. .|.+.|.....
T Consensus 649 ~lAStLt~nA-~ViL~f~v~~~ 669 (673)
T COG4192 649 ALASTLTKNA-MVILEFQVDEK 669 (673)
T ss_pred hHhhhcccCc-EEEEEEeecch
Confidence 9999888766 67788776643
No 48
>TIGR02040 PpsR-CrtJ transcriptional regulator PpsR. This model 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 (pfam02954).
Probab=99.87 E-value=9.2e-21 Score=227.07 Aligned_cols=241 Identities=19% Similarity=0.142 Sum_probs=187.5
Q ss_pred HHHHHHHHHHHHHHHhcCccEEEecC-CCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcce
Q 001215 604 DELRIITNEMVRLIETAAVPILAVDA-SGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEER 682 (1122)
Q Consensus 604 ~eL~~~e~~l~~lie~a~~gI~~~D~-dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~ 682 (1122)
.+|++++++|+.++++++++||++|. +|+|+++|+++++++||+.++++|+++.+++++++.+.+...+.....++...
T Consensus 126 ~~l~~~e~r~~~l~e~~~~~i~~~d~~~g~i~~~N~a~~~l~G~~~~el~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~~ 205 (442)
T TIGR02040 126 WTLREMETRYRVVLEVSSDAVLLVDMSTGRIVEANSAAAALLGGVGQSLVGRAFPQEFEGRRREELMLTLRNVRATGSAA 205 (442)
T ss_pred HHHHHHHHHHHHHHhhCCceEEEEECCCCEEEEEcHHHHHHhCcCHHHHcCCCHHHhCCHHHHHHHHHHHHHHHhcCCCc
Confidence 37888899999999999999999998 79999999999999999999999999999999999888888888888766544
Q ss_pred eEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhhcCCCCCCCCeEEecC
Q 001215 683 NVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIVSSPSALIPPIFMTDE 762 (1122)
Q Consensus 683 ~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~ 762 (1122)
..++.+ + +++..| .+...+++. +|. .++++.++|||+++++++++. ++|+.+++++++ +|+++|.
T Consensus 206 ~~~~~~-----~-~~~~~~-~~~~~~~~~-~~~-~~~l~~~~dit~~~~~e~~~~---~~~~~l~e~~~d---~I~v~D~ 270 (442)
T TIGR02040 206 PVRILL-----R-RSQKRL-LVVVSVFRQ-DGE-SLFLCQLSPAGATQPVGDELS---ENLARLYHEAPD---AIVFSDA 270 (442)
T ss_pred ceEEEE-----c-CCCeEE-EEEEEEEEe-CCc-eEEEEEEcccchhhhhhHHHH---HHHHHHHHhCCc---eEEEEcC
Confidence 333322 2 333333 334555553 333 367788999999998887653 379999999999 8999999
Q ss_pred CCCeeeeehhHHHhcCCC-hHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEEEEccCCCEEE
Q 001215 763 DGRCLEWNDGMEKLSGLK-REEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFGFFDQQGKYVE 841 (1122)
Q Consensus 763 dg~ii~~N~a~~~l~G~~-~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~ 841 (1122)
+|+|+++|++|++++||+ .++++|+++.. ++.. ...+ ....+.....++....++..+.+++|..+|
T Consensus 271 ~G~I~~~N~a~~~l~G~~~~~~l~G~~~~~-~~~~--------~~~~---~~~~~~~~~~~g~~~~~~~~~~~~~G~~~~ 338 (442)
T TIGR02040 271 DGTIRGANEAFLELTDSSSLEAVRGRTLDR-WLGR--------GGVD---LRVLLSNVRRTGQVRLYATTLTGEFGAQTE 338 (442)
T ss_pred CCcEEehhHHHHHHhCCCChHHHcCCCHHH-HhCC--------Cccc---HHHHHHHHhhcCceEEEEEEEEcCCCCEEE
Confidence 999999999999999997 67899997532 1110 1111 222334444455556677788999999999
Q ss_pred EEEEEeeeeCCCCCEEEEEEeeecccHHHHHH
Q 001215 842 ALLSANKRTNAEGKISGILCFLHVASPELQYA 873 (1122)
Q Consensus 842 v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e 873 (1122)
+.+++.|+.+.++ ..++++++|||++++.+
T Consensus 339 ve~s~~~i~~~~~--~~~~~v~rDITeR~~~~ 368 (442)
T TIGR02040 339 VEISAAWVDQGER--PLIVLVIRDISRRLTMR 368 (442)
T ss_pred EEEEEEEeccCCc--eEEEEEEecchhhccCC
Confidence 9999999987655 35788999999988774
No 49
>PRK13560 hypothetical protein; Provisional
Probab=99.86 E-value=3e-20 Score=239.60 Aligned_cols=264 Identities=14% Similarity=0.130 Sum_probs=207.7
Q ss_pred hHHHHHHHHHHHHHH-HHHHHhcCccEEEecCCCc----EEeccHHHHHHcCCCchhhcCCc--ccccccCCchHHHH--
Q 001215 599 RIEKIDELRIITNEM-VRLIETAAVPILAVDASGN----VNGWNSKAAELTGLTVDQAIGTA--LVDLVAGDSVDVVK-- 669 (1122)
Q Consensus 599 ~~~~~~eL~~~e~~l-~~lie~a~~gI~~~D~dG~----Iv~~N~~~~~l~G~s~eeliG~~--~~dl~~~~~~~~~~-- 669 (1122)
+..++.+|+++++++ +.+++++|.++|.++.+|. +.+++++..+++|+.+.++++.. +..++||++.+.+.
T Consensus 55 r~~~~~~l~~~~e~~~r~l~~~~p~~i~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~p~d~~~~~~~ 134 (807)
T PRK13560 55 RAIAEAEAQDCREQCERNLKANIPGGMFLFALDGDGTFSFPSLLDANGELAAIAKHDLMADKGLLAMLIGGDDGDFFFAN 134 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCceEEEEEEcCccccccceeeccchhHHHhcCcccCCccchhhhhcCCCcchhhhhC
Confidence 566788888888888 9999999999999887765 33377777888888887766543 44788999887654
Q ss_pred -----HHHHHHHcCCcceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhh
Q 001215 670 -----NMLSSAFLGIEERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYV 744 (1122)
Q Consensus 670 -----~~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~ 744 (1122)
+.+..++..+....++++++ ++||. |+.+...|.++.+|.+ ++.++++|||++|++|++|++++++|+
T Consensus 135 ~~~~~~~~~~~~~~~~~~~~e~r~~----~~dg~--~~~~~~~~~~~~~g~~-~~~g~~~DIT~rk~ae~~l~~~~~~l~ 207 (807)
T PRK13560 135 PFRSAETIAMALQSDDWQEEEGHFR----CGDGR--FIDCCLRFERHAHADD-QVDGFAEDITERKRAEERIDEALHFLQ 207 (807)
T ss_pred hhhHHHHHHHHhccCcccceEEEEE----eCCcc--EEEEEeeeeecCCCce-EEEEEEEccchHHHHHHHHHHHHHHHH
Confidence 33444444545555555554 56774 6667778888888886 789999999999999999999999999
Q ss_pred hhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCC
Q 001215 745 GIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQD 824 (1122)
Q Consensus 745 ~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~ 824 (1122)
.+++++++ ++|+.|.+|+++++|+++++++||++++++|+.+. .+.++.....+.......+..+.
T Consensus 208 ~l~e~~~~---~i~~~d~~g~i~~~N~~~~~~~G~~~~e~~g~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~ 273 (807)
T PRK13560 208 QLLDNIAD---PAFWKDEDAKVFGCNDAACLACGFRREEIIGMSIH-----------DFAPAQPADDYQEADAAKFDADG 273 (807)
T ss_pred HHHhhCCC---eEEEEcCCCCEEEEhHHHHHHhCCCHHHHcCCcch-----------hcCCcchhHHHHHHHHHHhccCC
Confidence 99999999 89999999999999999999999999999998753 22223333333334444555666
Q ss_pred cceeEEEEEccCCCEEEEEEE--EeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHHH
Q 001215 825 ADKILFGFFDQQGKYVEALLS--ANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQA 883 (1122)
Q Consensus 825 ~~~~e~~~~~~dG~~~~v~~~--~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~~ 883 (1122)
...++..+.++||+.+|+.+. ..+..+.+|.+.|++++++|||+++++++++++..++.
T Consensus 274 ~~~~e~~~~~~dG~~~~~~~~~~~~~~~~~~g~~~g~~~~~~DITerk~~e~~L~~se~~l 334 (807)
T PRK13560 274 SQIIEAEFQNKDGRTRPVDVIFNHAEFDDKENHCAGLVGAITDISGRRAAERELLEKEDML 334 (807)
T ss_pred ceEEEEEEEcCCCCEEEEEEEecceEEEcCCCCEEEEEEEEEechHHHHHHHHHHHHHHHH
Confidence 677889999999999966554 56678999999999999999999999999988766543
No 50
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=99.82 E-value=6e-19 Score=212.98 Aligned_cols=192 Identities=14% Similarity=0.179 Sum_probs=149.0
Q ss_pred HHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCC-CHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHH
Q 001215 886 NSLNKLEYIRREIRKPLNGIAFMQNLMGTSDL-SEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGE 963 (1122)
Q Consensus 886 ~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l-~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~ 963 (1122)
.+.++.+.++||++|||++|.+..+++++... +++.++..+.+.+.+.++.+.++++ +..+ ....+.+++.+
T Consensus 301 ~r~~ia~elhdeI~~pLtaI~~~a~ll~~~~~~~~~~~~~~~~I~~~~~~l~~~vr~LL~~lr------~~~l~~~~L~~ 374 (495)
T PRK11644 301 VRRDVARELHDEIGQTITAIRTQAGIIKRLAADNASVKQSAQLIEQLSLGVYDTVRRLLGRLR------PRQLDDLTLEQ 374 (495)
T ss_pred HHHHHHHHhhhhhhhHHHHHHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhccC------CcccccCCHHH
Confidence 34456678999999999999999988866433 3456677888888888898888886 4333 22345789999
Q ss_pred HHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCcccee
Q 001215 964 ALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHI 1043 (1122)
Q Consensus 964 vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~ 1043 (1122)
.+++++..+.......++++..+.++.. ....++..+.|++.|+++||+||++ .+ .|.|++...++
T Consensus 375 ~l~~l~~~l~~~~~~~~v~l~~~~~~~~---l~~~~~~~L~ril~nlL~NAiKha~--~~-~I~I~l~~~~~-------- 440 (495)
T PRK11644 375 AIRSLMREMELEDRGIVSHLDWRIDESA---LSETQRVTLFRVCQEGLNNIVKHAD--AS-AVTLQGWQQDE-------- 440 (495)
T ss_pred HHHHHHHHHHHhhcCceEEEEecCCccc---CChhHHHHHHHHHHHHHHHHHHhCC--CC-EEEEEEEEcCC--------
Confidence 9999998887655555555555554432 3566788999999999999999997 34 89988887666
Q ss_pred EEEEEEEEcCCCCCChhhhhhhcCCCCCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecC
Q 001215 1044 VHLEFRITHPAPGIPEKLIHDMFYHSQGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPL 1112 (1122)
Q Consensus 1044 ~~v~~~V~D~G~GI~~e~~~~iF~~f~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~ 1112 (1122)
.+.++|+|||+|||++ ..|+|+||++||++++.|||+++++| ++|++ |++.||.
T Consensus 441 -~i~l~V~DnG~Gi~~~-----------~~~~GLGL~ivr~iv~~~GG~i~v~S-~~Gt~--f~I~LP~ 494 (495)
T PRK11644 441 -RLMLVIEDDGSGLPPG-----------SGQQGFGLRGMRERVTALGGTLTISC-THGTR--LSVSLPQ 494 (495)
T ss_pred -EEEEEEEECCCCCCcC-----------CCCCCCcHHHHHHHHHHcCCEEEEEc-CCCEE--EEEEEeC
Confidence 7999999999999874 34779999999999999999999999 44444 5555564
No 51
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.80 E-value=3.4e-18 Score=220.47 Aligned_cols=249 Identities=12% Similarity=0.084 Sum_probs=196.2
Q ss_pred HHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEE
Q 001215 611 NEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRA 690 (1122)
Q Consensus 611 ~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~ 690 (1122)
..+..+++.++++++++|.+|+|++||+++++++||++++++|+++.++++++........+.....++......+....
T Consensus 12 ~~~~~~le~~~~~i~~~d~~g~i~~~N~~~~~l~G~s~eeliG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 91 (799)
T PRK11359 12 GIFFPALEQNMMGAVLINENDEVLFFNPAAEKLWGYKREEVIGNNIDMLIPRDLRPAHPEYIRHNREGGKARVEGMSREL 91 (799)
T ss_pred hhHHHHHHhhcCcEEEEcCCCeEEEEcHHHHHHhCCCHHHHcCCCHHHhcCccccccchHHHhhhhccCCccccccceee
Confidence 45577899999999999999999999999999999999999999999999888776665666665554432211111122
Q ss_pred eCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeee
Q 001215 691 FGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWN 770 (1122)
Q Consensus 691 ~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N 770 (1122)
...++||..+|+.+...++ +.+|.. +++++.+|||++++.+++.+ .+..++++.+. +++.+|.+|+++++|
T Consensus 92 ~~~~~dG~~~~v~~~~~~~-~~~g~~-~~~~~~~DiT~~~~~~~~~~----~~~~~~~~~~~---~i~~~d~~g~i~~~N 162 (799)
T PRK11359 92 QLEKKDGSKIWTRFALSKV-SAEGKV-YYLALVRDASVEMAQKEQTR----QLIIAVDHLDR---PVIVLDPERRIVQCN 162 (799)
T ss_pred EEecCCcCEEEEEEEeeee-ccCCce-EEEEEEeeccchhhhHHHHH----HHHHHHhcCCC---cEEEEcCCCcEEEEC
Confidence 2337899999999998877 445554 67888999999888776643 45567888887 899999999999999
Q ss_pred hhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeee
Q 001215 771 DGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFGFFDQQGKYVEALLSANKRT 850 (1122)
Q Consensus 771 ~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~ 850 (1122)
+++++++||+.++++|+.....+ .++.........+...+.+......++++..++|+.+|+..+..|+.
T Consensus 163 ~~~~~l~G~~~~e~~g~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~v~ 232 (799)
T PRK11359 163 RAFTEMFGYCISEASGMQPDTLL----------NIPEFPADNRIRLQQLLWKTARDQDEFLLLTRTGEKIWIKASISPVY 232 (799)
T ss_pred hhhHhhhCCCHHHHCCCChHHhc----------CCCCCcHHHHHHHHHhhccCCCCcceeEEeCCCCCEEEEEeeeeeee
Confidence 99999999999999998753211 12333334445556666677777788899999999999999999999
Q ss_pred CCCCCEEEEEEeeecccHHHHHHHHHHH
Q 001215 851 NAEGKISGILCFLHVASPELQYALQVQR 878 (1122)
Q Consensus 851 d~~G~i~gvv~~l~DITerkq~e~~L~~ 878 (1122)
+.+|.+.|++++++|||++++.++..+.
T Consensus 233 d~~g~~~~~~~~~~DITerk~~e~~~~~ 260 (799)
T PRK11359 233 DVLAHLQNLVMTFSDITEERQIRQLEGN 260 (799)
T ss_pred cCCCceeEEEEEeehhhhHHHHHHHHHH
Confidence 9999999999999999999987654443
No 52
>TIGR02040 PpsR-CrtJ transcriptional regulator PpsR. This model 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 (pfam02954).
Probab=99.77 E-value=1.1e-17 Score=200.46 Aligned_cols=234 Identities=18% Similarity=0.151 Sum_probs=178.3
Q ss_pred HHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCCCC
Q 001215 616 LIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGPRE 695 (1122)
Q Consensus 616 lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~~ 695 (1122)
++++++++++++|.+|+|++||..+++++||+.++++|+++.++++|++.+.+...+..+..++.. .++.+ ....++
T Consensus 1 ~~~~~~d~~~~~d~~g~i~~~n~~~~~~~g~~~~el~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~e--~~~~~~ 77 (442)
T TIGR02040 1 LLATAADVTLLLDAEGVVREVAANPHHPSFEQLSEWEGRRWEEIVTAESVEKFELRLSEALRTGRG-AVRVE--LNHIDP 77 (442)
T ss_pred CCcccCcEEEEECCCCcEEEEEECCCcccccccccCCCCcHhHhhCcchHHHHHHHHHHHhccCCC-cceEe--eccCCC
Confidence 367899999999999999999999999999999999999999999999988888888777766543 12222 333466
Q ss_pred CCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHH-----------HH---HHHhHhhhhhhhhcCCCCCCCCeEEec
Q 001215 696 TSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLV-----------MD---KYTRIQGDYVGIVSSPSALIPPIFMTD 761 (1122)
Q Consensus 696 dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~a-----------E~---~L~~se~~l~~l~e~~~~li~~I~~~D 761 (1122)
+|..+|+.++..++.+. .+++++++|||+++.. |+ ++++++++|+.+++++++ +||++|
T Consensus 78 ~g~~~~~~~~~~~~~~~----~~~~~i~rDi~~~~~~~~~l~~~~~~~e~~~~~l~~~e~r~~~l~e~~~~---~i~~~d 150 (442)
T TIGR02040 78 SSFELPMRFILVRLGAD----RGVLALGRDLRAVAELQQQLVAAQQAMERDYWTLREMETRYRVVLEVSSD---AVLLVD 150 (442)
T ss_pred CCCccCeEEEEEEeCCC----CeEEEEecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCc---eEEEEE
Confidence 77788888887776552 2678899999875443 33 677888999999999998 899999
Q ss_pred C-CCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEEEEccCCCEE
Q 001215 762 E-DGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFGFFDQQGKYV 840 (1122)
Q Consensus 762 ~-dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~ 840 (1122)
. +|+++++|+++++++||++++++|+.+. .+.++++...+...+.....++.....++. .++|...
T Consensus 151 ~~~g~i~~~N~a~~~l~G~~~~el~g~~~~-----------~~~~~~~~~~~~~~l~~~~~~g~~~~~~~~--~~~~~~~ 217 (442)
T TIGR02040 151 MSTGRIVEANSAAAALLGGVGQSLVGRAFP-----------QEFEGRRREELMLTLRNVRATGSAAPVRIL--LRRSQKR 217 (442)
T ss_pred CCCCEEEEEcHHHHHHhCcCHHHHcCCCHH-----------HhCCHHHHHHHHHHHHHHHhcCCCcceEEE--EcCCCeE
Confidence 8 8999999999999999999999998753 334567777777778777766655444444 3444444
Q ss_pred EEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHH
Q 001215 841 EALLSANKRTNAEGKISGILCFLHVASPELQYALQ 875 (1122)
Q Consensus 841 ~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~ 875 (1122)
| .+...++.. +|.. ++++.++|||++++.+.+
T Consensus 218 ~-~~~~~~~~~-~~~~-~~l~~~~dit~~~~~e~~ 249 (442)
T TIGR02040 218 L-LVVVSVFRQ-DGES-LFLCQLSPAGATQPVGDE 249 (442)
T ss_pred E-EEEEEEEEe-CCce-EEEEEEcccchhhhhhHH
Confidence 4 334455443 3433 577889999998766643
No 53
>PF02518 HATPase_c: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; InterPro: IPR003594 This domain is found in several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases [], heat shock protein HSP90 [, , ], phytochrome-like ATPases and DNA mismatch repair proteins. The fold of this domain consists of two layers, alpha/beta, which contains an 8-stranded mixed beta-sheet. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0005524 ATP binding; PDB: 3JZ3_A 3DGE_A 2C2A_A 2BU5_A 2BU8_A 2BU6_A 2BU7_A 2BU2_A 2BTZ_A 3K99_D ....
Probab=99.70 E-value=7.1e-17 Score=154.81 Aligned_cols=103 Identities=30% Similarity=0.537 Sum_probs=92.6
Q ss_pred ecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC-------
Q 001215 998 GDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ------- 1070 (1122)
Q Consensus 998 ~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~------- 1070 (1122)
||+.+|.++|.||+.||++|++ .++.|.|.+....+ ++.|+|.|+|.|||++.++++|+++.
T Consensus 1 gd~~~l~~il~~ll~Na~~~~~--~~~~I~i~~~~~~~---------~~~i~i~d~G~gi~~~~l~~~~~~~~~~~~~~~ 69 (111)
T PF02518_consen 1 GDPDRLRQILSELLDNAIKHSP--EGGKIDITIEEDDD---------HLSIEISDNGVGIPPEELEKLFEPFFTSDKSET 69 (111)
T ss_dssp ETHHHHHHHHHHHHHHHHHHHH--HTSEEEEEEEEETT---------EEEEEEEESSSSTTHHHHHHHCSTTSHSSSSSG
T ss_pred CcHHHHHHHHHHHHHHHHHHhc--CCCEEEEEEEEecC---------eEEEEEEeccccccccccccchhhccccccccc
Confidence 6899999999999999999998 44699999999887 99999999999999999999999972
Q ss_pred CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecC
Q 001215 1071 GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPL 1112 (1122)
Q Consensus 1071 ~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~ 1112 (1122)
..+|.|+||++|+.+++.|+|++++.+.++++| +|.+.+|+
T Consensus 70 ~~~g~GlGL~~~~~~~~~~~g~l~~~~~~~~gt-~v~~~~p~ 110 (111)
T PF02518_consen 70 SISGHGLGLYIVKQIAERHGGELTIESSEGGGT-TVTFTLPL 110 (111)
T ss_dssp GSSSSSHHHHHHHHHHHHTTEEEEEEEETTTEE-EEEEEEEG
T ss_pred ccCCCChHHHHHHHHHHHCCCEEEEEEcCCCcE-EEEEEEEC
Confidence 246899999999999999999999999977765 67777775
No 54
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=99.70 E-value=5.1e-15 Score=183.32 Aligned_cols=195 Identities=17% Similarity=0.240 Sum_probs=141.5
Q ss_pred HHhHHHHHHHhhhhHHHHHHHHHHH----hcCC--CCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEe
Q 001215 887 SLNKLEYIRREIRKPLNGIAFMQNL----MGTS--DLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEF 959 (1122)
Q Consensus 887 k~~fLa~isHELrnPLt~I~g~~~l----L~~~--~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~ 959 (1122)
..+....++||+++|++.+..+..+ +.+. ...+...+.+..+.....++.+.+.++ ...+ ....++
T Consensus 360 ~~~~~~~la~el~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~~~~-------~~~~~~ 432 (565)
T PRK10935 360 LMEERATIARELHDSLAQVLSYLKIQLTLLKRSLDEDNAKAQSIIAEFDQALSDAYRQLRELLTTFR-------LTIQEA 432 (565)
T ss_pred HHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHHHHHHHHHHHHHcC-------CCCCCC
Confidence 3445567899999999888765543 3221 224455666777766677777777764 3222 335678
Q ss_pred ehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEec-ccccC
Q 001215 960 NLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQ-KERIG 1038 (1122)
Q Consensus 960 dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~-~~~~~ 1038 (1122)
++.+++..++..+.... ...+.+..+.|... ...+++.++.|++.|++.||+||++ ++.|.|.+... .+
T Consensus 433 ~l~~~l~~~~~~~~~~~-~~~i~~~~~~~~~~---~~~~~~~~l~qv~~nll~NA~k~~~---~~~i~i~~~~~~~~--- 502 (565)
T PRK10935 433 NLGSALEEMLDQLRNQT-DAKITLDCRLPSQA---LDAQQQVHLLQIIREATLNAIKHAN---ASEIAVSCVTNPDG--- 502 (565)
T ss_pred CHHHHHHHHHHHHHHhh-CCeEEEEeeCCCCC---CCHHHHHHHHHHHHHHHHHHHhcCC---CCeEEEEEEEcCCC---
Confidence 99999999999887653 23345544544422 2334567799999999999999987 34888888765 33
Q ss_pred ccceeEEEEEEEEcCCCCCChhhhhhhcCCCCCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCCC
Q 001215 1039 KNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAHQ 1115 (1122)
Q Consensus 1039 ~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~~ 1115 (1122)
.+.++|.|+|+|||++ +..|+|+||+||+++++.|||+|+++|.+++|| +|++.||..+.
T Consensus 503 ------~~~i~V~D~G~Gi~~~----------~~~~~glGL~i~~~iv~~~~G~i~v~s~~~~Gt-~~~i~lP~~~~ 562 (565)
T PRK10935 503 ------EHTVSIRDDGIGIGEL----------KEPEGHYGLNIMQERAERLGGTLTISQPPGGGT-TVSLTFPSQQE 562 (565)
T ss_pred ------EEEEEEEECCcCcCCC----------CCCCCCcCHHHHHHHHHHcCCEEEEEECCCCcE-EEEEEECCCCC
Confidence 7899999999999974 345889999999999999999999999988765 67777787644
No 55
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=99.66 E-value=7.7e-15 Score=181.63 Aligned_cols=186 Identities=17% Similarity=0.232 Sum_probs=136.1
Q ss_pred HHHhhhhHHHHHHHHHHHhc--CCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEeehHHHHHHHHH
Q 001215 894 IRREIRKPLNGIAFMQNLMG--TSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFNLGEALDAVMT 970 (1122)
Q Consensus 894 isHELrnPLt~I~g~~~lL~--~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~dL~~vi~~v~~ 970 (1122)
+.+.|.++|+.+......+. ....++...+.+..+....+++...++++ ...+. ...+.++.+.+.+++.
T Consensus 369 lhd~i~~~L~~l~~~~~~l~~~~~~~~~~~~~~l~~i~~~~~~~~~~lr~ll~~~r~-------~~~~~~l~~~l~~~~~ 441 (569)
T PRK10600 369 LHDSIAQSLSCMKMQVSCLQMQGDALPESSRELLSQIRNELNASWRQLRELLTTFRL-------QLTEPGLRPALEASCE 441 (569)
T ss_pred hccHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCc-------CcccCCHHHHHHHHHH
Confidence 34444555555554444332 23345777888999998888888888885 54443 2356789999999988
Q ss_pred HhccccccCCcEEEeecCCCCcceEEE-ecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEE
Q 001215 971 QVMIPSREHQVQFIRDLPAEVSTMNLH-GDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFR 1049 (1122)
Q Consensus 971 ~~~~~~~~~~i~l~~~~~~~~~~~~v~-~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~ 1049 (1122)
.+.... ...+.+..+.++. .+. .++..|.||+.|++.||+||++ . +.|.|++...++ .+.|+
T Consensus 442 ~~~~~~-~~~i~~~~~~~~~----~~~~~~~~~l~~il~ell~NA~kha~--a-~~i~V~~~~~~~---------~~~l~ 504 (569)
T PRK10600 442 EFSARF-GFPVKLDYQLPPR----LVPSHQAIHLLQIAREALSNALKHAQ--A-SEVVVTVAQNQN---------QVKLS 504 (569)
T ss_pred HHHHHh-CCeEEEEecCCcc----cCCHHHHHHHHHHHHHHHHHHHHhCC--C-CeEEEEEEEcCC---------EEEEE
Confidence 876554 2234444444432 222 2456799999999999999997 3 488888877666 89999
Q ss_pred EEcCCCCCChhhhhhhcCCCCCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCC
Q 001215 1050 ITHPAPGIPEKLIHDMFYHSQGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1050 V~D~G~GI~~e~~~~iF~~f~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
|+|||+|||++. ..++|+||+||+++++.|||+|.+.+.+++|| +|++.||...
T Consensus 505 V~D~G~Gi~~~~----------~~~~glGL~i~~~~~~~lgG~l~i~s~~~~Gt-~v~i~lp~~~ 558 (569)
T PRK10600 505 VQDNGCGVPENA----------ERSNHYGLIIMRDRAQSLRGDCRVRRRESGGT-EVVVTFIPEK 558 (569)
T ss_pred EEECCCCCCccc----------cCCCCccHHHHHHHHHHcCCEEEEEECCCCCE-EEEEEEecCC
Confidence 999999999852 34789999999999999999999999998776 6777777753
No 56
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.56 E-value=6.7e-13 Score=142.18 Aligned_cols=213 Identities=17% Similarity=0.226 Sum_probs=156.6
Q ss_pred ecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhhc
Q 001215 864 HVASPELQYALQVQRISEQAAANSLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDTD 943 (1122)
Q Consensus 864 ~DITerkq~e~~L~~~ae~~~~~k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dLd 943 (1122)
.|+|++++.++.+... .+...+..|.|.++|-|+.|...+.+-.+...++ ..+++.....-...|..+-+.|.
T Consensus 2 ~~~~~~~~~e~~~~~~------~~~~ll~Ei~HRVKNnLqiIsSll~lq~r~~~~~-~~~~~~~~~~Ri~sla~~He~L~ 74 (221)
T COG3920 2 LLTTARKETEERLAES------EKELLLREIHHRVKNNLQIISSLLRLQARKFEDE-VLEALRESQNRIQSLALIHELLY 74 (221)
T ss_pred chHHHHHHHHHHHHHH------HHHHHHHHhhhhhhhHHHHHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHHHHHHHh
Confidence 3567777666654443 3445678899999999999999988876665555 66666666665655555555552
Q ss_pred ccccccccceeeeEEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEec-HHHHHHHHHHHHHHHhhcCCCC-
Q 001215 944 IESIEECYMVLKSGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGD-KLRLQQVLSDFLTNALIFTPAF- 1021 (1122)
Q Consensus 944 ~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D-~~~L~QVL~NLL~NAik~t~~~- 1021 (1122)
-+ .....+...+++.+...+.+....+.+.+..+..+.+ .+..| ..-|-.|+.+|++||+||+..+
T Consensus 75 ~s---------~~~~~~~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~---~l~~d~A~~Lgliv~EL~tNa~Khaf~~~ 142 (221)
T COG3920 75 KS---------GDDTWDFASYLELLASNLFPSYGGKDIRLILDSGPNV---FLDPDTAVPLGLIVHELVTNALKHAFLSR 142 (221)
T ss_pred cC---------CcceEcHHHHHHHHHHHHHHhcCCCCceEEEecCCce---EECchhhHHHHHHHHHHHHHHHHhcCCCC
Confidence 11 2456888999999998888865566788888877753 44444 7889999999999999998653
Q ss_pred CCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCCCCCCccchHHHHHHHH-HHcCcEEEEEecCC
Q 001215 1022 EGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQGASREGLGLYISQKLV-KLMNGTVQYIREAE 1100 (1122)
Q Consensus 1022 ~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~~~~GtGLGL~I~r~iv-e~~gG~I~v~s~~g 1100 (1122)
++|.|.|++...++. + ...+.|.|||.|+|.+ +.. ...|+|+.+++.++ ++.||.+...+..
T Consensus 143 ~~G~I~I~~~~~~~~--~-----~~~l~v~deg~G~~~~--------~~~-~~~g~G~~Lv~~lv~~q~~g~~~~~~~~- 205 (221)
T COG3920 143 PGGEIRITLSREGDG--G-----RFLLTVWDEGGGPPVE--------APL-SRGGFGLQLVERLVPEQLGGELEDERPD- 205 (221)
T ss_pred CCCEEEEEEEEcCCC--C-----eEEEEEEECCCCCCCC--------CCC-CCCCcHHHHHHHHHHHHcCCeEEEEcCC-
Confidence 467999999887771 1 4789999999999874 122 67899999999999 8999999887755
Q ss_pred ceEEEEEEEecCCC
Q 001215 1101 RSSFLILIEFPLAH 1114 (1122)
Q Consensus 1101 g~tF~~~l~LP~~~ 1114 (1122)
|.. |+|.+|..+
T Consensus 206 Gt~--~~i~~~~~~ 217 (221)
T COG3920 206 GTE--FRLRFPLSE 217 (221)
T ss_pred CEE--EEEEEeccc
Confidence 454 445556544
No 57
>PRK10547 chemotaxis protein CheA; Provisional
Probab=99.54 E-value=2.8e-13 Score=165.55 Aligned_cols=141 Identities=16% Similarity=0.198 Sum_probs=108.7
Q ss_pred eehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHH---HHHHHHHHhhcCCC----------CCCCe
Q 001215 959 FNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQV---LSDFLTNALIFTPA----------FEGSS 1025 (1122)
Q Consensus 959 ~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QV---L~NLL~NAik~t~~----------~~g~~ 1025 (1122)
+.+..+++..-..++..++..+.++.+.+... .+..|+..+.++ |.||+.||++|... .++|.
T Consensus 343 ~p~~~~~~~~~rlvrdla~~~gk~v~l~~~g~----~~~lD~~~l~~l~dpL~hLirNAidHgie~p~~R~~~gkp~~G~ 418 (670)
T PRK10547 343 MPMEYVFSRFPRLVRDLAGKLGKQVELTLVGS----STELDKSLIERIIDPLTHLVRNSLDHGIELPEKRLAAGKNSVGN 418 (670)
T ss_pred ccHHHHHHHHHHHHHHHHHHcCCcEEEEEeCC----ceecCHHHHHHHHHHHHHHHHHHHHhhccchhhHHhcCCCCCCc
Confidence 44667777776666666665555555555543 357799999998 67999999999621 13568
Q ss_pred EEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhh---------------------hhcCCC--C-----CCCCccc
Q 001215 1026 IAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIH---------------------DMFYHS--Q-----GASREGL 1077 (1122)
Q Consensus 1026 I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~---------------------~iF~~f--~-----~~~GtGL 1077 (1122)
|.|++...++ .+.|+|+|+|.||+++.+. .||+|+ + ..+|.|+
T Consensus 419 I~l~a~~~~~---------~v~I~V~DdG~GId~e~i~~~a~~~Gl~~~~~ls~~e~~~lIF~pgfst~~~~~~~sGrGv 489 (670)
T PRK10547 419 LILSAEHQGG---------NICIEVTDDGAGLNRERILAKAASQGLAVSENMSDEEVGMLIFAPGFSTAEQVTDVSGRGV 489 (670)
T ss_pred eEEEEEEcCC---------EEEEEEEeCCCCCCHHHHHHHHHHcCCCccccCCHHHHHHHhhcCCcccccccccCCCCch
Confidence 9999888777 8999999999999987543 599994 1 2369999
Q ss_pred hHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCC
Q 001215 1078 GLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLA 1113 (1122)
Q Consensus 1078 GL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~ 1113 (1122)
||.|||++++.|||+|++.|.+|+|| +|+|.||+.
T Consensus 490 GL~iVk~~ve~lgG~I~v~S~~g~Gt-~f~i~LPlt 524 (670)
T PRK10547 490 GMDVVKRNIQEMGGHVEIQSKQGKGT-TIRILLPLT 524 (670)
T ss_pred hHHHHHHHHHHcCCEEEEEecCCCcE-EEEEEEech
Confidence 99999999999999999999998765 666666653
No 58
>PF08448 PAS_4: PAS fold; InterPro: IPR013656 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. ; PDB: 3K3D_A 3K3C_B 3KX0_X 3FC7_B 3LUQ_D 3MXQ_A 3BWL_C 3FG8_A.
Probab=99.46 E-value=3.7e-13 Score=127.60 Aligned_cols=110 Identities=25% Similarity=0.319 Sum_probs=99.8
Q ss_pred HHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCCCCC
Q 001215 617 IETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGPRET 696 (1122)
Q Consensus 617 ie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~~d 696 (1122)
++++|++++++|.+|+|++||+++++++|++.++++|+++.+++++...+.+...+.+++.++.....+.... .+
T Consensus 1 l~~~p~~i~v~D~~~~i~~~N~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~ 75 (110)
T PF08448_consen 1 LDSSPDGIFVIDPDGRIVYANQAAAELFGVSPEELIGRSLFDLLPPEDREEFQAALRRALAGGEPVFFEEILL-----RD 75 (110)
T ss_dssp HHHCSSEEEEEETTSBEEEE-HHHHHHHTSTHHHHTTSBHHHHSCCGCHHHHHHHHHHHHHHTSEEEEEEEEC-----TT
T ss_pred CCCCCceeEEECCCCEEEEEHHHHHHHhCCCHHHHhhccchhccccchhhhhHHHHHHhhccCceEEEEEEEe-----ec
Confidence 6899999999999999999999999999999999999999999999999999999999999987654443332 28
Q ss_pred CCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHH
Q 001215 697 SGPVILVVNACCTQDTKENVIGVCFVGQDITGQKL 731 (1122)
Q Consensus 697 G~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ 731 (1122)
|..+|+.++..|++|.+|++.|++++++|||++|+
T Consensus 76 ~~~~~~~~~~~Pi~~~~g~~~g~~~~~~DiT~~rr 110 (110)
T PF08448_consen 76 GEERWFEVSISPIFDEDGEVVGVLVIIRDITERRR 110 (110)
T ss_dssp SCEEEEEEEEEEEECTTTCEEEEEEEEEEECCHHH
T ss_pred CCcEEEEEEEEEeEcCCCCEEEEEEEEEECchhhC
Confidence 99999999999999999999999999999999986
No 59
>PF13426 PAS_9: PAS domain; PDB: 3ULF_B 3UE6_E 2Z6D_B 2Z6C_B 3P7N_B 1LL8_A 3MJQ_A 3BWL_A 4EET_B 4EEP_A ....
Probab=99.44 E-value=7.6e-13 Score=123.98 Aligned_cols=104 Identities=20% Similarity=0.269 Sum_probs=91.3
Q ss_pred CccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCCCCCCCeE
Q 001215 621 AVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGPRETSGPV 700 (1122)
Q Consensus 621 ~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~ 700 (1122)
|+|++++|.+|+|++||+++++++|++.++++|+++.++++++..+.....+.+++.++.....++.+. +++|..+
T Consensus 1 p~~i~i~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~----~~~g~~~ 76 (104)
T PF13426_consen 1 PDGIFILDPDGRILYVNPAFERLFGYSREELIGKSISDFFPEEDRPEFEEQIERALEEGGSWSGEVRLR----RKDGETF 76 (104)
T ss_dssp -SEEEEEETTSBEEEE-HHHHHHHTS-HHHHTTSBGGGGCSTTSCHHHHHHHHHHHHHTSSEEEEEEEE----ETTSEEE
T ss_pred CEEEEEECCcCcEEehhHHHHHHHCcCHHHHcCCCcccccCcccchhhHHHHHHHHhcCCceeEEEEEE----cCCCCEE
Confidence 789999999999999999999999999999999999999998887888888888887666655555555 6689999
Q ss_pred EEEEEEEEecCCCCCEEEEEEEEEcchh
Q 001215 701 ILVVNACCTQDTKENVIGVCFVGQDITG 728 (1122)
Q Consensus 701 ~v~v~~~pi~d~~G~v~gvv~v~~DITe 728 (1122)
|+.+++.|+++.+|++.+++++++|||+
T Consensus 77 ~~~~~~~~i~~~~g~~~~~i~~~~DiTe 104 (104)
T PF13426_consen 77 WVEVSASPIRDEDGEITGIIGIFRDITE 104 (104)
T ss_dssp EEEEEEEEEEETTSSEEEEEEEEEEEHH
T ss_pred EEEEEEEEEECCCCCEEEEEEEEEECCC
Confidence 9999999999999999999999999996
No 60
>PF00989 PAS: PAS fold; InterPro: IPR013767 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: 0006355 regulation of transcription, DNA-dependent; PDB: 2GJ3_A 4F3L_B 1XFN_A 1OTD_A 2PYR_A 1KOU_A 1XFQ_A 2ZOI_A 2ZOH_A 1OTA_A ....
Probab=99.42 E-value=1.6e-12 Score=123.89 Aligned_cols=112 Identities=24% Similarity=0.376 Sum_probs=95.0
Q ss_pred HHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCc-ceeEEEEEE
Q 001215 611 NEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIE-ERNVEIKLR 689 (1122)
Q Consensus 611 ~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~-~~~~e~~l~ 689 (1122)
++|+.+++++++|++++|.+|+|++||++++++||++.++++|+++.+++++++.......+...+.... ....+....
T Consensus 1 e~~~~i~~~~~~~i~~~d~~g~I~~~N~a~~~l~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (113)
T PF00989_consen 1 ERYRAILENSPDGIFVIDEDGRILYVNQAAEELLGYSREELIGKSLFDLIHPEDRRELRERLRQALSQGESGESFEVRFR 80 (113)
T ss_dssp HHHHHHHHCSSSEEEEEETTSBEEEECHHHHHHHSS-HHHHTTSBGGGGCSGGGHHHHHHHHHHHHHHCCHECEEEEEEE
T ss_pred CHHHHHHhcCCceEEEEeCcCeEEEECHHHHHHHccCHHHHcCCcHHHhcCchhhHHHHHHHHHHHHcCCCceeEEEEEE
Confidence 4789999999999999999999999999999999999999999999999998877666666666665443 334444444
Q ss_pred EeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcc
Q 001215 690 AFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDI 726 (1122)
Q Consensus 690 ~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DI 726 (1122)
. ++|+.+|+.++..|+++.+|++.|++++++||
T Consensus 81 ~----~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~DI 113 (113)
T PF00989_consen 81 L----RDGRPRWVEVRASPVRDEDGQIIGILVIFRDI 113 (113)
T ss_dssp E----TTSCEEEEEEEEEEEEETTEEEEEEEEEEEE-
T ss_pred e----cCCcEEEEEEEEEEEEeCCCCEEEEEEEEEeC
Confidence 3 58999999999999999999999999999997
No 61
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=99.36 E-value=5.5e-11 Score=135.75 Aligned_cols=189 Identities=19% Similarity=0.296 Sum_probs=134.7
Q ss_pred HhHHHHHHHhhhhHHHHHHHHHHH----hcCC---CCCHHHHHHHHHHHHHH----HHHHHHHhhhcccccccccceeee
Q 001215 888 LNKLEYIRREIRKPLNGIAFMQNL----MGTS---DLSEEQKQLLKTSVLCQ----EQLTNIVDDTDIESIEECYMVLKS 956 (1122)
Q Consensus 888 ~~fLa~isHELrnPLt~I~g~~~l----L~~~---~l~~~~~~~L~~i~~~~----~rl~~iI~dLd~srie~g~~~l~~ 956 (1122)
++.-+.|+.|+...|.....|+++ |+.. ...++....+..+.+.. .++.+++... -+..
T Consensus 370 mEERatIAReLHDSiAQsLS~LkiQvt~L~~~~~~~~~e~s~~~i~~~r~~Ln~~Y~QLRELLtTF----------RltL 439 (574)
T COG3850 370 MEERATIARELHDSIAQSLSFLKIQVTLLKTAIPEELPEKAREIIAQIRQGLNDAYRQLRELLTTF----------RLTL 439 (574)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHhc
Confidence 344477888888888877766655 3332 34445555554444433 3444444332 1223
Q ss_pred EEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEec-HHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEeccc
Q 001215 957 GEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGD-KLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKE 1035 (1122)
Q Consensus 957 ~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D-~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~ 1035 (1122)
.+-+|...+++++..+.... +-.+++.+.+|+. .+..+ ++.+-||+.+-++||+||+. +..|.|++....+
T Consensus 440 ~e~~L~~AL~~~~~~f~~qt-g~~~~l~~qlp~~----~lpa~qqvHlLqIvREAlsNa~KHa~---As~i~V~~~~~~g 511 (574)
T COG3850 440 QEAELPPALEQMLAEFSNQT-GITVTLDYQLPPR----ALPAHQQVHLLQIVREALSNAIKHAQ---ASEIKVTVSQNDG 511 (574)
T ss_pred ccCchHHHHHHHHHHHHhcc-CCeEEEeccCCCC----CCCHHHHHHHHHHHHHHHHHHHHhcc---cCeEEEEEEecCC
Confidence 55678889999999887655 2234444455543 33343 77899999999999999998 4589999888766
Q ss_pred ccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCCCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCC
Q 001215 1036 RIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1036 ~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
.++++|.|||+|||+. ...+| --||.|+++.++..||.+.+++.+|||| .|.+.||-..
T Consensus 512 ---------~~~~~VeDnG~Gi~~~---------~e~~g-HyGL~IM~ERA~~L~~~L~i~~~~~gGT-~V~ltf~~~~ 570 (574)
T COG3850 512 ---------QVTLTVEDNGVGIDEA---------AEPSG-HYGLNIMRERAQRLGGQLRIRRREGGGT-EVSLTFPPEE 570 (574)
T ss_pred ---------eEEEEEeeCCcCCCCc---------cCCCC-CcchHHHHHHHHHhcCeEEEeecCCCCe-EEEEEecccc
Confidence 8999999999999985 23334 7899999999999999999999999998 8888888543
No 62
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.35 E-value=8.4e-12 Score=160.63 Aligned_cols=151 Identities=18% Similarity=0.164 Sum_probs=131.1
Q ss_pred ccchhhhHHHHHHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHH
Q 001215 593 VPSVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNML 672 (1122)
Q Consensus 593 ~r~~~~~~~~~~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l 672 (1122)
.+.++++++++++|++.+++++.+++++|++|+++|.+|+|++||+++++++|++.++++|+++.++++++....+....
T Consensus 137 ~~~i~~r~~~~~~l~~~~~~l~~il~~~~~~i~~~D~~g~i~~~N~a~~~l~G~~~~eliG~~~~~l~~~~~~~~~~~~~ 216 (779)
T PRK11091 137 KNEIKEREETQIELEQQSSLLRSFLDASPDLVYYRNEDGEFSGCNRAMELLTGKSEKQLIGLTPKDVYSPEAAEKVIETD 216 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCcceEEEECCCCcEEeEcHHHHHHhCcCHHHHcCCChHHhCCHHHHHHHHHHH
Confidence 34566788889999999999999999999999999999999999999999999999999999999999988777777777
Q ss_pred HHHHcCCcceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhh
Q 001215 673 SSAFLGIEERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIV 747 (1122)
Q Consensus 673 ~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~ 747 (1122)
...+.++.....+..+. +++|..+|+.++..|+++.+|++.|++++++|||++|++|+++++..+....++
T Consensus 217 ~~~~~~~~~~~~e~~~~----~~~G~~~~~~~~~~pi~~~~g~~~g~v~~~~DITe~k~~e~~l~~a~~~~~~~~ 287 (779)
T PRK11091 217 EKVFRHNVSLTYEQWLD----YPDGRKACFELRKVPFYDRVGKRHGLMGFGRDITERKRYQDALEKASRDKTTFI 287 (779)
T ss_pred HHHHhcCCCeEEEEEEE----cCCCCEEEEEEEeeeEEcCCCCEEEEEEEEeehhHHHHHHHHHHHHHHHHHHHH
Confidence 77777766555554444 578999999999999999999999999999999999999999887665444433
No 63
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.34 E-value=3.3e-11 Score=140.77 Aligned_cols=154 Identities=18% Similarity=0.251 Sum_probs=108.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccccccccceeeeEEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHH
Q 001215 922 KQLLKTSVLCQEQLTNIVDDTDIESIEECYMVLKSGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKL 1001 (1122)
Q Consensus 922 ~~~L~~i~~~~~rl~~iI~dLd~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~ 1001 (1122)
+..-+.++++.+.+..++.+|....++ ...+.+.+...+..+. ...++.+..+.....+. .-..-..
T Consensus 212 ~~i~~~~~e~l~evR~~v~~Lrp~~l~---------~~~l~~~l~~~~~~~~---~~~~~~~~~~~~~~~~~-L~~~~e~ 278 (365)
T COG4585 212 KEIEKLLREALQEVRALVRDLRPVELE---------GLGLVEALRALLADFE---ERTGITVDLSLGSELER-LPPEAED 278 (365)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCchhh---------cchHHHHHHHHHHHHH---hhcCeEEEEecCccccc-CChhHHH
Confidence 334455555666666666665332222 1224455555555544 34456666555431110 1123478
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCCCCCCccchHHH
Q 001215 1002 RLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQGASREGLGLYI 1081 (1122)
Q Consensus 1002 ~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~~~~GtGLGL~I 1081 (1122)
.|.+|+++.|+||+||+. ...|.|++...++ .+.++|.|||.|++++. . + .|+||.-
T Consensus 279 ~l~rivQEaltN~~rHa~---A~~v~V~l~~~~~---------~l~l~V~DnG~Gf~~~~---------~-~-~~~GL~~ 335 (365)
T COG4585 279 ALFRIVQEALTNAIRHAQ---ATEVRVTLERTDD---------ELRLEVIDNGVGFDPDK---------E-G-GGFGLLG 335 (365)
T ss_pred HHHHHHHHHHHHHHhccC---CceEEEEEEEcCC---------EEEEEEEECCcCCCccc---------c-C-CCcchhh
Confidence 899999999999999998 4489999999888 89999999999977631 1 1 7899999
Q ss_pred HHHHHHHcCcEEEEEecCCceEEEEEEEecC
Q 001215 1082 SQKLVKLMNGTVQYIREAERSSFLILIEFPL 1112 (1122)
Q Consensus 1082 ~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~ 1112 (1122)
+|+.|+.+||++.+.|.+|+|| ++++.+|+
T Consensus 336 mreRv~~lgG~l~i~S~~g~Gt-~i~i~lPl 365 (365)
T COG4585 336 MRERVEALGGTLTIDSAPGQGT-TVTITLPL 365 (365)
T ss_pred HHHHHHHcCCEEEEEecCCCce-EEEEecCC
Confidence 9999999999999999998776 89999885
No 64
>PF13426 PAS_9: PAS domain; PDB: 3ULF_B 3UE6_E 2Z6D_B 2Z6C_B 3P7N_B 1LL8_A 3MJQ_A 3BWL_A 4EET_B 4EEP_A ....
Probab=99.34 E-value=7.4e-12 Score=117.25 Aligned_cols=103 Identities=21% Similarity=0.290 Sum_probs=89.3
Q ss_pred CCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEEEEc
Q 001215 755 PPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFGFFD 834 (1122)
Q Consensus 755 ~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~ 834 (1122)
.|++++|.+|+|+++|+++++++|+++++++|+++. .+..++........+.+.+.++.....++.+.+
T Consensus 2 ~~i~i~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 70 (104)
T PF13426_consen 2 DGIFILDPDGRILYVNPAFERLFGYSREELIGKSIS-----------DFFPEEDRPEFEEQIERALEEGGSWSGEVRLRR 70 (104)
T ss_dssp SEEEEEETTSBEEEE-HHHHHHHTS-HHHHTTSBGG-----------GGCSTTSCHHHHHHHHHHHHHTSSEEEEEEEEE
T ss_pred EEEEEECCcCcEEehhHHHHHHHCcCHHHHcCCCcc-----------cccCcccchhhHHHHHHHHhcCCceeEEEEEEc
Confidence 389999999999999999999999999999999852 233345556677788888887777888999999
Q ss_pred cCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccH
Q 001215 835 QQGKYVEALLSANKRTNAEGKISGILCFLHVASP 868 (1122)
Q Consensus 835 ~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITe 868 (1122)
++|+.+|+.+++.|+.+.+|++.+++++++|||+
T Consensus 71 ~~g~~~~~~~~~~~i~~~~g~~~~~i~~~~DiTe 104 (104)
T PF13426_consen 71 KDGETFWVEVSASPIRDEDGEITGIIGIFRDITE 104 (104)
T ss_dssp TTSEEEEEEEEEEEEEETTSSEEEEEEEEEEEHH
T ss_pred CCCCEEEEEEEEEEEECCCCCEEEEEEEEEECCC
Confidence 9999999999999999999999999999999996
No 65
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=99.29 E-value=4.9e-10 Score=121.25 Aligned_cols=189 Identities=15% Similarity=0.259 Sum_probs=142.4
Q ss_pred hHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhhcccccccccceeeeEEeehHHHHHHH
Q 001215 889 NKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDTDIESIEECYMVLKSGEFNLGEALDAV 968 (1122)
Q Consensus 889 ~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dLd~srie~g~~~l~~~~~dL~~vi~~v 968 (1122)
.....+..||-+.+|+|..-+.++++...++..++....|++-+.++-.-++.| +.++. +-...+..+.+++..+
T Consensus 305 ~vARELHDeIGQnITAIr~Qa~ivkR~~~~~q~kqaas~Ie~LslrI~~svrqL-L~rLR----P~~LDdL~l~qai~~l 379 (497)
T COG3851 305 DVARELHDEIGQNITAIRTQAGIVKRAADNAQVKQAASLIEQLSLRIYDSVRQL-LGRLR----PRQLDDLTLEQAIRSL 379 (497)
T ss_pred HHHHHHHHHhcchHHHHHHHHHHHHhccCCHhHHhHHHHHHHHHHHHHHHHHHH-HHhcC----CcccccccHHHHHHHH
Confidence 344578889999999999888999888778877887777777666666666654 11111 2234566788889888
Q ss_pred HHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEE
Q 001215 969 MTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEF 1048 (1122)
Q Consensus 969 ~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~ 1048 (1122)
+..++ +.++||.+.++...+..+ .-..-+.-|.++++++++|.+||+. .+.|+|.....++ .+.+
T Consensus 380 ~~Em~--~~ergihcq~~~~~n~~~-ldet~rvTLyRl~QE~LNNI~KHA~---AS~V~i~l~~~~e---------~l~L 444 (497)
T COG3851 380 LREME--LEERGIHCQLDWRINETA-LDETQRVTLYRLCQELLNNICKHAD---ASAVTIQLWQQDE---------RLML 444 (497)
T ss_pred HHHhh--hhhcCeEEEeccccCccc-CCcceeEeHHHHHHHHHHHHHhccc---cceEEEEEeeCCc---------EEEE
Confidence 88775 456777776655443211 1111245689999999999999998 4499999999887 8999
Q ss_pred EEEcCCCCCChhhhhhhcCCCCCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEec
Q 001215 1049 RITHPAPGIPEKLIHDMFYHSQGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFP 1111 (1122)
Q Consensus 1049 ~V~D~G~GI~~e~~~~iF~~f~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP 1111 (1122)
+|+|||.|+|+ +.+-.|+||.-+++.|...||++.++|. .|| ++.+.||
T Consensus 445 ei~DdG~Gl~~-----------~~~v~G~Gl~GmrERVsaLGG~ltlssq--~GT-rviVnLP 493 (497)
T COG3851 445 EIEDDGSGLPP-----------GSGVQGFGLTGMRERVSALGGTLTLSSQ--HGT-RVIVNLP 493 (497)
T ss_pred EEecCCcCCCC-----------CCCccCcCcchHHHHHHHhCCceEEEec--cCc-EEEEecc
Confidence 99999999986 3456799999999999999999999984 345 6777778
No 66
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=99.28 E-value=4.1e-11 Score=113.08 Aligned_cols=103 Identities=36% Similarity=0.574 Sum_probs=86.2
Q ss_pred ecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC-------
Q 001215 998 GDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ------- 1070 (1122)
Q Consensus 998 ~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~------- 1070 (1122)
+|+..|.+++.|++.||++|... ++.|.|++....+ .+.+.|.|+|.|++++....+|.++.
T Consensus 1 ~~~~~l~~~~~~l~~n~~~~~~~--~~~v~i~~~~~~~---------~~~i~i~d~g~g~~~~~~~~~~~~~~~~~~~~~ 69 (111)
T smart00387 1 GDPDRLRQVLSNLLDNAIKYTPE--GGRITVTLERDGD---------HLEITVEDNGPGIPPEDLEKIFEPFFRTDGRSR 69 (111)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCC--CCeEEEEEEEcCC---------EEEEEEEeCCCCCCHHHHHHHhcCeEECCCCCC
Confidence 47789999999999999999983 4589999888777 88999999999999999999998862
Q ss_pred CCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecC
Q 001215 1071 GASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPL 1112 (1122)
Q Consensus 1071 ~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~ 1112 (1122)
...+.|+||++|+.+++.|+|++.+.+.+++++ +|++.+|+
T Consensus 70 ~~~~~g~gl~~~~~~~~~~~g~~~~~~~~~~g~-~~~~~~~~ 110 (111)
T smart00387 70 KIGGTGLGLSIVKKLVELHGGEISVESEPGGGT-TFTITLPL 110 (111)
T ss_pred CCCcccccHHHHHHHHHHcCCEEEEEecCCCcE-EEEEEeeC
Confidence 135789999999999999999999988755443 45555554
No 67
>PF00989 PAS: PAS fold; InterPro: IPR013767 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: 0006355 regulation of transcription, DNA-dependent; PDB: 2GJ3_A 4F3L_B 1XFN_A 1OTD_A 2PYR_A 1KOU_A 1XFQ_A 2ZOI_A 2ZOH_A 1OTA_A ....
Probab=99.28 E-value=2.9e-11 Score=115.11 Aligned_cols=112 Identities=27% Similarity=0.389 Sum_probs=92.3
Q ss_pred hhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHh
Q 001215 741 GDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVI 820 (1122)
Q Consensus 741 ~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l 820 (1122)
++|+++++++++ |++++|.+|+|+++|+++++++||++++++|+++. ++.++++.......+...+
T Consensus 1 e~~~~i~~~~~~---~i~~~d~~g~I~~~N~a~~~l~g~~~~~~~g~~~~-----------~~~~~~~~~~~~~~~~~~~ 66 (113)
T PF00989_consen 1 ERYRAILENSPD---GIFVIDEDGRILYVNQAAEELLGYSREELIGKSLF-----------DLIHPEDRRELRERLRQAL 66 (113)
T ss_dssp HHHHHHHHCSSS---EEEEEETTSBEEEECHHHHHHHSS-HHHHTTSBGG-----------GGCSGGGHHHHHHHHHHHH
T ss_pred CHHHHHHhcCCc---eEEEEeCcCeEEEECHHHHHHHccCHHHHcCCcHH-----------HhcCchhhHHHHHHHHHHH
Confidence 478999999999 89999999999999999999999999999999864 3344554445666666666
Q ss_pred cCCC-cceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecc
Q 001215 821 SGQD-ADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVA 866 (1122)
Q Consensus 821 ~g~~-~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DI 866 (1122)
.... ....+..+..++|+.+|+.+..+|+.+.+|++.|++++++||
T Consensus 67 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~DI 113 (113)
T PF00989_consen 67 SQGESGESFEVRFRLRDGRPRWVEVRASPVRDEDGQIIGILVIFRDI 113 (113)
T ss_dssp HHCCHECEEEEEEEETTSCEEEEEEEEEEEEETTEEEEEEEEEEEE-
T ss_pred HcCCCceeEEEEEEecCCcEEEEEEEEEEEEeCCCCEEEEEEEEEeC
Confidence 5544 455666666689999999999999999999999999999997
No 68
>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases. cGMP-dependent 3',5'-cyclic phosphodiesterase (3.1.4.17 from EC) catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. A phytochrome is a regulatory photoreceptor which exists in 2 forms that are reversibly interconvertible by light, the PR form that absorbs maximally in the red region of the spectrum, and the PFR form that absorbs maximally in the far-red region. This domain is also found in NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54.; GO: 0005515 protein binding; PDB: 2Y8H_A 3DBA_B 3CI6_A 3E0Y_B 2W3G_B 2W3D_A 2W3E_A 2Y79_B 2W3H_A 2W3F_A ....
Probab=99.27 E-value=2.3e-11 Score=123.09 Aligned_cols=153 Identities=18% Similarity=0.194 Sum_probs=113.1
Q ss_pred CHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHhCCeEEeecCCCCc
Q 001215 215 NISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPP 294 (1122)
Q Consensus 215 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~~~~r~i~d~~~~~ 294 (1122)
|++++++.+++++++++|+||+++|.+++++..-...-.....-.+..+..++.. - ....+....+..-.|.|+...|
T Consensus 1 Dl~~~l~~~~~~l~~~l~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~i~d~~~~~ 78 (154)
T PF01590_consen 1 DLDELLQRILRELAELLGADRASIFLLDPDGNRLYSVAGVGLPDPPPGGRRLSMD-E-SICGQVLQSREPIVISDVAADP 78 (154)
T ss_dssp SHHHHHHHHHHHHHHHHTESEEEEEEEETTTTEEEEEEEEEGGGSEHHHEEEETT-S-SHHHHHHHHTSCEEESSSGGST
T ss_pred CHHHHHHHHHHHHHHHHCCCEEEEEEEecCCCeEEEEEeeccccccccccccccc-c-cHHHHHHhCCCeEeeccccccc
Confidence 6899999999999999999999999999998776444333222222222222211 1 1256666677777788854443
Q ss_pred ceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEeecCCC-CCCCh
Q 001215 295 VKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSP-RFVPF 373 (1122)
Q Consensus 295 ~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~~p-r~~~~ 373 (1122)
-. .+.......+|+.++|+.+|+..+|+++.|++||..+ |++||.|+++++.| |.|+.
T Consensus 79 ~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~vPi~~~-------------g~~~G~l~l~~~~~~~~~~~ 137 (154)
T PF01590_consen 79 RF--------APQIAAQSALRALSSAERPFLAEYGVRSYLCVPIISG-------------GRLIGVLSLYRTRPGRPFTE 137 (154)
T ss_dssp TS--------SCHHHHHHTTBTTTHHHHHHHHTTTESEEEEEEEEET-------------TEEEEEEEEEEESSSSS--H
T ss_pred cc--------cccccccccccccccccccccccccCceeeEeeeecc-------------cCcEEEEEEEECCCCCCcCH
Confidence 21 2222334567889999999999999999999999877 99999999999997 99999
Q ss_pred hhHHHHHHHHHHHHHHH
Q 001215 374 PLRYACEFLIQVFGVQV 390 (1122)
Q Consensus 374 ~~r~~~~~l~~~~~~~~ 390 (1122)
+.+..++.+++.+++.|
T Consensus 138 ~d~~ll~~~a~~~a~ai 154 (154)
T PF01590_consen 138 EDLALLESFAQQLAIAI 154 (154)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhC
Confidence 99999999999888765
No 69
>PF08448 PAS_4: PAS fold; InterPro: IPR013656 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. ; PDB: 3K3D_A 3K3C_B 3KX0_X 3FC7_B 3LUQ_D 3MXQ_A 3BWL_C 3FG8_A.
Probab=99.24 E-value=4.5e-11 Score=113.23 Aligned_cols=109 Identities=19% Similarity=0.280 Sum_probs=94.8
Q ss_pred cCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcce
Q 001215 748 SSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADK 827 (1122)
Q Consensus 748 e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~ 827 (1122)
+++++ +++++|.+|+++++|+++.+++|+++++++|+.+. ++.++.....+...+.+++.++....
T Consensus 2 ~~~p~---~i~v~D~~~~i~~~N~~~~~~~~~~~~~~~G~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 (110)
T PF08448_consen 2 DSSPD---GIFVIDPDGRIVYANQAAAELFGVSPEELIGRSLF-----------DLLPPEDREEFQAALRRALAGGEPVF 67 (110)
T ss_dssp HHCSS---EEEEEETTSBEEEE-HHHHHHHTSTHHHHTTSBHH-----------HHSCCGCHHHHHHHHHHHHHHTSEEE
T ss_pred CCCCc---eeEEECCCCEEEEEHHHHHHHhCCCHHHHhhccch-----------hccccchhhhhHHHHHHhhccCceEE
Confidence 45666 89999999999999999999999999999999864 33345678889999999999998877
Q ss_pred eEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHH
Q 001215 828 ILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQ 871 (1122)
Q Consensus 828 ~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq 871 (1122)
.+..... +|+.+|+.++..|+.|.+|++.|++++++|||++|+
T Consensus 68 ~~~~~~~-~~~~~~~~~~~~Pi~~~~g~~~g~~~~~~DiT~~rr 110 (110)
T PF08448_consen 68 FEEILLR-DGEERWFEVSISPIFDEDGEVVGVLVIIRDITERRR 110 (110)
T ss_dssp EEEEECT-TSCEEEEEEEEEEEECTTTCEEEEEEEEEEECCHHH
T ss_pred EEEEEee-cCCcEEEEEEEEEeEcCCCCEEEEEEEEEECchhhC
Confidence 6666555 999999999999999999999999999999999875
No 70
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=99.23 E-value=4.2e-11 Score=141.63 Aligned_cols=109 Identities=17% Similarity=0.265 Sum_probs=83.6
Q ss_pred ecHHHHHHHHHHHHHHHhhcCCCCC-CCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC------
Q 001215 998 GDKLRLQQVLSDFLTNALIFTPAFE-GSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ------ 1070 (1122)
Q Consensus 998 ~D~~~L~QVL~NLL~NAik~t~~~~-g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~------ 1070 (1122)
++...|.|++.|||.||++|++..+ .+.|.|.+...... ...+.|+|.|||+||+++.+.++|++|.
T Consensus 32 ~p~~~L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~~~------~~~~~I~V~DNG~GIp~e~l~~iF~~f~~~SK~~ 105 (535)
T PRK04184 32 NPARALYTTVKELVDNSLDACEEAGILPDIKIEIKRVDEG------KDHYRVTVEDNGPGIPPEEIPKVFGKLLYGSKFH 105 (535)
T ss_pred CCHHHHHHHHHHHHHHHHHHhhhcCCCceEEEEEEEccCC------CcEEEEEEEcCCCCCCHHHHHHHhhhhhcccccc
Confidence 3467899999999999999997311 12577777653110 0168899999999999999999999851
Q ss_pred ----CCCCccchHHHHHHHHHHcCcE-EEEEecCCce--EEEEEEEecC
Q 001215 1071 ----GASREGLGLYISQKLVKLMNGT-VQYIREAERS--SFLILIEFPL 1112 (1122)
Q Consensus 1071 ----~~~GtGLGL~I~r~ive~~gG~-I~v~s~~gg~--tF~~~l~LP~ 1112 (1122)
..++.|+||++|+.+++.|+|. |.+.|.++++ +|.|+++++.
T Consensus 106 ~~~~s~G~~GLGLsiv~~isq~~~G~~I~V~S~~~~g~~~~~~~l~id~ 154 (535)
T PRK04184 106 NLRQSRGQQGIGISAAVLYAQMTTGKPVRVISSTGGSKKAYYFELKIDT 154 (535)
T ss_pred ccccCCCCCCcchHHHHHHHHHhcCCcEEEEEecCCCceEEEEEEEecc
Confidence 1245899999999999999987 9999988765 4666666553
No 71
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.23 E-value=2.6e-09 Score=114.41 Aligned_cols=220 Identities=11% Similarity=0.165 Sum_probs=141.8
Q ss_pred EeeecccHHHHHHHHHHHHHHHHHHH----HHhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHH
Q 001215 861 CFLHVASPELQYALQVQRISEQAAAN----SLNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLT 936 (1122)
Q Consensus 861 ~~l~DITerkq~e~~L~~~ae~~~~~----k~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~ 936 (1122)
|..-...+++.+...|++++++.-.. |......+..-|.+.|-+....+++..+.-.++... .-..+..+++.+.
T Consensus 221 ~lalNl~ehRlAD~kLkeL~qrvv~tQedEr~rlaRELHDGIsQ~LVs~k~~lela~~ql~~p~~~-a~~aieKaa~aL~ 299 (459)
T COG4564 221 CLALNLREHRLADKKLKELAQRVVDTQEDERARLARELHDGISQNLVSVKCALELAARQLNPPKGG-AHPAIEKAADALN 299 (459)
T ss_pred HHHhhhHHHHhhhhHHHHHHHHHhhchhHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccCCCCCCC-CchhhhhHHHHHH
Confidence 44556677777777777777664332 333334455557778888888888886643222110 0122223334444
Q ss_pred HHHhhh-cccccccccceeeeE---EeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHH
Q 001215 937 NIVDDT-DIESIEECYMVLKSG---EFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLT 1012 (1122)
Q Consensus 937 ~iI~dL-d~srie~g~~~l~~~---~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~ 1012 (1122)
.-|+.. .+|. ++.+. ..-|...++..++.+. ...|+++.+..+.... .....-...|.+|.++-++
T Consensus 300 ~Ai~EVRRiSH------~LRP~~LDDLGL~aALe~L~~~f~---~~tg~~itle~~~~p~-~l~~e~~talyRv~QEalt 369 (459)
T COG4564 300 GAIKEVRRISH------DLRPRALDDLGLTAALEALLEDFK---ERTGIEITLEFDTQPG-KLKPEVATALYRVVQEALT 369 (459)
T ss_pred HHHHHHHHhcc------ccChhhhhhhhHHHHHHHHHHHhh---hccCeEEEEEecCCcc-cCCcHHHHHHHHHHHHHHH
Confidence 444443 2211 22222 2335566666666665 4567777665544211 1223347889999999999
Q ss_pred HHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCCCCCCccchHHHHHHHHHHcCcE
Q 001215 1013 NALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQGASREGLGLYISQKLVKLMNGT 1092 (1122)
Q Consensus 1013 NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~~~~GtGLGL~I~r~ive~~gG~ 1092 (1122)
|.=+|+. ...|+|.+....+ .+.+.|+|||+|++.+... ..-.|+||--+|+.+...||+
T Consensus 370 NIErHa~---Atrv~ill~~~~d---------~vql~vrDnG~GF~~~~~~--------~~~~GiGLRNMrERma~~GG~ 429 (459)
T COG4564 370 NIERHAG---ATRVTILLQQMGD---------MVQLMVRDNGVGFSVKEAL--------QKRHGIGLRNMRERMAHFGGE 429 (459)
T ss_pred HHHhhcC---CeEEEEEeccCCc---------ceEEEEecCCCCccchhhc--------cCccccccccHHHHHHHhCce
Confidence 9999996 4489998888777 8999999999998875422 223699999999999999999
Q ss_pred EEEEecCCceEEEEEEEecCC
Q 001215 1093 VQYIREAERSSFLILIEFPLA 1113 (1122)
Q Consensus 1093 I~v~s~~gg~tF~~~l~LP~~ 1113 (1122)
+.++|+|.|+. +++-||..
T Consensus 430 ~~v~s~p~GTe--l~v~Lp~~ 448 (459)
T COG4564 430 LEVESSPQGTE--LTVLLPLD 448 (459)
T ss_pred EEEEecCCCcE--EEEEecch
Confidence 99999999654 55666753
No 72
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=99.21 E-value=2.1e-10 Score=141.18 Aligned_cols=163 Identities=17% Similarity=0.225 Sum_probs=121.8
Q ss_pred HHHHHHHHHHHHHhhh--cccccccccceeeeEEeehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHH
Q 001215 927 TSVLCQEQLTNIVDDT--DIESIEECYMVLKSGEFNLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQ 1004 (1122)
Q Consensus 927 ~i~~~~~rl~~iI~dL--d~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~ 1004 (1122)
.......++.++..+| ...+ ...+.+..++...-..++..+++.|-++.+.+..+ ....|+.-|.
T Consensus 365 el~~~~~~l~~~~~~LQd~vm~---------~RMvP~~~vf~RfpR~VRdla~~lgK~V~L~ieG~----~telDksIlE 431 (716)
T COG0643 365 ELDEALRQLSRLTTDLQDEVMK---------IRMVPFEQVFSRFPRMVRDLARKLGKQVELVIEGE----DTELDKSILE 431 (716)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---------HhceeHHHHHhhccHHHHHHHHHhCCeeEEEEecC----CeeehHHHHH
Confidence 3444455666777776 2222 23455677777766666666655554444444443 3567998888
Q ss_pred HH---HHHHHHHHhhcCCC----------CCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhh--------
Q 001215 1005 QV---LSDFLTNALIFTPA----------FEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIH-------- 1063 (1122)
Q Consensus 1005 QV---L~NLL~NAik~t~~----------~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~-------- 1063 (1122)
++ |..||.||++|.=. ++.|+|++++...++ ++.|.|+|+|.||+.+.+.
T Consensus 432 ~l~dPL~HLvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~~~gn---------~ivIev~DDG~Gid~ekI~~KAiErGl 502 (716)
T COG0643 432 RLGDPLTHLVRNAVDHGIETPEERRAAGKPEEGTITLSAYHEGN---------NIVIEVSDDGAGIDREKIREKAIERGL 502 (716)
T ss_pred HhcccHHHHHhcchhccCCCHHHHHHcCCCCcceEEEEEEcCCC---------eEEEEEeeCCCCCCHHHHHHHHHHcCC
Confidence 87 78999999999511 244699999999888 9999999999999987533
Q ss_pred ----------------hhcCC-C------CCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecC
Q 001215 1064 ----------------DMFYH-S------QGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPL 1112 (1122)
Q Consensus 1064 ----------------~iF~~-f------~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~ 1112 (1122)
-||.| | +.-+|-|.||=+||+-|+.+||+|.++|++|+|| +|+|.||+
T Consensus 503 i~~~~a~~lSd~Ei~~LIF~PGFSTa~~VtdvSGRGVGMDVVk~~I~~LgG~I~V~S~~G~GT-~Fti~LPL 573 (716)
T COG0643 503 ITEEEAETLSDEEILNLIFAPGFSTAEQVTDVSGRGVGMDVVKTNIEQLGGSISVSSEPGKGT-TFTIRLPL 573 (716)
T ss_pred CChHHhccCCHHHHHHHHhcCCCCcchhhhcccCCccCHHHHHHHHHHcCCEEEEEecCCCCe-EEEEecCc
Confidence 27888 3 4667999999999999999999999999999887 78888886
No 73
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=99.16 E-value=6.9e-12 Score=157.99 Aligned_cols=225 Identities=25% Similarity=0.346 Sum_probs=189.7
Q ss_pred HHHHHh--HHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccccccceeeeEEee
Q 001215 884 AANSLN--KLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIEECYMVLKSGEFN 960 (1122)
Q Consensus 884 ~~~k~~--fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie~g~~~l~~~~~d 960 (1122)
...+.+ +++.++||||+|+++ +....+..+..+.+++.+++....+......+++++ |.++++.|..++.-.+|+
T Consensus 216 ~~~~sq~~~~~~~sHeir~p~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~s~ln~i~d~~~v~~g~~~l~~~rf~ 293 (786)
T KOG0519|consen 216 VWSPSQKGFLATLSHEIRTPLNG--GMLGGLSDTDLDSDQRLILNTDRVSAKSLLSLLNDILDLSKVESGKGELVAKRFD 293 (786)
T ss_pred ccCccchhhcccccceeeccccc--CcceEEeccccchHHHHHHHHHhhhccccchhHHHhhcccccccccceeeeeecc
Confidence 334444 788999999999998 777777788889999999999999999999999997 999999999999999999
Q ss_pred hHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCcc
Q 001215 961 LGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKN 1040 (1122)
Q Consensus 961 L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~ 1040 (1122)
+..+++.++..+...+..+++.+....+.+.|. .+.+|..++.||+.|++.||+|++. .+ .|.+++..........
T Consensus 294 l~~ll~~~~~~~~e~~~~~~~~l~~~~~~~~p~-~v~~de~~~~qv~~n~v~naik~t~--~~-~i~~~~~~~~~~~~~~ 369 (786)
T KOG0519|consen 294 LRTLLNFVISLLSELSQAKYAILVLDLSSGVPR-NVRGDEARLRQVIANLVSNAIKFTH--AG-HLEESVIAREELSESN 369 (786)
T ss_pred hHhhhhhhhhhhHHHhhcCCeEEEEecCCCCcc-eeeccceeeeeeehhhccceecccc--cc-eEEEEEEeehhcchhh
Confidence 999999999999999999999999999988765 7899999999999999999999998 34 7777776554421100
Q ss_pred ---------------------------c------------eeEEEEEEEEcCCCCCChhhhhh-hcCCC--------CCC
Q 001215 1041 ---------------------------I------------HIVHLEFRITHPAPGIPEKLIHD-MFYHS--------QGA 1072 (1122)
Q Consensus 1041 ---------------------------~------------~~~~v~~~V~D~G~GI~~e~~~~-iF~~f--------~~~ 1072 (1122)
. ......+.+.|+|.||+.+.... +|.+| +..
T Consensus 370 ~~l~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~~~~~~~~ 449 (786)
T KOG0519|consen 370 DVLLRAKEEAHMAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPDSGLEIQTVMRSSNVFTSLIQADPDITRLY 449 (786)
T ss_pred HHHHhhhhhhhhccchhhhHHHHhccccccccccccccchhhHhheEeccCCceeEehhhhhhhHHHHHhcccccccccc
Confidence 0 01234678899999999998777 88775 467
Q ss_pred CCccchHHHHHHHHHHcCcEEEEEecCC-ceEEEEEEEecCCC
Q 001215 1073 SREGLGLYISQKLVKLMNGTVQYIREAE-RSSFLILIEFPLAH 1114 (1122)
Q Consensus 1073 ~GtGLGL~I~r~ive~~gG~I~v~s~~g-g~tF~~~l~LP~~~ 1114 (1122)
+|+|+|+.+++.+++.|+|.+.+.+... +.+|+|.+.+-...
T Consensus 450 ~gt~~~~~i~~~l~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~ 492 (786)
T KOG0519|consen 450 GGTGLGESIVFSLVELMSGEISDISCISLGKTFSFTLDLLTNL 492 (786)
T ss_pred CCCcccchhhccHHHHHHHHhhhhhhhccCceeeEEEEeccCC
Confidence 8999999999999999999999999888 67777777654443
No 74
>PRK10060 RNase II stability modulator; Provisional
Probab=99.14 E-value=1e-09 Score=137.97 Aligned_cols=170 Identities=12% Similarity=0.087 Sum_probs=127.1
Q ss_pred CCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHH
Q 001215 695 ETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGME 774 (1122)
Q Consensus 695 ~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~ 774 (1122)
.+|.+.|+.+.+.++.+. ...|....++|+++ ....+......++.+++.+++ +|+++|.+|+|+++|++++
T Consensus 70 ~~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~---~~~~~~~~~~~~~~v~~~~~~---gI~i~D~~g~I~~~N~a~~ 141 (663)
T PRK10060 70 LDGEPLSVHLVGRKINKR--EWAGTASAWHDTPS---VARDLSHGLSFAEQVVSEANS---VIVILDSRGNIQRFNRLCE 141 (663)
T ss_pred eCCcEEEEEEeeeccCcc--cccchhhHHHHHHH---HHHHHHHHHHHHHHHHhhCCc---eEEEEeCCCCEEEEcHHHH
Confidence 379999999987765432 34455555555555 444455666678889999998 8999999999999999999
Q ss_pred HhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCC
Q 001215 775 KLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFGFFDQQGKYVEALLSANKRTNAEG 854 (1122)
Q Consensus 775 ~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G 854 (1122)
+++||+.++++|+++...+ .++++.......+...+..+..+..++...+++|+.+|+.....+..+.++
T Consensus 142 ~l~Gy~~~eliG~~~~~l~----------~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~~~~~~g~ 211 (663)
T PRK10060 142 EYTGLKEHDVIGQSVFKLF----------MSRREAAASRRNIRGFFRSGNAYEVERWIKTRKGQRLFLFRNKFVHSGSGK 211 (663)
T ss_pred HHHCcCHHHHcCCCHHHHh----------CChhhHHHHHHHHHHHHhcCCceEEEEEEEeCCCCEEEEEeeeEEEcCCCC
Confidence 9999999999999853221 234444555666677777777788899999999999888765444333333
Q ss_pred CEEEEEEeeecccHHHHHHHHHHHHHHH
Q 001215 855 KISGILCFLHVASPELQYALQVQRISEQ 882 (1122)
Q Consensus 855 ~i~gvv~~l~DITerkq~e~~L~~~ae~ 882 (1122)
...+++++.+|||+++++++++++.+..
T Consensus 212 ~~~~~i~~~~DITe~k~~e~~l~~~a~~ 239 (663)
T PRK10060 212 NEIFLICSGTDITEERRAQERLRILANT 239 (663)
T ss_pred ceEEEEEEEEechHHHHHHHHHHHHhhc
Confidence 4467889999999999999888876553
No 75
>PRK13559 hypothetical protein; Provisional
Probab=99.11 E-value=7.7e-10 Score=129.10 Aligned_cols=131 Identities=13% Similarity=0.048 Sum_probs=107.6
Q ss_pred HHHHHHHHHHHhcCccEEEecC---CCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeE
Q 001215 608 IITNEMVRLIETAAVPILAVDA---SGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNV 684 (1122)
Q Consensus 608 ~~e~~l~~lie~a~~gI~~~D~---dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~ 684 (1122)
.+.+.|+.++++++++|+++|. +|++++||+++++++||+.++++|+++..+.++...+.....+..++.++.....
T Consensus 40 ~~~~~~~~~~e~~~~~i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 119 (361)
T PRK13559 40 ASGRLFEQAMEQTRMAMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCRFLQGAATDPIAVAKIRAAIAAEREIVV 119 (361)
T ss_pred hhhhHHHHHHHhCCCcEEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChhhhcCCCCCHHHHHHHHHHhccCCceEE
Confidence 3467788999999999999997 5789999999999999999999999988777766666666666677766654443
Q ss_pred EEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhh
Q 001215 685 EIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGD 742 (1122)
Q Consensus 685 e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~ 742 (1122)
++.. .+++|..+|+.++..|+++.+|.+.+++++++|||++|++++..+..+..
T Consensus 120 e~~~----~~~dG~~~~~~~~~~~i~d~~G~~~~~v~~~~DITerk~~e~~~~~~~~l 173 (361)
T PRK13559 120 ELLN----YRKDGEPFWNALHLGPVYGEDGRLLYFFGSQWDVTDIRAVRALEAHERRL 173 (361)
T ss_pred EEEE----EcCCCCEEEEEEEEEEEEcCCCCEEEeeeeeeehhcchhhHHHHHHHHHH
Confidence 3333 36799999999999999999999999999999999999988765554433
No 76
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=99.10 E-value=5.1e-10 Score=134.55 Aligned_cols=112 Identities=13% Similarity=0.177 Sum_probs=81.8
Q ss_pred CCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCC--CeEEEEEEecccccCccceeEEEEEEEEcCCCC
Q 001215 979 HQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEG--SSIAFRVIPQKERIGKNIHIVHLEFRITHPAPG 1056 (1122)
Q Consensus 979 ~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g--~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~G 1056 (1122)
+.+.+..-+..+...+-...|...|.++|.|||.||++|++. .+ +.|.|.+...++ ++.|.|.|||+|
T Consensus 23 ~~iS~aEfF~kN~~~lgfD~d~r~L~tVLkNLIeNALDAs~~-~gilp~I~V~Ie~~g~---------~v~I~VeDNG~G 92 (795)
T PRK14868 23 REISIAEFFEKNKHMLGFDSGARGLVTAVKEAVDNALDATEE-AGILPDIYVEIEEVGD---------YYRLVVEDNGPG 92 (795)
T ss_pred cccceeeecccCcceeeccCCHHHHHHHHHHHHHHHHHhCcc-cCCCceEEEEEEECCC---------EEEEEEEEcCCC
Confidence 445555555555442233345778999999999999999973 12 268888776555 789999999999
Q ss_pred CChhhhhhhcCCCC------------CCCCccchHHHHHHHHHHcCcEEEEEecCCc
Q 001215 1057 IPEKLIHDMFYHSQ------------GASREGLGLYISQKLVKLMNGTVQYIREAER 1101 (1122)
Q Consensus 1057 I~~e~~~~iF~~f~------------~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg 1101 (1122)
|+++.+.++|++|. ...|+||||+++...+ .+||.|.+.|..++
T Consensus 93 Ip~EdLp~IFerf~~tSKf~~~~~srG~rG~GLglai~~sql-t~GgpI~I~S~~~~ 148 (795)
T PRK14868 93 ITKEQIPKVFGKLLYGSRFHAREQSRGQQGIGISAAVLYSQL-TSGKPAKITSRTQG 148 (795)
T ss_pred CCHHHHHHHhhhhcccccccccccCCCCCceehHHHHHHHHH-cCCCcEEEEeCCCC
Confidence 99999999999851 2345566666666655 37999999998764
No 77
>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=99.10 E-value=7e-10 Score=102.94 Aligned_cols=94 Identities=38% Similarity=0.611 Sum_probs=78.2
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCC------CCCCCcc
Q 001215 1003 LQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHS------QGASREG 1076 (1122)
Q Consensus 1003 L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f------~~~~GtG 1076 (1122)
|.+++.+++.||++|... .+..|.|.+....+ .+.|.|.|+|.|+++..+..+|.++ ....+.|
T Consensus 1 l~~~~~~ll~Na~~~~~~-~~~~v~i~~~~~~~---------~~~v~i~d~g~g~~~~~~~~~~~~~~~~~~~~~~~~~g 70 (103)
T cd00075 1 LQQVLLNLLSNAIKHTPE-GGGRITISVERDGD---------HLEIRVEDNGPGIPEEDLERIFERFSDGSRSRKGGGTG 70 (103)
T ss_pred CHHHHHHHHHHHHHhCcC-CCCeEEEEEEecCC---------EEEEEEEeCCCCCCHHHHHHHhhhhhcCCCCCCCCccc
Confidence 468999999999999873 24588888887766 7899999999999999999998753 2445789
Q ss_pred chHHHHHHHHHHcCcEEEEEecCC-ceEEEE
Q 001215 1077 LGLYISQKLVKLMNGTVQYIREAE-RSSFLI 1106 (1122)
Q Consensus 1077 LGL~I~r~ive~~gG~I~v~s~~g-g~tF~~ 1106 (1122)
+||++|+++++.|||.+++.+..+ +.+|++
T Consensus 71 ~gl~~~~~~~~~~~g~~~~~~~~~~g~~~~~ 101 (103)
T cd00075 71 LGLSIVKKLVELHGGRIEVESEPGGGTTFTI 101 (103)
T ss_pred cCHHHHHHHHHHcCCEEEEEeCCCCcEEEEE
Confidence 999999999999999999998874 454444
No 78
>PRK13558 bacterio-opsin activator; Provisional
Probab=99.07 E-value=1.8e-09 Score=136.51 Aligned_cols=137 Identities=18% Similarity=0.124 Sum_probs=115.5
Q ss_pred HHHHHHHHhcCccEEEecC---CCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEE
Q 001215 611 NEMVRLIETAAVPILAVDA---SGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIK 687 (1122)
Q Consensus 611 ~~l~~lie~a~~gI~~~D~---dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~ 687 (1122)
+.++.+++.++.++|.+|. +|++++||+++++++||+.++++|+++.+++++.........+...+.++.....++.
T Consensus 148 r~~~~~~~~~~~gi~~~d~~~~dg~i~~~N~~~~~l~G~~~eel~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 227 (665)
T PRK13558 148 RLKERALDEAPVGITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTNEERVAELREAIDEERPTSVELR 227 (665)
T ss_pred HHHHHHHhcCCccEEEEcCCCCCCcEEEEcHHHHHHhCcCHHHHcCCCHHHhcCCCccHHHHHHHHHHHhcCCCeEEEEE
Confidence 3456899999999999984 7999999999999999999999999998888877766655666666666555444444
Q ss_pred EEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhhcCCC
Q 001215 688 LRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIVSSPS 751 (1122)
Q Consensus 688 l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~e~~~ 751 (1122)
.. +++|..+|+.++..|+++.+|.+.|++++++|||++|++|+++++.+..++.+++..+
T Consensus 228 ~~----~~dG~~~~~~~~~~pi~d~~G~~~~~vgi~~DITerk~~E~~L~~~~~~L~~l~~~~~ 287 (665)
T PRK13558 228 NY----RKDGSTFWNQVDIAPIRDEDGTVTHYVGFQTDVTERKEAELALQRERRKLQRLLERVE 287 (665)
T ss_pred EE----CCCCCEEEEEEEEEEEECCCCCEEEEEEEEEeCcHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33 7899999999999999999999999999999999999999999988888887766544
No 79
>PRK13557 histidine kinase; Provisional
Probab=99.05 E-value=1.8e-09 Score=132.73 Aligned_cols=133 Identities=15% Similarity=0.116 Sum_probs=109.5
Q ss_pred HHHHHHHHHHHHHHHhcCccEEEecC---CCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCc
Q 001215 604 DELRIITNEMVRLIETAAVPILAVDA---SGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIE 680 (1122)
Q Consensus 604 ~eL~~~e~~l~~lie~a~~gI~~~D~---dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~ 680 (1122)
+.....+..|+.++++++++|+++|. +|+|+|+|+++++++||+.++++|+++..++++++.......+...+..+.
T Consensus 23 ~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~g~i~~~N~a~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~ 102 (540)
T PRK13557 23 DVSDHRSDIFFAAVETTRMPMIVTDPNQPDNPIVFANRAFLEMTGYAAEEIIGNNCRFLQGPETDRATVAEVRDAIAERR 102 (540)
T ss_pred hhhhhhhHHHHHHHHhCcCcEEEEcCCCCCCCEEEEcHHHHHHhCCCHHHhcCCChHhhcCCCCCHHHHHHHHHHHHcCC
Confidence 33445578899999999999999995 799999999999999999999999999998887766665555555555444
Q ss_pred ceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHh
Q 001215 681 ERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQ 740 (1122)
Q Consensus 681 ~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se 740 (1122)
....++.. .+++|..+|+.+...|+++.+|.+.+++++.+|||+++++++++...+
T Consensus 103 ~~~~~~~~----~~~~G~~~~~~~~~~~i~~~~g~~~~~~~~~~dit~~~~~e~~l~~~~ 158 (540)
T PRK13557 103 EIATEILN----YRKDGSSFWNALFVSPVYNDAGDLVYFFGSQLDVSRRRDAEDALRQAQ 158 (540)
T ss_pred CceEEEEE----EeCCCCEEEEEEEEEEeECCCCCEEEEEEEecChHHHHHHHHHHHHHH
Confidence 33333322 267999999999999999999999999999999999999998876543
No 80
>PRK10060 RNase II stability modulator; Provisional
Probab=99.03 E-value=3.1e-09 Score=133.77 Aligned_cols=169 Identities=18% Similarity=0.212 Sum_probs=120.1
Q ss_pred HHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccc-cCCchHHHHHHHHHHHcCCcce
Q 001215 604 DELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLV-AGDSVDVVKNMLSSAFLGIEER 682 (1122)
Q Consensus 604 ~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~-~~~~~~~~~~~l~~~l~g~~~~ 682 (1122)
.+++.....++.+++.++++|+++|.+|+|+++|+++++++||+.++++|+++.+++ ++.+.......+...+..+...
T Consensus 104 ~~~~~~~~~~~~v~~~~~~gI~i~D~~g~I~~~N~a~~~l~Gy~~~eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 183 (663)
T PRK10060 104 RDLSHGLSFAEQVVSEANSVIVILDSRGNIQRFNRLCEEYTGLKEHDVIGQSVFKLFMSRREAAASRRNIRGFFRSGNAY 183 (663)
T ss_pred HHHHHHHHHHHHHHhhCCceEEEEeCCCCEEEEcHHHHHHHCcCHHHHcCCCHHHHhCChhhHHHHHHHHHHHHhcCCce
Confidence 345556667889999999999999999999999999999999999999999998776 4555556666777777666555
Q ss_pred eEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhH---------------hhhhhhhh
Q 001215 683 NVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRI---------------QGDYVGIV 747 (1122)
Q Consensus 683 ~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~s---------------e~~l~~l~ 747 (1122)
..+..++ +++|..+|+..+..+..+.++...+++++++|||++|+++++++.. .++++..+
T Consensus 184 ~~e~~~~----~~~G~~~~~~~~~~~~~~~g~~~~~~i~~~~DITe~k~~e~~l~~~a~~D~LTGL~NR~~f~~~l~~~l 259 (663)
T PRK10060 184 EVERWIK----TRKGQRLFLFRNKFVHSGSGKNEIFLICSGTDITEERRAQERLRILANTDSITGLPNRNAIQELIDHAI 259 (663)
T ss_pred EEEEEEE----eCCCCEEEEEeeeEEEcCCCCceEEEEEEEEechHHHHHHHHHHHHhhcCccCCCcCHHHHHHHHHHHH
Confidence 5555444 6789888876654443334444567889999999999999988663 34444444
Q ss_pred cCCCCCCCCeEEecCCCCeeeeehhHHHhc
Q 001215 748 SSPSALIPPIFMTDEDGRCLEWNDGMEKLS 777 (1122)
Q Consensus 748 e~~~~li~~I~~~D~dg~ii~~N~a~~~l~ 777 (1122)
........+++.+|.++ +..+|+.+....
T Consensus 260 ~~~~~~~~~ll~idld~-fk~iNd~~G~~~ 288 (663)
T PRK10060 260 NAADNNQVGIVYLDLDN-FKKVNDAYGHMF 288 (663)
T ss_pred HhCCCCcEEEEEEECcc-hhHHHHhhCcHH
Confidence 33222222577778774 335665544333
No 81
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=99.02 E-value=1.5e-09 Score=127.35 Aligned_cols=107 Identities=19% Similarity=0.309 Sum_probs=84.1
Q ss_pred EEecHHHHHHHHHHHHHHHhhcCCCCC-CCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC----
Q 001215 996 LHGDKLRLQQVLSDFLTNALIFTPAFE-GSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ---- 1070 (1122)
Q Consensus 996 v~~D~~~L~QVL~NLL~NAik~t~~~~-g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~---- 1070 (1122)
..++...|.+++.||+.||++|+...+ .+.|.|.+...+. ..+.|+|.|||+||+++.+.++|++|.
T Consensus 22 f~~~~~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~g~--------~~~~I~V~DNG~GIp~edl~~iF~rf~~tsK 93 (488)
T TIGR01052 22 YSGKIRSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIGK--------DHYKVTVEDNGPGIPEEYIPKVFGKMLAGSK 93 (488)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCC--------ceEEEEEEECCCCCCHHHHHhhhhhccccCc
Confidence 345788999999999999999987311 1267777765332 167899999999999999999999851
Q ss_pred ------CCCCccchHHHHHHHHHHcCcE-EEEEecCCceEE--EEEEEe
Q 001215 1071 ------GASREGLGLYISQKLVKLMNGT-VQYIREAERSSF--LILIEF 1110 (1122)
Q Consensus 1071 ------~~~GtGLGL~I~r~ive~~gG~-I~v~s~~gg~tF--~~~l~L 1110 (1122)
..++.|+||+++..+.+.|+|+ +.+.|..++..| .+.+.+
T Consensus 94 ~~~~~~s~G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~~~~~~~~~i 142 (488)
T TIGR01052 94 FHRIIQSRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYVYKMKLKI 142 (488)
T ss_pred cccccccCCCccEehhHHHHHHHHcCCceEEEEEecCCceEEEEEEEEe
Confidence 2247899999999999999999 999998877665 444443
No 82
>TIGR00229 sensory_box PAS domain S-box. The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator.
Probab=99.01 E-value=4.4e-09 Score=96.97 Aligned_cols=120 Identities=19% Similarity=0.310 Sum_probs=99.8
Q ss_pred HHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCc-ceeEEEEEE
Q 001215 611 NEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIE-ERNVEIKLR 689 (1122)
Q Consensus 611 ~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~-~~~~e~~l~ 689 (1122)
+.++.+++.++++++++|.+|+++++|+++.+++|++..+++|+.+.+++++.+.......+..+..++. .....+.+
T Consensus 3 ~~~~~~~~~~~~~~~~~d~~~~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 81 (124)
T TIGR00229 3 ERYRAIFESSPDAIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERLLEGEREPVSEERRV- 81 (124)
T ss_pred hHHHHHHhhCCceEEEEcCCCcEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHHHHHHcCCCCCcceEeee-
Confidence 4677899999999999999999999999999999999999999999998888877777776777766432 22223332
Q ss_pred EeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHH
Q 001215 690 AFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDK 735 (1122)
Q Consensus 690 ~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~ 735 (1122)
...+|..+|+.....++. .+|...+++++++|||++++++++
T Consensus 82 ---~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~dit~~~~~~~~ 123 (124)
T TIGR00229 82 ---RRKDGSEIWVEVSVSPIR-TNGGELGVVGIVRDITERKQAEEA 123 (124)
T ss_pred ---EcCCCCEEEEEEEEeehh-hCCCeeEEEEEeeehhHHHHHHhc
Confidence 256789999999999998 788999999999999999988765
No 83
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=98.99 E-value=2.6e-08 Score=112.40 Aligned_cols=135 Identities=16% Similarity=0.262 Sum_probs=100.6
Q ss_pred eEEeehHHHHHHHHHHhccccc--cCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCC--CCCCeEEEEEE
Q 001215 956 SGEFNLGEALDAVMTQVMIPSR--EHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPA--FEGSSIAFRVI 1031 (1122)
Q Consensus 956 ~~~~dL~~vi~~v~~~~~~~~~--~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~--~~g~~I~I~v~ 1031 (1122)
.+.+.|.+=++.+-.-++..-. +....+.+++++++.++.+ |. -+++-|+.||+||.-. .+.+.|+|++.
T Consensus 414 ~~~v~L~kEl~~v~AYl~IEkARF~~rL~v~i~id~~l~~~~i---P~---filQPLVENAIKHG~~~~~~~g~V~I~V~ 487 (557)
T COG3275 414 QEIVTLSKELEHVNAYLSIEKARFGDRLDVVIDIDEELRQVQI---PS---FILQPLVENAIKHGISQLKDTGRVTISVE 487 (557)
T ss_pred ceEeehHHHHHHHHHHHHHHHHhcCCceEEEEecCHHHhhccC---ch---hhhhHHHHHHHHhcccchhcCCceEEEEE
Confidence 4567788888877665554321 3457778888887643222 22 3566689999999732 24569999999
Q ss_pred ecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCCCCCCccchHHHHHHHHHHcCc---EEEEEecCCceEEEEEE
Q 001215 1032 PQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQGASREGLGLYISQKLVKLMNG---TVQYIREAERSSFLILI 1108 (1122)
Q Consensus 1032 ~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~~~~GtGLGL~I~r~ive~~gG---~I~v~s~~gg~tF~~~l 1108 (1122)
..+. .+.+.|+|||.|++++ ...|+|+||+.+++.++.+=| -+.+++.+..+| +|.+
T Consensus 488 ~~d~---------~l~i~VeDng~li~p~----------~~~g~giGL~nv~~RLk~lyG~~~gl~i~~~~q~gT-ri~f 547 (557)
T COG3275 488 KEDA---------DLRIEVEDNGGLIQPD----------EEDGTGIGLANVHKRLKLLYGDDEGLHIESLEQAGT-RIIF 547 (557)
T ss_pred EeCC---------eEEEEEecCCCCcCCC----------CCCCCChHHHHHHHHHHHhcCccccceEEeccCCCc-EEEE
Confidence 9888 8999999999999985 567999999999999998766 678888888666 6777
Q ss_pred EecCCCCC
Q 001215 1109 EFPLAHQK 1116 (1122)
Q Consensus 1109 ~LP~~~~~ 1116 (1122)
.||.....
T Consensus 548 ~lp~~~~~ 555 (557)
T COG3275 548 RLPLQRTA 555 (557)
T ss_pred EecCcccc
Confidence 77876543
No 84
>TIGR01925 spIIAB anti-sigma F factor. This model 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.
Probab=98.99 E-value=3.7e-09 Score=105.37 Aligned_cols=95 Identities=15% Similarity=0.213 Sum_probs=74.4
Q ss_pred ecHHHHHHHHHHHHHHHhhcCCC-CCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC----CC
Q 001215 998 GDKLRLQQVLSDFLTNALIFTPA-FEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ----GA 1072 (1122)
Q Consensus 998 ~D~~~L~QVL~NLL~NAik~t~~-~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~----~~ 1072 (1122)
.+...+.+++.|++.||++|+-. ..++.|.|++...++ .+.++|.|+|.|||+ ..++|+||. ..
T Consensus 35 ~~~~~l~~~l~eli~Nai~h~~~~~~~~~I~v~~~~~~~---------~~~i~I~D~G~gi~~--~~~~~~~~~~~~~~~ 103 (137)
T TIGR01925 35 EELTDIKTAVSEAVTNAIIHGYEENCEGVVYISATIEDH---------EVYITVRDEGIGIEN--LEEAREPLYTSKPEL 103 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEeCC---------EEEEEEEEcCCCcCc--hhHhhCCCcccCCCC
Confidence 35678999999999999998632 235689999888777 899999999999983 667888872 23
Q ss_pred CCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEE
Q 001215 1073 SREGLGLYISQKLVKLMNGTVQYIREAERSSFLILI 1108 (1122)
Q Consensus 1073 ~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l 1108 (1122)
.+.|+||+++++ +.+++++.+.+++|+ +|++
T Consensus 104 ~~~GlGL~lv~~----~~~~l~~~~~~~~Gt-~v~i 134 (137)
T TIGR01925 104 ERSGMGFTVMEN----FMDDVSVDSEKEKGT-KIIM 134 (137)
T ss_pred CCCcccHHHHHH----hCCcEEEEECCCCCe-EEEE
Confidence 478999999865 557999999877655 4444
No 85
>PRK03660 anti-sigma F factor; Provisional
Probab=98.97 E-value=5.6e-09 Score=105.33 Aligned_cols=99 Identities=17% Similarity=0.253 Sum_probs=75.0
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC-CCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC--C--CC
Q 001215 999 DKLRLQQVLSDFLTNALIFTPAF-EGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ--G--AS 1073 (1122)
Q Consensus 999 D~~~L~QVL~NLL~NAik~t~~~-~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~--~--~~ 1073 (1122)
|...+.+++.|++.||++|+... .++.|.|++...++ .+.+.|+|+|.||++ ..+.|+|+. . ..
T Consensus 36 ~~~~l~~~l~eli~Nai~h~~~~~~~~~i~i~~~~~~~---------~l~i~I~D~G~g~~~--~~~~~~~~~~~~~~~~ 104 (146)
T PRK03660 36 ELTEIKTAVSEAVTNAIIHGYENNPDGVVYIEVEIEEE---------ELEITVRDEGKGIED--IEEAMQPLYTTKPELE 104 (146)
T ss_pred HHHhHHHHHHHHHHHHHHHhcCCCCCCEEEEEEEECCC---------EEEEEEEEccCCCCh--HHHhhCCCcccCCCCC
Confidence 56789999999999999987431 22578888877666 789999999999986 557787762 1 25
Q ss_pred CccchHHHHHHHHHHcCcEEEEEecCCc-eEEEEEEEecC
Q 001215 1074 REGLGLYISQKLVKLMNGTVQYIREAER-SSFLILIEFPL 1112 (1122)
Q Consensus 1074 GtGLGL~I~r~ive~~gG~I~v~s~~gg-~tF~~~l~LP~ 1112 (1122)
+.|+||+|+++ +.+.+++.+.+++ ++|+++++++.
T Consensus 105 ~~GlGL~i~~~----~~~~i~~~~~~~~Gt~~~i~~~~~~ 140 (146)
T PRK03660 105 RSGMGFTVMES----FMDEVEVESEPGKGTTVRMKKYLKK 140 (146)
T ss_pred CccccHHHHHH----hCCeEEEEecCCCcEEEEEEEEecc
Confidence 78999999864 5678999988775 45555555544
No 86
>smart00065 GAF Domain present in phytochromes and cGMP-specific phosphodiesterases. Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa.
Probab=98.96 E-value=1.8e-08 Score=98.80 Aligned_cols=139 Identities=23% Similarity=0.335 Sum_probs=110.7
Q ss_pred CHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHhCCeEEeecCCCCc
Q 001215 215 NISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPP 294 (1122)
Q Consensus 215 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~~~~r~i~d~~~~~ 294 (1122)
|++++++.+++.+.+++++||+.||.++++..+............+..+..+|..+ ...+.++..++...+.|....+
T Consensus 1 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~ 78 (149)
T smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVDEDDRGELVLVAADGLTLPLLGLRYPLGE--GLAGRVAETGRPLNIPDVEADP 78 (149)
T ss_pred CHHHHHHHHHHHHHHHhCCceEEEEEEecCCCCcEEEEEecCCCcccceEEecCCC--ChHHHHHHcCCeEEeechhhCC
Confidence 57889999999999999999999999999888888877776555556677787766 5667778888887887754333
Q ss_pred ceeecCCCCCCCCcccCccccCCChhHHHHHHhc-CceeEEEEEEEEeCCcccccccccccCceeeEEEeecC-CCCCCC
Q 001215 295 VKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENM-GSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHT-SPRFVP 372 (1122)
Q Consensus 295 ~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~-~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~-~pr~~~ 372 (1122)
.+ . ..+...+ |+++.+++||..+ +++||+|++.++ .++.|+
T Consensus 79 ~~-----------------------~-~~~~~~~~~~~s~~~~Pl~~~-------------~~~~G~l~~~~~~~~~~~~ 121 (149)
T smart00065 79 VF-----------------------A-LDLLGRYQGVRSFLAVPLVAD-------------GELVGVLALHNKDSPRPFT 121 (149)
T ss_pred cc-----------------------c-cccccceeceeeEEEeeeeec-------------CEEEEEEEEEecCCCCCCC
Confidence 11 1 1122233 3899999999988 999999999998 799999
Q ss_pred hhhHHHHHHHHHHHHHHHHH
Q 001215 373 FPLRYACEFLIQVFGVQVNK 392 (1122)
Q Consensus 373 ~~~r~~~~~l~~~~~~~~~~ 392 (1122)
...+..++.+++.++..|..
T Consensus 122 ~~~~~~l~~~~~~i~~~l~~ 141 (149)
T smart00065 122 EEDEELLQALANQLAIALAN 141 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 99999999999988888754
No 87
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.95 E-value=1.7e-08 Score=116.94 Aligned_cols=230 Identities=17% Similarity=0.228 Sum_probs=162.7
Q ss_pred HHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCC
Q 001215 614 VRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGP 693 (1122)
Q Consensus 614 ~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~ 693 (1122)
..+++..+++++++|....+..+|..+..+++-....++|+++.+++.+...+.+. +++.. +......
T Consensus 4 ~~~l~~~~~~~~vi~~~~~~~~~~~~a~~~~~~~~~~~i~~~~~~i~~~~~~~~v~-------~~~~~---~~~~~~~-- 71 (560)
T COG3829 4 EGILKSILDGPVVIDKNTGIDVANALALAKRQKNAEAVIGRPLREILETLGMERVE-------QSRDK---ELTERLK-- 71 (560)
T ss_pred hhhhhhcccceEEEEcCCceeeechHHHHhhhcceEEEecccceeeccccCcceee-------ccCcc---ceeeeee--
Confidence 45899999999999999999999999999999999999999888887766554332 22221 1111111
Q ss_pred CCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHH-HhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehh
Q 001215 694 RETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKY-TRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDG 772 (1122)
Q Consensus 694 ~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L-~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a 772 (1122)
.+ . .-..+...++.++.++++|+..++.|+++....-++. ......|+.+++...+ +++++|.+|+++++|++
T Consensus 72 ~~--~-~~~~~~~~~~~~~~~~~~g~~~~~~~~~e~~~~~~~~l~~~~~~l~~il~~~~~---~l~vvD~~G~~i~~N~~ 145 (560)
T COG3829 72 LK--V-KRIVVVGKTPVDEQGRVVGVLEVFLDISEALELIEENLRQLRQRLEAILDSIDD---GLLVVDEDGIIIYYNKA 145 (560)
T ss_pred cc--c-eeEEEcCCceeecCCceeeeehhhhhhHHHHHHHHHHHHHHHHHHHHHHhhccC---ceEEEcCCCcEEEEcHH
Confidence 11 2 3344555566788999999999999999987776665 6777889999999999 89999999999999999
Q ss_pred HHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCC
Q 001215 773 MEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFGFFDQQGKYVEALLSANKRTNA 852 (1122)
Q Consensus 773 ~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~ 852 (1122)
+.+++|++.++++|+++. +++... + + .....++..+.+.... .....|... ..+..|++ .
T Consensus 146 ~~~~~gl~~e~~~gk~~~-~v~~~~--------~-~-----s~~l~vl~~~kp~~~~--~~~~~~~~~--i~~~~pv~-~ 205 (560)
T COG3829 146 YAKLLGLSPEEVLGKHLL-DVVSAG--------E-D-----STLLEVLRTGKPIRDV--VQTYNGNKI--IVNVAPVY-A 205 (560)
T ss_pred HHHHhCCCHHHHcCCcHH-HHHhcc--------C-C-----ceehhhhhcCCcceee--eeeecCCce--eEeeccEe-c
Confidence 999999999999999653 222100 0 0 1122233333332222 122223222 23444554 5
Q ss_pred CCCEEEEEEeeecccHHHHHHHHHHHHHH
Q 001215 853 EGKISGILCFLHVASPELQYALQVQRISE 881 (1122)
Q Consensus 853 ~G~i~gvv~~l~DITerkq~e~~L~~~ae 881 (1122)
+|.+.|++.+++|+++-.....++.+...
T Consensus 206 ~g~l~G~v~~~~~~~~l~~l~~~~~~~~~ 234 (560)
T COG3829 206 DGQLIGVVGISKDVSELERLTRELEESEG 234 (560)
T ss_pred CCcEEEEEEeecchHHHHHHHHHHHHHhh
Confidence 77999999999999998777766655443
No 88
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=98.88 E-value=5.6e-08 Score=125.84 Aligned_cols=137 Identities=13% Similarity=0.149 Sum_probs=106.9
Q ss_pred ccchhhhHHHHHHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCccccccc-CCchHHHHHH
Q 001215 593 VPSVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVA-GDSVDVVKNM 671 (1122)
Q Consensus 593 ~r~~~~~~~~~~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~-~~~~~~~~~~ 671 (1122)
.++++++++. ++.++++..++++++++++.+|.+|+++++|+++++++||+.++++|+++.++++ +.........
T Consensus 122 ~~DiT~~~~~----~~~~~~~~~~~~~~~~~i~~~d~~g~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~ 197 (799)
T PRK11359 122 VRDASVEMAQ----KEQTRQLIIAVDHLDRPVIVLDPERRIVQCNRAFTEMFGYCISEASGMQPDTLLNIPEFPADNRIR 197 (799)
T ss_pred Eeeccchhhh----HHHHHHHHHHHhcCCCcEEEEcCCCcEEEEChhhHhhhCCCHHHHCCCChHHhcCCCCCcHHHHHH
Confidence 3455544433 3334566778999999999999999999999999999999999999999987765 4444445555
Q ss_pred HHHHHcCCcceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHH
Q 001215 672 LSSAFLGIEERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYT 737 (1122)
Q Consensus 672 l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~ 737 (1122)
+...+.++.....++... +++|..+|+.++..|+.+.+|.+.|++++++|||++|++++..+
T Consensus 198 ~~~~~~~~~~~~~e~~~~----~~dG~~~~~~~~~~~v~d~~g~~~~~~~~~~DITerk~~e~~~~ 259 (799)
T PRK11359 198 LQQLLWKTARDQDEFLLL----TRTGEKIWIKASISPVYDVLAHLQNLVMTFSDITEERQIRQLEG 259 (799)
T ss_pred HHHhhccCCCCcceeEEe----CCCCCEEEEEeeeeeeecCCCceeEEEEEeehhhhHHHHHHHHH
Confidence 555665554433344333 67899999999999999999999999999999999999876543
No 89
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=98.88 E-value=2.2e-08 Score=102.65 Aligned_cols=102 Identities=16% Similarity=0.151 Sum_probs=80.3
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC-CCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC------C
Q 001215 999 DKLRLQQVLSDFLTNALIFTPAF-EGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ------G 1071 (1122)
Q Consensus 999 D~~~L~QVL~NLL~NAik~t~~~-~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~------~ 1071 (1122)
+...+..++.+++.||++|+... .++.|.|++...++ .+.|.|+|+|+||+++.+...|.|+. .
T Consensus 39 ~~~~l~lav~Ea~~Nai~Hg~~~~~~~~I~I~~~~~~~---------~l~i~V~D~G~g~d~~~~~~~~~p~~~~~~~~~ 109 (161)
T PRK04069 39 DIEDMKIAVSEACTNAVQHAYKEDEVGEIHIRFEIYED---------RLEIVVADNGVSFDYETLKSKLGPYDISKPIED 109 (161)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEECC---------EEEEEEEECCcCCChHHhccccCCCCCCCcccc
Confidence 45678899999999999999632 24588888887766 89999999999999998888888753 2
Q ss_pred CCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCC
Q 001215 1072 ASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1072 ~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
..+.|+||+++++++.. +.+.+ .+|++++++-.++..+
T Consensus 110 ~~~~G~GL~li~~l~d~----v~~~~-~~G~~v~~~k~~~~~~ 147 (161)
T PRK04069 110 LREGGLGLFLIETLMDD----VTVYK-DSGVTVSMTKYINREQ 147 (161)
T ss_pred cCCCceeHHHHHHHHHh----EEEEc-CCCcEEEEEEEcCchh
Confidence 34679999999999886 67776 3566777766665433
No 90
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=98.85 E-value=1.2e-08 Score=123.03 Aligned_cols=104 Identities=13% Similarity=0.214 Sum_probs=78.9
Q ss_pred HHHHHHHHHHHHHHhhcCCCC-CCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCC---------
Q 001215 1001 LRLQQVLSDFLTNALIFTPAF-EGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQ--------- 1070 (1122)
Q Consensus 1001 ~~L~QVL~NLL~NAik~t~~~-~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~--------- 1070 (1122)
..|.+++.||+.||++|+... ..+.|.|.+...++ ..+.++|.|||+|||++.+.++|++|.
T Consensus 35 r~L~~VVkELVeNAIDA~~~~g~~p~I~V~I~~~g~--------~~~~I~V~DNG~GIp~e~l~~iFerF~atSK~~~~~ 106 (659)
T PRK14867 35 RSMTTIIHELVTNSLDACEEAEILPDIKVEIEKLGS--------DHYKVAVEDNGPGIPPEFVPKVFGKMLAGSKMHRLI 106 (659)
T ss_pred HHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCC--------cEEEEEEEeeCeeCCHHHHhhhhccccccCccccee
Confidence 345599999999999998731 12368887765432 168899999999999999999999962
Q ss_pred -CCCCccchHHHHHHHHHHc-CcEEEEEecCCc-eEEEEEEEecC
Q 001215 1071 -GASREGLGLYISQKLVKLM-NGTVQYIREAER-SSFLILIEFPL 1112 (1122)
Q Consensus 1071 -~~~GtGLGL~I~r~ive~~-gG~I~v~s~~gg-~tF~~~l~LP~ 1112 (1122)
..++.|+||+++..+.+.+ ||.+.+.|.+++ .+|++.+++..
T Consensus 107 qS~G~rG~GLa~a~~vsql~~G~pI~I~S~~g~G~~f~i~L~i~i 151 (659)
T PRK14867 107 QSRGQQGIGAAGVLLFSQITTGKPLKITTSTGDGKIHEMEIKMSV 151 (659)
T ss_pred ccCCCCcccHHHHHHHHHHhcCCcEEEEEEcCCCEEEEEEEEEEe
Confidence 2246899999999999875 666888888764 55566655533
No 91
>PF00512 HisKA: His Kinase A (phospho-acceptor) domain; InterPro: IPR003661 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the dimerisation and phosphoacceptor domain found in histidine kinases. It has been found in bacterial sensor protein/histidine kinases. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms []. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and the phosphotransfer from aspartyl phosphate back to ADP or to water []. The homodimeric domain includes the site of histidine autophosphorylation and phosphate transfer reactions. The structure of the homodimeric domain comprises a closed, four-helical bundle with a left-handed twist, formed by two identical alpha-hairpin subunits.; GO: 0000155 two-component sensor activity, 0007165 signal transduction, 0016020 membrane; PDB: 3DGE_A 2C2A_A 3A0R_A 4EW8_A 2LFS_B 2LFR_B 3JZ3_A 1JOY_B 3ZRW_C 3ZRV_A ....
Probab=98.85 E-value=8.5e-09 Score=89.37 Aligned_cols=64 Identities=30% Similarity=0.419 Sum_probs=59.1
Q ss_pred HHhHHHHHHHhhhhHHHHHHHHHHHhcC-CCCCHHH-HHHHHHHHHHHHHHHHHHhhh-cccccccc
Q 001215 887 SLNKLEYIRREIRKPLNGIAFMQNLMGT-SDLSEEQ-KQLLKTSVLCQEQLTNIVDDT-DIESIEEC 950 (1122)
Q Consensus 887 k~~fLa~isHELrnPLt~I~g~~~lL~~-~~l~~~~-~~~L~~i~~~~~rl~~iI~dL-d~srie~g 950 (1122)
|.+|++.++|||||||++|.++++++.. ...+++. +++++.+..+++++..+++++ +++++++|
T Consensus 2 ~~~~~~~isHelr~PL~~i~~~~~~l~~~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~sr~~~G 68 (68)
T PF00512_consen 2 KGEFLASISHELRNPLTAIRGYLELLERDSDLDPEQLREYLDRIRSAADRLNELINDLLDFSRIESG 68 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHCSSCC-HHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 6689999999999999999999999998 7888887 999999999999999999997 99998876
No 92
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=98.84 E-value=1.3e-07 Score=113.75 Aligned_cols=183 Identities=16% Similarity=0.219 Sum_probs=118.0
Q ss_pred HHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHh-hh-cccccccccceeeeEEeehHHHHHHHHH
Q 001215 893 YIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVD-DT-DIESIEECYMVLKSGEFNLGEALDAVMT 970 (1122)
Q Consensus 893 ~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~-dL-d~srie~g~~~l~~~~~dL~~vi~~v~~ 970 (1122)
.-.|-+.|-|+.|..++..-. .+...+. ...+.++++ ++ ...++.. .-+=..+++.-+.
T Consensus 265 i~pHfL~NtL~~I~~~~~~~~-------~~~~~~~----v~~l~~llR~~l~~~~~~~~--------l~~E~~~~~kyl~ 325 (456)
T COG2972 265 INPHFLYNTLETIRMLAEEDD-------PEEAAKV----VKALSKLLRYSLSNLDNIVT--------LEIELLLIEKYLE 325 (456)
T ss_pred cchHHHHhHHHHHHHHHHhcC-------HHHHHHH----HHHHHHHHHHHhhCCCCeee--------HHHHHHHHHHHHH
Confidence 458999999999987766321 2222222 223333333 22 2222110 0011233344444
Q ss_pred HhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcC--CCCCCCeEEEEEEecccccCccceeEEEEE
Q 001215 971 QVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFT--PAFEGSSIAFRVIPQKERIGKNIHIVHLEF 1048 (1122)
Q Consensus 971 ~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t--~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~ 1048 (1122)
.-.... +..+++..+++++..+ ..| +..+++.|+.||++|+ +.+++++|.|.+...++ .+.+
T Consensus 326 iq~~r~-~~~le~~~~i~~~~~~---l~~---p~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~~~~---------~i~i 389 (456)
T COG2972 326 IQKLRI-GDRLEVPLPIDEELEP---LID---PKLVLQPLVENAIEHGIEPKRPGGSIAISAKKQDD---------VIQI 389 (456)
T ss_pred HHHhcc-CcceEEEeccCccccc---ccC---chHHHhHHHHHHHHHhcccCCCCCEEEEEEEEcCC---------EEEE
Confidence 333333 3456666666665432 234 4577888999999998 22356689999888766 9999
Q ss_pred EEEcCCCCCChhhhhhhcCCCCCCCC-ccchHHHHHHHHHHcCcE--EEEEecCCceEEEEEEEecCCC
Q 001215 1049 RITHPAPGIPEKLIHDMFYHSQGASR-EGLGLYISQKLVKLMNGT--VQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1049 ~V~D~G~GI~~e~~~~iF~~f~~~~G-tGLGL~I~r~ive~~gG~--I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
+|+|||+||+++....+.. +.++ .|+||.-++++++.+-|. +.++|.+++|| .+.+.+|...
T Consensus 390 ~i~Dng~g~~~~~~~~~~~---~~~~r~giGL~Nv~~rl~~~~g~~~~~i~s~~~~gt-~v~~~~~~~~ 454 (456)
T COG2972 390 SISDNGPGIDEEKLEGLST---KGENRSGIGLSNVKERLKLYFGEPGLSIDSQPGKGT-FVQIIIPKRE 454 (456)
T ss_pred EEeeCCCCCChhHHHHHHh---hccCcccccHHHHHHHHHHeeCCcceeEeecCCCcE-EEEEEeehhh
Confidence 9999999999987766543 2233 599999999999998887 58899999887 6777777643
No 93
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=98.83 E-value=2.1e-08 Score=95.25 Aligned_cols=106 Identities=25% Similarity=0.314 Sum_probs=82.8
Q ss_pred HHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeC
Q 001215 613 MVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFG 692 (1122)
Q Consensus 613 l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~ 692 (1122)
+..++++++.++.++|.+++|.++|+++.++|++.+.+ +|+++.++.++...+.+...++.+..|+.. ..+....
T Consensus 1 L~~il~s~~~~i~~vD~~~~I~~~n~~a~~~f~~~~~~-iGr~l~~~~~~~~~~~l~~~i~~~~~~~~~-~~~~~~~--- 75 (106)
T PF13596_consen 1 LNNILDSMPIGIIFVDRNLRIRYFNPAAARLFNLSPSD-IGRPLFDIHPPLSYPNLKKIIEQVRSGKEE-EFEIVIP--- 75 (106)
T ss_dssp HHHHHHHSSSEEEEEETTSBEEEE-SCGC-SS---GGG-TTSBCCCSS-HHHHHHHHHHHHHHHTTSBS-EEEEEEE---
T ss_pred ChHHHhcCCCCEEEEcCCCeEEEeChhHhhhcCCChHH-CCCCHHHcCCccchHHHHHHHHHHHcCCCc-eEEEEec---
Confidence 46799999999999999999999999999999987655 699999999988888899999999988763 2222222
Q ss_pred CCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcch
Q 001215 693 PRETSGPVILVVNACCTQDTKENVIGVCFVGQDIT 727 (1122)
Q Consensus 693 ~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DIT 727 (1122)
...+|+.++..|++|.+|+..|++.+++|||
T Consensus 76 ----~~~~~~~~~~~P~~~~~g~~~G~v~~~~DIT 106 (106)
T PF13596_consen 76 ----NGGRWYLVRYRPYRDEDGEYAGAVITFQDIT 106 (106)
T ss_dssp ----ETTEEEEEEEEEEE-TTS-EEEEEEEEEE-G
T ss_pred ----CCCEEEEEEEEEEECCCCCEEEEEEEEEecC
Confidence 3467888899999999999999999999998
No 94
>PRK13558 bacterio-opsin activator; Provisional
Probab=98.79 E-value=8.8e-08 Score=121.31 Aligned_cols=126 Identities=14% Similarity=0.206 Sum_probs=103.2
Q ss_pred hhhhhcCCCCCCCCeEEec---CCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHH
Q 001215 743 YVGIVSSPSALIPPIFMTD---EDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKV 819 (1122)
Q Consensus 743 l~~l~e~~~~li~~I~~~D---~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~ 819 (1122)
++.+++..+. +++..| .+|++++||+++.+++||++++++|+... .+.+++........+...
T Consensus 150 ~~~~~~~~~~---gi~~~d~~~~dg~i~~~N~~~~~l~G~~~eel~g~~~~-----------~l~~~~~~~~~~~~~~~~ 215 (665)
T PRK13558 150 KERALDEAPV---GITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCR-----------FLQGEDTNEERVAELREA 215 (665)
T ss_pred HHHHHhcCCc---cEEEEcCCCCCCcEEEEcHHHHHHhCcCHHHHcCCCHH-----------HhcCCCccHHHHHHHHHH
Confidence 4567788777 799987 47999999999999999999999998742 222333344445556666
Q ss_pred hcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHH
Q 001215 820 ISGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQ 882 (1122)
Q Consensus 820 l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~ 882 (1122)
+.++.....++++++++|..+|+.++..|+.+.+|.+.+++++++|||++|++++++++..++
T Consensus 216 ~~~~~~~~~e~~~~~~dG~~~~~~~~~~pi~d~~G~~~~~vgi~~DITerk~~E~~L~~~~~~ 278 (665)
T PRK13558 216 IDEERPTSVELRNYRKDGSTFWNQVDIAPIRDEDGTVTHYVGFQTDVTERKEAELALQRERRK 278 (665)
T ss_pred HhcCCCeEEEEEEECCCCCEEEEEEEEEEEECCCCCEEEEEEEEEeCcHHHHHHHHHHHHHHH
Confidence 777777889999999999999999999999999999999999999999999999887754443
No 95
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=98.78 E-value=2.1e-08 Score=121.54 Aligned_cols=128 Identities=18% Similarity=0.122 Sum_probs=102.7
Q ss_pred hhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHh
Q 001215 741 GDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVI 820 (1122)
Q Consensus 741 ~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l 820 (1122)
+.|+.++++++. +++++|.+|+++++|+++++++||++++++|+.... +.++.........+...+
T Consensus 4 ~~~~~i~~~~~~---~i~~~d~~g~~~~~N~~~~~~~G~~~~~~~g~~~~~-----------~~~~~~~~~~~~~~~~~~ 69 (494)
T TIGR02938 4 EAYRQTVDQAPL---AISITDLKANILYANDAFTRITGYTKEEIIGKNESV-----------LSNHTTPPEVYQALWGSL 69 (494)
T ss_pred HHHHHHHHhCCc---eEEEECCCCcEEEEchhheeecCCCHHHHhCCCchh-----------hcCCCCCHHHHHHHHHHH
Confidence 568899999988 899999999999999999999999999999986321 111222223334444555
Q ss_pred cCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHHHHHH
Q 001215 821 SGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQRISEQ 882 (1122)
Q Consensus 821 ~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~~ae~ 882 (1122)
..+..+..++...+++|+.+|+..+..|+.+.+|.+.+++++++|||+++++++++++..+.
T Consensus 70 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~g~~~~~~~~~~DIt~~k~~e~~l~~~~~~ 131 (494)
T TIGR02938 70 AEQKPWAGKLLNRRKDGELYLAELTVAPVLNEAGETTHFLGMHRDITELHRLEQVVANQKLL 131 (494)
T ss_pred HhCCcccceeeccCCCccchhhheeeEEEECCCCCEEEEEEehhhhhHHHHHHHHHHHHHHH
Confidence 55666677777889999999999999999999999999999999999999999887765443
No 96
>PF14501 HATPase_c_5: GHKL domain
Probab=98.78 E-value=7.8e-08 Score=90.29 Aligned_cols=98 Identities=23% Similarity=0.337 Sum_probs=78.7
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCCC-CCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCCCCCCccc
Q 001215 999 DKLRLQQVLSDFLTNALIFTPAFE-GSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQGASREGL 1077 (1122)
Q Consensus 999 D~~~L~QVL~NLL~NAik~t~~~~-g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~~~~GtGL 1077 (1122)
|..-|-.+|.|||.||++++.... .+.|.|.+....+ .+.|.|+..-.+ ..+.++....+..+.|+
T Consensus 2 ~~~dl~~il~nlldNAiea~~~~~~~~~I~i~~~~~~~---------~~~i~i~N~~~~----~~~~~~~~~~~~~~~G~ 68 (100)
T PF14501_consen 2 DDLDLCRILGNLLDNAIEACKKYEDKRFISISIREENG---------FLVIIIENSCEK----EIEKLESSSSKKKGHGI 68 (100)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhcCCCcEEEEEEEecCC---------EEEEEEEECCCC----ccccccccccCCCCCCc
Confidence 455688999999999999986433 5689999988887 899999998554 22445544467789999
Q ss_pred hHHHHHHHHHHcCcEEEEEecCCceEEEEEEEec
Q 001215 1078 GLYISQKLVKLMNGTVQYIREAERSSFLILIEFP 1111 (1122)
Q Consensus 1078 GL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP 1111 (1122)
||..++++++.++|++.+..+ .+.|++++.||
T Consensus 69 GL~~v~~i~~~y~g~~~~~~~--~~~f~~~i~ip 100 (100)
T PF14501_consen 69 GLKNVKKILEKYNGSLSIESE--DGIFTVKIVIP 100 (100)
T ss_pred CHHHHHHHHHHCCCEEEEEEE--CCEEEEEEEEC
Confidence 999999999999999998875 44788888888
No 97
>TIGR00229 sensory_box PAS domain S-box. The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator.
Probab=98.76 E-value=7.6e-08 Score=88.58 Aligned_cols=120 Identities=18% Similarity=0.226 Sum_probs=93.8
Q ss_pred hhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHh
Q 001215 741 GDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVI 820 (1122)
Q Consensus 741 ~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l 820 (1122)
..++.++++.+. +++++|.+|+++++|+++.+++|++.++++|+.... +.++.....+...+...+
T Consensus 3 ~~~~~~~~~~~~---~~~~~d~~~~i~~~n~~~~~~~g~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~ 68 (124)
T TIGR00229 3 ERYRAIFESSPD---AIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLE-----------LIPEEDREEVRERIERLL 68 (124)
T ss_pred hHHHHHHhhCCc---eEEEEcCCCcEEEEchHHHHHhCCChHHhcCcchhh-----------hcChhhhHHHHHHHHHHH
Confidence 456678888887 899999999999999999999999999998876532 223444444555555666
Q ss_pred cCC-CcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHH
Q 001215 821 SGQ-DADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQ 875 (1122)
Q Consensus 821 ~g~-~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~ 875 (1122)
.+. .....++.+...+|..+|+.....++. .+|...++++++.|||++++.+++
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~dit~~~~~~~~ 123 (124)
T TIGR00229 69 EGEREPVSEERRVRRKDGSEIWVEVSVSPIR-TNGGELGVVGIVRDITERKQAEEA 123 (124)
T ss_pred cCCCCCcceEeeeEcCCCCEEEEEEEEeehh-hCCCeeEEEEEeeehhHHHHHHhc
Confidence 543 334556666789999999999999998 788999999999999998877643
No 98
>PF08447 PAS_3: PAS fold; InterPro: IPR013655 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. The PAS domain contains a sensory box, or S-box domain that occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include haem in the oxygen sensor FixL [], FAD in the redox potential sensor NifL [], and a 4-hydroxycinnamyl chromophore in photoactive yellow protein []. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. This domain has been found in the gene product of the madA gene of the filamentous zygomycete fungus Phycomyces blakesleeanus. It has been shown that MadA encodes a blue-light photoreceptor for phototropism and other light responses. The gene is involved in the phototropic responses associated with sporangiophore growth; they exhibit phototropism by bending toward near-UV and blue wavelengths and away from far-UV wavelengths in a manner that is physiologically similar to plant phototropic responses [].; GO: 0005515 protein binding; PDB: 3NJA_D 3H9W_A 3GDI_B 3ICY_A 3EEH_A 3MR0_B.
Probab=98.75 E-value=5.9e-08 Score=88.95 Aligned_cols=86 Identities=17% Similarity=0.227 Sum_probs=71.4
Q ss_pred EEeccHHHHHHcCCCchhhcCCc----ccccccCCchHHHHHHHHH-HHcCCcceeEEEEEEEeCCCCCCCeEEEEEEEE
Q 001215 633 VNGWNSKAAELTGLTVDQAIGTA----LVDLVAGDSVDVVKNMLSS-AFLGIEERNVEIKLRAFGPRETSGPVILVVNAC 707 (1122)
Q Consensus 633 Iv~~N~~~~~l~G~s~eeliG~~----~~dl~~~~~~~~~~~~l~~-~l~g~~~~~~e~~l~~~~~~~dG~~~~v~v~~~ 707 (1122)
|++||+.+.+++||+++++ +.. +..++||++.+.+.+.+.. +..++.....+++++ +++|+.+|+.+++.
T Consensus 1 ~i~~s~~~~~i~G~~~~~~-~~~~~~~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~~e~R~~----~~~G~~~wi~~~~~ 75 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEI-GKPDFEEWLERIHPDDRERVRQAIQQAALQNGEPFEIEYRIR----RKDGEYRWIEVRGR 75 (91)
T ss_dssp -EEE-THHHHHHTS-HHHH-TCBEHHHHHHHB-TTTHHHHHHHHHHHHHHTT-EEEEEEEEE----GTTSTEEEEEEEEE
T ss_pred CEEEeHHHHHHhCCCHHHh-ccCCHHHHHhhcCHHHHHHHHHHHHHHhhccCcceEEEEEEE----CCCCCEEEEEEEEE
Confidence 6899999999999999999 777 7799999999999999999 677776666666665 78999999999999
Q ss_pred EecCCCCCEEEEEEEE
Q 001215 708 CTQDTKENVIGVCFVG 723 (1122)
Q Consensus 708 pi~d~~G~v~gvv~v~ 723 (1122)
+++|.+|++.+++|++
T Consensus 76 ~~~d~~g~~~~~~Gv~ 91 (91)
T PF08447_consen 76 PIFDENGKPIRIIGVI 91 (91)
T ss_dssp EEETTTS-EEEEEEEE
T ss_pred EEECCCCCEEEEEEEC
Confidence 9999999999999874
No 99
>TIGR01924 rsbW_low_gc serine-protein kinase RsbW. This model 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.
Probab=98.74 E-value=9.6e-08 Score=97.58 Aligned_cols=101 Identities=15% Similarity=0.168 Sum_probs=78.7
Q ss_pred HHHHHHHHHHHHHHHhhcCCC-CCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCC------CCC
Q 001215 1000 KLRLQQVLSDFLTNALIFTPA-FEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHS------QGA 1072 (1122)
Q Consensus 1000 ~~~L~QVL~NLL~NAik~t~~-~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f------~~~ 1072 (1122)
...+..++.+++.||++|+-. ..++.|.|++...++ .+.+.|+|+|.|++++.+...|.++ ...
T Consensus 40 ~~~l~lav~Ea~~Nai~ha~~~~~~~~I~I~~~~~~~---------~l~i~V~D~G~gfd~~~~~~~~~~~~~~~~~~~~ 110 (159)
T TIGR01924 40 IEDLKIAVSEACTNAVKHAYKEGENGEIGISFHIYED---------RLEIIVSDQGDSFDMDTFKQSLGPYDGSEPIDDL 110 (159)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEeCC---------EEEEEEEEcccccCchhhccccCCCCCCCCcccC
Confidence 456888999999999999853 134589998887766 8999999999999998888877664 123
Q ss_pred CCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCC
Q 001215 1073 SREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1073 ~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
.+.|+||+|+++++. ++.|.+. +|.+++++..++..+
T Consensus 111 ~~~G~GL~Li~~L~D----~v~~~~~-~G~~l~l~k~~~~~~ 147 (159)
T TIGR01924 111 REGGLGLFLIETLMD----EVEVYED-SGVTVAMTKYLNREQ 147 (159)
T ss_pred CCCccCHHHHHHhcc----EEEEEeC-CCEEEEEEEEEcccc
Confidence 467999999999988 6888874 446667766666543
No 100
>PF08447 PAS_3: PAS fold; InterPro: IPR013655 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. The PAS domain contains a sensory box, or S-box domain that occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include haem in the oxygen sensor FixL [], FAD in the redox potential sensor NifL [], and a 4-hydroxycinnamyl chromophore in photoactive yellow protein []. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. This domain has been found in the gene product of the madA gene of the filamentous zygomycete fungus Phycomyces blakesleeanus. It has been shown that MadA encodes a blue-light photoreceptor for phototropism and other light responses. The gene is involved in the phototropic responses associated with sporangiophore growth; they exhibit phototropism by bending toward near-UV and blue wavelengths and away from far-UV wavelengths in a manner that is physiologically similar to plant phototropic responses [].; GO: 0005515 protein binding; PDB: 3NJA_D 3H9W_A 3GDI_B 3ICY_A 3EEH_A 3MR0_B.
Probab=98.65 E-value=1.5e-07 Score=86.32 Aligned_cols=90 Identities=14% Similarity=0.203 Sum_probs=73.4
Q ss_pred eeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHH-HhcCCCcceeEEEEEccCCCEEEEEE
Q 001215 766 CLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNK-VISGQDADKILFGFFDQQGKYVEALL 844 (1122)
Q Consensus 766 ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~-~l~g~~~~~~e~~~~~~dG~~~~v~~ 844 (1122)
|++||+.+.+++||+++++ +..... .+....||++...+...+.. ....+.....++++++++|+++|+..
T Consensus 1 ~i~~s~~~~~i~G~~~~~~-~~~~~~-------~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~~e~R~~~~~G~~~wi~~ 72 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEI-GKPDFE-------EWLERIHPDDRERVRQAIQQAALQNGEPFEIEYRIRRKDGEYRWIEV 72 (91)
T ss_dssp -EEE-THHHHHHTS-HHHH-TCBEHH-------HHHHHB-TTTHHHHHHHHHHHHHHTT-EEEEEEEEEGTTSTEEEEEE
T ss_pred CEEEeHHHHHHhCCCHHHh-ccCCHH-------HHHhhcCHHHHHHHHHHHHHHhhccCcceEEEEEEECCCCCEEEEEE
Confidence 5899999999999999998 443211 14467889999999999999 78888899999999999999999999
Q ss_pred EEeeeeCCCCCEEEEEEee
Q 001215 845 SANKRTNAEGKISGILCFL 863 (1122)
Q Consensus 845 ~~~pv~d~~G~i~gvv~~l 863 (1122)
++.++.|.+|++++++|+.
T Consensus 73 ~~~~~~d~~g~~~~~~Gv~ 91 (91)
T PF08447_consen 73 RGRPIFDENGKPIRIIGVI 91 (91)
T ss_dssp EEEEEETTTS-EEEEEEEE
T ss_pred EEEEEECCCCCEEEEEEEC
Confidence 9999999999999998874
No 101
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.65 E-value=4e-07 Score=113.33 Aligned_cols=132 Identities=21% Similarity=0.298 Sum_probs=104.6
Q ss_pred HHHHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHc-CCc
Q 001215 602 KIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFL-GIE 680 (1122)
Q Consensus 602 ~~~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~-g~~ 680 (1122)
....++..+..++.++++++++++++|.+|+++++|+++++++|+++++++|+++.+++++... ....+...+. +..
T Consensus 253 ~~~~l~~~~~~~~~i~~~~~~~i~~~d~~g~i~~~N~~~~~l~g~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~~ 330 (607)
T PRK11360 253 LAQALRETRSLNELILESIADGVIAIDRQGKITTMNPAAEVITGLQRHELVGKPYSELFPPNTP--FASPLLDTLEHGTE 330 (607)
T ss_pred HHHHHHHHHHHHHHHHHhccCeEEEEcCCCCEEEECHHHHHHhCCChHHhcCCcHHHHcCCchh--HHHHHHHHHhcCCC
Confidence 3456677778889999999999999999999999999999999999999999999988875432 2223333333 333
Q ss_pred ceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHh
Q 001215 681 ERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQ 740 (1122)
Q Consensus 681 ~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se 740 (1122)
....++.+. +++|... +.++..|+++.+|++.|++++++|||++|++|+++++.+
T Consensus 331 ~~~~~~~~~----~~~~~~~-~~~~~~~i~~~~g~~~~~i~~~~Dite~~~~e~~l~~~~ 385 (607)
T PRK11360 331 HVDLEISFP----GRDRTIE-LSVSTSLLHNTHGEMIGALVIFSDLTERKRLQRRVARQE 385 (607)
T ss_pred ccceEEEEE----cCCCcEE-EEEEEeeEEcCCCCEEEEEEEEeechHHHHHHHHHHHHH
Confidence 333333333 4466665 899999999999999999999999999999999987764
No 102
>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=98.60 E-value=7.5e-07 Score=77.76 Aligned_cols=103 Identities=25% Similarity=0.387 Sum_probs=86.8
Q ss_pred cCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCCCCCCCe
Q 001215 620 AAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGPRETSGP 699 (1122)
Q Consensus 620 a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~~dG~~ 699 (1122)
++++++.+|.+|.++++|+++++++|++..+++|+.+.+++++.+...+...+.....++.....++.+. ..+|..
T Consensus 1 ~~~~i~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~ 76 (103)
T cd00130 1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLR----RKDGSV 76 (103)
T ss_pred CCceEEEECCCCcEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHHHHHhcCcCeEEEEEEE----ccCCCE
Confidence 4678999999999999999999999999999999999999998888777777777776544444444443 457899
Q ss_pred EEEEEEEEEecCCCCCEEEEEEEEEcc
Q 001215 700 VILVVNACCTQDTKENVIGVCFVGQDI 726 (1122)
Q Consensus 700 ~~v~v~~~pi~d~~G~v~gvv~v~~DI 726 (1122)
+|+.+...+..+.+|...+++++.+||
T Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~~~di 103 (103)
T cd00130 77 IWVLVSLTPIRDEGGEVIGLLGVVRDI 103 (103)
T ss_pred EEEEEEEEEEecCCCCEEEEEEEEecC
Confidence 999999999999999999999999886
No 103
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=98.55 E-value=4.9e-07 Score=105.88 Aligned_cols=228 Identities=13% Similarity=0.171 Sum_probs=151.4
Q ss_pred HHHH-HHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCc---------c
Q 001215 612 EMVR-LIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIE---------E 681 (1122)
Q Consensus 612 ~l~~-lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~---------~ 681 (1122)
.+.. ++++..--|++++.||.++|+.......+|++.-|+.|.+++||+||-|.+.+.+.+.-...... .
T Consensus 119 ~l~~~iLqsLDGFVm~l~~dG~~lYiSEtVS~yLGLSQvELTG~SvFDfiHP~DheE~~eqL~l~~~~p~~~es~~~~te 198 (768)
T KOG3558|consen 119 HLGDHILQSLDGFVMALTQDGDFLYISETVSIYLGLSQVELTGSSVFDFIHPCDHEEIAEQLGLRLTTPEVKESTDTSTE 198 (768)
T ss_pred hhhhhHHhhccceEEEEccCCCEEEEechhHhhhCccceeeecchhhhccCccCHHHHHHHhccccCCCcccccccCccc
Confidence 3444 44455556788999999999999999999999999999999999999999988887765443111 1
Q ss_pred eeEEEEEEEeCCCCCCCeEEE--------EEEEEE-ecCCCCC----------EEEEEEEEEcchhhHHHHHHHHhHhhh
Q 001215 682 RNVEIKLRAFGPRETSGPVIL--------VVNACC-TQDTKEN----------VIGVCFVGQDITGQKLVMDKYTRIQGD 742 (1122)
Q Consensus 682 ~~~e~~l~~~~~~~dG~~~~v--------~v~~~p-i~d~~G~----------v~gvv~v~~DITerK~aE~~L~~se~~ 742 (1122)
+++-.+.+.. ..+.|+...+ .+++.. +++..+. ..|.+.++.=|---+-.|--|
T Consensus 199 RsFflRMKsT-LT~RGRtlnlKSa~yKvlh~tgh~rv~~~~sh~s~~~g~~~Pl~~lV~~a~alp~ps~~EipL------ 271 (768)
T KOG3558|consen 199 RSFFLRMKST-LTKRGRTLNLKSAGYKVLHCTGHLRVYNNPSHNSPLCGYKEPLLGLVALAEALPPPSYTEIPL------ 271 (768)
T ss_pred eeEEEEeeee-eccCCceeeeeccceeEEEEeeeeeeccCCCCCCcccCccccchheeeeeccCCCCccccccc------
Confidence 2333333221 2333433222 222211 1121111 111222211111100000000
Q ss_pred hhhhhcCCCCCCCCeEE--ecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHh
Q 001215 743 YVGIVSSPSALIPPIFM--TDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVI 820 (1122)
Q Consensus 743 l~~l~e~~~~li~~I~~--~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l 820 (1122)
+ ..+|+ ...|-+|+++.+.+.+++||.++|++|+. ++.+.|..|...+.......+
T Consensus 272 ---------~--~~~FvtRhs~DmkityCedRisdlm~y~PeeLvGrS-----------~Ye~~Ha~Ds~~v~KSh~dL~ 329 (768)
T KOG3558|consen 272 ---------D--CHMFVTRHSLDMKITYCEDRISDLMDYEPEELVGRS-----------CYEFVHALDSDRVRKSHHDLL 329 (768)
T ss_pred ---------C--CceeEEeeecceeEEEEchhHHHHhcCCHHHhhchh-----------HHHhhhHhhhhHHHHHHHHHH
Confidence 0 01333 45788999999999999999999999998 678889999999999999999
Q ss_pred cCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCC-CEEEEEEeeecccH
Q 001215 821 SGQDADKILFGFFDQQGKYVEALLSANKRTNAEG-KISGILCFLHVASP 868 (1122)
Q Consensus 821 ~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G-~i~gvv~~l~DITe 868 (1122)
..+......+++..++|.++|+...++.+++..+ ....++|+-.-++.
T Consensus 330 ~KGQv~TgyYR~lak~GGyvWlQTqATVi~~tkn~q~q~IicVnYVlS~ 378 (768)
T KOG3558|consen 330 TKGQVVTGYYRLLAKNGGYVWLQTQATVIYNTKNPQEQNIICVNYVLSN 378 (768)
T ss_pred hcCccchhHHHHHHhcCCeEEEEeeeEEEecCCCCCcceEEEEEeeecc
Confidence 9999989999999999999999999888876432 33456666555554
No 104
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=98.51 E-value=7.4e-07 Score=102.03 Aligned_cols=114 Identities=13% Similarity=0.225 Sum_probs=88.1
Q ss_pred HHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEE
Q 001215 607 RIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEI 686 (1122)
Q Consensus 607 ~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~ 686 (1122)
++..++|+.+++++++||+++|.+|++++||+++++++|+++++.+|+++.++.++++ +...+..... .. .+
T Consensus 2 ~~~~~~l~~~~~~~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~---~~~~l~~~~~---~~--~~ 73 (333)
T TIGR02966 2 SALLSRFRAAAQALPDAVVVLDEEGQIEWCNPAAERLLGLRWPDDLGQRITNLIRHPE---FVEYLAAGRF---SE--PL 73 (333)
T ss_pred hhHHHHHHHHHHhCcCcEEEECCCCcEEEEcHHHHHHhCCChHHHcCCcHHHHccCHH---HHHHHHhccc---CC--Ce
Confidence 4556789999999999999999999999999999999999999999999998876533 2222222221 11 22
Q ss_pred EEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHH
Q 001215 687 KLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYT 737 (1122)
Q Consensus 687 ~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~ 737 (1122)
... .++|..+|+.+...|+.+.+ ++++++|||++++.++...
T Consensus 74 ~~~----~~~~~~~~~~~~~~p~~~~~-----~~~~~~dit~~~~~~~~~~ 115 (333)
T TIGR02966 74 ELP----SPINSERVLEIRIAPYGEEQ-----KLLVARDVTRLRRLEQMRR 115 (333)
T ss_pred Eee----cCCCCceEEEEEEEEcCCCc-----eEEEEeCchHHHHHHHHHH
Confidence 222 35788899999999987643 7788999999998876644
No 105
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=98.51 E-value=9.3e-07 Score=96.22 Aligned_cols=130 Identities=16% Similarity=0.223 Sum_probs=108.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcC
Q 001215 599 RIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLG 678 (1122)
Q Consensus 599 ~~~~~~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g 678 (1122)
.+.++..++...+++.+++..+.+|++..|..|+|+.+|..+.+++|.+.++++|+++.+++.-++.-.++..+..
T Consensus 99 ~~~aq~n~e~Er~kL~SvlayMtDGViATdRrG~iI~iN~~A~k~L~~~~E~~~~~~i~elL~i~d~y~~~dL~e~---- 174 (459)
T COG5002 99 VQEAQANTEQERRKLDSVLAYMTDGVIATDRRGKIILINKPALKMLGVSKEDALGRSILELLKIEDTYTFEDLVEK---- 174 (459)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHcCceEeecCCCcEEEeccHHHHHhCcCHHHHhcccHHHHhCCccceeHHHHHhc----
Confidence 4567777888889999999999999999999999999999999999999999999999988876665545444332
Q ss_pred CcceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhH
Q 001215 679 IEERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRI 739 (1122)
Q Consensus 679 ~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~s 739 (1122)
.. ++.+.. +..++...+.++.+.++-+.|.+.|++.+..|+||+.+.|++.++.
T Consensus 175 ~~----s~lld~---~~~~E~~~lrv~Fs~i~rEsGfisGlIaVlhDvTEqek~e~ErRef 228 (459)
T COG5002 175 ND----SLLLDS---SDEEEGYVLRVNFSVIQRESGFISGLIAVLHDVTEQEKVERERREF 228 (459)
T ss_pred CC----cEEEee---cCCCccEEEEEEEEEEeecccccceeEEEEecccHHHHHHHHHHHH
Confidence 11 233332 2268888899999999999999999999999999999999887653
No 106
>PF12860 PAS_7: PAS fold
Probab=98.50 E-value=4.8e-07 Score=87.18 Aligned_cols=104 Identities=22% Similarity=0.299 Sum_probs=73.2
Q ss_pred HHhcCccEEEecCCCcEEeccHHHHHHcCCCchhh-cCCccccccc---------CCchHH-HHHHHHHHHcCCcceeEE
Q 001215 617 IETAAVPILAVDASGNVNGWNSKAAELTGLTVDQA-IGTALVDLVA---------GDSVDV-VKNMLSSAFLGIEERNVE 685 (1122)
Q Consensus 617 ie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eel-iG~~~~dl~~---------~~~~~~-~~~~l~~~l~g~~~~~~e 685 (1122)
+++++.||.++|.+|++++||+++.+++|++.+.+ .|.++.+++. +.+... +.+.+..... .... .
T Consensus 1 Ld~l~~Gv~v~D~~~rl~~~N~~~~~l~~~~~~~~~~G~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~-~~~~--~ 77 (115)
T PF12860_consen 1 LDSLPQGVAVFDSDGRLVFWNQRFRELFGLPPEMLRPGASFRDLLRRLAERGEFPPGDPEAWVRQRLARLRR-RQPR--S 77 (115)
T ss_pred CCCcCceEEEEcCCCeEEeEcHHHHHHhCCCHHHhcCCCCHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhc-CCCc--e
Confidence 47899999999999999999999999999999987 8998876652 222222 3333333332 2222 2
Q ss_pred EEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHH
Q 001215 686 IKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMD 734 (1122)
Q Consensus 686 ~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~ 734 (1122)
+++. . ...+|+.+...|..+ | |++.++.|||++|++|+
T Consensus 78 ~~~~----~--~dgr~l~~~~~~~~~--G---g~v~~~~DVT~~~~~E~ 115 (115)
T PF12860_consen 78 FELR----L--PDGRWLEVRAQPLPD--G---GFVLTFTDVTERRRAEE 115 (115)
T ss_pred eEEE----C--CCCEEEEEEeEECCC--C---CEEEEEEeCCHHHHhcC
Confidence 2222 1 344667777777744 3 78999999999999874
No 107
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms]
Probab=98.45 E-value=7.5e-07 Score=90.38 Aligned_cols=156 Identities=17% Similarity=0.234 Sum_probs=104.4
Q ss_pred HHHHHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCC--ceEEEEecCCCCCCccCCCCCCCCccH-HHHH
Q 001215 201 AAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEH--GEVVAECRRPDLEPYLGFHYPATDIPQ-ASRF 277 (1122)
Q Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~--g~vvaE~~~~~~~~~lg~~~pa~dip~-~~r~ 277 (1122)
+......+.. +.+.+++++.+++.+.+.+|+||..||++++++. +.++++.......+.....+.....|. ....
T Consensus 6 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (175)
T COG2203 6 LNELAAKIAQ--DLDLEEILQAALELLAELLGADRGLIYLLDEDGLLDGALVAEAAEAGLEQLIDELFGLVILPACLIGI 83 (175)
T ss_pred HHHHHHHHHH--HCCHHHHHHHHHHHHHHHhhccHHhhheeccccccchHHHHHHhcchhhhhHHHHhcccCcchhhhhh
Confidence 3445555666 5599999999999999999999999999999995 777766654430111111110000000 0111
Q ss_pred HHHhCCeEEeecCCCCcceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCce
Q 001215 278 LIMKNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKL 357 (1122)
Q Consensus 278 l~~~~~~r~i~d~~~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~l 357 (1122)
.....+..++.|+...+.. ..+|..++... ++|.+++||+.+ +++
T Consensus 84 ~~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~~~~-i~~~l~vPl~~~-------------~~~ 128 (175)
T COG2203 84 ALREGRPVVVEDILQDPRF---------------------RDNPLVLLEPP-IRSYLGVPLIAQ-------------GEL 128 (175)
T ss_pred hhcCCceEEeeccccCccc---------------------ccCHHHHHHHH-HHHheeeeeeEC-------------CEe
Confidence 1223333334442222111 11666666665 899999999988 899
Q ss_pred eeEEEeecCCCC-CCChhhHHHHHHHHHHHHHHHHHH
Q 001215 358 WGLVVCHHTSPR-FVPFPLRYACEFLIQVFGVQVNKE 393 (1122)
Q Consensus 358 WGl~~~h~~~pr-~~~~~~r~~~~~l~~~~~~~~~~~ 393 (1122)
||.++.||+.++ .|+.+.....+.+++.++..|...
T Consensus 129 ~G~l~~~~~~~~~~~~~~e~~ll~~la~~~a~ai~~~ 165 (175)
T COG2203 129 LGLLCVHDSEPRRQWSEEELELLEELAEQVAIAIERA 165 (175)
T ss_pred eEEeeeeccCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999877 599999999999999998888543
No 108
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=98.39 E-value=9.2e-06 Score=102.06 Aligned_cols=217 Identities=18% Similarity=0.224 Sum_probs=128.8
Q ss_pred HHHHHHHhcCccEEEecCCCcEEeccHHHHHH-----cCC----C-chhhcCCcccccccCCchHHHHHHHHHHHcCCcc
Q 001215 612 EMVRLIETAAVPILAVDASGNVNGWNSKAAEL-----TGL----T-VDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEE 681 (1122)
Q Consensus 612 ~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l-----~G~----s-~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~ 681 (1122)
.+..++...+..+.+.|.+|.|+.++....-+ .|. . .++.+|.+ .+..++..+.+
T Consensus 63 ~l~~~l~~~~~~~~l~D~~G~vL~~~g~~~~~~~~~~~~~~~G~~w~E~~~GTn---------------aig~al~~~~p 127 (638)
T PRK11388 63 DAWEYMADRECALLILDETGCILSRNGDPQTLQQLSALGFNDGTYCAEGIIGTN---------------ALSLAAISGQP 127 (638)
T ss_pred HHHHHhcCCCcEEEEEcCCceEEEEeCCHHHHHHHHHcCCccCCccchhccCcC---------------HHHHHHhcCCc
Confidence 34455667778999999999999876433322 122 1 23333333 22333333322
Q ss_pred eeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcch------------------hhHHHHHHH---HhHh
Q 001215 682 RNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDIT------------------GQKLVMDKY---TRIQ 740 (1122)
Q Consensus 682 ~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DIT------------------erK~aE~~L---~~se 740 (1122)
..+. -.. |-......+.+.+.|++|.+|+++|++.+..+.. .+....... ....
T Consensus 128 v~v~--g~E---H~~~~~~~~~c~aaPI~d~~G~liGvl~l~~~~~~~~~~~l~lv~~~a~~Ie~~l~~~~~~~~~~~~~ 202 (638)
T PRK11388 128 VKTM--GDQ---HFKQALHNWAFCATPVFDSKGRLTGTIALACPVEQTSAADLPLTLSIAREVGNLLLTDSLLAESNRHL 202 (638)
T ss_pred eEEe--cHH---HHHHhccCceEEeeEEEcCCCCEEEEEEEEecccccChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1110 000 1112233457789999999999999998776443 222222212 2223
Q ss_pred hhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHh
Q 001215 741 GDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVI 820 (1122)
Q Consensus 741 ~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l 820 (1122)
..+..++++.++ ||+++|.+|+|+++|+++++++|++.++++|+.+ .+++.. +. .+..++
T Consensus 203 ~~~~~il~~~~~---gVl~vD~~G~I~~~N~aa~~llg~s~~~l~G~~i-~~l~~~---------~~-------~l~~vl 262 (638)
T PRK11388 203 NQLNALLESMDD---GVIAWDEQGNLQFLNAQAARLLRLDATASQGRAI-TELLTL---------PA-------VLQQAI 262 (638)
T ss_pred HHHHHHHhccCC---cEEEECCCCeEehhhHHHHHHhCcCHHHHCCCcH-HHHhcc---------ch-------HHHHHH
Confidence 334457787777 9999999999999999999999999999999875 233221 11 122233
Q ss_pred cCCCc-ceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHH
Q 001215 821 SGQDA-DKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQ 871 (1122)
Q Consensus 821 ~g~~~-~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq 871 (1122)
..+.. ...+..+ ..+|..+++.++..|+.+..|. +++.+++|++..++
T Consensus 263 ~~~~~~~~~~~~l-~~~g~~~~~~v~~~Pi~~~~g~--~~v~~l~~~~~~~~ 311 (638)
T PRK11388 263 KQAHPLKHVEVTF-ESQGQFIDAVITLKPIIEGQGT--SFILLLHPVEQMRQ 311 (638)
T ss_pred hcCCceeeEEEEE-ecCCceEEEEEEEEeecccCce--EEEEEehhhHHHHH
Confidence 33332 2233333 3467777888899998754443 35666788876443
No 109
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A.
Probab=98.37 E-value=7.7e-06 Score=79.71 Aligned_cols=128 Identities=16% Similarity=0.175 Sum_probs=89.0
Q ss_pred CHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHhCCeEEeecCCCCc
Q 001215 215 NISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPP 294 (1122)
Q Consensus 215 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~~~~r~i~d~~~~~ 294 (1122)
|++++++.+++.+++++|+|++.||.++++..--.++.+. .+ .+-+...+| .+ .......+.++++..++|....+
T Consensus 1 dl~~l~~~i~~~l~~~~~~~~~~l~~~d~~~~~~~~~~~~-~~-~~~~~~~l~-~~-~~~~~~~~~~~~~~~~~~~~~~~ 76 (129)
T PF13492_consen 1 DLDELLERILELLRELLGADRAALFLLDEDGNRLRVVAGW-GG-DPRLSESLP-ED-DPLIGRALETGEPVSVPDIDERD 76 (129)
T ss_dssp -HHHHHHHHHHHHHHHST-SEEEEEEEETTCECEEEEEEE-SS--GCGHHCEE-TT-SHHHHHHHHHTS-EEESTCCC-T
T ss_pred CHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCEEEEEEEe-CC-CccccccCC-CC-ccHHHHHHhhCCeEEeccccccc
Confidence 6899999999999999999999999999875433333333 21 111222445 22 23344677777765555521110
Q ss_pred ceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEeecCCCCCCChh
Q 001215 295 VKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFVPFP 374 (1122)
Q Consensus 295 ~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~~pr~~~~~ 374 (1122)
..+.++.|++||..+ ++++|+|..++..++.++..
T Consensus 77 --------------------------------~~~~~s~~~vPl~~~-------------~~~~Gvl~~~~~~~~~~~~~ 111 (129)
T PF13492_consen 77 --------------------------------FLGIRSLLVVPLRSR-------------DRVIGVLCLDSREPEEFSDE 111 (129)
T ss_dssp --------------------------------TTTTCEEEEEEEEET-------------TEEEEEEEEEECTTCG-SHH
T ss_pred --------------------------------CCCCCEEEEEEEeEC-------------CEEEEEEEEEECCCCCCCHH
Confidence 055588899999988 89999999998888899999
Q ss_pred hHHHHHHHHHHHHHHHH
Q 001215 375 LRYACEFLIQVFGVQVN 391 (1122)
Q Consensus 375 ~r~~~~~l~~~~~~~~~ 391 (1122)
.+...+.++..+|..|.
T Consensus 112 d~~~l~~~a~~~a~ale 128 (129)
T PF13492_consen 112 DLQLLESLANQLAIALE 128 (129)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhC
Confidence 99999999998887763
No 110
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=98.33 E-value=3.6e-06 Score=97.68 Aligned_cols=117 Identities=15% Similarity=0.138 Sum_probs=88.7
Q ss_pred HHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcc-eeEEEEEE
Q 001215 611 NEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEE-RNVEIKLR 689 (1122)
Q Consensus 611 ~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~-~~~e~~l~ 689 (1122)
..+..+++++++|++++|.+|+|+++|+++++++|++.++++|+++.+++++.... ...+..++..+.. ...++.+
T Consensus 7 ~~~~~il~~~~~gi~~~d~~~~i~~~N~a~~~~~g~~~~~~~g~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~- 83 (348)
T PRK11073 7 PDAGQILNSLINSILLLDDDLAIHYANPAAQQLLAQSSRKLFGTPLPELLSYFSLN--IELMRESLQAGQGFTDNEVTL- 83 (348)
T ss_pred chHHHHHhcCcCeEEEECCCCeEeeEcHHHHHHhCCCHHHHcCCCHHHHcCcchhh--HHHHHHHHHcCCcccccceEE-
Confidence 35688999999999999999999999999999999999999999999888754322 1223333433322 1222222
Q ss_pred EeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhH
Q 001215 690 AFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRI 739 (1122)
Q Consensus 690 ~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~s 739 (1122)
..+|..+|+.++..|+.+ .+++..++|||++++.++++...
T Consensus 84 ----~~~g~~~~~~~~~~~~~~-----~~~~~~~~dit~~~~~~~~~~~~ 124 (348)
T PRK11073 84 ----VIDGRSHILSLTAQRLPE-----GMILLEMAPMDNQRRLSQEQLQH 124 (348)
T ss_pred ----EECCceEEEEEEEEEccC-----ceeEEEEechhHHHHHHHHHHHH
Confidence 347999999999999872 35778899999999988776544
No 111
>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=98.31 E-value=9.7e-06 Score=70.53 Aligned_cols=100 Identities=23% Similarity=0.341 Sum_probs=82.3
Q ss_pred CeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEEEEcc
Q 001215 756 PIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFGFFDQ 835 (1122)
Q Consensus 756 ~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~ 835 (1122)
+++.+|.+|.++++|+++.+++|++.++++|+... .+.+++....+...+.....+......++.+...
T Consensus 4 ~i~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 72 (103)
T cd00130 4 GVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLL-----------DLIHPEDREELRERLENLLSGGEPVTLEVRLRRK 72 (103)
T ss_pred eEEEECCCCcEEEECHHHHHHhCCCHHHHcCccHH-----------HhcCCccchHHHHHHHHHHhcCcCeEEEEEEEcc
Confidence 79999999999999999999999999999987753 2233444445666666666666667778888889
Q ss_pred CCCEEEEEEEEeeeeCCCCCEEEEEEeeecc
Q 001215 836 QGKYVEALLSANKRTNAEGKISGILCFLHVA 866 (1122)
Q Consensus 836 dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DI 866 (1122)
+|...|+.....+..+.+|...+++++++||
T Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di 103 (103)
T cd00130 73 DGSVIWVLVSLTPIRDEGGEVIGLLGVVRDI 103 (103)
T ss_pred CCCEEEEEEEEEEEecCCCCEEEEEEEEecC
Confidence 9999999999999999999999999998886
No 112
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=98.30 E-value=5.8e-05 Score=76.59 Aligned_cols=228 Identities=20% Similarity=0.232 Sum_probs=146.8
Q ss_pred EEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCCCCCCCeEEEE
Q 001215 624 ILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGPRETSGPVILV 703 (1122)
Q Consensus 624 I~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v~ 703 (1122)
++..+..+.+.+.|......+++......+ ........................... .........++...++.
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~ 75 (232)
T COG2202 2 ILVLDRDGRIIYANEAAEELLGYSAEELLG--LLLALHPEDRDRLRELLRRLLAGEELL----SEELRLVRKDGEERWVE 75 (232)
T ss_pred eEEEcccccEEEecccchhhcCCChHHhhh--hhhccCccchhhhHHHHHHHhccCCcc----hhhHHhhhcCCcEEEEE
Confidence 355677888999999999999988777666 111111111111111112222111110 00111112345555555
Q ss_pred EEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHH
Q 001215 704 VNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREE 783 (1122)
Q Consensus 704 v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~ee 783 (1122)
..........+........ .|++..+..++.+...+.+++.++++.+. +++..|.+|.+.++|+++.+++|++..+
T Consensus 76 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~d~~~~~~~~n~~~~~~~g~~~~~ 151 (232)
T COG2202 76 LSAAPLRDGEGRVLGLLGL-RDITERKRAEEALRESEERLRALLEASPD---GIWVLDEDGRILYANPAAEELLGYSPEE 151 (232)
T ss_pred ecceEEEcCCCCEEEEEee-eecchHHHHHHHHHHHHHHHHHHHhhCCc---eEEEEeCCCCEEEeCHHHHHHhCCChHH
Confidence 4444444455555566666 89999999999999999999999999998 8999999999999999999999999888
Q ss_pred HhhhhccccccccccccccccCcchHHHHHHHHHHH-hcCCCcceeEEEEEccCCCE-EEEEEEEeeeeCCCCCEEEEEE
Q 001215 784 AIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKV-ISGQDADKILFGFFDQQGKY-VEALLSANKRTNAEGKISGILC 861 (1122)
Q Consensus 784 liGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~-l~g~~~~~~e~~~~~~dG~~-~~v~~~~~pv~d~~G~i~gvv~ 861 (1122)
..++......... ..... ........ .........++....++|.. .+......+... +|.+.++.+
T Consensus 152 ~~~~~~~~~~~~~--------~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~-~~~~~~~~~ 220 (232)
T COG2202 152 ELGRGLSDLIHPE--------DEERR--ELELARALAEGRGGPLEIEYRVRRKDGERVRWILSRISPVRD-DGEIVGVVG 220 (232)
T ss_pred hcCCChhheEecC--------CCchh--hHHHHHHhhccCCCCcceEEEEEecCCCEEEEEEeeeeEecC-CCceEEEEE
Confidence 7765532211111 01110 12222222 23334578888999999996 777777776655 789999999
Q ss_pred eeecccHHHHH
Q 001215 862 FLHVASPELQY 872 (1122)
Q Consensus 862 ~l~DITerkq~ 872 (1122)
...|++++++.
T Consensus 221 ~~~d~~~~~~~ 231 (232)
T COG2202 221 IARDITERKQA 231 (232)
T ss_pred EEechHHHhhc
Confidence 99999987753
No 113
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=98.29 E-value=5.1e-06 Score=99.54 Aligned_cols=121 Identities=15% Similarity=0.149 Sum_probs=87.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHc
Q 001215 598 DRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFL 677 (1122)
Q Consensus 598 ~~~~~~~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~ 677 (1122)
..++.+++|++.+++|+.+++++|+||+++|.+|+|+++|+++++++||+.++.+|+++.+++.+++.. ..+..
T Consensus 85 ~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~d~~g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~~~~~~---~~~~~--- 158 (430)
T PRK11006 85 RNRKRRRELGNLIKRFRSGAESLPDAVVLTTEEGNIFWCNGLAQQLLGFRWPEDNGQNILNLLRYPEFT---QYLKT--- 158 (430)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCeEEEEcCCCceeHHHHHHHHHhCCCChHhCCCcHHHHhcCHHHH---HHHHh---
Confidence 356677889999999999999999999999999999999999999999999999999998877644322 11111
Q ss_pred CCcceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHH
Q 001215 678 GIEERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYT 737 (1122)
Q Consensus 678 g~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~ 737 (1122)
..... ..... ..++. ++.++..|..+ + +++.+.+|||++++.|++.+
T Consensus 159 ~~~~~--~~~~~----~~~~~--~~~~~~~~~~~--~---~~~~~~~dit~~~~~e~~~~ 205 (430)
T PRK11006 159 RDFSR--PLTLV----LNNGR--HLEIRVMPYTE--G---QLLMVARDVTQMHQLEGARR 205 (430)
T ss_pred cccCC--CeEEE----cCCCC--EEEEEEEEcCC--C---cEEEEEehhhHHHHHHHHHH
Confidence 11111 11222 12333 55556666543 2 36778999999999887654
No 114
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=98.26 E-value=7.6e-06 Score=80.07 Aligned_cols=91 Identities=20% Similarity=0.300 Sum_probs=68.3
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC-CCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCC-CCCCCCcc
Q 001215 999 DKLRLQQVLSDFLTNALIFTPAF-EGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYH-SQGASREG 1076 (1122)
Q Consensus 999 D~~~L~QVL~NLL~NAik~t~~~-~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~-f~~~~GtG 1076 (1122)
+...+..++.++++||++|+... ..+.|.|.+....+ .+.+.|+|+|.|+++......-.. .......|
T Consensus 28 ~~~~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~~~---------~l~i~v~D~G~~~d~~~~~~~~~~~~~~~~~~G 98 (125)
T PF13581_consen 28 DRDDLELAVSEALTNAVEHGYPGDPDGPVDVRLEVDPD---------RLRISVRDNGPGFDPEQLPQPDPWEPDSLREGG 98 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEcCC---------EEEEEEEECCCCCChhhccCcccccCCCCCCCC
Confidence 35678999999999999999742 12578888888777 899999999999998755443221 13456789
Q ss_pred chHHHHHHHHHHcCcEEEEEecCCceE
Q 001215 1077 LGLYISQKLVKLMNGTVQYIREAERSS 1103 (1122)
Q Consensus 1077 LGL~I~r~ive~~gG~I~v~s~~gg~t 1103 (1122)
+||+|+++++..+ .| +..+|.+
T Consensus 99 ~Gl~li~~l~D~~----~~-~~~~gn~ 120 (125)
T PF13581_consen 99 RGLFLIRSLMDEV----DY-REDGGNT 120 (125)
T ss_pred cCHHHHHHHHcEE----EE-ECCCeEE
Confidence 9999999999876 56 5444443
No 115
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=98.23 E-value=6.1e-06 Score=91.13 Aligned_cols=180 Identities=14% Similarity=0.124 Sum_probs=119.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh-h-cccccccccce------eeeEEeehHHHHHHHHHHhccccccCC---cEEEeecC
Q 001215 920 EQKQLLKTSVLCQEQLTNIVDD-T-DIESIEECYMV------LKSGEFNLGEALDAVMTQVMIPSREHQ---VQFIRDLP 988 (1122)
Q Consensus 920 ~~~~~L~~i~~~~~rl~~iI~d-L-d~srie~g~~~------l~~~~~dL~~vi~~v~~~~~~~~~~~~---i~l~~~~~ 988 (1122)
..+.+|+.--.+-=.+.-|++. + -++ +|+-+ .-...+++.++|.++.+..+..+..+- =+++++..
T Consensus 172 ~iqyFLdr~y~sRIsiRMLv~qh~~l~~---~~kp~~~~~iG~I~~~c~v~~vi~~a~e~ar~lCd~yy~~sPel~i~~~ 248 (414)
T KOG0787|consen 172 NIQYFLDRFYMSRISIRMLVNQHLLLFA---SGKPDHPRHIGIIDPRCSVKKVIKDASENARFLCDQYYLNSPELIIEGH 248 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhheec---CCCCCCcceeeeeCCCCCHHHHHHHHHHHHHHHHHHhccCCCeeEecCc
Confidence 3455565544433344455555 3 333 12211 123457889999988877765433221 12333322
Q ss_pred CCCcceEEEecHHHHHHHHHHHHHHHhhcCCC------CCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhh
Q 001215 989 AEVSTMNLHGDKLRLQQVLSDFLTNALIFTPA------FEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLI 1062 (1122)
Q Consensus 989 ~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~------~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~ 1062 (1122)
..+.. . ..-|..|.-++.+|+.||.+++-. .+-+.|.|.|...++ .+.|.|+|.|.||+.+..
T Consensus 249 ~a~~~-~-vyvPshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gde---------Dl~ikISDrGGGV~~~~~ 317 (414)
T KOG0787|consen 249 NALSF-T-VYVPSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDE---------DLLIKISDRGGGVPHRDI 317 (414)
T ss_pred ccccC-c-cccchHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCc---------ceEEEEecCCCCcChhHH
Confidence 32221 1 134788999999999999887611 113459999888777 788999999999999999
Q ss_pred hhhcCCC--------------CCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEEEEecCCC
Q 001215 1063 HDMFYHS--------------QGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLILIEFPLAH 1114 (1122)
Q Consensus 1063 ~~iF~~f--------------~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP~~~ 1114 (1122)
+++|.-. ..-.|.|.||.|||...+-.||.+.+.|-.|-|| -+.+.|....
T Consensus 318 drlf~Y~ySTa~~~~~d~~~~~plaGfG~GLPisrlYa~yf~Gdl~L~SleG~GT-D~yI~Lk~ls 382 (414)
T KOG0787|consen 318 DRLFSYMYSTAPAPSSDNNRTAPLAGFGFGLPISRLYARYFGGDLKLQSLEGIGT-DVYIYLKALS 382 (414)
T ss_pred HHHHhhhcccCCCCCCCCCCcCcccccccCCcHHHHHHHHhCCCeeEEeeecccc-ceEEEeccCC
Confidence 9999642 1335889999999999999999999999988666 5566655443
No 116
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=98.22 E-value=5.1e-06 Score=78.76 Aligned_cols=105 Identities=18% Similarity=0.252 Sum_probs=73.7
Q ss_pred hhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCC
Q 001215 744 VGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQ 823 (1122)
Q Consensus 744 ~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~ 823 (1122)
+.++++++. ++.++|.++++.++|+++.++|+..+.+ +|+++. .+..+.....+...+..+..|+
T Consensus 2 ~~il~s~~~---~i~~vD~~~~I~~~n~~a~~~f~~~~~~-iGr~l~-----------~~~~~~~~~~l~~~i~~~~~~~ 66 (106)
T PF13596_consen 2 NNILDSMPI---GIIFVDRNLRIRYFNPAAARLFNLSPSD-IGRPLF-----------DIHPPLSYPNLKKIIEQVRSGK 66 (106)
T ss_dssp HHHHHHSSS---EEEEEETTSBEEEE-SCGC-SS---GGG-TTSBCC-----------CSS-HHHHHHHHHHHHHHHTTS
T ss_pred hHHHhcCCC---CEEEEcCCCeEEEeChhHhhhcCCChHH-CCCCHH-----------HcCCccchHHHHHHHHHHHcCC
Confidence 467777877 8999999999999999999999987644 788752 4444566677777888888777
Q ss_pred CcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeeccc
Q 001215 824 DADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVAS 867 (1122)
Q Consensus 824 ~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DIT 867 (1122)
.. ..++.. ..+| .|+.++..|+++.+|+..|++.++.|||
T Consensus 67 ~~-~~~~~~-~~~~--~~~~~~~~P~~~~~g~~~G~v~~~~DIT 106 (106)
T PF13596_consen 67 EE-EFEIVI-PNGG--RWYLVRYRPYRDEDGEYAGAVITFQDIT 106 (106)
T ss_dssp BS-EEEEEE-EETT--EEEEEEEEEEE-TTS-EEEEEEEEEE-G
T ss_pred Cc-eEEEEe-cCCC--EEEEEEEEEEECCCCCEEEEEEEEEecC
Confidence 64 233233 2444 4566689999999999999999999998
No 117
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.15 E-value=2.5e-05 Score=91.22 Aligned_cols=169 Identities=17% Similarity=0.296 Sum_probs=116.0
Q ss_pred HHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEE
Q 001215 606 LRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVE 685 (1122)
Q Consensus 606 L~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e 685 (1122)
|+...+.|..+++.+.++++++|.+|.++++|+++..++|++.++++|+++.+++..... .....++..+.+ ..
T Consensus 112 l~~~~~~l~~il~~~~~~l~vvD~~G~~i~~N~~~~~~~gl~~e~~~gk~~~~v~~~~~~----s~~l~vl~~~kp--~~ 185 (560)
T COG3829 112 LRQLRQRLEAILDSIDDGLLVVDEDGIIIYYNKAYAKLLGLSPEEVLGKHLLDVVSAGED----STLLEVLRTGKP--IR 185 (560)
T ss_pred HHHHHHHHHHHHhhccCceEEEcCCCcEEEEcHHHHHHhCCCHHHHcCCcHHHHHhccCC----ceehhhhhcCCc--ce
Confidence 567778999999999999999999999999999999999999999999999888711110 112233333322 11
Q ss_pred EEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhh--------hhhcCCC------
Q 001215 686 IKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYV--------GIVSSPS------ 751 (1122)
Q Consensus 686 ~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~--------~l~e~~~------ 751 (1122)
....+. .|... ..+..|++. +|.+.|.+.+.+|+++.+.+..++.+++...+ .|+-..+
T Consensus 186 ~~~~~~----~~~~~--i~~~~pv~~-~g~l~G~v~~~~~~~~l~~l~~~~~~~~~~~~~~a~y~f~~Iig~S~~m~~~~ 258 (560)
T COG3829 186 DVVQTY----NGNKI--IVNVAPVYA-DGQLIGVVGISKDVSELERLTRELEESEGLLRLKAKYTFDDIIGESPAMLRVL 258 (560)
T ss_pred eeeeee----cCCce--eEeeccEec-CCcEEEEEEeecchHHHHHHHHHHHHHhhhhccccccchhhhccCCHHHHHHH
Confidence 222221 13322 455556554 56999999999999999999998887776655 2221111
Q ss_pred -------CCCCCeEEecC-------------------CCCeeeeehhH-------HHhcCCChHHHhhh
Q 001215 752 -------ALIPPIFMTDE-------------------DGRCLEWNDGM-------EKLSGLKREEAIER 787 (1122)
Q Consensus 752 -------~li~~I~~~D~-------------------dg~ii~~N~a~-------~~l~G~~~eeliGk 787 (1122)
.....|.+..+ +|-++.+|-++ .++|||.+..+.|-
T Consensus 259 ~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~LlESELFGye~GAFTGA 327 (560)
T COG3829 259 ELAKRIAKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPETLLESELFGYEKGAFTGA 327 (560)
T ss_pred HHHHhhcCCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccCCHHHHHHHHhCcCCcccccc
Confidence 11114555544 34688889877 48899988777653
No 118
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.14 E-value=3.1e-05 Score=94.46 Aligned_cols=112 Identities=13% Similarity=0.147 Sum_probs=82.4
Q ss_pred HHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEE
Q 001215 606 LRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVE 685 (1122)
Q Consensus 606 L~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e 685 (1122)
+++...++..+++++++||+++|.+|+|+++|++++++||++.++++|+++.++++..... ..+..+......
T Consensus 75 ~e~e~~~L~aIL~sm~eGVi~vD~~G~I~~iN~aA~~Llg~~~eel~Gk~i~eli~~~~l~-------~~le~~~~~~~~ 147 (520)
T PRK10820 75 SEREHRALSALLEALPEPVLSIDMKGKVELANPASCQLFGQSEEKLRNHTAAQLINGFNFL-------RWLESEPQDSHN 147 (520)
T ss_pred HHHHHHHHHHHHHhCCCcEEEECCCCeeeHhHHHHHHHHCcCHHHHCCCcHHHHcCcchHH-------HHHHcCCCccce
Confidence 4455677899999999999999999999999999999999999999999999988865422 233333221112
Q ss_pred EEEEEeCCCCCCCeEEEEEEEEEec--CCCCCE--EEEEEEEEcchhhHH
Q 001215 686 IKLRAFGPRETSGPVILVVNACCTQ--DTKENV--IGVCFVGQDITGQKL 731 (1122)
Q Consensus 686 ~~l~~~~~~~dG~~~~v~v~~~pi~--d~~G~v--~gvv~v~~DITerK~ 731 (1122)
..+. .+|.. +.+...|+. |.+|.. .|++.+++|+++..+
T Consensus 148 ~~v~-----~~g~~--~~v~~~PI~~~d~~g~~~~~GaVivlrd~~~l~~ 190 (520)
T PRK10820 148 EHVV-----INGQD--FLMEITPVYLQDENDQHVLVGAVVMLRSTARMGR 190 (520)
T ss_pred EEEE-----ECCEE--EEEEEEeeeecCCCCceeEEEEEEEeccHHHHHH
Confidence 2222 13543 346667776 666664 899999999998644
No 119
>PF13185 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_A 3KSH_A 3MMH_A 3RFB_B 1F5M_A 3KO6_B 3HCY_A ....
Probab=98.12 E-value=3.5e-05 Score=77.01 Aligned_cols=136 Identities=12% Similarity=0.138 Sum_probs=87.9
Q ss_pred CHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCC-CccHHHHH--------HHHhCCeE
Q 001215 215 NISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPAT-DIPQASRF--------LIMKNKVR 285 (1122)
Q Consensus 215 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~-dip~~~r~--------l~~~~~~r 285 (1122)
+++++++.+++.+.+++++|...||-+++++ +.......... ...++..++-. +.+..... ++..++..
T Consensus 3 ~~~ell~~~~~~~~~~~~~~~~~i~l~d~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (148)
T PF13185_consen 3 DLEELLQQILDALLELTGADAGAIYLYDPDG-QLLPVAASGDP-SEFLKEEIPLPPPPDEPPAYAAVGLWEGVLRTGEPI 80 (148)
T ss_dssp HHHHHHHHHHHHHHHHHS-SEEEEEEEETTS-EEEEEEEESSS-CTSTCCECCCCCCCESCHHHCCEETTSHHHHHTS-E
T ss_pred CHHHHHHHHHHHHHHHhCCCEEEEEEEECCC-cEEEEEEeCCc-hhhhhhhcccCcccccccchhhhhHHHHHHhcCceE
Confidence 7899999999999999999999999997777 32333332222 22333222111 11111111 15556555
Q ss_pred EeecCCCCcceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEeec
Q 001215 286 MICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHH 365 (1122)
Q Consensus 286 ~i~d~~~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~ 365 (1122)
++. ...- .-. . .......|+++-+++||+.+ |++||.|...+
T Consensus 81 ~~~---~~~~--------------------~~~-~-~~~~~~~~~~s~l~vPl~~~-------------~~~~Gvl~l~~ 122 (148)
T PF13185_consen 81 IIN---DDDS--------------------SFP-P-WELARHPGIRSILCVPLRSG-------------GEVIGVLSLYS 122 (148)
T ss_dssp EES---CCCG--------------------GGS-T-THHHCCTT-SEEEEEEEEET-------------TEEEEEEEEEE
T ss_pred EEe---Cccc--------------------ccc-c-hhhhccccCCEEEEEEEeEC-------------CEEEEEEEEee
Confidence 555 0000 001 2 36689999999999999988 99999999888
Q ss_pred CCCCCCChhhHHHHHHHHHHHHHHH
Q 001215 366 TSPRFVPFPLRYACEFLIQVFGVQV 390 (1122)
Q Consensus 366 ~~pr~~~~~~r~~~~~l~~~~~~~~ 390 (1122)
..++.++...+..++.+++.+|..|
T Consensus 123 ~~~~~f~~~~~~~l~~la~~~a~ai 147 (148)
T PF13185_consen 123 KEPNAFSEEDLELLEALADQIAIAI 147 (148)
T ss_dssp SSTT---HHHHHHHHHHHHHHHHHH
T ss_pred CCCCCcCHHHHHHHHHHHHHHHHHh
Confidence 8889999999999999999888765
No 120
>PF12860 PAS_7: PAS fold
Probab=98.08 E-value=1.3e-05 Score=77.06 Aligned_cols=113 Identities=15% Similarity=0.151 Sum_probs=70.3
Q ss_pred cCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHH-hhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcc
Q 001215 748 SSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEA-IERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDAD 826 (1122)
Q Consensus 748 e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eel-iGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~ 826 (1122)
++++. ||+++|.+|++++||+++.+++|++.+.+ .|.++ .+++.......... +.+................
T Consensus 2 d~l~~---Gv~v~D~~~rl~~~N~~~~~l~~~~~~~~~~G~~~-~~l~~~~~~~g~~~-~~~~~~~~~~~~~~~~~~~-- 74 (115)
T PF12860_consen 2 DSLPQ---GVAVFDSDGRLVFWNQRFRELFGLPPEMLRPGASF-RDLLRRLAERGEFP-PGDPEAWVRQRLARLRRRQ-- 74 (115)
T ss_pred CCcCc---eEEEEcCCCeEEeEcHHHHHHhCCCHHHhcCCCCH-HHHHHHHHHcCCCC-CCCHHHHHHHHHHHHhcCC--
Confidence 45555 99999999999999999999999999988 56553 33333211111111 2333322222222222222
Q ss_pred eeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHH
Q 001215 827 KILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYAL 874 (1122)
Q Consensus 827 ~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~ 874 (1122)
...+.+...||+++.+ +..|.. +| |++.++.|||+++++|+
T Consensus 75 ~~~~~~~~~dgr~l~~--~~~~~~--~G---g~v~~~~DVT~~~~~E~ 115 (115)
T PF12860_consen 75 PRSFELRLPDGRWLEV--RAQPLP--DG---GFVLTFTDVTERRRAEE 115 (115)
T ss_pred CceeEEECCCCEEEEE--EeEECC--CC---CEEEEEEeCCHHHHhcC
Confidence 2334456788876655 555553 34 57799999999998763
No 121
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=98.02 E-value=0.00021 Score=87.98 Aligned_cols=153 Identities=11% Similarity=0.072 Sum_probs=106.4
Q ss_pred HHHHHHHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHH
Q 001215 199 KLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFL 278 (1122)
Q Consensus 199 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l 278 (1122)
..+.++...|.+ +.+++++++.+++.+.+++|+||..||-+++++...++ .+....-+..-..+|+... --....
T Consensus 5 ~~L~~is~~l~~--~~dl~~lL~~il~~l~~~l~a~~~~I~L~d~~~~~l~~-aa~g~~~~~~~~~~~~~~~--gi~g~v 79 (534)
T TIGR01817 5 AALYEISKILSA--PTRLEKTLANVLNVLSNDLGMRHGLITLSDSEGEPLLV-AAIGWSEEGFAPIRYRVGE--GAIGQI 79 (534)
T ss_pred HHHHHHHHHHhc--cCCHHHHHHHHHHHHHHhcCCCEEEEEEECCCCCEEEE-EEeCCChhhcccccccCCc--cHHHHH
Confidence 334556666666 56999999999999999999999999999888654333 3332221111113343221 235667
Q ss_pred HHhCCeEEeecCCCCcceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCcee
Q 001215 279 IMKNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLW 358 (1122)
Q Consensus 279 ~~~~~~r~i~d~~~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lW 358 (1122)
+..+..-+|.|+...|-... +. -+...++++-|+|||..+ |+++
T Consensus 80 ~~~~~pvii~Dv~~d~~~~~---------------------~~--~~~~~~~~S~l~VPL~~~-------------g~vi 123 (534)
T TIGR01817 80 VATGNSLVVPDVAAEPLFLD---------------------RL--SLYDPGPVPFIGVPIKAD-------------SETI 123 (534)
T ss_pred HhcCCeEEecccccCchhhh---------------------cc--ccccCCcceEEEEEEcCC-------------CEEE
Confidence 78888888888654432210 00 023467899999999977 9999
Q ss_pred eEEEeecCC-CCCCChhhHHHHHHHHHHHHHHHHH
Q 001215 359 GLVVCHHTS-PRFVPFPLRYACEFLIQVFGVQVNK 392 (1122)
Q Consensus 359 Gl~~~h~~~-pr~~~~~~r~~~~~l~~~~~~~~~~ 392 (1122)
|.|..+... +++...+.....+.++..++..|..
T Consensus 124 GvL~v~s~~~~~~ft~~d~~lL~~lA~~ia~aI~~ 158 (534)
T TIGR01817 124 GVLAADRDFRSRERLEEEVRFLEMVANLIGQTVRL 158 (534)
T ss_pred EEEEEEeccccccccHHHHHHHHHHHHHHHHHHHH
Confidence 999988875 5677888888899999988887753
No 122
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=98.02 E-value=3.4e-05 Score=95.15 Aligned_cols=126 Identities=16% Similarity=0.200 Sum_probs=91.7
Q ss_pred HHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCC---chhhcCCcccccccCCchHHHHHHHHHHHcCCc
Q 001215 604 DELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLT---VDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIE 680 (1122)
Q Consensus 604 ~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s---~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~ 680 (1122)
.++....++++.+++++++||+++|.+|+|++||+++++++|++ ..+.+|+.+.++.++.. +..++..+.
T Consensus 214 ~ei~~l~~~~~~il~~~~~gIi~~D~~g~I~~~N~~a~~llg~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~ 286 (542)
T PRK11086 214 YEISTLFEQRQAMLQSIKEGVIAVDDRGEVTLINDEAKRLFNYKKGLEDDPLGTDVESWMPVSR-------LKEVLRTGT 286 (542)
T ss_pred HHHHHHHHHHHHHHHHhcCcEEEECCCCeEEEEhHHHHHHhCCCcCCcccccCCcHHHhCCchh-------HHHHHhcCC
Confidence 45666677889999999999999999999999999999999865 34677777776665332 233343333
Q ss_pred ceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhh
Q 001215 681 ERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVG 745 (1122)
Q Consensus 681 ~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~ 745 (1122)
... ...... +| .++.++..|+.+ +|.+.|++.+++|+|+.++.++++.......+.
T Consensus 287 ~~~-~~~~~~-----~g--~~~~~~~~pi~~-~g~~~g~v~~~rDite~~~l~~~l~~~~~~~~~ 342 (542)
T PRK11086 287 PRR-DEEINI-----NG--RLLLTNTVPVRV-NGEIIGAIATFRDKTEVRQLAQRLDGMVNYADA 342 (542)
T ss_pred Ccc-ceEEEE-----CC--EEEEEEEEEEeE-CCEEEEEEEEEEEchHHHHHHHHHHHHHHHHHH
Confidence 211 111111 23 456677889988 899999999999999999999888766544433
No 123
>PF14598 PAS_11: PAS domain; PDB: 1P97_A 3F1O_A 2A24_A 3H7W_A 3F1P_A 3H82_A 3F1N_A 4F3L_B 4DJ3_A 2KDK_A ....
Probab=97.99 E-value=7.4e-05 Score=71.46 Aligned_cols=100 Identities=13% Similarity=0.150 Sum_probs=79.4
Q ss_pred EEecCCCcEEeccHH-HHHHcCCCchhhcCCcccccccCCchHH-HHHHHHHHHcCCcceeEEEEEEEeCCCCCCCeEEE
Q 001215 625 LAVDASGNVNGWNSK-AAELTGLTVDQAIGTALVDLVAGDSVDV-VKNMLSSAFLGIEERNVEIKLRAFGPRETSGPVIL 702 (1122)
Q Consensus 625 ~~~D~dG~Iv~~N~~-~~~l~G~s~eeliG~~~~dl~~~~~~~~-~~~~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v 702 (1122)
.-.+.||+|+++-++ ...++||.++|++|+++.+++||+|.+. +.+..+.+++.+.....-+++. .++|+.+|+
T Consensus 6 trhs~dgki~~~d~~~v~~~lgy~~~eLvG~s~y~~~H~~D~~~~~~~~~~~~~~~g~~~~~~yR~~----~k~g~~vwv 81 (111)
T PF14598_consen 6 TRHSLDGKITYVDSRAVSSLLGYLPEELVGRSIYDFVHPDDLQRVLKQHHREVLQKGQSVSPYYRFR----TKNGGYVWV 81 (111)
T ss_dssp EEEETTSBEEEEETTHHHHHHSS-HHHHTTSBGGGGBSCCTHHHHHHHHHHHHHHHSSEEEEEEEEE-----TTSSEEEE
T ss_pred EEECCCcEEEEEcCccChhhcCCCcHHHcCCchHHhCCHhhhhhHHHHHHHHHhhCCCcCcceEEEE----ecCCcEEEE
Confidence 346789999999999 6999999999999999999999999996 8888888887776544445555 678999999
Q ss_pred EEEEEEecCCC-CCEEEEEEEEEcchh
Q 001215 703 VVNACCTQDTK-ENVIGVCFVGQDITG 728 (1122)
Q Consensus 703 ~v~~~pi~d~~-G~v~gvv~v~~DITe 728 (1122)
...+..+.++. +++..++++-+=|++
T Consensus 82 qt~~~~~~n~~~~~~~~Iv~~n~vlse 108 (111)
T PF14598_consen 82 QTKATLFYNPWTSKPEFIVCTNTVLSE 108 (111)
T ss_dssp EEEEEEEEETTTTCEEEEEEEEEEESC
T ss_pred EEEEEEEECCCCCCccEEEEEEEEecc
Confidence 99999998644 566666666554443
No 124
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=97.90 E-value=4.1e-05 Score=86.54 Aligned_cols=102 Identities=20% Similarity=0.347 Sum_probs=77.8
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCC--CeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCC--------
Q 001215 1000 KLRLQQVLSDFLTNALIFTPAFEG--SSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHS-------- 1069 (1122)
Q Consensus 1000 ~~~L~QVL~NLL~NAik~t~~~~g--~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f-------- 1069 (1122)
.-.|.|++.+|++|+++++.. .| ++|.|.+...+. .+..+.|.|||+|||++++.++|..+
T Consensus 34 ~RsL~~tv~ElV~NSLDA~ee-aGILPdI~v~I~~~~~--------d~y~v~veDNGpGIP~e~IPkvFGk~LygSKfh~ 104 (538)
T COG1389 34 IRSLTTTVHELVTNSLDACEE-AGILPDIKVEIERIGK--------DHYKVIVEDNGPGIPEEQIPKVFGKMLYGSKFHR 104 (538)
T ss_pred hhHHHHHHHHHHhcchhhHHh-cCCCCceEEEEEecCC--------ceEEEEEecCCCCCChhHhHHHHHHHhccchhhh
Confidence 456899999999999999974 23 578888887744 28999999999999999999999763
Q ss_pred --CCCCCccchHHHHHHHHHHcCcE-EEEEecCCc--eEEEEEEEe
Q 001215 1070 --QGASREGLGLYISQKLVKLMNGT-VQYIREAER--SSFLILIEF 1110 (1122)
Q Consensus 1070 --~~~~GtGLGL~I~r~ive~~gG~-I~v~s~~gg--~tF~~~l~L 1110 (1122)
+..+.-|||++-|=-..+..-|+ +.+.|..++ ....+.|.+
T Consensus 105 ~~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~i 150 (538)
T COG1389 105 NIQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKI 150 (538)
T ss_pred hhhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEe
Confidence 23345699998887778887666 788887664 333444443
No 125
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=97.88 E-value=0.00024 Score=71.92 Aligned_cols=134 Identities=20% Similarity=0.287 Sum_probs=97.1
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHH-HHHHH
Q 001215 594 PSVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDV-VKNML 672 (1122)
Q Consensus 594 r~~~~~~~~~~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~-~~~~l 672 (1122)
.++........++.....+++.+++..+++++.+|.+|.++++|+.+.+++|++..+..++...++........ .....
T Consensus 95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 174 (232)
T COG2202 95 RDITERKRAEEALRESEERLRALLEASPDGIWVLDEDGRILYANPAAEELLGYSPEEELGRGLSDLIHPEDEERRELELA 174 (232)
T ss_pred eecchHHHHHHHHHHHHHHHHHHHhhCCceEEEEeCCCCEEEeCHHHHHHhCCChHHhcCCChhheEecCCCchhhHHHH
Confidence 34556677788888888889999999999999999999999999999999999988877887776655433321 11122
Q ss_pred HHHH-cCCcceeEEEEEEEeCCCCCCCe-EEEEEEEEEecCCCCCEEEEEEEEEcchhhHHH
Q 001215 673 SSAF-LGIEERNVEIKLRAFGPRETSGP-VILVVNACCTQDTKENVIGVCFVGQDITGQKLV 732 (1122)
Q Consensus 673 ~~~l-~g~~~~~~e~~l~~~~~~~dG~~-~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~a 732 (1122)
.... ........++... .++|.. .+......+..+ .|.+.++.....|+|++++.
T Consensus 175 ~~~~~~~~~~~~~~~~~~----~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~d~~~~~~~ 231 (232)
T COG2202 175 RALAEGRGGPLEIEYRVR----RKDGERVRWILSRISPVRD-DGEIVGVVGIARDITERKQA 231 (232)
T ss_pred HHhhccCCCCcceEEEEE----ecCCCEEEEEEeeeeEecC-CCceEEEEEEEechHHHhhc
Confidence 2222 2222233344433 457885 777777766655 78999999999999998865
No 126
>PF14598 PAS_11: PAS domain; PDB: 1P97_A 3F1O_A 2A24_A 3H7W_A 3F1P_A 3H82_A 3F1N_A 4F3L_B 4DJ3_A 2KDK_A ....
Probab=97.85 E-value=0.00018 Score=68.87 Aligned_cols=101 Identities=22% Similarity=0.186 Sum_probs=82.5
Q ss_pred eEEecCCCCeeeeehh-HHHhcCCChHHHhhhhccccccccccccccccCcchHHH-HHHHHHHHhcCCCcceeEEEEEc
Q 001215 757 IFMTDEDGRCLEWNDG-MEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTK-LRIVMNKVISGQDADKILFGFFD 834 (1122)
Q Consensus 757 I~~~D~dg~ii~~N~a-~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~-~~~~l~~~l~g~~~~~~e~~~~~ 834 (1122)
+...+.+|+|+++-+. ...++||.++|++|+. ++.+.||+|... +......++..+......+++..
T Consensus 5 ~trhs~dgki~~~d~~~v~~~lgy~~~eLvG~s-----------~y~~~H~~D~~~~~~~~~~~~~~~g~~~~~~yR~~~ 73 (111)
T PF14598_consen 5 TTRHSLDGKITYVDSRAVSSLLGYLPEELVGRS-----------IYDFVHPDDLQRVLKQHHREVLQKGQSVSPYYRFRT 73 (111)
T ss_dssp EEEEETTSBEEEEETTHHHHHHSS-HHHHTTSB-----------GGGGBSCCTHHHHHHHHHHHHHHHSSEEEEEEEEE-
T ss_pred EEEECCCcEEEEEcCccChhhcCCCcHHHcCCc-----------hHHhCCHhhhhhHHHHHHHHHhhCCCcCcceEEEEe
Confidence 3456889999999999 6999999999999998 467888999997 88888888887777777899999
Q ss_pred cCCCEEEEEEEEeeeeC-CCCCEEEEEEeeecccH
Q 001215 835 QQGKYVEALLSANKRTN-AEGKISGILCFLHVASP 868 (1122)
Q Consensus 835 ~dG~~~~v~~~~~pv~d-~~G~i~gvv~~l~DITe 868 (1122)
++|.++|+...+....+ ..+++..++|+-+-|++
T Consensus 74 k~g~~vwvqt~~~~~~n~~~~~~~~Iv~~n~vlse 108 (111)
T PF14598_consen 74 KNGGYVWVQTKATLFYNPWTSKPEFIVCTNTVLSE 108 (111)
T ss_dssp TTSSEEEEEEEEEEEEETTTTCEEEEEEEEEEESC
T ss_pred cCCcEEEEEEEEEEEECCCCCCccEEEEEEEEecc
Confidence 99999999999998886 44566667776555553
No 127
>smart00388 HisKA His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases.
Probab=97.76 E-value=6.5e-05 Score=63.44 Aligned_cols=61 Identities=33% Similarity=0.510 Sum_probs=52.8
Q ss_pred HhHHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh-cccccc
Q 001215 888 LNKLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT-DIESIE 948 (1122)
Q Consensus 888 ~~fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~srie 948 (1122)
.++++.++||+||||+.|.++++++.....+++...+++.+..+++++..+++++ ++++.+
T Consensus 3 ~~~~~~i~Hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~ 64 (66)
T smart00388 3 REFLANLSHELRTPLTAIRGYLELLEDTELSEEQREYLETILRSAERLLRLINDLLDLSRIE 64 (66)
T ss_pred HHHHHHHHHhccCcHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4578899999999999999999888776666666889999999999999999997 887754
No 128
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=97.74 E-value=0.0003 Score=70.45 Aligned_cols=89 Identities=27% Similarity=0.437 Sum_probs=66.6
Q ss_pred ecHHHHHHHHHHHHHHHhhcCCCC--CCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCC----CC
Q 001215 998 GDKLRLQQVLSDFLTNALIFTPAF--EGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHS----QG 1071 (1122)
Q Consensus 998 ~D~~~L~QVL~NLL~NAik~t~~~--~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f----~~ 1071 (1122)
.+..+++-++.++++||++|+-.. ..++|.|.+....+ .+.++|.|.|+|+++ .++-+.|. ..
T Consensus 36 ~~~~~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~~---------~~~i~i~D~G~~~~~--~~~~~~~~~~~~~~ 104 (146)
T COG2172 36 VDIADLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDDG---------KLEIRIWDQGPGIED--LEESLGPGDTTAEG 104 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEEcCC---------eEEEEEEeCCCCCCC--HHHhcCCCCCCCcc
Confidence 378899999999999999998521 12589999999888 899999999988755 33334442 23
Q ss_pred CCCccchHHHHHHHHHHcCcEEEEEecCCc
Q 001215 1072 ASREGLGLYISQKLVKLMNGTVQYIREAER 1101 (1122)
Q Consensus 1072 ~~GtGLGL~I~r~ive~~gG~I~v~s~~gg 1101 (1122)
...-|+||.++++++ .++.+++.+++
T Consensus 105 ~~~~G~Gl~l~~~~~----D~~~~~~~~~~ 130 (146)
T COG2172 105 LQEGGLGLFLAKRLM----DEFSYERSEDG 130 (146)
T ss_pred cccccccHHHHhhhh----eeEEEEeccCC
Confidence 334499999997755 46788866665
No 129
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=97.74 E-value=0.0019 Score=74.93 Aligned_cols=220 Identities=16% Similarity=0.121 Sum_probs=132.6
Q ss_pred CCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHH-HHHHhCC-eEEe-ecC
Q 001215 214 GNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASR-FLIMKNK-VRMI-CDC 290 (1122)
Q Consensus 214 ~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r-~l~~~~~-~r~i-~d~ 290 (1122)
.+++.++..+++++..+.|||+++++++|.+. .+..+...-..+++|.+-+....|.+.= +.+..+. ++++ .|+
T Consensus 47 ~~~e~ll~~v~~~l~~~~~~~~~~ll~~d~~~---l~~~~~~gl~~~~~~~~~~~~~~~~~~l~~i~~~~~p~~~~~~d~ 123 (550)
T COG3604 47 LRLERLLAEVAKELHSLFGCDASALLRLDSKN---LIPLATDGLSKDHLGREQRFVVEGHPLLEQILKAGRPLVFHPADS 123 (550)
T ss_pred hhHHHHHHHHHHHHHHHhcCCeeEEEEecccc---cchhhhhcccccccccccccccCcchHHHHHHhCCCcEEEecCCc
Confidence 48999999999999999999999999999987 4455555555666676544455554442 3444444 5542 332
Q ss_pred CCCcceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEeecCCCCC
Q 001215 291 LAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRF 370 (1122)
Q Consensus 291 ~~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~~pr~ 370 (1122)
. .|++..+ -+--..|+++.|.+.+||.++ +++||.+.--|+.|..
T Consensus 124 ~------~~~~~~~----------------l~~~~~~~~~~a~i~~PL~~~-------------~~~~G~Ltld~~~~~~ 168 (550)
T COG3604 124 L------FPDPYDG----------------LLPDTEGNKKHACIGVPLKSG-------------DKLIGALTLDHTEPDQ 168 (550)
T ss_pred c------cCCcccc----------------cccCccCCcceeEEeeeeeeC-------------CeeeeeEEeeeecccc
Confidence 1 1221111 011156778899999999998 9999999988888866
Q ss_pred CChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhcc--CCCcccccCCcchhhhccCCeEEEEECCe
Q 001215 371 VPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQT-VLCDMLLR--DSPVGIVTQTPNVMDLVKCDGAALYYRGK 447 (1122)
Q Consensus 371 ~~~~~r~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~l~~~~g~al~~~~~ 447 (1122)
..+..-...++|+...++........+.-...++.+..+. .+..-+.. -...+++.+++.|+++++.=-.+--.+-.
T Consensus 169 f~~~~~~~lr~La~~a~la~~~~~l~~~l~~~~~~l~~e~~~~~~~~~~~~~~~~~iIG~S~am~~ll~~i~~VA~Sd~t 248 (550)
T COG3604 169 FDEDLDEELRFLAALAALAVANALLHRELSSLKERLEEENLALEEQLSEVVLEVGGIIGRSPAMRQLLKEIEVVAKSDST 248 (550)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccccchhcccccceecCHHHHHHHHHHHHHhcCCCe
Confidence 6665555667777766665543211111111111111110 11111111 12457888898888876654444445566
Q ss_pred EEEecCCCC-HHHHHHHHHHHHhcc
Q 001215 448 LWLLGVTPT-EEQIKDIAEWLLEYH 471 (1122)
Q Consensus 448 ~~~~G~~p~-~~~~~~l~~~l~~~~ 471 (1122)
+...|.|=+ .+-|-..+..+..+.
T Consensus 249 VLi~GETGtGKElvAraIH~~S~R~ 273 (550)
T COG3604 249 VLIRGETGTGKELVARAIHQLSPRR 273 (550)
T ss_pred EEEecCCCccHHHHHHHHHhhCccc
Confidence 777788877 444445556666553
No 130
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=97.70 E-value=0.0042 Score=75.95 Aligned_cols=153 Identities=10% Similarity=0.029 Sum_probs=104.3
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHh
Q 001215 202 AKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMK 281 (1122)
Q Consensus 202 ~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~ 281 (1122)
.++...|-+ +.+++++++.+++.+++.+++|.+-|+-++++ .+...+....-....+..|+..+=|--...+ ..
T Consensus 7 ~eis~~L~~--s~d~~e~L~~vl~~l~~~l~~~~~~l~l~~~~---~l~~~as~gl~~~~~~~~~~~geGP~l~av~-~~ 80 (509)
T PRK05022 7 LPIALDLSR--GLPHQDRFQRLLTTLRQVLPCDASALLRLDGD---QLVPLAIDGLSPDVLGRRFALEEHPRLEAIL-RA 80 (509)
T ss_pred HHHHHHHhc--CCCHHHHHHHHHHHHHHHcCCCEEEEEecCCC---cEEEEEEcCCChHhhCCccCCCcchHHHHHH-hc
Confidence 445555666 77999999999999999999999999998753 4333344333344556678776655332222 33
Q ss_pred CCeEEeecCCCCcceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEE
Q 001215 282 NKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLV 361 (1122)
Q Consensus 282 ~~~r~i~d~~~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~ 361 (1122)
+++-.|+|...-|.+. + |-.. ....++|+++.|+|||.++ ++.+|.|
T Consensus 81 g~~v~v~~~~~~p~~~-~---------------~~~~----~~~~~~gi~S~l~vPL~~~-------------~~~~GvL 127 (509)
T PRK05022 81 GDPVRFPADSELPDPY-D---------------GLIP----GVQESLPVHDCMGLPLFVD-------------GRLIGAL 127 (509)
T ss_pred CCeEEEecCCCCCccc-c---------------cccc----cccccCCcceEEEEEEEEC-------------CEEEEEE
Confidence 5454555432222211 0 0000 0134579999999999998 9999999
Q ss_pred EeecCCCCCCChhhHHHHHHHHHHHHHHHHHH
Q 001215 362 VCHHTSPRFVPFPLRYACEFLIQVFGVQVNKE 393 (1122)
Q Consensus 362 ~~h~~~pr~~~~~~r~~~~~l~~~~~~~~~~~ 393 (1122)
.+....|..+.......++.++..++..|...
T Consensus 128 ~l~~~~~~~f~~~~~~~l~~~a~~~a~Al~~a 159 (509)
T PRK05022 128 TLDALDPGQFDAFSDEELRALAALAAATLRNA 159 (509)
T ss_pred EEeeCCCCcCCHHHHHHHHHHHHHHHHHHHHH
Confidence 99888887777777788888888888887653
No 131
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=97.68 E-value=0.0029 Score=80.35 Aligned_cols=146 Identities=4% Similarity=-0.039 Sum_probs=99.6
Q ss_pred CCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEec--CCCCCCccCCCCCCCCccHHHHHHHHhCCeEEeecC
Q 001215 213 SGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECR--RPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDC 290 (1122)
Q Consensus 213 ~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~--~~~~~~~lg~~~pa~dip~~~r~l~~~~~~r~i~d~ 290 (1122)
+.+++++++.+++++++++++|++.|+-++++...-++.-+. ..+.....+...|... --+...+..++..++.|.
T Consensus 197 ~~dl~ell~~I~~~i~~~~~a~~~~I~L~d~~~~~L~~~aa~g~~~~~~~~~~~~~~~~~--~l~g~V~~~~~p~lv~~~ 274 (686)
T PRK15429 197 RLDMDELVSEVAKEIHYYFDIDAISIVLRSHRKNKLNIYSTHYLDKQHPAHEQSEVDEAG--TLTERVFKSKEMLLINLH 274 (686)
T ss_pred CCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCcEEEEEecccChhhcccccccCCccc--chHHHHHhcCceEEEECc
Confidence 569999999999999999999999999998876543332222 1222333333333221 234567778888888765
Q ss_pred CCCcceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEeecCCCCC
Q 001215 291 LAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRF 370 (1122)
Q Consensus 291 ~~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~~pr~ 370 (1122)
...+....+. ...+ +..-++++.++||++.. ++.=|.|..-++.++.
T Consensus 275 ~~d~~~~~~~-------------------~~~~-~~~~~~~s~l~vPL~~~-------------~~v~GvL~l~~~~~~~ 321 (686)
T PRK15429 275 ERDDLAPYER-------------------MLFD-TWGNQIQTLCLLPLMSG-------------DTMLGVLKLAQCEEKV 321 (686)
T ss_pred cCcccchhhh-------------------hhhh-cccccceEEEEEeEEEC-------------CEEEEEEEEeeCCCCc
Confidence 4332211000 0001 22345788999999988 9999999987888888
Q ss_pred CChhhHHHHHHHHHHHHHHHHHH
Q 001215 371 VPFPLRYACEFLIQVFGVQVNKE 393 (1122)
Q Consensus 371 ~~~~~r~~~~~l~~~~~~~~~~~ 393 (1122)
++......+..++..+++.|...
T Consensus 322 F~~~dl~lL~~iA~~~A~Aie~a 344 (686)
T PRK15429 322 FTTTNLKLLRQIAERVAIAVDNA 344 (686)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHH
Confidence 88888888889998888887543
No 132
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=97.54 E-value=0.00098 Score=78.43 Aligned_cols=126 Identities=18% Similarity=0.220 Sum_probs=94.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHH-c
Q 001215 599 RIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAF-L 677 (1122)
Q Consensus 599 ~~~~~~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l-~ 677 (1122)
.+++.+++++..+.+..+++..+.|++.+|.+|+|.-+|+++++++|.+.++++|.++..+.+ .+.+.+..+- .
T Consensus 358 l~~ak~~~e~rr~f~E~VLsgvtaGVi~~d~~g~i~t~N~~ae~~l~~~~~~~~G~~lsa~ap-----~~~~vf~~~~a~ 432 (712)
T COG5000 358 LERAKDALEQRRRFLEAVLSGLTAGVIGFDNRGCITTVNPSAEQILGKPFDQLLGQSLSAIAP-----ELEEVFAEAGAA 432 (712)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCceeEEEEcCCCeeEeecchHHHHhcCChhHhhcchhhhhhh-----HHHHHHHHhhhh
Confidence 557778888888999999999999999999999999999999999999999999999765443 2222222222 1
Q ss_pred CCcceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHH
Q 001215 678 GIEERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKY 736 (1122)
Q Consensus 678 g~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L 736 (1122)
++..+..+..+. ..|+.+.+.+...-...++| .|++.++-|||+...++..-
T Consensus 433 ~~~~~~~ev~~~-----r~g~~rtl~Vq~t~~~~d~~--~gyVvt~DDITdLV~AQRs~ 484 (712)
T COG5000 433 ARTDKRVEVKLA-----REGEERTLNVQATREPEDNG--NGYVVTFDDITDLVIAQRSA 484 (712)
T ss_pred cCCCccceeecc-----cCCCceeeeeeeeecccccC--CceEEEecchHHHHHHHHHH
Confidence 233444455554 34777777777765544333 38999999999999887653
No 133
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=97.51 E-value=0.00011 Score=62.55 Aligned_cols=47 Identities=23% Similarity=0.300 Sum_probs=38.8
Q ss_pred HHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCccccccc
Q 001215 611 NEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVA 661 (1122)
Q Consensus 611 ~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~ 661 (1122)
++|+.+++++|+||+++| +++|+++|+++++++||+ ..|+.+..+++
T Consensus 1 e~~~~l~~~~~~~i~i~d-~~~i~~~N~~~~~l~g~~---~~~~~~~~~~~ 47 (64)
T PF13188_consen 1 ERYRSLFDNSPDGILIID-GGRIIYVNPAFEELFGYS---LEGEDIGQLFP 47 (64)
T ss_dssp HHHHHHHCCSSSEEEEEE-TSBEEEE-HHHHHHHCS----HTCCCHHCTST
T ss_pred CHHHHHHHcCccceEEEE-CCChHHhhHHHHHHhCCC---CCCCCHHHhCc
Confidence 478999999999999999 889999999999999999 56666654444
No 134
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=97.50 E-value=0.00095 Score=82.55 Aligned_cols=122 Identities=14% Similarity=0.212 Sum_probs=87.4
Q ss_pred HHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCc--hhhcCCcccccccCCchHHHHHHHHHHHcCCcce
Q 001215 605 ELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTV--DQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEER 682 (1122)
Q Consensus 605 eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~--eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~ 682 (1122)
++.....++..+++++++|++++|.+|+|+++|+++++++|++. ++++|+++.+++++.... ..... ....
T Consensus 216 ~~~~~~~~~~~il~~~~egii~~D~~g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~~~~~------~~~~~-~~~~ 288 (545)
T PRK15053 216 QIARVVRQQEALFSSVYEGLIAVDPHGYITAINRNARKMLGLSSPGRQWLGKPIAEVVRPADFF------TEQID-EKRQ 288 (545)
T ss_pred HHHHHHHHHHHHHHHhCceEEEECCCCeEEeecHHHHHHhCCCCcchhhcCCcHHHhCCCchhh------hhhcC-Cccc
Confidence 34445567788999999999999999999999999999999865 468999998887654211 11111 1111
Q ss_pred eEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhh
Q 001215 683 NVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDY 743 (1122)
Q Consensus 683 ~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l 743 (1122)
... .. .+| ..+.++..|+.+ +|++.|++.+++|+|+.++.++++...+...
T Consensus 289 ~~~--~~-----~~~--~~~~~~~~~i~~-~~~~~G~v~~~~d~te~~~l~~~l~~~~~~~ 339 (545)
T PRK15053 289 DVV--AN-----FNG--LSVIANREAIRS-GDDLLGAIISFRSKDEISTLNAQLTQIKQYV 339 (545)
T ss_pred ceE--EE-----ECC--EEEEEEeeeEEE-CCeEEEEEEEEEchHHHHHHHHHHHHHHHHH
Confidence 111 11 123 445667777765 5677899999999999999988887765443
No 135
>TIGR00585 mutl DNA mismatch repair protein MutL. All proteins in this family for which the functions are known are involved in the process of generalized mismatch repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.43 E-value=0.00076 Score=77.01 Aligned_cols=80 Identities=11% Similarity=0.077 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCCCC---------
Q 001215 1001 LRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHSQG--------- 1071 (1122)
Q Consensus 1001 ~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f~~--------- 1071 (1122)
..+.+++.|||.||+++.. . .|.|.+.. .. ...|.|.|||.||+++.++++|++|..
T Consensus 21 ~~~~~~l~eLi~Na~dA~a---~-~I~i~~~~-~~---------~~~i~V~DnG~Gi~~~~l~~~~~~~~tsk~~~~~~~ 86 (312)
T TIGR00585 21 ERPASVVKELVENSLDAGA---T-RIDVEIEE-GG---------LKLIEVSDNGSGIDKEDLPLACERHATSKIQSFEDL 86 (312)
T ss_pred hhHHHHHHHHHHHHHHCCC---C-EEEEEEEe-CC---------EEEEEEEecCCCCCHHHHHHHhhCCCcCCCCChhHh
Confidence 4578999999999999864 3 78877754 22 356999999999999999999999721
Q ss_pred -----CCCccchHHHHHHHHHHcCcEEEEEecC
Q 001215 1072 -----ASREGLGLYISQKLVKLMNGTVQYIREA 1099 (1122)
Q Consensus 1072 -----~~GtGLGL~I~r~ive~~gG~I~v~s~~ 1099 (1122)
.+-.|.||+-...+ +.+.+.|..
T Consensus 87 ~~~~~~G~rG~al~si~~~-----s~~~i~S~~ 114 (312)
T TIGR00585 87 ERIETLGFRGEALASISSV-----SRLTITTKT 114 (312)
T ss_pred hcccccCccchHHHHHHhh-----CcEEEEEee
Confidence 12237777665333 256666653
No 136
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.41 E-value=0.00091 Score=78.46 Aligned_cols=123 Identities=20% Similarity=0.313 Sum_probs=92.8
Q ss_pred HHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCch--hhcCCcccccccCC-chHHHHHHHHHHHcC-C
Q 001215 604 DELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVD--QAIGTALVDLVAGD-SVDVVKNMLSSAFLG-I 679 (1122)
Q Consensus 604 ~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~e--eliG~~~~dl~~~~-~~~~~~~~l~~~l~g-~ 679 (1122)
.|+...-++-.++++++..||+++|..|.|.-+|.++++++|+... +.+|+++.++++|+ +.+. .++. .
T Consensus 208 ~EIa~l~~er~A~l~si~EGviAvd~~G~It~~N~~A~~ll~~~~~~~~~ig~~i~~v~~p~~~l~~-------vl~~~~ 280 (537)
T COG3290 208 EEIATLLEERQAMLQSIKEGVIAVDKKGVITLINQAAQKLLGLRQPSGDPIGRSIVEVLPPDSDLPE-------VLETGK 280 (537)
T ss_pred HHHHHHHHHHHHHHHHhhceEEEECCCCeEeehhHHHHHHhcccCcCcccccccceEeeccccCcHH-------HHhcCC
Confidence 3455556677889999999999999999999999999999998765 68999999999873 2222 2222 2
Q ss_pred cceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhh
Q 001215 680 EERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDY 743 (1122)
Q Consensus 680 ~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l 743 (1122)
.....++.+ +..++.++..|++- +|+++|++.++||=||-++..++|.......
T Consensus 281 ~~~~~e~~~---------ng~~~i~nr~pI~~-~~~~~GaI~tFRdktei~~L~eqLt~vr~ya 334 (537)
T COG3290 281 PQHDEEIRI---------NGRLLVANRVPIRS-GGQIVGAIITFRDKTEIKKLTEQLTGVRQYA 334 (537)
T ss_pred cccchhhhc---------CCeEEEEEeccEEE-CCEEeEEEEEEecHHHHHHHHHHHHHHHHHH
Confidence 222222222 23577788888864 7899999999999999999999987765443
No 137
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=97.37 E-value=0.00077 Score=82.37 Aligned_cols=111 Identities=11% Similarity=0.087 Sum_probs=75.9
Q ss_pred HHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHH
Q 001215 736 YTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIV 815 (1122)
Q Consensus 736 L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~ 815 (1122)
+++.+..++++++++++ ||+++|.+|+|+++|+++.+++|++.++++|+++. ++++ ...
T Consensus 75 ~e~e~~~L~aIL~sm~e---GVi~vD~~G~I~~iN~aA~~Llg~~~eel~Gk~i~-eli~----------~~~------- 133 (520)
T PRK10820 75 SEREHRALSALLEALPE---PVLSIDMKGKVELANPASCQLFGQSEEKLRNHTAA-QLIN----------GFN------- 133 (520)
T ss_pred HHHHHHHHHHHHHhCCC---cEEEECCCCeeeHhHHHHHHHHCcCHHHHCCCcHH-HHcC----------cch-------
Confidence 34455668899999999 99999999999999999999999999999999863 2222 111
Q ss_pred HHHHhcCCCcceeEEEEEccCCCEEEEEEEEeeee--CCCCCE--EEEEEeeecccHHH
Q 001215 816 MNKVISGQDADKILFGFFDQQGKYVEALLSANKRT--NAEGKI--SGILCFLHVASPEL 870 (1122)
Q Consensus 816 l~~~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~--d~~G~i--~gvv~~l~DITerk 870 (1122)
+...+......... .....+|+.+++ ...|+. +.+|.. .|++.+++|+++..
T Consensus 134 l~~~le~~~~~~~~-~~v~~~g~~~~v--~~~PI~~~d~~g~~~~~GaVivlrd~~~l~ 189 (520)
T PRK10820 134 FLRWLESEPQDSHN-EHVVINGQDFLM--EITPVYLQDENDQHVLVGAVVMLRSTARMG 189 (520)
T ss_pred HHHHHHcCCCccce-EEEEECCEEEEE--EEEeeeecCCCCceeEEEEEEEeccHHHHH
Confidence 12223333221111 122345766554 456665 666664 89999999999743
No 138
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=97.36 E-value=0.00059 Score=75.36 Aligned_cols=207 Identities=19% Similarity=0.223 Sum_probs=127.8
Q ss_pred HHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHc---CCcceeEEEEE---
Q 001215 615 RLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFL---GIEERNVEIKL--- 688 (1122)
Q Consensus 615 ~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~---g~~~~~~e~~l--- 688 (1122)
.+++...--|++++++|.|.|+...+.-.+|++.-|+.|..+.+.+|+.|.+.+...+...-. -...+.+-++.
T Consensus 83 hlLqtLDGF~fvva~dGkimYISETaSvhLGLSQVElTGNsi~eYIH~~D~demna~L~~h~H~qeyeIErsfflrmkCv 162 (598)
T KOG3559|consen 83 HLLQTLDGFIFVVAPDGKIMYISETASVHLGLSQVELTGNSIYEYIHPQDHDEMNAVLTAHQHLQEYEIERSFFLRMKCV 162 (598)
T ss_pred hHHHhhcceEEEEeCCCCEEEEecceeeeecceeeEeecchhhhhhcccchHHHHHHHhhhhhhhhhhhhhhhhhhhhhh
Confidence 456667778899999999999999999999999999999999999999998877766543321 00111111111
Q ss_pred ---EEeCCCCCCCeE-----EEEEEEEEecC-CCC---CEEEEEEEEEc-----chhhHHHHHHHHhHhhhhhhhhcCCC
Q 001215 689 ---RAFGPRETSGPV-----ILVVNACCTQD-TKE---NVIGVCFVGQD-----ITGQKLVMDKYTRIQGDYVGIVSSPS 751 (1122)
Q Consensus 689 ---~~~~~~~dG~~~-----~v~v~~~pi~d-~~G---~v~gvv~v~~D-----ITerK~aE~~L~~se~~l~~l~e~~~ 751 (1122)
+..+.+..|... ++.+...++.- .+| +.+|++.++.- ||+.|.- .+
T Consensus 163 lakrnaglt~sg~kvihcSgylKir~y~~~m~p~dscyqn~glvAvG~slP~saiteikl~-----------------sN 225 (598)
T KOG3559|consen 163 LAKRNAGLTCSGYKVIHCSGYLKIRQYELDMSPNDSCYQNVGLVAVGHSLPPSAITEIKLH-----------------SN 225 (598)
T ss_pred heeccccccccCcceEeecCcceEEEEeeccCCccchhheeeeEEecCCCCcccceEEEec-----------------cc
Confidence 111111111110 11222222221 111 34566655332 2222211 11
Q ss_pred CCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEE
Q 001215 752 ALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFG 831 (1122)
Q Consensus 752 ~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~ 831 (1122)
. -+|....|-.+++......+++||.+.+++++.+...+ +.-|...+...-...+..+....--++
T Consensus 226 m---FmfraslDlkliF~D~rv~qltgYepqdliektLY~~i-----------h~~D~~~lr~~H~~ll~kGqvtTkYYR 291 (598)
T KOG3559|consen 226 M---FMFRASLDLKLIFLDSRVHQLTGYEPQDLIEKTLYHHI-----------HGCDSFHLRCAHHLLLVKGQVTTKYYR 291 (598)
T ss_pred e---EEEEeecceEEEeehhhHHHhhCCCchhhhhHHHHHHh-----------hhhhHHHHHHHHHHHHhccccccHHHH
Confidence 1 36777888999999999999999999999999875333 333444444444444444444445568
Q ss_pred EEccCCCEEEEEEEEeeeeCC
Q 001215 832 FFDQQGKYVEALLSANKRTNA 852 (1122)
Q Consensus 832 ~~~~dG~~~~v~~~~~pv~d~ 852 (1122)
+..+.|.++|+.-...-+.+.
T Consensus 292 ~l~k~ggwvwvqsyat~vHnS 312 (598)
T KOG3559|consen 292 FLLKQGGWVWVQSYATFVHNS 312 (598)
T ss_pred HHHcCCceEEEEEeeEEEecc
Confidence 889999999998776655543
No 139
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=97.35 E-value=0.0049 Score=78.10 Aligned_cols=151 Identities=13% Similarity=0.049 Sum_probs=104.8
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHh
Q 001215 202 AKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMK 281 (1122)
Q Consensus 202 ~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~ 281 (1122)
.++...|.+ +.+++++++.+++.+++++|+|+..||-+++++..-+++-+...+-+..-..+||-.. --....+..
T Consensus 6 ~eIs~~L~s--~~dL~e~L~~Iv~~~~~~l~~d~~sI~L~D~~~~~L~~~as~Gl~~~~~~~~~l~~ge--Gi~G~Va~t 81 (748)
T PRK11061 6 REIVEKVAS--APRLNEALDILVTETCLAMDTEVCSVYLADHDRRCYYLMATRGLKKPRGRTVTLAFDE--GIVGLVGRL 81 (748)
T ss_pred HHHHHHHhc--cCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCEEEEEEeeCCChHhccceeccCCc--chHHHHhcc
Confidence 345555656 5599999999999999999999999999999876655554443222222223443211 123455666
Q ss_pred CCeEEeecCCCCcceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEE
Q 001215 282 NKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLV 361 (1122)
Q Consensus 282 ~~~r~i~d~~~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~ 361 (1122)
++.-.|.|+...|--. +...+...++++-|++||+.+ |++=|.|
T Consensus 82 g~pV~V~Dv~~dprf~-----------------------~~~~~~~~~~~S~L~VPL~~~-------------geVIGVL 125 (748)
T PRK11061 82 AEPINLADAQKHPSFK-----------------------YIPSVKEERFRAFLGVPIIYR-------------RQLLGVL 125 (748)
T ss_pred CceEEECCcccCcccc-----------------------cCccccCccceEEEEEEEeeC-------------CEEEEEE
Confidence 6666777755433211 000122468899999999977 9999999
Q ss_pred EeecCCCCCCChhhHHHHHHHHHHHHHHHHH
Q 001215 362 VCHHTSPRFVPFPLRYACEFLIQVFGVQVNK 392 (1122)
Q Consensus 362 ~~h~~~pr~~~~~~r~~~~~l~~~~~~~~~~ 392 (1122)
.+++..|+.++......++.|+...+..|..
T Consensus 126 ~v~~~~~~~Fs~~d~~lL~~LA~~aAiAL~n 156 (748)
T PRK11061 126 VVQQRELRQFDESEESFLVTLATQLAAILSQ 156 (748)
T ss_pred EEeeCCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999998888888888887777643
No 140
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=97.24 E-value=0.0027 Score=72.90 Aligned_cols=237 Identities=14% Similarity=0.093 Sum_probs=149.6
Q ss_pred HHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcc-eeEEEE-----
Q 001215 614 VRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEE-RNVEIK----- 687 (1122)
Q Consensus 614 ~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~-~~~e~~----- 687 (1122)
+.++++..--++++..+|.|-|+....+..+|+-..+++-++++|++|.+|++.+++.+..++.-... ......
T Consensus 114 e~lLqsLnGF~lVvt~eg~ifyAS~tIedYLGFhQSDV~HQsVYdlIHseDR~dfqrQLhwa~~ppq~~~s~q~~~e~~~ 193 (712)
T KOG3560|consen 114 ELLLQSLNGFALVVTAEGEIFYASATIEDYLGFHQSDVMHQSVYDLIHSEDRQDFQRQLHWAMDPPQVVFSQQPPLETGD 193 (712)
T ss_pred HHHHHhcCCeEEEEecCceEEEehhhHHhhhcccccchhhhhHHHHhhhhhHHHHHHHHhhccCCchhhccCCCcccccc
Confidence 45677888888999999999999999999999999999999999999999999999888766532110 000000
Q ss_pred ---EEEeCCCCCC--------CeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHH-------hHhhhhhhhhcC
Q 001215 688 ---LRAFGPRETS--------GPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYT-------RIQGDYVGIVSS 749 (1122)
Q Consensus 688 ---l~~~~~~~dG--------~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~-------~se~~l~~l~e~ 749 (1122)
++.. .-.|+ -++.+.++...+.|..- |++. .|+-.+-..---.. .+.-++..+.=.
T Consensus 194 ~~~~~~~-~~~d~~ppens~yleRcficR~RCLLDnTs---GFLa--mdfqGklk~LhGqkkk~~~g~~lpP~LaLf~ia 267 (712)
T KOG3560|consen 194 DAILRAQ-EWGDGTPPENSAYLERCFICRFRCLLDNTS---GFLA--MDFQGKLKFLHGQKKKAPSGAMLPPRLALFCIA 267 (712)
T ss_pred ccceeee-ccCccCCcccchHHhhhheeeEEEeecCCc---ceee--eecccceeeecCCcccCCCCccCCCceeEEEEe
Confidence 0000 00111 12334444444444332 3322 34432211100000 000000000000
Q ss_pred CCCCCC---------CeEEe--cCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHH
Q 001215 750 PSALIP---------PIFMT--DEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNK 818 (1122)
Q Consensus 750 ~~~li~---------~I~~~--D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~ 818 (1122)
.+-.++ .|+-. -.|+..+.+......++||...|+.|.. .+.+.|-+|.........+
T Consensus 268 tP~~pPS~lEi~~k~~i~rtKhklDfa~vs~Dak~k~~lgy~eaEL~~m~-----------gY~lvH~~D~~y~Aeah~e 336 (712)
T KOG3560|consen 268 TPFLPPSALEIKMKSAILRTKHKLDFALVSMDAKVKATLGYCEAELHGMP-----------GYNLVHVEDKVYMAEAHSE 336 (712)
T ss_pred cCCCCchhhhhhhhhhhhhcccccccceeccchhhhhhhccchhhccCCC-----------ccceeehhhhhhhhHHHHH
Confidence 111111 01111 2355667777888899999999998744 5677888888878888888
Q ss_pred HhcCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccH
Q 001215 819 VISGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASP 868 (1122)
Q Consensus 819 ~l~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITe 868 (1122)
.+..++..-+.++...++|+|.|+-.++.-++ .+|++..+++.-+-.++
T Consensus 337 ~iktgeSGmlvyR~qtk~grw~wvqssarlly-kngkPD~vi~thr~l~D 385 (712)
T KOG3560|consen 337 GIKTGESGMLVYREQTKAGRWAWVQSSARLLY-KNGKPDLVIDTHRGLGD 385 (712)
T ss_pred HhhcCCcceEEEEEeecCCcEEEeeccceeee-ecCCCCEEEecCCCccc
Confidence 99999999999999999999999987776554 67787777777666665
No 141
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=97.22 E-value=0.0011 Score=76.38 Aligned_cols=117 Identities=19% Similarity=0.211 Sum_probs=82.2
Q ss_pred HHHHHHHhcC--cc-EEEecC---CCcEEeccHHHHHHcCCCchhhcCCccc-ccccCCchH-HHHHHHHHHHcCCccee
Q 001215 612 EMVRLIETAA--VP-ILAVDA---SGNVNGWNSKAAELTGLTVDQAIGTALV-DLVAGDSVD-VVKNMLSSAFLGIEERN 683 (1122)
Q Consensus 612 ~l~~lie~a~--~g-I~~~D~---dG~Iv~~N~~~~~l~G~s~eeliG~~~~-dl~~~~~~~-~~~~~l~~~l~g~~~~~ 683 (1122)
.+..++..+. +. +++-+. |.-|+|+|+.|+++.||.+.|++.++.. .|.+.+-.+ .--+.++..+...+...
T Consensus 15 FLENiiRRsn~~dtsFlL~NAQiVD~PiVY~NdgFcKlsGY~RAevMQKs~tc~FMyGEltdk~ti~k~~~t~eN~~~~q 94 (971)
T KOG0501|consen 15 FLENIIRRSNNADTSFLLANAQIVDWPIVYCNDGFCKLSGYHRAEVMQKSCTCSFMYGELTDKGTIEKVRQTLENYETNQ 94 (971)
T ss_pred HHHHHHhhccCCCcceeeccceeeccceEEecCcchhccCccHHHHhcccceeeeeeccccchhhHHHHHHHHHhhhhcc
Confidence 3445554443 43 333333 5889999999999999999999999876 444433211 11223334444333334
Q ss_pred EEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHH
Q 001215 684 VEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLV 732 (1122)
Q Consensus 684 ~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~a 732 (1122)
+|+-+. .++..++|+.+...|++++.+.++-+++.+.|||..|+-
T Consensus 95 fEilly----KKN~TPvW~~vqiAPIrNe~d~VVLfLctFkDIT~~KQP 139 (971)
T KOG0501|consen 95 FEILLY----KKNRTPVWLLVQIAPIRNEKDKVVLFLCTFKDITALKQP 139 (971)
T ss_pred eeeEee----ecCCCceEEEEEeecccCCCceEEEEEeecccchhhcCC
Confidence 454444 678999999999999999999999999999999998873
No 142
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.21 E-value=0.0034 Score=85.31 Aligned_cols=143 Identities=14% Similarity=-0.050 Sum_probs=83.1
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHH
Q 001215 595 SVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSS 674 (1122)
Q Consensus 595 ~~~~~~~~~~eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~ 674 (1122)
.+..++.++.+|+..+++++.+++++|+||+++|.+|+|+++|++++++||++.....+....... +...+.+......
T Consensus 560 ~i~~r~~~~~~l~~~~~~~~~i~~~~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ 638 (1197)
T PRK09959 560 SVRRRKVIQGDLENQISFRKALSDSLPNPTYVVNWQGNVISHNSAFEHYFTADYYKNAMLPLENSD-SPFKDVFSNAHEV 638 (1197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCCCcEEEEcCCCcEEEehHHHHHHhCccccccccccccccc-CchhhhHhHHHHH
Confidence 345567788899999999999999999999999999999999999999999775433222222111 1111111111111
Q ss_pred HHc-CCcceeEEEEEEEeCCCCCCCeEEE-EEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhh
Q 001215 675 AFL-GIEERNVEIKLRAFGPRETSGPVIL-VVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGD 742 (1122)
Q Consensus 675 ~l~-g~~~~~~e~~l~~~~~~~dG~~~~v-~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~ 742 (1122)
... ............ ..+|...++ .....+.....+...+++...+|||++++.+++++.....
T Consensus 639 ~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dite~~~~~~~l~~~~~~ 704 (1197)
T PRK09959 639 TAETKENRTIYTQVFE----IDNGIEKRCINHWHTLCNLPASDHAVYICGWQDITETRDLIHALEVERNK 704 (1197)
T ss_pred HHHHhhccccceeeEe----eecCccceeeeeeeeeeccCCCCceEEEEEEEehhHHHHHHHHHHHHHHH
Confidence 110 111101111111 112322222 1122222233445567888899999999998887665443
No 143
>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=97.20 E-value=0.0011 Score=55.30 Aligned_cols=59 Identities=25% Similarity=0.314 Sum_probs=49.1
Q ss_pred HHhHHHHHHHhhhhHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHHHHHHHHHHhhh-ccc
Q 001215 887 SLNKLEYIRREIRKPLNGIAFMQNLMGTS-DLSEEQKQLLKTSVLCQEQLTNIVDDT-DIE 945 (1122)
Q Consensus 887 k~~fLa~isHELrnPLt~I~g~~~lL~~~-~l~~~~~~~L~~i~~~~~rl~~iI~dL-d~s 945 (1122)
+.++.+.++||+||||++|.++++.+... ...+....+++.+..+..++..+++++ +++
T Consensus 4 ~~~~~~~~~hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 64 (65)
T cd00082 4 KGEFLANVSHELRTPLTAIRGALELLEEELLDDEEQREYLERIREEAERLLRLINDLLDLS 64 (65)
T ss_pred HHHHHHHHhHHhcchHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44577889999999999999988887654 336777889999999999999999996 654
No 144
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=97.16 E-value=0.012 Score=74.27 Aligned_cols=114 Identities=18% Similarity=0.209 Sum_probs=80.3
Q ss_pred HHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCc-ceeE
Q 001215 606 LRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIE-ERNV 684 (1122)
Q Consensus 606 L~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~-~~~~ 684 (1122)
+......+..+++++++||+++|.+|+|+++|+++++++|++.++++|+++.++++... .+..++..+. ....
T Consensus 198 ~~~~~~~~~~il~~~~~gVl~vD~~G~I~~~N~aa~~llg~s~~~l~G~~i~~l~~~~~------~l~~vl~~~~~~~~~ 271 (638)
T PRK11388 198 SNRHLNQLNALLESMDDGVIAWDEQGNLQFLNAQAARLLRLDATASQGRAITELLTLPA------VLQQAIKQAHPLKHV 271 (638)
T ss_pred HHHHHHHHHHHHhccCCcEEEECCCCeEehhhHHHHHHhCcCHHHHCCCcHHHHhccch------HHHHHHhcCCceeeE
Confidence 34444556679999999999999999999999999999999999999999998875321 1222333332 2222
Q ss_pred EEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHH
Q 001215 685 EIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLV 732 (1122)
Q Consensus 685 e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~a 732 (1122)
+..+. .+|..+++.++..|+.+..| .+++.+.+|++..++.
T Consensus 272 ~~~l~-----~~g~~~~~~v~~~Pi~~~~g--~~~v~~l~~~~~~~~~ 312 (638)
T PRK11388 272 EVTFE-----SQGQFIDAVITLKPIIEGQG--TSFILLLHPVEQMRQL 312 (638)
T ss_pred EEEEe-----cCCceEEEEEEEEeecccCc--eEEEEEehhhHHHHHH
Confidence 22222 24666788899999875444 3466777898886553
No 145
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=97.02 E-value=0.0013 Score=75.80 Aligned_cols=100 Identities=19% Similarity=0.222 Sum_probs=81.0
Q ss_pred CCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcc-hHHHHHHHHHHHhcCCCcceeEEEEEccCCCEEE
Q 001215 763 DGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHD-TLTKLRIVMNKVISGQDADKILFGFFDQQGKYVE 841 (1122)
Q Consensus 763 dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d-~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~ 841 (1122)
|.-|+|+|+.|+++.||.+.|++.|+.. |.+.+.+ .-..-...+++.+...+...+|+-+..++...+|
T Consensus 39 D~PiVY~NdgFcKlsGY~RAevMQKs~t----------c~FMyGEltdk~ti~k~~~t~eN~~~~qfEillyKKN~TPvW 108 (971)
T KOG0501|consen 39 DWPIVYCNDGFCKLSGYHRAEVMQKSCT----------CSFMYGELTDKGTIEKVRQTLENYETNQFEILLYKKNRTPVW 108 (971)
T ss_pred ccceEEecCcchhccCccHHHHhcccce----------eeeeeccccchhhHHHHHHHHHhhhhcceeeEeeecCCCceE
Confidence 4569999999999999999999998752 2332222 2222344566677777888899999999999999
Q ss_pred EEEEEeeeeCCCCCEEEEEEeeecccHHHHH
Q 001215 842 ALLSANKRTNAEGKISGILCFLHVASPELQY 872 (1122)
Q Consensus 842 v~~~~~pv~d~~G~i~gvv~~l~DITerkq~ 872 (1122)
+.+...|++++...++-++|.+.|||.-||-
T Consensus 109 ~~vqiAPIrNe~d~VVLfLctFkDIT~~KQP 139 (971)
T KOG0501|consen 109 LLVQIAPIRNEKDKVVLFLCTFKDITALKQP 139 (971)
T ss_pred EEEEeecccCCCceEEEEEeecccchhhcCC
Confidence 9999999999999999999999999987653
No 146
>PF13589 HATPase_c_3: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; PDB: 3IED_A 2XCM_B 2JKI_B 3OPD_A 2O1V_B 2GQP_A 2O1W_C 1YT2_A 1TC6_A 2H8M_B ....
Probab=96.97 E-value=0.0003 Score=70.05 Aligned_cols=91 Identities=19% Similarity=0.312 Sum_probs=60.2
Q ss_pred HHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCC----C------CCC
Q 001215 1004 QQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHS----Q------GAS 1073 (1122)
Q Consensus 1004 ~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f----~------~~~ 1073 (1122)
.++|.+||.||+++.. . .|.|.+...... ...|.|.|||.||+.+.+...|... . ..+
T Consensus 4 ~~al~ElI~Ns~DA~a---~-~I~I~i~~~~~~--------~~~i~I~DnG~Gm~~~~l~~~~~~g~s~k~~~~~~~~~G 71 (137)
T PF13589_consen 4 EDALRELIDNSIDAGA---T-NIKISIDEDKKG--------ERYIVIEDNGEGMSREDLESFFRIGRSSKKSEKDRQSIG 71 (137)
T ss_dssp THHHHHHHHHHHHHHH---H-HEEEEEEEETTT--------TTEEEEEESSS---HHHHHHHTTCHHTHHHHHHHGGGGG
T ss_pred HHHHHHHHHHHHHccC---C-EEEEEEEcCCCC--------CcEEEEEECCcCCCHHHHHHhccccCCCCCchhhhhcCC
Confidence 4789999999999875 2 688887765310 2468899999999999999977653 1 222
Q ss_pred Cccch--HHHHHHHHHHcCcEEEEEecCCceEEEEEEEec
Q 001215 1074 REGLG--LYISQKLVKLMNGTVQYIREAERSSFLILIEFP 1111 (1122)
Q Consensus 1074 GtGLG--L~I~r~ive~~gG~I~v~s~~gg~tF~~~l~LP 1111 (1122)
.-|+| +++. .++.++.+.|...+..+.+++..+
T Consensus 72 ~~G~G~k~A~~-----~~~~~~~v~S~~~~~~~~~~~~~~ 106 (137)
T PF13589_consen 72 RFGIGLKLAIF-----SLGDRVEVISKTNGESFTYTIDYD 106 (137)
T ss_dssp GGTSGCGGGGG-----GTEEEEEEEEESTTSSSEEEEEEE
T ss_pred CcceEHHHHHH-----HhcCEEEEEEEECCCCcEEEEEEe
Confidence 45777 4444 578999998886653224444443
No 147
>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=96.89 E-value=0.0028 Score=50.12 Aligned_cols=64 Identities=23% Similarity=0.387 Sum_probs=55.3
Q ss_pred HHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHH
Q 001215 612 EMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSA 675 (1122)
Q Consensus 612 ~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~ 675 (1122)
+++.+++.++++++.+|.++.+.++|+.+.+++|++..++.|+.+.+++++.+.+.+...+..+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 (67)
T smart00091 2 RLRAILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDREEVQEALQRL 65 (67)
T ss_pred hHHHHHhhCCceEEEEcCCCeEEEECHHHHHHhCCCHHHHcCCcHHHhcCcccHHHHHHHHHHH
Confidence 4567889999999999999999999999999999999999999888888888877666655543
No 148
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=96.86 E-value=0.38 Score=61.27 Aligned_cols=150 Identities=13% Similarity=0.083 Sum_probs=94.8
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHh
Q 001215 202 AKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMK 281 (1122)
Q Consensus 202 ~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~ 281 (1122)
-.+-..+-+. .|++++++.+-..++++..+|||-|.-+|+.. +.+..=....+-+++ .| .....+..
T Consensus 12 ~~is~~~~~~--~~~~~l~~~l~~~~~~~~~ad~~~i~l~d~~~-~~~~~~~~~~~~~~~---~~-------~~~~~~~~ 78 (686)
T PRK15429 12 FDITRTLLQQ--PDLASLCEALSQLVKRSALADNAAIVLWQAQT-QRASYYASREKGTPV---KY-------EDETVLAH 78 (686)
T ss_pred HHHHHHHHcC--CCHHHHHHHHHHHHHhhcccceEEEEEEcCCC-Ceeeeeeccccccch---hc-------cchhhhcc
Confidence 3444445553 49999999999999999999999999999966 555421111111110 00 00112222
Q ss_pred CCeEEeecCCCCcceeecCCCCCCCCcccCccccCCChhHH--HHHHhcCceeEEEEEEEEeCCcccccccccccCceee
Q 001215 282 NKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHA--RYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWG 359 (1122)
Q Consensus 282 ~~~r~i~d~~~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~--~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWG 359 (1122)
+.+..+- .+++|+-+++...+-..|--. .+...| ++-+.|||.+. |+.+|
T Consensus 79 g~~g~vl-------------~~~~~l~~~~~~~~~~~~~l~~~~~~~~~--~~~lgvPl~~~-------------~~v~G 130 (686)
T PRK15429 79 GPVRRIL-------------SRPDTLHCSYEEFCETWPQLAAGGLYPKF--GHYCLMPLAAE-------------GHIFG 130 (686)
T ss_pred CcceEEe-------------ecCceEEEchHHhhhccHHHhhcccccCc--cceEEeceeeC-------------CeeEE
Confidence 2222221 134555444433333222211 122355 44788999998 99999
Q ss_pred EEEeecCCCCCCChhhHHHHHHHHHHHHHHHHH
Q 001215 360 LVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNK 392 (1122)
Q Consensus 360 l~~~h~~~pr~~~~~~r~~~~~l~~~~~~~~~~ 392 (1122)
-|.--.+.+..++.+......+|+++.+..|..
T Consensus 131 ~l~l~~~~~~~Ft~~d~~ll~~la~~a~~aie~ 163 (686)
T PRK15429 131 GCEFIRYDDRPWSEKEFNRLQTFTQIVSVVTEQ 163 (686)
T ss_pred EEEEEEcCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 999877778999999999999999999998854
No 149
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=96.39 E-value=0.008 Score=67.53 Aligned_cols=115 Identities=21% Similarity=0.203 Sum_probs=93.7
Q ss_pred HHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEE
Q 001215 611 NEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRA 690 (1122)
Q Consensus 611 ~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~ 690 (1122)
+++.+++++.|.-|-.+|.++++.+.|+. .++|-.++.. +|+++..--+|-+...+...+..+..|..... ++-+
T Consensus 290 ~e~naif~~lP~Ditfvdk~diV~ffs~~-~rif~rt~sv-iGr~v~~chpPksv~iv~ki~~~fksG~kd~~-efw~-- 364 (409)
T COG2461 290 EELNAIFKHLPVDITFVDKNDIVRFFSGG-ERIFPRTPSV-IGRRVQLCHPPKSVHIVEKILKDFKSGEKDFA-EFWI-- 364 (409)
T ss_pred HHHHHHHhhCCCceEEecccceEEecCCc-ceecccChHh-hCCcccCCCCCchHHHHHHHHHHhhcCCcchH-HHhc--
Confidence 46789999999999999999999999998 8888877765 59999877778888888888888887765432 2222
Q ss_pred eCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHH
Q 001215 691 FGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDK 735 (1122)
Q Consensus 691 ~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~ 735 (1122)
+-....+.++..+++|.+|+..|++-+.||||..|..+-+
T Consensus 365 -----~~~~~~i~i~Y~av~de~ge~~g~le~~qdi~~i~~l~ge 404 (409)
T COG2461 365 -----NMGDKFIHIRYFAVKDEEGEYLGTLEVVQDITRIKELEGE 404 (409)
T ss_pred -----cCCCceEEEEEEEEEcCCCceeeeehhhhhhHHHHhccch
Confidence 2344567788889999999999999999999999887654
No 150
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=96.36 E-value=0.0031 Score=53.58 Aligned_cols=36 Identities=25% Similarity=0.433 Sum_probs=32.0
Q ss_pred hhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCC
Q 001215 741 GDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLK 780 (1122)
Q Consensus 741 ~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~ 780 (1122)
++|+.++++++. ||+++| +++|+++|+++++++||+
T Consensus 1 e~~~~l~~~~~~---~i~i~d-~~~i~~~N~~~~~l~g~~ 36 (64)
T PF13188_consen 1 ERYRSLFDNSPD---GILIID-GGRIIYVNPAFEELFGYS 36 (64)
T ss_dssp HHHHHHHCCSSS---EEEEEE-TSBEEEE-HHHHHHHCS-
T ss_pred CHHHHHHHcCcc---ceEEEE-CCChHHhhHHHHHHhCCC
Confidence 468999999999 899999 889999999999999998
No 151
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=96.18 E-value=0.02 Score=71.47 Aligned_cols=55 Identities=16% Similarity=0.153 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCC
Q 001215 1001 LRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHS 1069 (1122)
Q Consensus 1001 ~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f 1069 (1122)
.++..++.+|+.||+++. +..|.|.+... + ...++|.|||.||+++.+..+|.+.
T Consensus 21 ~~~~svvkElveNsiDAg----at~I~v~i~~~-g---------~~~i~V~DnG~Gi~~~~~~~~~~~~ 75 (617)
T PRK00095 21 ERPASVVKELVENALDAG----ATRIDIEIEEG-G---------LKLIRVRDNGCGISKEDLALALARH 75 (617)
T ss_pred cCHHHHHHHHHHHHHhCC----CCEEEEEEEeC-C---------eEEEEEEEcCCCCCHHHHHHHhhcc
Confidence 456799999999999965 34888887432 2 5689999999999999999998874
No 152
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=96.01 E-value=0.013 Score=72.80 Aligned_cols=75 Identities=16% Similarity=0.269 Sum_probs=55.1
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhh--------hcCCC-
Q 001215 999 DKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHD--------MFYHS- 1069 (1122)
Q Consensus 999 D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~--------iF~~f- 1069 (1122)
+...|..++.++|.||++.........|.|.+...+ .|+|.|||.|||.+.+.. +|...
T Consensus 34 ~~~gl~~lv~EivdNaiDe~~ag~a~~I~V~i~~dg------------~I~V~DnGrGIP~~~~~~~~~~~~E~v~t~lh 101 (631)
T PRK05559 34 DTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADG------------SVSVRDNGRGIPVGIHPEEGKSGVEVILTKLH 101 (631)
T ss_pred CCchhhhhhhhhhccccchhhcCCCCEEEEEEeCCC------------cEEEEEcCCCCCcccccccCCcchheeeeecc
Confidence 467889999999999999764323457888876542 489999999999998877 77551
Q ss_pred -----C-----CCCC-ccchHHHHHHH
Q 001215 1070 -----Q-----GASR-EGLGLYISQKL 1085 (1122)
Q Consensus 1070 -----~-----~~~G-tGLGL~I~r~i 1085 (1122)
. ...| .|.|++.+.-+
T Consensus 102 agsKf~~~~yk~SgGl~GvGls~vNal 128 (631)
T PRK05559 102 AGGKFSNKAYKFSGGLHGVGVSVVNAL 128 (631)
T ss_pred ccCccCCccccccCcccccchhhhhhh
Confidence 1 1123 58999888555
No 153
>PF10090 DUF2328: Uncharacterized protein conserved in bacteria (DUF2328); InterPro: IPR018762 Members of this family of hypothetical bacterial proteins have no known function.
Probab=95.66 E-value=0.64 Score=48.51 Aligned_cols=172 Identities=10% Similarity=0.083 Sum_probs=108.9
Q ss_pred HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhhcccccccccceeeeEEeehHHHHHHHHHHhccccccCCcE
Q 001215 903 NGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDTDIESIEECYMVLKSGEFNLGEALDAVMTQVMIPSREHQVQ 982 (1122)
Q Consensus 903 t~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dLd~srie~g~~~l~~~~~dL~~vi~~v~~~~~~~~~~~~i~ 982 (1122)
.+|..-+++|......++.. .++.|.+++..+..-+. |.|+.-|.... -..++..++-.-+-..+ ....++
T Consensus 2 GAI~NGLELL~~~~~~~~~~-~~~LI~~Sa~~A~aRl~---F~RlAFGaag~-~~~i~~~e~~~~~~~~~----~~~r~~ 72 (182)
T PF10090_consen 2 GAINNGLELLDDEGDPEMRP-AMELIRESARNASARLR---FFRLAFGAAGS-GQQIDLGEARSVLRGYF----AGGRIT 72 (182)
T ss_pred cchhhhHHHHcCCCCccchH-HHHHHHHHHHHHHHHHH---HHHHHcCCCCC-CCCCCHHHHHHHHHHHH----hCCceE
Confidence 35677788887766533333 77778777766665554 44554444322 45677766443333333 344578
Q ss_pred EEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCC--CChh
Q 001215 983 FIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPG--IPEK 1060 (1122)
Q Consensus 983 l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~G--I~~e 1060 (1122)
+.+..+.+.. +...-+++.|++.-+..+.| .||.|+|.+....+ ...++|+=+|.- ++++
T Consensus 73 l~W~~~~~~~-------~k~~vklllnl~l~a~~alp--rGG~i~V~~~~~~~---------~~~~~v~a~G~~~~~~~~ 134 (182)
T PF10090_consen 73 LDWQVERDLL-------PKPEVKLLLNLLLCAEDALP--RGGEITVSIEGSEG---------DGGWRVRAEGPRARLDPD 134 (182)
T ss_pred EEccCccccC-------CHHHHHHHHHHHHHHHhhcC--CCCEEEEEEeccCC---------CceEEEEEeccccCCCHH
Confidence 8888777621 22344889999999999999 68899998766555 334555555654 4555
Q ss_pred hhhhhcCCC--CCCCCccchHHHHHHHHHHcCcEEEEEecCCc
Q 001215 1061 LIHDMFYHS--QGASREGLGLYISQKLVKLMNGTVQYIREAER 1101 (1122)
Q Consensus 1061 ~~~~iF~~f--~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg 1101 (1122)
...-+=..- ........=-+....+++..|++|.++..++.
T Consensus 135 ~~~~L~g~~~~~~l~~~~VQ~~~~~~la~~~G~~l~~~~~~~~ 177 (182)
T PF10090_consen 135 LWAALAGEDPEEDLDPRNVQFYLLPLLAREAGRRLSVEATEDA 177 (182)
T ss_pred HHHHhcCCCCCCCCCHHhHHHHHHHHHHHHcCCeEEEEecCCE
Confidence 444332221 23344556678889999999999999875554
No 154
>PF08670 MEKHLA: MEKHLA domain; InterPro: IPR013978 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=95.65 E-value=0.15 Score=50.89 Aligned_cols=110 Identities=15% Similarity=0.032 Sum_probs=83.8
Q ss_pred HHHHHHHHhcCccEEEecC--CCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeE-EEE
Q 001215 611 NEMVRLIETAAVPILAVDA--SGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNV-EIK 687 (1122)
Q Consensus 611 ~~l~~lie~a~~gI~~~D~--dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~-e~~ 687 (1122)
..++.+++ +|.+|+..|. |-.++|.|.++.++|+++-+++++.+..--..+..++.....+.++.+.+-.... .++
T Consensus 32 ~~~~~L~~-ap~ailsh~~~~dP~f~yaN~aaL~l~e~~w~el~~lPsr~sae~~~r~er~~lL~~v~~qG~~~~y~GiR 110 (148)
T PF08670_consen 32 ELAKALWH-APFAILSHGTKADPIFIYANQAALDLFETTWDELVGLPSRLSAEEPERKERQSLLAQVMQQGYIDNYSGIR 110 (148)
T ss_pred HHHHHHHc-CCCEEEEcCCCCCCEEEehhHHHHHHhcCCHHHHhcCcHhhccChhhHHHHHHHHHHHHHhCCccCCCeEE
Confidence 34455666 9999999875 5799999999999999999999999988667777888888888888876643222 222
Q ss_pred EEEeCCCCCCCeEEEE-EEEEEecCCCCCEEEEEEEEEcc
Q 001215 688 LRAFGPRETSGPVILV-VNACCTQDTKENVIGVCFVGQDI 726 (1122)
Q Consensus 688 l~~~~~~~dG~~~~v~-v~~~pi~d~~G~v~gvv~v~~DI 726 (1122)
+ .+.|+.+++. ..+-.+.|++|+..|..+++.+-
T Consensus 111 i-----ss~Grrf~ie~a~vW~l~D~~g~~~GqAa~F~~W 145 (148)
T PF08670_consen 111 I-----SSTGRRFRIERATVWNLIDEDGNYCGQAAMFSNW 145 (148)
T ss_pred E-----cCCCCeEEEeceEEEEEEcCCCCEEEEEEEEeee
Confidence 2 4567777764 44556789999999998887663
No 155
>COG5385 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=95.61 E-value=0.93 Score=45.11 Aligned_cols=188 Identities=15% Similarity=0.172 Sum_probs=113.2
Q ss_pred HHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhhcccccccccceeeeEEeehHHHHHHHHHH
Q 001215 892 EYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDTDIESIEECYMVLKSGEFNLGEALDAVMTQ 971 (1122)
Q Consensus 892 a~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dLd~srie~g~~~l~~~~~dL~~vi~~v~~~ 971 (1122)
+.+.|+|-.|..+|..-++||++...+++....+..+.. .+.. .|.|.|+.-|..--.-..+|-++.=......
T Consensus 20 sRvCHDiISPvgAInnGLeLLdeg~addDAm~LIrsSAr---nas~---rLqFaR~AFGAsgSag~~iDtgeaek~A~~~ 93 (214)
T COG5385 20 SRVCHDIISPVGAINNGLELLDEGGADDDAMDLIRSSAR---NASV---RLQFARLAFGASGSAGASIDTGEAEKAAQDF 93 (214)
T ss_pred HHHHhhccCcHHHhhchhhhhccCCccHHHHHHHHHHhh---hHHH---HHHHHHHHhcccccccccccchhHHHHHHHH
Confidence 578999999999999999999998877666665554433 3332 2456666555443333556666544444443
Q ss_pred hccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEE
Q 001215 972 VMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRIT 1051 (1122)
Q Consensus 972 ~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~ 1051 (1122)
+... .-++.++.+..+. .+.+. ..+.||+.-|--+.| .||.+.+++..... .-+|+|.
T Consensus 94 ~a~e----kpe~~W~g~r~~~------~Kn~v-kllLNl~lia~~aiP--rGG~~~vtle~~e~---------d~rfsi~ 151 (214)
T COG5385 94 FANE----KPELTWNGPRAIL------PKNRV-KLLLNLFLIAYGAIP--RGGSLVVTLENPET---------DARFSII 151 (214)
T ss_pred Hhcc----CCcccccCChhhc------CcchH-HHHHHHHHHHcccCC--CCCeeEEEeecCCc---------CceEEEE
Confidence 3322 2456666665432 22333 456788888877788 57788888765444 2345554
Q ss_pred cCCC--CCChhhhhhhcCC-C-CCCCCccchHHHHHHHHHHcCcEEEEEecCCceEEEEE
Q 001215 1052 HPAP--GIPEKLIHDMFYH-S-QGASREGLGLYISQKLVKLMNGTVQYIREAERSSFLIL 1107 (1122)
Q Consensus 1052 D~G~--GI~~e~~~~iF~~-f-~~~~GtGLGL~I~r~ive~~gG~I~v~s~~gg~tF~~~ 1107 (1122)
-.|+ -+||+.++-.-.. - ....+...-=|-.--+++.-|++|.+....+.-.|+-.
T Consensus 152 akG~m~Rvppk~lel~~G~~~eE~vdahsVQpyYt~lLa~eAgm~I~v~~~~e~iv~~A~ 211 (214)
T COG5385 152 AKGRMMRVPPKFLELHSGEPPEEAVDAHSVQPYYTLLLAEEAGMTISVHATAERIVFTAW 211 (214)
T ss_pred ecCccccCCHHHHhhhcCCCccccCCCccccHHHHHHHHHHcCCeEEEEeccceEEEEEe
Confidence 4455 3466654432211 0 11223333445556678999999999988777665543
No 156
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=95.33 E-value=0.023 Score=67.87 Aligned_cols=98 Identities=13% Similarity=0.118 Sum_probs=76.2
Q ss_pred ecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCCCCCCCeEEEEEEE
Q 001215 627 VDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGPRETSGPVILVVNA 706 (1122)
Q Consensus 627 ~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v~v~~ 706 (1122)
...|.+|.||.+++.+++||++++++|+++++|+|..|.+.+.+-....+..|....-.+++ ..+.|+.+|+...+
T Consensus 280 hs~DmkityCedRisdlm~y~PeeLvGrS~Ye~~Ha~Ds~~v~KSh~dL~~KGQv~TgyYR~----lak~GGyvWlQTqA 355 (768)
T KOG3558|consen 280 HSLDMKITYCEDRISDLMDYEPEELVGRSCYEFVHALDSDRVRKSHHDLLTKGQVVTGYYRL----LAKNGGYVWLQTQA 355 (768)
T ss_pred eecceeEEEEchhHHHHhcCCHHHhhchhHHHhhhHhhhhHHHHHHHHHHhcCccchhHHHH----HHhcCCeEEEEeee
Confidence 56689999999999999999999999999999999999999999999988766543323333 35789999999999
Q ss_pred EEecCCCC-CEEEEEEEEEcchh
Q 001215 707 CCTQDTKE-NVIGVCFVGQDITG 728 (1122)
Q Consensus 707 ~pi~d~~G-~v~gvv~v~~DITe 728 (1122)
..+.+..+ +.-.+++|-.=|+.
T Consensus 356 TVi~~tkn~q~q~IicVnYVlS~ 378 (768)
T KOG3558|consen 356 TVIYNTKNPQEQNIICVNYVLSN 378 (768)
T ss_pred EEEecCCCCCcceEEEEEeeecc
Confidence 88875433 33345554433333
No 157
>TIGR02373 photo_yellow photoactive yellow protein. 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 TIGR02372 is required for its biosynthesis. The modified Cys is in a PAS (pfam00989) domain, frequently found in signal transducing proteins. Members are known in alpha and gamma Proteobacteria that include Rhodobacter capsulatus, Halorhodospira halophila, Rhodospirillum centenum, etc.
Probab=95.32 E-value=0.079 Score=50.68 Aligned_cols=45 Identities=27% Similarity=0.312 Sum_probs=40.0
Q ss_pred CCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccc
Q 001215 751 SALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFT 795 (1122)
Q Consensus 751 ~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~ 795 (1122)
..++-|++-+|.+|.|+..|.+-.++.|++++.++|++++.++.|
T Consensus 23 D~lpFGvI~lD~~G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAP 67 (124)
T TIGR02373 23 DALPFGAIQLDGSGVILRYNAAEGRITGRDPERVIGRNFFKEVAP 67 (124)
T ss_pred hcCCcceEEECCCCEEEEEecchhhhcCCChhhhhchhhhhhccc
Confidence 334449999999999999999999999999999999998877765
No 158
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=95.28 E-value=0.013 Score=65.74 Aligned_cols=97 Identities=16% Similarity=0.123 Sum_probs=80.0
Q ss_pred CeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEEEEcc
Q 001215 756 PIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFGFFDQ 835 (1122)
Q Consensus 756 ~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~ 835 (1122)
+|-+.|.+..|.|+|++|+.++|+.+.|++|+...+. -+....+..+...++..+..+..+..+..-+++
T Consensus 169 AiEI~~ddhViQYVNpAfE~mmG~hkgEliGke~adl----------pkkdknradlldtintcikkgke~qG~~~aRRk 238 (775)
T KOG1229|consen 169 AIEICDDDHVIQYVNPAFENMMGCHKGELIGKEEADL----------PKKDKNRADLLDTINTCIKKGKEAQGEEEARRK 238 (775)
T ss_pred hheeccchhHHHHhcHHHHhhhcchhhhhcCCchhhc----------cccccchhhhhhhhhHhhhcCccccchHHHhhc
Confidence 7889999999999999999999999999999975211 111334556778888899888888888888999
Q ss_pred CCCEEEEEEEEeeeeCCCCCEEEEEEe
Q 001215 836 QGKYVEALLSANKRTNAEGKISGILCF 862 (1122)
Q Consensus 836 dG~~~~v~~~~~pv~d~~G~i~gvv~~ 862 (1122)
.|......+...|+....|++..++..
T Consensus 239 sgdS~dqh~~itP~~gqggkirhfvsl 265 (775)
T KOG1229|consen 239 SGDSCDQHFIITPFAGQGGKIRHFVSL 265 (775)
T ss_pred cCCcccceEEEeeecCCCCceeeehhh
Confidence 999888888999999999998876653
No 159
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase. Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes.
Probab=95.00 E-value=0.69 Score=58.97 Aligned_cols=152 Identities=11% Similarity=0.016 Sum_probs=89.7
Q ss_pred HHHHHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHH
Q 001215 201 AAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIM 280 (1122)
Q Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~ 280 (1122)
..++.++|.+ ..+.+++++.+++.+.+++++++..+|-.+++ .+....... .+++. .+...|. +.|- .+.+-.
T Consensus 307 ~l~~~~~L~~--~~~~~~l~~~~~~~l~~~l~~~~g~l~l~~~~-~~~~~~~~~-~~~~~-~~~~~~~-~~~~-~~~~~~ 379 (679)
T TIGR02916 307 WLRFTQTLSE--ARSSDDLGERVIRALAQLVESPGGVLWLKSGN-DGLYRPAAR-WNQPL-AQAFEPS-DSAF-CQFLQE 379 (679)
T ss_pred HHHHHHHHhC--CCCCccHHHHHHHHHHHHhCCCCceEEEEcCC-CCEEeeehh-cCCCC-cccCCCC-CCHH-HHHHHh
Confidence 3567777877 45899999999999999999999999965543 354444332 11211 1112221 1121 122333
Q ss_pred hCCeEEeecCCCCcceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeE
Q 001215 281 KNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGL 360 (1122)
Q Consensus 281 ~~~~r~i~d~~~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl 360 (1122)
.+++--+.+.. ..|.. . ++.+..+..+..-++.+++||..+ +++.|.
T Consensus 380 ~~~v~~~~~~~--~~~~~---~---------------~~~~~~~~~~~~~~~~l~vPL~~~-------------~~~~G~ 426 (679)
T TIGR02916 380 SGWIINLEEAR--SEPDH---Y---------------SGLVLPEWLREIPNAWLIVPLISG-------------EELVGF 426 (679)
T ss_pred CCCcccchhhc--CCccc---c---------------cccccchhhhcCCCceEEEEeccC-------------CEEEEE
Confidence 34331111111 11110 0 000111122223356899999988 999999
Q ss_pred EEeecC-CCCCCChhhHHHHHHHHHHHHHHHHH
Q 001215 361 VVCHHT-SPRFVPFPLRYACEFLIQVFGVQVNK 392 (1122)
Q Consensus 361 ~~~h~~-~pr~~~~~~r~~~~~l~~~~~~~~~~ 392 (1122)
+++-+. .++.++.+.+...+.++...+..+..
T Consensus 427 l~l~~~~~~~~~~~e~~~lL~~l~~q~a~~l~~ 459 (679)
T TIGR02916 427 VVLARPRTAGEFNWEVRDLLKTAGRQAASYLAQ 459 (679)
T ss_pred EEEecCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 987665 56678888999999998888887754
No 160
>TIGR02373 photo_yellow photoactive yellow protein. 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 TIGR02372 is required for its biosynthesis. The modified Cys is in a PAS (pfam00989) domain, frequently found in signal transducing proteins. Members are known in alpha and gamma Proteobacteria that include Rhodobacter capsulatus, Halorhodospira halophila, Rhodospirillum centenum, etc.
Probab=94.92 E-value=0.18 Score=48.26 Aligned_cols=73 Identities=12% Similarity=0.255 Sum_probs=56.1
Q ss_pred HHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCccc-ccccCCchHHHHHHHHHHHc-CCcceeEEEEE
Q 001215 616 LIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALV-DLVAGDSVDVVKNMLSSAFL-GIEERNVEIKL 688 (1122)
Q Consensus 616 lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~-dl~~~~~~~~~~~~l~~~l~-g~~~~~~e~~l 688 (1122)
-+|..|-|++-+|.+|+|+..|.+-.++.|++++.++|++++ ++.+-...+.+...+....+ |.-...+.+.+
T Consensus 21 elD~lpFGvI~lD~~G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAPC~~~~~f~gRF~~g~~~g~Ld~~f~yvf 95 (124)
T TIGR02373 21 QFDALPFGAIQLDGSGVILRYNAAEGRITGRDPERVIGRNFFKEVAPCTDIPEFSGRFMEGVASGTLNAMFDYVF 95 (124)
T ss_pred HhhcCCcceEEECCCCEEEEEecchhhhcCCChhhhhchhhhhhcccccCCHHHHHHHHhhhhcCCCceEEEEEE
Confidence 378999999999999999999999999999999999999998 66665666656665555443 33333333333
No 161
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=94.78 E-value=0.11 Score=58.06 Aligned_cols=56 Identities=29% Similarity=0.380 Sum_probs=51.1
Q ss_pred HHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchH
Q 001215 611 NEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVD 666 (1122)
Q Consensus 611 ~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~ 666 (1122)
-.+.+++++.|++++.+|..|.+..+|++++++||.+.+++.|.++..++...+.+
T Consensus 80 l~L~aLL~al~~pVlsvd~kg~v~~aNpAa~~l~~~~~~~~~g~~~~~l~~~~nf~ 135 (511)
T COG3283 80 LALSALLEALPEPVLSVDMKGKVDMANPAACQLFGRKEDRLRGHTAAQLINGFNFL 135 (511)
T ss_pred HHHHHHHHhCCCceEEecccCceeecCHHHHHHhCCChhhhcCccHHHhcCcCCHH
Confidence 35678999999999999999999999999999999999999999999888876644
No 162
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=94.76 E-value=0.067 Score=60.37 Aligned_cols=113 Identities=13% Similarity=0.141 Sum_probs=83.6
Q ss_pred hhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHh
Q 001215 741 GDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVI 820 (1122)
Q Consensus 741 ~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l 820 (1122)
+.+.++++..|. -|-..|.++++.+.|+. .++|-+++. ++|+.+ ..+||.........+...+
T Consensus 290 ~e~naif~~lP~---Ditfvdk~diV~ffs~~-~rif~rt~s-viGr~v------------~~chpPksv~iv~ki~~~f 352 (409)
T COG2461 290 EELNAIFKHLPV---DITFVDKNDIVRFFSGG-ERIFPRTPS-VIGRRV------------QLCHPPKSVHIVEKILKDF 352 (409)
T ss_pred HHHHHHHhhCCC---ceEEecccceEEecCCc-ceecccChH-hhCCcc------------cCCCCCchHHHHHHHHHHh
Confidence 557889998884 37788999999999999 888888874 567764 3345555555555555666
Q ss_pred cCCCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHH
Q 001215 821 SGQDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYA 873 (1122)
Q Consensus 821 ~g~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e 873 (1122)
..+.....+|+ .+..+++++ ++..++.|.+|+..|++-+++|||+-+..+
T Consensus 353 ksG~kd~~efw-~~~~~~~i~--i~Y~av~de~ge~~g~le~~qdi~~i~~l~ 402 (409)
T COG2461 353 KSGEKDFAEFW-INMGDKFIH--IRYFAVKDEEGEYLGTLEVVQDITRIKELE 402 (409)
T ss_pred hcCCcchHHHh-ccCCCceEE--EEEEEEEcCCCceeeeehhhhhhHHHHhcc
Confidence 66666667777 444555544 467778999999999999999999876554
No 163
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=94.61 E-value=0.12 Score=63.01 Aligned_cols=197 Identities=16% Similarity=0.142 Sum_probs=117.5
Q ss_pred cEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHc-------CC--------cceeEEEE
Q 001215 623 PILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFL-------GI--------EERNVEIK 687 (1122)
Q Consensus 623 gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~-------g~--------~~~~~e~~ 687 (1122)
.+++-+.+|+|+|+...+.-++|+.++-+.|.++.|++++.|...+...+....- +. ..+.+..+
T Consensus 194 ~~~vS~~dG~iLyis~q~a~ilg~krDv~s~a~FvdflapqD~~vF~sfta~~~lp~ws~~s~~ds~~~~c~~~ks~fcR 273 (1114)
T KOG3753|consen 194 VVAVSFLDGRILYISEQAALILGCKRDVLSSAKFVDFLAPQDVGVFYSFTARYKLPLWSMGSSADSFTQECAEEKSFFCR 273 (1114)
T ss_pred EEEEeccCCcEEEeechhhhhccCchhhhccchhhhhcchhhhhhhhhccccccCccccccccccchhhhhhhhcceeee
Confidence 5666778999999999999999999999999999999999998776654433210 00 01111111
Q ss_pred EEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHH------HhHhhhhhhhhcCCCCCCCCeEEec
Q 001215 688 LRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKY------TRIQGDYVGIVSSPSALIPPIFMTD 761 (1122)
Q Consensus 688 l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L------~~se~~l~~l~e~~~~li~~I~~~D 761 (1122)
+.... ......+ ..+..++-.+..+-++..++.+. .++..-|++= +-.+.. -||.+-
T Consensus 274 isgr~-~~~~~~~-------------y~PFRl~pyl~ev~~~~~~~s~~ccLllaerihSgYeAP-rIps~K--riFtT~ 336 (1114)
T KOG3753|consen 274 ISGRK-DRENEIR-------------YHPFRLTPYLVEVRDQQGAESQPCCLLLAERIHSGYEAP-RIPSNK--RIFTTT 336 (1114)
T ss_pred eeccc-CCcCccc-------------cCcccccceeEEeccccccCcCcceeehhhhhhcccccC-cCCccc--ceeEec
Confidence 11110 0000000 11112222222222222222221 1223333322 111111 255543
Q ss_pred --CCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcC-CCc--ceeEEEEEccC
Q 001215 762 --EDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISG-QDA--DKILFGFFDQQ 836 (1122)
Q Consensus 762 --~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g-~~~--~~~e~~~~~~d 836 (1122)
..+-+..+..++..++||-+.++||+.++ .+.|++|+.-+.+....++.. +.+ ..-.++|...+
T Consensus 337 HTptClf~hVDeaAVp~LGyLPqDLIG~sil-----------~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~aqN 405 (1114)
T KOG3753|consen 337 HTPTCLFQHVDEAAVPLLGYLPQDLIGTSIL-----------AFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFCAQN 405 (1114)
T ss_pred cCCcceeeecchhhhhhhccCchhhhccchh-----------hhhcCCchHHHHHHHHHHHHhCCCCcccccceeeeecC
Confidence 45667888999999999999999999864 556678877677766666653 333 45678999999
Q ss_pred CCEEEEEEEEe
Q 001215 837 GKYVEALLSAN 847 (1122)
Q Consensus 837 G~~~~v~~~~~ 847 (1122)
|.|+.+....+
T Consensus 406 G~yv~ldTeWS 416 (1114)
T KOG3753|consen 406 GSYVRLDTEWS 416 (1114)
T ss_pred CcEEEEechhh
Confidence 99988876544
No 164
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=94.52 E-value=0.28 Score=53.91 Aligned_cols=112 Identities=16% Similarity=0.121 Sum_probs=81.2
Q ss_pred HHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCC-cceeEEEEEEEeC
Q 001215 614 VRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGI-EERNVEIKLRAFG 692 (1122)
Q Consensus 614 ~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~-~~~~~e~~l~~~~ 692 (1122)
..++++.+.+++++|.+|.|.|+|++++.+||.+...+.|.++.++++..+.- ...+..+...+ ....++..+.
T Consensus 10 ~~~Ln~~~~pVl~vd~~~~i~yaN~aAe~~~~~Sa~~L~~~~l~~l~~~gs~l--l~ll~q~~~~~~~~~~~~v~l~--- 84 (363)
T COG3852 10 GAILNNLINPVLLVDDELAIHYANPAAEQLLAVSARRLAGTRLSELLPFGSLL--LSLLDQVLERGQPVTEYEVTLV--- 84 (363)
T ss_pred HhHHhccCCceEEEcCCCcEEecCHHHHHHHHHHHHHHhcCChHHHcCCCcHH--HHHHHHHHHhcCCcccceeeee---
Confidence 36889999999999999999999999999999999999999999998866532 33444444333 2223333333
Q ss_pred CCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHH
Q 001215 693 PRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDK 735 (1122)
Q Consensus 693 ~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~ 735 (1122)
.+|....+.....|+-...|- ++..++-+....+...+
T Consensus 85 --~~g~~~~v~~~v~~v~~~~G~---vlle~~~~~~~~ridre 122 (363)
T COG3852 85 --ILGRSHIVDLTVAPVPEEPGS---VLLEFHPRDMQRRLDRE 122 (363)
T ss_pred --ecCccceEEEEEeeccCCCCe---EEEEechhHHHhHhhHH
Confidence 368999999999999775554 45555655555544443
No 165
>TIGR01059 gyrB DNA gyrase, B subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB.
Probab=94.21 E-value=0.13 Score=64.69 Aligned_cols=77 Identities=13% Similarity=0.200 Sum_probs=51.1
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhh--------hcCC--
Q 001215 999 DKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHD--------MFYH-- 1068 (1122)
Q Consensus 999 D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~--------iF~~-- 1068 (1122)
++.-|.+++.+||.||++-........|.|.+... + .|+|.|||.|||.+.... +|..
T Consensus 27 ~~~gl~~vv~Elv~NaiDe~~ag~a~~I~V~i~~~-g-----------~I~V~DnG~GIp~~~h~~~ki~~~e~i~~~l~ 94 (654)
T TIGR01059 27 GETGLHHLVYEVVDNSIDEAMAGYCDTINVTINDD-G-----------SVTVEDNGRGIPVDIHPEEGISAVEVVLTVLH 94 (654)
T ss_pred CcchHHhhhHHhhhccccccccCCCCEEEEEEeCC-C-----------cEEEEEeCCCcCccccCcCCCCchHHheeeec
Confidence 35678999999999999844321145888887642 2 299999999999875332 3332
Q ss_pred ----CC-----CCCC-ccchHHHHHHHHH
Q 001215 1069 ----SQ-----GASR-EGLGLYISQKLVK 1087 (1122)
Q Consensus 1069 ----f~-----~~~G-tGLGL~I~r~ive 1087 (1122)
|. ...| -|.||+.+..+-+
T Consensus 95 ag~kf~~~~~k~s~G~~G~gl~~inalS~ 123 (654)
T TIGR01059 95 AGGKFDKDSYKVSGGLHGVGVSVVNALSE 123 (654)
T ss_pred ccCccCCCcceecCCccchhHHHHHHhcC
Confidence 10 1223 5899988865544
No 166
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=94.08 E-value=0.13 Score=64.16 Aligned_cols=77 Identities=14% Similarity=0.196 Sum_probs=51.8
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhh--------hcCCC-
Q 001215 999 DKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHD--------MFYHS- 1069 (1122)
Q Consensus 999 D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~--------iF~~f- 1069 (1122)
+..-|..++.+||.||++-........|.|.+...+ .|+|.|||.|||.+.... +|...
T Consensus 34 ~~~gl~~~v~ElvdNaiDe~~ag~a~~I~V~i~~~g------------~I~V~DnG~GIp~~~h~~~ki~~~e~i~~~lh 101 (638)
T PRK05644 34 GERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDG------------SITVTDNGRGIPVDIHPKTGKPAVEVVLTVLH 101 (638)
T ss_pred ChhhHHhhhHHhhhcccccccCCCCCEEEEEEeCCC------------cEEEEEeCccccCCccCCCCCCchHHheeeec
Confidence 456789999999999998443211458888876532 499999999999975442 44321
Q ss_pred ---------CC-CCC-ccchHHHHHHHHH
Q 001215 1070 ---------QG-ASR-EGLGLYISQKLVK 1087 (1122)
Q Consensus 1070 ---------~~-~~G-tGLGL~I~r~ive 1087 (1122)
.+ ..| .|.||+.+..+-+
T Consensus 102 ag~kfd~~~yk~s~G~~G~Gls~vnalS~ 130 (638)
T PRK05644 102 AGGKFGGGGYKVSGGLHGVGVSVVNALST 130 (638)
T ss_pred ccCccCCCcccccCCccccchhhhhheec
Confidence 11 122 5899988865544
No 167
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=93.98 E-value=0.66 Score=61.12 Aligned_cols=118 Identities=8% Similarity=0.012 Sum_probs=73.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCccEEEec-CCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcC
Q 001215 600 IEKIDELRIITNEMVRLIETAAVPILAVD-ASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLG 678 (1122)
Q Consensus 600 ~~~~~eL~~~e~~l~~lie~a~~gI~~~D-~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g 678 (1122)
.+...+|++.++.++.+++++|+|+++++ .+|+++.+|+.+..++|+...+. ...+. .....
T Consensus 323 ~~~~~~L~e~e~~~r~iv~~~p~gi~i~~~~~g~~~~~N~~a~~~~~l~~~~~-------------~~~~~----~~~~~ 385 (924)
T PRK10841 323 ESNALRLEEHEQFNRKIVASAPVGICILRTSDGTNILSNELAHNYLNMLTHED-------------RQRLT----QIICG 385 (924)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCccEEEEEcCCCcEEEehHHHHHHhccCChhH-------------HHHHH----HHHhc
Confidence 34556788889999999999999999997 68999999999999998644321 11111 11111
Q ss_pred CcceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhh
Q 001215 679 IEERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYV 744 (1122)
Q Consensus 679 ~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~ 744 (1122)
..... .... ..++....+.......+ +. ...++++.|||+++++|+++++..+..+
T Consensus 386 ~~~~~--~~~~----~~~~~~~~i~~~~~~~~---~~-~~~i~~~~Dit~r~~~e~~L~~~~~~~e 441 (924)
T PRK10841 386 QQVNF--VDVL----TSNNTNLQISFVHSRYR---NE-NVAICVLVDVSARVKMEESLQEMAQAAE 441 (924)
T ss_pred cccce--eeEE----cCCCcEEEEEEEeeeec---Cc-eEEEEEEEEhhHHHHHHHHHHHHHHHHH
Confidence 11111 1111 12333333333322222 22 2467888999999999999877665544
No 168
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=93.96 E-value=0.092 Score=65.25 Aligned_cols=77 Identities=16% Similarity=0.224 Sum_probs=52.7
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhh--------hhhhc-CC-
Q 001215 999 DKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKL--------IHDMF-YH- 1068 (1122)
Q Consensus 999 D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~--------~~~iF-~~- 1068 (1122)
...+...++.+||.||++-.-......|.|.+... + .++|.|||.|||.+. ++-+| ..
T Consensus 27 gs~~~~~lv~ElvdNsiDE~~ag~a~~I~V~i~~d-~-----------~I~V~DnGrGIp~~~h~~~g~~~~e~v~t~lh 94 (625)
T TIGR01055 27 DTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQD-Q-----------SIEVFDNGRGMPVDIHPKEGVSAVEVILTTLH 94 (625)
T ss_pred CCCCcceeehhhhhcccchhhcCCCCEEEEEEeCC-C-----------eEEEEecCCccCcccccccCCcHHHHhhhccc
Confidence 44456789999999999822211244888887654 2 389999999999987 66677 22
Q ss_pred ----C-----CCCCC-ccchHHHHHHHHH
Q 001215 1069 ----S-----QGASR-EGLGLYISQKLVK 1087 (1122)
Q Consensus 1069 ----f-----~~~~G-tGLGL~I~r~ive 1087 (1122)
| ....| .|.||+.+..+-+
T Consensus 95 agsK~~~~~~~~SgG~~GvGls~vnalS~ 123 (625)
T TIGR01055 95 AGGKFSNKNYHFSGGLHGVGISVVNALSK 123 (625)
T ss_pred ccCCCCCCcceecCCCcchhHHHHHHhcC
Confidence 1 11123 5999998876655
No 169
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=93.77 E-value=0.061 Score=66.64 Aligned_cols=49 Identities=16% Similarity=0.196 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhh
Q 001215 1003 LQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIH 1063 (1122)
Q Consensus 1003 L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~ 1063 (1122)
|.+++.+||.||++..-......|.|.+...+ .|+|.|||.|||.+...
T Consensus 2 L~~~v~ElvdNAiD~~~~g~at~I~V~i~~~g------------~I~V~DnG~GIp~~~h~ 50 (594)
T smart00433 2 LHHLVDEIVDNAADEALAGYMDTIKVTIDKDN------------SISVEDNGRGIPVEIHP 50 (594)
T ss_pred ceEEEeeehhcccchhccCCCCEEEEEEeCCC------------eEEEEEeCCceeCCccC
Confidence 34677899999999864323457888876532 48999999999986643
No 170
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=93.58 E-value=0.064 Score=60.41 Aligned_cols=112 Identities=11% Similarity=0.038 Sum_probs=81.3
Q ss_pred HHHHHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCC-chHHHHHHHHHHHcCCccee
Q 001215 605 ELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGD-SVDVVKNMLSSAFLGIEERN 683 (1122)
Q Consensus 605 eL~~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~-~~~~~~~~l~~~l~g~~~~~ 683 (1122)
.+++.... -..++....+|-+.|.+..|.|+|+++++++|+-..|++|+...++-..+ .+..+...+..+++.+.
T Consensus 152 kiRAcnal-FaaLD~c~eAiEI~~ddhViQYVNpAfE~mmG~hkgEliGke~adlpkkdknradlldtintcikkgk--- 227 (775)
T KOG1229|consen 152 KIRACNAL-FAALDECDEAIEICDDDHVIQYVNPAFENMMGCHKGELIGKEEADLPKKDKNRADLLDTINTCIKKGK--- 227 (775)
T ss_pred HHhhhHHH-HHHHhhhhhhheeccchhHHHHhcHHHHhhhcchhhhhcCCchhhccccccchhhhhhhhhHhhhcCc---
Confidence 34444333 35667788899999999999999999999999999999999998876533 24445555555655443
Q ss_pred EEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEE
Q 001215 684 VEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCF 721 (1122)
Q Consensus 684 ~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~ 721 (1122)
+++-....+++.|......+...|+.+..|++..++.
T Consensus 228 -e~qG~~~aRRksgdS~dqh~~itP~~gqggkirhfvs 264 (775)
T KOG1229|consen 228 -EAQGEEEARRKSGDSCDQHFIITPFAGQGGKIRHFVS 264 (775)
T ss_pred -cccchHHHhhccCCcccceEEEeeecCCCCceeeehh
Confidence 2222333446778888888888899998898877654
No 171
>PF08670 MEKHLA: MEKHLA domain; InterPro: IPR013978 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=93.17 E-value=1.2 Score=44.73 Aligned_cols=110 Identities=9% Similarity=-0.007 Sum_probs=80.2
Q ss_pred hhhhhhhcCCCCCCCCeEEec--CCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHH
Q 001215 741 GDYVGIVSSPSALIPPIFMTD--EDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNK 818 (1122)
Q Consensus 741 ~~l~~l~e~~~~li~~I~~~D--~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~ 818 (1122)
..++.+++ .+. +|+..| .+-.++|.|.++.++++++-+++++.+. ..-..+..+......+.+
T Consensus 32 ~~~~~L~~-ap~---ailsh~~~~dP~f~yaN~aaL~l~e~~w~el~~lPs-----------r~sae~~~r~er~~lL~~ 96 (148)
T PF08670_consen 32 ELAKALWH-APF---AILSHGTKADPIFIYANQAALDLFETTWDELVGLPS-----------RLSAEEPERKERQSLLAQ 96 (148)
T ss_pred HHHHHHHc-CCC---EEEEcCCCCCCEEEehhHHHHHHhcCCHHHHhcCcH-----------hhccChhhHHHHHHHHHH
Confidence 44566666 444 576665 4457999999999999999999998763 122235566667778888
Q ss_pred HhcCCCcceeEEEEEccCCCEEEEE-EEEeeeeCCCCCEEEEEEeeec
Q 001215 819 VISGQDADKILFGFFDQQGKYVEAL-LSANKRTNAEGKISGILCFLHV 865 (1122)
Q Consensus 819 ~l~g~~~~~~e~~~~~~dG~~~~v~-~~~~pv~d~~G~i~gvv~~l~D 865 (1122)
+...+-.....=.-..+.|+.++++ .++=.+.|++|...|....+.+
T Consensus 97 v~~qG~~~~y~GiRiss~Grrf~ie~a~vW~l~D~~g~~~GqAa~F~~ 144 (148)
T PF08670_consen 97 VMQQGYIDNYSGIRISSTGRRFRIERATVWNLIDEDGNYCGQAAMFSN 144 (148)
T ss_pred HHHhCCccCCCeEEEcCCCCeEEEeceEEEEEEcCCCCEEEEEEEEee
Confidence 8877766555555568899988886 4456788999999988777654
No 172
>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=93.13 E-value=0.21 Score=38.86 Aligned_cols=44 Identities=39% Similarity=0.445 Sum_probs=37.4
Q ss_pred hhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhc
Q 001215 743 YVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERML 789 (1122)
Q Consensus 743 l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l 789 (1122)
++.+++..+. +++.+|.++.+..+|+.+.+++|+...++.++..
T Consensus 3 ~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 (67)
T smart00091 3 LRAILESLPD---GIFVLDLDGRILYANPAAEELLGYSPEELIGKSL 46 (67)
T ss_pred HHHHHhhCCc---eEEEEcCCCeEEEECHHHHHHhCCCHHHHcCCcH
Confidence 4566777776 7999999999999999999999999988877643
No 173
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=93.06 E-value=1.3 Score=53.73 Aligned_cols=179 Identities=17% Similarity=0.209 Sum_probs=96.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHh---cCccEEEecCCCcEEeccHHHHHHcCCCchh-hcCCcccccccCCchHHHHHHHHH
Q 001215 599 RIEKIDELRIITNEMVRLIET---AAVPILAVDASGNVNGWNSKAAELTGLTVDQ-AIGTALVDLVAGDSVDVVKNMLSS 674 (1122)
Q Consensus 599 ~~~~~~eL~~~e~~l~~lie~---a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~ee-liG~~~~dl~~~~~~~~~~~~l~~ 674 (1122)
+.+...=|.-....|..++.. .+..+++.|.+|.++..+-........+.-- ..|..|.+-.... ..+-.
T Consensus 62 rE~~~~LL~iA~~~L~~L~~~v~~~~~~vLLtD~~GViL~~~G~~~~~~~~rk~gl~~Ga~WSE~~~GT------NgIGT 135 (606)
T COG3284 62 RERAEALLTIAQPELDRLFQAVAGSGCCVLLTDADGVILERRGDPRDDEDFRKAGLWLGAVWSEPREGT------NGIGT 135 (606)
T ss_pred HHHHHHHHHHhHHHHHHHHHHhcCCCeEEEEEcCceeEEEeecChhhhhhhhhhccccccccccccccc------cchhh
Confidence 334444455555666666665 4558999999999998765433222222111 1222222211111 12233
Q ss_pred HHcCCcceeEEEEEEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEE---EcchhhHH-------------HHHH--H
Q 001215 675 AFLGIEERNVEIKLRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVG---QDITGQKL-------------VMDK--Y 736 (1122)
Q Consensus 675 ~l~g~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~---~DITerK~-------------aE~~--L 736 (1122)
++..++.. .+.-. .|-......+.+++.|++|++|++.|++-+. .|+++.-+ .|.+ +
T Consensus 136 cLve~~aV--tI~~~---qHF~~~~~~lsCsAaPI~D~qG~L~gVLDISs~r~~~~~~s~~~~~~iV~~~ar~IE~~~~~ 210 (606)
T COG3284 136 CLVEGEAV--TIHGD---QHFIQAHHGLSCSAAPIFDEQGELVGVLDISSCRSDLSEASQPLTLAIVTDAARRIEAELFL 210 (606)
T ss_pred hhccCcce--EEehh---hhHhhcccCceeeeeccccCCCcEEEEEEeccCCcchhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 33333221 11111 1223455678899999999999999988776 34443322 1111 1
Q ss_pred HhHhhhhhhhhcC----CCCCCCCeEEecCCCCeeeeehhHHHhcCCC-hHHHhhhh
Q 001215 737 TRIQGDYVGIVSS----PSALIPPIFMTDEDGRCLEWNDGMEKLSGLK-REEAIERM 788 (1122)
Q Consensus 737 ~~se~~l~~l~e~----~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~-~eeliGk~ 788 (1122)
...+..+...+.. .+....+.+..|.+|+++-.|+++..+++.+ ...++|.+
T Consensus 211 ~~~~~~~~lr~~~~p~~~d~~~~~~lavd~~grvl~at~aA~~~La~~~~~~l~g~p 267 (606)
T COG3284 211 AAFEGHWLLRIALAPDYLDSQSEALLAVDQDGRVLGATRAARQLLALTDRQRLIGQP 267 (606)
T ss_pred HhcCcchHHHHhcCccccCcccceeeeecCcchhhhccHHHHHhhccchhhHhhcCC
Confidence 1111111111111 1222337899999999999999999999998 44455544
No 174
>TIGR02851 spore_V_T stage V sporulation protein T. Members of this protein family are the stage V sporulation protein T (SpoVT), a protein of the sporulation/germination program in Bacillus subtilis and related species. The amino-terminal 50 amino acids are nearly perfectly conserved across all endospore-forming bacteria. SpoVT is a DNA-binding transcriptional regulator related to AbrB (See PFAM model pfam04014).
Probab=92.92 E-value=3.7 Score=42.84 Aligned_cols=125 Identities=12% Similarity=0.143 Sum_probs=89.2
Q ss_pred CHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHhCCeEEeecCCCCc
Q 001215 215 NISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPP 294 (1122)
Q Consensus 215 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~~~~r~i~d~~~~~ 294 (1122)
++...++.+++-+.+.||+ -|+|- +.-.|+|=+-.. -.- |-|.+ +.+..++++..+++.+..+.+...
T Consensus 53 ~~~~~A~~~aeII~~~t~~-aVaIT-----Dr~~ILA~~G~g-~d~----~~~~~-is~~t~~~i~~gk~~~~~~~~~~~ 120 (180)
T TIGR02851 53 ELGDFAKEYAESLYQSLGH-IVLIT-----DRDTVIAVAGVS-KKE----YLNKP-ISDELEDTMEERKTVILSDTKDGP 120 (180)
T ss_pred chHHHHHHHHHHHHHHhCC-EEEEE-----CCCcEEEEECCC-hhh----cCCCc-cCHHHHHHHHcCCEEEecCCccce
Confidence 6677778888888999999 99887 345566644322 222 33444 999999999999999888743222
Q ss_pred ceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEeecCCCC--CCC
Q 001215 295 VKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPR--FVP 372 (1122)
Q Consensus 295 ~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~~pr--~~~ 372 (1122)
++....+ .|. ..+.+++||+.+ |+.=|.|.-- ...+ .++
T Consensus 121 i~c~~~~-----------------~~~--------l~s~ii~Pl~~~-------------g~viGtLkly-~k~~~~~~~ 161 (180)
T TIGR02851 121 IEIIDGQ-----------------EFE--------YTSQVIAPIIAE-------------GDPIGAVIIF-SKEPGEKLG 161 (180)
T ss_pred eccccCC-----------------CCC--------cceEEEEEEEEC-------------CeEEEEEEEE-ECCccCCCC
Confidence 3321000 122 278899999988 8899955544 5566 888
Q ss_pred hhhHHHHHHHHHHHHHHH
Q 001215 373 FPLRYACEFLIQVFGVQV 390 (1122)
Q Consensus 373 ~~~r~~~~~l~~~~~~~~ 390 (1122)
.-.+..++-||++||.||
T Consensus 162 ~~e~~la~glA~lLS~QL 179 (180)
T TIGR02851 162 EVEQKAAETAAAFLGKQM 179 (180)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 899999999999999997
No 175
>PRK05218 heat shock protein 90; Provisional
Probab=92.86 E-value=0.3 Score=60.83 Aligned_cols=57 Identities=14% Similarity=0.139 Sum_probs=37.4
Q ss_pred EEecHHHHHHHHHHHHHHHhhcCC--------------CCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhh
Q 001215 996 LHGDKLRLQQVLSDFLTNALIFTP--------------AFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKL 1061 (1122)
Q Consensus 996 v~~D~~~L~QVL~NLL~NAik~t~--------------~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~ 1061 (1122)
+|+|+. -.|.+||.||.++.. ....+.|.|.+...+. .|+|+|||+||+.+.
T Consensus 23 LYs~~~---v~lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~I~I~~d~~~~-----------~i~I~DnG~GMt~ee 88 (613)
T PRK05218 23 LYSNKE---IFLRELISNASDAIDKLRFEALTDPALYEGDGDLKIRISFDKEAR-----------TLTISDNGIGMTREE 88 (613)
T ss_pred hcCCch---HHHHHHHhCHHHHHHHHHHHhccCccccCCCCCcEEEEEEcCCCC-----------eEEEEECCCCCCHHH
Confidence 455643 368999999988732 1112355554433222 489999999999998
Q ss_pred hhhhc
Q 001215 1062 IHDMF 1066 (1122)
Q Consensus 1062 ~~~iF 1066 (1122)
+..-|
T Consensus 89 l~~~l 93 (613)
T PRK05218 89 VIENL 93 (613)
T ss_pred HHHHH
Confidence 88755
No 176
>PF07568 HisKA_2: Histidine kinase; InterPro: IPR011495 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This is the dimerisation and phosphoacceptor domain of a subfamily of histidine kinases. It shares sequence similarity with IPR003661 from INTERPRO and IPR011102 from INTERPRO. It is usually found adjacent to a C-terminal ATPase domain (IPR003594 from INTERPRO). This domain is found in a wide range of bacteria and also several archaea.
Probab=92.50 E-value=0.71 Score=40.84 Aligned_cols=72 Identities=13% Similarity=0.177 Sum_probs=58.3
Q ss_pred HHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhhcccccccccceeeeEEeehHHHHHHHHHHhc
Q 001215 894 IRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDTDIESIEECYMVLKSGEFNLGEALDAVMTQVM 973 (1122)
Q Consensus 894 isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dLd~srie~g~~~l~~~~~dL~~vi~~v~~~~~ 973 (1122)
+.|.+||-|+.|.+++.+-.+...+++.+..+..+......|..+-+.|.-+. ....+++.+.+++++..+.
T Consensus 2 ~~HRVkNnLq~i~sll~lq~~~~~~~e~~~~L~~~~~RI~aia~vh~~L~~~~--------~~~~v~l~~yl~~L~~~l~ 73 (76)
T PF07568_consen 2 LHHRVKNNLQIISSLLRLQARRSEDPEAREALEDAQNRIQAIALVHEQLYQSE--------DLSEVDLREYLEELCEDLR 73 (76)
T ss_pred hHHhHHhHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCC--------CCCeecHHHHHHHHHHHHH
Confidence 68999999999999999988887888889999888887777777777662111 2467999999999998764
No 177
>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=91.88 E-value=0.6 Score=32.42 Aligned_cols=40 Identities=23% Similarity=0.435 Sum_probs=34.9
Q ss_pred EEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccH
Q 001215 829 LFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASP 868 (1122)
Q Consensus 829 e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITe 868 (1122)
++.+...+|..+|+.....++.+.+|.+.+++++..|||+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~ 42 (43)
T smart00086 3 EYRLRRKDGSYIWVLVSASPIRDEDGEVEGILGVVRDITE 42 (43)
T ss_pred EEEEEecCCCEEEEEEEeEEEECCCCCEEEEEEEEEeccC
Confidence 4566788999999999999999988999999999999985
No 178
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=91.50 E-value=0.49 Score=60.79 Aligned_cols=213 Identities=19% Similarity=0.230 Sum_probs=156.0
Q ss_pred HHHHHHHhHHHHHHHhhhhHHHHHHHHHH-HhcCCCCCHHHHHHHHHHHHHHHHHHHHHhh-hcccccccccceeeeEEe
Q 001215 882 QAAANSLNKLEYIRREIRKPLNGIAFMQN-LMGTSDLSEEQKQLLKTSVLCQEQLTNIVDD-TDIESIEECYMVLKSGEF 959 (1122)
Q Consensus 882 ~~~~~k~~fLa~isHELrnPLt~I~g~~~-lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~d-Ld~srie~g~~~l~~~~~ 959 (1122)
.....+..++..+.|..++|.+.+.+... ++....+.++..-.+++..+....+..++.. .+.++...|....+...+
T Consensus 381 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~~~~~~~~~gt~~~~~i~~ 460 (786)
T KOG0519|consen 381 MAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPDSGLEIQTVMRSSNVFTSLIQADPDITRLYGGTGLGESIVF 460 (786)
T ss_pred hccchhhhHHHHhccccccccccccccchhhHhheEeccCCceeEehhhhhhhHHHHHhccccccccccCCCcccchhhc
Confidence 33344445566677999999999987766 4455566667777777777777788888888 488888888878889999
Q ss_pred ehHHHHHHHHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhh--cCCCCCCCeEEEEEEec--cc
Q 001215 960 NLGEALDAVMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALI--FTPAFEGSSIAFRVIPQ--KE 1035 (1122)
Q Consensus 960 dL~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik--~t~~~~g~~I~I~v~~~--~~ 1035 (1122)
.+..++...+.........+...+.+.+....+. .+.+|..++.|++.++..++.+ ++.. +....+.+... ..
T Consensus 461 ~l~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~--~~~~~~~~~~~~~~~ 537 (786)
T KOG0519|consen 461 SLVELMSGEISDISCISLGKTFSFTLDLLTNLPK-SVVGDEKRLFQIILDFNGMLALLIDTKL--GREQIFQVLAELLGI 537 (786)
T ss_pred cHHHHHHHHhhhhhhhccCceeeEEEEeccCCCc-cchhhhhhhhhhhhhhcchhhhhhcccc--CcceeEEEEecccCc
Confidence 9999999999999888888888888888777765 7888888899999999999987 6652 32212222222 11
Q ss_pred ccCc-------------cceeEEEEEEEEcCCCCCChhhhhhhcCCC--------CCCCCccchHHHHHHHHHHcCcEEE
Q 001215 1036 RIGK-------------NIHIVHLEFRITHPAPGIPEKLIHDMFYHS--------QGASREGLGLYISQKLVKLMNGTVQ 1094 (1122)
Q Consensus 1036 ~~~~-------------~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f--------~~~~GtGLGL~I~r~ive~~gG~I~ 1094 (1122)
...- ......+.+.+.+++.|........+|.-+ ....+.+++++.|.+..+.+.|.++
T Consensus 538 ~vd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 617 (786)
T KOG0519|consen 538 SVDVSLSLSLAFWFLDLSLSDLEVCKQIEDNEEGSNNGDISSSNPLHKSLRDLTSKLSSGSGLSLALCPENSQLMEGNIG 617 (786)
T ss_pred cccccccchhhhhhcccccccchheEEeeeccccccCCCcchhhhhhhccccchhhcccccccccccchhhHHhhhcccc
Confidence 0000 001126778888999998887777666554 1135678999999999999999998
Q ss_pred EEe
Q 001215 1095 YIR 1097 (1122)
Q Consensus 1095 v~s 1097 (1122)
+..
T Consensus 618 ~~~ 620 (786)
T KOG0519|consen 618 LVP 620 (786)
T ss_pred ccc
Confidence 863
No 179
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=91.25 E-value=0.23 Score=61.94 Aligned_cols=54 Identities=17% Similarity=0.167 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCC
Q 001215 1002 RLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHS 1069 (1122)
Q Consensus 1002 ~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f 1069 (1122)
+..-|+.+|+.||+++.. . .|.|.+...+ .-.|+|+|||.||+++.+.-.+.+.
T Consensus 23 rPaSVVKELVENSlDAGA---t-~I~I~ve~gG----------~~~I~V~DNG~Gi~~~Dl~la~~rH 76 (638)
T COG0323 23 RPASVVKELVENSLDAGA---T-RIDIEVEGGG----------LKLIRVRDNGSGIDKEDLPLALLRH 76 (638)
T ss_pred cHHHHHHHHHhcccccCC---C-EEEEEEccCC----------ccEEEEEECCCCCCHHHHHHHHhhh
Confidence 345799999999999975 3 7877765533 2359999999999999999888773
No 180
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=91.20 E-value=0.34 Score=61.05 Aligned_cols=50 Identities=16% Similarity=0.234 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhh
Q 001215 1001 LRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLI 1062 (1122)
Q Consensus 1001 ~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~ 1062 (1122)
.-|..++.+++.||++-.-..-...|.|.+...+ .++|.|||.|||.+..
T Consensus 36 ~GLhhlv~EivdNaiDE~~AG~a~~I~V~i~~dg------------sIsV~DnGrGIPvd~h 85 (756)
T PRK14939 36 TGLHHMVYEVVDNAIDEALAGHCDDITVTIHADG------------SVSVSDNGRGIPTDIH 85 (756)
T ss_pred cchhhhhhHhhcccccccccCCCCEEEEEEcCCC------------eEEEEEcCCcccCCcc
Confidence 4689999999999998433211458888876532 4899999999999843
No 181
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=90.52 E-value=1.6 Score=56.97 Aligned_cols=47 Identities=21% Similarity=0.141 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCccEEEec-CCCcEEeccHHHHHHcCC
Q 001215 600 IEKIDELRIITNEMVRLIETAAVPILAVD-ASGNVNGWNSKAAELTGL 646 (1122)
Q Consensus 600 ~~~~~eL~~~e~~l~~lie~a~~gI~~~D-~dG~Iv~~N~~~~~l~G~ 646 (1122)
.+..++|+..++.++.+++++|+|++++| .+|+|+.+|+++.+++|.
T Consensus 332 ~~l~~~L~~~~~l~~~Ii~~lp~Gilv~D~~~~~Ii~~N~aA~~ll~~ 379 (894)
T PRK10618 332 ESMSHELRILRALNEEIVSNLPLGLLVYDFESNRTVISNKIADHLLPH 379 (894)
T ss_pred hHHHHHHHHHHHHHHHHHHhCCceEEEEECCCCeEEEEhHHHHHHhCc
Confidence 34456788899999999999999999999 679999999999999985
No 182
>PRK14083 HSP90 family protein; Provisional
Probab=89.04 E-value=0.4 Score=59.21 Aligned_cols=58 Identities=16% Similarity=0.221 Sum_probs=39.9
Q ss_pred EEecHHHHHHHHHHHHHHHhhcCCC------CCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhc
Q 001215 996 LHGDKLRLQQVLSDFLTNALIFTPA------FEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMF 1066 (1122)
Q Consensus 996 v~~D~~~L~QVL~NLL~NAik~t~~------~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF 1066 (1122)
++.|+ .-.|.||+.||.++... ...+.|.|.+. ..+ .-.|+|.|||+||+.+.+.+.|
T Consensus 20 LYs~~---~iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~-d~~---------~~~l~I~DnGiGmt~eel~~~l 83 (601)
T PRK14083 20 LYSSP---RVYVRELLQNAVDAITARRALDPTAPGRIRIELT-DAG---------GGTLIVEDNGIGLTEEEVHEFL 83 (601)
T ss_pred hcCCc---HHHHHHHHHhHHHHHHhhhccCCCCCceEEEEEc-cCC---------CcEEEEEeCCCCCCHHHHHHHH
Confidence 45554 36789999999888532 01236777663 222 3468999999999999888765
No 183
>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=87.58 E-value=1.5 Score=30.16 Aligned_cols=35 Identities=29% Similarity=0.325 Sum_probs=31.0
Q ss_pred CCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchh
Q 001215 694 RETSGPVILVVNACCTQDTKENVIGVCFVGQDITG 728 (1122)
Q Consensus 694 ~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITe 728 (1122)
..+|...|+.....++.+.+|.+.+++++.+|||+
T Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~ 42 (43)
T smart00086 8 RKDGSYIWVLVSASPIRDEDGEVEGILGVVRDITE 42 (43)
T ss_pred ecCCCEEEEEEEeEEEECCCCCEEEEEEEEEeccC
Confidence 45788899999999999988999999999999986
No 184
>TIGR01058 parE_Gpos DNA topoisomerase IV, B subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation step of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=86.90 E-value=1 Score=56.19 Aligned_cols=52 Identities=15% Similarity=0.215 Sum_probs=38.2
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhh
Q 001215 999 DKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLI 1062 (1122)
Q Consensus 999 D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~ 1062 (1122)
+..-|..++.++|.||++-.-......|.|.+...+ .++|.|||.|||-+..
T Consensus 31 ~~~GL~hlv~EIvdNavDE~~ag~~~~I~V~i~~dg------------sitV~DnGrGIPv~~h 82 (637)
T TIGR01058 31 DSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDN------------SITVQDDGRGIPTGIH 82 (637)
T ss_pred CcchhheehhhhhcchhhhhhcCCCcEEEEEEcCCC------------eEEEEECCCcccCccc
Confidence 356788999999999997543223457888876432 4899999999998643
No 185
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=85.77 E-value=0.95 Score=56.76 Aligned_cols=52 Identities=19% Similarity=0.316 Sum_probs=35.8
Q ss_pred HHHHHHHHHhhcCCC------------CCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhc
Q 001215 1006 VLSDFLTNALIFTPA------------FEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMF 1066 (1122)
Q Consensus 1006 VL~NLL~NAik~t~~------------~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF 1066 (1122)
.|.+||+||.++... ..++.+.|++....+ ...|.|.|||+||+.+.+.+-|
T Consensus 29 flRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~d~~---------~~~L~I~DnGiGMt~edl~~~L 92 (701)
T PTZ00272 29 FLRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVPDKE---------NKTLTVEDNGIGMTKADLVNNL 92 (701)
T ss_pred hHHHHHhhHHHHHHHHHHHhcCCchhcCCCCceEEEEEEcCC---------CCEEEEEECCCCCCHHHHHHHh
Confidence 367999999877310 123467777766555 4468999999999997755433
No 186
>COG5381 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=85.29 E-value=2.5 Score=41.27 Aligned_cols=79 Identities=13% Similarity=0.159 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhh----hhc--CCC----
Q 001215 1000 KLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIH----DMF--YHS---- 1069 (1122)
Q Consensus 1000 ~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~----~iF--~~f---- 1069 (1122)
+..+.-+..+||.||+||.. ++.|.|..+.... .+.+.|.+--.+=....-+ .|- +|.
T Consensus 61 rhsvgYl~NELiENAVKfra---~geIvieasl~s~---------~f~~kvsN~vd~~t~~~f~~ll~~it~gDP~dLli 128 (184)
T COG5381 61 RHSVGYLANELIENAVKFRA---TGEIVIEASLYSH---------KFIFKVSNIVDLPTTIDFENLLKVITEGDPLDLLI 128 (184)
T ss_pred hhhHHHHHHHHHHhhhcccC---CCcEEEEEEeccc---------eEEEEecccCCCccHHHHHHHHHHHhcCChHHHHH
Confidence 34466788999999999997 4489999888776 7788877654432222111 111 221
Q ss_pred ---------CCCCCccchHHHHHHHHHHcCcEE
Q 001215 1070 ---------QGASREGLGLYISQKLVKLMNGTV 1093 (1122)
Q Consensus 1070 ---------~~~~GtGLGL~I~r~ive~~gG~I 1093 (1122)
....|.||||. .++...|...
T Consensus 129 eRiEanA~~~d~~gSglGLL---TlmsDYgA~f 158 (184)
T COG5381 129 ERIEANALESDCEGSGLGLL---TLMSDYGAQF 158 (184)
T ss_pred HHHHhhccCCCCccccccce---ehhhhhccee
Confidence 25568888884 2345667766
No 187
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=84.25 E-value=5.4 Score=39.60 Aligned_cols=86 Identities=9% Similarity=-0.060 Sum_probs=70.8
Q ss_pred CcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCCCCCCCeEEEEEEEEEec
Q 001215 631 GNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGPRETSGPVILVVNACCTQ 710 (1122)
Q Consensus 631 G~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~ 710 (1122)
-++..+-.+.++++|+ |+.|+++.+++.++....+...+..+.....+.-...... ..+|....+..-..|+.
T Consensus 51 ~r~RLaGt~i~~~~G~---d~tG~~~~el~~~~~~~~~~~~~~~v~~~~~p~~~~~~~~----~~~g~~~~~e~l~LPL~ 123 (137)
T PF07310_consen 51 FRYRLAGTRIVELFGR---DLTGRRLSELFPPEDRERVRRAYRAVVERPAPVRARGRAE----DADGRYLEYERLLLPLR 123 (137)
T ss_pred eEEEEecHHHHHHhCC---CCCCCCHHHhcChHhHHHHHHHHHHHHcCCceEEEEEEEe----cCCCCeeEEEEEEcccC
Confidence 4667788999999997 4569999999999999999999999998876654444443 45788899999999999
Q ss_pred CCCCCEEEEEEEE
Q 001215 711 DTKENVIGVCFVG 723 (1122)
Q Consensus 711 d~~G~v~gvv~v~ 723 (1122)
+.+|.+..++|++
T Consensus 124 ~~~~~v~rilG~~ 136 (137)
T PF07310_consen 124 SDGGTVDRILGAL 136 (137)
T ss_pred CCCCCccEEEEec
Confidence 9999988888764
No 188
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=83.16 E-value=0.96 Score=55.00 Aligned_cols=49 Identities=16% Similarity=0.226 Sum_probs=31.5
Q ss_pred HHHHHHHHHhhcC---------CCC---CCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhh
Q 001215 1006 VLSDFLTNALIFT---------PAF---EGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIH 1063 (1122)
Q Consensus 1006 VL~NLL~NAik~t---------~~~---~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~ 1063 (1122)
-|.+||+||.++. .+. ..+.+.|++..+.+ .=.++|+|||+||..+.+.
T Consensus 31 FLRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~Dk~---------~kTLtI~DNGIGMT~~Ev~ 91 (623)
T COG0326 31 FLRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISFDKD---------NKTLTISDNGIGMTKDEVI 91 (623)
T ss_pred HHHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEEccc---------CCEEEEEeCCCCCCHHHHH
Confidence 4678999996543 110 11245555555555 3378899999999997644
No 189
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=82.85 E-value=2.7 Score=56.36 Aligned_cols=51 Identities=18% Similarity=0.267 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHhhcCC----CCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhh
Q 001215 1002 RLQQVLSDFLTNALIFTP----AFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIH 1063 (1122)
Q Consensus 1002 ~L~QVL~NLL~NAik~t~----~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~ 1063 (1122)
-|..||.++|.||++-.. ......|.|.+....+ .|+|.|||.|||-+...
T Consensus 57 GL~ki~dEIldNAvDe~~r~~~~g~~~~I~V~i~~d~g-----------~IsV~dnGrGIPv~~h~ 111 (1388)
T PTZ00108 57 GLYKIFDEILVNAADNKARDKGGHRMTYIKVTIDEENG-----------EISVYNDGEGIPVQIHK 111 (1388)
T ss_pred hhhhhHHHHhhhhhhhhcccCCCCCccEEEEEEeccCC-----------eEEEEecCCcccCCCCC
Confidence 577888888888887543 1134578888776544 48999999999987643
No 190
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=82.56 E-value=0.91 Score=56.93 Aligned_cols=98 Identities=15% Similarity=0.196 Sum_probs=69.7
Q ss_pred EecCCCCeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCC-cceeEEEEEccCC
Q 001215 759 MTDEDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQD-ADKILFGFFDQQG 837 (1122)
Q Consensus 759 ~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~-~~~~e~~~~~~dG 837 (1122)
-...+|.++++-.....+.||...++.|+.. ....|+++.......+..+..... .....++++.++|
T Consensus 377 r~~~~g~~~~~dqr~~~i~~~~~~~~~g~ss-----------~~s~h~~d~~~~~~s~~~~~~~s~~~~~~~yr~~~~n~ 445 (803)
T KOG3561|consen 377 RSSSDGSFTFVDQRASAILGYQPQELLGRSS-----------YESSHPADSSPLSESLKQVQALSEQRSTLLYRFRSKNG 445 (803)
T ss_pred ccCcCCceeccccccccccccCchhhcCccc-----------ccccCccccchhhchHHHHHHhcccccccccccccCCC
Confidence 3456788888889999999999999999874 345566776666666666554433 4566788899999
Q ss_pred CEEEEEEEEeeeeCCC-CCEEEEEEeeeccc
Q 001215 838 KYVEALLSANKRTNAE-GKISGILCFLHVAS 867 (1122)
Q Consensus 838 ~~~~v~~~~~pv~d~~-G~i~gvv~~l~DIT 867 (1122)
.+.+.........+.. .++-+++|.-.-+.
T Consensus 446 ~~~~~~~~~~~~~n~~s~~~~~~~~~ns~~~ 476 (803)
T KOG3561|consen 446 SSIPNKSSAYLFSNPGSDEVEYIVCTNSNVP 476 (803)
T ss_pred CccccccccccccCCCccccceeeecccccc
Confidence 9999887766655433 34556666655555
No 191
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=81.44 E-value=4.2 Score=47.85 Aligned_cols=94 Identities=10% Similarity=-0.063 Sum_probs=75.3
Q ss_pred CCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCCCCCCCeEEEEEEEEEe
Q 001215 630 SGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGPRETSGPVILVVNACCT 709 (1122)
Q Consensus 630 dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi 709 (1122)
|+..+.+..+...++||...|+.|.+.++|+|-+|.-.+.....+.++.++..-+-++.. +++|++.||..++..+
T Consensus 292 Dfa~vs~Dak~k~~lgy~eaEL~~m~gY~lvH~~D~~y~Aeah~e~iktgeSGmlvyR~q----tk~grw~wvqssarll 367 (712)
T KOG3560|consen 292 DFALVSMDAKVKATLGYCEAELHGMPGYNLVHVEDKVYMAEAHSEGIKTGESGMLVYREQ----TKAGRWAWVQSSARLL 367 (712)
T ss_pred ccceeccchhhhhhhccchhhccCCCccceeehhhhhhhhHHHHHHhhcCCcceEEEEEe----ecCCcEEEeeccceee
Confidence 566777778888999999999999999999999998777778888888777655555544 6789999999887665
Q ss_pred cCCCCCEEEEEEEEEcchh
Q 001215 710 QDTKENVIGVCFVGQDITG 728 (1122)
Q Consensus 710 ~d~~G~v~gvv~v~~DITe 728 (1122)
+ .+|++..++.+-+-.++
T Consensus 368 y-kngkPD~vi~thr~l~D 385 (712)
T KOG3560|consen 368 Y-KNGKPDLVIDTHRGLGD 385 (712)
T ss_pred e-ecCCCCEEEecCCCccc
Confidence 5 47777778877776666
No 192
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=79.92 E-value=3.2 Score=46.87 Aligned_cols=87 Identities=11% Similarity=0.059 Sum_probs=66.4
Q ss_pred cEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCCCCCCCeEEE
Q 001215 623 PILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGPRETSGPVIL 702 (1122)
Q Consensus 623 gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v 702 (1122)
-++....|..+++...+..+++||++.+++|+++...+|..|...++.+-...+..|....--+++ ..+.|++.|+
T Consensus 227 FmfraslDlkliF~D~rv~qltgYepqdliektLY~~ih~~D~~~lr~~H~~ll~kGqvtTkYYR~----l~k~ggwvwv 302 (598)
T KOG3559|consen 227 FMFRASLDLKLIFLDSRVHQLTGYEPQDLIEKTLYHHIHGCDSFHLRCAHHLLLVKGQVTTKYYRF----LLKQGGWVWV 302 (598)
T ss_pred EEEEeecceEEEeehhhHHHhhCCCchhhhhHHHHHHhhhhhHHHHHHHHHHHHhccccccHHHHH----HHcCCceEEE
Confidence 455666789999999999999999999999999999999999888887777766544322111222 2467999999
Q ss_pred EEEEEEecCCC
Q 001215 703 VVNACCTQDTK 713 (1122)
Q Consensus 703 ~v~~~pi~d~~ 713 (1122)
...+..+.+..
T Consensus 303 qsyat~vHnSr 313 (598)
T KOG3559|consen 303 QSYATFVHNSR 313 (598)
T ss_pred EEeeEEEeccc
Confidence 88877665543
No 193
>COG1956 GAF domain-containing protein [Signal transduction mechanisms]
Probab=78.25 E-value=82 Score=31.96 Aligned_cols=122 Identities=20% Similarity=0.180 Sum_probs=85.6
Q ss_pred CHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHH---HHHHHHhCCeEEeecCC
Q 001215 215 NISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQA---SRFLIMKNKVRMICDCL 291 (1122)
Q Consensus 215 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~---~r~l~~~~~~r~i~d~~ 291 (1122)
.+..+.++.+---..+..+|=|=.|.++ +++.| +.||-|. -+..+||-- ...-..+|++-.|.||+
T Consensus 33 ~ianlan~sall~~~l~~~nW~GFYl~~---~~~Lv-------LgPFqG~-~acv~I~~GkGVCg~A~~~~~t~~V~DV~ 101 (163)
T COG1956 33 FIANLANASALLKERLPDVNWVGFYLLE---GDELV-------LGPFQGK-VACVRIPFGKGVCGTAAATGETVRVDDVH 101 (163)
T ss_pred HHHHHHHHHHHHHhhccCCceEEEEEec---CCeEE-------EecccCC-cceEEeccCcchhHHHHhcCCeEEecccc
Confidence 3444444444334445558888888888 56666 4678887 566788843 34566789999999988
Q ss_pred CCcceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEeecCCCCCC
Q 001215 292 APPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFV 371 (1122)
Q Consensus 292 ~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~~pr~~ 371 (1122)
+-|=-|-=++ -++|-+++||+.+ |++-|.|=.-...|-+.
T Consensus 102 ~~~ghiaCD~---------------------------as~SEIVvPi~~~-------------g~~iGvlDiDS~~~~~F 141 (163)
T COG1956 102 AFPGHIACDA---------------------------ASNSEIVVPIFKD-------------GKLIGVLDIDSPTPGRF 141 (163)
T ss_pred cCCCcccccc---------------------------ccCceEEEEEEEC-------------CEEEEEEecCCCCcccC
Confidence 8766543121 2478899999998 99999998887788888
Q ss_pred ChhhHHHHHHHHHHHH
Q 001215 372 PFPLRYACEFLIQVFG 387 (1122)
Q Consensus 372 ~~~~r~~~~~l~~~~~ 387 (1122)
+.+.+.-.+.++..+.
T Consensus 142 d~~D~~~Le~~~~~l~ 157 (163)
T COG1956 142 DEEDEAGLEKLAALLE 157 (163)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 8877766666655443
No 194
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=77.01 E-value=4.9 Score=45.47 Aligned_cols=46 Identities=15% Similarity=0.155 Sum_probs=41.7
Q ss_pred hhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCCChHHHhhhhc
Q 001215 741 GDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGLKREEAIERML 789 (1122)
Q Consensus 741 ~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~~~eeliGk~l 789 (1122)
-.+.++++++++ |++.+|..|.+..+|+|++.+||.+++++.|...
T Consensus 80 l~L~aLL~al~~---pVlsvd~kg~v~~aNpAa~~l~~~~~~~~~g~~~ 125 (511)
T COG3283 80 LALSALLEALPE---PVLSVDMKGKVDMANPAACQLFGRKEDRLRGHTA 125 (511)
T ss_pred HHHHHHHHhCCC---ceEEecccCceeecCHHHHHHhCCChhhhcCccH
Confidence 346788888888 9999999999999999999999999999999875
No 195
>PLN03128 DNA topoisomerase 2; Provisional
Probab=76.46 E-value=3.4 Score=54.71 Aligned_cols=51 Identities=16% Similarity=0.219 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHhhcC-CCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhh
Q 001215 1002 RLQQVLSDFLTNALIFT-PAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIH 1063 (1122)
Q Consensus 1002 ~L~QVL~NLL~NAik~t-~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~ 1063 (1122)
-|..+|.++|.||++-. .......|.|++..+++ .++|.|||.|||-+...
T Consensus 52 GL~ki~dEIldNAvDe~~~~g~~~~I~V~i~~~dg-----------sIsV~DnGrGIPv~ih~ 103 (1135)
T PLN03128 52 GLYKIFDEILVNAADNKQRDPSMDSLKVDIDVEQN-----------TISVYNNGKGIPVEIHK 103 (1135)
T ss_pred hHHHHHHHHHHHHHHHhhhcCCCcEEEEEEEcCCC-----------eEEEEecCccccCCCCC
Confidence 57788899999998765 21134578888777544 48999999999987543
No 196
>PLN03237 DNA topoisomerase 2; Provisional
Probab=75.03 E-value=3.4 Score=55.27 Aligned_cols=77 Identities=14% Similarity=0.229 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHHHhhcC-CCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhh--h------hcCC----
Q 001215 1002 RLQQVLSDFLTNALIFT-PAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIH--D------MFYH---- 1068 (1122)
Q Consensus 1002 ~L~QVL~NLL~NAik~t-~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~--~------iF~~---- 1068 (1122)
-|..||.++|.||++-. .......|.|.+...++ .|+|.|||.|||-+... . ||..
T Consensus 77 GL~kifdEIldNAvDe~~r~g~~~~I~V~I~~~~g-----------sIsV~DnGRGIPV~iH~~eg~~~pElIft~LhAG 145 (1465)
T PLN03237 77 GLYKIFDEILVNAADNKQRDPKMDSLRVVIDVEQN-----------LISVYNNGDGVPVEIHQEEGVYVPEMIFGHLLTS 145 (1465)
T ss_pred hhhhhHHHHhhhhHhHHhhcCCCCEEEEEEEcCCC-----------EEEEEecCccccCCCCCCCCCccceEEEEeeecc
Confidence 46788888888888765 21134578888876555 48999999999987543 2 3322
Q ss_pred --CC----C-CCC-ccchHHHHHHHHHHc
Q 001215 1069 --SQ----G-ASR-EGLGLYISQKLVKLM 1089 (1122)
Q Consensus 1069 --f~----~-~~G-tGLGL~I~r~ive~~ 1089 (1122)
|. + .+| .|.|.++|.-+-+.+
T Consensus 146 gkFdd~~yKvSGGlhGVGasvvNaLS~~f 174 (1465)
T PLN03237 146 SNYDDNEKKTTGGRNGYGAKLTNIFSTEF 174 (1465)
T ss_pred ccCCCCcceeeccccccCccccccccCee
Confidence 21 1 123 499998885554443
No 197
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=73.89 E-value=2 Score=53.38 Aligned_cols=48 Identities=13% Similarity=0.304 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHhhcCCC---CCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhh
Q 001215 1002 RLQQVLSDFLTNALIFTPA---FEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLI 1062 (1122)
Q Consensus 1002 ~L~QVL~NLL~NAik~t~~---~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~ 1062 (1122)
-|..++.++|.||++-.-. .....|.|.+. ++ .++|.|||.|||-+..
T Consensus 45 GL~hi~~EIldNavDe~~~~~~g~~~~I~V~i~--dg-----------sisV~dnGrGIPv~~h 95 (602)
T PHA02569 45 GLVKIIDEIIDNSVDEAIRTNFKFANKIDVTIK--NN-----------QVTVSDNGRGIPQAMV 95 (602)
T ss_pred cceeeeehhhhhhhhhhhccCCCCCcEEEEEEc--CC-----------EEEEEECCCcccCCcc
Confidence 3556777788888765421 12447777766 33 3899999999998765
No 198
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=73.75 E-value=18 Score=30.57 Aligned_cols=46 Identities=22% Similarity=0.152 Sum_probs=34.9
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 001215 890 KLEYIRREIRKPLNGIAFMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIV 939 (1122)
Q Consensus 890 fLa~isHELrnPLt~I~g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI 939 (1122)
.+....||+.|-|+.|.|++++-+ .++..++++.+.........++
T Consensus 15 ~lR~~RHD~~NhLqvI~gllqlg~----~~~a~eYi~~~~~~~~~~s~l~ 60 (62)
T PF14689_consen 15 SLRAQRHDFLNHLQVIYGLLQLGK----YEEAKEYIKELSKDLQQESELL 60 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT-----HHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHhHHHHHHHHHHHHHHHCCC----HHHHHHHHHHHHHHHHHHHHHH
Confidence 456679999999999999998643 4567788888777776665553
No 199
>PTZ00130 heat shock protein 90; Provisional
Probab=72.09 E-value=2.9 Score=52.95 Aligned_cols=49 Identities=20% Similarity=0.247 Sum_probs=30.1
Q ss_pred HHHHHHHHhhcCC------C------CCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhh
Q 001215 1007 LSDFLTNALIFTP------A------FEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHD 1064 (1122)
Q Consensus 1007 L~NLL~NAik~t~------~------~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~ 1064 (1122)
|.+||+||.++.. . ..+..+.|++....+ .-.|+|+|||+||+.+.+..
T Consensus 93 LRELISNAsDAldKlr~~~lt~~~~~~~~~~~~I~I~~D~~---------~~tLtI~DnGIGMT~eEl~~ 153 (814)
T PTZ00130 93 LRELISNAADALEKIRFLSLSDESVLGEEKKLEIRISANKE---------KNILSITDTGIGMTKEDLIN 153 (814)
T ss_pred eehHhhhHHHHHHHHHHHHcCCchhcCCCCCceEEEEECCC---------CCEEEEEECCCCCCHHHHHH
Confidence 4688889876542 0 011244555544433 12578889999999987543
No 200
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=72.03 E-value=52 Score=42.73 Aligned_cols=231 Identities=13% Similarity=0.130 Sum_probs=118.8
Q ss_pred hhHHHHHHHHhH-------hhhhhhhhcCCCCCCCCeEEec-CCCCeeeeehhHHHhcCCChHHHhhhhccccccccccc
Q 001215 728 GQKLVMDKYTRI-------QGDYVGIVSSPSALIPPIFMTD-EDGRCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNF 799 (1122)
Q Consensus 728 erK~aE~~L~~s-------e~~l~~l~e~~~~li~~I~~~D-~dg~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~ 799 (1122)
+.|+.+.+|..- ...-+.++...|. |++++| .+|.|.+.|+.|.+++| .+ ++|+++.. ++
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~p~---gi~~~~~~~~~i~W~N~~~~~~~~--~~-~~g~~i~~-~~----- 149 (838)
T PRK14538 82 QIKRLQNKLSLWSKLSFHVSQIGEEVLNELPI---GIVLIDISSKEIQWLNPYANFILK--NP-EINTPLAQ-IN----- 149 (838)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHhCCc---eEEEEeCCCCEEEEECHHHHHHhC--cc-ccCCcHHH-hc-----
Confidence 456667666432 2334455566666 899999 79999999999999987 22 77876521 11
Q ss_pred cccccCcchHHHHHHHHHHHhcC-CCcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHHHHH
Q 001215 800 GCRVKNHDTLTKLRIVMNKVISG-QDADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQVQR 878 (1122)
Q Consensus 800 ~~~l~~~d~~~~~~~~l~~~l~g-~~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~L~~ 878 (1122)
+ .+...... .......+.+ +++.+.+.+.. . . .+..+.|+|+..+...+...
T Consensus 150 ------~--------~~~~~~~~~~~~~~~~~~~---~~~~y~~~~~~------~---~-~~ly~~D~T~~~~~~~~~~~ 202 (838)
T PRK14538 150 ------E--------SMAQLLLTSDKIPKTIITL---KNQKFECFYKK------D---L-NVFYLFNATEKEQIKHLFLQ 202 (838)
T ss_pred ------h--------HhhhcccccccccceEEEE---CCEEEEEEEec------c---c-eEEEEEeccHHHHHHHHHHh
Confidence 0 01111110 1101112222 44444443332 1 1 33455999987665544322
Q ss_pred HHHHHHHHHHhHHHHHHHhhhhHHHHHH---HHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHhhh--cccccccccce
Q 001215 879 ISEQAAANSLNKLEYIRREIRKPLNGIA---FMQNLMGTSDLSEEQKQLLKTSVLCQEQLTNIVDDT--DIESIEECYMV 953 (1122)
Q Consensus 879 ~ae~~~~~k~~fLa~isHELrnPLt~I~---g~~~lL~~~~l~~~~~~~L~~i~~~~~rl~~iI~dL--d~srie~g~~~ 953 (1122)
..|.-++. .+-+.+.....+ +.......+.+ .+.+..... -+.+++.++.-
T Consensus 203 --------------------~~~v~g~i~iDNyde~~~~~~~~-~~s~l~~~i~~---~l~~~~~~~~~~~r~~~~dry~ 258 (838)
T PRK14538 203 --------------------KTLALAMITFDNLEESLIRYDLS-EQSQIQGEYLS---ALSDFIEPYEGYLKQLIDDRFL 258 (838)
T ss_pred --------------------cCcEEEEEEeeCHHHHhcccchH-HHHHHHHHHHH---HHHHHHHhCCEEEEEecCCcEE
Confidence 11221211 233333322211 12222222322 244455553 34566777766
Q ss_pred eeeEEeehHHHHHH---HHHHhccccccCCcEEEeecCCCCcceEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEE
Q 001215 954 LKSGEFNLGEALDA---VMTQVMIPSREHQVQFIRDLPAEVSTMNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFR 1029 (1122)
Q Consensus 954 l~~~~~dL~~vi~~---v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~ 1029 (1122)
+-...-.|..+.++ ++..++......++.+.+.+.-. ++. ..+.+. .++..+|++-+-.++|-++.|.
T Consensus 259 ~~~~~~~l~~~~~~kF~iLd~ir~~~~~~~~~vTLSiGig------~g~-~~~~e~-~~~A~~aldlAlgRGGDQvvvk 329 (838)
T PRK14538 259 LLINRQNLDKMIENKFSILDTIRNISHKYQLKVTLSMGIA------CWN-LSYDKL-ATYSQNAIELAQKRGGDQAVVN 329 (838)
T ss_pred EEEEHHHHHHHHHhCCcHHHHHHHhhcCCCCceEEEEEEe------CCC-CCHHHH-HHHHHHHHHHHhccCCCEEEEE
Confidence 66666667777776 66666665555555554444321 122 123333 5677788887776677788766
No 201
>PF08446 PAS_2: PAS fold; InterPro: IPR013654 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. ; GO: 0008020 G-protein coupled photoreceptor activity, 0006355 regulation of transcription, DNA-dependent, 0009584 detection of visible light, 0018298 protein-chromophore linkage; PDB: 3S7O_A 2O9B_A 3S7P_A 1ZTU_A 3S7N_A 3S7Q_A 2O9C_A 2OOL_A 3C2W_G 3NHQ_B ....
Probab=69.19 E-value=5.8 Score=37.81 Aligned_cols=48 Identities=23% Similarity=0.430 Sum_probs=39.5
Q ss_pred EEEecC-CCcEEeccHHHHHHcCCC---chhhcCCcccccccCCchHHHHHH
Q 001215 624 ILAVDA-SGNVNGWNSKAAELTGLT---VDQAIGTALVDLVAGDSVDVVKNM 671 (1122)
Q Consensus 624 I~~~D~-dG~Iv~~N~~~~~l~G~s---~eeliG~~~~dl~~~~~~~~~~~~ 671 (1122)
++++|. +++|+.++..+.+++|.+ .++++|+++.+++.+.....++..
T Consensus 18 LLa~d~~~~~I~~~S~N~~~~lg~~~~~~~~llG~~l~~ll~~~~~~~l~~~ 69 (110)
T PF08446_consen 18 LLALDPDDLRIVQASENIAELLGIPPELPEELLGRPLSELLGAESAERLREA 69 (110)
T ss_dssp EEEEETTTTBEEEEETTHHHHHSS----HHHHTTCBHHHHSCCCCHHHHHHH
T ss_pred EEEEECCCCEEEEEcCCHHHHhCCccccchhhcccCHHHHhCHHHHHHHHHh
Confidence 456775 599999999999999999 999999999999988776654443
No 202
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=68.42 E-value=1.7e+02 Score=38.26 Aligned_cols=133 Identities=11% Similarity=0.055 Sum_probs=76.6
Q ss_pred CHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHhCCeEEeecCCCCc
Q 001215 215 NISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPP 294 (1122)
Q Consensus 215 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~~~~r~i~d~~~~~ 294 (1122)
..+..++.+.+.+.+++|.+++.++-|+.++...+... . |. .|..+.+...+.+-..- ...+
T Consensus 293 ~~~~~~~~~l~~i~~~~~~~~~~~~l~~~~~~~~~~~~---~------~~-~~~~~~~~~~~~~~~~~--------~~~~ 354 (828)
T PRK13837 293 ELEASIEAALGILAKFFDADSAALALVDVGGRARIWTF---P------GL-TPDPVWPDRLRALASTV--------KAAE 354 (828)
T ss_pred hhHHHHHHHHHHHHHHhCCCeeEEEEEcCCCCeeeccC---C------cc-CCCCCchHHHHHHHHHH--------hccC
Confidence 44689999999999999999999999987664433221 1 11 12334444333332110 0000
Q ss_pred ceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEeecCCCC-CCCh
Q 001215 295 VKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPR-FVPF 373 (1122)
Q Consensus 295 ~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~~pr-~~~~ 373 (1122)
-.++.. .+...+....++...+....+++|+... ++++|++.+....+. .++.
T Consensus 355 ~~~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~g~l~~~~~~~~~~~~~ 408 (828)
T PRK13837 355 RDVVFV-------------DRNGPVRKRSCLTRRGPALWACLAFKSG-------------DRIVALLGLGRQRYGLRPPA 408 (828)
T ss_pred CceEEe-------------ecccchhhhcccccCCcceEEEEEeccC-------------CceEEEEEecccccCCCCCh
Confidence 000000 0111223333444667888899999877 999999998766533 2334
Q ss_pred hhHHHHHHHHHHHHHHHH
Q 001215 374 PLRYACEFLIQVFGVQVN 391 (1122)
Q Consensus 374 ~~r~~~~~l~~~~~~~~~ 391 (1122)
......+.++..++..+.
T Consensus 409 ~~~~~l~~~~~~~~~~~~ 426 (828)
T PRK13837 409 GELQLLELALDCLAHAIE 426 (828)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 455666666666655553
No 203
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=68.34 E-value=1.2 Score=56.56 Aligned_cols=51 Identities=24% Similarity=0.218 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhh
Q 001215 1001 LRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIH 1063 (1122)
Q Consensus 1001 ~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~ 1063 (1122)
.-|.+++.++|.||++-.-...+..|.|.+..++ .++|.|||.|||-+..+
T Consensus 128 ~GLhhLv~EIlDNSVDE~laG~~~~I~V~i~~Dg------------sItV~DnGRGIPvd~h~ 178 (903)
T PTZ00109 128 KGLHQLLFEILDNSVDEYLAGECNKITVVLHKDG------------SVEISDNGRGIPCDVSE 178 (903)
T ss_pred CcceEEEEEEeeccchhhccCCCcEEEEEEcCCC------------eEEEEeCCccccccccc
Confidence 4466788888888887543223557888876533 38999999999987644
No 204
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=67.35 E-value=41 Score=40.88 Aligned_cols=103 Identities=15% Similarity=0.205 Sum_probs=63.8
Q ss_pred HHHHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEE
Q 001215 608 IITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIK 687 (1122)
Q Consensus 608 ~~e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~ 687 (1122)
+.+.-+..++.++|.||+.+|.++.+.++||-+..+|+-. .+|+... +...+.+.....+.+...+.+
T Consensus 72 ~~~~~~~~al~nmPiGii~~~e~~~veW~Npf~~~if~~~---~~~~~~~--------~~~~~il~~~~~~~~~~~~~i- 139 (655)
T COG3887 72 QAEKSLEEALTNMPIGIILFNETNKVEWVNPFASKIFNKN---EIGESLS--------ELIPEILKQLARNDEKQYIKI- 139 (655)
T ss_pred HHHHHHHHHHHhCCceEEEEcCCCceEEecHHHHHhcChh---hhhhhHH--------HHhHHHHHHHhcCCcceEEEE-
Confidence 3445677899999999999999999999999999999732 2232222 223334444443333322222
Q ss_pred EEEeCCCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHh
Q 001215 688 LRAFGPRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQ 740 (1122)
Q Consensus 688 l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se 740 (1122)
. +..+ .+. .+.+. -+..+-|+|++.+.+++++.++
T Consensus 140 -~--------e~~y-~~~----~~~~~----~liYf~DvT~~~~~~~~~~~~k 174 (655)
T COG3887 140 -N--------EKKY-DVY----FDSDK----RLIYFFDVTEEEAIEEEYENSK 174 (655)
T ss_pred -c--------ceEE-EEE----EecCC----CEEEEEeccHHHHHHHHHhccC
Confidence 1 1111 111 33343 3456789999999998876654
No 205
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=66.49 E-value=23 Score=35.04 Aligned_cols=85 Identities=18% Similarity=0.117 Sum_probs=68.1
Q ss_pred CeeeeehhHHHhcCCChHHHhhhhccccccccccccccccCcchHHHHHHHHHHHhcCCCcceeEEEEEccCCCEEEEEE
Q 001215 765 RCLEWNDGMEKLSGLKREEAIERMLIGEVFTVKNFGCRVKNHDTLTKLRIVMNKVISGQDADKILFGFFDQQGKYVEALL 844 (1122)
Q Consensus 765 ~ii~~N~a~~~l~G~~~eeliGk~l~~~i~~~~~~~~~l~~~d~~~~~~~~l~~~l~g~~~~~~e~~~~~~dG~~~~v~~ 844 (1122)
++..+-...++++|.+ +.|+.+ .++..++....+...+..+.....+..........+|+...++.
T Consensus 52 r~RLaGt~i~~~~G~d---~tG~~~-----------~el~~~~~~~~~~~~~~~v~~~~~p~~~~~~~~~~~g~~~~~e~ 117 (137)
T PF07310_consen 52 RYRLAGTRIVELFGRD---LTGRRL-----------SELFPPEDRERVRRAYRAVVERPAPVRARGRAEDADGRYLEYER 117 (137)
T ss_pred EEEEecHHHHHHhCCC---CCCCCH-----------HHhcChHhHHHHHHHHHHHHcCCceEEEEEEEecCCCCeeEEEE
Confidence 4666777888888874 335543 23344677778889999999999998888889999999999999
Q ss_pred EEeeeeCCCCCEEEEEEee
Q 001215 845 SANKRTNAEGKISGILCFL 863 (1122)
Q Consensus 845 ~~~pv~d~~G~i~gvv~~l 863 (1122)
..-|+.+.+|.+..++|.+
T Consensus 118 l~LPL~~~~~~v~rilG~~ 136 (137)
T PF07310_consen 118 LLLPLRSDGGTVDRILGAL 136 (137)
T ss_pred EEcccCCCCCCccEEEEec
Confidence 9999999999998888865
No 206
>PF08348 PAS_6: YheO-like PAS domain; InterPro: IPR013559 This domain is found in various hypothetical bacterial proteins that are similar to the Escherichia coli protein YheO (P64624 from SWISSPROT). Their function is unknown, but a few members are annotated as being HTH-containing proteins and putative DNA-binding proteins.
Probab=63.75 E-value=24 Score=34.07 Aligned_cols=42 Identities=17% Similarity=0.225 Sum_probs=35.3
Q ss_pred CCCCCCeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHH
Q 001215 693 PRETSGPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKY 736 (1122)
Q Consensus 693 ~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L 736 (1122)
..++| +.+..+...++|.+|+++|++++-.|+|...++++.|
T Consensus 75 ~~~~G--k~lrSsT~~Ird~~g~~iG~LCIN~D~s~~~~~~~~L 116 (118)
T PF08348_consen 75 KTKDG--KILRSSTFFIRDENGKLIGALCINFDISALEQAQNFL 116 (118)
T ss_pred cCCCC--CEEEEEEEEEECCCCCEEEEEEEEeccHHHHHHHHHH
Confidence 35566 5677788889999999999999999999998887655
No 207
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=63.66 E-value=1.1e+02 Score=37.29 Aligned_cols=39 Identities=10% Similarity=0.018 Sum_probs=32.7
Q ss_pred hHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhHHHhcCC
Q 001215 738 RIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGMEKLSGL 779 (1122)
Q Consensus 738 ~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~~~l~G~ 779 (1122)
+.+..++.++.+.|. ||+++|.++.+.++||-+..+|+-
T Consensus 72 ~~~~~~~~al~nmPi---Gii~~~e~~~veW~Npf~~~if~~ 110 (655)
T COG3887 72 QAEKSLEEALTNMPI---GIILFNETNKVEWVNPFASKIFNK 110 (655)
T ss_pred HHHHHHHHHHHhCCc---eEEEEcCCCceEEecHHHHHhcCh
Confidence 345556777888887 999999999999999999999963
No 208
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=62.09 E-value=40 Score=43.71 Aligned_cols=46 Identities=17% Similarity=0.193 Sum_probs=38.9
Q ss_pred HHHHHHHHhcCccEEEec-CCCcEEeccHHHHHHcCCCchhhcCCccccc
Q 001215 611 NEMVRLIETAAVPILAVD-ASGNVNGWNSKAAELTGLTVDQAIGTALVDL 659 (1122)
Q Consensus 611 ~~l~~lie~a~~gI~~~D-~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl 659 (1122)
+--..++...|.|+.++| .+|+|.+.|+.+.+++| .+ ++|+++.++
T Consensus 102 ~~~~~~l~~~p~gi~~~~~~~~~i~W~N~~~~~~~~--~~-~~g~~i~~~ 148 (838)
T PRK14538 102 QIGEEVLNELPIGIVLIDISSKEIQWLNPYANFILK--NP-EINTPLAQI 148 (838)
T ss_pred HHHHHHHHhCCceEEEEeCCCCEEEEECHHHHHHhC--cc-ccCCcHHHh
Confidence 445578899999999999 68999999999999988 22 789998864
No 209
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=61.44 E-value=2.3 Score=51.57 Aligned_cols=52 Identities=13% Similarity=0.157 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhh
Q 001215 1001 LRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHD 1064 (1122)
Q Consensus 1001 ~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~ 1064 (1122)
..|..++.+.+.||++=+-..-+..|.|++..++. ++|.|||.|||-+...+
T Consensus 35 ~GLhHlv~EVvDNsiDEalaG~~~~I~V~l~~d~s------------isV~DnGRGIPvdiH~~ 86 (635)
T COG0187 35 RGLHHLVWEVVDNSIDEALAGYADRIDVTLHEDGS------------ISVEDNGRGIPVDIHPK 86 (635)
T ss_pred CcceeeEeEeeechHhHHhhCcCcEEEEEEcCCCe------------EEEEECCCCCccccCCC
Confidence 56677777888888865432234488888774433 89999999999988554
No 210
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=61.06 E-value=8.2 Score=47.25 Aligned_cols=49 Identities=12% Similarity=0.232 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhh
Q 001215 1003 LQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDM 1065 (1122)
Q Consensus 1003 L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~i 1065 (1122)
+.-++.+|+.|++++.. .+|.|.+..-+- =.|.|.|||.||++...+-|
T Consensus 21 l~sAVKELvENSiDAGA----T~I~I~~kdyG~----------d~IEV~DNG~GI~~~n~~~l 69 (672)
T KOG1978|consen 21 LVSAVKELVENSIDAGA----TAIDIKVKDYGS----------DSIEVSDNGSGISATDFEGL 69 (672)
T ss_pred HHHHHHHHHhcCcccCC----ceeeEecCCCCc----------ceEEEecCCCCCCccchhhh
Confidence 45788999999999864 388888755322 25888899999999765443
No 211
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=60.89 E-value=5.7 Score=50.16 Aligned_cols=98 Identities=9% Similarity=0.063 Sum_probs=72.0
Q ss_pred ecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCCCCCCCeEEEEEEE
Q 001215 627 VDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGPRETSGPVILVVNA 706 (1122)
Q Consensus 627 ~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~v~v~~ 706 (1122)
...+|.++++-.++..+.||...++.|++...+.|+++.......+..+....+. ....-.+.+.++|...|.....
T Consensus 378 ~~~~g~~~~~dqr~~~i~~~~~~~~~g~ss~~s~h~~d~~~~~~s~~~~~~~s~~---~~~~~yr~~~~n~~~~~~~~~~ 454 (803)
T KOG3561|consen 378 SSSDGSFTFVDQRASAILGYQPQELLGRSSYESSHPADSSPLSESLKQVQALSEQ---RSTLLYRFRSKNGSSIPNKSSA 454 (803)
T ss_pred cCcCCceeccccccccccccCchhhcCcccccccCccccchhhchHHHHHHhccc---ccccccccccCCCCcccccccc
Confidence 3457888888899999999999999999999999999988877777776665544 2233344456788888887776
Q ss_pred EEecCC-CCCEEEEEEEEEcch
Q 001215 707 CCTQDT-KENVIGVCFVGQDIT 727 (1122)
Q Consensus 707 ~pi~d~-~G~v~gvv~v~~DIT 727 (1122)
...-+. ...+.+++++-.-+.
T Consensus 455 ~~~~n~~s~~~~~~~~~ns~~~ 476 (803)
T KOG3561|consen 455 YLFSNPGSDEVEYIVCTNSNVP 476 (803)
T ss_pred ccccCCCccccceeeecccccc
Confidence 655433 345666777666655
No 212
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=60.27 E-value=1.1e+02 Score=33.10 Aligned_cols=43 Identities=16% Similarity=0.208 Sum_probs=30.4
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCC
Q 001215 202 AKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEH 246 (1122)
Q Consensus 202 ~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~ 246 (1122)
.++..+|=+ ..+++++++++...+++..+.|-|-+--|++++.
T Consensus 81 ~~l~l~LL~--a~sl~~l~~~L~~~l~~~f~~~~v~L~L~~~~~~ 123 (225)
T PF04340_consen 81 HRLVLALLA--ARSLQELLQALDDGLREDFDVDAVRLRLFDDDAA 123 (225)
T ss_dssp HHHHHHHHC----SHHHHHHHHHHHHHHTS--SEEEEEEE-SS--
T ss_pred HHHHHHHhc--CCCHHHHHHHHHHHHHHhcCCCeEEEEeeccccc
Confidence 444555555 4599999999999999999999999999987665
No 213
>PF02743 Cache_1: Cache domain; InterPro: IPR004010 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins, including the animal dihydropyridine-sensitive voltage-gated Ca2+ channel; alpha-2delta subunit, and various bacterial chemotaxis receptors. The name Cache comes from CAlcium channels and CHEmotaxis receptors. This domain consists of an N-terminal part with three predicted strands and an alpha-helix, and a C-terminal part with a strand dyad followed by a relatively unstructured region. The N-terminal portion of the (unpermuted) Cache domain contains three predicted strands that could form a sheet analogous to that present in the core of the PAS domain structure. Cache domains are particularly widespread in bacteria, with Vibrio cholerae. The animal calcium channel alpha-2delta subunits might have acquired a part of their extracellular domains from a bacterial source []. The Cache domain appears to have arisen from the GAF-PAS fold despite their divergent functions [].; GO: 0016020 membrane; PDB: 3C8C_A 3LIB_D 3LIA_A 3LI8_A 3LI9_A.
Probab=59.36 E-value=21 Score=31.56 Aligned_cols=59 Identities=12% Similarity=0.177 Sum_probs=37.8
Q ss_pred CeEEEEEEEEEecCCCCCEEEEEEEEEcchhhHHHHHHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeee
Q 001215 698 GPVILVVNACCTQDTKENVIGVCFVGQDITGQKLVMDKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEW 769 (1122)
Q Consensus 698 ~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~aE~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~ 769 (1122)
...++..-+.|+++.+|++.|++++-.++......-..+ --.-.. -+|++|.+|.++.-
T Consensus 10 ~~~~vi~~s~pi~~~~g~~~Gvv~~di~l~~l~~~i~~~----------~~~~~g---~~~ivd~~G~ii~h 68 (81)
T PF02743_consen 10 TGQPVITISVPIYDDDGKIIGVVGIDISLDQLSEIISNI----------KFGNNG---YAFIVDKNGTIIAH 68 (81)
T ss_dssp TTEEEEEEEEEEEETTTEEEEEEEEEEEHHHHHHHHTTS----------BBTTTB---EEEEEETTSBBCE-
T ss_pred CCcEEEEEEEEEECCCCCEEEEEEEEeccceeeeEEEee----------EECCCE---EEEEEECCCCEEEe
Confidence 445677778999999999999999866655433222111 111111 37889999887754
No 214
>COG3605 PtsP Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]
Probab=59.10 E-value=1.5e+02 Score=36.25 Aligned_cols=144 Identities=16% Similarity=0.188 Sum_probs=93.2
Q ss_pred HHHHHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCc-eEEEEecCCCCCCccCCCCCCCCccHHHHHHH
Q 001215 201 AAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHG-EVVAECRRPDLEPYLGFHYPATDIPQASRFLI 279 (1122)
Q Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g-~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~ 279 (1122)
++++...+.+ ..++.+-++..|++|-.-....=.-||=-+.|++- +..| ..++.+.-|.
T Consensus 5 Lr~i~E~va~--~~~~qe~Ld~iVr~i~~aM~tEVCSvYl~~~d~~~leL~A---TeGLnk~av~--------------- 64 (756)
T COG3605 5 LRRIVEKVAS--ALELQEALDIIVRDIALAMVTEVCSVYLLRADRRVLELMA---TEGLNKPAVH--------------- 64 (756)
T ss_pred HHHHHHHHhc--ccCHHHHHHHHHHHHHHHhhhhheeEEEEcCCCcEEEEEe---ccccCccccc---------------
Confidence 3556666777 45999999999999999888888889988887632 2222 2333222111
Q ss_pred HhCCeEEeecCCCCcceeecCCCCCCCCcccCccccCCChhHHHHHHhcC---ceeEEEEEEEEeCCcccccccccccCc
Q 001215 280 MKNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMG---SIASLVMSVTINEAEDELDNDQEQGRK 356 (1122)
Q Consensus 280 ~~~~~r~i~d~~~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~---v~a~l~~~i~~~~~~~~~~~~~~~~~~ 356 (1122)
.+++-.| .--|..+ ....+||.|+.+. -||- -.|+..-| -.|-|-+||+.. |+
T Consensus 65 ---~~~l~~~--eGLVG~v--~~~aePlNLsdAq---sHPs-F~Y~petgEE~Y~sFLGvPIi~~-------------~r 120 (756)
T COG3605 65 ---LVQLAFG--EGLVGLV--GRSAEPLNLADAQ---SHPS-FKYLPETGEERYHSFLGVPIIRR-------------GR 120 (756)
T ss_pred ---eEEecCC--Cchhhhh--hhccCCCChhhhh---hCCc-cccccccchHHHHHhhccceeec-------------Cc
Confidence 1222222 1111111 2346889998774 2333 34666655 357788999988 99
Q ss_pred eeeEEEeecCCCCCCChhhHHHHHHHHHHHHH
Q 001215 357 LWGLVVCHHTSPRFVPFPLRYACEFLIQVFGV 388 (1122)
Q Consensus 357 lWGl~~~h~~~pr~~~~~~r~~~~~l~~~~~~ 388 (1122)
+-|.+|.++.++|.....+-.+.+.++-+++-
T Consensus 121 ~lGVLVVQqk~~R~y~E~Eve~L~T~A~~lA~ 152 (756)
T COG3605 121 LLGVLVVQQRELRQYDEDEVEFLVTLAMQLAE 152 (756)
T ss_pred eeEEEEEecccccccchHHHHHHHHHHHHHHH
Confidence 99999999999999998876666665554443
No 215
>PRK10490 sensor protein KdpD; Provisional
Probab=58.73 E-value=3.8e+02 Score=35.51 Aligned_cols=48 Identities=8% Similarity=0.146 Sum_probs=35.7
Q ss_pred eEEEEEEEEeCCcccccccccccCceeeEEEeecCCC-CCCChhhHHHHHHHHHHHHHHHHH
Q 001215 332 ASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSP-RFVPFPLRYACEFLIQVFGVQVNK 392 (1122)
Q Consensus 332 a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~~p-r~~~~~~r~~~~~l~~~~~~~~~~ 392 (1122)
+.+.+|+... ++++|.+....+.+ +.++.+.+...+.++..++..+..
T Consensus 596 ~~~~lPl~~~-------------~~~~Gvl~l~~~~~~~~~~~~~~~ll~~la~~~a~aler 644 (895)
T PRK10490 596 PYQILPLKSA-------------QKTYGLLAVEPGNLRQLMIPEQQRLLETFTLLIANALER 644 (895)
T ss_pred ceEEEEEEEC-------------CEEEEEEEEecCcccccCCHHHHHHHHHHHHHHHHHHHH
Confidence 4567999877 99999998876654 456667777778777777766643
No 216
>PF08348 PAS_6: YheO-like PAS domain; InterPro: IPR013559 This domain is found in various hypothetical bacterial proteins that are similar to the Escherichia coli protein YheO (P64624 from SWISSPROT). Their function is unknown, but a few members are annotated as being HTH-containing proteins and putative DNA-binding proteins.
Probab=56.37 E-value=44 Score=32.26 Aligned_cols=50 Identities=22% Similarity=0.121 Sum_probs=38.5
Q ss_pred CcceeEEEEEccCCCEEEEEEEEeeeeCCCCCEEEEEEeeecccHHHHHHHH
Q 001215 824 DADKILFGFFDQQGKYVEALLSANKRTNAEGKISGILCFLHVASPELQYALQ 875 (1122)
Q Consensus 824 ~~~~~e~~~~~~dG~~~~v~~~~~pv~d~~G~i~gvv~~l~DITerkq~e~~ 875 (1122)
......+....++|+. +..+...++|++|+++|++|+=.|+|.-.++..-
T Consensus 66 ~~~~~nY~~~~~~Gk~--lrSsT~~Ird~~g~~iG~LCIN~D~s~~~~~~~~ 115 (118)
T PF08348_consen 66 EDYIINYKTKTKDGKI--LRSSTFFIRDENGKLIGALCINFDISALEQAQNF 115 (118)
T ss_pred CCccccccccCCCCCE--EEEEEEEEECCCCCEEEEEEEEeccHHHHHHHHH
Confidence 3455566778899964 4557778999999999999999999986665443
No 217
>PF05651 Diacid_rec: Putative sugar diacid recognition; InterPro: IPR008599 This region is found in several proteins characterised as carbohydrate diacid regulators (e.g. P36047 from SWISSPROT). An HTH DNA-binding motif is found at the C terminus of these proteins suggesting that this region includes the sugar recognition region.
Probab=55.31 E-value=2.2e+02 Score=28.20 Aligned_cols=109 Identities=18% Similarity=0.334 Sum_probs=69.9
Q ss_pred HHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHhCCeEEeecCCCCcce
Q 001215 217 SLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVK 296 (1122)
Q Consensus 217 ~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~~~~r~i~d~~~~~~~ 296 (1122)
.++.+..|+++.+.+||+ |-|. |.+|.+||=+-... +|. +=..|++.-..++.-.|..
T Consensus 3 ~~~Aq~Iv~~~~~~i~~~-inim----d~~G~IIAStd~~R----IG~------~HegA~~~i~~~~~~~i~~------- 60 (135)
T PF05651_consen 3 KELAQKIVDEIMEIIGYN-INIM----DENGIIIASTDPER----IGT------FHEGAKEVIRTNKEIEITE------- 60 (135)
T ss_pred HHHHHHHHHHHHHHcCCC-EEEE----CCCcEEEecCChhh----cCc------cCHHHHHHHHcCCcccccH-------
Confidence 468899999999999998 5554 78899999555444 443 2356666666664432222
Q ss_pred eecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEeecCCCCCCChhhH
Q 001215 297 VIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFVPFPLR 376 (1122)
Q Consensus 297 ~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~~pr~~~~~~r 376 (1122)
...+-+. |++....+||.++ |+.=|.|--=-. |.++|
T Consensus 61 -----------------------~~~~~~~--g~k~GinlPI~~~-------------g~~iGviGItG~-----p~eV~ 97 (135)
T PF05651_consen 61 -----------------------EDAEQYP--GVKPGINLPIIFN-------------GEVIGVIGITGE-----PEEVR 97 (135)
T ss_pred -----------------------hHHhhcc--CCCcceeeeEEEC-------------CEEEEEEEEecC-----HHHHH
Confidence 1111222 8899999999999 999998863221 34455
Q ss_pred HHHHHHHHHHHHHH
Q 001215 377 YACEFLIQVFGVQV 390 (1122)
Q Consensus 377 ~~~~~l~~~~~~~~ 390 (1122)
..++.+..+.-+-|
T Consensus 98 ~~~~lvk~~~Elll 111 (135)
T PF05651_consen 98 PYAQLVKKMAELLL 111 (135)
T ss_pred HHHHHHHHHHHHHH
Confidence 55555544443333
No 218
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=53.69 E-value=14 Score=44.26 Aligned_cols=51 Identities=18% Similarity=0.147 Sum_probs=38.7
Q ss_pred HHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCCC
Q 001215 1005 QVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYHS 1069 (1122)
Q Consensus 1005 QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~f 1069 (1122)
-++.+|+.|++++.. . .|.|.+...+ -=.+.|+|||-||-.+.+.-+-++|
T Consensus 30 NAlKEliENSLDA~S---T-~I~V~vk~GG----------LKLlQisDnG~GI~reDl~ilCeRf 80 (694)
T KOG1979|consen 30 NALKELIENSLDANS---T-SIDVLVKDGG----------LKLLQISDNGSGIRREDLPILCERF 80 (694)
T ss_pred HHHHHHHhccccCCC---c-eEEEEEecCC----------eEEEEEecCCCccchhhhHHHHHHh
Confidence 578899999998865 2 6666643322 3467888999999999988888776
No 219
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=49.58 E-value=2e+02 Score=30.84 Aligned_cols=39 Identities=13% Similarity=0.082 Sum_probs=35.0
Q ss_pred HHHHHHHHHhcCccEEEecCCCcEEeccHHHHHHcCCCc
Q 001215 610 TNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTV 648 (1122)
Q Consensus 610 e~~l~~lie~a~~gI~~~D~dG~Iv~~N~~~~~l~G~s~ 648 (1122)
.+.+..+++.++.|+.+-|.+|.++++|..|.++|.-+.
T Consensus 18 ~~~~~~~i~~~~~P~CiR~~~g~fi~~N~~F~~~f~~~~ 56 (217)
T PRK13719 18 PESLTAFIDDYSYPACIRNESGKFIFYNTLFLKEFLGQL 56 (217)
T ss_pred HHHHHHHHHcCCCCeEEECCCCCeeecchHHHHHHHhcC
Confidence 347888999999999999999999999999999997543
No 220
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=48.29 E-value=31 Score=43.37 Aligned_cols=83 Identities=13% Similarity=0.109 Sum_probs=61.4
Q ss_pred CCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeE---EEEEEEeCCCCCCCeEEEEEE
Q 001215 629 ASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNV---EIKLRAFGPRETSGPVILVVN 705 (1122)
Q Consensus 629 ~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~---e~~l~~~~~~~dG~~~~v~v~ 705 (1122)
+.+.+..+..++..++||-+.++||+++.+++|++|+..+.+..+.+++.+....+ .+++. -.+|.++.+...
T Consensus 339 ptClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~----aqNG~yv~ldTe 414 (1114)
T KOG3753|consen 339 PTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFC----AQNGSYVRLDTE 414 (1114)
T ss_pred CcceeeecchhhhhhhccCchhhhccchhhhhcCCchHHHHHHHHHHHHhCCCCcccccceeee----ecCCcEEEEech
Confidence 45677788899999999999999999999999999999999888888865422211 23333 346887777666
Q ss_pred EEEecCCCCC
Q 001215 706 ACCTQDTKEN 715 (1122)
Q Consensus 706 ~~pi~d~~G~ 715 (1122)
...+.+.--+
T Consensus 415 WSsFVNPWSR 424 (1114)
T KOG3753|consen 415 WSSFVNPWSR 424 (1114)
T ss_pred hhhccChhhh
Confidence 6555555443
No 221
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=45.74 E-value=6.8e+02 Score=31.02 Aligned_cols=123 Identities=13% Similarity=0.166 Sum_probs=74.2
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceE-EEEecCCCCCCccCCCCCCCCccHHHHHHHH
Q 001215 202 AKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEV-VAECRRPDLEPYLGFHYPATDIPQASRFLIM 280 (1122)
Q Consensus 202 ~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~v-vaE~~~~~~~~~lg~~~pa~dip~~~r~l~~ 280 (1122)
..+..+|.+ +..+...|+.+.+++.++++.+.+.+.-+++++.... ...+.. +. +.|
T Consensus 223 y~~~~~l~~--~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~---~~----~~~------------- 280 (569)
T PRK10600 223 WQANRRLHS--RAPLCERLSPVLNGLQNLTLLRDIELRVYETDDEENHQEFTCQS---DM----TCD------------- 280 (569)
T ss_pred HHHHHHHhc--CcchHHHHHHHHHHHHHhcCCCceEEEEeccccccceeeccCCC---cc----Ccc-------------
Confidence 344566666 4588899999999999999999999988775544322 111110 00 000
Q ss_pred hCCeEEeecCCCCcceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeE
Q 001215 281 KNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGL 360 (1122)
Q Consensus 281 ~~~~r~i~d~~~~~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl 360 (1122)
...|..-+....+ .. .+ ...+.+||... ++.-|.
T Consensus 281 ------~~~~~~~~~~~~~--------------------~~------~~-~~~~~~~l~~~-------------~~~~G~ 314 (569)
T PRK10600 281 ------DKGCQLCPRGVLP--------------------VG------DR-GTTLKWRLSDK-------------HGQYGI 314 (569)
T ss_pred ------ccccccccccCCC--------------------cC------CC-CceEEEEeecC-------------CcceEE
Confidence 0001101000000 00 00 25567899766 788898
Q ss_pred EEeecCCCCCCChhhHHHHHHHHHHHHHHHHH
Q 001215 361 VVCHHTSPRFVPFPLRYACEFLIQVFGVQVNK 392 (1122)
Q Consensus 361 ~~~h~~~pr~~~~~~r~~~~~l~~~~~~~~~~ 392 (1122)
+...-..++.++.+.+...+.++..++..+..
T Consensus 315 ~~~~~~~~~~l~~~~~~ll~~l~~~l~~~l~~ 346 (569)
T PRK10600 315 LLATLPQGRHLSHDQQQLVDTLVEQLTATLAL 346 (569)
T ss_pred EEEEcCCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 87654446778888999999988888766643
No 222
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=44.57 E-value=36 Score=41.86 Aligned_cols=53 Identities=15% Similarity=0.217 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcCC
Q 001215 1001 LRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFYH 1068 (1122)
Q Consensus 1001 ~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~~ 1068 (1122)
..|.|++.+|+.|++++.. ..|.|.+.. . ...+.|.|+|.|+..+.+..+-++
T Consensus 20 ~sla~~VeElv~NSiDA~A----t~V~v~V~~--~---------t~sv~ViDdG~G~~rdDl~~lg~r 72 (1142)
T KOG1977|consen 20 SSLAQCVEELVLNSIDAEA----TCVAVRVNM--E---------TFSVQVIDDGFGMGRDDLEKLGNR 72 (1142)
T ss_pred HHHHHHHHHHHhhccccCc----eEEEEEecC--c---------eeEEEEEecCCCccHHHHHHHHhh
Confidence 4588999999999998864 255555433 4 678999999999999998877554
No 223
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=42.92 E-value=98 Score=29.52 Aligned_cols=75 Identities=21% Similarity=0.192 Sum_probs=44.0
Q ss_pred ccEEEecCCCcEEeccHHHHHHcCCCchhhcCCcccccccCCchHHHHHHHHHHHcCCcceeEEEEEEEeCCCCCCCeEE
Q 001215 622 VPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLGIEERNVEIKLRAFGPRETSGPVI 701 (1122)
Q Consensus 622 ~gI~~~D~dG~Iv~~N~~~~~l~G~s~eeliG~~~~dl~~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~~dG~~~~ 701 (1122)
+-+++.|.+|++++-+ ..+.+|+++.+ .+ ...+++|+... ... .|..-+
T Consensus 40 ~~i~v~D~~g~~l~~s----------~~~~iG~~~~~----~~-------~~~aL~G~~~~-----~~~-----~~~~~~ 88 (116)
T PF14827_consen 40 DYIVVTDRDGIVLAHS----------DPERIGDRYSD----ED-------VRKALQGKSYT-----SVS-----QGTGGP 88 (116)
T ss_dssp SEEEEECTTSBECE-S----------SCCCTTSB-SS----CC-------HCHHCCT--EE-----EEE-----ECTTCE
T ss_pred eEEEEEcCCCCEEEcC----------ChHHcCCcccC----CC-------hhhhhcCCceE-----Eee-----ecCCce
Confidence 4688999999988764 33446666553 11 23455553221 111 133355
Q ss_pred EEEEEEEecCCCCCEEEEEEEEEcch
Q 001215 702 LVVNACCTQDTKENVIGVCFVGQDIT 727 (1122)
Q Consensus 702 v~v~~~pi~d~~G~v~gvv~v~~DIT 727 (1122)
......|++|.+|+++|++.+...+.
T Consensus 89 ~~~~~~PV~d~~g~viG~V~VG~~~~ 114 (116)
T PF14827_consen 89 SLRAFAPVYDSDGKVIGVVSVGVSLD 114 (116)
T ss_dssp EEEEEEEEE-TTS-EEEEEEEEEEHH
T ss_pred EEEEEEeeECCCCcEEEEEEEEEEcC
Confidence 66677899999999999999876543
No 224
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=42.27 E-value=29 Score=30.39 Aligned_cols=25 Identities=36% Similarity=0.691 Sum_probs=19.8
Q ss_pred EEEECCeEEEecCCCCHHHHHHHHH
Q 001215 441 ALYYRGKLWLLGVTPTEEQIKDIAE 465 (1122)
Q Consensus 441 al~~~~~~~~~G~~p~~~~~~~l~~ 465 (1122)
+++.||++...|..|+.+++..+++
T Consensus 52 alvIng~~~~~G~~p~~~el~~~l~ 76 (76)
T PF13192_consen 52 ALVINGKVVFVGRVPSKEELKELLE 76 (76)
T ss_dssp EEEETTEEEEESS--HHHHHHHHHH
T ss_pred EEEECCEEEEEecCCCHHHHHHHhC
Confidence 4788999999999999999887753
No 225
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=40.02 E-value=55 Score=31.26 Aligned_cols=51 Identities=22% Similarity=0.339 Sum_probs=37.7
Q ss_pred CCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCc
Q 001215 213 SGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDI 271 (1122)
Q Consensus 213 ~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~di 271 (1122)
..+....++..++.+++.++.|-|.|- |.+|.+++=+ -+..+|.+|...|+
T Consensus 19 ~~~~~~~lq~~~~~~~~~~~~~~i~v~----D~~g~~l~~s----~~~~iG~~~~~~~~ 69 (116)
T PF14827_consen 19 QGDPEAELQALLEQLRKESDIDYIVVT----DRDGIVLAHS----DPERIGDRYSDEDV 69 (116)
T ss_dssp TTGHHSCCCCHHHHHHHHCT-SEEEEE----CTTSBECE-S----SCCCTTSB-SSCCH
T ss_pred cCCccHHHHHHHHHHHhhcCCeEEEEE----cCCCCEEEcC----ChHHcCCcccCCCh
Confidence 346665668899999999999998875 8899999955 45568999987653
No 226
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=38.12 E-value=35 Score=42.94 Aligned_cols=57 Identities=18% Similarity=0.267 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHhhcCCC-CCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhh--hhcCC
Q 001215 1000 KLRLQQVLSDFLTNALIFTPA-FEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIH--DMFYH 1068 (1122)
Q Consensus 1000 ~~~L~QVL~NLL~NAik~t~~-~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~--~iF~~ 1068 (1122)
.--|.+|+-+.|-||.. -.. ++-..|.+.+..+.+ +++|.+||.|||-+.+. ++|-|
T Consensus 51 ~pGl~ki~dEilvNaad-k~rd~~m~~i~v~i~~e~~-----------~isv~nnGkGIPv~~H~~ek~yvp 110 (842)
T KOG0355|consen 51 VPGLYKIFDEILVNAAD-KQRDPKMNTIKVTIDKEKN-----------EISVYNNGKGIPVTIHKVEKVYVP 110 (842)
T ss_pred CCcHHHHHHHHhhcccc-cccCCCcceeEEEEccCCC-----------EEEEEeCCCcceeeecccccccch
Confidence 34478999999999998 322 122366666666555 79999999999987643 44444
No 227
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=34.05 E-value=23 Score=44.23 Aligned_cols=16 Identities=38% Similarity=0.742 Sum_probs=14.6
Q ss_pred hhcCCCEEEEEeecCCCC
Q 001215 229 DLTGYDRVMVYKFHEDEH 246 (1122)
Q Consensus 229 ~~~~~dRv~iy~f~~d~~ 246 (1122)
.|||++||+|| |||||
T Consensus 614 NLTgAnRVIIf--DPdWN 629 (923)
T KOG0387|consen 614 NLTGANRVIIF--DPDWN 629 (923)
T ss_pred ccccCceEEEE--CCCCC
Confidence 68999999997 99997
No 228
>PF07536 HWE_HK: HWE histidine kinase; InterPro: IPR011102 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. The HWE domain is found in a subset of two-component system kinases, belonging to the same superfamily as IPR003661 from INTERPRO []. In [], the HWE family was defined by the presence of conserved a H residue and a WXE motifs and was limited to members of the proteobacteria. However, many homologues of this domain are lack the WXE motif. Furthermore, homologues are found in a wide range of Gram-positive and Gram-negative bacteria as well as in several archaea.; GO: 0004673 protein histidine kinase activity
Probab=32.30 E-value=2.6e+02 Score=25.13 Aligned_cols=69 Identities=10% Similarity=0.101 Sum_probs=41.5
Q ss_pred HHHhhhhHHHHHHHHHHHhcCCCCC-HH-HHHHHHHHHHHHHHHHHHHhhhcccccccccceeeeEEeehHHHHHHHHHH
Q 001215 894 IRREIRKPLNGIAFMQNLMGTSDLS-EE-QKQLLKTSVLCQEQLTNIVDDTDIESIEECYMVLKSGEFNLGEALDAVMTQ 971 (1122)
Q Consensus 894 isHELrnPLt~I~g~~~lL~~~~l~-~~-~~~~L~~i~~~~~rl~~iI~dLd~srie~g~~~l~~~~~dL~~vi~~v~~~ 971 (1122)
|.|.+||-|+.|.+...+-.+...+ ++ ...+...+.. ..+...++.+ -....++|.++++..+.-
T Consensus 2 L~HRvKN~lavv~ai~~~t~r~~~s~~~~~~~~~~Rl~A-La~a~~ll~~------------~~~~~~~L~~lv~~~l~p 68 (83)
T PF07536_consen 2 LNHRVKNLLAVVQAIARQTARSAASVEEFAEAFSGRLQA-LARAHDLLSR------------SDWEGVSLRDLVEAELAP 68 (83)
T ss_pred chhHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHH-HHHHHHHHhc------------CCCCCccHHHHHHHHHHh
Confidence 6899999999999988887554322 22 2233333321 2222222211 124678899999999887
Q ss_pred hccc
Q 001215 972 VMIP 975 (1122)
Q Consensus 972 ~~~~ 975 (1122)
+...
T Consensus 69 ~~~~ 72 (83)
T PF07536_consen 69 YGSE 72 (83)
T ss_pred ccCC
Confidence 7643
No 229
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=30.65 E-value=2e+02 Score=35.70 Aligned_cols=40 Identities=20% Similarity=0.130 Sum_probs=30.0
Q ss_pred HHHHhHhhhhhhhhcCCCCCCCCeEEecCCCCeeeeehhH
Q 001215 734 DKYTRIQGDYVGIVSSPSALIPPIFMTDEDGRCLEWNDGM 773 (1122)
Q Consensus 734 ~~L~~se~~l~~l~e~~~~li~~I~~~D~dg~ii~~N~a~ 773 (1122)
.-++..+..+..+++........+++.|.+|.++..+-.-
T Consensus 67 ~LL~iA~~~L~~L~~~v~~~~~~vLLtD~~GViL~~~G~~ 106 (606)
T COG3284 67 ALLTIAQPELDRLFQAVAGSGCCVLLTDADGVILERRGDP 106 (606)
T ss_pred HHHHHhHHHHHHHHHHhcCCCeEEEEEcCceeEEEeecCh
Confidence 3355666667777777777666899999999999887553
No 230
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=29.93 E-value=60 Score=38.26 Aligned_cols=15 Identities=20% Similarity=0.257 Sum_probs=12.9
Q ss_pred EEEEEcCCCCCChhh
Q 001215 1047 EFRITHPAPGIPEKL 1061 (1122)
Q Consensus 1047 ~~~V~D~G~GI~~e~ 1061 (1122)
.+.|+|+|+||..+.
T Consensus 143 lLhi~DtGiGMT~ed 157 (785)
T KOG0020|consen 143 LLHITDTGIGMTRED 157 (785)
T ss_pred eeeEecccCCccHHH
Confidence 688889999998865
No 231
>COG0813 DeoD Purine-nucleoside phosphorylase [Nucleotide transport and metabolism]
Probab=29.47 E-value=51 Score=35.13 Aligned_cols=53 Identities=23% Similarity=0.376 Sum_probs=39.1
Q ss_pred eEEEecHHHHHHHHHHHHHHHhhcCCCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCCh
Q 001215 994 MNLHGDKLRLQQVLSDFLTNALIFTPAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPE 1059 (1122)
Q Consensus 994 ~~v~~D~~~L~QVL~NLL~NAik~t~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~ 1059 (1122)
+.+.|||.|-.-|-.++|.|++.++.. .+-.-.+=...++ .++|.-.|.|||.
T Consensus 17 VLmPGDPlRAK~iAetfLe~~~~vnev--R~mlgfTGtYKGk-----------~iSvmg~GmGipS 69 (236)
T COG0813 17 VLMPGDPLRAKYIAETFLENAVCVNEV--RGMLGFTGTYKGK-----------KISVMGHGMGIPS 69 (236)
T ss_pred eecCCCCchHHHHHHHHHhhhhhhhhh--cchhcccceecCc-----------EEEEEEecCCCcc
Confidence 467899999999999999999999863 2233333233333 5788888999997
No 232
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=28.76 E-value=2.1e+02 Score=34.49 Aligned_cols=93 Identities=15% Similarity=0.201 Sum_probs=56.7
Q ss_pred HHHHHHHHHHhhcCCCC-CCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhhhhhcC--CCC-----------
Q 001215 1005 QVLSDFLTNALIFTPAF-EGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLIHDMFY--HSQ----------- 1070 (1122)
Q Consensus 1005 QVL~NLL~NAik~t~~~-~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~~~iF~--~f~----------- 1070 (1122)
.++.+++.||+-|-.=+ .+..|.|.+.. + ++.|+.+|.-.+.=..+.++. ++.
T Consensus 273 ~alREai~NAv~HRDYs~~~~~v~I~iyd--D-----------RieI~NPGgl~~gi~~~~l~~~~s~~RNp~LA~~l~~ 339 (467)
T COG2865 273 EALREAIINAVIHRDYSIRGRNVHIEIYD--D-----------RIEITNPGGLPPGITPEDLLKGRSKSRNPVLAKVLRD 339 (467)
T ss_pred HHHHHHHHHHHHhhccccCCCceEEEEEC--C-----------eEEEECCCCCCCCCChhHcccCCCcccCHHHHHHHHH
Confidence 68899999999664321 23377777654 5 366668775433322333333 221
Q ss_pred --CCCCccchHHHHHHHHHHcCcEE-EEEecCCceEEEEEEEecC
Q 001215 1071 --GASREGLGLYISQKLVKLMNGTV-QYIREAERSSFLILIEFPL 1112 (1122)
Q Consensus 1071 --~~~GtGLGL~I~r~ive~~gG~I-~v~s~~gg~tF~~~l~LP~ 1112 (1122)
-...-|-|+--++.+++.||..- .+ ..+.++|+|++..+.
T Consensus 340 ~~liE~~GSGi~rm~~~~~~~gl~~p~f--~~~~~~~~~~~~~~~ 382 (467)
T COG2865 340 MGLIEERGSGIRRMFDLMEENGLPKPEF--EEDNDYVTVILHGKG 382 (467)
T ss_pred hhhHHHhCccHHHHHHHHHHcCCCCcee--eccCCeEEEEEeccc
Confidence 11245888889999999988753 44 335566677776654
No 233
>PF03472 Autoind_bind: Autoinducer binding domain; InterPro: IPR005143 This domain binds N-acyl homoserine lactones (AHLs), which are also known as autoinducers. These are small, diffusible molecules used as communication signals in a large variety of proteobacteria. It is almost always found in association with the DNA-binding LuxR domain (IPR000792 from INTERPRO). The autoinducer binding domain forms the N-terminal region of the protein, while the DNA-binding domain forms the C-terminal region. In most cases, binding of AHL by this N-terminal domain leads to unmasking of the DNA-binding domain, allowing it to bind DNA and activate transcription []. In rare cases, some LuxR proteins such as EsaR, act as repressors []. In these proteins binding of AHL to this domain leads to inactivation of the protein as a transcriptional regulator. A large number of processes have been shown to be regulated by LuxR proteins, including bioluminescence, production of virulence factors in plant and animal pathogens, antibiotic production and plasmid transfer. Structural studies of TraR from Agrobacterium tumefaciens [, ] show that the functional protein is a homodimer. Binding of the cognate AHL is required for protein folding, resistance to proteases and dimerisation. The autoinducer binding domain binds its cognate AHL in an alpha/beta/alpha sandwich and provides an extensive dimerisation surface, though residues from the C-terminal region also make some contribution to dimerisation. The autoinducer binding domain is also required for interaction with RpoA, allowing transcription to occur []. There are some proteins which consist solely of the autoinducer binding domain. The function of these is not known, but TrlR from Agrobacterium has been shown to inhibit the activity of TraR by the formation of inactive heterodimers [].; PDB: 3SZT_A 1H0M_A 1L3L_B 2Q0O_B 2UV0_F 3IX8_A 3IX4_C 3IX3_A 3JPU_D 3QP8_A ....
Probab=25.92 E-value=6e+02 Score=24.49 Aligned_cols=107 Identities=13% Similarity=0.106 Sum_probs=56.5
Q ss_pred HHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHhCCeEEeecCCCCcceeecC-C
Q 001215 223 LVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQD-K 301 (1122)
Q Consensus 223 ~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~~~~r~i~d~~~~~~~~~~~-~ 301 (1122)
++..+.+.+|||+++..-...+..+ .- -..+++ ..|....+.|.++....+ | |++.. .
T Consensus 8 ~l~~~~~~~Gf~~~~~~~~~~~~~~-~~-------~~~~~~------~~p~~w~~~Y~~~~~~~~-D------Pv~~~~~ 66 (149)
T PF03472_consen 8 LLERLAARLGFDRFAYGAPSPDPRG-DS-------DFLLIS------NYPDEWLEHYEERGYFRI-D------PVVRHAR 66 (149)
T ss_dssp HHHHHHHCTTTSEEEEEEEETTSCE-CE-------EEEEEE------SS-HHHHHHHHHTTGGGT--------HHHHHHC
T ss_pred HHHHHHHHcCCCEEEEEeccCCCCC-Cc-------cEEEEe------cCCHHHHHHHHHcCCcCC-C------HHHHHHH
Confidence 3446678899999999922222111 10 111222 345677778877764222 1 12210 1
Q ss_pred CCCCCCcccCccccC-CChh---HHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEe
Q 001215 302 KLDQPLSLCGSTLRA-PHGC---HARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVC 363 (1122)
Q Consensus 302 ~~~~~ldl~~~~lr~-~sp~---h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~ 363 (1122)
....|+.-+....+. .+|. ..+..+.+|+++.+++|+--. +|.. |+|..
T Consensus 67 ~~~~p~~W~~~~~~~~~~~~~~~~~~~a~~~Gl~~G~~~p~~~~------------~g~~-~~~s~ 119 (149)
T PF03472_consen 67 RSSGPFFWSDLFERDALSPEQRRFFDEARDFGLRSGVSVPLHGP------------DGRF-GALSF 119 (149)
T ss_dssp HTSSEEEEECHCTSSSSSHHHHHHHHHHHHTTTSEEEEEEEEEC------------CGCE-EEEEE
T ss_pred hCCCCEEEccchhhhhhhHHHHHHHHHHHHcCCCceEEEEeEcC------------CCCE-EEEEE
Confidence 112233332222221 1453 456678999999999999644 2556 77755
No 234
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=24.83 E-value=76 Score=38.73 Aligned_cols=49 Identities=16% Similarity=0.296 Sum_probs=32.2
Q ss_pred HHHHHHHHHHh------hcC----CCCCCCeEEEEEEecccccCccceeEEEEEEEEcCCCCCChhhh
Q 001215 1005 QVLSDFLTNAL------IFT----PAFEGSSIAFRVIPQKERIGKNIHIVHLEFRITHPAPGIPEKLI 1062 (1122)
Q Consensus 1005 QVL~NLL~NAi------k~t----~~~~g~~I~I~v~~~~~~~~~~~~~~~v~~~V~D~G~GI~~e~~ 1062 (1122)
.-+.+|++||- +|. +...++...|++.+..+ .-.++|.|+|+||..+.+
T Consensus 60 vFlRELISNaSDAldKiRy~~lt~~~~~~~~l~I~i~~nk~---------~~tlti~DtGIGMTk~dL 118 (656)
T KOG0019|consen 60 VFLRELISNASDALEKLRYLELKGDEKALPELEIRIITNKD---------KRTITIQDTGIGMTKEDL 118 (656)
T ss_pred HHHHhhhccccchHHHHHHHhhcCccccccceeEEeccCCC---------cceEEEEecCCCcCHHHH
Confidence 34567777773 332 11124467777777666 457899999999998654
No 235
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=21.65 E-value=2.5e+02 Score=33.69 Aligned_cols=118 Identities=18% Similarity=0.221 Sum_probs=81.0
Q ss_pred HHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccC----CCCCCCCccH-HHHHHHHhCCeEEeecCCCC
Q 001215 219 LCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLG----FHYPATDIPQ-ASRFLIMKNKVRMICDCLAP 293 (1122)
Q Consensus 219 ~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg----~~~pa~dip~-~~r~l~~~~~~r~i~d~~~~ 293 (1122)
=+..+++-|.+.+|.|=|.+ .-+..+-.+.| .|-|.++|-- ..|.-...|.+ +..|-+..
T Consensus 226 s~~~va~Ii~~~~~~~AVai--------------Td~e~ilA~vg~g~dhhi~g~~i~s~~t~~ai~~g~v-v~~~~~e~ 290 (557)
T COG3275 226 SLMKVAEIIYEELGAGAVAI--------------TDREKLLAFVGIGDDHHIPGKPIISSLTRKAIKTGEV-VYADGNEV 290 (557)
T ss_pred hHHHHHHHHHHHhCCCeEEe--------------cCHHHHHHhhcccccccCCCCeeccHHHHHHHhhCCE-EEEccchh
Confidence 45566777888888876654 34444444444 4778888754 44666666665 34442222
Q ss_pred cceeecCCCCCCCCcccCccccCCChhHHHHHHhcCceeEEEEEEEEeCCcccccccccccCceeeEEEeecCCCCCCCh
Q 001215 294 PVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFVPF 373 (1122)
Q Consensus 294 ~~~~~~~~~~~~~ldl~~~~lr~~sp~h~~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lWGl~~~h~~~pr~~~~ 373 (1122)
+.. +---||+ .|.+++|+--+ |+.=|-|--.-+.|+.++.
T Consensus 291 ----~~c---------------sh~~c~l--------~s~lViPL~~~-------------g~ViGTiK~y~~~~~lis~ 330 (557)
T COG3275 291 ----YEC---------------SHPTCKL--------GSALVIPLRGK-------------GRVIGTIKLYEAKARLISS 330 (557)
T ss_pred ----hcc---------------CCCCCCc--------CCceEeecccC-------------CceeeeEEEEeccHhHhhH
Confidence 110 0001554 88899999543 8888888888888999999
Q ss_pred hhHHHHHHHHHHHHHHHH
Q 001215 374 PLRYACEFLIQVFGVQVN 391 (1122)
Q Consensus 374 ~~r~~~~~l~~~~~~~~~ 391 (1122)
-.|.+.+-++|.+|.|+.
T Consensus 331 ~~r~la~Gia~l~SaQie 348 (557)
T COG3275 331 INRELAEGIAQLLSAQIE 348 (557)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 999999999999999995
No 236
>PRK13870 transcriptional regulator TraR; Provisional
Probab=20.39 E-value=7.7e+02 Score=26.78 Aligned_cols=118 Identities=9% Similarity=0.135 Sum_probs=72.2
Q ss_pred HHHHhhcCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeecCCCCceEEEEecCCCCCCccCCCCCCCCccHHHHHHHHhCC
Q 001215 204 AISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNK 283 (1122)
Q Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~g~vvaE~~~~~~~~~lg~~~pa~dip~~~r~l~~~~~ 283 (1122)
.+.-++. ++|.+.+++... .+.+.+|||.+..-.... ...+..+..|+.-++.|..+.
T Consensus 8 ~~~~~~~--~~~~~~~~~~l~-~~~~~~Gf~~~~y~~~~~-------------------~~~~~~~nyP~~W~~~Y~~~~ 65 (234)
T PRK13870 8 LTDLAAI--EGDECILKTGLA-DIADHFGFTGYAYLHIQH-------------------RHITAVTNYHREWQSVYFDKK 65 (234)
T ss_pred HHHHHHH--hCCHHHHHHHHH-HHHHHcCCCcEEEEecCC-------------------CCeeEeCCCCHHHHHHHHHCC
Confidence 4444444 557887777554 555666999985432211 112334677899999999998
Q ss_pred eEEeecCCCCcceeecC-CCCCCCCcccCccc-cCCChhHH---HHHHhcCceeEEEEEEEEeCCcccccccccccCcee
Q 001215 284 VRMICDCLAPPVKVIQD-KKLDQPLSLCGSTL-RAPHGCHA---RYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLW 358 (1122)
Q Consensus 284 ~r~i~d~~~~~~~~~~~-~~~~~~ldl~~~~l-r~~sp~h~---~yl~n~~v~a~l~~~i~~~~~~~~~~~~~~~~~~lW 358 (1122)
.-.+ | |++.. .....|++=+.... ...+|... +..+.+|++..+++||.-. +.-+
T Consensus 66 y~~~-D------Pvv~~~~~~~~p~~W~~~~~~~~~~~~~~~~~~~a~~~Gl~~G~tiPi~~~-------------~g~~ 125 (234)
T PRK13870 66 FDAL-D------PVVKRARSRKHIFTWSGEQERPRLSKDERAFYAHAADFGIRSGITIPIKTA-------------NGSM 125 (234)
T ss_pred Cccc-C------hHHHHHhcCCCCeecCcccccccCCHHHHHHHHHHHHcCCCCceEEEEECC-------------CCCE
Confidence 7555 3 23321 12234555544322 33455555 5567899999999999633 4567
Q ss_pred eEEEe
Q 001215 359 GLVVC 363 (1122)
Q Consensus 359 Gl~~~ 363 (1122)
|++.+
T Consensus 126 ~~lS~ 130 (234)
T PRK13870 126 SMFTL 130 (234)
T ss_pred EEEEE
Confidence 88875
No 237
>PF02070 NMU: Neuromedin U; InterPro: IPR008199 Neuromedin U (NmU) [, ] is a vertebrate peptide which stimulates uterine smooth muscle contraction and causes selective vasoconstriction. Like most other active peptides, it is proteolytically processed from a larger precursor protein. The mature peptides are 8 (NmU-8) to 25 (NmU-25) residues long and C-terminally amidated. The sequence of the C-terminal extremity of NmU is extremely well conserved.; GO: 0006940 regulation of smooth muscle contraction
Probab=20.13 E-value=69 Score=21.59 Aligned_cols=16 Identities=25% Similarity=0.237 Sum_probs=13.2
Q ss_pred hhccCCCCCCccceEE
Q 001215 69 QRVQRGRLIQPFGCMI 84 (1122)
Q Consensus 69 ~~i~~~g~iQp~G~ll 84 (1122)
+..|-||.||+-|+.|
T Consensus 5 ee~QgP~~~qsrgyFl 20 (25)
T PF02070_consen 5 EEFQGPGGIQSRGYFL 20 (25)
T ss_pred hhccCCcccccccEEE
Confidence 3467899999999876
Done!