Query 037299
Match_columns 1111
No_of_seqs 617 out of 3735
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 10:50:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037299.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037299hhsearch_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 4E-144 9E-149 1210.5 63.5 697 88-1106 18-746 (750)
2 TIGR02938 nifL_nitrog nitrogen 100.0 2.7E-50 5.9E-55 487.4 42.8 463 603-1098 4-493 (494)
3 PRK13560 hypothetical protein; 100.0 4.7E-48 1E-52 497.3 54.1 472 591-1100 192-804 (807)
4 PRK11091 aerobic respiration c 100.0 1.1E-44 2.4E-49 463.0 41.1 362 717-1104 138-510 (779)
5 COG5002 VicK Signal transducti 100.0 1.3E-41 2.9E-46 359.0 30.7 344 586-1101 94-450 (459)
6 COG3852 NtrB Signal transducti 100.0 2.5E-36 5.3E-41 315.9 31.0 339 738-1103 11-356 (363)
7 PRK11006 phoR phosphate regulo 100.0 1E-36 2.2E-41 363.0 29.3 336 712-1098 76-422 (430)
8 PRK10618 phosphotransfer inter 100.0 4.8E-35 1E-39 369.1 40.2 330 723-1101 332-674 (894)
9 PRK13557 histidine kinase; Pro 100.0 4.5E-34 9.7E-39 350.4 39.6 352 727-1099 23-394 (540)
10 PRK10841 hybrid sensory kinase 100.0 1E-33 2.2E-38 362.6 42.6 329 727-1101 327-669 (924)
11 PRK11073 glnL nitrogen regulat 100.0 7.4E-34 1.6E-38 328.8 35.3 336 734-1098 7-346 (348)
12 PRK11360 sensory histidine kin 100.0 4.4E-33 9.6E-38 345.7 42.0 347 724-1103 252-603 (607)
13 PF00360 PHY: Phytochrome regi 100.0 4.4E-36 9.6E-41 309.7 12.0 169 401-571 5-178 (182)
14 TIGR02966 phoR_proteo phosphat 100.0 1.4E-33 2.9E-38 323.3 33.9 320 730-1097 2-333 (333)
15 PRK09959 hybrid sensory histid 100.0 1.1E-32 2.4E-37 368.5 40.9 369 716-1102 558-939 (1197)
16 COG2205 KdpD Osmosensitive K+ 100.0 9E-32 2E-36 314.7 26.1 217 872-1102 655-882 (890)
17 COG5000 NtrY Signal transducti 100.0 1.1E-30 2.3E-35 295.4 30.1 328 727-1101 363-708 (712)
18 PRK13559 hypothetical protein; 100.0 2.6E-30 5.6E-35 300.9 33.3 311 730-1098 39-358 (361)
19 PRK09303 adaptive-response sen 100.0 4.8E-30 1.1E-34 299.8 29.5 219 871-1102 145-378 (380)
20 PRK11086 sensory histidine kin 100.0 2.6E-28 5.7E-33 299.7 46.1 346 697-1104 146-538 (542)
21 COG4191 Signal transduction hi 100.0 5.9E-29 1.3E-33 283.6 35.6 202 881-1097 388-599 (603)
22 PRK15053 dpiB sensor histidine 100.0 2.3E-27 4.9E-32 291.7 43.8 345 697-1103 147-541 (545)
23 TIGR02956 TMAO_torS TMAO reduc 100.0 9.8E-29 2.1E-33 324.4 29.5 225 867-1103 454-687 (968)
24 PRK15347 two component system 100.0 9.1E-28 2E-32 313.7 30.5 221 868-1100 389-615 (921)
25 PRK11107 hybrid sensory histid 100.0 1.6E-27 3.4E-32 311.4 30.4 228 869-1103 285-522 (919)
26 PRK11466 hybrid sensory histid 100.0 2.5E-27 5.4E-32 309.0 30.6 222 869-1102 436-665 (914)
27 COG3290 CitA Signal transducti 100.0 1.4E-24 3.1E-29 246.9 42.6 357 689-1104 132-534 (537)
28 PRK10490 sensor protein KdpD; 99.9 5.3E-26 1.1E-30 290.4 30.5 213 874-1100 661-883 (895)
29 PRK13837 two-component VirA-li 99.9 1.8E-24 3.9E-29 277.3 44.7 217 875-1099 448-675 (828)
30 PRK10364 sensor protein ZraS; 99.9 3.1E-25 6.7E-30 266.6 31.1 215 875-1106 235-453 (457)
31 PRK10604 sensor protein RstB; 99.9 3.5E-25 7.6E-30 263.9 27.5 209 873-1104 208-426 (433)
32 PRK10815 sensor protein PhoQ; 99.9 1.5E-24 3.3E-29 260.9 29.1 210 874-1102 263-479 (485)
33 PRK10549 signal transduction h 99.9 5.2E-24 1.1E-28 256.6 27.3 218 873-1105 236-462 (466)
34 PRK10755 sensor protein BasS/P 99.9 8.9E-24 1.9E-28 245.5 28.0 211 876-1104 136-353 (356)
35 TIGR03785 marine_sort_HK prote 99.9 2.4E-23 5.2E-28 260.3 29.8 210 874-1097 482-702 (703)
36 PRK09835 sensor kinase CusS; P 99.9 7.3E-23 1.6E-27 247.8 28.7 211 874-1098 259-479 (482)
37 TIGR01386 cztS_silS_copS heavy 99.9 1.6E-22 3.5E-27 242.8 27.4 208 875-1100 239-457 (457)
38 PF08446 PAS_2: PAS fold; Int 99.9 3E-24 6.6E-29 203.2 8.1 109 86-201 2-110 (110)
39 PRK11100 sensory histidine kin 99.9 3.1E-22 6.6E-27 241.6 27.8 212 876-1102 255-474 (475)
40 PRK09776 putative diguanylate 99.9 2.9E-22 6.4E-27 266.6 30.0 268 590-872 270-537 (1092)
41 PRK10337 sensor protein QseC; 99.9 3.5E-22 7.5E-27 239.7 27.5 206 876-1098 236-448 (449)
42 TIGR02916 PEP_his_kin putative 99.9 4E-22 8.6E-27 250.5 28.9 197 878-1097 476-678 (679)
43 PRK09776 putative diguanylate 99.9 1.1E-22 2.4E-27 270.7 23.9 262 591-866 398-661 (1092)
44 COG4192 Signal transduction hi 99.9 2.5E-22 5.3E-27 219.3 21.3 209 881-1104 455-669 (673)
45 PRK09470 cpxA two-component se 99.9 1.1E-21 2.4E-26 236.0 27.8 211 874-1103 240-459 (461)
46 PRK09467 envZ osmolarity senso 99.9 1.7E-21 3.6E-26 232.8 27.1 202 872-1099 224-433 (435)
47 COG0642 BaeS Signal transducti 99.9 6.4E-21 1.4E-25 216.8 27.8 211 876-1101 114-331 (336)
48 TIGR02040 PpsR-CrtJ transcript 99.9 2.6E-20 5.6E-25 222.8 26.2 243 594-863 124-368 (442)
49 PRK13560 hypothetical protein; 99.8 2.5E-19 5.4E-24 231.0 29.1 261 592-870 56-331 (807)
50 PRK11644 sensory histidine kin 99.8 4.3E-19 9.4E-24 213.7 26.0 191 876-1098 301-493 (495)
51 PRK11359 cyclic-di-GMP phospho 99.8 6E-18 1.3E-22 218.0 25.0 246 603-865 12-257 (799)
52 TIGR02040 PpsR-CrtJ transcript 99.7 2.9E-17 6.2E-22 196.6 20.1 232 608-863 1-247 (442)
53 PRK10935 nitrate/nitrite senso 99.7 5.5E-15 1.2E-19 182.8 31.1 194 878-1104 361-562 (565)
54 PF02518 HATPase_c: Histidine 99.7 1.6E-16 3.5E-21 152.0 11.8 101 988-1098 1-109 (111)
55 PRK10600 nitrate/nitrite senso 99.7 3.8E-15 8.1E-20 184.1 26.9 191 879-1103 364-558 (569)
56 COG3920 Signal transduction hi 99.6 1.2E-13 2.5E-18 147.6 26.5 195 876-1100 18-216 (221)
57 PRK10547 chemotaxis protein Ch 99.6 2E-13 4.4E-18 166.3 23.7 140 949-1101 343-525 (670)
58 COG4585 Signal transduction hi 99.5 1.8E-12 3.8E-17 151.2 24.9 191 875-1101 169-365 (365)
59 PF08448 PAS_4: PAS fold; Int 99.5 4.8E-13 1E-17 126.6 12.1 110 609-724 1-110 (110)
60 PF13426 PAS_9: PAS domain; PD 99.4 7.1E-13 1.5E-17 124.0 12.4 104 613-721 1-104 (104)
61 COG3850 NarQ Signal transducti 99.4 1.6E-10 3.4E-15 131.7 32.4 186 882-1103 374-570 (574)
62 COG3851 UhpB Signal transducti 99.4 1.3E-11 2.9E-16 132.6 21.9 192 876-1100 302-493 (497)
63 PF00989 PAS: PAS fold; Inter 99.4 2.2E-12 4.7E-17 122.7 13.9 112 603-719 1-113 (113)
64 COG4564 Signal transduction hi 99.4 5.9E-11 1.3E-15 126.2 23.3 199 875-1102 249-448 (459)
65 PRK11091 aerobic respiration c 99.4 2.3E-11 5E-16 156.3 24.2 148 590-742 142-289 (779)
66 smart00387 HATPase_c Histidine 99.3 2.2E-11 4.7E-16 114.8 13.1 102 988-1099 1-110 (111)
67 PF13426 PAS_9: PAS domain; PD 99.3 7.3E-12 1.6E-16 117.0 7.8 104 747-858 1-104 (104)
68 PRK04184 DNA topoisomerase VI 99.2 3.4E-11 7.3E-16 142.0 12.5 109 987-1102 31-155 (535)
69 COG0643 CheA Chemotaxis protei 99.2 1.9E-10 4.1E-15 141.1 17.5 159 917-1099 365-573 (716)
70 PF00989 PAS: PAS fold; Inter 99.2 8.8E-11 1.9E-15 111.6 9.9 112 734-856 1-113 (113)
71 PRK13559 hypothetical protein; 99.1 8.6E-10 1.9E-14 128.5 16.4 136 600-740 40-178 (361)
72 PF08448 PAS_4: PAS fold; Int 99.1 1.3E-10 2.9E-15 109.8 7.7 106 747-861 5-110 (110)
73 cd00075 HATPase_c Histidine ki 99.1 5.9E-10 1.3E-14 103.3 12.0 95 993-1096 1-102 (103)
74 PRK14868 DNA topoisomerase VI 99.1 5.3E-10 1.2E-14 134.0 13.4 121 969-1100 23-160 (795)
75 KOG0519 Sensory transduction h 99.1 2.3E-11 5E-16 152.9 1.0 225 874-1103 216-492 (786)
76 PRK10060 RNase II stability mo 99.1 2.4E-09 5.2E-14 134.5 18.9 164 598-766 106-284 (663)
77 TIGR01052 top6b DNA topoisomer 99.1 8E-10 1.7E-14 129.1 13.0 106 986-1100 22-143 (488)
78 PRK13557 histidine kinase; Pro 99.1 1.6E-09 3.4E-14 133.2 16.0 131 598-733 25-158 (540)
79 PRK13558 bacterio-opsin activa 99.0 2.2E-09 4.8E-14 135.5 16.8 137 603-744 148-287 (665)
80 PRK10060 RNase II stability mo 99.0 5.3E-09 1.2E-13 131.3 19.9 167 688-870 70-237 (663)
81 TIGR00229 sensory_box PAS doma 99.0 5.9E-09 1.3E-13 96.1 14.1 120 603-728 3-123 (124)
82 TIGR01925 spIIAB anti-sigma F 99.0 3.9E-09 8.5E-14 104.9 12.3 94 988-1096 35-135 (137)
83 PRK11359 cyclic-di-GMP phospho 99.0 2.6E-08 5.6E-13 128.8 23.1 124 602-730 135-259 (799)
84 PRK04069 serine-protein kinase 98.9 1.1E-08 2.4E-13 104.5 13.2 101 989-1103 39-147 (161)
85 PRK03660 anti-sigma F factor; 98.9 1.2E-08 2.6E-13 102.7 13.2 99 989-1102 36-141 (146)
86 COG3275 LytS Putative regulato 98.9 9.7E-08 2.1E-12 107.5 20.8 130 946-1103 414-553 (557)
87 PRK14867 DNA topoisomerase VI 98.9 1E-08 2.2E-13 123.4 13.4 103 991-1101 35-151 (659)
88 COG3829 RocR Transcriptional r 98.9 2.9E-08 6.4E-13 114.6 15.6 226 606-867 4-230 (560)
89 COG2972 Predicted signal trans 98.8 1.4E-07 3.1E-12 113.0 20.4 183 881-1103 263-454 (456)
90 PF13596 PAS_10: PAS domain; P 98.8 4.1E-08 8.8E-13 92.9 11.4 106 605-720 1-106 (106)
91 PF00512 HisKA: His Kinase A ( 98.8 2.2E-08 4.8E-13 86.5 8.0 65 876-940 1-68 (68)
92 TIGR01924 rsbW_low_gc serine-p 98.7 1.1E-07 2.3E-12 96.9 13.1 101 990-1104 40-148 (159)
93 PF08447 PAS_3: PAS fold; Int 98.7 8E-08 1.7E-12 87.8 10.1 86 625-716 1-91 (91)
94 PRK11360 sensory histidine kin 98.7 4.4E-07 9.5E-12 112.9 18.8 133 594-734 253-386 (607)
95 PF14501 HATPase_c_5: GHKL dom 98.6 3.3E-07 7.1E-12 85.8 12.5 97 989-1100 2-100 (100)
96 PRK13558 bacterio-opsin activa 98.6 3.1E-07 6.7E-12 116.2 16.3 122 736-868 150-274 (665)
97 PF08447 PAS_3: PAS fold; Int 98.6 8E-08 1.7E-12 87.8 7.3 90 759-853 1-91 (91)
98 TIGR00229 sensory_box PAS doma 98.6 2.7E-07 5.8E-12 84.8 10.4 118 734-863 3-121 (124)
99 TIGR02938 nifL_nitrog nitrogen 98.6 9.2E-08 2E-12 115.8 9.0 126 733-869 3-128 (494)
100 cd00130 PAS PAS domain; PAS mo 98.6 1.1E-06 2.3E-11 76.8 12.5 103 612-719 1-103 (103)
101 TIGR02966 phoR_proteo phosphat 98.5 8.3E-07 1.8E-11 101.5 13.5 114 599-730 2-115 (333)
102 PF01590 GAF: GAF domain; Int 98.5 3.6E-07 7.8E-12 92.0 8.2 133 234-376 1-135 (154)
103 PF12860 PAS_7: PAS fold 98.4 7.9E-07 1.7E-11 85.4 9.2 104 609-727 1-115 (115)
104 PRK11073 glnL nitrogen regulat 98.4 2.1E-06 4.7E-11 99.3 13.6 118 603-733 7-125 (348)
105 PRK11388 DNA-binding transcrip 98.4 9.8E-06 2.1E-10 101.6 20.2 220 605-860 64-310 (638)
106 KOG3558 Hypoxia-inducible fact 98.4 1.5E-06 3.3E-11 101.5 10.9 230 602-858 117-378 (768)
107 PF13581 HATPase_c_2: Histidin 98.4 3.4E-06 7.3E-11 82.3 11.8 91 990-1094 29-122 (125)
108 PRK11006 phoR phosphate regulo 98.3 8.7E-06 1.9E-10 97.3 14.7 120 591-730 86-205 (430)
109 COG3829 RocR Transcriptional r 98.2 1.5E-05 3.2E-10 92.8 14.5 169 598-780 112-327 (560)
110 COG2202 AtoS FOG: PAS/PAC doma 98.2 9.6E-05 2.1E-09 75.0 19.1 228 616-861 2-230 (232)
111 cd00130 PAS PAS domain; PAS mo 98.2 9.9E-06 2.1E-10 70.5 9.5 102 747-856 2-103 (103)
112 KOG0787 Dehydrogenase kinase [ 98.2 0.0001 2.2E-09 81.4 18.8 191 897-1098 156-379 (414)
113 PRK10820 DNA-binding transcrip 98.2 2.6E-05 5.7E-10 94.8 15.9 112 598-724 75-190 (520)
114 PRK11086 sensory histidine kin 98.2 2.4E-05 5.2E-10 96.3 15.7 127 596-739 214-343 (542)
115 PF13596 PAS_10: PAS domain; P 98.1 8.8E-06 1.9E-10 76.9 8.2 105 737-857 2-106 (106)
116 PF14598 PAS_11: PAS domain; P 98.0 7.6E-05 1.7E-09 71.1 11.8 101 616-721 5-108 (111)
117 PF12860 PAS_7: PAS fold 97.9 1.4E-05 3E-10 76.7 5.9 108 746-863 4-114 (115)
118 COG1389 DNA topoisomerase VI, 97.9 4.6E-05 9.9E-10 85.9 10.1 102 990-1099 34-150 (538)
119 smart00065 GAF Domain present 97.9 9.8E-05 2.1E-09 71.9 11.5 117 234-376 1-120 (149)
120 COG5000 NtrY Signal transducti 97.9 0.00045 9.8E-09 80.9 18.1 129 589-730 356-485 (712)
121 COG2172 RsbW Anti-sigma regula 97.9 0.00019 4.1E-09 71.6 12.6 96 987-1097 35-139 (146)
122 COG2202 AtoS FOG: PAS/PAC doma 97.7 0.00066 1.4E-08 68.7 14.7 125 595-725 104-231 (232)
123 smart00388 HisKA His Kinase A 97.7 0.00012 2.7E-09 61.5 6.8 62 877-938 2-64 (66)
124 COG3290 CitA Signal transducti 97.6 0.00056 1.2E-08 79.9 13.5 128 596-740 208-338 (537)
125 PF14598 PAS_11: PAS domain; P 97.6 0.00019 4.1E-09 68.4 8.0 100 751-858 6-108 (111)
126 PRK15053 dpiB sensor histidine 97.6 0.00083 1.8E-08 83.0 15.0 126 595-738 214-341 (545)
127 TIGR00585 mutl DNA mismatch re 97.5 0.00045 9.9E-09 78.6 11.3 80 991-1088 21-114 (312)
128 PF13188 PAS_8: PAS domain; PD 97.5 0.00015 3.4E-09 61.4 4.6 43 603-649 1-43 (64)
129 COG5002 VicK Signal transducti 97.3 0.001 2.3E-08 72.8 9.0 66 717-785 93-159 (459)
130 PRK10820 DNA-binding transcrip 97.2 0.0011 2.4E-08 80.8 9.9 110 730-860 76-189 (520)
131 PRK09959 hybrid sensory histid 97.2 0.014 3.1E-07 79.2 21.6 140 591-736 564-705 (1197)
132 PRK11388 DNA-binding transcrip 97.2 0.014 2.9E-07 73.6 19.3 114 598-725 198-312 (638)
133 KOG3559 Transcriptional regula 97.1 0.00087 1.9E-08 73.8 6.8 213 607-843 83-313 (598)
134 cd00082 HisKA Histidine Kinase 97.1 0.0018 4E-08 53.8 7.3 59 877-935 4-64 (65)
135 PF13589 HATPase_c_3: Histidin 97.0 0.00032 6.9E-09 69.7 2.1 91 994-1100 4-106 (137)
136 KOG0501 K+-channel KCNQ [Inorg 96.9 0.0028 6E-08 73.1 9.0 99 622-725 39-139 (971)
137 KOG0501 K+-channel KCNQ [Inorg 96.8 0.0011 2.4E-08 76.2 4.7 99 756-861 39-138 (971)
138 KOG3560 Aryl-hydrocarbon recep 96.8 0.0058 1.3E-07 70.1 10.2 238 606-858 114-385 (712)
139 smart00091 PAS PAS domain. PAS 96.8 0.0042 9.1E-08 49.1 6.8 64 604-668 2-65 (67)
140 COG2203 FhlA FOG: GAF domain [ 96.5 0.0044 9.6E-08 62.3 6.4 123 221-367 7-132 (175)
141 COG2461 Uncharacterized conser 96.5 0.007 1.5E-07 67.7 7.8 115 603-728 290-404 (409)
142 PRK00095 mutL DNA mismatch rep 96.4 0.012 2.6E-07 73.2 10.4 80 991-1088 21-114 (617)
143 PF13188 PAS_8: PAS domain; PD 96.4 0.0023 5E-08 54.2 2.7 36 734-773 1-36 (64)
144 PF08670 MEKHLA: MEKHLA domain 96.3 0.071 1.5E-06 53.0 12.8 110 603-719 32-145 (148)
145 TIGR01817 nifA Nif-specific re 96.3 0.062 1.3E-06 66.1 15.4 120 220-367 7-126 (534)
146 PRK05559 DNA topoisomerase IV 95.9 0.013 2.8E-07 72.7 7.0 93 989-1097 34-147 (631)
147 TIGR02373 photo_yellow photoac 95.9 0.03 6.4E-07 53.3 7.7 63 608-670 21-83 (124)
148 PF13492 GAF_3: GAF domain; PD 95.9 0.054 1.2E-06 52.2 9.9 98 234-367 1-98 (129)
149 KOG1229 3'5'-cyclic nucleotide 95.8 0.011 2.4E-07 66.0 4.9 116 726-852 150-265 (775)
150 PF10090 DUF2328: Uncharacteri 95.6 0.75 1.6E-05 47.8 17.5 172 893-1090 2-177 (182)
151 KOG3558 Hypoxia-inducible fact 95.6 0.027 5.8E-07 67.1 7.3 99 619-722 280-379 (768)
152 PRK05022 anaerobic nitric oxid 95.5 0.53 1.1E-05 57.6 18.5 120 222-367 8-127 (509)
153 COG3604 FhlA Transcriptional r 95.4 0.14 3.1E-06 59.7 12.3 109 233-366 47-158 (550)
154 TIGR01055 parE_Gneg DNA topois 95.4 0.023 5E-07 70.2 6.3 76 989-1076 27-123 (625)
155 TIGR01059 gyrB DNA gyrase, B s 95.3 0.047 1E-06 68.3 8.6 75 990-1076 28-123 (654)
156 COG5385 Uncharacterized protei 95.2 1.9 4.2E-05 42.8 17.2 190 881-1097 19-212 (214)
157 PF13185 GAF_2: GAF domain; PD 95.2 0.087 1.9E-06 52.1 8.7 105 234-365 3-116 (148)
158 TIGR02373 photo_yellow photoac 95.0 0.041 9E-07 52.3 5.3 46 743-788 22-67 (124)
159 PRK05644 gyrB DNA gyrase subun 94.9 0.065 1.4E-06 66.6 8.2 76 989-1076 34-130 (638)
160 PRK10841 hybrid sensory kinase 94.8 1.3 2.7E-05 58.4 20.4 119 592-738 323-442 (924)
161 COG3283 TyrR Transcriptional r 94.8 0.097 2.1E-06 58.2 8.2 55 602-657 79-133 (511)
162 PF07568 HisKA_2: Histidine ki 94.7 0.23 5E-06 43.7 9.1 73 884-964 2-74 (76)
163 COG3852 NtrB Signal transducti 94.4 0.41 8.9E-06 52.5 11.7 112 606-728 10-122 (363)
164 PRK15429 formate hydrogenlyase 94.2 1.7 3.7E-05 55.3 18.9 123 232-376 197-322 (686)
165 KOG1229 3'5'-cyclic nucleotide 93.9 0.04 8.7E-07 61.7 3.0 104 606-714 160-264 (775)
166 PRK05218 heat shock protein 90 93.7 0.19 4.2E-06 62.3 8.8 56 986-1055 23-93 (613)
167 smart00433 TOP2c Topoisomerase 93.5 0.071 1.5E-06 65.9 4.6 48 993-1052 2-50 (594)
168 PRK14939 gyrB DNA gyrase subun 93.4 0.13 2.7E-06 64.6 6.6 49 991-1051 36-85 (756)
169 COG0323 MutL DNA mismatch repa 93.3 0.082 1.8E-06 65.7 4.6 54 992-1058 23-76 (638)
170 PRK10618 phosphotransfer inter 93.1 2.3 5E-05 55.5 17.5 45 594-638 334-379 (894)
171 KOG3753 Circadian clock protei 92.5 0.6 1.3E-05 57.2 10.1 210 615-842 194-421 (1114)
172 COG2461 Uncharacterized conser 92.1 0.26 5.7E-06 55.6 6.1 114 733-863 289-402 (409)
173 PF08670 MEKHLA: MEKHLA domain 91.9 1.3 2.9E-05 44.1 10.2 111 733-855 31-144 (148)
174 COG3284 AcoR Transcriptional a 91.6 1.4 3E-05 53.4 11.7 185 586-782 57-268 (606)
175 KOG0519 Sensory transduction h 90.8 0.7 1.5E-05 59.3 8.9 215 869-1085 378-619 (786)
176 PTZ00272 heat shock protein 83 90.6 0.49 1.1E-05 59.1 7.0 51 996-1055 29-92 (701)
177 smart00091 PAS PAS domain. PAS 90.4 0.32 6.9E-06 37.7 3.6 44 736-782 3-46 (67)
178 TIGR01058 parE_Gpos DNA topois 90.2 0.45 9.7E-06 59.1 6.1 51 990-1052 32-83 (637)
179 smart00086 PAC Motif C-termina 89.8 0.97 2.1E-05 31.2 5.6 40 819-858 3-42 (43)
180 COG0326 HtpG Molecular chapero 89.4 0.56 1.2E-05 56.8 5.9 71 996-1075 31-133 (623)
181 PRK11061 fused phosphoenolpyru 89.3 4.3 9.3E-05 51.9 14.1 116 223-365 8-123 (748)
182 PRK14083 HSP90 family protein; 88.5 0.41 8.9E-06 59.0 4.1 76 986-1074 20-117 (601)
183 PTZ00108 DNA topoisomerase 2-l 88.2 0.94 2E-05 60.3 7.2 92 992-1098 57-175 (1388)
184 smart00086 PAC Motif C-termina 87.9 1.3 2.8E-05 30.5 5.1 35 687-721 8-42 (43)
185 PLN03237 DNA topoisomerase 2; 86.4 1 2.2E-05 59.8 6.0 75 992-1077 77-173 (1465)
186 KOG3559 Transcriptional regula 85.7 1.8 3.9E-05 48.6 6.6 89 613-706 225-313 (598)
187 PTZ00109 DNA gyrase subunit b; 85.3 0.33 7.1E-06 61.2 0.8 50 991-1052 128-178 (903)
188 COG5381 Uncharacterized protei 84.7 2.1 4.5E-05 41.6 5.7 82 991-1086 62-163 (184)
189 PHA02569 39 DNA topoisomerase 84.5 0.79 1.7E-05 56.6 3.6 47 992-1051 45-95 (602)
190 KOG3560 Aryl-hydrocarbon recep 84.2 2.8 6.2E-05 49.0 7.5 95 621-721 291-385 (712)
191 COG0187 GyrB Type IIA topoisom 82.9 0.44 9.6E-06 57.3 0.6 51 991-1053 35-86 (635)
192 KOG3561 Aryl-hydrocarbon recep 82.9 0.67 1.5E-05 57.9 2.1 97 753-857 378-476 (803)
193 PTZ00130 heat shock protein 90 82.9 1.1 2.3E-05 56.4 3.9 48 997-1053 93-153 (814)
194 COG3283 TyrR Transcriptional r 81.6 2.7 5.9E-05 47.2 5.9 45 735-782 81-125 (511)
195 PF07310 PAS_5: PAS domain; I 80.0 10 0.00023 37.4 9.1 86 623-716 51-136 (137)
196 COG3887 Predicted signaling pr 78.7 16 0.00036 44.0 11.3 102 600-732 72-173 (655)
197 PLN03128 DNA topoisomerase 2; 77.0 3.2 6.8E-05 54.8 5.5 50 992-1052 52-103 (1135)
198 PRK15429 formate hydrogenlyase 75.7 2.4E+02 0.0052 36.0 26.5 37 232-269 21-57 (686)
199 PRK14538 putative bifunctional 74.8 74 0.0016 41.2 16.6 45 602-649 101-146 (838)
200 PF14689 SPOB_a: Sensor_kinase 74.7 15 0.00033 30.9 7.2 48 878-929 13-60 (62)
201 KOG1977 DNA mismatch repair pr 73.2 4.7 0.0001 48.8 5.1 54 991-1058 20-73 (1142)
202 KOG1978 DNA mismatch repair pr 69.5 4.3 9.3E-05 49.4 3.7 52 993-1057 21-72 (672)
203 PF08348 PAS_6: YheO-like PAS 64.2 26 0.00057 33.7 7.3 43 686-730 75-117 (118)
204 KOG3561 Aryl-hydrocarbon recep 64.2 5 0.00011 50.5 3.0 97 620-720 379-476 (803)
205 PF07310 PAS_5: PAS domain; I 63.0 30 0.00066 34.1 7.9 86 757-853 51-136 (137)
206 KOG1979 DNA mismatch repair pr 62.5 8.2 0.00018 46.0 4.1 75 995-1087 30-118 (694)
207 PRK14538 putative bifunctional 61.4 1.2E+02 0.0026 39.3 14.6 230 721-1018 82-329 (838)
208 PF08446 PAS_2: PAS fold; Int 60.9 10 0.00022 36.0 3.8 48 615-663 17-68 (110)
209 PF02743 Cache_1: Cache domain 56.4 9.5 0.00021 33.6 2.7 57 692-762 11-68 (81)
210 PF08348 PAS_6: YheO-like PAS 56.1 48 0.001 31.9 7.5 47 814-862 66-112 (118)
211 PF07536 HWE_HK: HWE histidine 54.0 52 0.0011 29.5 7.0 70 884-964 2-71 (83)
212 KOG0355 DNA topoisomerase type 52.6 16 0.00034 45.8 4.4 56 991-1057 52-110 (842)
213 TIGR02916 PEP_his_kin putative 52.4 2E+02 0.0043 36.7 14.7 51 219-272 306-356 (679)
214 KOG3753 Circadian clock protei 46.3 34 0.00073 42.9 5.8 87 616-707 332-423 (1114)
215 COG3887 Predicted signaling pr 44.2 4.3E+02 0.0092 32.6 14.1 38 732-772 73-110 (655)
216 PF14827 Cache_3: Sensory doma 42.5 27 0.00058 33.3 3.5 76 613-720 39-114 (116)
217 COG3284 AcoR Transcriptional a 42.3 80 0.0017 38.8 8.1 99 727-853 67-179 (606)
218 PRK13719 conjugal transfer tra 37.9 44 0.00095 35.6 4.5 38 603-640 19-56 (217)
219 KOG0387 Transcription-coupled 36.5 19 0.00042 44.7 1.8 27 248-296 614-640 (923)
220 PF13192 Thioredoxin_3: Thiore 35.6 42 0.00091 29.3 3.4 25 433-457 52-76 (76)
221 KOG0020 Endoplasmic reticulum 31.1 54 0.0012 38.5 4.1 17 1036-1052 143-159 (785)
222 COG2895 CysN GTPases - Sulfate 28.0 18 0.00038 41.1 -0.3 22 338-360 94-118 (431)
223 PF14827 Cache_3: Sensory doma 27.4 92 0.002 29.6 4.5 72 749-855 41-112 (116)
224 COG2865 Predicted transcriptio 25.8 5E+02 0.011 31.3 10.9 91 995-1101 273-382 (467)
225 COG0813 DeoD Purine-nucleoside 25.0 69 0.0015 34.0 3.3 53 984-1048 17-69 (236)
226 COG1098 VacB Predicted RNA bin 23.9 50 0.0011 31.7 1.8 27 96-122 16-42 (129)
227 PF07730 HisKA_3: Histidine ki 23.4 4.3E+02 0.0094 21.9 7.6 44 877-920 2-47 (68)
228 KOG0019 Molecular chaperone (H 23.3 86 0.0019 38.2 4.0 49 995-1052 60-119 (656)
229 PF10114 PocR: Sensory domain 21.4 5.2E+02 0.011 26.2 9.2 40 598-637 7-46 (173)
230 PF02070 NMU: Neuromedin U; I 20.4 68 0.0015 21.5 1.3 16 89-104 6-21 (25)
No 1
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=100.00 E-value=4.3e-144 Score=1210.47 Aligned_cols=697 Identities=28% Similarity=0.478 Sum_probs=588.6
Q ss_pred hhccCCCCCCccceEEEEeCCCceEEeeccchhhhhCCCCCCCCcchhhhhhhcCCchhhhcCchhHHHHHHHhcccccc
Q 037299 88 SKIQRGGHIQPFGCTIAVDEATFRVIAYSENAGEMLGLAPQSVPNLEKQEILTIGTDVRTLFTSSSSVLLEKAFGAREIT 167 (1111)
Q Consensus 88 ~~i~~~g~iQp~G~ll~~~~~~~~i~~~S~N~~~~lg~~~~~~~~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~ 167 (1111)
++||+||+||||||||++|+.++.|+|+|+||..+||+.|+. ++|+++.++|+.+++..++.++......
T Consensus 18 ePIHipG~IQPHG~Llvl~~~~~~Vlq~S~N~~~~LG~~~e~----------l~~~tl~~vl~~~qv~~l~~~l~~~~~~ 87 (750)
T COG4251 18 EPIHIPGAIQPHGALLVLDEADLMVLQASENCANILGREPED----------LLGRTLGAVLTSEQVPPLQSALTVGGLT 87 (750)
T ss_pred CCccCCCccCCceeEEEeecCCchhhhhhhhHHHHhCCChhh----------hhcCCHHHhcchhhccHHHHhccccCcc
Confidence 579999999999999999999999999999999999998864 6999999999999999999999998888
Q ss_pred cCCcEEEEecCCCceEEEEEEEeCCEEEEEeeeCCCCCCcchhhhhhHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 037299 168 LLNPIWIHSKNTGKPFYAILHRVDVGIVIDLEPARTEDPALSIAGAVQSQKLAVRAISQLQSLPGGDIKLLCDTVVESVR 247 (1111)
Q Consensus 168 ~~~~~~~~~~~~~~~f~~~~h~~~~~~i~e~E~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~l~~~~~~~vr 247 (1111)
..||-.+..+. +..||+++||+++.+|+||||....+. .+ .+.+|.++..++.+||+.+ ++.++|+.+++|||
T Consensus 88 ~~np~~~w~~~-~~~fDv~~HR~~~llIlEfEp~~t~e~-~~---~l~f~h~~k~a~~~lq~a~--~l~~l~~~~tqeVr 160 (750)
T COG4251 88 TLNPTKMWTRK-GGSFDVSAHRSKELLILEFEPAGTGET-AS---FLGFYHLAKLAMNRLQSAA--NLRDLLSRTTQEVR 160 (750)
T ss_pred cCCchhhhhhc-CCceeEEEEecCcEEEEEEecCccccc-cc---ccchHHHHHHHHHHHhcCc--cHHHHHHHHHHHHH
Confidence 88885543333 337999999999999999999754332 22 3357888888999999955 99999999999999
Q ss_pred HhhCCCeEEEEeecCCCCcEEEEEecCCCCCCccCCCCCCCCchHHHHHHHHhCCeeEeeccCCCcceeec--CCCCCCc
Q 037299 248 QLTGYDRVMVYRFHEDEHGEVVAESKRPDLEPYFGLHYPATDIPQASRFLFKQNRVRMIVDCHATPLCVIQ--DEGLMQP 325 (1111)
Q Consensus 248 ~~~g~DRVmiY~F~~d~~G~VvaE~~~~~~~~~lg~~~pa~dip~~ar~ly~~n~~r~i~d~~~~~~~~~~--~~~~~~~ 325 (1111)
++|||||||+|||++||||+||||+++++|+||||+||||||||+|||+||.+|++|+|||+.|+||||+| +|.+++|
T Consensus 161 ~~tGfDRVMlYrF~~d~~G~VIAEak~e~LesyLGl~yPaSDIP~qAR~LY~~N~lRlIpD~~~~~vpv~PavNp~t~~p 240 (750)
T COG4251 161 RMTGFDRVMLYRFDEDGSGEVIAEAKREDLESYLGLRYPASDIPQQARALYIQNPLRLIPDVSYTPVPVLPAVNPETNEP 240 (750)
T ss_pred HhcCCceEEEEeecCCCCccEEeccccccchhhhcccCCcccCCHHHHHHHhcCceeecccccCcccccccccCcccCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999 7999999
Q ss_pred ccccCccccCCChhHHHHHHhcCcceEEEEEEEEcCCCccccC-CCCCccch---------HhhHhhcHHHHHHHH--HH
Q 037299 326 LCLVGSTLRAPHGCHAQYMANMGSIASLALAVIINGNDEEAVG-GRSTTRLW---------AFGLQLNMELQLASQ--LS 393 (1111)
Q Consensus 326 ldls~~~lRsvsp~h~~yl~nmgv~asl~~~i~~~~~~~~~~~-~~~~~~LW---------~~~~~~~~~~~~~~~--~~ 393 (1111)
+|||+|.||||||||+|||+||||+||||||||+||++||+.. +....|+- .||..++++++...+ ..
T Consensus 241 ~DLs~svLRSvSp~H~eYLrNMGV~ASmSISivv~g~LWGLIACHH~sPk~ip~~vR~acef~gq~~s~~i~~~e~~~~~ 320 (750)
T COG4251 241 LDLSYSVLRSVSPIHLEYLRNMGVGASMSISIVVDGKLWGLIACHHQSPKVIPYEVRKACEFFGQVLSMEISALEQSEDA 320 (750)
T ss_pred ccchHHHHhccChHHHHHHHhcCcceeeEEEEEECCeeEEeeeeccCCCccCCHHHHHHHHHHHHHHHHHHHHHhhhhhH
Confidence 9999999999999999999999999999999999988887762 22334443 445444444432211 11
Q ss_pred HHHHH---HHHHHHHHHhccCC-CCccccCCcchhhhccCCEEEEEECCeEEEecCCCCHHHHHHHHHHHHhccCCCeeE
Q 037299 394 EKHVL---RTQTLLCDMLLRDS-PAGIVTQSPSIMDLVKCDGAALYYQGKYYPLGVTPTETQIKDIVEWLLTYHGDSTGL 469 (1111)
Q Consensus 394 ~~~~~---~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~a~g~a~~~~~~~~~~g~~p~~~~i~~l~~~l~~~~~~~~~~ 469 (1111)
+-+.. ....++..|...++ ..+++...++|++|++|||++||++|++.++|.||+..+|..|+.||.+.... .+|
T Consensus 321 d~r~~l~~~~arl~~~ma~~~~~~d~L~~~~~dll~L~~adGaal~fg~~~~~vG~tP~~~~v~~Ll~wl~~~~~~-~vf 399 (750)
T COG4251 321 DYRVQLTEHHARLLRYMAHAADFVDGLIDHQDDLLDLMPADGAALCFGGRWHLVGETPPRPAVQRLLQWLAEREEG-DVF 399 (750)
T ss_pred HHHHHHHHHHHHHHHHHhhhcchhhhhcCCchhhHhhccCCceEEEECCEEEEecCCCChHHHHHHHHHHhcCCcc-cEE
Confidence 11111 12334555655444 68888999999999999999999999999999999999999999999887544 799
Q ss_pred eecccccCCCCCccccccceeeEEEEEeCC--CcEEEEeecCCCcEEEecCCCCCCCC-CCCCCCccccchhHHHHHHHh
Q 037299 470 STDSLADAGYPKAATLGDAVCGMAVAYITK--RDFLFWFRSHTAKEIKWGGAKHHPED-KDDGQRMHPRSSFKAFLEVVK 546 (1111)
Q Consensus 470 ~t~~l~~~~~p~~~~~~~~~~G~l~~~~~~--~~~~~wfr~e~~~~v~Wag~p~~~~~-~~~g~~l~pr~SF~~w~e~v~ 546 (1111)
+||+|++. ||+++.+++.+||||||+|+. ++||+|||||.+++|+|||||+|+.. .++|.|++||+||+.|+|+|+
T Consensus 400 ~TdsL~q~-yPda~~~~~vAsGlLAI~is~~~s~~llWFRpEvv~tV~WGG~P~k~~e~~~~~~rL~PRkSFe~WkE~vR 478 (750)
T COG4251 400 ATDSLSQV-YPDAEDYASVASGLLAIPISRVKSNYLLWFRPEVVQTVNWGGDPEKPYEAGPMGIRLTPRKSFELWKETVR 478 (750)
T ss_pred eecccccc-CcchhhhccccceeEEEEeeccccceEEEEchHHheeeccCCCCCCccccCCCCcccCCcccHHHHHHHHh
Confidence 99999995 999999999999999999997 89999999999999999999999976 455789999999999999999
Q ss_pred ccccCCchhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhcCCcEEEEcCCccEE
Q 037299 547 SRSLPWDNAEMDAIHSLQLILRDSFRDAEASNSKAVVNAQLVDLELQGVDELSSVAREMVRLIETATAPIFAVDVHGCVN 626 (1111)
Q Consensus 547 g~s~pW~~~El~aa~~Lrl~L~~~l~~~~~~~e~~~~~~~l~~~l~~~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~ 626 (1111)
++|.||+..|+++|.+||..+.+...+-. +|+...
T Consensus 479 l~s~PWs~~ei~~A~~LR~aiv~ivl~~a--------------------eela~l------------------------- 513 (750)
T COG4251 479 LQSQPWSEVEIEAALELRKAIVGIVLRHA--------------------EELAQL------------------------- 513 (750)
T ss_pred ccCCCCCHHHHHHHHHHHHHHHHHHHHHH--------------------HHHHHH-------------------------
Confidence 99999999999999999554433321110 000000
Q ss_pred eecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEeccccCCcEEEEEEEeEeeccCC
Q 037299 627 GWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYT 706 (1111)
Q Consensus 627 ~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~ 706 (1111)
T Consensus 514 -------------------------------------------------------------------------------- 513 (750)
T COG4251 514 -------------------------------------------------------------------------------- 513 (750)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccc
Q 037299 707 NNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEV 786 (1111)
Q Consensus 707 G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v 786 (1111)
T Consensus 514 -------------------------------------------------------------------------------- 513 (750)
T COG4251 514 -------------------------------------------------------------------------------- 513 (750)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHH
Q 037299 787 FGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTV 866 (1111)
Q Consensus 787 ~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el 866 (1111)
T Consensus 514 -------------------------------------------------------------------------------- 513 (750)
T COG4251 514 -------------------------------------------------------------------------------- 513 (750)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC---CCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCc
Q 037299 867 QRQQEKKCFARLKELAYICQEIKNPLSGVSFTNSLLEAT---DLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSL 942 (1111)
Q Consensus 867 ~~~~e~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~---~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~ 942 (1111)
++..++.+....+|...++|++++||+.|.+++++|... .++++.++++..+.+....|..||+++ .++++ |..
T Consensus 514 ~r~lersn~el~~f~yv~sHdlqePl~~I~~~a~lL~~~~~~~~d~~~~~~i~~~~~~~~~~~~lidd~l~~s~l--~~~ 591 (750)
T COG4251 514 RRELERSNAELRAFAYVASHDLQEPLRQISNYAQLLSERYSDALDEEAKEFITFISRLTSLMQQLIDDLLTYSKL--GLT 591 (750)
T ss_pred HHHHhhhhHHHHHHHHHhhhhhhHHHHHHHHHHHhhhhccccccChHHHHHHHHHHHHHHHHHHHHHHHhhhhhh--ccc
Confidence 001111111122333446999999999999999999754 578899999999999999999999997 99998 555
Q ss_pred ceeeEeecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEc
Q 037299 943 EFEKAEFLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPT 1022 (1111)
Q Consensus 943 ~l~~~~~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~ 1022 (1111)
.....+.|+.++++.++..+.....+.++++.+.. +| .+.+|+.++.||+.||+.||+||..+...+|+|++...
T Consensus 592 ~~~l~~td~~~vv~~vl~~l~~ri~dtgaei~i~~---lp--~v~~d~~~l~qv~~NLi~Naik~~~~e~~~i~I~~~r~ 666 (750)
T COG4251 592 EAPLQPTDVQKVVDKVLLELSQRIADTGAEIRIAP---LP--VVAADATQLGQVFQNLIANAIKFGGPENPDIEISAERQ 666 (750)
T ss_pred cCCCCCcchHHHHHHHHHhcccccccccceEEecc---cc--eeecCHHHHHHHHHHHHhhheecCCCCCCceEEeeecc
Confidence 56666889999999999999999999999988775 44 69999999999999999999999887458899997766
Q ss_pred cccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCC------CCCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEE
Q 037299 1023 LKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSS------RWMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLI 1095 (1111)
Q Consensus 1023 ~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf------~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~ 1095 (1111)
++ .+.+.|.|||+||++...+++|..| ..+.|+|+||+|||+|++.|+|+||++|.+| |+||.|
T Consensus 667 ed---------~~t~sV~dng~Gi~~a~~~riF~iFqRl~s~~~y~gtG~GL~I~kkI~e~H~G~i~vEs~~gEgsTF~f 737 (750)
T COG4251 667 ED---------EWTFSVRDNGIGIDPAYFERIFVIFQRLHSRDEYLGTGLGLAICKKIAERHQGRIWVESTPGEGSTFYF 737 (750)
T ss_pred CC---------ceEEEecCCCCCcCHHHHHHHHHHHHhcCchhhhcCCCccHHHHHHHHHHhCceEEEeecCCCceeEEE
Confidence 66 7899999999999999999999988 2567999999999999999999999999987 687777
Q ss_pred EEEeeCCCCCC
Q 037299 1096 IFELPMPRRGS 1106 (1111)
Q Consensus 1096 ~L~LP~~~~~~ 1106 (1111)
+ +|..++.+
T Consensus 738 ~--lp~~~~e~ 746 (750)
T COG4251 738 T--LPVGGEEP 746 (750)
T ss_pred E--eecCCcCc
Confidence 5 47766554
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=2.7e-50 Score=487.42 Aligned_cols=463 Identities=11% Similarity=0.045 Sum_probs=349.2
Q ss_pred HHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEE
Q 037299 603 REMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLR 682 (1111)
Q Consensus 603 ~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~ 682 (1111)
+.|+.+++++++++|++|.+|++++||+++++++||++++++|++.. .+.++.........+...+..+.....++.
T Consensus 4 ~~~~~i~~~~~~~i~~~d~~g~~~~~N~~~~~~~G~~~~~~~g~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-- 80 (494)
T TIGR02938 4 EAYRQTVDQAPLAISITDLKANILYANDAFTRITGYTKEEIIGKNES-VLSNHTTPPEVYQALWGSLAEQKPWAGKLL-- 80 (494)
T ss_pred HHHHHHHHhCCceEEEECCCCcEEEEchhheeecCCCHHHHhCCCch-hhcCCCCCHHHHHHHHHHHHhCCcccceee--
Confidence 46899999999999999999999999999999999999999999865 444443333333334444444444333333
Q ss_pred EeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccc
Q 037299 683 TFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEW 762 (1111)
Q Consensus 683 ~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~ 762 (1111)
..+++|..+|+.....|+++.+|.+.+++++++|||++|++++++++++..++.++++++. +++++|.+|+++++
T Consensus 81 --~~~~~g~~~~~~~~~~~~~~~~g~~~~~~~~~~DIt~~k~~e~~l~~~~~~~~~~~~~~~~---~i~~~d~~~~i~~~ 155 (494)
T TIGR02938 81 --NRRKDGELYLAELTVAPVLNEAGETTHFLGMHRDITELHRLEQVVANQKLLIESVVDAAPV---AFVLLDPTGRVILD 155 (494)
T ss_pred --ccCCCccchhhheeeEEEECCCCCEEEEEEehhhhhHHHHHHHHHHHHHHHHHHHHhcccc---eEEEEcCCCCEEEe
Confidence 2468999999999999999999999999999999999999999999999999999999987 89999999999999
Q ss_pred hhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCC-EEEEEEEEeeeec
Q 037299 763 NTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGK-YVQALLTANKRVN 841 (1111)
Q Consensus 763 N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~-~~~v~~~~~pi~d 841 (1111)
|+++++++|+...+..+..+.+. .+++....+...+. .+......+..+...+|. .+|+.....++.+
T Consensus 156 N~~~~~~~g~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 224 (494)
T TIGR02938 156 NQEYKKLATDLRVKEPAHTVLDL--------LREAWREALAENWP---QQLAFSNREARFDRGGGRPARWLSCTGSVIGM 224 (494)
T ss_pred chhHHHhhchhhhhHHHHHHHHH--------hhHHhhhhhhhcch---hhhccccceeeeccCCCceeeEEEecCceEEe
Confidence 99999999998877666543211 11222222211111 111222334455555555 7999998888877
Q ss_pred CCCCE---------EEEEeeeecccHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 037299 842 MEGQI---------VGAFCFLQIASPELQQALTVQRQQEK-------KCFARLKELAYICQEIKNPLSGVSFTNSLLEAT 905 (1111)
Q Consensus 842 ~~G~v---------~g~v~~~~DITer~~~e~el~~~~e~-------~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~ 905 (1111)
..|.+ .+++++++|||++++++++++..+.+ ......+++..++|++||||+.|.++++++...
T Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~DITe~k~~ee~l~~~al~~~~~~~~~~~~l~~~~~~~~h~lr~pL~~i~~~~~~l~~~ 304 (494)
T TIGR02938 225 ESDCADSFFCAAEQPYLLLTIADISNLREEQERARLSALQALMAEEERLEAIRETLSAAIHRLQGPMNLISAAISVLQRR 304 (494)
T ss_pred ecchhhheeccCCCchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcHHHHHHHHHHHHHhc
Confidence 66654 34566889999999888765543222 222334557788899999999999999999764
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccce
Q 037299 906 DLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTL 984 (1111)
Q Consensus 906 ~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~ 984 (1111)
............+.....++..++..+ ++.. ........++|+..++++++..++..+..+++.+.++.+...|
T Consensus 305 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~~~~dl~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~-- 379 (494)
T TIGR02938 305 GDDAGNPASAAMLQQALSAGREHMEALRQVIP---QSPQEIVVPVNLNQILRDVITLSTPRLLAAGIVVDWQPAATLP-- 379 (494)
T ss_pred cccccCHHHHHHHHHHHHHHHHHHHHHHHhhc---cCcccccccccHHHHHHHHHHHhHHHHHhCCCEEEEecCCCCC--
Confidence 332222233333333344444444443 2221 2234456789999999999999999999999999999888776
Q ss_pred EEEecHHHHHHHHHHHHHHHhhcCCCCC---ceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCCCC
Q 037299 985 AVYGDQARIQQVLADFLLNMVRYSPSAE---GWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSRWM 1061 (1111)
Q Consensus 985 ~v~~D~~~L~qVl~nLl~NAik~t~~~~---g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~ 1061 (1111)
.+.+|+.+|+|||.||+.||+||++..+ +.|.|++...++ .+.|+|+|||+|||++.+.++|+||+.+
T Consensus 380 ~v~~d~~~l~~vl~Nl~~NAik~~~~~~~~~~~i~i~~~~~~~---------~~~~~V~D~G~Gi~~~~~~~iF~~f~~~ 450 (494)
T TIGR02938 380 AILGRELQLRSLFKALVDNAIEAMNIKGWKRRELSITTALNGD---------LIVVSILDSGPGIPQDLRYKVFEPFFTT 450 (494)
T ss_pred eeecCHHHHHHHHHHHHHHHHHHhhccCCCcceEEEEEEecCC---------EEEEEEEeCCCCCCHHHHHHhcCCCccc
Confidence 5889999999999999999999987621 346666555444 8899999999999999999999998533
Q ss_pred -----CCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEE
Q 037299 1062 -----TQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFE 1098 (1111)
Q Consensus 1062 -----~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~ 1098 (1111)
+|+||||+|||+||+.|||+|+++|.++ |++|+|+||
T Consensus 451 ~~~~~~G~GlGL~i~~~iv~~~gG~i~~~s~~~~G~~f~i~lp 493 (494)
T TIGR02938 451 KGGSRKHIGMGLSVAQEIVADHGGIIDLDDDYSEGCRIIVEFR 493 (494)
T ss_pred CCCCCCCCcccHHHHHHHHHHcCCEEEEEECCCCCEEEEEEec
Confidence 5999999999999999999999999988 577777665
No 3
>PRK13560 hypothetical protein; Provisional
Probab=100.00 E-value=4.7e-48 Score=497.32 Aligned_cols=472 Identities=16% Similarity=0.168 Sum_probs=368.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHc
Q 037299 591 ELQGVDELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALK 670 (1111)
Q Consensus 591 l~~~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~ 670 (1111)
.++++++|++++++|+.+++++|+++|++|.+|+++++|+++++++||+.++++|+++. ++.++...+.+.......+.
T Consensus 192 rk~ae~~l~~~~~~l~~l~e~~~~~i~~~d~~g~i~~~N~~~~~~~G~~~~e~~g~~~~-~~~~~~~~~~~~~~~~~~~~ 270 (807)
T PRK13560 192 RKRAEERIDEALHFLQQLLDNIADPAFWKDEDAKVFGCNDAACLACGFRREEIIGMSIH-DFAPAQPADDYQEADAAKFD 270 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHhhCCCeEEEEcCCCCEEEEhHHHHHHhCCCHHHHcCCcch-hcCCcchhHHHHHHHHHHhc
Confidence 34566778888999999999999999999999999999999999999999999999998 77777666665555555555
Q ss_pred CCCccceEEEEEEeccccCCcEEEEE--EEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCC
Q 037299 671 GEEDKNVEIKLRTFGAENRKKAVFVV--VNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIP 748 (1111)
Q Consensus 671 ~~~~~~~e~~l~~~~~~~dG~~~~v~--v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~ 748 (1111)
.+....++..+. +++|..+|+. ++..|+.|.+|.+.|++++++|||++|++|++|++++++|+.++++++.
T Consensus 271 ~~~~~~~e~~~~----~~dG~~~~~~~~~~~~~~~~~~g~~~g~~~~~~DITerk~~e~~L~~se~~l~~l~~~~~~--- 343 (807)
T PRK13560 271 ADGSQIIEAEFQ----NKDGRTRPVDVIFNHAEFDDKENHCAGLVGAITDISGRRAAERELLEKEDMLRAIIEAAPI--- 343 (807)
T ss_pred cCCceEEEEEEE----cCCCCEEEEEEEecceEEEcCCCCEEEEEEEEEechHHHHHHHHHHHHHHHHHHHHHhCcc---
Confidence 554444444443 7899998655 4556778999999999999999999999999999999999999999977
Q ss_pred CccccCCCCccccc-hhhhHHHhCCCccccccccccccccc---------------------------------------
Q 037299 749 PIFASDENTCCSEW-NTAMEKLTGWSRGDIIGKMLVGEVFG--------------------------------------- 788 (1111)
Q Consensus 749 ~I~v~D~~g~ii~~-N~a~~~l~G~~~eeliGk~l~~~v~~--------------------------------------- 788 (1111)
+++++|.+|+++++ |+++++++||+.++++|+++.+....
T Consensus 344 ~i~~~d~~g~i~~~nn~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 423 (807)
T PRK13560 344 AAIGLDADGNICFVNNNAAERMLGWSAAEVMGKPLPGMDPELNEEFWCGDFQEWYPDGRPMAFDACPMAKTIKGGKIFDG 423 (807)
T ss_pred cEEEEcCCCCEEEecCHHHHHHhCCCHHHHcCCCccccChhhhhhhhhchhhhcCCcCCcchhhhhhHHHHHhcCCcccC
Confidence 89999999999987 67788899999999988764211000
Q ss_pred --------------------------------------------------------------------------------
Q 037299 789 -------------------------------------------------------------------------------- 788 (1111)
Q Consensus 789 -------------------------------------------------------------------------------- 788 (1111)
T Consensus 424 ~e~~~~~~~g~~~~~~~~~~p~~d~~g~~~~~~~~~~DITerk~~E~~L~~~~~~~e~~~~~i~~~~~~~~~~~~~~~~~ 503 (807)
T PRK13560 424 QEVLIEREDDGPADCSAYAEPLHDADGNIIGAIALLVDITERKQVEEQLLLANLIVENSPLVLFRWKAEEGWPVELVSKN 503 (807)
T ss_pred ceEEEEcCCCCeEEEEEEEeeeECCCCCEEEEEEEeehhhhHHHHHHHHHHHHHHHhcCCceEEEEecCCCceEEEecch
Confidence
Q ss_pred ----------------cccccCChhhHHHHHHHHHhhhC-CCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEe
Q 037299 789 ----------------SCCRLKGPDALTKFMIALHNAFG-GQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFC 851 (1111)
Q Consensus 789 ----------------~~~~l~~~~~~~~~~~~l~~~~~-~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~ 851 (1111)
.+..+.||++...+...+..... +...+..++++.+++|..+|+.....|++|.+|.+.++++
T Consensus 504 ~~~~G~~~~e~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~g~~~~~~e~r~~~~dG~~~w~~~~~~~~~d~~G~~~~~~g 583 (807)
T PRK13560 504 ITQFGYEPDEFISGKRMFAAIIHPADLEQVAAEVAEFAAQGVDRFEQEYRILGKGGAVCWIDDQSAAERDEEGQISHFEG 583 (807)
T ss_pred hhhcCCCHHHhhcccchHhhhcChhhHHHHHHHHHHHHhcCCccceeEEEEEcCCCCEEEEEecceeeeCCCCCEEEEEE
Confidence 00011223333333333333332 2344567889999999999999999999999999999999
Q ss_pred eeecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhh
Q 037299 852 FLQIASPELQQALTVQRQQEKKCFARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKD 931 (1111)
Q Consensus 852 ~~~DITer~~~e~el~~~~e~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~d 931 (1111)
+++|||++|++|.++++. ...+..|++.|+|||||||++|.++++++.....+++...++..+......+..+++.
T Consensus 584 ~~~DITerK~aE~~L~~a----~~~~~~~l~~isHelrnpL~~I~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 659 (807)
T PRK13560 584 IVIDISERKHAEEKIKAA----LTEKEVLLKEIHHRVKNNLQIISSLLDLQAEKLHDEEAKCAFAESQDRICAMALAHEK 659 (807)
T ss_pred EEechHHHHHHHHHHHHH----HHHHHHHHHHhHHHHhChHHHHHHHHHHhhhhcCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999998766543 4457789999999999999999999999988777777777777776666666666655
Q ss_pred ccccccccCCcceeeEeecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCC
Q 037299 932 VDLESIEDGSLEFEKAEFLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSA 1011 (1111)
Q Consensus 932 Ldlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~ 1011 (1111)
+.. .....++++..+++.++..+...+......+.+.++.+... ....+...+.|||.||++||+||+.+.
T Consensus 660 l~~--------~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~il~NLl~NAik~~~~~ 730 (807)
T PRK13560 660 LYQ--------SEDLADIDFLDYIESLTAHLKNSFAIDFGRIDCKIDADDGC-LDIDKAIPCGLIISELLSNALKHAFPD 730 (807)
T ss_pred Hhc--------cccchhccHHHHHHHHHHHHHHHhccccCceEEEEecCccc-cccccccchHHHHHHHHHHHHHhhccC
Confidence 511 12446789999999999999887766655555554443322 233456778999999999999998542
Q ss_pred --CceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEecCC
Q 037299 1012 --EGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSRWMTQEGLGLSMCRKILKLMNGEVQYIRESE 1089 (1111)
Q Consensus 1012 --~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g 1089 (1111)
.|.|+|++....+ ..+.|+|+|||+|||++. ....++||||+|||+||+.|||+|+++|. +
T Consensus 731 ~~~~~i~i~~~~~~~--------~~v~i~V~D~G~GI~~~~--------~~~~~~gLGLai~~~iv~~~gG~I~v~S~-~ 793 (807)
T PRK13560 731 GAAGNIKVEIREQGD--------GMVNLCVADDGIGLPAGF--------DFRAAETLGLQLVCALVKQLDGEIALDSR-G 793 (807)
T ss_pred CCCceEEEEEEEcCC--------CEEEEEEEeCCCcCCccc--------cccccCCccHHHHHHHHHHcCCEEEEEcC-C
Confidence 3678887765422 178999999999999973 23467789999999999999999999996 5
Q ss_pred ceEEEEEEEee
Q 037299 1090 RCYFLIIFELP 1100 (1111)
Q Consensus 1090 gstF~~~L~LP 1100 (1111)
|+||+|+||+.
T Consensus 794 Gt~F~i~lP~~ 804 (807)
T PRK13560 794 GARFNIRFPMS 804 (807)
T ss_pred ceEEEEEecCC
Confidence 78888877553
No 4
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=100.00 E-value=1.1e-44 Score=462.97 Aligned_cols=362 Identities=18% Similarity=0.265 Sum_probs=326.0
Q ss_pred EechhHHHHHHHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCCh
Q 037299 717 QDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGP 796 (1111)
Q Consensus 717 ~DITerK~ae~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~ 796 (1111)
++|+++++++++++++++.++.+++++++ +|+++|.+|++++||+++++++||+.++++|++.. .+.++
T Consensus 138 ~~i~~r~~~~~~l~~~~~~l~~il~~~~~---~i~~~D~~g~i~~~N~a~~~l~G~~~~eliG~~~~--------~l~~~ 206 (779)
T PRK11091 138 NEIKEREETQIELEQQSSLLRSFLDASPD---LVYYRNEDGEFSGCNRAMELLTGKSEKQLIGLTPK--------DVYSP 206 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCcc---eEEEECCCCcEEeEcHHHHHHhCcCHHHHcCCChH--------HhCCH
Confidence 58999999999999999999999999987 89999999999999999999999999999999763 23346
Q ss_pred hhHHHHHHHHHhhhCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHH
Q 037299 797 DALTKFMIALHNAFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFA 876 (1111)
Q Consensus 797 ~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~ 876 (1111)
+....+.......+.++.....+..+..++|+.+|+.++..|+.+.+|.+.|++++++|||++++.+.++++ ..+.
T Consensus 207 ~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~pi~~~~g~~~g~v~~~~DITe~k~~e~~l~~----a~~~ 282 (779)
T PRK11091 207 EAAEKVIETDEKVFRHNVSLTYEQWLDYPDGRKACFELRKVPFYDRVGKRHGLMGFGRDITERKRYQDALEK----ASRD 282 (779)
T ss_pred HHHHHHHHHHHHHHhcCCCeEEEEEEEcCCCCEEEEEEEeeeEEcCCCCEEEEEEEEeehhHHHHHHHHHHH----HHHH
Confidence 666667777777778888888999999999999999999999999999999999999999999988765543 3456
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHH
Q 037299 877 RLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVI 955 (1111)
Q Consensus 877 r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi 955 (1111)
+.+|++.|+|||||||++|.++.+++.+...+++++++++.+..++.++..+++++ ++++++.+...+.+.++++.+++
T Consensus 283 ~~~~~a~isHelrtPL~~I~g~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~~~~~~~~~~~~~~~~l~~~i 362 (779)
T PRK11091 283 KTTFISTISHELRTPLNGIVGLSRILLDTELTAEQRKYLKTIHVSAITLGNIFNDIIDMDKMERRKLQLDNQPIDFTDFL 362 (779)
T ss_pred HHHHHHHhhHhhcCcHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHhCCCcEEEeeccCHHHHH
Confidence 78999999999999999999999999888889999999999999999999999997 99999999999999999999999
Q ss_pred HHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEE
Q 037299 956 NAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHN 1035 (1111)
Q Consensus 956 ~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v 1035 (1111)
+++...+...+..+++.+.++.++++|. .+.+|+.+|.|||.||+.||+||++. |.|.|.+....+ ..+
T Consensus 363 ~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~v~~d~~~l~qvl~NLl~NAik~~~~--g~v~i~~~~~~~--------~~~ 431 (779)
T PRK11091 363 ADLENLSGLQAEQKGLRFDLEPLLPLPH-KVITDGTRLRQILWNLISNAVKFTQQ--GGVTVRVRYEEG--------DML 431 (779)
T ss_pred HHHHHHHHHHHHhcCCEEEEEeCCCCCc-eEEeCHHHHHHHHHHHHHHHHHhCCC--CcEEEEEEEccC--------CEE
Confidence 9999999999999999999998887764 68999999999999999999999975 788888776522 168
Q ss_pred EEEEeeCCCCCChhhhhhccCCCCCC---------CCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCCCC
Q 037299 1036 EFRMVCPGEGLPPELVQDMFHSSRWM---------TQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMPRR 1104 (1111)
Q Consensus 1036 ~i~V~DnG~GIp~e~~~~iFepf~~~---------~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~~~ 1104 (1111)
.|+|.|||+|||++.++++|+||+.+ +|+||||+|||++|+.|||+|+++|.+| |++|+|+||+|....
T Consensus 432 ~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~~~~GtGLGL~i~~~iv~~~gG~i~v~s~~g~Gt~f~i~lP~~~~~~ 510 (779)
T PRK11091 432 TFEVEDSGIGIPEDELDKIFAMYYQVKDSHGGKPATGTGIGLAVSKRLAQAMGGDITVTSEEGKGSCFTLTIHAPAVAE 510 (779)
T ss_pred EEEEEecCCCCCHHHHHHHHHHhhcccCCCCCCCCCCcchHHHHHHHHHHHcCCEEEEEecCCCeEEEEEEEecccccc
Confidence 99999999999999999999998543 4899999999999999999999999987 688999888877654
No 5
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=100.00 E-value=1.3e-41 Score=358.99 Aligned_cols=344 Identities=20% Similarity=0.351 Sum_probs=274.8
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHH
Q 037299 586 QLVDLELQGVDELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLL 665 (1111)
Q Consensus 586 ~l~~~l~~~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l 665 (1111)
.|.+..+.+.+.++...+++.+++-.+.+||+..|..|+|+.+|..+.+++|.+.++++|+++. +++.-++.-.+...
T Consensus 94 ~Lt~~~~~aq~n~e~Er~kL~SvlayMtDGViATdRrG~iI~iN~~A~k~L~~~~E~~~~~~i~-elL~i~d~y~~~dL- 171 (459)
T COG5002 94 DLTKRVQEAQANTEQERRKLDSVLAYMTDGVIATDRRGKIILINKPALKMLGVSKEDALGRSIL-ELLKIEDTYTFEDL- 171 (459)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHcCceEeecCCCcEEEeccHHHHHhCcCHHHHhcccHH-HHhCCccceeHHHH-
Confidence 3455566778888888999999999999999999999999999999999999999999999988 55544433222222
Q ss_pred HHHHcCCCccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCC
Q 037299 666 HHALKGEEDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNP 745 (1111)
Q Consensus 666 ~~~l~~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~ 745 (1111)
..... ++.+... ..++...+.++.+.++-
T Consensus 172 ---~e~~~----s~lld~~---~~~E~~~lrv~Fs~i~r----------------------------------------- 200 (459)
T COG5002 172 ---VEKND----SLLLDSS---DEEEGYVLRVNFSVIQR----------------------------------------- 200 (459)
T ss_pred ---HhcCC----cEEEeec---CCCccEEEEEEEEEEee-----------------------------------------
Confidence 21111 2222211 13444444444444443
Q ss_pred CCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecC
Q 037299 746 LIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDR 825 (1111)
Q Consensus 746 l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~ 825 (1111)
T Consensus 201 -------------------------------------------------------------------------------- 200 (459)
T COG5002 201 -------------------------------------------------------------------------------- 200 (459)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 037299 826 NGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFARLKELAYICQEIKNPLSGVSFTNSLLEAT 905 (1111)
Q Consensus 826 dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~ 905 (1111)
+.|-+.|++.+++|+|++.+.| +++..|++++|||+|+||+++.++++.|++.
T Consensus 201 ----------------EsGfisGlIaVlhDvTEqek~e-----------~ErRefvanvSHElRTPltsmksyLEALe~g 253 (459)
T COG5002 201 ----------------ESGFISGLIAVLHDVTEQEKVE-----------RERREFVANVSHELRTPLTSMKSYLEALEEG 253 (459)
T ss_pred ----------------cccccceeEEEEecccHHHHHH-----------HHHHHHHHhcchhhcCchHHHHHHHHHHhcC
Confidence 4455556666666666543332 2355689999999999999999999999987
Q ss_pred CCCHH--HHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHHHHHHHHHHHhhccCcE-EEeecCCcc
Q 037299 906 DLTED--QKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVINAVVSQVMMLLRERNLQ-LIRDIPEEI 981 (1111)
Q Consensus 906 ~l~e~--~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~~~~~~i~-l~~~~~~~~ 981 (1111)
...+. +.+++....+...||.++++|| .++|++.+...++.+-+|+...+..++..+...+....+. +..+++..
T Consensus 254 a~~d~eiAp~Fl~vt~~ETeRMiRlV~DLl~lsr~d~~~~qln~e~inft~fl~~ii~R~e~~~~~e~~~~~vR~~p~~- 332 (459)
T COG5002 254 AWEDKEIAPRFLRVTLNETERMIRLVNDLLQLSRMDNARYQLNKEWINFTAFLNEIINRFEMILKKETIARFVRDIPKQ- 332 (459)
T ss_pred CccChhhhhHHHHHhHHHHHHHHHHHHHHHHHccCcchhhhhhHHHHHhHHHHHHHHHHHHHHHhhHHHHHHHhcCCCC-
Confidence 66555 7899999999999999999997 9999999999999999999999999999988876555444 55666664
Q ss_pred cceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCC---
Q 037299 982 KTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSS--- 1058 (1111)
Q Consensus 982 ~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf--- 1058 (1111)
+.++..|+..+.||+-|+++||+||+|. +|.|++.+..... +++++|+|+|.|||.+.++++|++|
T Consensus 333 -~~~veiD~DK~tQVldNii~NA~KYsP~-Gg~Itv~~~~~~~---------~v~iSI~D~G~gIPk~d~~~iFdrfyRv 401 (459)
T COG5002 333 -DIWVEIDPDKMTQVLDNIISNALKYSPD-GGRITVSVKQRET---------WVEISISDQGLGIPKEDLEKIFDRFYRV 401 (459)
T ss_pred -ceEEEeChhHHHHHHHHHHHHHhhcCCC-CCeEEEEEeeeCc---------EEEEEEccCCCCCCchhHHHHHHHHhhh
Confidence 3589999999999999999999999999 9999999987666 9999999999999999999999998
Q ss_pred -----CCCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeC
Q 037299 1059 -----RWMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPM 1101 (1111)
Q Consensus 1059 -----~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~ 1101 (1111)
++.+|+||||+|+|.||+.|||.||.+|..| |++|+|+||.-.
T Consensus 402 dkARsR~~gGTGLGLaIakeiV~~hgG~iWA~s~~gkgtt~~ftLPy~~ 450 (459)
T COG5002 402 DKARSRKMGGTGLGLAIAKEIVQAHGGRIWAESEEGKGTTFSFTLPYSG 450 (459)
T ss_pred hhhhhhcCCCCchhHHHHHHHHHHhCCeEEEecccCCceEEEEEecccC
Confidence 3667999999999999999999999999977 577777765433
No 6
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=100.00 E-value=2.5e-36 Score=315.89 Aligned_cols=339 Identities=18% Similarity=0.253 Sum_probs=260.7
Q ss_pred HHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCC-CCcc
Q 037299 738 AIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGG-QDTE 816 (1111)
Q Consensus 738 ~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~-~~~~ 816 (1111)
.+++++.. ++.+.|.++.|.|+|++++.+||.+...+.+..+.+.+ +. . ......+.+.... ....
T Consensus 11 ~~Ln~~~~---pVl~vd~~~~i~yaN~aAe~~~~~Sa~~L~~~~l~~l~-~~------g---s~ll~ll~q~~~~~~~~~ 77 (363)
T COG3852 11 AILNNLIN---PVLLVDDELAIHYANPAAEQLLAVSARRLAGTRLSELL-PF------G---SLLLSLLDQVLERGQPVT 77 (363)
T ss_pred hHHhccCC---ceEEEcCCCcEEecCHHHHHHHHHHHHHHhcCChHHHc-CC------C---cHHHHHHHHHHHhcCCcc
Confidence 45566555 89999999999999999999999999988888764332 11 1 1123344444433 3444
Q ss_pred eeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 037299 817 KFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFARLKELAYICQEIKNPLSGVS 896 (1111)
Q Consensus 817 ~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~r~~~La~isHEIrnPLt~I~ 896 (1111)
.++..+. .+|....+.....|+....|.+. ..++-+....+-..++ ......++-..+.++++|||||||.+|.
T Consensus 78 ~~~v~l~-~~g~~~~v~~~v~~v~~~~G~vl---le~~~~~~~~ridre~--~q~a~~~a~~~L~r~LAHEIKNPL~GiR 151 (363)
T COG3852 78 EYEVTLV-ILGRSHIVDLTVAPVPEEPGSVL---LEFHPRDMQRRLDREQ--TQHAQQRAVKGLVRGLAHEIKNPLGGIR 151 (363)
T ss_pred cceeeee-ecCccceEEEEEeeccCCCCeEE---EEechhHHHhHhhHHH--HHHHHHHHHHHHHHHHHHHhcCcccchh
Confidence 5666665 89999999999999988777654 3333333322222111 1122223444567889999999999999
Q ss_pred HHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhccccccccCCcceeeEeecHHHHHHHHHHHHHHHhhccCcEEEee
Q 037299 897 FTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDVDLESIEDGSLEFEKAEFLLGSVINAVVSQVMMLLRERNLQLIRD 976 (1111)
Q Consensus 897 ~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dLdlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~~~~~~i~l~~~ 976 (1111)
|+++||+....++..+.|.+.|.+.++|+..+++.|.+.. .....+..++|+..+++.+...+...+ ..++.+..+
T Consensus 152 GAAQLLe~~lpd~~~~~lt~lIieE~DRl~~LVDRme~~~---~~rp~~r~~~NIH~VLerV~~lv~~e~-~~~i~l~rd 227 (363)
T COG3852 152 GAAQLLERALPDEALRELTQLIIEEADRLRNLVDRLEVLG---PQRPGDRVPVNIHEVLERVRALVEAEF-ADNVRLIRD 227 (363)
T ss_pred hHHHHHHhhCCChHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCCcccccchHHHHHHHHHHHHhccc-CCceEEeec
Confidence 9999999888788799999999999999999999984443 344556779999999999999998877 567999999
Q ss_pred cCCcccceEEEecHHHHHHHHHHHHHHHhhcCC---CCCceEEEEEEEcccc-CCCCceeEEEEEEEeeCCCCCChhhhh
Q 037299 977 IPEEIKTLAVYGDQARIQQVLADFLLNMVRYSP---SAEGWVEIHVRPTLKQ-SSEGQTIVHNEFRMVCPGEGLPPELVQ 1052 (1111)
Q Consensus 977 ~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~---~~~g~I~I~v~~~~~~-~~~~~~~~~v~i~V~DnG~GIp~e~~~ 1052 (1111)
+++.+|+ +++|+.+|.|+|.||+.||+++.. ..+|.|.+++...... ..+......+.+.|.|||+|||++.++
T Consensus 228 YDPSLP~--v~~d~DqliQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~~i~g~r~rl~l~leViDNGPGVP~~L~~ 305 (363)
T COG3852 228 YDPSLPE--VLGDRDQLIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQLTIAGTRYRLALPLEVIDNGPGVPPDLQD 305 (363)
T ss_pred CCCCCcc--ccCCHHHHHHHHHHHHHHHHHHhcCCCCCCceEEEEeccceEEEccCceeEeeeeeEEecCCCCCChHHhh
Confidence 9999995 999999999999999999999854 3358888887443221 112223346778899999999999999
Q ss_pred hccCCC--CCCCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeCCC
Q 037299 1053 DMFHSS--RWMTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPMPR 1103 (1111)
Q Consensus 1053 ~iFepf--~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~~~ 1103 (1111)
++|.|| .+.+|+||||+|++++|..|||.|+++|.||.|+|+|.+ |..+
T Consensus 306 ~lF~P~Vs~r~~GsGLGLala~~li~qH~G~Ie~~S~Pg~T~Frvll--P~~~ 356 (363)
T COG3852 306 HLFYPMVSGREGGTGLGLALAQNLIDQHGGKIEFDSWPGRTVFRVLL--PIRK 356 (363)
T ss_pred hccccccccCCCCccccHHHHHHHHHhcCCEEEEeccCCceEEEEEe--eccc
Confidence 999998 577899999999999999999999999999999988866 5544
No 7
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=100.00 E-value=1e-36 Score=363.03 Aligned_cols=336 Identities=14% Similarity=0.182 Sum_probs=264.8
Q ss_pred EEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCcccccccccccccccccc
Q 037299 712 VCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCC 791 (1111)
Q Consensus 712 vv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~ 791 (1111)
+..+.++++..++.++++.+.+++|+.+++++++ +|+++|.+|+|+++|+++++++||+.++++|+++...+-
T Consensus 76 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~---~i~~~d~~g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~---- 148 (430)
T PRK11006 76 FYGLYQMQLRNRKRRRELGNLIKRFRSGAESLPD---AVVLTTEEGNIFWCNGLAQQLLGFRWPEDNGQNILNLLR---- 148 (430)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC---eEEEEcCCCceeHHHHHHHHHhCCCChHhCCCcHHHHhc----
Confidence 3455678899999999999999999999999987 899999999999999999999999999999997633221
Q ss_pred ccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHH
Q 037299 792 RLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQE 871 (1111)
Q Consensus 792 ~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e 871 (1111)
..+.. ..+.. . .......+...+|+.. .+...|.. ++ +.+.+++|+|++++.+.
T Consensus 149 ----~~~~~---~~~~~----~-~~~~~~~~~~~~~~~~--~~~~~~~~--~~---~~~~~~~dit~~~~~e~------- 202 (430)
T PRK11006 149 ----YPEFT---QYLKT----R-DFSRPLTLVLNNGRHL--EIRVMPYT--EG---QLLMVARDVTQMHQLEG------- 202 (430)
T ss_pred ----CHHHH---HHHHh----c-ccCCCeEEEcCCCCEE--EEEEEEcC--CC---cEEEEEehhhHHHHHHH-------
Confidence 12211 11111 1 1111223344566544 44444443 22 25678899998665442
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEee
Q 037299 872 KKCFARLKELAYICQEIKNPLSGVSFTNSLLEATD-LTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEF 949 (1111)
Q Consensus 872 ~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~-l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~ 949 (1111)
.+.+|++.++|||||||++|.++++++.... ..+....+++.+.+.+++|..+++++ ++++++.+........+
T Consensus 203 ----~~~~~~~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~r~~~~~~~~~~~~~ 278 (430)
T PRK11006 203 ----ARRNFFANVSHELRTPLTVLQGYLEMMQDQPLEGALREKALHTMREQTQRMEGLVKQLLTLSKIEAAPTIDLNEKV 278 (430)
T ss_pred ----HHHHHHHHhHHHhcchHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccCCcc
Confidence 2446899999999999999999999997654 34566788999999999999999997 99999887766667889
Q ss_pred cHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCC
Q 037299 950 LLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEG 1029 (1111)
Q Consensus 950 ~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~ 1029 (1111)
++..+++.+........ .+++.+.++.++++ .+.+|+.+|.||+.||+.||+||+++ ++.|.|++....+
T Consensus 279 ~~~~~~~~l~~~~~~~~-~~~~~i~~~~~~~~---~i~~d~~~l~~vl~NLl~NAik~~~~-~~~I~i~~~~~~~----- 348 (430)
T PRK11006 279 DVPMMLRVLEREAQTLS-QGKHTITFEVDNSL---KVFGNEDQLRSAISNLVYNAVNHTPE-GTHITVRWQRVPQ----- 348 (430)
T ss_pred CHHHHHHHHHHHHHHHh-cCCcEEEEecCCCc---eEEECHHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEEcCC-----
Confidence 99999888777665554 66788888877654 58899999999999999999999987 6788888876555
Q ss_pred ceeEEEEEEEeeCCCCCChhhhhhccCCCCC--------CCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEE
Q 037299 1030 QTIVHNEFRMVCPGEGLPPELVQDMFHSSRW--------MTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFE 1098 (1111)
Q Consensus 1030 ~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~--------~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~ 1098 (1111)
.+.|+|.|||+|||++.++++|+||+. .+|+||||+|||++++.|||+|+++|.++ |++|+|+||
T Consensus 349 ----~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~~G~GLGL~ivk~iv~~~gG~i~i~s~~~~Gt~f~i~lP 422 (430)
T PRK11006 349 ----GAEFSVEDNGPGIAPEHIPRLTERFYRVDKARSRQTGGSGLGLAIVKHALSHHDSRLEIESEVGKGTRFSFVLP 422 (430)
T ss_pred ----EEEEEEEEcCCCCCHHHHHHhccCcccccCCCCCCCCCCchHHHHHHHHHHHCCCEEEEEecCCCceEEEEEec
Confidence 789999999999999999999999852 24899999999999999999999999887 566666553
No 8
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=100.00 E-value=4.8e-35 Score=369.07 Aligned_cols=330 Identities=16% Similarity=0.187 Sum_probs=261.1
Q ss_pred HHHHHHHHhHHHHHHHHHhCCCCCCCCccccC-CCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHH
Q 037299 723 KLVMDKFIHIQGDYKAIVHSPNPLIPPIFASD-ENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTK 801 (1111)
Q Consensus 723 K~ae~~L~~se~~l~~i~~~~~~l~~~I~v~D-~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~ 801 (1111)
.+..+++++.++.++.++++++. |++++| .+|+++.+|+++++++|...-+-+. .
T Consensus 332 ~~l~~~L~~~~~l~~~Ii~~lp~---Gilv~D~~~~~Ii~~N~aA~~ll~~~~l~~i~---------------------~ 387 (894)
T PRK10618 332 ESMSHELRILRALNEEIVSNLPL---GLLVYDFESNRTVISNKIADHLLPHLNLQKIT---------------------T 387 (894)
T ss_pred hHHHHHHHHHHHHHHHHHHhCCc---eEEEEECCCCeEEEEhHHHHHHhCccchhhHH---------------------H
Confidence 34557788899999999999977 899999 7899999999999999753211000 0
Q ss_pred HHHHHHhhhCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHH---HHHHHHHHHH
Q 037299 802 FMIALHNAFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQR---QQEKKCFARL 878 (1111)
Q Consensus 802 ~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~---~~e~~~~~r~ 878 (1111)
........+. ...+++..++..... .....+++.+++|++++...+.++++ +.+++...|.
T Consensus 388 ~~~~~~~~i~-----------~~i~~~~~eir~~~~-----~~~~~~~l~~l~d~~~~~~~~~~L~~a~~~le~~~~~k~ 451 (894)
T PRK10618 388 MAEQHQGVIQ-----------ATINNELYEIRMFRS-----QLAPRTQLFLLRDQDREVLVNKKLQQAQREYEKNQQARK 451 (894)
T ss_pred HHHhcchhhh-----------hhccCceeEEEEeec-----cccCceEEEEEeehHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0000000000 011222222222221 12223567889999988766555443 4455667889
Q ss_pred HHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHHH
Q 037299 879 KELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVINA 957 (1111)
Q Consensus 879 ~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~~ 957 (1111)
+|++.|+|||||||++|.++++++.....+++..++++.+.++++++..+++++ ++++++++...+...++++.+++++
T Consensus 452 ~fla~iSHELRtPL~aI~g~~elL~~~~~~~~~~~~l~~I~~~~~~L~~lI~dILdlsrle~~~~~l~~~~~~L~~ll~~ 531 (894)
T PRK10618 452 AFLQNIGDELKQPLQSLAQLAAQLRQTSDEEQQQPELDQLAEQSDVLVRLVDNIQLLNMLETQDWKPEQELFSLQDLIDE 531 (894)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccceeECHHHHHHH
Confidence 999999999999999999999999887778889999999999999999999997 9999999999999999999999999
Q ss_pred HHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEE
Q 037299 958 VVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEF 1037 (1111)
Q Consensus 958 v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i 1037 (1111)
++..+...+..+++.+.++.....+ ..+.+|+.+|+|||.||+.||+||++. |.|+|++...... + ..+.|
T Consensus 532 vl~~~~~~a~~k~i~l~~~~~~~~~-~~v~~D~~~L~QVL~NLL~NAik~t~~--G~I~I~v~~~~~~--~----~~l~I 602 (894)
T PRK10618 532 VLPEVLPAIKRKGLQLLIHNHLKAE-QLRIGDRDALRKILLLLLNYAITTTAY--GKITLEVDQDESS--P----DRLTI 602 (894)
T ss_pred HHHHHHHHHHHCCCEEEEEeCCCCC-cEEEecHHHHHHHHHHHHHHHHHhCCC--CeEEEEEEEccCC--C----cEEEE
Confidence 9999999999999999887765444 368899999999999999999999985 8888887654331 1 27899
Q ss_pred EEeeCCCCCChhhhhhccCCCCC-------CCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeC
Q 037299 1038 RMVCPGEGLPPELVQDMFHSSRW-------MTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPM 1101 (1111)
Q Consensus 1038 ~V~DnG~GIp~e~~~~iFepf~~-------~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~ 1101 (1111)
+|+|+|+|||++.++++|+||+. .+|+||||+|||+||+.|||+|+++|.+| |++|+|+||++.
T Consensus 603 ~V~DtG~GI~~e~l~~IFePF~t~~~~~~~~~GtGLGLaI~k~Lve~~GG~I~v~S~~g~GT~F~I~LPl~~ 674 (894)
T PRK10618 603 RILDTGAGVSIKELDNLHFPFLNQTQGDRYGKASGLTFFLCNQLCRKLGGHLTIKSREGLGTRYSIHLKMLA 674 (894)
T ss_pred EEEECCCCCCHHHHHHhcCccccCCCCCCCCCCcChhHHHHHHHHHHcCCEEEEEECCCCcEEEEEEEEccC
Confidence 99999999999999999999953 24999999999999999999999999988 688888777643
No 9
>PRK13557 histidine kinase; Provisional
Probab=100.00 E-value=4.5e-34 Score=350.39 Aligned_cols=352 Identities=18% Similarity=0.171 Sum_probs=277.0
Q ss_pred HHHHhHHHHHHHHHhCCCCCCCCccccCC---CCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHH
Q 037299 727 DKFIHIQGDYKAIVHSPNPLIPPIFASDE---NTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFM 803 (1111)
Q Consensus 727 ~~L~~se~~l~~i~~~~~~l~~~I~v~D~---~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~ 803 (1111)
+.....+..|+.++++++. +|+++|. +|+++++|+++++++||+.++++|+++.. +.++++.....
T Consensus 23 ~~~~~~~~~~~~~~~~~~~---~i~v~d~~~~~g~i~~~N~a~~~~~G~~~~e~~g~~~~~--------l~~~~~~~~~~ 91 (540)
T PRK13557 23 DVSDHRSDIFFAAVETTRM---PMIVTDPNQPDNPIVFANRAFLEMTGYAAEEIIGNNCRF--------LQGPETDRATV 91 (540)
T ss_pred hhhhhhhHHHHHHHHhCcC---cEEEEcCCCCCCCEEEEcHHHHHHhCCCHHHhcCCChHh--------hcCCCCCHHHH
Confidence 3444567889999999876 8999995 78999999999999999999999997532 22344444445
Q ss_pred HHHHhhhCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 037299 804 IALHNAFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFARLKELAY 883 (1111)
Q Consensus 804 ~~l~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~r~~~La~ 883 (1111)
..+...+..+.....++...+++|+.+|+..+..|+.+.+|.+.+++++.+|||++++.+.+++... +......+++.
T Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~i~~~~g~~~~~~~~~~dit~~~~~e~~l~~~~--~~~~l~~~~~~ 169 (540)
T PRK13557 92 AEVRDAIAERREIATEILNYRKDGSSFWNALFVSPVYNDAGDLVYFFGSQLDVSRRRDAEDALRQAQ--KMEALGQLTGG 169 (540)
T ss_pred HHHHHHHHcCCCceEEEEEEeCCCCEEEEEEEEEEeECCCCCEEEEEEEecChHHHHHHHHHHHHHH--HHHHhhhhhhh
Confidence 5555666666666778888899999999999999999999999999999999999888776554332 22344567888
Q ss_pred HHHHhhhHHHHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHHH
Q 037299 884 ICQEIKNPLSGVSFTNSLLEAT-----DLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVINA 957 (1111)
Q Consensus 884 isHEIrnPLt~I~~~~~LL~~~-----~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~~ 957 (1111)
++|++||||+.|.++++++... ...+...+.++.+....+++..+++++ ++++. ..+....+++..+++.
T Consensus 170 i~h~l~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~li~~l~~~~~~----~~~~~~~~~l~~~i~~ 245 (540)
T PRK13557 170 IAHDFNNLLQVMSGYLDVIQAALSHPDADRGRMARSVENIRAAAERAATLTQQLLAFARK----QRLEGRVLNLNGLVSG 245 (540)
T ss_pred hhHHhhhHHHHHHhHHHHHHHhhccCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCc----CCCCCcccCHHHHHHH
Confidence 9999999999999999887532 234566788899999999999999997 77763 2445678999999998
Q ss_pred HHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCC------Cce
Q 037299 958 VVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSE------GQT 1031 (1111)
Q Consensus 958 v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~------~~~ 1031 (1111)
+...+... ..+++.+.+..++..+ .+.+|+.++.|+|.||+.||++|++. ++.|.|++........+ ...
T Consensus 246 ~~~~~~~~-~~~~~~i~~~~~~~~~--~~~~d~~~l~~vl~nll~NA~~~~~~-~~~i~i~~~~~~~~~~~~~~~~~~~~ 321 (540)
T PRK13557 246 MGELAERT-LGDAVTIETDLAPDLW--NCRIDPTQAEVALLNVLINARDAMPE-GGRVTIRTRNVEIEDEDLAMYHGLPP 321 (540)
T ss_pred HHHHHHHh-cCCCeEEEEecCCCCC--ceeeCHHHHHHHHHHHHHHHHHhccc-CCeEEEEEeeeccCccccccccCCCC
Confidence 87766543 3567788887777655 58899999999999999999999987 67787776432110000 001
Q ss_pred eEEEEEEEeeCCCCCChhhhhhccCCCCCC----CCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEe
Q 037299 1032 IVHNEFRMVCPGEGLPPELVQDMFHSSRWM----TQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFEL 1099 (1111)
Q Consensus 1032 ~~~v~i~V~DnG~GIp~e~~~~iFepf~~~----~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~L 1099 (1111)
...+.|+|.|||+|||++.+.++|+||+.+ +|+||||+|||++++.|||+|+++|.+| |++|+|+||+
T Consensus 322 ~~~~~i~v~D~G~Gi~~~~~~~if~~~~~~~~~~~g~GlGL~i~~~~v~~~gG~i~~~s~~~~G~~f~i~lP~ 394 (540)
T PRK13557 322 GRYVSIAVTDTGSGMPPEILARVMDPFFTTKEEGKGTGLGLSMVYGFAKQSGGAVRIYSEVGEGTTVRLYFPA 394 (540)
T ss_pred CCEEEEEEEcCCCCCCHHHHHhccCCCcccCCCCCCCCccHHHHHHHHHHCCCEEEEEecCCCceEEEEEeeC
Confidence 126889999999999999999999998543 4899999999999999999999999987 5666665544
No 10
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=100.00 E-value=1e-33 Score=362.56 Aligned_cols=329 Identities=23% Similarity=0.331 Sum_probs=266.5
Q ss_pred HHHHhHHHHHHHHHhCCCCCCCCccccC-CCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHH
Q 037299 727 DKFIHIQGDYKAIVHSPNPLIPPIFASD-ENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIA 805 (1111)
Q Consensus 727 ~~L~~se~~l~~i~~~~~~l~~~I~v~D-~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~ 805 (1111)
.++.++++.++.+++..+. ++++++ .+|+++..|+.+..++|+...+. ...+...
T Consensus 327 ~~L~e~e~~~r~iv~~~p~---gi~i~~~~~g~~~~~N~~a~~~~~l~~~~~---------------------~~~~~~~ 382 (924)
T PRK10841 327 LRLEEHEQFNRKIVASAPV---GICILRTSDGTNILSNELAHNYLNMLTHED---------------------RQRLTQI 382 (924)
T ss_pred HHHHHHHHHHHHHHHhCCc---cEEEEEcCCCcEEEehHHHHHHhccCChhH---------------------HHHHHHH
Confidence 4678888899999999877 898886 79999999999999998654221 1111111
Q ss_pred HHhhhCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHH---HHHHHHHHHHHHHH
Q 037299 806 LHNAFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQR---QQEKKCFARLKELA 882 (1111)
Q Consensus 806 l~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~---~~e~~~~~r~~~La 882 (1111)
+ ....... ......++....+........ ++ ...++++.|+|++++.+.++++ +.+++.+.|..|++
T Consensus 383 ~----~~~~~~~--~~~~~~~~~~~~i~~~~~~~~---~~-~~~i~~~~Dit~r~~~e~~L~~~~~~~e~a~~~k~~fla 452 (924)
T PRK10841 383 I----CGQQVNF--VDVLTSNNTNLQISFVHSRYR---NE-NVAICVLVDVSARVKMEESLQEMAQAAEQASQSKSMFLA 452 (924)
T ss_pred H----hccccce--eeEEcCCCcEEEEEEEeeeec---Cc-eEEEEEEEEhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 1111111 122334555544444433322 22 2367899999999988877765 34445667888999
Q ss_pred HHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHHHHHHH
Q 037299 883 YICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVINAVVSQ 961 (1111)
Q Consensus 883 ~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~~v~~~ 961 (1111)
.++|||||||++|.++++++.....+++.+++++.+..+++++..+++++ ++++++.+...++..+|++.+++++++..
T Consensus 453 ~iSHELRTPL~~I~g~lelL~~~~~~~~~~~~l~~i~~~~~~L~~lI~dlLd~srie~~~~~l~~~~~~l~~li~~v~~~ 532 (924)
T PRK10841 453 TVSHELRTPLYGIIGNLDLLQTKELPKGVDRLVTAMNNSSSLLLKIISDILDFSKIESEQLKIEPREFSPREVINHITAN 532 (924)
T ss_pred HhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceeeeEEecHHHHHHHHHHH
Confidence 99999999999999999999888888999999999999999999999997 99999999999999999999999999999
Q ss_pred HHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEee
Q 037299 962 VMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVC 1041 (1111)
Q Consensus 962 ~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~D 1041 (1111)
+...+..+++.+.+.++++.+. .+.+|+.+|.|||.||+.||+||++. |.|.|++...++ .+.|+|.|
T Consensus 533 ~~~~~~~k~i~l~~~i~~~~~~-~v~~D~~~L~qvl~NLl~NAik~t~~--G~I~I~v~~~~~---------~l~i~V~D 600 (924)
T PRK10841 533 YLPLVVKKRLGLYCFIEPDVPV-ALNGDPMRLQQVISNLLSNAIKFTDT--GCIVLHVRVDGD---------YLSFRVRD 600 (924)
T ss_pred HHHHHHHcCcEEEEEeCCCCCc-EEEECHHHHHHHHHHHHHHHHhhCCC--CcEEEEEEEeCC---------EEEEEEEE
Confidence 9999999999999888877764 69999999999999999999999986 778888876544 89999999
Q ss_pred CCCCCChhhhhhccCCCCC--------CCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeC
Q 037299 1042 PGEGLPPELVQDMFHSSRW--------MTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPM 1101 (1111)
Q Consensus 1042 nG~GIp~e~~~~iFepf~~--------~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~ 1101 (1111)
+|+|||++.++++|+||+. .+|+||||+||+++++.|||+|+++|.+| |++|+|+||++.
T Consensus 601 tG~GI~~e~~~~lFepF~~~~~~~~~~~~GtGLGL~I~k~lv~~~gG~I~v~S~~g~Gt~F~i~LP~~~ 669 (924)
T PRK10841 601 TGVGIPAKEVVRLFDPFFQVGTGVQRNFQGTGLGLAICEKLINMMDGDISVDSEPGMGSQFTIRIPLYG 669 (924)
T ss_pred cCcCCCHHHHHHHhcccccCCCCCCCCCCCeehhHHHHHHHHHHCCCEEEEEEcCCCcEEEEEEEECCc
Confidence 9999999999999999842 24899999999999999999999999987 677777776643
No 11
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=100.00 E-value=7.4e-34 Score=328.85 Aligned_cols=336 Identities=17% Similarity=0.196 Sum_probs=255.1
Q ss_pred HHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCC
Q 037299 734 GDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQ 813 (1111)
Q Consensus 734 ~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~ 813 (1111)
..++.+++++++ |++++|.+|+|+++|+++++++||+.++++|+++...+ +.. ..+.. .+...+...
T Consensus 7 ~~~~~il~~~~~---gi~~~d~~~~i~~~N~a~~~~~g~~~~~~~g~~~~~~~-~~~-----~~~~~----~~~~~~~~~ 73 (348)
T PRK11073 7 PDAGQILNSLIN---SILLLDDDLAIHYANPAAQQLLAQSSRKLFGTPLPELL-SYF-----SLNIE----LMRESLQAG 73 (348)
T ss_pred chHHHHHhcCcC---eEEEECCCCeEeeEcHHHHHHhCCCHHHHcCCCHHHHc-Ccc-----hhhHH----HHHHHHHcC
Confidence 456788898877 89999999999999999999999999999999864332 110 11111 122233333
Q ss_pred CcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 037299 814 DTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFARLKELAYICQEIKNPLS 893 (1111)
Q Consensus 814 ~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~r~~~La~isHEIrnPLt 893 (1111)
.....+......+|+.+|+.++..|+. + .+++..++|+|++++.+.++.+..+ .....++++.++||+||||+
T Consensus 74 ~~~~~~~~~~~~~g~~~~~~~~~~~~~--~---~~~~~~~~dit~~~~~~~~~~~~~~--~~~~~~~~~~iaHelr~pL~ 146 (348)
T PRK11073 74 QGFTDNEVTLVIDGRSHILSLTAQRLP--E---GMILLEMAPMDNQRRLSQEQLQHAQ--QVAARDLVRGLAHEIKNPLG 146 (348)
T ss_pred CcccccceEEEECCceEEEEEEEEEcc--C---ceeEEEEechhHHHHHHHHHHHHHH--HHHHHHHHHhhhHhhcChHH
Confidence 222222233456999999999999987 2 3456779999998877655443322 23456788999999999999
Q ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHHHHHHHHHHHhhccCcE
Q 037299 894 GVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVINAVVSQVMMLLRERNLQ 972 (1111)
Q Consensus 894 ~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~~~~~~i~ 972 (1111)
+|.++++++.+...+++..+++..+.+.++++..+++++ ++.+.. ....+++..+++.+...+.... .+++.
T Consensus 147 ~i~~~~~~l~~~~~~~~~~~~~~~i~~~~~~l~~lv~~l~~~~~~~------~~~~~~l~~~~~~~~~~~~~~~-~~~i~ 219 (348)
T PRK11073 147 GLRGAAQLLSKALPDPALTEYTKVIIEQADRLRNLVDRLLGPQRPG------THVTESIHKVAERVVQLVSLEL-PDNVR 219 (348)
T ss_pred HHHHHHHHhhhcCCChHHHHHHHHHHHHHHHHHHHHHHHhcccCCC------CCccccHHHHHHHHHHHHhhhc-cCCcE
Confidence 999999999876667788899999999999999999997 554431 2456789999999888777655 45788
Q ss_pred EEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccC-CCCceeEEEEEEEeeCCCCCChhhh
Q 037299 973 LIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQS-SEGQTIVHNEFRMVCPGEGLPPELV 1051 (1111)
Q Consensus 973 l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~-~~~~~~~~v~i~V~DnG~GIp~e~~ 1051 (1111)
+.++.+++.+ .+++|+.+|.||+.||+.||++|+...++.|.|++....... ........+.++|.|||+|||++..
T Consensus 220 i~~~~~~~~~--~i~~d~~~l~~vl~nLl~NA~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~ 297 (348)
T PRK11073 220 LIRDYDPSLP--ELAHDPDQIEQVLLNIVRNALQALGPEGGTITLRTRTAFQLTLHGERYRLAARIDIEDNGPGIPPHLQ 297 (348)
T ss_pred EEEecCCCCC--ceeeCHHHHHHHHHHHHHHHHHHhccCCCeEEEEEccccccccCCccCCceEEEEEEeCCCCCCHHHH
Confidence 8888777665 589999999999999999999998443788888764331100 0111112467999999999999999
Q ss_pred hhccCCCC--CCCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEE
Q 037299 1052 QDMFHSSR--WMTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFE 1098 (1111)
Q Consensus 1052 ~~iFepf~--~~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~ 1098 (1111)
+++|+||+ +..|+||||++|+++++.|||+|+++|.+++++|+|+||
T Consensus 298 ~~iF~~~~~~~~~g~GlGL~i~~~iv~~~gG~i~~~s~~~~~~f~i~lP 346 (348)
T PRK11073 298 DTLFYPMVSGREGGTGLGLSIARNLIDQHSGKIEFTSWPGHTEFSVYLP 346 (348)
T ss_pred hhccCCcccCCCCCccCCHHHHHHHHHHcCCeEEEEecCCceEEEEEEe
Confidence 99999985 445899999999999999999999999988877666654
No 12
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=100.00 E-value=4.4e-33 Score=345.72 Aligned_cols=347 Identities=18% Similarity=0.281 Sum_probs=285.5
Q ss_pred HHHHHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHH
Q 037299 724 LVMDKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFM 803 (1111)
Q Consensus 724 ~ae~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~ 803 (1111)
.+.+++.+.+..++.+++++++ +++++|.+|+++++|+++++++|+++++++|+++.. +++ +.. .+.
T Consensus 252 ~~~~~l~~~~~~~~~i~~~~~~---~i~~~d~~g~i~~~N~~~~~l~g~~~~~~~g~~~~~-~~~-------~~~--~~~ 318 (607)
T PRK11360 252 NLAQALRETRSLNELILESIAD---GVIAIDRQGKITTMNPAAEVITGLQRHELVGKPYSE-LFP-------PNT--PFA 318 (607)
T ss_pred HHHHHHHHHHHHHHHHHHhccC---eEEEEcCCCCEEEECHHHHHHhCCChHHhcCCcHHH-HcC-------Cch--hHH
Confidence 3446677788888999998877 899999999999999999999999999999987632 221 111 112
Q ss_pred HHHHhhh-CCCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 037299 804 IALHNAF-GGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFARLKELA 882 (1111)
Q Consensus 804 ~~l~~~~-~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~r~~~La 882 (1111)
..+...+ .+......++.+..++|... +.++..|+.+.+|++.|++++++|+|++++.+.++++..+. ....++++
T Consensus 319 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~~~~g~~~~~i~~~~Dite~~~~e~~l~~~~~~--~~l~~~~~ 395 (607)
T PRK11360 319 SPLLDTLEHGTEHVDLEISFPGRDRTIE-LSVSTSLLHNTHGEMIGALVIFSDLTERKRLQRRVARQERL--AALGELVA 395 (607)
T ss_pred HHHHHHHhcCCCccceEEEEEcCCCcEE-EEEEEeeEEcCCCCEEEEEEEEeechHHHHHHHHHHHHHHH--HHHHHHHH
Confidence 2222222 34444566788888888887 89999999999999999999999999999988777664433 23557899
Q ss_pred HHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHHHHHHH
Q 037299 883 YICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVINAVVSQ 961 (1111)
Q Consensus 883 ~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~~v~~~ 961 (1111)
.++||++|||+.|.++++++.......+..++++.+.+..+++..+++++ ++++... ....++++..+++.+...
T Consensus 396 ~~~hel~~~l~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~~~~~~~~~~~ 471 (607)
T PRK11360 396 GVAHEIRNPLTAIRGYVQIWRQQTSDPPSQEYLSVVLREVDRLNKVIDQLLEFSRPRE----SQWQPVSLNALVEEVLQL 471 (607)
T ss_pred HHHHHhhhHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHHHHHHHHHHhhCCCc----CccceecHHHHHHHHHHH
Confidence 99999999999999999998877667788899999999999999999997 8877543 245789999999999999
Q ss_pred HHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEee
Q 037299 962 VMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVC 1041 (1111)
Q Consensus 962 ~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~D 1041 (1111)
+......+++.+.++.+++.+ .+.+|+..|++++.||+.||++|++. +|.|.|++....+ ..+.|+|+|
T Consensus 472 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~l~~~~~nli~na~~~~~~-~~~i~v~~~~~~~--------~~~~i~v~D 540 (607)
T PRK11360 472 FQTAGVQARVDFETELDNELP--PIWADPELLKQVLLNILINAVQAISA-RGKIRIRTWQYSD--------GQVAVSIED 540 (607)
T ss_pred HHHhhhccCcEEEEEcCCCCC--eEEECHHHHHHHHHHHHHHHHHHhcC-CCeEEEEEEEcCC--------CEEEEEEEe
Confidence 988877788999888877765 58899999999999999999999877 7899998866544 028999999
Q ss_pred CCCCCChhhhhhccCCCC--CCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCCC
Q 037299 1042 PGEGLPPELVQDMFHSSR--WMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMPR 1103 (1111)
Q Consensus 1042 nG~GIp~e~~~~iFepf~--~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~~ 1103 (1111)
||+|||++.++++|+||+ +..|+||||++||++++.|||+|+++|.+| |++|+|+| |...
T Consensus 541 ~G~G~~~~~~~~~f~~~~~~~~~g~glGL~~~~~~~~~~~G~i~~~s~~~~Gt~~~i~l--p~~~ 603 (607)
T PRK11360 541 NGCGIDPELLKKIFDPFFTTKAKGTGLGLALSQRIINAHGGDIEVESEPGVGTTFTLYL--PINP 603 (607)
T ss_pred CCCCCCHHHHhhhcCCceeCCCCCCchhHHHHHHHHHHcCCEEEEEEcCCCceEEEEEe--cCCC
Confidence 999999999999999984 456899999999999999999999999988 67666655 5543
No 13
>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=4.4e-36 Score=309.71 Aligned_cols=169 Identities=36% Similarity=0.719 Sum_probs=140.3
Q ss_pred HHHHHH-HhccCC-CCccccCCcchhhhccCCEEEEEECCeEEEecCCCCHHHHHHHHHHHHhccCCCeeEeecccccCC
Q 037299 401 QTLLCD-MLLRDS-PAGIVTQSPSIMDLVKCDGAALYYQGKYYPLGVTPTETQIKDIVEWLLTYHGDSTGLSTDSLADAG 478 (1111)
Q Consensus 401 ~~~~~~-~~~~~~-~~~~~~~~~~l~~~~~a~g~a~~~~~~~~~~g~~p~~~~i~~l~~~l~~~~~~~~~~~t~~l~~~~ 478 (1111)
++.+.. |..... ..++..+.++||++++|||+||+++|+++++|.||++++|++|++||..... ..+|+||+|++ .
T Consensus 5 ~~~L~~~~~~~~~~~~~l~~~~~~ll~l~~AdG~al~~~g~~~~~G~~P~~~~i~~L~~wl~~~~~-~~v~~T~~L~~-~ 82 (182)
T PF00360_consen 5 QQRLLEALSSSRDLLEALISQAPDLLDLVDADGVALVIDGEVYTFGETPPEEQIRALAEWLREQAD-GEVFATDSLSE-D 82 (182)
T ss_dssp HHHHHHHHHCSSSHHHHHCTTCCCHHHCTT-SEEEEEETTEEEEEESS--HHHHHHHHHHCCCTTT--SEEEESBGGG-T
T ss_pred HHHHHHHHccCCChhHhhHhccHHHHhhccCCEEEEEECCEEEEecCCcCHHHHHHHHHHHHhhCC-CccchhhhHhH-h
Confidence 333344 433333 5788889999999999999999999999999999999999999999997744 47999999998 5
Q ss_pred CCCccccccceeeEEEEEeCC--CcEEEEeecCCCcEEEecCCCCCCCCCC-CCCCccccchhHHHHHHHhccccCCchh
Q 037299 479 YPKAATLGDAVCGMAVAYITK--RDFLFWFRSHTAKEIKWGGAKHHPEDKD-DGQRMHPRSSFKAFLEVVKSRSLPWDNA 555 (1111)
Q Consensus 479 ~p~~~~~~~~~~G~l~~~~~~--~~~~~wfr~e~~~~v~Wag~p~~~~~~~-~g~~l~pr~SF~~w~e~v~g~s~pW~~~ 555 (1111)
||++..+.+.+||||+++|++ ++||+|||+|+.++|+|||||+|++..+ +|.+++||+||++|+|+|+|+|.||+..
T Consensus 83 ~p~~~~~~~~aaGvLai~l~~~~~~~l~wFR~E~~~~v~WaG~P~k~~~~~~~~~~l~PR~SF~~W~E~v~g~S~pW~~~ 162 (182)
T PF00360_consen 83 YPDAAALAERAAGVLAIPLSSEPRDYLLWFRPEQVQTVNWAGNPEKPVEVDPGGVRLSPRKSFEAWRETVRGRSLPWSDA 162 (182)
T ss_dssp SGGGGGGCCCHSEEEEEEECTTCCEEEEEEE-S--ECEEECSSCGGSCEEECTCCCCCCHCHHHCCCCCCTTBBS---HH
T ss_pred ChhhhhhcccCCCcEEEECCCCCCceEEEEecCcceEEEeCCCCCccccCCCCCCCCCChHHHHHHHhHhcCcCCCCCHH
Confidence 999999999999999999986 6899999999999999999999997654 4779999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q 037299 556 EMDAIHSLQLILRDSF 571 (1111)
Q Consensus 556 El~aa~~Lrl~L~~~l 571 (1111)
|++++..|+..|...+
T Consensus 163 d~~~A~~lr~~l~~~~ 178 (182)
T PF00360_consen 163 DLEAAERLRRALLEVI 178 (182)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 9999999976665554
No 14
>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=1.4e-33 Score=323.28 Aligned_cols=320 Identities=17% Similarity=0.231 Sum_probs=264.2
Q ss_pred HhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhh
Q 037299 730 IHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNA 809 (1111)
Q Consensus 730 ~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~ 809 (1111)
.+..++++.++++++. +|+++|.+|++++||+++++++|+++++++|+++.+... +++ +...+..
T Consensus 2 ~~~~~~l~~~~~~~~~---~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~--------~~~---~~~~l~~- 66 (333)
T TIGR02966 2 SALLSRFRAAAQALPD---AVVVLDEEGQIEWCNPAAERLLGLRWPDDLGQRITNLIR--------HPE---FVEYLAA- 66 (333)
T ss_pred hhHHHHHHHHHHhCcC---cEEEECCCCcEEEEcHHHHHHhCCChHHHcCCcHHHHcc--------CHH---HHHHHHh-
Confidence 4567789999999987 899999999999999999999999999999988643322 222 2222222
Q ss_pred hCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 037299 810 FGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFARLKELAYICQEIK 889 (1111)
Q Consensus 810 ~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~r~~~La~isHEIr 889 (1111)
... .....+..++|..+|+.+...|+.+.+ ++.+++|||++++.+. .+.++++.++|+++
T Consensus 67 ---~~~-~~~~~~~~~~~~~~~~~~~~~p~~~~~-----~~~~~~dit~~~~~~~-----------~~~~~~~~l~h~l~ 126 (333)
T TIGR02966 67 ---GRF-SEPLELPSPINSERVLEIRIAPYGEEQ-----KLLVARDVTRLRRLEQ-----------MRRDFVANVSHELR 126 (333)
T ss_pred ---ccc-CCCeEeecCCCCceEEEEEEEEcCCCc-----eEEEEeCchHHHHHHH-----------HHHHHHHhhhhhhc
Confidence 111 223556668899999999999987653 6788999998765442 23357889999999
Q ss_pred hHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHHHHHHHHHHHh
Q 037299 890 NPLSGVSFTNSLLEAT--DLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVINAVVSQVMMLL 966 (1111)
Q Consensus 890 nPLt~I~~~~~LL~~~--~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~~ 966 (1111)
|||+.|.++.+++... ...+...++++.+....+++..+++++ ++.+++.+.......++++.+++..++..+...+
T Consensus 127 ~pL~~i~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~l~~~i~~l~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~~ 206 (333)
T TIGR02966 127 TPLTVLRGYLETLADGPDEDPEEWNRALEIMLEQSQRMQSLVEDLLTLSRLESAASPLEDEPVDMPALLDHLRDEAEALS 206 (333)
T ss_pred ccHHHHHHHHHHHHhcccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccccccCHHHHHHHHHHHHHHHH
Confidence 9999999999988654 445667788999999999999999997 9999888778888999999999999999999999
Q ss_pred hccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCC
Q 037299 967 RERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGL 1046 (1111)
Q Consensus 967 ~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GI 1046 (1111)
..+++.+.+..++. ..+.+|+..|.+||.||+.||++|++. ++.|.|++....+ .+.|.|.|||+||
T Consensus 207 ~~~~i~i~~~~~~~---~~~~~d~~~l~~vl~nll~Nai~~~~~-~~~i~i~~~~~~~---------~~~i~i~d~G~gi 273 (333)
T TIGR02966 207 QGKNHQITFEIDGG---VDVLGDEDELRSAFSNLVSNAIKYTPE-GGTITVRWRRDGG---------GAEFSVTDTGIGI 273 (333)
T ss_pred HHcCcEEEEcCCCC---ceEEECHHHHHHHHHHHHHHhheeCCC-CCeEEEEEEEcCC---------EEEEEEEecCCCC
Confidence 99999998887433 378999999999999999999999887 6788888876655 6899999999999
Q ss_pred ChhhhhhccCCCC--------CCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEE
Q 037299 1047 PPELVQDMFHSSR--------WMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIF 1097 (1111)
Q Consensus 1047 p~e~~~~iFepf~--------~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L 1097 (1111)
|++.++++|+||+ ...|+||||++|+.+++.|||+|++.|.++ |++|+|+|
T Consensus 274 ~~~~~~~if~~~~~~~~~~~~~~~g~glGL~~~~~~~~~~gG~i~~~s~~~~Gt~~~i~l 333 (333)
T TIGR02966 274 APEHLPRLTERFYRVDKSRSRDTGGTGLGLAIVKHVLSRHHARLEIESELGKGSTFSFIF 333 (333)
T ss_pred CHHHHhhhccCceecCcccccCCCCCcccHHHHHHHHHHCCCEEEEEecCCCCeEEEEEC
Confidence 9999999999984 235889999999999999999999999887 57776653
No 15
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=100.00 E-value=1.1e-32 Score=368.53 Aligned_cols=369 Identities=16% Similarity=0.174 Sum_probs=271.0
Q ss_pred EEechhHHHHHHHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCC
Q 037299 716 GQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKG 795 (1111)
Q Consensus 716 ~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~ 795 (1111)
.++++.++.++.+++..+..++.++++++. ||+++|.+|+|+++|+++++++|.+.....+....... .. .
T Consensus 558 ~~~i~~r~~~~~~l~~~~~~~~~i~~~~~~---~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~----~~--~ 628 (1197)
T PRK09959 558 LRSVRRRKVIQGDLENQISFRKALSDSLPN---PTYVVNWQGNVISHNSAFEHYFTADYYKNAMLPLENSD----SP--F 628 (1197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhCCC---cEEEEcCCCcEEEehHHHHHHhCccccccccccccccc----Cc--h
Confidence 478899999999999999999999999877 89999999999999999999999875433322211000 00 0
Q ss_pred hhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCEEEEE-EEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHH---HHH
Q 037299 796 PDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKYVQAL-LTANKRVNMEGQIVGAFCFLQIASPELQQALTVQR---QQE 871 (1111)
Q Consensus 796 ~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~v~-~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~---~~e 871 (1111)
.+.................. ....+...+|....+. ....+.....+...++++.++|||+.++.+.+++. +..
T Consensus 629 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dite~~~~~~~l~~~~~~~~ 706 (1197)
T PRK09959 629 KDVFSNAHEVTAETKENRTI--YTQVFEIDNGIEKRCINHWHTLCNLPASDHAVYICGWQDITETRDLIHALEVERNKAI 706 (1197)
T ss_pred hhhHhHHHHHHHHHhhcccc--ceeeEeeecCccceeeeeeeeeeccCCCCceEEEEEEEehhHHHHHHHHHHHHHHHHH
Confidence 01010000111111111111 1222223344322222 22222223345556788889999998877655544 333
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEee
Q 037299 872 KKCFARLKELAYICQEIKNPLSGVSFTNSLLEATDLTE-DQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEF 949 (1111)
Q Consensus 872 ~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e-~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~ 949 (1111)
++...+.+|++.++|||||||++|.++++++.....++ ...++++.+..+.+++..+++++ ++++++.+...+...++
T Consensus 707 ~~~~~~~~~~~~isHelrtPL~~i~~~~~ll~~~~~~~~~~~~~l~~~~~~~~~l~~li~~ll~~~~~~~~~~~~~~~~~ 786 (1197)
T PRK09959 707 NATVAKSQFLATMSHEIRTPISSIMGFLELLSGSGLSKEQRVEAISLAYATGQSLLGLIGEILDVDKIESGNYQLQPQWV 786 (1197)
T ss_pred HHHHHHHHHHHhcChhhCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeeeeee
Confidence 44567888999999999999999999999997655444 44568888889999999999997 99999999999999999
Q ss_pred cHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCC
Q 037299 950 LLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEG 1029 (1111)
Q Consensus 950 ~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~ 1029 (1111)
++.+++++++..+...+..+++.+.+...... ...+.+|+.+|.|||.||+.||+||++. |.+.|.+.......
T Consensus 787 ~l~~~i~~~~~~~~~~~~~~~i~~~~~~~~~~-~~~v~~d~~~l~qvl~NLl~NAik~~~~--g~i~i~~~~~~~~~--- 860 (1197)
T PRK09959 787 DIPTLVQNTCHSFGAIAASKSIALSCSSTFPD-HYLVKIDPQAFKQVLSNLLSNALKFTTE--GAVKITTSLGHIDD--- 860 (1197)
T ss_pred CHHHHHHHHHHHHHHHHHhcCcEEEEecCCCC-ceEEEECHHHHHHHHHHHHHHHHHhCCC--CCEEEEEEEeeecC---
Confidence 99999999999999999999998877643221 1368999999999999999999999986 66666554321100
Q ss_pred ceeEEEEEEEeeCCCCCChhhhhhccCCCCCC------CCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCC
Q 037299 1030 QTIVHNEFRMVCPGEGLPPELVQDMFHSSRWM------TQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMP 1102 (1111)
Q Consensus 1030 ~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~------~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~ 1102 (1111)
....+.|+|.|||+|||++.++++|+||+.+ +|+||||+|||++++.|||+|+++|.+| |++|+|+||++..
T Consensus 861 -~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~~~Gt~f~i~lP~~~~ 939 (1197)
T PRK09959 861 -NHAVIKMTIMDSGSGLSQEEQQQLFKRYSQTSAGRQQTGSGLGLMICKELIKNMQGDLSLESHPGIGTTFTITIPVEIS 939 (1197)
T ss_pred -CceEEEEEEEEcCCCCCHHHHHHhhccccccccCCCCCCcCchHHHHHHHHHHcCCEEEEEeCCCCcEEEEEEEEcccc
Confidence 1126789999999999999999999998532 4899999999999999999999999987 6888887776543
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=100.00 E-value=9e-32 Score=314.70 Aligned_cols=217 Identities=18% Similarity=0.366 Sum_probs=191.1
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCCH-HHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeE
Q 037299 872 KKCFARLKELAYICQEIKNPLSGVSFTNSLLEA--TDLTE-DQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKA 947 (1111)
Q Consensus 872 ~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~--~~l~e-~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~ 947 (1111)
++.+-+..+|+.|||+|||||++|.|.++.|.. ..+++ +..+++..|.+.++++.+++++| |++|+++|.+.++..
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 344567778999999999999999999998864 33444 47889999999999999999996 999999999999999
Q ss_pred eecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCC
Q 037299 948 EFLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSS 1027 (1111)
Q Consensus 948 ~~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~ 1027 (1111)
+..+.+++.+++..+......+ .+.++++.+++ .+.+|...|+|||.||+.||+||+|+ +..|.|.+....+
T Consensus 735 ~~~veEvVg~Al~r~~k~~~~~--~i~v~~~~dl~--li~~D~~LieQVLiNLleNA~Kyap~-~s~I~I~~~~~~~--- 806 (890)
T COG2205 735 WVLVEEVVGEALQRLRKRFTGH--KIVVSVPVDLP--LIHVDSPLIEQVLINLLENALKYAPP-GSEIRINAGVERE--- 806 (890)
T ss_pred hhhHHHHHHHHHHHhhhhcCCc--eEEEecCCCCc--eEecCHHHHHHHHHHHHHHHHhhCCC-CCeEEEEEEEecc---
Confidence 9999999999999888776555 47778888887 79999999999999999999999998 7789999988776
Q ss_pred CCceeEEEEEEEeeCCCCCChhhhhhccCCCC------CCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEee
Q 037299 1028 EGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR------WMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELP 1100 (1111)
Q Consensus 1028 ~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~------~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP 1100 (1111)
.++|.|.|+|+|||++.+++||++|+ ...|+||||+||+.||+.|||+|++.+.++ |++|+|+||.+
T Consensus 807 ------~v~~~V~DeGpGIP~~~~~~IFD~F~r~~~~~~~~G~GLGLsIc~~iv~ahgG~I~a~~~~~gGa~f~~~LP~~ 880 (890)
T COG2205 807 ------NVVFSVIDEGPGIPEGELERIFDKFYRGNKESATRGVGLGLAICRGIVEAHGGTISAENNPGGGAIFVFTLPVE 880 (890)
T ss_pred ------eEEEEEEeCCCCCChhHHHHhhhhhhcCCCCCCCCCccccHHHHHHHHHHcCCeEEEEEcCCCceEEEEEeecC
Confidence 89999999999999999999999984 334899999999999999999999998755 68888877665
Q ss_pred CC
Q 037299 1101 MP 1102 (1111)
Q Consensus 1101 ~~ 1102 (1111)
..
T Consensus 881 ~~ 882 (890)
T COG2205 881 ED 882 (890)
T ss_pred CC
Confidence 44
No 17
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=99.98 E-value=1.1e-30 Score=295.39 Aligned_cols=328 Identities=15% Similarity=0.204 Sum_probs=247.2
Q ss_pred HHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHH
Q 037299 727 DKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIAL 806 (1111)
Q Consensus 727 ~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l 806 (1111)
+++.+..+.++.+++..+. |++.+|.+|++.-+|+++++++|.+-++++|.++ ..-...+..++
T Consensus 363 ~~~e~rr~f~E~VLsgvta---GVi~~d~~g~i~t~N~~ae~~l~~~~~~~~G~~l-------------sa~ap~~~~vf 426 (712)
T COG5000 363 DALEQRRRFLEAVLSGLTA---GVIGFDNRGCITTVNPSAEQILGKPFDQLLGQSL-------------SAIAPELEEVF 426 (712)
T ss_pred HHHHHHHHHHHHHHhcCce---eEEEEcCCCeeEeecchHHHHhcCChhHhhcchh-------------hhhhhHHHHHH
Confidence 3445555566778777766 9999999999999999999999999999999886 22223333344
Q ss_pred HhhhCCC-CcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 037299 807 HNAFGGQ-DTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFARLKELAYIC 885 (1111)
Q Consensus 807 ~~~~~~~-~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~r~~~La~is 885 (1111)
..+-... .....+..+. +.|+.+.+.+..+....+ +--|++.++.|||+-..++ ++.+-......|+
T Consensus 427 ~~~~a~~~~~~~~ev~~~-r~g~~rtl~Vq~t~~~~d--~~~gyVvt~DDITdLV~AQ---------Rs~AW~dVArRIA 494 (712)
T COG5000 427 AEAGAAARTDKRVEVKLA-REGEERTLNVQATREPED--NGNGYVVTFDDITDLVIAQ---------RSAAWGDVARRIA 494 (712)
T ss_pred HHhhhhcCCCccceeecc-cCCCceeeeeeeeecccc--cCCceEEEecchHHHHHHH---------HHHHHHHHHHHHH
Confidence 3333332 2334444444 445556666655544322 2346889999999866555 3344455567799
Q ss_pred HHhhhHHHHHHHHHHHHhcC---CCC---HHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHHHH
Q 037299 886 QEIKNPLSGVSFTNSLLEAT---DLT---EDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVINAV 958 (1111)
Q Consensus 886 HEIrnPLt~I~~~~~LL~~~---~l~---e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~~v 958 (1111)
||||||||.|+..++-++.+ ... +...++.++|.+....|.+++++. +|.|. -.++++..||..++.++
T Consensus 495 HEIKNPLTPIQLSAERl~rk~gk~i~eDrevfd~~tdTIirQV~dI~rMVdeF~afARm----P~p~~e~~dL~~ll~e~ 570 (712)
T COG5000 495 HEIKNPLTPIQLSAERLLRKLGKEIDEDREVFDRCTDTIIRQVEDIKRMVDEFRAFARM----PAPKLEKSDLRALLKEV 570 (712)
T ss_pred HHhcCCCchhhhhHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC----CCCCCCcchHHHHHHHH
Confidence 99999999999888877642 233 345788999999999999999997 88875 45678899999999999
Q ss_pred HHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCC------CCceEEEEEEEccccCCCCcee
Q 037299 959 VSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPS------AEGWVEIHVRPTLKQSSEGQTI 1032 (1111)
Q Consensus 959 ~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~------~~g~I~I~v~~~~~~~~~~~~~ 1032 (1111)
+..... ....+.+..+.+.+ | +...+|+..|.|+|.||+.||.++... +.+.|+++....++
T Consensus 571 ~~L~e~--~~~~i~f~~e~g~e-p-l~~~~D~~~l~Qvf~NliKNA~EAi~~~~~~e~~~~~i~~~~~~~~g-------- 638 (712)
T COG5000 571 SFLYEI--GNDHIVFAAEFGGE-P-LIGMADATLLGQVFGNLLKNAAEAIEAVEAEERRTALIRVSLDDADG-------- 638 (712)
T ss_pred HHHHhc--cCCCeEEEeecCCC-c-eeeecCHHHHHHHHHHHHHhHHHHhhhcccccCCcceEEEEEecCCC--------
Confidence 887664 23568888888887 3 578889999999999999999998432 12335555544443
Q ss_pred EEEEEEEeeCCCCCChhhhhhccCCC--CCCCCccchHHHHHHHHHHcCCEEEEEecCC--ceEEEEEEEeeC
Q 037299 1033 VHNEFRMVCPGEGLPPELVQDMFHSS--RWMTQEGLGLSMCRKILKLMNGEVQYIRESE--RCYFLIIFELPM 1101 (1111)
Q Consensus 1033 ~~v~i~V~DnG~GIp~e~~~~iFepf--~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g--gstF~~~L~LP~ 1101 (1111)
.+++.|.|||.|+|.+.+.++|||| .+.+||||||+|||+|+|.|||.|.+...|+ |+ +|.+-||.
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 7999999999999999999999998 5778999999999999999999999987754 45 45556665
No 18
>PRK13559 hypothetical protein; Provisional
Probab=99.98 E-value=2.6e-30 Score=300.85 Aligned_cols=311 Identities=12% Similarity=0.124 Sum_probs=239.6
Q ss_pred HhHHHHHHHHHhCCCCCCCCccccCC---CCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHH
Q 037299 730 IHIQGDYKAIVHSPNPLIPPIFASDE---NTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIAL 806 (1111)
Q Consensus 730 ~~se~~l~~i~~~~~~l~~~I~v~D~---~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l 806 (1111)
..++..|+.++++.+. +|+++|. +|++++||+++++++||+.++++|++... +.++.........+
T Consensus 39 ~~~~~~~~~~~e~~~~---~i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~--------l~~~~~~~~~~~~~ 107 (361)
T PRK13559 39 GASGRLFEQAMEQTRM---AMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCRF--------LQGAATDPIAVAKI 107 (361)
T ss_pred hhhhhHHHHHHHhCCC---cEEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChhh--------hcCCCCCHHHHHHH
Confidence 3456778889999877 8999997 56899999999999999999999997521 11222333344455
Q ss_pred HhhhCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 037299 807 HNAFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFARLKELAYICQ 886 (1111)
Q Consensus 807 ~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~r~~~La~isH 886 (1111)
...+.++.....+....+++|..+|+..+..|+++.+|.+.+++++++|||++++.+.+. +.+.++++.++|
T Consensus 108 ~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~d~~G~~~~~v~~~~DITerk~~e~~~--------~~~~~l~~~l~H 179 (361)
T PRK13559 108 RAAIAAEREIVVELLNYRKDGEPFWNALHLGPVYGEDGRLLYFFGSQWDVTDIRAVRALE--------AHERRLAREVDH 179 (361)
T ss_pred HHHhccCCceEEEEEEEcCCCCEEEEEEEEEEEEcCCCCEEEeeeeeeehhcchhhHHHH--------HHHHHHHHHHHH
Confidence 666777777788888899999999999999999999999999999999999988765321 223457888999
Q ss_pred HhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHHHHHHHHHHH
Q 037299 887 EIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVINAVVSQVMML 965 (1111)
Q Consensus 887 EIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~ 965 (1111)
++||||+.|.++..++.. ..+...+++.+.+...+|..++++| +..+ ..++++.+++++++..+...
T Consensus 180 ~~~n~L~~i~~~~~l~~~---~~~~~~~~~~i~~~~~~l~~~~~~ll~~~~---------~~~v~l~~~~~~~~~~~~~~ 247 (361)
T PRK13559 180 RSKNVFAVVDSIVRLTGR---ADDPSLYAAAIQERVQALARAHETLLDERG---------WETVEVEELIRAQVAPYAPR 247 (361)
T ss_pred hhhhHHHHHHHHHHhhcc---CCCHHHHHHHHHHHHHHHHHHHHHHhccCC---------cCcccHHHHHHHHHHhhcCC
Confidence 999999999999998863 2234567777888888898888875 4432 46789999999988876532
Q ss_pred hhccCcEEEeecCCcccceEEEec-HHHHHHHHHHHHHHHhhcC---CCCCceEEEEEEEccccCCCCceeEEEEEEEee
Q 037299 966 LRERNLQLIRDIPEEIKTLAVYGD-QARIQQVLADFLLNMVRYS---PSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVC 1041 (1111)
Q Consensus 966 ~~~~~i~l~~~~~~~~~~~~v~~D-~~~L~qVl~nLl~NAik~t---~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~D 1041 (1111)
+.++.++.++ +.+..+ ...|.|||.||+.||+||+ +. +|.|+|++..... + ..+.+.|.|
T Consensus 248 ----~~~i~~~~~~----~~~~~~~~~~l~~vl~nLi~NA~k~~~~~~~-~g~i~v~~~~~~~--~-----~~~~i~v~d 311 (361)
T PRK13559 248 ----ATRVAFEGPG----IRLGAASVQPLGLVLHELAVNAIKHGALSAD-QGRISISWKPSPE--G-----AGFRIDWQE 311 (361)
T ss_pred ----CceEEEECCC----eeeCHHHHHHHHHHHHHHHHhHHHhccccCC-CcEEEEEEEecCC--C-----CeEEEEEEC
Confidence 4555555432 133333 3579999999999999994 43 6889988732221 1 178999999
Q ss_pred CCCCCChhhhhhccCCCCCCCCccchHHHHHHHHHH-cCCEEEEEecCCceEEEEEEE
Q 037299 1042 PGEGLPPELVQDMFHSSRWMTQEGLGLSMCRKILKL-MNGEVQYIRESERCYFLIIFE 1098 (1111)
Q Consensus 1042 nG~GIp~e~~~~iFepf~~~~G~GLGL~i~r~iVe~-~gG~I~v~s~~ggstF~~~L~ 1098 (1111)
+|+|++++ ..|+|+||.||+++++. |||+|++++.++|++|+|+||
T Consensus 312 ~G~~~~~~-----------~~~~g~Gl~i~~~~v~~~~gG~i~~~~~~~G~~~~l~~P 358 (361)
T PRK13559 312 QGGPTPPK-----------LAKRGFGTVIIGAMVESQLNGQLEKTWSDDGLLARIEIP 358 (361)
T ss_pred CCCCCCCC-----------CCCCCcHHHHHHHHHHHHcCCeEEEEEcCCeEEEEEEEe
Confidence 99998764 46889999999999997 999999999877777766554
No 19
>PRK09303 adaptive-response sensory kinase; Validated
Probab=99.97 E-value=4.8e-30 Score=299.84 Aligned_cols=219 Identities=23% Similarity=0.413 Sum_probs=190.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCC-------HHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCc
Q 037299 871 EKKCFARLKELAYICQEIKNPLSGVSFTNSLLEATDLT-------EDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSL 942 (1111)
Q Consensus 871 e~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~-------e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~ 942 (1111)
.++...+.++++.++|||||||++|.++++++...... +..+++++.+....++|..+++++ ++++.+.+..
T Consensus 145 ~e~~~~~~~l~~~iaHeLrtPLt~i~~~~e~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~li~~ll~~~~~~~~~~ 224 (380)
T PRK09303 145 LEQLKFKDRVLAMLAHDLRTPLTAASLALETLELGQIDEDTELKPALIEQLQDQARRQLEEIERLITDLLEVGRTRWEAL 224 (380)
T ss_pred HHHHHHHHHHHHHHhHhhcchHHHHHHHHHHHhccCccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCc
Confidence 34455678899999999999999999999999754322 346788899999999999999997 9999999988
Q ss_pred ceeeEeecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEc
Q 037299 943 EFEKAEFLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPT 1022 (1111)
Q Consensus 943 ~l~~~~~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~ 1022 (1111)
.+...++++.+++++++..+...+..+++.+.++++.+.| .+++|+.+|.|||.||+.||+||++. ++.|.|.+...
T Consensus 225 ~~~~~~~~l~~ll~~~~~~~~~~~~~~~i~l~~~~~~~~~--~v~~d~~~l~qvl~NLl~NAik~~~~-~~~I~i~~~~~ 301 (380)
T PRK09303 225 RFNPQKLDLGSLCQEVILELEKRWLAKSLEIQTDIPSDLP--SVYADQERIRQVLLNLLDNAIKYTPE-GGTITLSMLHR 301 (380)
T ss_pred eeccccCCHHHHHHHHHHHHHHHHHHcCCEEEEEcCCCCC--eEEeCHHHHHHHHHHHHHHHHhcCCC-CceEEEEEEec
Confidence 8999999999999999999999999999999999988876 58999999999999999999999997 78888887543
Q ss_pred cccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCC------CCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEE
Q 037299 1023 LKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR------WMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLI 1095 (1111)
Q Consensus 1023 ~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~------~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~ 1095 (1111)
.+ .++.|+|.|||+|||++.++++|+||+ ..+|+||||+||+++++.|||+|++.|.++ |++|+|
T Consensus 302 ~~--------~~v~i~V~D~G~GI~~~~~~~iF~pf~~~~~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~~~Gt~f~i 373 (380)
T PRK09303 302 TT--------QKVQVSICDTGPGIPEEEQERIFEDRVRLPRDEGTEGYGIGLSVCRRIVRVHYGQIWVDSEPGQGSCFHF 373 (380)
T ss_pred CC--------CEEEEEEEEcCCCCCHHHHHHHccCceeCCCCCCCCcccccHHHHHHHHHHcCCEEEEEecCCCccEEEE
Confidence 22 178999999999999999999999985 235899999999999999999999999877 566666
Q ss_pred EEEeeCC
Q 037299 1096 IFELPMP 1102 (1111)
Q Consensus 1096 ~L~LP~~ 1102 (1111)
+| |+.
T Consensus 374 ~l--P~~ 378 (380)
T PRK09303 374 TL--PVY 378 (380)
T ss_pred EE--ecC
Confidence 55 553
No 20
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=99.97 E-value=2.6e-28 Score=299.70 Aligned_cols=346 Identities=14% Similarity=0.178 Sum_probs=237.7
Q ss_pred EEeEeeccCCCCEEEEEEEEEechhHHHHHHH--------------------------------------HHhHHHHHHH
Q 037299 697 VNACSSKDYTNNIVGVCFVGQDVTDQKLVMDK--------------------------------------FIHIQGDYKA 738 (1111)
Q Consensus 697 v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~--------------------------------------L~~se~~l~~ 738 (1111)
....|+++..|.++|++.++.++.+....-.. +.+..+.++.
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 35578999999999999888877665443322 1233455678
Q ss_pred HHhCCCCCCCCccccCCCCccccchhhhHHHhCCCc---cccccccccccccccccccCChhhHHHHHHHHHhhhCCCCc
Q 037299 739 IVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSR---GDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDT 815 (1111)
Q Consensus 739 i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~---eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~ 815 (1111)
+++++++ ||+++|.+|+|+++|+++++++|++. .+.+|+..... .... .+...+..+..
T Consensus 226 il~~~~~---gIi~~D~~g~I~~~N~~a~~llg~~~~~~~~~~~~~~~~~--------~~~~-------~~~~~~~~~~~ 287 (542)
T PRK11086 226 MLQSIKE---GVIAVDDRGEVTLINDEAKRLFNYKKGLEDDPLGTDVESW--------MPVS-------RLKEVLRTGTP 287 (542)
T ss_pred HHHHhcC---cEEEECCCCeEEEEhHHHHHHhCCCcCCcccccCCcHHHh--------CCch-------hHHHHHhcCCC
Confidence 8888877 89999999999999999999998763 34555543111 1111 12223333322
Q ss_pred c-eeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Q 037299 816 E-KFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFARLKELAYICQEIKNPLSG 894 (1111)
Q Consensus 816 ~-~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~r~~~La~isHEIrnPLt~ 894 (1111)
. ..+.. .+|. ++.+...|+.+ +|.+.|++++++|+|+.++.+.++.. .....++++.++||+||||++
T Consensus 288 ~~~~~~~---~~g~--~~~~~~~pi~~-~g~~~g~v~~~rDite~~~l~~~l~~-----~~~~~~~l~~~sHel~npL~~ 356 (542)
T PRK11086 288 RRDEEIN---INGR--LLLTNTVPVRV-NGEIIGAIATFRDKTEVRQLAQRLDG-----MVNYADALRAQSHEFMNKLHV 356 (542)
T ss_pred ccceEEE---ECCE--EEEEEEEEEeE-CCEEEEEEEEEEEchHHHHHHHHHHH-----HHHHHHHHHhhchhhcCHHHH
Confidence 2 22222 2343 45666789988 89999999999999997766544332 223345677899999999999
Q ss_pred HHHHHHHHhcCCCCHHHHHHHHH-HHHHHHHHHHHHhhccccccccCCcceeeEeecHHHHHHHHHHHHHHHhhccCcEE
Q 037299 895 VSFTNSLLEATDLTEDQKQLLET-SAACEKQMLKIIKDVDLESIEDGSLEFEKAEFLLGSVINAVVSQVMMLLRERNLQL 973 (1111)
Q Consensus 895 I~~~~~LL~~~~l~e~~~~~l~~-i~~~~~~l~~lI~dLdlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~~~~~~i~l 973 (1111)
|.+++++... ++..+++.. +.....++..+++++. ..++...+......++.+++.+
T Consensus 357 I~g~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~ 414 (542)
T PRK11086 357 ILGLLHLKSY----DQLEDYILKTANNYQEEIGSLLGKIK------------------SPVIAGFLLGKISRARELGITL 414 (542)
T ss_pred HHHHHHhCch----HHHHHHHHHHHHHHHHHHHHHHHhcc------------------CHHHHHHHHHHHHHHHHcCCEE
Confidence 9998887532 233334333 2333444555554430 0112222333344556778888
Q ss_pred EeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCC-CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhh
Q 037299 974 IRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPS-AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQ 1052 (1111)
Q Consensus 974 ~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~-~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~ 1052 (1111)
.++..+.++......+...|.|||.||+.||+||++. .++.|.|++....+ .+.|+|.|||+|||++.++
T Consensus 415 ~~~~~~~~~~~~~~~~~~~l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~~~~---------~~~i~V~D~G~gi~~~~~~ 485 (542)
T PRK11086 415 IISEDSQLPDSGDEDQVHELITILGNLIENALEAVGGEEGGEISVSLHYRNG---------WLHCEVSDDGPGIAPDEID 485 (542)
T ss_pred EEeCCCCCCcccccccHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEEEEcCC---------EEEEEEEECCCCCCHHHHH
Confidence 8877766653233344568999999999999999743 25788888776555 7899999999999999999
Q ss_pred hccCCCC--CCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCCCC
Q 037299 1053 DMFHSSR--WMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMPRR 1104 (1111)
Q Consensus 1053 ~iFepf~--~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~~~ 1104 (1111)
++|+||+ +.+|+||||++||++++.|||+|+++|.++ |++|+|+| |....
T Consensus 486 ~iF~~~~~~~~~g~GlGL~iv~~iv~~~~G~i~v~s~~~~G~~f~i~l--P~~~~ 538 (542)
T PRK11086 486 AIFDKGYSTKGSNRGVGLYLVKQSVENLGGSIAVESEPGVGTQFFVQI--PWDGE 538 (542)
T ss_pred HHHhCCCccCCCCCcCcHHHHHHHHHHcCCEEEEEeCCCCcEEEEEEE--eCCCC
Confidence 9999985 446899999999999999999999999877 56666655 55443
No 21
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=99.97 E-value=5.9e-29 Score=283.57 Aligned_cols=202 Identities=22% Similarity=0.312 Sum_probs=174.4
Q ss_pred HHHHHHHhhhHHHHHHHHHH---HHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHH
Q 037299 881 LAYICQEIKNPLSGVSFTNS---LLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVIN 956 (1111)
Q Consensus 881 La~isHEIrnPLt~I~~~~~---LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~ 956 (1111)
.+.|+||||+||++|..+.+ +|.+....++.+.-+..|..-.+||..|...| .|.+...+ ...++.+.++|+
T Consensus 388 SA~iaHElNQPLaaiRt~adna~~lLergr~e~a~~Nl~~I~~LteRma~It~~Lk~FArk~~~----a~~~v~l~~ai~ 463 (603)
T COG4191 388 SAGIAHELNQPLAAIRTYADNARLLLERGRTEEARENLERISALTERMAAITAHLKSFARKSRD----AAGPVSLREAIE 463 (603)
T ss_pred HHHHHHHhcCcHHHHHhHHHHHHHHHHcCChHHHHhHHHHHHHHHHHHHHHHHHHHHHhccCcc----ccCCccHHHHHH
Confidence 57899999999999986554 44466778888999999999999999999999 88875332 367899999999
Q ss_pred HHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCC-CCceEEEEEEEccccCCCCceeEEE
Q 037299 957 AVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPS-AEGWVEIHVRPTLKQSSEGQTIVHN 1035 (1111)
Q Consensus 957 ~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~-~~g~I~I~v~~~~~~~~~~~~~~~v 1035 (1111)
.++..+...++..+..+..++++.. +.|.+++.+|+|||.|||.||++++.. ..+.|.|.+...++ .+
T Consensus 464 ~Al~ll~~R~~~~~~~l~~~~~~~~--~~V~~~~iRLeQVLvNLl~NALDA~~~~~~~~i~i~~~~~~~---------~v 532 (603)
T COG4191 464 GALELLRGRLRAAGVELELDLPDAP--LWVMANEIRLEQVLVNLLQNALDAMAGQEDRRLSIRAQREGG---------QV 532 (603)
T ss_pred HHHHHHHHhhhccCceeeccCCCCC--ceeecchhhHHHHHHHHHHHHHHHhcCCCCCeeEEEEEecCC---------eE
Confidence 9999999999999999999888743 489999999999999999999999543 35789998877766 89
Q ss_pred EEEEeeCCCCCChhhhhhccCCCCCCC----CccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEE
Q 037299 1036 EFRMVCPGEGLPPELVQDMFHSSRWMT----QEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIF 1097 (1111)
Q Consensus 1036 ~i~V~DnG~GIp~e~~~~iFepf~~~~----G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L 1097 (1111)
.|+|.|||+||+++.+.++|+||+++| |.||||+||+.|++.+||+|.+.+.++ |+.|+|+|
T Consensus 533 ~l~VrDnGpGi~~e~~~~lFePF~TtK~~~~GLGLGLaIS~~i~~d~GGsL~v~n~~~~Ga~F~i~L 599 (603)
T COG4191 533 VLTVRDNGPGIAPEALPHLFEPFFTTKPVGKGLGLGLAISQNIARDLGGSLEVANHPEGGASFTIEL 599 (603)
T ss_pred EEEEccCCCCCCHHHHHhhcCCccccCcccCCcchhHHHHHHHHHHhCCeEEeecCCCCceEEEEEe
Confidence 999999999999999999999997665 789999999999999999999998755 56665544
No 22
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=99.97 E-value=2.3e-27 Score=291.67 Aligned_cols=345 Identities=15% Similarity=0.172 Sum_probs=235.7
Q ss_pred EEeEeeccCCCCEEEEEEEEEechhHHHHHH--------------------------------------HHHhHHHHHHH
Q 037299 697 VNACSSKDYTNNIVGVCFVGQDVTDQKLVMD--------------------------------------KFIHIQGDYKA 738 (1111)
Q Consensus 697 v~~~pi~d~~G~v~gvv~v~~DITerK~ae~--------------------------------------~L~~se~~l~~ 738 (1111)
..+.|+++.+|.++|++.+...+.+...... ++......++.
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 3789999999999999888775554433211 11222344566
Q ss_pred HHhCCCCCCCCccccCCCCccccchhhhHHHhCCCc--cccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcc
Q 037299 739 IVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSR--GDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTE 816 (1111)
Q Consensus 739 i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~--eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~ 816 (1111)
+++++++ |++++|.+|+++.+|+++++++|++. ++++|+++.+.+. +... + ..... ....
T Consensus 227 il~~~~e---gii~~D~~g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~--------~~~~--~----~~~~~-~~~~ 288 (545)
T PRK15053 227 LFSSVYE---GLIAVDPHGYITAINRNARKMLGLSSPGRQWLGKPIAEVVR--------PADF--F----TEQID-EKRQ 288 (545)
T ss_pred HHHHhCc---eEEEECCCCeEEeecHHHHHHhCCCCcchhhcCCcHHHhCC--------Cchh--h----hhhcC-Cccc
Confidence 7778766 89999999999999999999999975 4688987633221 1110 0 00111 1111
Q ss_pred eeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 037299 817 KFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFARLKELAYICQEIKNPLSGVS 896 (1111)
Q Consensus 817 ~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~r~~~La~isHEIrnPLt~I~ 896 (1111)
..+.. .+| ..+..+..|+.. +|.+.|++..++|+|+..+.+.++... ....+.+..++||++|||++|.
T Consensus 289 ~~~~~---~~~--~~~~~~~~~i~~-~~~~~G~v~~~~d~te~~~l~~~l~~~-----~~~~e~l~~~~he~~n~L~~i~ 357 (545)
T PRK15053 289 DVVAN---FNG--LSVIANREAIRS-GDDLLGAIISFRSKDEISTLNAQLTQI-----KQYVESLRTLRHEHLNWMSTLN 357 (545)
T ss_pred ceEEE---ECC--EEEEEEeeeEEE-CCeEEEEEEEEEchHHHHHHHHHHHHH-----HHHHHHHHHHHHHHhhhHHHHH
Confidence 11111 234 345566777764 567789999999999876654433322 2223457779999999999999
Q ss_pred HHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHHHHHHHHHHHhhccCcEEEe
Q 037299 897 FTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVINAVVSQVMMLLRERNLQLIR 975 (1111)
Q Consensus 897 ~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~~~~~~i~l~~ 975 (1111)
++.++-+ ..+.++.+...+..+..+++++ ...+ ... +...+......+.++++.+.+
T Consensus 358 g~l~~~~-------~~~~~~~i~~~s~~~~~l~~~l~~~~~--------------~~~-~~~~l~~~~~~~~~~~i~~~~ 415 (545)
T PRK15053 358 GLLQMKE-------YDRVLEMVQGESQAQQQLIDSLREAFA--------------DRQ-VAGLLFGKVQRARELGLKMVI 415 (545)
T ss_pred HHHhhch-------hhHHHHHHHHHHHHHHHHHHHHHHhcc--------------cHH-HHHHHHHHHHHHHHhCCceEE
Confidence 8876532 2345666666677777777775 2211 011 122222223445567788777
Q ss_pred ecCCcccceEEEecHHHHHHHHHHHHHHHhhcC---CCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhh
Q 037299 976 DIPEEIKTLAVYGDQARIQQVLADFLLNMVRYS---PSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQ 1052 (1111)
Q Consensus 976 ~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t---~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~ 1052 (1111)
....++..+....|+..|.|||.||+.||++|. +.+++.|.|.+....+ .+.|.|+|||+|||++..+
T Consensus 416 ~~~~~~~~l~~~~~~~~l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~~~~---------~~~i~V~D~G~Gi~~~~~~ 486 (545)
T PRK15053 416 VPGSQLSQLPPGLDSTEFAAIVGNLLDNAFEASLRSDEGNKIVELFLSDEGD---------DVVIEVADQGCGVPESLRD 486 (545)
T ss_pred cCCCccccccccCCHHHHHHHHHHHHHHHHHHHhhCCCCCceEEEEEEECCC---------EEEEEEEeCCCCcCHHHHH
Confidence 655543333457799999999999999999994 4324678887766544 7899999999999999999
Q ss_pred hccCCCCCCC-----CccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCCC
Q 037299 1053 DMFHSSRWMT-----QEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMPR 1103 (1111)
Q Consensus 1053 ~iFepf~~~~-----G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~~ 1103 (1111)
++|++|++++ |+||||+|||++|+.|||+|+++|.+| |++|+| .||..+
T Consensus 487 ~iF~~~~~tk~~~~~g~GlGL~ivk~iv~~~~G~i~v~s~~~~Gt~f~i--~lP~~~ 541 (545)
T PRK15053 487 KIFEQGVSTRADEPGEHGIGLYLIASYVTRCGGVITLEDNDPCGTLFSI--FIPKVK 541 (545)
T ss_pred HHhCCCCCCCCCCCCCceeCHHHHHHHHHHcCCEEEEEECCCCeEEEEE--EECCCC
Confidence 9999985433 689999999999999999999999988 466555 556544
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=99.96 E-value=9.8e-29 Score=324.36 Aligned_cols=225 Identities=27% Similarity=0.392 Sum_probs=204.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCccee
Q 037299 867 QRQQEKKCFARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFE 945 (1111)
Q Consensus 867 ~~~~e~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~ 945 (1111)
+..+++....|.+|++.++|||||||++|.++++++.+..++++.+++++.+..+++++..+++++ ++++++.+...+.
T Consensus 454 ~~~~~~~~~~~~~~~~~~sHelrtPL~~i~~~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~~i~~ll~~~~~e~~~~~~~ 533 (968)
T TIGR02956 454 RAEAEEANRAKSAFLATMSHEIRTPLNGILGTLELLGDTGLTSQQQQYLQVINRSGESLLDILNDILDYSKIEAGHLSIS 533 (968)
T ss_pred HHHHHHHHHHHHHHHHHhHHHhhhHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeee
Confidence 445666778899999999999999999999999999988889999999999999999999999997 9999999999999
Q ss_pred eEeecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEcccc
Q 037299 946 KAEFLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQ 1025 (1111)
Q Consensus 946 ~~~~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~ 1025 (1111)
..++++.+++++++..+...+..+++.+.++++++.|. .+.+|+.+|.|||.||+.||+||++. |.|.|.+....+
T Consensus 534 ~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~~~~d~~~l~~il~nLi~NAik~~~~--g~i~i~~~~~~~- 609 (968)
T TIGR02956 534 PRPFDLNALLDDVHHLMVSRAQLKGIQLRLNIPEQLPN-WWQGDGPRIRQVLINLVGNAIKFTDR--GSVVLRVSLNDD- 609 (968)
T ss_pred ecccCHHHHHHHHHHHHHHHHHHcCcEEEEEeCCCCCc-eEeeCHHHHHHHHHHHHHHHHhhCCC--CeEEEEEEEcCC-
Confidence 99999999999999999999999999999998877664 78899999999999999999999986 888888876554
Q ss_pred CCCCceeEE-EEEEEeeCCCCCChhhhhhccCCCCCC------CCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEE
Q 037299 1026 SSEGQTIVH-NEFRMVCPGEGLPPELVQDMFHSSRWM------TQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIF 1097 (1111)
Q Consensus 1026 ~~~~~~~~~-v~i~V~DnG~GIp~e~~~~iFepf~~~------~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L 1097 (1111)
. +.|+|.|+|+|||++.++++|+||+.. +|+||||+|||++++.|||+|+++|.+| |++|+|+|
T Consensus 610 --------~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~g~GLGL~i~~~l~~~~gG~i~~~s~~~~Gt~f~~~l 681 (968)
T TIGR02956 610 --------SSLLFEVEDTGCGIAEEEQATLFDAFTQADGRRRSGGTGLGLAISQRLVEAMDGELGVESELGVGSCFWFTL 681 (968)
T ss_pred --------CeEEEEEEeCCCCCCHHHHHHHHhhhhccCCCCCCCCccHHHHHHHHHHHHcCCEEEEEecCCCcEEEEEEE
Confidence 4 899999999999999999999998532 6899999999999999999999999987 68888877
Q ss_pred EeeCCC
Q 037299 1098 ELPMPR 1103 (1111)
Q Consensus 1098 ~LP~~~ 1103 (1111)
|++...
T Consensus 682 p~~~~~ 687 (968)
T TIGR02956 682 PLTRGK 687 (968)
T ss_pred EcCCCC
Confidence 766543
No 24
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=99.96 E-value=9.1e-28 Score=313.66 Aligned_cols=221 Identities=24% Similarity=0.385 Sum_probs=199.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceee
Q 037299 868 RQQEKKCFARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEK 946 (1111)
Q Consensus 868 ~~~e~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~ 946 (1111)
+++++....+.++++.++|||||||++|.++++++.....+++++++++.+..++.++..+++++ ++++++.+...+..
T Consensus 389 ~~~~~~~~~~~~~~~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~~~~i~~~~~~l~~li~~ll~~~~~~~~~~~~~~ 468 (921)
T PRK15347 389 QRAEQANKRKSEHLTTISHEIRTPLNGVLGALELLQNTPLTAEQMDLADTARQCTLSLLAIINNLLDFSRIESGQMTLSL 468 (921)
T ss_pred HHHHHHHHHHHHHHHHhHHHhchhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccee
Confidence 34555666788899999999999999999999999998889999999999999999999999997 99999999999999
Q ss_pred EeecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccC
Q 037299 947 AEFLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQS 1026 (1111)
Q Consensus 947 ~~~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~ 1026 (1111)
.++++.+++++++..+...+..+++.+.+.+++++|. .+.+|+.+|+||+.||+.||+||++. |.|.|++....+
T Consensus 469 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~d~~~l~~il~NLl~NAik~~~~--g~I~i~~~~~~~-- 543 (921)
T PRK15347 469 EETALLPLLDQAMLTIQGPAQSKSLTLRTFVGAHVPL-YLHLDSLRLRQILVNLLGNAVKFTET--GGIRLRVKRHEQ-- 543 (921)
T ss_pred cccCHHHHHHHHHHHHHHHHHHCCcEEEEEECCCCCc-eEEECHHHHHHHHHHHHHHHhhcCCC--CCEEEEEEEcCC--
Confidence 9999999999999999999999999999888887764 78999999999999999999999986 779988876655
Q ss_pred CCCceeEEEEEEEeeCCCCCChhhhhhccCCCCC----CCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEee
Q 037299 1027 SEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSRW----MTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELP 1100 (1111)
Q Consensus 1027 ~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~----~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP 1100 (1111)
.+.|+|+|||+|||++.++++|+||+. .+|+||||+||+++++.|||+|+++|.+| |++|+|+||+.
T Consensus 544 -------~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~g~GLGL~i~~~~~~~~gG~i~i~s~~~~Gt~f~i~lp~~ 615 (921)
T PRK15347 544 -------QLCFTVEDTGCGIDIQQQQQIFTPFYQADTHSQGTGLGLTIASSLAKMMGGELTLFSTPGVGSCFSLVLPLN 615 (921)
T ss_pred -------EEEEEEEEcCCCCCHHHHHHHhcCcccCCCCCCCCchHHHHHHHHHHHcCCEEEEEecCCCceEEEEEEECC
Confidence 899999999999999999999999853 35899999999999999999999999988 56666666543
No 25
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=99.96 E-value=1.6e-27 Score=311.43 Aligned_cols=228 Identities=25% Similarity=0.414 Sum_probs=200.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeE
Q 037299 869 QQEKKCFARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKA 947 (1111)
Q Consensus 869 ~~e~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~ 947 (1111)
++++....|.+|++.++|||||||++|.++++++.....+++++++++.+.++++++..+++++ ++++++.+...+...
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 4445566678999999999999999999999999888888999999999999999999999997 999999999999999
Q ss_pred eecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCC
Q 037299 948 EFLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSS 1027 (1111)
Q Consensus 948 ~~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~ 1027 (1111)
++++.+++++++..+...+..+++.+.+++++++|. .+.+|+.+|.|||.||+.||+||++. |.|.|.+.......
T Consensus 365 ~~~l~~~l~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~~~~d~~~l~~vl~NLl~NAik~~~~--g~v~i~v~~~~~~~- 440 (919)
T PRK11107 365 PFSLRETLDEVVTLLAHSAHEKGLELTLNIDPDVPD-NVIGDPLRLQQIITNLVGNAIKFTES--GNIDILVELRALSN- 440 (919)
T ss_pred ecCHHHHHHHHHHHHHHHHHHcCCEEEEEeCCCCCc-eEEeCHHHHHHHHHHHHHHHhhcCCC--CcEEEEEEEEecCC-
Confidence 999999999999999999999999999998887764 68899999999999999999999986 66766665432211
Q ss_pred CCceeEEEEEEEeeCCCCCChhhhhhccCCCC--------CCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEE
Q 037299 1028 EGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR--------WMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFE 1098 (1111)
Q Consensus 1028 ~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~--------~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~ 1098 (1111)
....+.|+|.|+|+|||++.++++|+||+ +.+|+||||+|||++++.|||+|+++|.+| |++|+|+||
T Consensus 441 ---~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~~g~GLGL~i~~~i~~~~gG~i~v~s~~~~Gt~f~i~lp 517 (919)
T PRK11107 441 ---TKVQLEVQIRDTGIGISERQQSQLFQAFRQADASISRRHGGTGLGLVITQKLVNEMGGDISFHSQPNRGSTFWFHLP 517 (919)
T ss_pred ---CeeEEEEEEEEeCCCcCHHHHHHHhhhhccCCCCCCCCCCCcchhHHHHHHHHHHhCCEEEEEecCCCCEEEEEEEE
Confidence 12368999999999999999999999984 235899999999999999999999999987 688888888
Q ss_pred eeCCC
Q 037299 1099 LPMPR 1103 (1111)
Q Consensus 1099 LP~~~ 1103 (1111)
++...
T Consensus 518 ~~~~~ 522 (919)
T PRK11107 518 LDLNP 522 (919)
T ss_pred eccCC
Confidence 76554
No 26
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=99.96 E-value=2.5e-27 Score=309.04 Aligned_cols=222 Identities=24% Similarity=0.403 Sum_probs=197.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCC--ccee
Q 037299 869 QQEKKCFARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGS--LEFE 945 (1111)
Q Consensus 869 ~~e~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~--~~l~ 945 (1111)
..++....+..|++.++|||||||++|.++++++......++.+++++.+..+.+++..+++++ ++++++.+. ..+.
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 3444556788899999999999999999999999988888899999999999999999999997 999998774 5667
Q ss_pred eEeecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEcccc
Q 037299 946 KAEFLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQ 1025 (1111)
Q Consensus 946 ~~~~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~ 1025 (1111)
..++++.++++.++..+...+..+++.+.+++++++|. .+.+|+.+|.||+.||+.||+||++. |.|.|++....+
T Consensus 516 ~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~v~~d~~~l~qil~NLl~NAik~~~~--g~I~i~~~~~~~- 591 (914)
T PRK11466 516 DEPFEPRPLLESTLQLMSGRVKGRPIRLATDIADDLPT-ALMGDPRRIRQVITNLLSNALRFTDE--GSIVLRSRTDGE- 591 (914)
T ss_pred ccccCHHHHHHHHHHHHHHHHHhCCcEEEEEeCCCCCc-eEEECHHHHHHHHHHHHHHHHHhCCC--CeEEEEEEEcCC-
Confidence 78999999999999999999999999999998887764 78999999999999999999999985 889998876555
Q ss_pred CCCCceeEEEEEEEeeCCCCCChhhhhhccCCCC----CCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEee
Q 037299 1026 SSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR----WMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELP 1100 (1111)
Q Consensus 1026 ~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~----~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP 1100 (1111)
.+.|.|.|+|+|||++.++++|+||+ +.+|+||||+||+++++.|||+|++.|.++ |++|+|+||++
T Consensus 592 --------~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~g~GLGL~i~~~l~~~~gG~i~v~s~~~~Gt~f~i~lP~~ 663 (914)
T PRK11466 592 --------QWLVEVEDSGCGIDPAKLAEIFQPFVQVSGKRGGTGLGLTISSRLAQAMGGELSATSTPEVGSCFCLRLPLR 663 (914)
T ss_pred --------EEEEEEEECCCCCCHHHHHHHhchhhcCCCCCCCCcccHHHHHHHHHHcCCEEEEEecCCCCeEEEEEEEcc
Confidence 78999999999999999999999985 345899999999999999999999999887 67788777665
Q ss_pred CC
Q 037299 1101 MP 1102 (1111)
Q Consensus 1101 ~~ 1102 (1111)
..
T Consensus 664 ~~ 665 (914)
T PRK11466 664 VA 665 (914)
T ss_pred cc
Confidence 43
No 27
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=99.95 E-value=1.4e-24 Score=246.94 Aligned_cols=357 Identities=17% Similarity=0.204 Sum_probs=254.5
Q ss_pred CCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHH--------------------------------------HH
Q 037299 689 RKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDK--------------------------------------FI 730 (1111)
Q Consensus 689 dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~--------------------------------------L~ 730 (1111)
.|+-.+..--..|++|++|+++|++.|+--+++....-.. +.
T Consensus 132 kGslg~s~R~~~PI~d~~g~~IGvVsVG~~l~~i~~~i~~~~~~l~~~~vl~lligl~ga~~la~~ikr~~~glEP~EIa 211 (537)
T COG3290 132 KGSLGKSLRAKVPIFDEDGKQIGVVSVGYLLSEIDDVILEFLRPLALIVVLGLLIGLLGAWILARHIKRQMLGLEPEEIA 211 (537)
T ss_pred eccchhhheeecceECCCCCEEEEEEEeeEhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHH
Confidence 4555555556789999999999999998877764433222 22
Q ss_pred hHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCcc--ccccccccccccccccccCChhhHHHHHHHHHh
Q 037299 731 HIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRG--DIIGKMLVGEVFGSCCRLKGPDALTKFMIALHN 808 (1111)
Q Consensus 731 ~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~e--eliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~ 808 (1111)
..-+...++++++.. ||+.+|..|.+..+|.++++++|+... +.+|+++.+.+.+ .. + +...+.
T Consensus 212 ~l~~er~A~l~si~E---GviAvd~~G~It~~N~~A~~ll~~~~~~~~~ig~~i~~v~~p-~~------~---l~~vl~- 277 (537)
T COG3290 212 TLLEERQAMLQSIKE---GVIAVDKKGVITLINQAAQKLLGLRQPSGDPIGRSIVEVLPP-DS------D---LPEVLE- 277 (537)
T ss_pred HHHHHHHHHHHHhhc---eEEEECCCCeEeehhHHHHHHhcccCcCcccccccceEeecc-cc------C---cHHHHh-
Confidence 333344567777776 899999999999999999999999865 6889887555432 11 1 111111
Q ss_pred hhCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 037299 809 AFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEKKCFARLKELAYICQEI 888 (1111)
Q Consensus 809 ~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~~~~~r~~~La~isHEI 888 (1111)
.++.....++++ +| .++.++..|+. .+|+++|++.+++|-|+-++..+++.. -+.-...|+..+||.
T Consensus 278 --~~~~~~~~e~~~---ng--~~~i~nr~pI~-~~~~~~GaI~tFRdktei~~L~eqLt~-----vr~ya~aLRaq~HEf 344 (537)
T COG3290 278 --TGKPQHDEEIRI---NG--RLLVANRVPIR-SGGQIVGAIITFRDKTEIKKLTEQLTG-----VRQYAEALRAQSHEF 344 (537)
T ss_pred --cCCcccchhhhc---CC--eEEEEEeccEE-ECCEEeEEEEEEecHHHHHHHHHHHHH-----HHHHHHHHHHhhHHH
Confidence 112112222221 22 45666777775 688999999999999986665544332 222334477789999
Q ss_pred hhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhccccccccCCcceeeEeecHHHHHHHHHHHHHHHhhc
Q 037299 889 KNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDVDLESIEDGSLEFEKAEFLLGSVINAVVSQVMMLLRE 968 (1111)
Q Consensus 889 rnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dLdlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~~~~ 968 (1111)
.|-|+.|.|++++-+- ++..+|+..+.+..+.....+.. ++ . ..++...+-.-...+++
T Consensus 345 mNkLhtI~GLlql~~y----d~a~~~I~~~~~~qq~~~~~l~~----~i---------~----~~~lAg~LlgK~~rArE 403 (537)
T COG3290 345 MNKLHTILGLLQLGEY----DDALDYIQQESEEQQELIDSLSE----KI---------K----DPVLAGFLLGKISRARE 403 (537)
T ss_pred HHHHHHHHHHHhhccH----HHHHHHHHHHHhhhhhhHHHHHH----hc---------c----cHHHHHHHHhHHHHHHH
Confidence 9999999999988542 34556665554433333333321 11 0 13445555555667889
Q ss_pred cCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCC--CCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCC
Q 037299 969 RNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSP--SAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGL 1046 (1111)
Q Consensus 969 ~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~--~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GI 1046 (1111)
.++.+.++....+|...-.-+...+--++-||+.||+++.- .++.+|.+++....+ ++.++|.|+||||
T Consensus 404 lgv~l~Id~~S~l~~~p~~~~~~~litIlGNLidNA~eA~~~~~~~k~I~l~i~~~~~---------~lvieV~D~G~GI 474 (537)
T COG3290 404 LGVSLIIDPNSQLPQLPSELQPHDLVTILGNLIDNALEALLAPEENKEIELSLSDRGD---------ELVIEVADTGPGI 474 (537)
T ss_pred cCceEEEcCCCcCCCCCCccChHHHHHHHHHHHHHHHHHhhccCCCcEEEEEEEecCC---------EEEEEEeCCCCCC
Confidence 99999999999888766777899999999999999999854 335789999887766 9999999999999
Q ss_pred ChhhhhhccCCCCCC---CCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCCCC
Q 037299 1047 PPELVQDMFHSSRWM---TQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMPRR 1104 (1111)
Q Consensus 1047 p~e~~~~iFepf~~~---~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~~~ 1104 (1111)
|++..+++|+..+++ .+.|+||++|+++|+.+||.|+++|+.+ |++|.+ .+|...+
T Consensus 475 ~~~~~~~iFe~G~Stk~~~~rGiGL~Lvkq~V~~~~G~I~~~s~~~~Gt~F~i--~iP~~~~ 534 (537)
T COG3290 475 PPEVRDKIFEKGVSTKNTGGRGIGLYLVKQLVERLGGSIEVESEKGQGTRFSI--YIPKVKE 534 (537)
T ss_pred ChHHHHHHHhcCccccCCCCCchhHHHHHHHHHHcCceEEEeeCCCCceEEEE--ECCCCcc
Confidence 999999999986433 5679999999999999999999999755 566555 5576544
No 28
>PRK10490 sensor protein KdpD; Provisional
Probab=99.95 E-value=5.3e-26 Score=290.43 Aligned_cols=213 Identities=19% Similarity=0.306 Sum_probs=180.9
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeec
Q 037299 874 CFARLKELAYICQEIKNPLSGVSFTNSLLEATD--LTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFL 950 (1111)
Q Consensus 874 ~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~--l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~ 950 (1111)
...+..+++.++|||||||++|.++.+++.... ......+.++.+.+...++.++++++ ++++++.+...+...+++
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 344677899999999999999999999886432 22334466788888899999999997 999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCc
Q 037299 951 LGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQ 1030 (1111)
Q Consensus 951 L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~ 1030 (1111)
+.+++++++..+...+..+++.+ +++++.+ .+++|+..|.|||.||+.||+||++. ++.|.|++....+
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--LIHVDGPLFERVLINLLENAVKYAGA-QAEIGIDAHVEGE------ 809 (895)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEE--EcCCCCe--EEEECHHHHHHHHHHHHHHHHHhCCC-CCeEEEEEEEeCC------
Confidence 99999999999988887766555 4556554 68999999999999999999999987 7789998876655
Q ss_pred eeEEEEEEEeeCCCCCChhhhhhccCCCCC------CCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEee
Q 037299 1031 TIVHNEFRMVCPGEGLPPELVQDMFHSSRW------MTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELP 1100 (1111)
Q Consensus 1031 ~~~~v~i~V~DnG~GIp~e~~~~iFepf~~------~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP 1100 (1111)
.+.|+|.|||+|||++.++++|+||+. .+|+||||+|||++++.|||+|+++|.++ |++|+|+||++
T Consensus 810 ---~v~I~V~D~G~GI~~e~~~~IFepF~~~~~~~~~~G~GLGL~Ivk~ive~hGG~I~v~s~~~~Gt~f~i~LPl~ 883 (895)
T PRK10490 810 ---RLQLDVWDNGPGIPPGQEQLIFDKFARGNKESAIPGVGLGLAICRAIVEVHGGTIWAENRPEGGACFRVTLPLE 883 (895)
T ss_pred ---EEEEEEEECCCCCCHHHHHHhcCCCccCCCCCCCCCccHHHHHHHHHHHHcCCEEEEEECCCCeEEEEEEeECC
Confidence 789999999999999999999999852 24889999999999999999999999887 57766666543
No 29
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=99.95 E-value=1.8e-24 Score=277.27 Aligned_cols=217 Identities=16% Similarity=0.152 Sum_probs=177.7
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHH
Q 037299 875 FARLKELAYICQEIKNPLSGVSFTNSLLEA-TDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLG 952 (1111)
Q Consensus 875 ~~r~~~La~isHEIrnPLt~I~~~~~LL~~-~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~ 952 (1111)
....+|++.++|||||||++|.++.+++.+ ....++..++++.+.+..+++..+++++ ++++... ....++++.
T Consensus 448 ~~l~~~~~~iaHeLrtPL~~I~~~~~~l~~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~----~~~~~~~l~ 523 (828)
T PRK13837 448 EAVGTLASGIAHNFNNILGAILGYAEMALNKLARHSRAARYIDEIISAGARARLIIDQILAFGRKGE----RNTKPFDLS 523 (828)
T ss_pred HHHHHHHHHhhHHhhhHHHHHHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC----CCCcEEcHH
Confidence 455678999999999999999999998764 3345677889999999999999999997 8888543 346789999
Q ss_pred HHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCC---
Q 037299 953 SVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEG--- 1029 (1111)
Q Consensus 953 ~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~--- 1029 (1111)
+++++++..+.... .+++.+.++.++..+ .+.+|+..|.|||.||+.||+||++. +|.|.|++..........
T Consensus 524 ~ll~~~~~~~~~~~-~~~i~l~~~~~~~~~--~v~~d~~~L~qvl~NLl~NAik~~~~-~g~I~I~~~~~~~~~~~~~~~ 599 (828)
T PRK13837 524 ELVTEIAPLLRVSL-PPGVELDFDQDQEPA--VVEGNPAELQQVLMNLCSNAAQAMDG-AGRVDISLSRAKLRAPKVLSH 599 (828)
T ss_pred HHHHHHHHHHHHHc-cCCcEEEEEeCCCCc--eEEECHHHHHHHHHHHHHHHHHHccc-CCeEEEEEEEeeccccccccc
Confidence 99999999887654 467888887766543 69999999999999999999999987 788998886641100000
Q ss_pred ---ceeEEEEEEEeeCCCCCChhhhhhccCCCCCC--CCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEe
Q 037299 1030 ---QTIVHNEFRMVCPGEGLPPELVQDMFHSSRWM--TQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFEL 1099 (1111)
Q Consensus 1030 ---~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~--~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~L 1099 (1111)
....++.|+|.|||+|||++.++++|+||+++ +|+||||+||+++++.|||+|++.|.+| |++|+|+||+
T Consensus 600 ~~~~~~~~v~i~V~D~G~GI~~e~~~~iFe~F~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~g~Gt~f~i~LP~ 675 (828)
T PRK13837 600 GVLPPGRYVLLRVSDTGAGIDEAVLPHIFEPFFTTRAGGTGLGLATVHGIVSAHAGYIDVQSTVGRGTRFDVYLPP 675 (828)
T ss_pred ccCCCCCEEEEEEEECCCCCCHHHHHHhhCCcccCCCCCCcchHHHHHHHHHHCCCEEEEEecCCCeEEEEEEEeC
Confidence 01227899999999999999999999999644 5999999999999999999999999887 5777766654
No 30
>PRK10364 sensor protein ZraS; Provisional
Probab=99.94 E-value=3.1e-25 Score=266.62 Aligned_cols=215 Identities=18% Similarity=0.256 Sum_probs=181.3
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHH
Q 037299 875 FARLKELAYICQEIKNPLSGVSFTNSLLEAT-DLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLG 952 (1111)
Q Consensus 875 ~~r~~~La~isHEIrnPLt~I~~~~~LL~~~-~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~ 952 (1111)
....++.+.++||+||||++|.++++++.+. ...++.+++++.+.+..+++..+++++ ++.+. ......++++.
T Consensus 235 ~~~~~~~~~laHelrtpL~~i~~~~~~l~~~~~~~~~~~~~~~~i~~~~~~l~~~i~~ll~~~~~----~~~~~~~~~l~ 310 (457)
T PRK10364 235 VALGHLAAGVAHEIRNPLSSIKGLAKYFAERAPAGGEAHQLAQVMAKEADRLNRVVSELLELVKP----THLALQAVDLN 310 (457)
T ss_pred HHHHHHHHHhhHHhccHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHHHHHHHHHHHHhCc----CCCcceEecHH
Confidence 3445678889999999999999999988753 334566778888999999999999996 77763 34567789999
Q ss_pred HHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCcee
Q 037299 953 SVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTI 1032 (1111)
Q Consensus 953 ~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~ 1032 (1111)
++++.++..+...+..+++.+.++.++..+ .+.+|+.+|.|++.||+.||+||++. ++.|.|++...++
T Consensus 311 ~~l~~~~~~~~~~~~~~~i~l~~~~~~~~~--~~~~d~~~l~~il~NLl~NA~k~~~~-~~~I~i~~~~~~~-------- 379 (457)
T PRK10364 311 DLINHSLQLVSQDANSREIQLRFTANDTLP--EIQADPDRLTQVLLNLYLNAIQAIGQ-HGVISVTASESGA-------- 379 (457)
T ss_pred HHHHHHHHHHHHHHHhcCeEEEEEcCCCCc--eEEECHHHHHHHHHHHHHHHHHhcCC-CCeEEEEEEEeCC--------
Confidence 999999999999999999999999887665 58899999999999999999999876 6889999877655
Q ss_pred EEEEEEEeeCCCCCChhhhhhccCCCC--CCCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeCCCCCC
Q 037299 1033 VHNEFRMVCPGEGLPPELVQDMFHSSR--WMTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPMPRRGS 1106 (1111)
Q Consensus 1033 ~~v~i~V~DnG~GIp~e~~~~iFepf~--~~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~~~~~~ 1106 (1111)
.+.|+|.|||+|||++.++++|++|+ +.+|+||||++||++++.|||+|+++|.++++| +|++.||......
T Consensus 380 -~~~i~V~D~G~Gi~~~~~~~if~~~~~~k~~g~GlGL~iv~~~v~~~gG~i~i~s~~~~Gt-~f~i~lP~~~~~~ 453 (457)
T PRK10364 380 -GVKISVTDSGKGIAADQLEAIFTPYFTTKAEGTGLGLAVVHNIVEQHGGTIQVASQEGKGA-TFTLWLPVNITRR 453 (457)
T ss_pred -eEEEEEEECCCCCCHHHHHHHhCccccCCCCCCcccHHHHHHHHHHCCCEEEEEeCCCCcE-EEEEEecCCCccC
Confidence 78999999999999999999999985 445899999999999999999999999887533 4455556654433
No 31
>PRK10604 sensor protein RstB; Provisional
Probab=99.94 E-value=3.5e-25 Score=263.87 Aligned_cols=209 Identities=17% Similarity=0.214 Sum_probs=173.0
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecH
Q 037299 873 KCFARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLL 951 (1111)
Q Consensus 873 ~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L 951 (1111)
....+.++++.++|||||||+.|.+.+++++... ++..+ .+.+..++|..+++++ .+++++.+..++...++++
T Consensus 208 ~~~~~~~l~~~vsHeLrtPL~~i~~~l~~l~~~~--~~~~~---~i~~~~~~l~~li~~ll~~~rl~~~~~~~~~~~~~l 282 (433)
T PRK10604 208 LIASKKQLIDGIAHELRTPLVRLRYRLEMSDNLS--AAESQ---ALNRDIGQLEALIEELLTYARLDRPQNELHLSEPDL 282 (433)
T ss_pred HHHHHHHHHHHhhHhhcChHHHHHHHHHHhcCCC--cHHHH---HHHHHHHHHHHHHHHHHHHHhccCCCcccCCCCCCH
Confidence 3445667899999999999999999999887332 22222 2667788999999997 9999998888889999999
Q ss_pred HHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCce
Q 037299 952 GSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQT 1031 (1111)
Q Consensus 952 ~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~ 1031 (1111)
.+++++++..+......+++++.++.++ ..+.+|+..+.+|+.||+.||++|+. +.|.|++...++
T Consensus 283 ~~~l~~~i~~~~~~~~~~~i~~~~~~~~----~~~~~d~~~l~~vl~NLl~NAik~~~---~~I~I~~~~~~~------- 348 (433)
T PRK10604 283 PAWLSTHLADIQAVTPEKTVRLDTPHQG----DYGALDMRLMERVLDNLLNNALRYAH---SRVRVSLLLDGN------- 348 (433)
T ss_pred HHHHHHHHHHHHHHhhcCcEEEEecCCC----ceEecCHHHHHHHHHHHHHHHHHhCC---CeEEEEEEEECC-------
Confidence 9999999999988887777777665443 25778999999999999999999985 678888876655
Q ss_pred eEEEEEEEeeCCCCCChhhhhhccCCCC--------CCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCC
Q 037299 1032 IVHNEFRMVCPGEGLPPELVQDMFHSSR--------WMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMP 1102 (1111)
Q Consensus 1032 ~~~v~i~V~DnG~GIp~e~~~~iFepf~--------~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~ 1102 (1111)
.+.|+|.|||+|||++.++++|+||+ +.+|.||||+||+++++.|||+|++++.++ |++|++++ |..
T Consensus 349 --~~~I~V~D~G~Gi~~e~~~~if~~f~r~~~~~~~~~~g~GLGL~ivk~i~~~~gG~i~v~s~~~~G~~f~i~l--P~~ 424 (433)
T PRK10604 349 --QACLIVEDDGPGIPPEERERVFEPFVRLDPSRDRATGGCGLGLAIVHSIALAMGGSVNCDESELGGARFSFSW--PVW 424 (433)
T ss_pred --EEEEEEEEcCCCCCHHHHhhcCCCCccCCCCCCCCCCCccchHHHHHHHHHHCCCEEEEEecCCCeeEEEEEE--eCC
Confidence 78999999999999999999999985 235889999999999999999999999887 56665555 554
Q ss_pred CC
Q 037299 1103 RR 1104 (1111)
Q Consensus 1103 ~~ 1104 (1111)
..
T Consensus 425 ~~ 426 (433)
T PRK10604 425 HN 426 (433)
T ss_pred CC
Confidence 43
No 32
>PRK10815 sensor protein PhoQ; Provisional
Probab=99.93 E-value=1.5e-24 Score=260.91 Aligned_cols=210 Identities=18% Similarity=0.250 Sum_probs=172.9
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecH
Q 037299 874 CFARLKELAYICQEIKNPLSGVSFTNSLLEATD-LTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLL 951 (1111)
Q Consensus 874 ~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~-l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L 951 (1111)
.....++++.++|||||||+.|.++++.+.... ... .+....+.+...++..+++++ +..+...+...+..+.+++
T Consensus 263 ~~~~~~~l~~isHELRTPLt~I~~~l~~L~~~~~~~~--~~~~~~~~~~i~ri~~~i~~ll~~~~~~~~~~~~~~~~~~l 340 (485)
T PRK10815 263 YTKYRTTLTDLTHSLKTPLAVLQSTLRSLRSGKQMSV--EQAEPIMLEQISRISQQIGYYLHRASMRSEHNLLSRELHSV 340 (485)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcccccceecH
Confidence 344556899999999999999999999887543 222 223344556677888888885 7788877777788899999
Q ss_pred HHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCce
Q 037299 952 GSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQT 1031 (1111)
Q Consensus 952 ~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~ 1031 (1111)
..++++++..+...+..+++.+.++.+++. .+.+|+..|.+|+.||+.||+||++. .|.|++...++
T Consensus 341 ~~ll~~~~~~l~~~~~~~~i~i~~~~~~~~---~v~~d~~~l~~vl~NLi~NAik~~~~---~i~I~~~~~~~------- 407 (485)
T PRK10815 341 APLLDNLTSALNKVYQRKGVNITLDISPEI---TFVGEKNDFMEVMGNVLDNACKYCLE---FVEISARQTDE------- 407 (485)
T ss_pred HHHHHHHHHHHHHHHHHCCcEEEEecCCCc---EEEeCHHHHHHHHHHHHHHHHHhcCC---cEEEEEEEeCC-------
Confidence 999999999999999999999999887654 57899999999999999999999974 46666665544
Q ss_pred eEEEEEEEeeCCCCCChhhhhhccCCCCC----CCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCC
Q 037299 1032 IVHNEFRMVCPGEGLPPELVQDMFHSSRW----MTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMP 1102 (1111)
Q Consensus 1032 ~~~v~i~V~DnG~GIp~e~~~~iFepf~~----~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~ 1102 (1111)
.+.|+|+|+|+|||++.++++|+||+. .+|+||||+||+++++.|||+|.+.|.++ |++|+|+ ||..
T Consensus 408 --~v~I~V~D~G~GI~~e~~~~iF~~f~~~~~~~~G~GLGL~Ivk~iv~~~gG~i~v~s~~~~Gt~f~i~--lp~~ 479 (485)
T PRK10815 408 --HLHIVVEDDGPGIPESKRELIFDRGQRADTLRPGQGLGLSVAREITEQYEGKISAGDSPLGGARMEVI--FGRQ 479 (485)
T ss_pred --EEEEEEEECCCCcCHHHHHHHhCCcccCCCCCCCcchhHHHHHHHHHHcCCEEEEEECCCCEEEEEEE--EcCC
Confidence 789999999999999999999999853 34899999999999999999999999986 5655554 4554
No 33
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=99.92 E-value=5.2e-24 Score=256.63 Aligned_cols=218 Identities=22% Similarity=0.317 Sum_probs=184.3
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecH
Q 037299 873 KCFARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLL 951 (1111)
Q Consensus 873 ~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L 951 (1111)
....+.++++.++||+++||+.+.+.++.+.+... +...+.+..+.....++..+++++ ++++.+.+...+...++++
T Consensus 236 ~~~~~~~~~~~~shel~~pL~~i~~~~~~l~~~~~-~~~~~~l~~~~~~~~~l~~li~~l~~l~~~~~~~~~~~~~~~~~ 314 (466)
T PRK10549 236 NEQMRRDFMADISHELRTPLAVLRGELEAIQDGVR-KFTPESVASLQAEVGTLTKLVDDLHQLSLSDEGALAYRKTPVDL 314 (466)
T ss_pred HHHHHHHHHHHHhHHhCChHHHHHHHHHHHHhccc-cCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccCCCCH
Confidence 33456678899999999999999999988875422 223445677777788999999997 8888888888899999999
Q ss_pred HHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCce
Q 037299 952 GSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQT 1031 (1111)
Q Consensus 952 ~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~ 1031 (1111)
.++++.++..+...+..+++++.+++++.. .+++|+..+.|++.||+.||++|+++ +|.|.|.+....+
T Consensus 315 ~~~l~~~~~~~~~~~~~~~i~i~~~~~~~~---~~~~d~~~l~qvl~nll~NAi~~~~~-~~~I~i~~~~~~~------- 383 (466)
T PRK10549 315 VPLLEVAGGAFRERFASRGLTLQLSLPDSA---TVFGDPDRLMQLFNNLLENSLRYTDS-GGSLHISAEQRDK------- 383 (466)
T ss_pred HHHHHHHHHHHHHHHHHCCcEEEEecCCCc---EEEeCHHHHHHHHHHHHHHHHHhCCC-CCEEEEEEEEcCC-------
Confidence 999999999999999889999999887654 58899999999999999999999987 7899999877665
Q ss_pred eEEEEEEEeeCCCCCChhhhhhccCCCCCC--------CCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeCCC
Q 037299 1032 IVHNEFRMVCPGEGLPPELVQDMFHSSRWM--------TQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPMPR 1103 (1111)
Q Consensus 1032 ~~~v~i~V~DnG~GIp~e~~~~iFepf~~~--------~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~~~ 1103 (1111)
.+.|.|.|||+|||++.++++|+||+.. +|+||||++|+++++.|||++++++.+++++ +|++.||...
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 8899999999999999999999998532 4899999999999999999999999887543 4555667765
Q ss_pred CC
Q 037299 1104 RG 1105 (1111)
Q Consensus 1104 ~~ 1105 (1111)
..
T Consensus 461 ~~ 462 (466)
T PRK10549 461 DL 462 (466)
T ss_pred CC
Confidence 43
No 34
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=99.92 E-value=8.9e-24 Score=245.50 Aligned_cols=211 Identities=20% Similarity=0.242 Sum_probs=168.4
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecH-HH
Q 037299 876 ARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLL-GS 953 (1111)
Q Consensus 876 ~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L-~~ 953 (1111)
.+.++++.++|||||||++|.+..+++.... ..+.. .+.+..+++...++++ ++++............+++ .+
T Consensus 136 ~~~~~~~~~sHelrtPL~~i~~~~e~l~~~~-~~~~~----~~~~~~~~l~~~i~~ll~~~r~~~~~~~~~~~~~~l~~~ 210 (356)
T PRK10755 136 QERLFTADVAHELRTPLAGIRLHLELLEKQH-HIDVA----PLIARLDQMMHTVEQLLQLARAGQSFSSGHYQTVKLLED 210 (356)
T ss_pred HHHHHHHHhhHhhcChHHHHHHHHHHHHhcc-chhHH----HHHHHHHHHHHHHHHHHHHHHcccccccccchhhhHHHH
Confidence 3446889999999999999999998886543 22222 2334456777778885 7777665555556677888 99
Q ss_pred HHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeE
Q 037299 954 VINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIV 1033 (1111)
Q Consensus 954 vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~ 1033 (1111)
++..++..+...+..+++.+.++..+. ...+++|+..+.+|+.||+.||+||++. ++.|.|++...++
T Consensus 211 ~i~~~~~~~~~~~~~~~~~~~~~~~~~--~~~v~~d~~~l~~il~nLi~NA~k~~~~-~~~I~I~~~~~~~--------- 278 (356)
T PRK10755 211 VILPSQDELSEMLEQRQQTLLLPESAA--DITVQGDATLLRLLLRNLVENAHRYSPE-GSTITIKLSQEDG--------- 278 (356)
T ss_pred HHHHHHHHHHHHHHHhCCeEEeccCCC--ceEEEECHHHHHHHHHHHHHHHHhhCCC-CCcEEEEEEEcCC---------
Confidence 999998889888888888888743332 2478999999999999999999999986 6789998866555
Q ss_pred EEEEEEeeCCCCCChhhhhhccCCCC----CCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCCCC
Q 037299 1034 HNEFRMVCPGEGLPPELVQDMFHSSR----WMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMPRR 1104 (1111)
Q Consensus 1034 ~v~i~V~DnG~GIp~e~~~~iFepf~----~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~~~ 1104 (1111)
.+.|+|+|||+|||++.++++|++|+ ..+|+||||++|+++++.|||+|+++|.++ ++| +|++.||....
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 78999999999999999999999984 346899999999999999999999999886 443 56666676543
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=2.4e-23 Score=260.27 Aligned_cols=210 Identities=20% Similarity=0.315 Sum_probs=181.6
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHH
Q 037299 874 CFARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLG 952 (1111)
Q Consensus 874 ~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~ 952 (1111)
......+.+.++||+||||+.|.+.++.+......++..++++.+.+..+++..+++++ ++.+++.+.......++++.
T Consensus 482 ~~~l~~~s~~lSHELrtPL~~I~~~le~L~~~~~~~~~~~~le~i~~~i~~L~~li~~l~~~arle~~~~~~~~~~~dl~ 561 (703)
T TIGR03785 482 THYLENMSSRLSHELRTPVAVVRSSLENLELQALEQEKQKYLERAREGTERLSMILNNMSEATRLEQAIQSAEVEDFDLS 561 (703)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccccceeecHH
Confidence 33455678889999999999999999999877778888889999999999999999997 88888877777888999999
Q ss_pred HHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCcee
Q 037299 953 SVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTI 1032 (1111)
Q Consensus 953 ~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~ 1032 (1111)
+++++++..+......+++.+.++.++ ..+.+|+..|.|++.||+.||+||++. ++.|.|++....+
T Consensus 562 ~ll~~~i~~~~~~~~~~~i~l~i~~~~----~~i~~d~~~L~~il~NLI~NAik~s~~-~~~I~I~~~~~~~-------- 628 (703)
T TIGR03785 562 EVLSGCMQGYQMTYPPQRFELNIPETP----LVMRGSPELIAQMLDKLVDNAREFSPE-DGLIEVGLSQNKS-------- 628 (703)
T ss_pred HHHHHHHHHHHHHhhcCCEEEEecCCC----eEEEECHHHHHHHHHHHHHHHHHHCCC-CCeEEEEEEEcCC--------
Confidence 999999999999888887777665432 368999999999999999999999987 6789998877655
Q ss_pred EEEEEEEeeCCCCCChhhhhhccCCCCCC--------CCccchHHHHHHHHHHcCCEEEEEecCC--ceEEEEEE
Q 037299 1033 VHNEFRMVCPGEGLPPELVQDMFHSSRWM--------TQEGLGLSMCRKILKLMNGEVQYIRESE--RCYFLIIF 1097 (1111)
Q Consensus 1033 ~~v~i~V~DnG~GIp~e~~~~iFepf~~~--------~G~GLGL~i~r~iVe~~gG~I~v~s~~g--gstF~~~L 1097 (1111)
.+.|+|.|+|+|||++.++++|+||+.. +|+||||+|||+|++.|||+|++.+.++ |++|+|+|
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~L 702 (703)
T TIGR03785 629 -HALLTVSNEGPPLPEDMGEQLFDSMVSVRDQGAQDQPHLGLGLYIVRLIADFHQGRIQAENRQQNDGVVFRISL 702 (703)
T ss_pred -EEEEEEEEcCCCCCHHHHHHHhCCCeecCCCCCCCCCCccHHHHHHHHHHHHcCCEEEEEECCCCCeEEEEEEe
Confidence 8899999999999999999999998521 2689999999999999999999999865 55555544
No 36
>PRK09835 sensor kinase CusS; Provisional
Probab=99.91 E-value=7.3e-23 Score=247.75 Aligned_cols=211 Identities=18% Similarity=0.273 Sum_probs=178.2
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecH
Q 037299 874 CFARLKELAYICQEIKNPLSGVSFTNSLLEAT-DLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLL 951 (1111)
Q Consensus 874 ~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~-~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L 951 (1111)
...+.++++.++|||++||+.|.+..+.+... ....+..+.+..+.+...++..+++++ ++.+.+.+.......++++
T Consensus 259 ~~~~~~~~~~laheL~tpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~ll~~~~~~~~~~~~~~~~~~l 338 (482)
T PRK09835 259 FTRQSNFSADIAHEIRTPITNLITQTEIALSQSRSQKELEDVLYSNLEELTRMAKMVSDMLFLAQADNNQLIPEKKMLDL 338 (482)
T ss_pred HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCceeecH
Confidence 34456789999999999999999888876543 333455667777777788999999996 8999888887788899999
Q ss_pred HHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCce
Q 037299 952 GSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQT 1031 (1111)
Q Consensus 952 ~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~ 1031 (1111)
.++++.++..+......+++.+.++.++ ..+.+|+..|.+|+.||+.||++|+++ ++.|.|++....+
T Consensus 339 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~----~~v~~d~~~l~~vl~nll~Na~~~~~~-~~~I~i~~~~~~~------- 406 (482)
T PRK09835 339 ADEVGKVFDFFEAWAEERGVELRFVGDP----CQVAGDPLMLRRAISNLLSNALRYTPA-GEAITVRCQEVDH------- 406 (482)
T ss_pred HHHHHHHHHHHHHHHhhCCEEEEEeCCC----cEEEECHHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEEeCC-------
Confidence 9999999999999888888888776332 368999999999999999999999987 6778888876655
Q ss_pred eEEEEEEEeeCCCCCChhhhhhccCCCCC--------CCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEE
Q 037299 1032 IVHNEFRMVCPGEGLPPELVQDMFHSSRW--------MTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFE 1098 (1111)
Q Consensus 1032 ~~~v~i~V~DnG~GIp~e~~~~iFepf~~--------~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~ 1098 (1111)
.+.|+|.|+|+|||++.++++|+||+. .+|+||||+||+++++.|||+|+++|.++|++|+|+||
T Consensus 407 --~~~i~v~d~G~gi~~~~~~~if~~f~~~~~~~~~~~~g~GlGL~i~~~i~~~~~g~i~~~s~~~g~~~~i~lP 479 (482)
T PRK09835 407 --QVQLVVENPGTPIAPEHLPRLFDRFYRVDPSRQRKGEGSGIGLAIVKSIVVAHKGTVAVTSDARGTRFVISLP 479 (482)
T ss_pred --EEEEEEEECCCCcCHHHHHHHhCCcccCCCCCCCCCCCcchHHHHHHHHHHHCCCEEEEEECCCcEEEEEEee
Confidence 789999999999999999999999852 35899999999999999999999999877777777653
No 37
>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=99.90 E-value=1.6e-22 Score=242.83 Aligned_cols=208 Identities=20% Similarity=0.349 Sum_probs=176.6
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHH
Q 037299 875 FARLKELAYICQEIKNPLSGVSFTNSLLEAT-DLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLG 952 (1111)
Q Consensus 875 ~~r~~~La~isHEIrnPLt~I~~~~~LL~~~-~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~ 952 (1111)
....++.+.++||+||||+.+.+..+++... ...++..++++.+.....++.++++++ .+.+++.........++++.
T Consensus 239 ~~~~~~~~~~~h~l~tpl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ll~~~~~~~~~~~~~~~~~~~~ 318 (457)
T TIGR01386 239 QRLSQFSADLAHELRTPLTNLLGQTQVALSQPRTGEEYREVLESNLEELERLSRMVSDMLFLARADNGQLALERVRLDLA 318 (457)
T ss_pred HHHHHHHHhhhhhhcCcHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccCHH
Confidence 3445578889999999999999888887543 334556777888888889999999996 99999888888888999999
Q ss_pred HHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCcee
Q 037299 953 SVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTI 1032 (1111)
Q Consensus 953 ~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~ 1032 (1111)
++++.++..+......+++++.++.+ ..+.+|+..|.+++.||+.||+||++. ++.|.|++...++
T Consensus 319 ~~~~~~~~~~~~~~~~~~i~~~~~~~-----~~~~~~~~~l~~~~~nll~Nai~~~~~-~~~I~i~~~~~~~-------- 384 (457)
T TIGR01386 319 AELAKVAEYFEPLAEERGVRIRVEGE-----GLVRGDPQMFRRAISNLLSNALRHTPD-GGTITVRIERRSD-------- 384 (457)
T ss_pred HHHHHHHHHHHHHHHhCCeEEEecCC-----ceEEECHHHHHHHHHHHHHHHHHcCCC-CceEEEEEEecCC--------
Confidence 99999999998888888888776643 268999999999999999999999987 6889998877655
Q ss_pred EEEEEEEeeCCCCCChhhhhhccCCCCC--------CCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEee
Q 037299 1033 VHNEFRMVCPGEGLPPELVQDMFHSSRW--------MTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELP 1100 (1111)
Q Consensus 1033 ~~v~i~V~DnG~GIp~e~~~~iFepf~~--------~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP 1100 (1111)
.+.|+|.|||+|||++.+.++|++|++ ..|+||||+||+++++.|||++.+++ ++ |++ |++.||
T Consensus 385 -~~~i~v~D~G~g~~~~~~~~~~~~~~~~~~~~~~~~~g~GlGL~i~~~~~~~~~G~~~~~~-~~~G~~--~~~~~P 457 (457)
T TIGR01386 385 -EVRVSVSNPGPGIPPEHLSRLFDRFYRVDPARSNSGEGTGLGLAIVRSIMEAHGGRASAES-PDGKTR--FILRFP 457 (457)
T ss_pred -EEEEEEEeCCCCCCHHHHHHhccccccCCcccCCCCCCccccHHHHHHHHHHCCCEEEEEe-CCCceE--EEEecC
Confidence 789999999999999999999999863 35899999999999999999999999 65 455 444555
No 38
>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=99.90 E-value=3e-24 Score=203.24 Aligned_cols=109 Identities=33% Similarity=0.546 Sum_probs=92.5
Q ss_pred HHhhccCCCCCCccceEEEEeCCCceEEeeccchhhhhCCCCCCCCcchhhhhhhcCCchhhhcCchhHHHHHHHhcccc
Q 037299 86 YLSKIQRGGHIQPFGCTIAVDEATFRVIAYSENAGEMLGLAPQSVPNLEKQEILTIGTDVRTLFTSSSSVLLEKAFGARE 165 (1111)
Q Consensus 86 ~~~~i~~~g~iQp~G~ll~~~~~~~~i~~~S~N~~~~lg~~~~~~~~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~ 165 (1111)
+-|+||+||+|||||+|||+|+++++|+|+|+|+.++||.+|. + +..++|+++.++|++...+.+++++....
T Consensus 2 ~~EPIH~pG~IQphG~LLa~d~~~~~I~~~S~N~~~~lg~~~~-~------~~~llG~~l~~ll~~~~~~~l~~~~~~~~ 74 (110)
T PF08446_consen 2 DREPIHIPGSIQPHGALLALDPDDLRIVQASENIAELLGIPPE-L------PEELLGRPLSELLGAESAERLREALQSES 74 (110)
T ss_dssp GGS-TTC-SEE-TTSEEEEEETTTTBEEEEETTHHHHHSS-----------HHHHTTCBHHHHSCCCCHHHHHHHCTCCC
T ss_pred CcccccCCCccCCCEEEEEEECCCCEEEEEcCCHHHHhCCccc-c------chhhcccCHHHHhCHHHHHHHHHhhhccC
Confidence 3589999999999999999999999999999999999999832 0 12479999999999999999999998877
Q ss_pred cccCCcEEEEecCCCceEEEEEEEeCCEEEEEeeeC
Q 037299 166 ITLLNPIWIHSKNTGKPFYAILHRVDVGIVIDLEPA 201 (1111)
Q Consensus 166 ~~~~~~~~~~~~~~~~~f~~~~h~~~~~~i~e~E~~ 201 (1111)
....+|+.++...+++.|++++||+++.+||||||+
T Consensus 75 ~~~~~~~~~~~~~~~~~f~~~~H~~~~~lilElEp~ 110 (110)
T PF08446_consen 75 LSLSNPIALRLRIGGRPFDAIAHRSGGLLILELEPA 110 (110)
T ss_dssp CCCCCCEEEEEEEEEEEEEEEEEEETTEEEEEEEE-
T ss_pred ccccCCeEEEeccCCeeEEEEEEEECCEEEEEEeeC
Confidence 777889998866678899999999999999999995
No 39
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=99.90 E-value=3.1e-22 Score=241.56 Aligned_cols=212 Identities=19% Similarity=0.287 Sum_probs=184.0
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHH
Q 037299 876 ARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSV 954 (1111)
Q Consensus 876 ~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~v 954 (1111)
...++++.++||++||++.+.+..+++......+...++++.+....+++..+++++ .+++++.........++++.++
T Consensus 255 ~~~~~~~~~~h~l~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~ 334 (475)
T PRK11100 255 YVEQYVQTLTHELKSPLAAIRGAAELLQEDPPPEDRARFTGNILTQSARLQQLIDRLLELARLEQRQELEVLEPVALAAL 334 (475)
T ss_pred HHHHHHHHhhhhhcCcHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCccceeccHHHH
Confidence 345678899999999999999999998876667778889999999999999999997 8888887777777899999999
Q ss_pred HHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEE
Q 037299 955 INAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVH 1034 (1111)
Q Consensus 955 i~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~ 1034 (1111)
++.++..+......+++++.++.+ + ..+.+|...|.+++.||+.||++|+.. ++.|.|++...++ .
T Consensus 335 ~~~~~~~~~~~~~~~~i~~~~~~~-~---~~~~~~~~~l~~vl~nli~Na~~~~~~-~~~i~i~~~~~~~---------~ 400 (475)
T PRK11100 335 LEELVEAREAQAAAKGITLRLRPD-D---ARVLGDPFLLRQALGNLLDNAIDFSPE-GGTITLSAEVDGE---------Q 400 (475)
T ss_pred HHHHHHHHHHHHHhCCceEEEeCC-C---ceEEECHHHHHHHHHHHHHHHHHhCCC-CCEEEEEEEEcCC---------E
Confidence 999999999999899999988776 2 268899999999999999999999876 6889999877655 7
Q ss_pred EEEEEeeCCCCCChhhhhhccCCCCC-------CCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeCC
Q 037299 1035 NEFRMVCPGEGLPPELVQDMFHSSRW-------MTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPMP 1102 (1111)
Q Consensus 1035 v~i~V~DnG~GIp~e~~~~iFepf~~-------~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~~ 1102 (1111)
+.|+|+|+|+|||++.++++|++|+. ..|+||||++|+++++.|||+++++|.+++++ +|++.||..
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 89999999999999999999999742 25889999999999999999999999886543 555566653
No 40
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.90 E-value=2.9e-22 Score=266.61 Aligned_cols=268 Identities=13% Similarity=0.094 Sum_probs=236.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHH
Q 037299 590 LELQGVDELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHAL 669 (1111)
Q Consensus 590 ~l~~~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l 669 (1111)
..+++.++|++++++++.++|+++++|+.+|.+|++++||+++++++||+.++++|+++. ++++|++.+.....+....
T Consensus 270 ~~r~~~~~l~~~e~r~~~l~e~~~~~i~~~d~dG~i~~~N~~~~~l~G~~~~el~g~~~~-~~~~~~d~~~~~~~~~~~~ 348 (1092)
T PRK09776 270 AFRAERKHISESETRFRNAMEYSAIGMALVGTEGQWLQVNKALCQFLGYSQEELRGLTFQ-QLTWPEDLNKDLQQVEKLL 348 (1092)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCceEEEEcCCCcEEehhHHHHHHhCCCHHHHccCCce-eccCcchhHhHHHHHHHHH
Confidence 345566789999999999999999999999999999999999999999999999999988 8889998888877787777
Q ss_pred cCCCccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCCC
Q 037299 670 KGEEDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIPP 749 (1111)
Q Consensus 670 ~~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~~ 749 (1111)
.++.. .+.......+++|+.+|+..+..+++|.+|++.+++++++|||++|++|+++++++++++.+++..+. +
T Consensus 349 ~~~~~---~~~~e~~~~~~dG~~~~~~~~~~~~~~~~g~~~~~i~~~~DITerk~~e~~l~~~~~~~~~~~~~~~~---~ 422 (1092)
T PRK09776 349 SGEIN---SYSMEKRYYRRDGEVVWALLAVSLVRDTDGTPLYFIAQIEDINELKRTEQVNERLMERITLANEAGGI---G 422 (1092)
T ss_pred cCCcc---ceeeeeEEEcCCCCEEEEEEEEEEEECCCCCEeeehhhHHhhHHHHHHHHHHHHHHHHHHHHHHhcCc---e
Confidence 66533 12222333478999999999999999999999999999999999999999999999999999998876 8
Q ss_pred ccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCE
Q 037299 750 IFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKY 829 (1111)
Q Consensus 750 I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~ 829 (1111)
+|.+|.++++++||+++.+++|+++++..+.. .+....+|++...+...+.+...++.....++++.++|| .
T Consensus 423 i~~~d~~~~~~~~n~~~~~l~G~~~~~~~~~~-------~~~~~~~p~d~~~~~~~~~~~~~~~~~~~~e~r~~~~dG-~ 494 (1092)
T PRK09776 423 IWEWDLKPNIISWDKRMFELYEIPPHIKPTWQ-------VWYACLHPEDRQRVEKEIRDALQGRSPFKLEFRIVVKDG-V 494 (1092)
T ss_pred EEEEecCCCeEeeCHHHHHHhCCCcccCCCHH-------HHHHhcCHhHHHHHHHHHHHHHhcCCCeeEEEEEEcCCc-e
Confidence 99999999999999999999999998844322 245567799999888889999999999999999999999 9
Q ss_pred EEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHHH
Q 037299 830 VQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQEK 872 (1111)
Q Consensus 830 ~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e~ 872 (1111)
+|+.....++.|.+|++.+++++.+|||++++.++++++..++
T Consensus 495 ~w~~~~~~~~~d~~G~~~~~ig~~~DITerk~~e~~L~~~~~~ 537 (1092)
T PRK09776 495 RHIRALANRVLNKDGEVERLLGINMDMTEVRQLNEALFQEKER 537 (1092)
T ss_pred EEEEEeeEEEECCCCCEEEEEeeeeehhHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999988777654443
No 41
>PRK10337 sensor protein QseC; Provisional
Probab=99.90 E-value=3.5e-22 Score=239.67 Aligned_cols=206 Identities=18% Similarity=0.277 Sum_probs=172.6
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHH
Q 037299 876 ARLKELAYICQEIKNPLSGVSFTNSLLEATDLTE-DQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGS 953 (1111)
Q Consensus 876 ~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e-~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~ 953 (1111)
...++++.++||+|+||+.+.+..+.+......+ ....++..+....+++..++++| .+++++.+.......++++.+
T Consensus 236 ~~~~~~~~~ahelrtpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~ll~~~r~~~~~~~~~~~~~~l~~ 315 (449)
T PRK10337 236 RERRFTSDAAHELRSPLAALKVQTEVAQLSDDDPQARKKALLQLHAGIDRATRLVDQLLTLSRLDSLDNLQDVAEIPLED 315 (449)
T ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCcccCHHH
Confidence 3446899999999999999998888776543333 45567888888999999999997 999987766666778999999
Q ss_pred HHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeE
Q 037299 954 VINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIV 1033 (1111)
Q Consensus 954 vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~ 1033 (1111)
++++++..+...+..+++.+.++.++.. ..+++|+..+.+++.||+.||+||++. ++.|.|++..
T Consensus 316 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~--~~~~~~~~~l~~vl~Nli~NA~k~~~~-~~~i~i~~~~------------ 380 (449)
T PRK10337 316 LLQSAVMDIYHTAQQAGIDVRLTLNAHP--VIRTGQPLLLSLLVRNLLDNAIRYSPQ-GSVVDVTLNA------------ 380 (449)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecCCCC--ceeecCHHHHHHHHHHHHHHHHhhCCC-CCeEEEEEEe------------
Confidence 9999999999989899999998876543 257999999999999999999999987 6778877632
Q ss_pred EEEEEEeeCCCCCChhhhhhccCCCCC-----CCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEE
Q 037299 1034 HNEFRMVCPGEGLPPELVQDMFHSSRW-----MTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFE 1098 (1111)
Q Consensus 1034 ~v~i~V~DnG~GIp~e~~~~iFepf~~-----~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~ 1098 (1111)
..++|+|||+|||++.++++|+||++ .+|+||||+||++++++|||+|++++.++++ |+|++.
T Consensus 381 -~~i~i~D~G~Gi~~~~~~~if~~f~~~~~~~~~g~GlGL~iv~~i~~~~gg~l~~~s~~~~G-~~~~i~ 448 (449)
T PRK10337 381 -RNFTVRDNGPGVTPEALARIGERFYRPPGQEATGSGLGLSIVRRIAKLHGMNVSFGNAPEGG-FEAKVS 448 (449)
T ss_pred -eEEEEEECCCCCCHHHHHHhcccccCCCCCCCCccchHHHHHHHHHHHcCCEEEEEecCCCe-EEEEEe
Confidence 25889999999999999999999853 2489999999999999999999999988743 245443
No 42
>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=99.90 E-value=4e-22 Score=250.50 Aligned_cols=197 Identities=20% Similarity=0.316 Sum_probs=159.3
Q ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHH
Q 037299 878 LKELAYICQEIKNPLSGVSFTNSLLEATDL-TEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVI 955 (1111)
Q Consensus 878 ~~~La~isHEIrnPLt~I~~~~~LL~~~~l-~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi 955 (1111)
.++.+.++||||||++.+....+..+.... .+...++++.+.+..++|.++++++ +.. ......++++.+++
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 456788999999999999887777665433 3446678888999999999999887 222 24566789999999
Q ss_pred HHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEE
Q 037299 956 NAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHN 1035 (1111)
Q Consensus 956 ~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v 1035 (1111)
++++...... ...+.+.+ +++ ..+.+|+..+.||+.||+.||+||++. ++.|+|++...++ .+
T Consensus 550 ~~~~~~~~~~--~~~~~l~~--~~~---~~v~~d~~~l~~vl~nLl~NAik~~~~-~~~I~I~~~~~~~---------~~ 612 (679)
T TIGR02916 550 RRAIASKRAQ--GPRPEVSI--DTD---LSVRADRERLERVLGHLVQNALEATPG-EGRVAIRVERECG---------AA 612 (679)
T ss_pred HHHHHHhhhh--cCCceEEe--CCC---ceEEECHHHHHHHHHHHHHHHHHhCCC-CCcEEEEEEEcCC---------EE
Confidence 9998876543 23344443 333 368999999999999999999999987 6889999876655 88
Q ss_pred EEEEeeCCCCCChhh-hhhccCCCCCC--CCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEE
Q 037299 1036 EFRMVCPGEGLPPEL-VQDMFHSSRWM--TQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIF 1097 (1111)
Q Consensus 1036 ~i~V~DnG~GIp~e~-~~~iFepf~~~--~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L 1097 (1111)
.|+|+|||+|||++. .+++|+||+++ +|+|+||++||++++.|||+|+++|.+| |++|++++
T Consensus 613 ~i~V~D~G~Gi~~~~i~~~lF~pf~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~g~Gt~f~i~L 678 (679)
T TIGR02916 613 RIEIEDSGCGMSPAFIRERLFKPFDTTKGAGMGIGVYECRQYVEEIGGRIEVESTPGQGTIFTLVL 678 (679)
T ss_pred EEEEEEcCCCcChHHHHHhcCCCCCCCCCCCcchhHHHHHHHHHHcCCEEEEEecCCCceEEEEEe
Confidence 999999999999998 99999998544 5889999999999999999999999987 56666554
No 43
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.90 E-value=1.1e-22 Score=270.72 Aligned_cols=262 Identities=12% Similarity=0.143 Sum_probs=220.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHc
Q 037299 591 ELQGVDELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALK 670 (1111)
Q Consensus 591 l~~~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~ 670 (1111)
.++.++++++.+++++.+++.+++++|.+|.+|++++||+++++++|++.++..+...+...++|++.+.+...+.....
T Consensus 398 rk~~e~~l~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~n~~~~~l~G~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~~ 477 (1092)
T PRK09776 398 LKRTEQVNERLMERITLANEAGGIGIWEWDLKPNIISWDKRMFELYEIPPHIKPTWQVWYACLHPEDRQRVEKEIRDALQ 477 (1092)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCceEEEEecCCCeEeeCHHHHHHhCCCcccCCCHHHHHHhcCHhHHHHHHHHHHHHHh
Confidence 45566778888899999999999999999999999999999999999999886555444477899999999888999998
Q ss_pred CCCccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCCCc
Q 037299 671 GEEDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIPPI 750 (1111)
Q Consensus 671 ~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~~I 750 (1111)
++.....++++. +++| .+|+.....+++|.+|++.+++++.+|||++|++++++++++++++.+++++++ +|
T Consensus 478 ~~~~~~~e~r~~----~~dG-~~w~~~~~~~~~d~~G~~~~~ig~~~DITerk~~e~~L~~~~~~l~~~l~~~~~---~i 549 (1092)
T PRK09776 478 GRSPFKLEFRIV----VKDG-VRHIRALANRVLNKDGEVERLLGINMDMTEVRQLNEALFQEKERLHITLDSIGE---AV 549 (1092)
T ss_pred cCCCeeEEEEEE----cCCc-eEEEEEeeEEEECCCCCEEEEEeeeeehhHHHHHHHHHHHHHHHHHHHHhcccc---EE
Confidence 887766666665 7899 999999999999999999999999999999999999999999999999999987 89
Q ss_pred cccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCc--ceeeeeeecCCCC
Q 037299 751 FASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDT--EKFPFPLFDRNGK 828 (1111)
Q Consensus 751 ~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~--~~~e~~~~~~dG~ 828 (1111)
+.+|.+|+++++|+++++++||+.++++|++....+. ..++++...... +......... ...+..+.+++|+
T Consensus 550 ~~~D~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~~~~-----~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~G~ 623 (1092)
T PRK09776 550 VCTDMAMKVTFMNPVAEKMTGWTQEEALGVPLLTVLH-----ITFGDNGPLMEN-IYSCLTSRSAAYLEQDVVLHCRSGG 623 (1092)
T ss_pred EEECCCCeEEEEcHHHHHHhCCCHHHHcCCCHHHHcc-----cccCCcchhhHH-HHHHHhcCCCccccceEEEEeCCCc
Confidence 9999999999999999999999999999998633221 111222222222 3333333333 4567788899999
Q ss_pred EEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHH
Q 037299 829 YVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTV 866 (1111)
Q Consensus 829 ~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el 866 (1111)
.+|+..+..|+.+.+|++.|++++++|||++++.+.++
T Consensus 624 ~~~~~~~~~pi~~~~g~~~g~v~~~~DITe~k~~e~~L 661 (1092)
T PRK09776 624 SYDVHYSITPLSTLDGENIGSVLVIQDVTESRKMLRQL 661 (1092)
T ss_pred EEEEEEEeeeeecCCCCEEEEEEEEEecchHHHHHHHH
Confidence 99999999999999999999999999999988776544
No 44
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=99.89 E-value=2.5e-22 Score=219.32 Aligned_cols=209 Identities=20% Similarity=0.326 Sum_probs=174.6
Q ss_pred HHHHHHHhhhHHHHHHHH---HHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHHH
Q 037299 881 LAYICQEIKNPLSGVSFT---NSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVIN 956 (1111)
Q Consensus 881 La~isHEIrnPLt~I~~~---~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi~ 956 (1111)
+..++|||++||+++..+ +.+.-+...++....++++|..-.+||..|++.| .|+|-.++ +-...|++|..+++
T Consensus 455 mTslaHEinQPLnAmsaYLFsA~~A~e~~~s~qa~~~L~kie~L~eR~~~Iv~sLRqF~Rk~s~--~~~lqpV~L~~~v~ 532 (673)
T COG4192 455 MTSLAHEINQPLNAMSAYLFSARLALEEAPSAQAATSLDKIENLTERMGKIVNSLRQFARKNSS--DESLQPVRLNSVVE 532 (673)
T ss_pred HHHHHHHhcCchHHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC--CCCcccccHHHHHH
Confidence 677899999999999744 4444556778888999999999999999999999 99987444 44578999999999
Q ss_pred HHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEE
Q 037299 957 AVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNE 1036 (1111)
Q Consensus 957 ~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~ 1036 (1111)
++...+....+.+.+.+.... +.+ +|.||..+|+|||.|++.||+++......+|.|.+..+.. ..++
T Consensus 533 ~AweLl~~khk~rQ~~Li~pt--D~~--~V~gd~v~ieQVlvNl~~NaldA~~h~~p~i~~~~~~~~~--------e~l~ 600 (673)
T COG4192 533 QAWELLQTKHKRRQIKLINPT--DDL--MVMGDAVSIEQVLVNLIVNALDASTHFAPWIKLIALGTEQ--------EMLR 600 (673)
T ss_pred HHHHHHHhhhhhccccccCCc--ccc--eecchhhhHHHHHHHHHHHHHhhhccCCceEEEEeecCcc--------cceE
Confidence 999999999988888887655 333 7999999999999999999999866534788887654322 2789
Q ss_pred EEEeeCCCCCChhhhhhccCCCCCCC--CccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeCCCC
Q 037299 1037 FRMVCPGEGLPPELVQDMFHSSRWMT--QEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPMPRR 1104 (1111)
Q Consensus 1037 i~V~DnG~GIp~e~~~~iFepf~~~~--G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~~~~ 1104 (1111)
+.|.|||+|.|-+..+++|.||.+.+ |.||||+||..+++.|.|++.+.|.-.+.. +|.|.|.++..
T Consensus 601 i~i~DnGqGwp~~l~dkLl~PFttsK~vgLGlGLSIsqSlmeqmqG~l~lAStLt~nA-~ViL~f~v~~~ 669 (673)
T COG4192 601 IAIIDNGQGWPHELVDKLLTPFTTSKEVGLGLGLSISQSLMEQMQGRLALASTLTKNA-MVILEFQVDEK 669 (673)
T ss_pred EEEecCCCCCchhHHHHhcCCcccccccccccchhHHHHHHHHhcCcchHhhhcccCc-EEEEEEeecch
Confidence 99999999999999999999996555 899999999999999999999999876543 57777776643
No 45
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=99.89 E-value=1.1e-21 Score=236.04 Aligned_cols=211 Identities=18% Similarity=0.259 Sum_probs=170.5
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHH
Q 037299 874 CFARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLG 952 (1111)
Q Consensus 874 ~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~ 952 (1111)
...+.++++.++||++|||+.|.+...++........ .+..+....+++.+++++| ++++.+.. ..+....+++.
T Consensus 240 ~~~~~~~~~~~shel~tpl~~i~~~~~~~~~~~~~~~---~~~~i~~~~~~l~~~i~~l~~~~~~~~~-~~~~~~~~~l~ 315 (461)
T PRK09470 240 MTSQQRLLSDISHELRTPLTRLQLATALLRRRQGESK---ELERIETEAQRLDSMINDLLVLSRNQQK-NHLERETFKAN 315 (461)
T ss_pred HHHHHHHHHhhhHhhCCHHHHHHHHHHHHhhccCChH---HHHHHHHHHHHHHHHHHHHHHHHHhhcc-cccccceecHH
Confidence 3445567899999999999999988888865433222 3566777889999999997 88886554 35677899999
Q ss_pred HHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCcee
Q 037299 953 SVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTI 1032 (1111)
Q Consensus 953 ~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~ 1032 (1111)
.+++.++..+.......++.+.++..++ ...+.+|+..|.+++.||+.||++|++ +.|.|++....+
T Consensus 316 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~--~~~~~~~~~~l~~~l~nli~NA~~~~~---~~i~i~~~~~~~-------- 382 (461)
T PRK09470 316 SLWSEVLEDAKFEAEQMGKSLTVSAPPG--PWPINGNPNALASALENIVRNALRYSH---TKIEVAFSVDKD-------- 382 (461)
T ss_pred HHHHHHHHHHHHHHHHCCCeEEEecCCc--ceEEEECHHHHHHHHHHHHHHHHHhCC---CcEEEEEEEECC--------
Confidence 9999999988887778888888874443 237899999999999999999999986 457777766555
Q ss_pred EEEEEEEeeCCCCCChhhhhhccCCCCC--------CCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeCCC
Q 037299 1033 VHNEFRMVCPGEGLPPELVQDMFHSSRW--------MTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPMPR 1103 (1111)
Q Consensus 1033 ~~v~i~V~DnG~GIp~e~~~~iFepf~~--------~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~~~ 1103 (1111)
.+.|+|.|||+|||++.++++|+||++ .+|+||||++|+++++.|||++.+.|.++++| +|++.+|+..
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 789999999999999999999999853 24899999999999999999999999887533 4555556643
No 46
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=99.89 E-value=1.7e-21 Score=232.79 Aligned_cols=202 Identities=19% Similarity=0.315 Sum_probs=158.1
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeec
Q 037299 872 KKCFARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFL 950 (1111)
Q Consensus 872 ~~~~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~ 950 (1111)
+....+..+++.++|||||||+.|....+++... .....+.+.+..++|..+++++ ++.+... .....+++
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 3445566789999999999999999888776432 2233456677788999999986 7766543 23567889
Q ss_pred HHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCc
Q 037299 951 LGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQ 1030 (1111)
Q Consensus 951 L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~ 1030 (1111)
+.+++++++.... ..+..+.++++... ..+.+|+..|.+++.||+.||+||+. +.|.|++....+
T Consensus 296 l~~~~~~~~~~~~----~~~~~i~~~~~~~~--~~~~~~~~~l~~il~NLl~NA~k~~~---~~i~i~~~~~~~------ 360 (435)
T PRK09467 296 LNALLGEVIAAES----GYEREIETALQPGP--IEVPMNPIAIKRALANLVVNAARYGN---GWIKVSSGTEGK------ 360 (435)
T ss_pred HHHHHHHHHHHhh----hcCCeEEEecCCCC--ceEEECHHHHHHHHHHHHHHHHHhCC---CeEEEEEEecCC------
Confidence 9999999887654 34455555555442 26899999999999999999999973 678888876555
Q ss_pred eeEEEEEEEeeCCCCCChhhhhhccCCCCC------CCCccchHHHHHHHHHHcCCEEEEEecCCc-eEEEEEEEe
Q 037299 1031 TIVHNEFRMVCPGEGLPPELVQDMFHSSRW------MTQEGLGLSMCRKILKLMNGEVQYIRESER-CYFLIIFEL 1099 (1111)
Q Consensus 1031 ~~~~v~i~V~DnG~GIp~e~~~~iFepf~~------~~G~GLGL~i~r~iVe~~gG~I~v~s~~gg-stF~~~L~L 1099 (1111)
.+.|+|.|+|+|||++.++++|+||+. .+|+||||+||+++++.|||+|.+.+.+++ ++|++++|+
T Consensus 361 ---~~~i~V~D~G~Gi~~~~~~~~~~~f~~~~~~~~~~g~GlGL~iv~~i~~~~~g~l~i~~~~~~G~~~~i~lp~ 433 (435)
T PRK09467 361 ---RAWFQVEDDGPGIPPEQLKHLFQPFTRGDSARGSSGTGLGLAIVKRIVDQHNGKVELGNSEEGGLSARAWLPL 433 (435)
T ss_pred ---EEEEEEEecCCCcCHHHHHHhcCCcccCCCCCCCCCeehhHHHHHHHHHHCCCEEEEEECCCCcEEEEEEEeC
Confidence 789999999999999999999999842 458999999999999999999999987764 555555543
No 47
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.88 E-value=6.4e-21 Score=216.84 Aligned_cols=211 Identities=29% Similarity=0.469 Sum_probs=175.4
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCC-cceeeEeecHHH
Q 037299 876 ARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGS-LEFEKAEFLLGS 953 (1111)
Q Consensus 876 ~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~-~~l~~~~~~L~~ 953 (1111)
.+..+++.++||++||++.+.+..+.+... ........+..+....+++..+++++ ++.+..... .......+++..
T Consensus 114 ~~~~~~~~~~hel~~pl~~i~~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ 192 (336)
T COG0642 114 AKREFLANISHELRTPLTAIRGLLELLLEG-LLDPQRELLEIIEEEAERLLRLVNDLLDLSRLEAGTKLKLLLELVDLAE 192 (336)
T ss_pred HHHHHHHhhhhhhcCcHHHHHHHHHHhccC-CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCCCCcCHHH
Confidence 367788999999999999999888866544 22226778888888889999999995 888887652 344477788999
Q ss_pred HHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeE
Q 037299 954 VINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIV 1033 (1111)
Q Consensus 954 vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~ 1033 (1111)
++..++..+........+.+....+. ...+.+|...+.|||.||+.||+||++ ++.|.|.+....+
T Consensus 193 ~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~v~~~~~~l~~vl~nLi~NAi~~~~--~~~i~i~~~~~~~--------- 258 (336)
T COG0642 193 LLEEVVRLLAPLAQEKGIELAVDLPE---LPYVLGDPERLRQVLVNLLSNAIKYTP--GGEITISVRQDDE--------- 258 (336)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecCC---CceEeeCHHHHHHHHHHHHHHHhccCC--CCeEEEEEEecCC---------
Confidence 99999999999888888888866652 236899999999999999999999998 6899999877655
Q ss_pred EEEEEEeeCCCCCChhhhhhccCCCCCCC----CccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeC
Q 037299 1034 HNEFRMVCPGEGLPPELVQDMFHSSRWMT----QEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPM 1101 (1111)
Q Consensus 1034 ~v~i~V~DnG~GIp~e~~~~iFepf~~~~----G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~ 1101 (1111)
++.++|.|+|+|||++.++++|+||++++ |+||||++|+++++.|||++.+.+.++ |++|+|++|.+.
T Consensus 259 ~i~i~V~D~G~Gi~~~~~~~if~~~~~~~~~~~g~GlGL~i~~~~~~~~~g~i~~~~~~~~Gt~~~i~lP~~~ 331 (336)
T COG0642 259 QVTISVEDTGPGIPEEELERIFEPFFRTDKSRSGTGLGLAIVKRIVELHGGTISVESEPGKGTTFTIRLPLAP 331 (336)
T ss_pred eEEEEEEcCCCCCCHHHHHHhccCeeccCCCCCCCCccHHHHHHHHHHcCCEEEEEecCCCceEEEEEEeccc
Confidence 89999999999999999999999986543 899999999999999999999999984 677666665443
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=99.86 E-value=2.6e-20 Score=222.85 Aligned_cols=243 Identities=16% Similarity=0.097 Sum_probs=188.1
Q ss_pred HHHHHHHHHHHHHHHHHhcCCcEEEEcC-CccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCC
Q 037299 594 GVDELSSVAREMVRLIETATAPIFAVDV-HGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGE 672 (1111)
Q Consensus 594 ~~~eL~~~~~~l~~lie~~~~~I~~~D~-dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~ 672 (1111)
...+|++.+++|+.++++++++||++|. +|+|+++|+++++++||+.++++|+++. +++++++.+.+...+.....++
T Consensus 124 ~~~~l~~~e~r~~~l~e~~~~~i~~~d~~~g~i~~~N~a~~~l~G~~~~el~g~~~~-~~~~~~~~~~~~~~l~~~~~~g 202 (442)
T TIGR02040 124 DYWTLREMETRYRVVLEVSSDAVLLVDMSTGRIVEANSAAAALLGGVGQSLVGRAFP-QEFEGRRREELMLTLRNVRATG 202 (442)
T ss_pred HHHHHHHHHHHHHHHHhhCCceEEEEECCCCEEEEEcHHHHHHhCcCHHHHcCCCHH-HhCCHHHHHHHHHHHHHHHhcC
Confidence 4457888899999999999999999998 8999999999999999999999999988 8889999888888888888766
Q ss_pred CccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCCCccc
Q 037299 673 EDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIPPIFA 752 (1111)
Q Consensus 673 ~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~~I~v 752 (1111)
.....++.+ ++|+..| .+...++.. +|. ..+++.++|||++++++.++. ++|+.+++++++ +|++
T Consensus 203 ~~~~~~~~~------~~~~~~~-~~~~~~~~~-~~~-~~~l~~~~dit~~~~~e~~~~---~~~~~l~e~~~d---~I~v 267 (442)
T TIGR02040 203 SAAPVRILL------RRSQKRL-LVVVSVFRQ-DGE-SLFLCQLSPAGATQPVGDELS---ENLARLYHEAPD---AIVF 267 (442)
T ss_pred CCcceEEEE------cCCCeEE-EEEEEEEEe-CCc-eEEEEEEcccchhhhhhHHHH---HHHHHHHHhCCc---eEEE
Confidence 544333332 2333333 344555553 333 356778899999998887653 379999999988 8999
Q ss_pred cCCCCccccchhhhHHHhCCC-ccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCEEE
Q 037299 753 SDENTCCSEWNTAMEKLTGWS-RGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKYVQ 831 (1111)
Q Consensus 753 ~D~~g~ii~~N~a~~~l~G~~-~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~ 831 (1111)
+|.+|+|+++|++|++++||+ .++++|+++...+. ....+. ...+......+....++..+.+++|..+|
T Consensus 268 ~D~~G~I~~~N~a~~~l~G~~~~~~l~G~~~~~~~~------~~~~~~---~~~~~~~~~~g~~~~~~~~~~~~~G~~~~ 338 (442)
T TIGR02040 268 SDADGTIRGANEAFLELTDSSSLEAVRGRTLDRWLG------RGGVDL---RVLLSNVRRTGQVRLYATTLTGEFGAQTE 338 (442)
T ss_pred EcCCCcEEehhHHHHHHhCCCChHHHcCCCHHHHhC------CCcccH---HHHHHHHhhcCceEEEEEEEEcCCCCEEE
Confidence 999999999999999999997 57899998633221 111122 22233344455556678888999999999
Q ss_pred EEEEEeeeecCCCCEEEEEeeeecccHHHHHH
Q 037299 832 ALLTANKRVNMEGQIVGAFCFLQIASPELQQA 863 (1111)
Q Consensus 832 v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e 863 (1111)
+.+++.|+.+.++ ..++++++|||+|++.+
T Consensus 339 ve~s~~~i~~~~~--~~~~~v~rDITeR~~~~ 368 (442)
T TIGR02040 339 VEISAAWVDQGER--PLIVLVIRDISRRLTMR 368 (442)
T ss_pred EEEEEEEeccCCc--eEEEEEEecchhhccCC
Confidence 9999999987655 45788999999987764
No 49
>PRK13560 hypothetical protein; Provisional
Probab=99.84 E-value=2.5e-19 Score=230.95 Aligned_cols=261 Identities=13% Similarity=0.126 Sum_probs=202.7
Q ss_pred HHHHHHHHHHHHHH-HHHHHhcCCcEEEEcCCcc----EEeecHHHHHHcCCChhhhcCCc-ccccccchhhHHHHH---
Q 037299 592 LQGVDELSSVAREM-VRLIETATAPIFAVDVHGC----VNGWNAKVAELTGLSVEEAMGKS-LVHDLVYKEYEEIVD--- 662 (1111)
Q Consensus 592 ~~~~~eL~~~~~~l-~~lie~~~~~I~~~D~dG~----I~~~N~a~~~l~G~~~eeliG~~-~~~~l~~~~~~~~~~--- 662 (1111)
..++.+|.++++++ +.+++++|.++|.++.+|. +.+++.+..+++|+.+.++++.. ....++||++.+.+.
T Consensus 56 ~~~~~~l~~~~e~~~r~l~~~~p~~i~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~p~d~~~~~~~~ 135 (807)
T PRK13560 56 AIAEAEAQDCREQCERNLKANIPGGMFLFALDGDGTFSFPSLLDANGELAAIAKHDLMADKGLLAMLIGGDDGDFFFANP 135 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCceEEEEEEcCccccccceeeccchhHHHhcCcccCCccchhhhhcCCCcchhhhhCh
Confidence 34566777777777 9999999999999887666 33477888888888888876533 223678888877654
Q ss_pred ----HHHHHHHcCCCccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHH
Q 037299 663 ----NLLHHALKGEEDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKA 738 (1111)
Q Consensus 663 ----~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~ 738 (1111)
..+..++..+.....+++++ +++|. |+.+...|.++.+|.+ ++.++++|||++|+++++|++++++|+.
T Consensus 136 ~~~~~~~~~~~~~~~~~~~e~r~~----~~dg~--~~~~~~~~~~~~~g~~-~~~g~~~DIT~rk~ae~~l~~~~~~l~~ 208 (807)
T PRK13560 136 FRSAETIAMALQSDDWQEEEGHFR----CGDGR--FIDCCLRFERHAHADD-QVDGFAEDITERKRAEERIDEALHFLQQ 208 (807)
T ss_pred hhHHHHHHHHhccCcccceEEEEE----eCCcc--EEEEEeeeeecCCCce-EEEEEEEccchHHHHHHHHHHHHHHHHH
Confidence 33444555555555566655 56774 6667778888888886 6899999999999999999999999999
Q ss_pred HHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCccee
Q 037299 739 IVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKF 818 (1111)
Q Consensus 739 i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~ 818 (1111)
+++++++ ++|+.|.+|+++++|+++++++||++++++|+++.+. .++.....+.......+..+....+
T Consensus 209 l~e~~~~---~i~~~d~~g~i~~~N~~~~~~~G~~~~e~~g~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~ 277 (807)
T PRK13560 209 LLDNIAD---PAFWKDEDAKVFGCNDAACLACGFRREEIIGMSIHDF--------APAQPADDYQEADAAKFDADGSQII 277 (807)
T ss_pred HHhhCCC---eEEEEcCCCCEEEEhHHHHHHhCCCHHHHcCCcchhc--------CCcchhHHHHHHHHHHhccCCceEE
Confidence 9999987 8999999999999999999999999999999986432 2233333333344445556666778
Q ss_pred eeeeecCCCCEEEEEE--EEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHH
Q 037299 819 PFPLFDRNGKYVQALL--TANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQ 870 (1111)
Q Consensus 819 e~~~~~~dG~~~~v~~--~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~ 870 (1111)
+..+.+++|+.+|+.+ +..+..+.+|.+.|++++++|||++++++.++++..
T Consensus 278 e~~~~~~dG~~~~~~~~~~~~~~~~~~g~~~g~~~~~~DITerk~~e~~L~~se 331 (807)
T PRK13560 278 EAEFQNKDGRTRPVDVIFNHAEFDDKENHCAGLVGAITDISGRRAAERELLEKE 331 (807)
T ss_pred EEEEEcCCCCEEEEEEEecceEEEcCCCCEEEEEEEEEechHHHHHHHHHHHHH
Confidence 8999999999996655 556678999999999999999999999987766543
No 50
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=99.83 E-value=4.3e-19 Score=213.72 Aligned_cols=191 Identities=14% Similarity=0.149 Sum_probs=149.1
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHH
Q 037299 876 ARLKELAYICQEIKNPLSGVSFTNSLLEATD-LTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGS 953 (1111)
Q Consensus 876 ~r~~~La~isHEIrnPLt~I~~~~~LL~~~~-l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~ 953 (1111)
.+.++.+.++||++|||++|.+..+++++.. ..++..+..+.+.+...++.+.++++ +..+ .....++++.+
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 3556778899999999999999999887643 33456677888888888888888886 3332 22345789999
Q ss_pred HHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeE
Q 037299 954 VINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIV 1033 (1111)
Q Consensus 954 vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~ 1033 (1111)
.+++++..+.......++++..+.++. . ....++..+.|++.|+++||+||++. +.|.|++...++
T Consensus 375 ~l~~l~~~l~~~~~~~~v~l~~~~~~~--~-l~~~~~~~L~ril~nlL~NAiKha~~--~~I~I~l~~~~~--------- 440 (495)
T PRK11644 375 AIRSLMREMELEDRGIVSHLDWRIDES--A-LSETQRVTLFRVCQEGLNNIVKHADA--SAVTLQGWQQDE--------- 440 (495)
T ss_pred HHHHHHHHHHHhhcCceEEEEecCCcc--c-CChhHHHHHHHHHHHHHHHHHHhCCC--CEEEEEEEEcCC---------
Confidence 999999888765545555555544432 1 45677889999999999999999986 788888876555
Q ss_pred EEEEEEeeCCCCCChhhhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEE
Q 037299 1034 HNEFRMVCPGEGLPPELVQDMFHSSRWMTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFE 1098 (1111)
Q Consensus 1034 ~v~i~V~DnG~GIp~e~~~~iFepf~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~ 1098 (1111)
.+.++|+|||+|||++ ..|+|+||++||++++.|||+++++| .+|++|+|++|
T Consensus 441 ~i~l~V~DnG~Gi~~~-----------~~~~GLGL~ivr~iv~~~GG~i~v~S-~~Gt~f~I~LP 493 (495)
T PRK11644 441 RLMLVIEDDGSGLPPG-----------SGQQGFGLRGMRERVTALGGTLTISC-THGTRLSVSLP 493 (495)
T ss_pred EEEEEEEECCCCCCcC-----------CCCCCCcHHHHHHHHHHcCCEEEEEc-CCCEEEEEEEe
Confidence 7899999999999976 24679999999999999999999999 55677776664
No 51
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.79 E-value=6e-18 Score=217.96 Aligned_cols=246 Identities=11% Similarity=0.095 Sum_probs=192.8
Q ss_pred HHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEE
Q 037299 603 REMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLR 682 (1111)
Q Consensus 603 ~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~ 682 (1111)
..+..+++.++++++++|.+|+|++||+++++++||++++++|+++. .+++++........+.....++......+...
T Consensus 12 ~~~~~~le~~~~~i~~~d~~g~i~~~N~~~~~l~G~s~eeliG~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e 90 (799)
T PRK11359 12 GIFFPALEQNMMGAVLINENDEVLFFNPAAEKLWGYKREEVIGNNID-MLIPRDLRPAHPEYIRHNREGGKARVEGMSRE 90 (799)
T ss_pred hhHHHHHHhhcCcEEEEcCCCeEEEEcHHHHHHhCCCHHHHcCCCHH-HhcCccccccchHHHhhhhccCCcccccccee
Confidence 34567889999999999999999999999999999999999999988 78888776655556666555543322222222
Q ss_pred EeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccc
Q 037299 683 TFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEW 762 (1111)
Q Consensus 683 ~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~ 762 (1111)
....+++|..+|+.+...++. .+|.. +++++.+|||++++.+++. ..+..++++++. +++++|.+|+++++
T Consensus 91 ~~~~~~dG~~~~v~~~~~~~~-~~g~~-~~~~~~~DiT~~~~~~~~~----~~~~~~~~~~~~---~i~~~d~~g~i~~~ 161 (799)
T PRK11359 91 LQLEKKDGSKIWTRFALSKVS-AEGKV-YYLALVRDASVEMAQKEQT----RQLIIAVDHLDR---PVIVLDPERRIVQC 161 (799)
T ss_pred eEEecCCcCEEEEEEEeeeec-cCCce-EEEEEEeeccchhhhHHHH----HHHHHHHhcCCC---cEEEEcCCCcEEEE
Confidence 233478999999999988873 45554 5788899999988776654 445567787766 89999999999999
Q ss_pred hhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCEEEEEEEEeeeecC
Q 037299 763 NTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNM 842 (1111)
Q Consensus 763 N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~ 842 (1111)
|+++++++||+.++++|+.....+. ++.........+.....+......++++..++|+.+|+..+..|+.+.
T Consensus 162 N~~~~~l~G~~~~e~~g~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~v~d~ 234 (799)
T PRK11359 162 NRAFTEMFGYCISEASGMQPDTLLN-------IPEFPADNRIRLQQLLWKTARDQDEFLLLTRTGEKIWIKASISPVYDV 234 (799)
T ss_pred ChhhHhhhCCCHHHHCCCChHHhcC-------CCCCcHHHHHHHHHhhccCCCCcceeEEeCCCCCEEEEEeeeeeeecC
Confidence 9999999999999999997643221 122333344445556666667778888999999999999999999999
Q ss_pred CCCEEEEEeeeecccHHHHHHHH
Q 037299 843 EGQIVGAFCFLQIASPELQQALT 865 (1111)
Q Consensus 843 ~G~v~g~v~~~~DITer~~~e~e 865 (1111)
+|.+.+++++.+|||++++.+..
T Consensus 235 ~g~~~~~~~~~~DITerk~~e~~ 257 (799)
T PRK11359 235 LAHLQNLVMTFSDITEERQIRQL 257 (799)
T ss_pred CCceeEEEEEeehhhhHHHHHHH
Confidence 99999999999999998876543
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=99.75 E-value=2.9e-17 Score=196.63 Aligned_cols=232 Identities=16% Similarity=0.147 Sum_probs=176.7
Q ss_pred HHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEeccc
Q 037299 608 LIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAE 687 (1111)
Q Consensus 608 lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~ 687 (1111)
++++++++++++|.+|+|++||..+++++||+.++++|+++. +++++++.+.+...+..+..++... .+.+ ....+
T Consensus 1 ~~~~~~d~~~~~d~~g~i~~~n~~~~~~~g~~~~el~G~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~-~~~e--~~~~~ 76 (442)
T TIGR02040 1 LLATAADVTLLLDAEGVVREVAANPHHPSFEQLSEWEGRRWE-EIVTAESVEKFELRLSEALRTGRGA-VRVE--LNHID 76 (442)
T ss_pred CCcccCcEEEEECCCCcEEEEEECCCcccccccccCCCCcHh-HhhCcchHHHHHHHHHHHhccCCCc-ceEe--eccCC
Confidence 467899999999999999999999999999999999999988 8999998888888887777665431 2222 23345
Q ss_pred cCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHH-----------HH---HHHhHHHHHHHHHhCCCCCCCCcccc
Q 037299 688 NRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLV-----------MD---KFIHIQGDYKAIVHSPNPLIPPIFAS 753 (1111)
Q Consensus 688 ~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~a-----------e~---~L~~se~~l~~i~~~~~~l~~~I~v~ 753 (1111)
++|..+|+.++..++.+. .+++++++|||+++.. |+ +|++++++|+.+++++++ +||++
T Consensus 77 ~~g~~~~~~~~~~~~~~~----~~~~~i~rDi~~~~~~~~~l~~~~~~~e~~~~~l~~~e~r~~~l~e~~~~---~i~~~ 149 (442)
T TIGR02040 77 PSSFELPMRFILVRLGAD----RGVLALGRDLRAVAELQQQLVAAQQAMERDYWTLREMETRYRVVLEVSSD---AVLLV 149 (442)
T ss_pred CCCCccCeEEEEEEeCCC----CeEEEEecccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCc---eEEEE
Confidence 677788888888877553 2678899999875543 33 677888999999999977 89999
Q ss_pred CC-CCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCEEEE
Q 037299 754 DE-NTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKYVQA 832 (1111)
Q Consensus 754 D~-~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~v 832 (1111)
|. +|+++++|+++++++||++++++|+++. .+.++++...+...+.....++.....++. .++|...|
T Consensus 150 d~~~g~i~~~N~a~~~l~G~~~~el~g~~~~--------~~~~~~~~~~~~~~l~~~~~~g~~~~~~~~--~~~~~~~~- 218 (442)
T TIGR02040 150 DMSTGRIVEANSAAAALLGGVGQSLVGRAFP--------QEFEGRRREELMLTLRNVRATGSAAPVRIL--LRRSQKRL- 218 (442)
T ss_pred ECCCCEEEEEcHHHHHHhCcCHHHHcCCCHH--------HhCCHHHHHHHHHHHHHHHhcCCCcceEEE--EcCCCeEE-
Confidence 97 8999999999999999999999998753 234577888788888877766655444444 44444444
Q ss_pred EEEEeeeecCCCCEEEEEeeeecccHHHHHH
Q 037299 833 LLTANKRVNMEGQIVGAFCFLQIASPELQQA 863 (1111)
Q Consensus 833 ~~~~~pi~d~~G~v~g~v~~~~DITer~~~e 863 (1111)
.+...++.. +|.. .+++.+.|||++++.+
T Consensus 219 ~~~~~~~~~-~~~~-~~l~~~~dit~~~~~e 247 (442)
T TIGR02040 219 LVVVSVFRQ-DGES-LFLCQLSPAGATQPVG 247 (442)
T ss_pred EEEEEEEEe-CCce-EEEEEEcccchhhhhh
Confidence 344555543 3333 5677889999876554
No 53
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=99.70 E-value=5.5e-15 Score=182.83 Aligned_cols=194 Identities=13% Similarity=0.195 Sum_probs=135.0
Q ss_pred HHHHHHHHHHhhhHHHHHHHHHHH----HhcC--CCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeec
Q 037299 878 LKELAYICQEIKNPLSGVSFTNSL----LEAT--DLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFL 950 (1111)
Q Consensus 878 ~~~La~isHEIrnPLt~I~~~~~L----L~~~--~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~ 950 (1111)
.+....++||+++|+..+..+... +... ...+...+.+..+.+...++...+.++ ... .....+++
T Consensus 361 ~~~~~~la~el~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~~~-------~~~~~~~~ 433 (565)
T PRK10935 361 MEERATIARELHDSLAQVLSYLKIQLTLLKRSLDEDNAKAQSIIAEFDQALSDAYRQLRELLTTF-------RLTIQEAN 433 (565)
T ss_pred HHHHHHHHHHhcchHHHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHHHHHHHHHHHHHc-------CCCCCCCC
Confidence 344566888888888877655443 3322 223445556666666666666666664 222 23456789
Q ss_pred HHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCc
Q 037299 951 LGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQ 1030 (1111)
Q Consensus 951 L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~ 1030 (1111)
+.+++..++..+.... ...+.+..+.+... ....++.++.|++.|++.||+||++. +.|.|.+....+
T Consensus 434 l~~~l~~~~~~~~~~~-~~~i~~~~~~~~~~---~~~~~~~~l~qv~~nll~NA~k~~~~--~~i~i~~~~~~~------ 501 (565)
T PRK10935 434 LGSALEEMLDQLRNQT-DAKITLDCRLPSQA---LDAQQQVHLLQIIREATLNAIKHANA--SEIAVSCVTNPD------ 501 (565)
T ss_pred HHHHHHHHHHHHHHhh-CCeEEEEeeCCCCC---CCHHHHHHHHHHHHHHHHHHHhcCCC--CeEEEEEEEcCC------
Confidence 9999999999887653 22344444444321 23344567999999999999999875 788888765522
Q ss_pred eeEEEEEEEeeCCCCCChhhhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCCCC
Q 037299 1031 TIVHNEFRMVCPGEGLPPELVQDMFHSSRWMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMPRR 1104 (1111)
Q Consensus 1031 ~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~~~ 1104 (1111)
..+.++|.|+|+|||++ ...|+|+||+||+++++.|||+|+++|.++ |++|+|+| |..+.
T Consensus 502 --~~~~i~V~D~G~Gi~~~----------~~~~~glGL~i~~~iv~~~~G~i~v~s~~~~Gt~~~i~l--P~~~~ 562 (565)
T PRK10935 502 --GEHTVSIRDDGIGIGEL----------KEPEGHYGLNIMQERAERLGGTLTISQPPGGGTTVSLTF--PSQQE 562 (565)
T ss_pred --CEEEEEEEECCcCcCCC----------CCCCCCcCHHHHHHHHHHcCCEEEEEECCCCcEEEEEEE--CCCCC
Confidence 17899999999999975 345889999999999999999999999988 46655554 55443
No 54
>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=99.69 E-value=1.6e-16 Score=151.96 Aligned_cols=101 Identities=25% Similarity=0.451 Sum_probs=89.2
Q ss_pred ecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCC-------C
Q 037299 988 GDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR-------W 1060 (1111)
Q Consensus 988 ~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~-------~ 1060 (1111)
||+.+|.++|.||+.||++|++. ++.|.|.+....+ ++.|+|.|+|+|||++.++++|+|++ .
T Consensus 1 gd~~~l~~il~~ll~Na~~~~~~-~~~I~i~~~~~~~---------~~~i~i~d~G~gi~~~~l~~~~~~~~~~~~~~~~ 70 (111)
T PF02518_consen 1 GDPDRLRQILSELLDNAIKHSPE-GGKIDITIEEDDD---------HLSIEISDNGVGIPPEELEKLFEPFFTSDKSETS 70 (111)
T ss_dssp ETHHHHHHHHHHHHHHHHHHHHH-TSEEEEEEEEETT---------EEEEEEEESSSSTTHHHHHHHCSTTSHSSSSSGG
T ss_pred CcHHHHHHHHHHHHHHHHHHhcC-CCEEEEEEEEecC---------eEEEEEEeccccccccccccchhhcccccccccc
Confidence 68999999999999999999997 6899999988766 89999999999999999999999973 2
Q ss_pred CCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEE
Q 037299 1061 MTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFE 1098 (1111)
Q Consensus 1061 ~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~ 1098 (1111)
.+|.|+||++|+.+++.|+|+|++.+.++ |++|+|++|
T Consensus 71 ~~g~GlGL~~~~~~~~~~~g~l~~~~~~~~gt~v~~~~p 109 (111)
T PF02518_consen 71 ISGHGLGLYIVKQIAERHGGELTIESSEGGGTTVTFTLP 109 (111)
T ss_dssp SSSSSHHHHHHHHHHHHTTEEEEEEEETTTEEEEEEEEE
T ss_pred cCCCChHHHHHHHHHHHCCCEEEEEEcCCCcEEEEEEEE
Confidence 35799999999999999999999999866 455555443
No 55
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=99.68 E-value=3.8e-15 Score=184.09 Aligned_cols=191 Identities=15% Similarity=0.171 Sum_probs=137.9
Q ss_pred HHHHHHHHHhhhHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHHHH
Q 037299 879 KELAYICQEIKNPLSGVSFTNSLLEA--TDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGSVI 955 (1111)
Q Consensus 879 ~~La~isHEIrnPLt~I~~~~~LL~~--~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~vi 955 (1111)
.+...+++.|.++|+.+......+.. ....++..+.+..+.+..+++...++++ ...+. ...+.++.+.+
T Consensus 364 ~iarelhd~i~~~L~~l~~~~~~l~~~~~~~~~~~~~~l~~i~~~~~~~~~~lr~ll~~~r~-------~~~~~~l~~~l 436 (569)
T PRK10600 364 TIARELHDSIAQSLSCMKMQVSCLQMQGDALPESSRELLSQIRNELNASWRQLRELLTTFRL-------QLTEPGLRPAL 436 (569)
T ss_pred HHHHHhccHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCc-------CcccCCHHHHH
Confidence 33445566666777777655554432 3345677888888888888888888885 44442 34567899999
Q ss_pred HHHHHHHHHHhhccCcEEEeecCCcccceEEE-ecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEE
Q 037299 956 NAVVSQVMMLLRERNLQLIRDIPEEIKTLAVY-GDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVH 1034 (1111)
Q Consensus 956 ~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~-~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~ 1034 (1111)
.+++..+.... ...+.+..+.++. .+. .++..|.+++.|+++||+||++. +.|.|++...++ .
T Consensus 437 ~~~~~~~~~~~-~~~i~~~~~~~~~----~~~~~~~~~l~~il~ell~NA~kha~a--~~i~V~~~~~~~---------~ 500 (569)
T PRK10600 437 EASCEEFSARF-GFPVKLDYQLPPR----LVPSHQAIHLLQIAREALSNALKHAQA--SEVVVTVAQNQN---------Q 500 (569)
T ss_pred HHHHHHHHHHh-CCeEEEEecCCcc----cCCHHHHHHHHHHHHHHHHHHHHhCCC--CeEEEEEEEcCC---------E
Confidence 99988887654 2334444443332 222 23557999999999999999986 778888766544 7
Q ss_pred EEEEEeeCCCCCChhhhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeCCC
Q 037299 1035 NEFRMVCPGEGLPPELVQDMFHSSRWMTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPMPR 1103 (1111)
Q Consensus 1035 v~i~V~DnG~GIp~e~~~~iFepf~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~~~ 1103 (1111)
+.|+|.|||+|||++. .+++|+||+||+++++.|||+|++.+.+++|| +|++.||...
T Consensus 501 ~~l~V~D~G~Gi~~~~----------~~~~glGL~i~~~~~~~lgG~l~i~s~~~~Gt-~v~i~lp~~~ 558 (569)
T PRK10600 501 VKLSVQDNGCGVPENA----------ERSNHYGLIIMRDRAQSLRGDCRVRRRESGGT-EVVVTFIPEK 558 (569)
T ss_pred EEEEEEECCCCCCccc----------cCCCCccHHHHHHHHHHcCCEEEEEECCCCCE-EEEEEEecCC
Confidence 8999999999999863 34789999999999999999999999987533 4444556543
No 56
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.63 E-value=1.2e-13 Score=147.58 Aligned_cols=195 Identities=17% Similarity=0.190 Sum_probs=149.9
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhccccccccCCcceeeEeecHHHHH
Q 037299 876 ARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDVDLESIEDGSLEFEKAEFLLGSVI 955 (1111)
Q Consensus 876 ~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dLdlsri~~g~~~l~~~~~~L~~vi 955 (1111)
.+..++..++|.++|.|+.|.+.+.+-.+...++ ..+++...+.-...|+.+.+.|.- . ....++...++
T Consensus 18 ~~~~ll~Ei~HRVKNnLqiIsSll~lq~r~~~~~-~~~~~~~~~~Ri~sla~~He~L~~--------s-~~~~~~~~~~~ 87 (221)
T COG3920 18 EKELLLREIHHRVKNNLQIISSLLRLQARKFEDE-VLEALRESQNRIQSLALIHELLYK--------S-GDDTWDFASYL 87 (221)
T ss_pred HHHHHHHHhhhhhhhHHHHHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHHHHHHHhc--------C-CcceEcHHHHH
Confidence 4556688999999999999999988887766555 667777777777777777766611 1 34578889999
Q ss_pred HHHHHHHHHHhhccCcEEEeecCCcccceEEEec-HHHHHHHHHHHHHHHhhcCCCC--CceEEEEEEEccccCCCCcee
Q 037299 956 NAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGD-QARIQQVLADFLLNMVRYSPSA--EGWVEIHVRPTLKQSSEGQTI 1032 (1111)
Q Consensus 956 ~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D-~~~L~qVl~nLl~NAik~t~~~--~g~I~I~v~~~~~~~~~~~~~ 1032 (1111)
+.+...+.+....+.+.+..+..+++ .+..| ...|..|+.+|++||+||+..+ +|.|.|++....+ ++
T Consensus 88 ~~L~~~l~~~~~~~~~~~~~~~~~~~---~l~~d~A~~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~--~~---- 158 (221)
T COG3920 88 ELLASNLFPSYGGKDIRLILDSGPNV---FLDPDTAVPLGLIVHELVTNALKHAFLSRPGGEIRITLSREGD--GG---- 158 (221)
T ss_pred HHHHHHHHHhcCCCCceEEEecCCce---EECchhhHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEEEEcCC--CC----
Confidence 99988888865556788888877753 35555 5789999999999999997653 6889988877655 11
Q ss_pred EEEEEEEeeCCCCCChhhhhhccCCCCCCCCccchHHHHHHHH-HHcCCEEEEEecCCceEEEEEEEee
Q 037299 1033 VHNEFRMVCPGEGLPPELVQDMFHSSRWMTQEGLGLSMCRKIL-KLMNGEVQYIRESERCYFLIIFELP 1100 (1111)
Q Consensus 1033 ~~v~i~V~DnG~GIp~e~~~~iFepf~~~~G~GLGL~i~r~iV-e~~gG~I~v~s~~ggstF~~~L~LP 1100 (1111)
...+.|.|||.|+|.+. .. ...|+|+.+++.+| ++.||.+.+.+.. |+.|+|++|++
T Consensus 159 -~~~l~v~deg~G~~~~~--------~~-~~~g~G~~Lv~~lv~~q~~g~~~~~~~~-Gt~~~i~~~~~ 216 (221)
T COG3920 159 -RFLLTVWDEGGGPPVEA--------PL-SRGGFGLQLVERLVPEQLGGELEDERPD-GTEFRLRFPLS 216 (221)
T ss_pred -eEEEEEEECCCCCCCCC--------CC-CCCCcHHHHHHHHHHHHcCCeEEEEcCC-CEEEEEEEecc
Confidence 47789999999999762 12 67799999999999 8999999888755 67777766544
No 57
>PRK10547 chemotaxis protein CheA; Provisional
Probab=99.56 E-value=2e-13 Score=166.31 Aligned_cols=140 Identities=15% Similarity=0.179 Sum_probs=107.0
Q ss_pred ecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHH---HHHHHHHHhhcCC-----------CCCce
Q 037299 949 FLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQV---LADFLLNMVRYSP-----------SAEGW 1014 (1111)
Q Consensus 949 ~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qV---l~nLl~NAik~t~-----------~~~g~ 1014 (1111)
+.+..+++..-..++..++..+.++.+.+... .+..|+..+.++ |.||+.||++|+. +..|.
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 34667777766666666665554555444443 267899999988 6799999999962 22578
Q ss_pred EEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhh---------------------hhccCCCCCC-------CCccc
Q 037299 1015 VEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELV---------------------QDMFHSSRWM-------TQEGL 1066 (1111)
Q Consensus 1015 I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~---------------------~~iFepf~~~-------~G~GL 1066 (1111)
|.|++...++ ++.|+|+|+|.||+++.+ ..+|+|++.+ +|.|+
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 9998877655 889999999999999754 3699996433 58999
Q ss_pred hHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeC
Q 037299 1067 GLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPM 1101 (1111)
Q Consensus 1067 GL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~ 1101 (1111)
||.+||++++.|||+|++.|.+| |++|+++||+.+
T Consensus 490 GL~iVk~~ve~lgG~I~v~S~~g~Gt~f~i~LPltl 525 (670)
T PRK10547 490 GMDVVKRNIQEMGGHVEIQSKQGKGTTIRILLPLTL 525 (670)
T ss_pred hHHHHHHHHHHcCCEEEEEecCCCcEEEEEEEechh
Confidence 99999999999999999999988 577766665544
No 58
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.51 E-value=1.8e-12 Score=151.19 Aligned_cols=191 Identities=14% Similarity=0.208 Sum_probs=126.9
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCCCHHHHHH----HHHHHHHHHHHHHHHhhccccccccCCcceeeEe
Q 037299 875 FARLKELAYICQEIKNPLSGVSFTNSLLE--ATDLTEDQKQL----LETSAACEKQMLKIIKDVDLESIEDGSLEFEKAE 948 (1111)
Q Consensus 875 ~~r~~~La~isHEIrnPLt~I~~~~~LL~--~~~l~e~~~~~----l~~i~~~~~~l~~lI~dLdlsri~~g~~~l~~~~ 948 (1111)
.+|.+....+++.+.+-|+++.....+.. .....++.++. -+.++++.+.+..++.+| . +.....
T Consensus 169 ~ER~RIARdLHDsv~q~L~~i~m~~~~~~~~~~~~~e~~~~~l~~i~~~~~e~l~evR~~v~~L--r-------p~~l~~ 239 (365)
T COG4585 169 EERNRIARDLHDSVGQSLTAISMLLALLLLLADEDAEKAQEELKEIEKLLREALQEVRALVRDL--R-------PVELEG 239 (365)
T ss_pred HHHHHHHHHHhhHHhhHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--C-------Cchhhc
Confidence 66777777888888888888875222111 12222333333 344455555555555554 1 111112
Q ss_pred ecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCC
Q 037299 949 FLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSE 1028 (1111)
Q Consensus 949 ~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~ 1028 (1111)
..+...+...+..+. ...++.+..+.....+. .-..-...|.+++++.++||+||+.+ ..+.|++...++
T Consensus 240 ~~l~~~l~~~~~~~~---~~~~~~~~~~~~~~~~~-L~~~~e~~l~rivQEaltN~~rHa~A--~~v~V~l~~~~~---- 309 (365)
T COG4585 240 LGLVEALRALLADFE---ERTGITVDLSLGSELER-LPPEAEDALFRIVQEALTNAIRHAQA--TEVRVTLERTDD---- 309 (365)
T ss_pred chHHHHHHHHHHHHH---hhcCeEEEEecCccccc-CChhHHHHHHHHHHHHHHHHHhccCC--ceEEEEEEEcCC----
Confidence 224444444444444 34556666555432111 12244788999999999999999998 888888888777
Q ss_pred CceeEEEEEEEeeCCCCCChhhhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeC
Q 037299 1029 GQTIVHNEFRMVCPGEGLPPELVQDMFHSSRWMTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPM 1101 (1111)
Q Consensus 1029 ~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~ 1101 (1111)
.+.++|.|||+|++++. .+ .|+||.-+|+.|+.+||++.+.|.+|+|| ++++.+|+
T Consensus 310 -----~l~l~V~DnG~Gf~~~~----------~~-~~~GL~~mreRv~~lgG~l~i~S~~g~Gt-~i~i~lPl 365 (365)
T COG4585 310 -----ELRLEVIDNGVGFDPDK----------EG-GGFGLLGMRERVEALGGTLTIDSAPGQGT-TVTITLPL 365 (365)
T ss_pred -----EEEEEEEECCcCCCccc----------cC-CCcchhhHHHHHHHcCCEEEEEecCCCce-EEEEecCC
Confidence 89999999999988762 12 78999999999999999999999997654 77777774
No 59
>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=4.8e-13 Score=126.60 Aligned_cols=110 Identities=30% Similarity=0.371 Sum_probs=99.5
Q ss_pred HHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEecccc
Q 037299 609 IETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAEN 688 (1111)
Q Consensus 609 ie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~ 688 (1111)
+|++|++++++|.+|+|++||+++++++|++.++++|+++. +++++...+.+...+.+++.++.....+.... .
T Consensus 1 l~~~p~~i~v~D~~~~i~~~N~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~ 74 (110)
T PF08448_consen 1 LDSSPDGIFVIDPDGRIVYANQAAAELFGVSPEELIGRSLF-DLLPPEDREEFQAALRRALAGGEPVFFEEILL-----R 74 (110)
T ss_dssp HHHCSSEEEEEETTSBEEEE-HHHHHHHTSTHHHHTTSBHH-HHSCCGCHHHHHHHHHHHHHHTSEEEEEEEEC-----T
T ss_pred CCCCCceeEEECCCCEEEEEHHHHHHHhCCCHHHHhhccch-hccccchhhhhHHHHHHhhccCceEEEEEEEe-----e
Confidence 68999999999999999999999999999999999999999 89999999999999999999887654444333 3
Q ss_pred CCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHH
Q 037299 689 RKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKL 724 (1111)
Q Consensus 689 dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ 724 (1111)
+|+.+|+.++..|++|.+|++.|++++++|||++|+
T Consensus 75 ~~~~~~~~~~~~Pi~~~~g~~~g~~~~~~DiT~~rr 110 (110)
T PF08448_consen 75 DGEERWFEVSISPIFDEDGEVVGVLVIIRDITERRR 110 (110)
T ss_dssp TSCEEEEEEEEEEEECTTTCEEEEEEEEEEECCHHH
T ss_pred cCCcEEEEEEEEEeEcCCCCEEEEEEEEEECchhhC
Confidence 899999999999999999999999999999999986
No 60
>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=99.45 E-value=7.1e-13 Score=123.96 Aligned_cols=104 Identities=27% Similarity=0.358 Sum_probs=90.1
Q ss_pred CCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEeccccCCcE
Q 037299 613 TAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAENRKKA 692 (1111)
Q Consensus 613 ~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~ 692 (1111)
|+|++++|.+|+|++||+++++++|+++++++|+++. ++++++........+.+++.++.....++.+. +++|+.
T Consensus 1 p~~i~i~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~----~~~g~~ 75 (104)
T PF13426_consen 1 PDGIFILDPDGRILYVNPAFERLFGYSREELIGKSIS-DFFPEEDRPEFEEQIERALEEGGSWSGEVRLR----RKDGET 75 (104)
T ss_dssp -SEEEEEETTSBEEEE-HHHHHHHTS-HHHHTTSBGG-GGCSTTSCHHHHHHHHHHHHHTSSEEEEEEEE----ETTSEE
T ss_pred CEEEEEECCcCcEEehhHHHHHHHCcCHHHHcCCCcc-cccCcccchhhHHHHHHHHhcCCceeEEEEEE----cCCCCE
Confidence 7899999999999999999999999999999999998 88887777777777888777666655565555 679999
Q ss_pred EEEEEEeEeeccCCCCEEEEEEEEEechh
Q 037299 693 VFVVVNACSSKDYTNNIVGVCFVGQDVTD 721 (1111)
Q Consensus 693 ~~v~v~~~pi~d~~G~v~gvv~v~~DITe 721 (1111)
+|+.+++.|+.+.+|++.+++++++|||+
T Consensus 76 ~~~~~~~~~i~~~~g~~~~~i~~~~DiTe 104 (104)
T PF13426_consen 76 FWVEVSASPIRDEDGEITGIIGIFRDITE 104 (104)
T ss_dssp EEEEEEEEEEEETTSSEEEEEEEEEEEHH
T ss_pred EEEEEEEEEEECCCCCEEEEEEEEEECCC
Confidence 99999999999999999999999999996
No 61
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=99.44 E-value=1.6e-10 Score=131.66 Aligned_cols=186 Identities=13% Similarity=0.253 Sum_probs=127.0
Q ss_pred HHHHHHhhhHH----HHHHHHHHHHhcC---CCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHH
Q 037299 882 AYICQEIKNPL----SGVSFTNSLLEAT---DLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGS 953 (1111)
Q Consensus 882 a~isHEIrnPL----t~I~~~~~LL~~~---~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~ 953 (1111)
+.|+.|+...| +-+..-..+|+.. ...++.+..+..++......-.=++.| .- +.+...+-+|..
T Consensus 374 atIAReLHDSiAQsLS~LkiQvt~L~~~~~~~~~e~s~~~i~~~r~~Ln~~Y~QLRELLtT-------FRltL~e~~L~~ 446 (574)
T COG3850 374 ATIARELHDSIAQSLSFLKIQVTLLKTAIPEELPEKAREIIAQIRQGLNDAYRQLRELLTT-------FRLTLQEAELPP 446 (574)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHhcccCchHH
Confidence 44555555555 4444444455532 344555555555544433333333332 11 233455667888
Q ss_pred HHHHHHHHHHHHhhccCcEEE--eecCCcccceEEEec-HHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCc
Q 037299 954 VINAVVSQVMMLLRERNLQLI--RDIPEEIKTLAVYGD-QARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQ 1030 (1111)
Q Consensus 954 vi~~v~~~~~~~~~~~~i~l~--~~~~~~~~~~~v~~D-~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~ 1030 (1111)
.+++++..+..+. ++.++ +.+|+. .+..+ +..+-||+.+.++||+||+.+ ..|+|++...++
T Consensus 447 AL~~~~~~f~~qt---g~~~~l~~qlp~~----~lpa~qqvHlLqIvREAlsNa~KHa~A--s~i~V~~~~~~g------ 511 (574)
T COG3850 447 ALEQMLAEFSNQT---GITVTLDYQLPPR----ALPAHQQVHLLQIVREALSNAIKHAQA--SEIKVTVSQNDG------ 511 (574)
T ss_pred HHHHHHHHHHhcc---CCeEEEeccCCCC----CCCHHHHHHHHHHHHHHHHHHHHhccc--CeEEEEEEecCC------
Confidence 9999998887644 44444 444443 34444 578999999999999999997 788888776554
Q ss_pred eeEEEEEEEeeCCCCCChhhhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeCCC
Q 037299 1031 TIVHNEFRMVCPGEGLPPELVQDMFHSSRWMTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPMPR 1103 (1111)
Q Consensus 1031 ~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~~~ 1103 (1111)
.++++|.|||+|||+.. +| .| -.||.||++.++..||.+.+++.+|||| .|.|.||...
T Consensus 512 ---~~~~~VeDnG~Gi~~~~-----e~----~g-HyGL~IM~ERA~~L~~~L~i~~~~~gGT-~V~ltf~~~~ 570 (574)
T COG3850 512 ---QVTLTVEDNGVGIDEAA-----EP----SG-HYGLNIMRERAQRLGGQLRIRRREGGGT-EVSLTFPPEE 570 (574)
T ss_pred ---eEEEEEeeCCcCCCCcc-----CC----CC-CcchHHHHHHHHHhcCeEEEeecCCCCe-EEEEEecccc
Confidence 88999999999999862 22 33 6899999999999999999999999877 7888888543
No 62
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=99.43 E-value=1.3e-11 Score=132.64 Aligned_cols=192 Identities=15% Similarity=0.234 Sum_probs=145.3
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhccccccccCCcceeeEeecHHHHH
Q 037299 876 ARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDVDLESIEDGSLEFEKAEFLLGSVI 955 (1111)
Q Consensus 876 ~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dLdlsri~~g~~~l~~~~~~L~~vi 955 (1111)
.|......+++||.+.+++|.--+.+.++...++..++....|++-+-++.+-++.| +.++. +....+..+.+++
T Consensus 302 iRk~vARELHDeIGQnITAIr~Qa~ivkR~~~~~q~kqaas~Ie~LslrI~~svrqL-L~rLR----P~~LDdL~l~qai 376 (497)
T COG3851 302 IRKDVARELHDEIGQNITAIRTQAGIVKRAADNAQVKQAASLIEQLSLRIYDSVRQL-LGRLR----PRQLDDLTLEQAI 376 (497)
T ss_pred HHHHHHHHHHHHhcchHHHHHHHHHHHHhccCCHhHHhHHHHHHHHHHHHHHHHHHH-HHhcC----CcccccccHHHHH
Confidence 345567889999999999999888888887777777888888877777777777765 23322 1223466788888
Q ss_pred HHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEE
Q 037299 956 NAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHN 1035 (1111)
Q Consensus 956 ~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v 1035 (1111)
..+++.+. +.+++|.+..+...+-.. .-..-+..|+++.+++++|.+||+++ ..|+|.....++ .+
T Consensus 377 ~~l~~Em~--~~ergihcq~~~~~n~~~-ldet~rvTLyRl~QE~LNNI~KHA~A--S~V~i~l~~~~e---------~l 442 (497)
T COG3851 377 RSLLREME--LEERGIHCQLDWRINETA-LDETQRVTLYRLCQELLNNICKHADA--SAVTIQLWQQDE---------RL 442 (497)
T ss_pred HHHHHHhh--hhhcCeEEEeccccCccc-CCcceeEeHHHHHHHHHHHHHhcccc--ceEEEEEeeCCc---------EE
Confidence 88888765 456777777665433211 11112356899999999999999998 889999887766 78
Q ss_pred EEEEeeCCCCCChhhhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEee
Q 037299 1036 EFRMVCPGEGLPPELVQDMFHSSRWMTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELP 1100 (1111)
Q Consensus 1036 ~i~V~DnG~GIp~e~~~~iFepf~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP 1100 (1111)
.++|+|||.|+|+. .+-.|+||.-+|+.|...||++.++|..| + ++.+.||
T Consensus 443 ~Lei~DdG~Gl~~~-----------~~v~G~Gl~GmrERVsaLGG~ltlssq~G-T--rviVnLP 493 (497)
T COG3851 443 MLEIEDDGSGLPPG-----------SGVQGFGLTGMRERVSALGGTLTLSSQHG-T--RVIVNLP 493 (497)
T ss_pred EEEEecCCcCCCCC-----------CCccCcCcchHHHHHHHhCCceEEEeccC-c--EEEEecc
Confidence 99999999999965 35679999999999999999999999544 4 4555556
No 63
>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=2.2e-12 Score=122.74 Aligned_cols=112 Identities=29% Similarity=0.423 Sum_probs=93.6
Q ss_pred HHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCC-ccceEEEE
Q 037299 603 REMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEE-DKNVEIKL 681 (1111)
Q Consensus 603 ~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~-~~~~e~~l 681 (1111)
++|+.+++++++|++++|.+|+|++||+++++++||+.++++|+++. +++++++.......+...+..+. ....+..+
T Consensus 1 e~~~~i~~~~~~~i~~~d~~g~I~~~N~a~~~l~g~~~~~~~g~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (113)
T PF00989_consen 1 ERYRAILENSPDGIFVIDEDGRILYVNQAAEELLGYSREELIGKSLF-DLIHPEDRRELRERLRQALSQGESGESFEVRF 79 (113)
T ss_dssp HHHHHHHHCSSSEEEEEETTSBEEEECHHHHHHHSS-HHHHTTSBGG-GGCSGGGHHHHHHHHHHHHHHCCHECEEEEEE
T ss_pred CHHHHHHhcCCceEEEEeCcCeEEEECHHHHHHHccCHHHHcCCcHH-HhcCchhhHHHHHHHHHHHHcCCCceeEEEEE
Confidence 47899999999999999999999999999999999999999999999 88888776656666666555443 33334444
Q ss_pred EEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEec
Q 037299 682 RTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDV 719 (1111)
Q Consensus 682 ~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DI 719 (1111)
.. ++|+.+|+.++++|+++.+|++.|++++++||
T Consensus 80 ~~----~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~DI 113 (113)
T PF00989_consen 80 RL----RDGRPRWVEVRASPVRDEDGQIIGILVIFRDI 113 (113)
T ss_dssp EE----TTSCEEEEEEEEEEEEETTEEEEEEEEEEEE-
T ss_pred Ee----cCCcEEEEEEEEEEEEeCCCCEEEEEEEEEeC
Confidence 42 68999999999999999999999999999997
No 64
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.39 E-value=5.9e-11 Score=126.24 Aligned_cols=199 Identities=13% Similarity=0.129 Sum_probs=131.8
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeecHHH
Q 037299 875 FARLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFLLGS 953 (1111)
Q Consensus 875 ~~r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~L~~ 953 (1111)
.+|.++...++.-|.+.|-+....++++.+...++.... -..+..+++.+..-|+.+ -+|. .-.+--..+..|..
T Consensus 249 dEr~rlaRELHDGIsQ~LVs~k~~lela~~ql~~p~~~a-~~aieKaa~aL~~Ai~EVRRiSH---~LRP~~LDDLGL~a 324 (459)
T COG4564 249 DERARLARELHDGISQNLVSVKCALELAARQLNPPKGGA-HPAIEKAADALNGAIKEVRRISH---DLRPRALDDLGLTA 324 (459)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHHHhccCCCCCCCC-chhhhhHHHHHHHHHHHHHHhcc---ccChhhhhhhhHHH
Confidence 345566677888899999999999999976533322111 122223334444444443 1111 00111122344566
Q ss_pred HHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeE
Q 037299 954 VINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIV 1033 (1111)
Q Consensus 954 vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~ 1033 (1111)
.++..++.+. ...+++++.....- |......-...|++|.++-++|.-+|+.. ..|+|.+....+
T Consensus 325 ALe~L~~~f~---~~tg~~itle~~~~-p~~l~~e~~talyRv~QEaltNIErHa~A--trv~ill~~~~d--------- 389 (459)
T COG4564 325 ALEALLEDFK---ERTGIEITLEFDTQ-PGKLKPEVATALYRVVQEALTNIERHAGA--TRVTILLQQMGD--------- 389 (459)
T ss_pred HHHHHHHHhh---hccCeEEEEEecCC-cccCCcHHHHHHHHHHHHHHHHHHhhcCC--eEEEEEeccCCc---------
Confidence 6676666665 45677776654332 22223344688999999999999999976 788888766555
Q ss_pred EEEEEEeeCCCCCChhhhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeCC
Q 037299 1034 HNEFRMVCPGEGLPPELVQDMFHSSRWMTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPMP 1102 (1111)
Q Consensus 1034 ~v~i~V~DnG~GIp~e~~~~iFepf~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~~ 1102 (1111)
.+.+.|+|||+|++..... .+-.|+||--+|+.+...||++.++|.|.|+..++ -||..
T Consensus 390 ~vql~vrDnG~GF~~~~~~--------~~~~GiGLRNMrERma~~GG~~~v~s~p~GTel~v--~Lp~~ 448 (459)
T COG4564 390 MVQLMVRDNGVGFSVKEAL--------QKRHGIGLRNMRERMAHFGGELEVESSPQGTELTV--LLPLD 448 (459)
T ss_pred ceEEEEecCCCCccchhhc--------cCccccccccHHHHHHHhCceEEEEecCCCcEEEE--Eecch
Confidence 8999999999999976421 12369999999999999999999999999876555 55553
No 65
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.38 E-value=2.3e-11 Score=156.33 Aligned_cols=148 Identities=16% Similarity=0.153 Sum_probs=126.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHH
Q 037299 590 LELQGVDELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHAL 669 (1111)
Q Consensus 590 ~l~~~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l 669 (1111)
.++++.+++++.+++++.++++++++|+++|.+|+|++||+++++++|++.++++|+++. ++++++....+.......+
T Consensus 142 ~r~~~~~~l~~~~~~l~~il~~~~~~i~~~D~~g~i~~~N~a~~~l~G~~~~eliG~~~~-~l~~~~~~~~~~~~~~~~~ 220 (779)
T PRK11091 142 EREETQIELEQQSSLLRSFLDASPDLVYYRNEDGEFSGCNRAMELLTGKSEKQLIGLTPK-DVYSPEAAEKVIETDEKVF 220 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCcceEEEECCCCcEEeEcHHHHHHhCcCHHHHcCCChH-HhCCHHHHHHHHHHHHHHH
Confidence 344567788899999999999999999999999999999999999999999999999998 8888887777777777777
Q ss_pred cCCCccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhC
Q 037299 670 KGEEDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHS 742 (1111)
Q Consensus 670 ~~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~ 742 (1111)
.++.....+..+. .++|..+|+.++..|+++.+|.+.|++++++|||++|++++++.+.++....++..
T Consensus 221 ~~~~~~~~e~~~~----~~~G~~~~~~~~~~pi~~~~g~~~g~v~~~~DITe~k~~e~~l~~a~~~~~~~~a~ 289 (779)
T PRK11091 221 RHNVSLTYEQWLD----YPDGRKACFELRKVPFYDRVGKRHGLMGFGRDITERKRYQDALEKASRDKTTFIST 289 (779)
T ss_pred hcCCCeEEEEEEE----cCCCCEEEEEEEeeeEEcCCCCEEEEEEEEeehhHHHHHHHHHHHHHHHHHHHHHH
Confidence 7766555454443 67999999999999999999999999999999999999999998776654444433
No 66
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=99.31 E-value=2.2e-11 Score=114.82 Aligned_cols=102 Identities=31% Similarity=0.568 Sum_probs=86.4
Q ss_pred ecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCCC-------
Q 037299 988 GDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSRW------- 1060 (1111)
Q Consensus 988 ~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~------- 1060 (1111)
+|+..|.+++.|++.||++|... ++.|.|.+..... .+.+.|.|+|.|++++....+|.++..
T Consensus 1 ~~~~~l~~~~~~l~~n~~~~~~~-~~~v~i~~~~~~~---------~~~i~i~d~g~g~~~~~~~~~~~~~~~~~~~~~~ 70 (111)
T smart00387 1 GDPDRLRQVLSNLLDNAIKYTPE-GGRITVTLERDGD---------HLEITVEDNGPGIPPEDLEKIFEPFFRTDGRSRK 70 (111)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEEcCC---------EEEEEEEeCCCCCCHHHHHHHhcCeEECCCCCCC
Confidence 46789999999999999999887 6788988877655 789999999999999999999988632
Q ss_pred CCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEe
Q 037299 1061 MTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFEL 1099 (1111)
Q Consensus 1061 ~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~L 1099 (1111)
..+.|+||++|+.+++.|+|.+++.+.++ |++|+|.+|+
T Consensus 71 ~~~~g~gl~~~~~~~~~~~g~~~~~~~~~~g~~~~~~~~~ 110 (111)
T smart00387 71 IGGTGLGLSIVKKLVELHGGEISVESEPGGGTTFTITLPL 110 (111)
T ss_pred CCcccccHHHHHHHHHHcCCEEEEEecCCCcEEEEEEeeC
Confidence 34689999999999999999999988744 6666665554
No 67
>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=99.28 E-value=7.3e-12 Score=117.04 Aligned_cols=104 Identities=20% Similarity=0.237 Sum_probs=88.3
Q ss_pred CCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCC
Q 037299 747 IPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRN 826 (1111)
Q Consensus 747 ~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~d 826 (1111)
|.|++++|.+|+|+++|+++++++|+++++++|+++.. + ..++........+.+++.++..+..++.+.+++
T Consensus 1 p~~i~i~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~~-~-------~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~ 72 (104)
T PF13426_consen 1 PDGIFILDPDGRILYVNPAFERLFGYSREELIGKSISD-F-------FPEEDRPEFEEQIERALEEGGSWSGEVRLRRKD 72 (104)
T ss_dssp -SEEEEEETTSBEEEE-HHHHHHHTS-HHHHTTSBGGG-G-------CSTTSCHHHHHHHHHHHHHTSSEEEEEEEEETT
T ss_pred CEEEEEECCcCcEEehhHHHHHHHCcCHHHHcCCCccc-c-------cCcccchhhHHHHHHHHhcCCceeEEEEEEcCC
Confidence 46899999999999999999999999999999998632 2 224445566677777777777788899999999
Q ss_pred CCEEEEEEEEeeeecCCCCEEEEEeeeecccH
Q 037299 827 GKYVQALLTANKRVNMEGQIVGAFCFLQIASP 858 (1111)
Q Consensus 827 G~~~~v~~~~~pi~d~~G~v~g~v~~~~DITe 858 (1111)
|+.+|+.+++.|+.+.+|++.+++++++|||+
T Consensus 73 g~~~~~~~~~~~i~~~~g~~~~~i~~~~DiTe 104 (104)
T PF13426_consen 73 GETFWVEVSASPIRDEDGEITGIIGIFRDITE 104 (104)
T ss_dssp SEEEEEEEEEEEEEETTSSEEEEEEEEEEEHH
T ss_pred CCEEEEEEEEEEEECCCCCEEEEEEEEEECCC
Confidence 99999999999999999999999999999996
No 68
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=99.24 E-value=3.4e-11 Score=141.98 Aligned_cols=109 Identities=16% Similarity=0.265 Sum_probs=85.0
Q ss_pred EecHHHHHHHHHHHHHHHhhcCCCCCc---eEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCC----
Q 037299 987 YGDQARIQQVLADFLLNMVRYSPSAEG---WVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR---- 1059 (1111)
Q Consensus 987 ~~D~~~L~qVl~nLl~NAik~t~~~~g---~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~---- 1059 (1111)
.++...|.|++.||+.||++|++. .| .|.|.+..... + ...+.|+|.|||+|||++.++++|++|+
T Consensus 31 ~~p~~~L~qVLkNLIeNAIDa~~~-~gilp~I~I~I~~~~~--~----~~~~~I~V~DNG~GIp~e~l~~iF~~f~~~SK 103 (535)
T PRK04184 31 DNPARALYTTVKELVDNSLDACEE-AGILPDIKIEIKRVDE--G----KDHYRVTVEDNGPGIPPEEIPKVFGKLLYGSK 103 (535)
T ss_pred cCCHHHHHHHHHHHHHHHHHHhhh-cCCCceEEEEEEEccC--C----CcEEEEEEEcCCCCCCHHHHHHHhhhhhcccc
Confidence 344678999999999999999876 33 57777654311 0 0167899999999999999999999862
Q ss_pred ------CCCCccchHHHHHHHHHHcCCE-EEEEecCCce--EEEEEEEeeCC
Q 037299 1060 ------WMTQEGLGLSMCRKILKLMNGE-VQYIRESERC--YFLIIFELPMP 1102 (1111)
Q Consensus 1060 ------~~~G~GLGL~i~r~iVe~~gG~-I~v~s~~ggs--tF~~~L~LP~~ 1102 (1111)
..++.||||++|+.+++.|+|. |++.|.++++ +|+|+|+++..
T Consensus 104 ~~~~~~s~G~~GLGLsiv~~isq~~~G~~I~V~S~~~~g~~~~~~~l~id~~ 155 (535)
T PRK04184 104 FHNLRQSRGQQGIGISAAVLYAQMTTGKPVRVISSTGGSKKAYYFELKIDTK 155 (535)
T ss_pred ccccccCCCCCCcchHHHHHHHHHhcCCcEEEEEecCCCceEEEEEEEeccc
Confidence 1245899999999999999987 9999987753 57777776653
No 69
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=99.21 E-value=1.9e-10 Score=141.08 Aligned_cols=159 Identities=15% Similarity=0.269 Sum_probs=114.3
Q ss_pred HHHHHHHHHHHHHhhc--cccccccCCcceeeEeecHHHHHHHHHHHHHHHhh--ccCcEEEeecCCcccceEEEecHHH
Q 037299 917 TSAACEKQMLKIIKDV--DLESIEDGSLEFEKAEFLLGSVINAVVSQVMMLLR--ERNLQLIRDIPEEIKTLAVYGDQAR 992 (1111)
Q Consensus 917 ~i~~~~~~l~~lI~dL--dlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~~~--~~~i~l~~~~~~~~~~~~v~~D~~~ 992 (1111)
.......++.++..+| .+.+ ..+.| +..++...-+.++..++ +|.++|.+...+ ...|+.-
T Consensus 365 el~~~~~~l~~~~~~LQd~vm~-------~RMvP--~~~vf~RfpR~VRdla~~lgK~V~L~ieG~~------telDksI 429 (716)
T COG0643 365 ELDEALRQLSRLTTDLQDEVMK-------IRMVP--FEQVFSRFPRMVRDLARKLGKQVELVIEGED------TELDKSI 429 (716)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-------Hhcee--HHHHHhhccHHHHHHHHHhCCeeEEEEecCC------eeehHHH
Confidence 3344455666666665 2222 23333 56666555555555544 456666666554 6678887
Q ss_pred HHHH---HHHHHHHHhhcC-----------CCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhh-----
Q 037299 993 IQQV---LADFLLNMVRYS-----------PSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQD----- 1053 (1111)
Q Consensus 993 L~qV---l~nLl~NAik~t-----------~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~----- 1053 (1111)
|.++ |.-|+.||++|. +++.|.|++++...++ ++.|.|+|+|.||+.+.+.+
T Consensus 430 lE~l~dPL~HLvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~~~gn---------~ivIev~DDG~Gid~ekI~~KAiEr 500 (716)
T COG0643 430 LERLGDPLTHLVRNAVDHGIETPEERRAAGKPEEGTITLSAYHEGN---------NIVIEVSDDGAGIDREKIREKAIER 500 (716)
T ss_pred HHHhcccHHHHHhcchhccCCCHHHHHHcCCCCcceEEEEEEcCCC---------eEEEEEeeCCCCCCHHHHHHHHHHc
Confidence 7776 689999999993 3346999999988777 99999999999999886543
Q ss_pred -------------------ccCCCCCC-------CCccchHHHHHHHHHHcCCEEEEEecCCc-eEEEEEEEe
Q 037299 1054 -------------------MFHSSRWM-------TQEGLGLSMCRKILKLMNGEVQYIRESER-CYFLIIFEL 1099 (1111)
Q Consensus 1054 -------------------iFepf~~~-------~G~GLGL~i~r~iVe~~gG~I~v~s~~gg-stF~~~L~L 1099 (1111)
||.|.|++ .|.|.||=+||.-|+.+||+|.++|++|+ |+|++.|||
T Consensus 501 Gli~~~~a~~lSd~Ei~~LIF~PGFSTa~~VtdvSGRGVGMDVVk~~I~~LgG~I~V~S~~G~GT~Fti~LPL 573 (716)
T COG0643 501 GLITEEEAETLSDEEILNLIFAPGFSTAEQVTDVSGRGVGMDVVKTNIEQLGGSISVSSEPGKGTTFTIRLPL 573 (716)
T ss_pred CCCChHHhccCCHHHHHHHHhcCCCCcchhhhcccCCccCHHHHHHHHHHcCCEEEEEecCCCCeEEEEecCc
Confidence 88886544 49999999999999999999999999995 655554443
No 70
>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=99.18 E-value=8.8e-11 Score=111.61 Aligned_cols=112 Identities=27% Similarity=0.381 Sum_probs=91.4
Q ss_pred HHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCC
Q 037299 734 GDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQ 813 (1111)
Q Consensus 734 ~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~ 813 (1111)
++|+.++++++. |++++|.+|+|+++|+++++++||++++++|+++.+.+ ++++.......+.+.+...
T Consensus 1 e~~~~i~~~~~~---~i~~~d~~g~I~~~N~a~~~l~g~~~~~~~g~~~~~~~--------~~~~~~~~~~~~~~~~~~~ 69 (113)
T PF00989_consen 1 ERYRAILENSPD---GIFVIDEDGRILYVNQAAEELLGYSREELIGKSLFDLI--------HPEDRRELRERLRQALSQG 69 (113)
T ss_dssp HHHHHHHHCSSS---EEEEEETTSBEEEECHHHHHHHSS-HHHHTTSBGGGGC--------SGGGHHHHHHHHHHHHHHC
T ss_pred CHHHHHHhcCCc---eEEEEeCcCeEEEECHHHHHHHccCHHHHcCCcHHHhc--------CchhhHHHHHHHHHHHHcC
Confidence 578999999987 89999999999999999999999999999999975444 3554445555555555444
Q ss_pred C-cceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecc
Q 037299 814 D-TEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIA 856 (1111)
Q Consensus 814 ~-~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DI 856 (1111)
. ....+..+..++|+.+|+.++.+|+.+.+|++.|++++++||
T Consensus 70 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~DI 113 (113)
T PF00989_consen 70 ESGESFEVRFRLRDGRPRWVEVRASPVRDEDGQIIGILVIFRDI 113 (113)
T ss_dssp CHECEEEEEEEETTSCEEEEEEEEEEEEETTEEEEEEEEEEEE-
T ss_pred CCceeEEEEEEecCCcEEEEEEEEEEEEeCCCCEEEEEEEEEeC
Confidence 3 345566666689999999999999999999999999999997
No 71
>PRK13559 hypothetical protein; Provisional
Probab=99.12 E-value=8.6e-10 Score=128.51 Aligned_cols=136 Identities=16% Similarity=0.092 Sum_probs=108.4
Q ss_pred HHHHHHHHHHHhcCCcEEEEcC---CccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccc
Q 037299 600 SVAREMVRLIETATAPIFAVDV---HGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKN 676 (1111)
Q Consensus 600 ~~~~~l~~lie~~~~~I~~~D~---dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~ 676 (1111)
...+.|+.+++.++++|+++|. +|++++||+++++++||+.++++|+++. .+.++.........+..++.++....
T Consensus 40 ~~~~~~~~~~e~~~~~i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~-~l~~~~~~~~~~~~~~~~~~~~~~~~ 118 (361)
T PRK13559 40 ASGRLFEQAMEQTRMAMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCR-FLQGAATDPIAVAKIRAAIAAEREIV 118 (361)
T ss_pred hhhhHHHHHHHhCCCcEEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChh-hhcCCCCCHHHHHHHHHHhccCCceE
Confidence 3467788999999999999997 6789999999999999999999999986 56655554455555666666665544
Q ss_pred eEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHH
Q 037299 677 VEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIV 740 (1111)
Q Consensus 677 ~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~ 740 (1111)
.++.. .+++|..+|+.++..|+++.+|.+.+++++++|||++|+++++.+..+..++.+-
T Consensus 119 ~e~~~----~~~dG~~~~~~~~~~~i~d~~G~~~~~v~~~~DITerk~~e~~~~~~~~l~~~l~ 178 (361)
T PRK13559 119 VELLN----YRKDGEPFWNALHLGPVYGEDGRLLYFFGSQWDVTDIRAVRALEAHERRLAREVD 178 (361)
T ss_pred EEEEE----EcCCCCEEEEEEEEEEEEcCCCCEEEeeeeeeehhcchhhHHHHHHHHHHHHHHH
Confidence 44333 3689999999999999999999999999999999999998876665554444443
No 72
>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=99.11 E-value=1.3e-10 Score=109.80 Aligned_cols=106 Identities=23% Similarity=0.300 Sum_probs=92.3
Q ss_pred CCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCC
Q 037299 747 IPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRN 826 (1111)
Q Consensus 747 ~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~d 826 (1111)
|.+++++|.+|+++++|+++.+++|++.++++|+++.+ +.++.....+...+.+++.++.....+..... +
T Consensus 5 p~~i~v~D~~~~i~~~N~~~~~~~~~~~~~~~G~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ 75 (110)
T PF08448_consen 5 PDGIFVIDPDGRIVYANQAAAELFGVSPEELIGRSLFD--------LLPPEDREEFQAALRRALAGGEPVFFEEILLR-D 75 (110)
T ss_dssp SSEEEEEETTSBEEEE-HHHHHHHTSTHHHHTTSBHHH--------HSCCGCHHHHHHHHHHHHHHTSEEEEEEEECT-T
T ss_pred CceeEEECCCCEEEEEHHHHHHHhCCCHHHHhhccchh--------ccccchhhhhHHHHHHhhccCceEEEEEEEee-c
Confidence 34899999999999999999999999999999998743 33366888889999999999887776666555 9
Q ss_pred CCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHH
Q 037299 827 GKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQ 861 (1111)
Q Consensus 827 G~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~ 861 (1111)
|+.+|+.++..|++|.+|++.|++++++|||++++
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 99999999999999999999999999999999774
No 73
>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=99.11 E-value=5.9e-10 Score=103.26 Aligned_cols=95 Identities=32% Similarity=0.492 Sum_probs=78.3
Q ss_pred HHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCC------CCCCCccc
Q 037299 993 IQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSS------RWMTQEGL 1066 (1111)
Q Consensus 993 L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf------~~~~G~GL 1066 (1111)
|.+++.+++.||++|....++.|.|.+..... .+.|.|.|+|.|+++..++.+|.++ ....+.|+
T Consensus 1 l~~~~~~ll~Na~~~~~~~~~~v~i~~~~~~~---------~~~v~i~d~g~g~~~~~~~~~~~~~~~~~~~~~~~~~g~ 71 (103)
T cd00075 1 LQQVLLNLLSNAIKHTPEGGGRITISVERDGD---------HLEIRVEDNGPGIPEEDLERIFERFSDGSRSRKGGGTGL 71 (103)
T ss_pred CHHHHHHHHHHHHHhCcCCCCeEEEEEEecCC---------EEEEEEEeCCCCCCHHHHHHHhhhhhcCCCCCCCCcccc
Confidence 46899999999999987424678888776554 7899999999999999999998754 23347899
Q ss_pred hHHHHHHHHHHcCCEEEEEecC-CceEEEEE
Q 037299 1067 GLSMCRKILKLMNGEVQYIRES-ERCYFLII 1096 (1111)
Q Consensus 1067 GL~i~r~iVe~~gG~I~v~s~~-ggstF~~~ 1096 (1111)
||++|+++++.|||.+++.+.. ++++|+++
T Consensus 72 gl~~~~~~~~~~~g~~~~~~~~~~g~~~~~~ 102 (103)
T cd00075 72 GLSIVKKLVELHGGRIEVESEPGGGTTFTIT 102 (103)
T ss_pred CHHHHHHHHHHcCCEEEEEeCCCCcEEEEEE
Confidence 9999999999999999999887 56666554
No 74
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=99.10 E-value=5.3e-10 Score=133.95 Aligned_cols=121 Identities=8% Similarity=0.070 Sum_probs=86.0
Q ss_pred cCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCc---eEEEEEEEccccCCCCceeEEEEEEEeeCCCC
Q 037299 969 RNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEG---WVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEG 1045 (1111)
Q Consensus 969 ~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g---~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~G 1045 (1111)
+.+.+..-+..+.+.+-...|...|.+++.|||.||++|+.. +| .|.|.+...+. ++.|.|.|||+|
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 456666555555542233345778999999999999999876 33 57777765444 789999999999
Q ss_pred CChhhhhhccCCCC------------CCCCccchHHHHHHHHHHcCCEEEEEecCCc--eEEEEEEEee
Q 037299 1046 LPPELVQDMFHSSR------------WMTQEGLGLSMCRKILKLMNGEVQYIRESER--CYFLIIFELP 1100 (1111)
Q Consensus 1046 Ip~e~~~~iFepf~------------~~~G~GLGL~i~r~iVe~~gG~I~v~s~~gg--stF~~~L~LP 1100 (1111)
||++.++++|++|. ...|.||||++|+..+ .+||.|.+.|..++ ..+.+.|.+-
T Consensus 93 Ip~EdLp~IFerf~~tSKf~~~~~srG~rG~GLglai~~sql-t~GgpI~I~S~~~~~~~g~~~~L~Id 160 (795)
T PRK14868 93 ITKEQIPKVFGKLLYGSRFHAREQSRGQQGIGISAAVLYSQL-TSGKPAKITSRTQGSEEAQYFELIID 160 (795)
T ss_pred CCHHHHHHHhhhhcccccccccccCCCCCceehHHHHHHHHH-cCCCcEEEEeCCCCCCceeEEEEEEe
Confidence 99999999999852 1235566666666665 37999999998753 2333444443
No 75
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=99.08 E-value=2.3e-11 Score=152.91 Aligned_cols=225 Identities=26% Similarity=0.387 Sum_probs=187.8
Q ss_pred HHHHHH--HHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccccCCcceeeEeec
Q 037299 874 CFARLK--ELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIEDGSLEFEKAEFL 950 (1111)
Q Consensus 874 ~~~r~~--~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~~g~~~l~~~~~~ 950 (1111)
...+.+ +++.++||||.|+++ +....+-.+..+.+++.++.....+......+++++ |.++++.|..++...+|+
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 555556667888999999999999999999999997 999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCC--
Q 037299 951 LGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSE-- 1028 (1111)
Q Consensus 951 L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~-- 1028 (1111)
+..+++.++..+...+..+++.+....+.+.|. .+.+|..++.||+.|++.||+|++.. |.|.+++.........
T Consensus 294 l~~ll~~~~~~~~e~~~~~~~~l~~~~~~~~p~-~v~~de~~~~qv~~n~v~naik~t~~--~~i~~~~~~~~~~~~~~~ 370 (786)
T KOG0519|consen 294 LRTLLNFVISLLSELSQAKYAILVLDLSSGVPR-NVRGDEARLRQVIANLVSNAIKFTHA--GHLEESVIAREELSESND 370 (786)
T ss_pred hHhhhhhhhhhhHHHhhcCCeEEEEecCCCCcc-eeeccceeeeeeehhhccceeccccc--ceEEEEEEeehhcchhhH
Confidence 999999999999999999999999999988775 78999999999999999999999987 7777776554221110
Q ss_pred -------------------------------Cce------eEEEEEEEeeCCCCCChhhhhh-ccCCC--------CCCC
Q 037299 1029 -------------------------------GQT------IVHNEFRMVCPGEGLPPELVQD-MFHSS--------RWMT 1062 (1111)
Q Consensus 1029 -------------------------------~~~------~~~v~i~V~DnG~GIp~e~~~~-iFepf--------~~~~ 1062 (1111)
... .....+.+.|+|.||+...... +|.+| +..+
T Consensus 371 ~l~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~~~~~~~~~ 450 (786)
T KOG0519|consen 371 VLLRAKEEAHMAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPDSGLEIQTVMRSSNVFTSLIQADPDITRLYG 450 (786)
T ss_pred HHHhhhhhhhhccchhhhHHHHhccccccccccccccchhhHhheEeccCCceeEehhhhhhhHHHHHhccccccccccC
Confidence 000 1234678899999999998777 88875 4568
Q ss_pred CccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCCC
Q 037299 1063 QEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMPR 1103 (1111)
Q Consensus 1063 G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~~ 1103 (1111)
|+|+|+.+++.+++.|+|.+.+.+... +++|+|++++-...
T Consensus 451 gt~~~~~i~~~l~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~ 492 (786)
T KOG0519|consen 451 GTGLGESIVFSLVELMSGEISDISCISLGKTFSFTLDLLTNL 492 (786)
T ss_pred CCcccchhhccHHHHHHHHhhhhhhhccCceeeEEEEeccCC
Confidence 999999999999999999999998887 78888877654443
No 76
>PRK10060 RNase II stability modulator; Provisional
Probab=99.08 E-value=2.4e-09 Score=134.45 Aligned_cols=164 Identities=16% Similarity=0.206 Sum_probs=118.6
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccce
Q 037299 598 LSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNV 677 (1111)
Q Consensus 598 L~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~ 677 (1111)
++.....++.+++.++++|+++|.+|+|+++|+++++++||+.++++|+++...+.++.+.......+...+..+..+..
T Consensus 106 ~~~~~~~~~~v~~~~~~gI~i~D~~g~I~~~N~a~~~l~Gy~~~eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 185 (663)
T PRK10060 106 LSHGLSFAEQVVSEANSVIVILDSRGNIQRFNRLCEEYTGLKEHDVIGQSVFKLFMSRREAAASRRNIRGFFRSGNAYEV 185 (663)
T ss_pred HHHHHHHHHHHHhhCCceEEEEeCCCCEEEEcHHHHHHHCcCHHHHcCCCHHHHhCChhhHHHHHHHHHHHHhcCCceEE
Confidence 44555677889999999999999999999999999999999999999999873444666666666677777766665545
Q ss_pred EEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhH---------------HHHHHHHHhC
Q 037299 678 EIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHI---------------QGDYKAIVHS 742 (1111)
Q Consensus 678 e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~s---------------e~~l~~i~~~ 742 (1111)
+..++ +++|..+|+..+..+..+..+...+++++.+|||++|+.++++++. .++++..+..
T Consensus 186 e~~~~----~~~G~~~~~~~~~~~~~~~g~~~~~~i~~~~DITe~k~~e~~l~~~a~~D~LTGL~NR~~f~~~l~~~l~~ 261 (663)
T PRK10060 186 ERWIK----TRKGQRLFLFRNKFVHSGSGKNEIFLICSGTDITEERRAQERLRILANTDSITGLPNRNAIQELIDHAINA 261 (663)
T ss_pred EEEEE----eCCCCEEEEEeeeEEEcCCCCceEEEEEEEEechHHHHHHHHHHHHhhcCccCCCcCHHHHHHHHHHHHHh
Confidence 54443 7789888876654443334444567888999999999999988663 3455555543
Q ss_pred CCCCCCCccccCCCCccccchhhh
Q 037299 743 PNPLIPPIFASDENTCCSEWNTAM 766 (1111)
Q Consensus 743 ~~~l~~~I~v~D~~g~ii~~N~a~ 766 (1111)
....+.+++.+|.++ +-.+|..+
T Consensus 262 ~~~~~~~ll~idld~-fk~iNd~~ 284 (663)
T PRK10060 262 ADNNQVGIVYLDLDN-FKKVNDAY 284 (663)
T ss_pred CCCCcEEEEEEECcc-hhHHHHhh
Confidence 333344677777764 33556554
No 77
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=99.07 E-value=8e-10 Score=129.12 Aligned_cols=106 Identities=17% Similarity=0.291 Sum_probs=84.4
Q ss_pred EEecHHHHHHHHHHHHHHHhhcCCCCCc---eEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCC---
Q 037299 986 VYGDQARIQQVLADFLLNMVRYSPSAEG---WVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR--- 1059 (1111)
Q Consensus 986 v~~D~~~L~qVl~nLl~NAik~t~~~~g---~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~--- 1059 (1111)
..++...|.+++.||+.||++|+.. .| .|.|.+...+. ..+.|+|.|||+|||++.++++|++|+
T Consensus 22 f~~~~~~L~~VlkELVeNAIDA~~~-~g~~p~I~V~i~~~g~--------~~~~I~V~DNG~GIp~edl~~iF~rf~~ts 92 (488)
T TIGR01052 22 YSGKIRSLTTVIHELVTNSLDACEE-AGILPDIKVEIEKIGK--------DHYKVTVEDNGPGIPEEYIPKVFGKMLAGS 92 (488)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHhhc-cCCCceEEEEEEECCC--------ceEEEEEEECCCCCCHHHHHhhhhhccccC
Confidence 4567889999999999999999875 33 67777654322 167899999999999999999999852
Q ss_pred -------CCCCccchHHHHHHHHHHcCCE-EEEEecCCceEE--EEEEEee
Q 037299 1060 -------WMTQEGLGLSMCRKILKLMNGE-VQYIRESERCYF--LIIFELP 1100 (1111)
Q Consensus 1060 -------~~~G~GLGL~i~r~iVe~~gG~-I~v~s~~ggstF--~~~L~LP 1100 (1111)
..++.|+||+++..+++.|+|. +++.|..++..| .+.+.++
T Consensus 93 K~~~~~~s~G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~~~~~~~~~id 143 (488)
T TIGR01052 93 KFHRIIQSRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYVYKMKLKID 143 (488)
T ss_pred ccccccccCCCccEehhHHHHHHHHcCCceEEEEEecCCceEEEEEEEEec
Confidence 1246899999999999999999 999998877666 4444433
No 78
>PRK13557 histidine kinase; Provisional
Probab=99.06 E-value=1.6e-09 Score=133.20 Aligned_cols=131 Identities=16% Similarity=0.123 Sum_probs=107.4
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEcC---CccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCc
Q 037299 598 LSSVAREMVRLIETATAPIFAVDV---HGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEED 674 (1111)
Q Consensus 598 L~~~~~~l~~lie~~~~~I~~~D~---dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~ 674 (1111)
.......|+.++++++++|+++|. +|+|+|+|+++++++||+.++++|+++. .++++++.......+...+..+..
T Consensus 25 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~g~i~~~N~a~~~~~G~~~~e~~g~~~~-~l~~~~~~~~~~~~~~~~~~~~~~ 103 (540)
T PRK13557 25 SDHRSDIFFAAVETTRMPMIVTDPNQPDNPIVFANRAFLEMTGYAAEEIIGNNCR-FLQGPETDRATVAEVRDAIAERRE 103 (540)
T ss_pred hhhhhHHHHHHHHhCcCcEEEEcCCCCCCCEEEEcHHHHHHhCCCHHHhcCCChH-hhcCCCCCHHHHHHHHHHHHcCCC
Confidence 344577899999999999999995 8999999999999999999999999988 777766555555555555554444
Q ss_pred cceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHH
Q 037299 675 KNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQ 733 (1111)
Q Consensus 675 ~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se 733 (1111)
...++.. .+++|..+|+.+...|+++.+|.+.+++++.+|||+++++++++.+.+
T Consensus 104 ~~~~~~~----~~~~G~~~~~~~~~~~i~~~~g~~~~~~~~~~dit~~~~~e~~l~~~~ 158 (540)
T PRK13557 104 IATEILN----YRKDGSSFWNALFVSPVYNDAGDLVYFFGSQLDVSRRRDAEDALRQAQ 158 (540)
T ss_pred ceEEEEE----EeCCCCEEEEEEEEEEeECCCCCEEEEEEEecChHHHHHHHHHHHHHH
Confidence 3333333 368999999999999999999999999999999999999998876554
No 79
>PRK13558 bacterio-opsin activator; Provisional
Probab=99.04 E-value=2.2e-09 Score=135.54 Aligned_cols=137 Identities=18% Similarity=0.155 Sum_probs=114.4
Q ss_pred HHHHHHHHhcCCcEEEEc---CCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEE
Q 037299 603 REMVRLIETATAPIFAVD---VHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEI 679 (1111)
Q Consensus 603 ~~l~~lie~~~~~I~~~D---~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~ 679 (1111)
+.++.+++.+++++|++| .+|++++||+++++++||++++++|+++. .+.++.........+...+.++.....++
T Consensus 148 r~~~~~~~~~~~gi~~~d~~~~dg~i~~~N~~~~~l~G~~~eel~g~~~~-~l~~~~~~~~~~~~~~~~~~~~~~~~~e~ 226 (665)
T PRK13558 148 RLKERALDEAPVGITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCR-FLQGEDTNEERVAELREAIDEERPTSVEL 226 (665)
T ss_pred HHHHHHHhcCCccEEEEcCCCCCCcEEEEcHHHHHHhCcCHHHHcCCCHH-HhcCCCccHHHHHHHHHHHhcCCCeEEEE
Confidence 345689999999999998 47999999999999999999999999987 67766655555555666666665544444
Q ss_pred EEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCC
Q 037299 680 KLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPN 744 (1111)
Q Consensus 680 ~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~ 744 (1111)
+.. +++|..+|+.++..|+++.+|.+.|++++++|||++|++|+++++.+..++.+++.++
T Consensus 227 ~~~----~~dG~~~~~~~~~~pi~d~~G~~~~~vgi~~DITerk~~E~~L~~~~~~L~~l~~~~~ 287 (665)
T PRK13558 227 RNY----RKDGSTFWNQVDIAPIRDEDGTVTHYVGFQTDVTERKEAELALQRERRKLQRLLERVE 287 (665)
T ss_pred EEE----CCCCCEEEEEEEEEEEECCCCCEEEEEEEEEeCcHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 443 7899999999999999999999999999999999999999999998888887776554
No 80
>PRK10060 RNase II stability modulator; Provisional
Probab=99.04 E-value=5.3e-09 Score=131.33 Aligned_cols=167 Identities=13% Similarity=0.076 Sum_probs=126.4
Q ss_pred cCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhH
Q 037299 688 NRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAME 767 (1111)
Q Consensus 688 ~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~ 767 (1111)
.+|+..|+...+.++.+. ...|......|++. ....+......++.+++.+++ +|+++|.+|+++++|++++
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 489999999987776433 34455555555555 444556667778889999887 8999999999999999999
Q ss_pred HHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCC-CE
Q 037299 768 KLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEG-QI 846 (1111)
Q Consensus 768 ~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G-~v 846 (1111)
+++||+.++++|+++...+. ++++.......+...+..+..+..+..+.+++|+.+|+.....+ .+.+| ..
T Consensus 142 ~l~Gy~~~eliG~~~~~l~~-------~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~~-~~~~g~~~ 213 (663)
T PRK10060 142 EYTGLKEHDVIGQSVFKLFM-------SRREAAASRRNIRGFFRSGNAYEVERWIKTRKGQRLFLFRNKFV-HSGSGKNE 213 (663)
T ss_pred HHHCcCHHHHcCCCHHHHhC-------ChhhHHHHHHHHHHHHhcCCceEEEEEEEeCCCCEEEEEeeeEE-EcCCCCce
Confidence 99999999999998644332 35555556666777777777888899999999999887766444 44444 45
Q ss_pred EEEEeeeecccHHHHHHHHHHHHH
Q 037299 847 VGAFCFLQIASPELQQALTVQRQQ 870 (1111)
Q Consensus 847 ~g~v~~~~DITer~~~e~el~~~~ 870 (1111)
.+++++.+|||++++.+.++++.+
T Consensus 214 ~~~i~~~~DITe~k~~e~~l~~~a 237 (663)
T PRK10060 214 IFLICSGTDITEERRAQERLRILA 237 (663)
T ss_pred EEEEEEEEechHHHHHHHHHHHHh
Confidence 678899999999998887665543
No 81
>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=5.9e-09 Score=96.10 Aligned_cols=120 Identities=22% Similarity=0.356 Sum_probs=98.8
Q ss_pred HHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCC-ccceEEEE
Q 037299 603 REMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEE-DKNVEIKL 681 (1111)
Q Consensus 603 ~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~-~~~~e~~l 681 (1111)
+.++.+++.++++++++|.+|+++++|+++++++|++..+++|+++. .++++.........+..+..++. .....+.+
T Consensus 3 ~~~~~~~~~~~~~~~~~d~~~~i~~~n~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (124)
T TIGR00229 3 ERYRAIFESSPDAIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVL-ELIPEEDREEVRERIERLLEGEREPVSEERRV 81 (124)
T ss_pred hHHHHHHhhCCceEEEEcCCCcEEEEchHHHHHhCCChHHhcCcchh-hhcChhhhHHHHHHHHHHHcCCCCCcceEeee
Confidence 45678999999999999999999999999999999999999999988 67777777766666666666332 22223332
Q ss_pred EEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHH
Q 037299 682 RTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDK 728 (1111)
Q Consensus 682 ~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~ 728 (1111)
...+|..+|+.....|+. .+|...+++++++|||++++.+++
T Consensus 82 ----~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~dit~~~~~~~~ 123 (124)
T TIGR00229 82 ----RRKDGSEIWVEVSVSPIR-TNGGELGVVGIVRDITERKQAEEA 123 (124)
T ss_pred ----EcCCCCEEEEEEEEeehh-hCCCeeEEEEEeeehhHHHHHHhc
Confidence 256889999999999998 889999999999999999988765
No 82
>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=98.98 E-value=3.9e-09 Score=104.93 Aligned_cols=94 Identities=14% Similarity=0.166 Sum_probs=73.1
Q ss_pred ecHHHHHHHHHHHHHHHhhcCC--CCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCCCC----
Q 037299 988 GDQARIQQVLADFLLNMVRYSP--SAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSRWM---- 1061 (1111)
Q Consensus 988 ~D~~~L~qVl~nLl~NAik~t~--~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~---- 1061 (1111)
.+...+.+++.|++.||++|+- ..++.|.|++....+ .+.++|.|+|.|||+ ..++|+||+..
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 4566899999999999999852 225788888877655 789999999999984 56889887432
Q ss_pred CCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEE
Q 037299 1062 TQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLII 1096 (1111)
Q Consensus 1062 ~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~ 1096 (1111)
.+.|+||+++++ +.+++++.+.++ |++|+++
T Consensus 104 ~~~GlGL~lv~~----~~~~l~~~~~~~~Gt~v~i~ 135 (137)
T TIGR01925 104 ERSGMGFTVMEN----FMDDVSVDSEKEKGTKIIMK 135 (137)
T ss_pred CCCcccHHHHHH----hCCcEEEEECCCCCeEEEEE
Confidence 378999999876 557999999876 4655553
No 83
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=98.98 E-value=2.6e-08 Score=128.79 Aligned_cols=124 Identities=15% Similarity=0.197 Sum_probs=100.3
Q ss_pred HHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCccccccc-chhhHHHHHHHHHHHHcCCCccceEEE
Q 037299 602 AREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLV-YKEYEEIVDNLLHHALKGEEDKNVEIK 680 (1111)
Q Consensus 602 ~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~-~~~~~~~~~~~l~~~l~~~~~~~~e~~ 680 (1111)
++.+..++++++++++++|.+|+++++|+++++++||+.++++|+++. +++ ++.........+...+.++.....++.
T Consensus 135 ~~~~~~~~~~~~~~i~~~d~~g~i~~~N~~~~~l~G~~~~e~~g~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 213 (799)
T PRK11359 135 TRQLIIAVDHLDRPVIVLDPERRIVQCNRAFTEMFGYCISEASGMQPD-TLLNIPEFPADNRIRLQQLLWKTARDQDEFL 213 (799)
T ss_pred HHHHHHHHhcCCCcEEEEcCCCcEEEEChhhHhhhCCCHHHHCCCChH-HhcCCCCCcHHHHHHHHHhhccCCCCcceeE
Confidence 345667899999999999999999999999999999999999999987 444 344444445555555655554444444
Q ss_pred EEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHH
Q 037299 681 LRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFI 730 (1111)
Q Consensus 681 l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~ 730 (1111)
.. +++|..+|+.++..|+.+.+|.+.|++++.+|||++|++++..+
T Consensus 214 ~~----~~dG~~~~~~~~~~~v~d~~g~~~~~~~~~~DITerk~~e~~~~ 259 (799)
T PRK11359 214 LL----TRTGEKIWIKASISPVYDVLAHLQNLVMTFSDITEERQIRQLEG 259 (799)
T ss_pred Ee----CCCCCEEEEEeeeeeeecCCCceeEEEEEeehhhhHHHHHHHHH
Confidence 43 67999999999999999999999999999999999998876543
No 84
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=98.92 E-value=1.1e-08 Score=104.51 Aligned_cols=101 Identities=13% Similarity=0.115 Sum_probs=80.0
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC--CceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCC------C
Q 037299 989 DQARIQQVLADFLLNMVRYSPSA--EGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR------W 1060 (1111)
Q Consensus 989 D~~~L~qVl~nLl~NAik~t~~~--~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~------~ 1060 (1111)
+...+..++.+++.||++|+... ++.|.|++....+ .+.|.|+|+|+||+++.+...|.|++ .
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 35678889999999999997642 3678888776655 89999999999999998888888863 1
Q ss_pred CCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeCCC
Q 037299 1061 MTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPMPR 1103 (1111)
Q Consensus 1061 ~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~~~ 1103 (1111)
..+.|+||++++.+++. +++.+ .+|++|+++-.++..+
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 24679999999999986 77776 4567777777665544
No 85
>PRK03660 anti-sigma F factor; Provisional
Probab=98.92 E-value=1.2e-08 Score=102.66 Aligned_cols=99 Identities=15% Similarity=0.200 Sum_probs=76.2
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC--CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCCCC----C
Q 037299 989 DQARIQQVLADFLLNMVRYSPS--AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSRWM----T 1062 (1111)
Q Consensus 989 D~~~L~qVl~nLl~NAik~t~~--~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~----~ 1062 (1111)
|...+.+++.|++.||++|+.. .++.|.|++....+ .+.+.|.|+|.|||+ ....|+|++.. .
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 5678899999999999998642 13678888766555 789999999999986 45778886432 4
Q ss_pred CccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEEeeCC
Q 037299 1063 QEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFELPMP 1102 (1111)
Q Consensus 1063 G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~LP~~ 1102 (1111)
+.|+||+++++ +.+.+++.+.++ |++|+++++++..
T Consensus 105 ~~GlGL~i~~~----~~~~i~~~~~~~~Gt~~~i~~~~~~~ 141 (146)
T PRK03660 105 RSGMGFTVMES----FMDEVEVESEPGKGTTVRMKKYLKKS 141 (146)
T ss_pred CccccHHHHHH----hCCeEEEEecCCCcEEEEEEEEeccc
Confidence 68999999864 567899998766 5777777766654
No 86
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=98.91 E-value=9.7e-08 Score=107.46 Aligned_cols=130 Identities=20% Similarity=0.306 Sum_probs=92.8
Q ss_pred eEeecHHHHHHHHHHHHHH---HhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCC---CCCceEEEEE
Q 037299 946 KAEFLLGSVINAVVSQVMM---LLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSP---SAEGWVEIHV 1019 (1111)
Q Consensus 946 ~~~~~L~~vi~~v~~~~~~---~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~---~~~g~I~I~v 1019 (1111)
...+.|.+=++++-.-+.. ++ .....+.+++++++.+..+ |. -+++=|+.||+||.- .+.|.|+|++
T Consensus 414 ~~~v~L~kEl~~v~AYl~IEkARF-~~rL~v~i~id~~l~~~~i---P~---filQPLVENAIKHG~~~~~~~g~V~I~V 486 (557)
T COG3275 414 QEIVTLSKELEHVNAYLSIEKARF-GDRLDVVIDIDEELRQVQI---PS---FILQPLVENAIKHGISQLKDTGRVTISV 486 (557)
T ss_pred ceEeehHHHHHHHHHHHHHHHHhc-CCceEEEEecCHHHhhccC---ch---hhhhHHHHHHHHhcccchhcCCceEEEE
Confidence 3456676666665544433 33 3346777777776543222 33 245568899999943 2468999999
Q ss_pred EEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCCCCCCccchHHHHHHHHHHcCC---EEEEEecCC-ceEEEE
Q 037299 1020 RPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSRWMTQEGLGLSMCRKILKLMNG---EVQYIRESE-RCYFLI 1095 (1111)
Q Consensus 1020 ~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~~G~GLGL~i~r~iVe~~gG---~I~v~s~~g-gstF~~ 1095 (1111)
...+. .+.+.|+|||.|++|+ ...|+|+||+.+++.++.+=| -+.+++.+. |+++.|
T Consensus 487 ~~~d~---------~l~i~VeDng~li~p~----------~~~g~giGL~nv~~RLk~lyG~~~gl~i~~~~q~gTri~f 547 (557)
T COG3275 487 EKEDA---------DLRIEVEDNGGLIQPD----------EEDGTGIGLANVHKRLKLLYGDDEGLHIESLEQAGTRIIF 547 (557)
T ss_pred EEeCC---------eEEEEEecCCCCcCCC----------CCCCCChHHHHHHHHHHHhcCccccceEEeccCCCcEEEE
Confidence 88777 8999999999999986 457999999999999998877 688998888 666555
Q ss_pred EEEeeCCC
Q 037299 1096 IFELPMPR 1103 (1111)
Q Consensus 1096 ~L~LP~~~ 1103 (1111)
.+|..+
T Consensus 548 --~lp~~~ 553 (557)
T COG3275 548 --RLPLQR 553 (557)
T ss_pred --EecCcc
Confidence 556544
No 87
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=98.89 E-value=1e-08 Score=123.36 Aligned_cols=103 Identities=14% Similarity=0.226 Sum_probs=80.3
Q ss_pred HHHHHHHHHHHHHHhhcCCCCC--ceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCC---------
Q 037299 991 ARIQQVLADFLLNMVRYSPSAE--GWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR--------- 1059 (1111)
Q Consensus 991 ~~L~qVl~nLl~NAik~t~~~~--g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~--------- 1059 (1111)
..|.+|+.||+.||++|....+ +.|.|.+...+. .++.|+|.|||+|||++.++++|++|+
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 3455999999999999987522 267777755322 168899999999999999999999963
Q ss_pred -CCCCccchHHHHHHHHHHc-CCEEEEEecCC-ceEEEEEEEeeC
Q 037299 1060 -WMTQEGLGLSMCRKILKLM-NGEVQYIRESE-RCYFLIIFELPM 1101 (1111)
Q Consensus 1060 -~~~G~GLGL~i~r~iVe~~-gG~I~v~s~~g-gstF~~~L~LP~ 1101 (1111)
+.++.|+||+++..+.+.+ ||.+.+.|.++ |.+|++.+++.+
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 2236799999999999875 66689988865 677778777755
No 88
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.87 E-value=2.9e-08 Score=114.61 Aligned_cols=226 Identities=18% Similarity=0.228 Sum_probs=155.4
Q ss_pred HHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEec
Q 037299 606 VRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFG 685 (1111)
Q Consensus 606 ~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~ 685 (1111)
+.+++..+++++++|....+..+|..+..+++-....++|+++. .++++-..+.+. +++.. .....+.
T Consensus 4 ~~~l~~~~~~~~vi~~~~~~~~~~~~a~~~~~~~~~~~i~~~~~-~i~~~~~~~~v~-------~~~~~-~~~~~~~--- 71 (560)
T COG3829 4 EGILKSILDGPVVIDKNTGIDVANALALAKRQKNAEAVIGRPLR-EILETLGMERVE-------QSRDK-ELTERLK--- 71 (560)
T ss_pred hhhhhhcccceEEEEcCCceeeechHHHHhhhcceEEEecccce-eeccccCcceee-------ccCcc-ceeeeee---
Confidence 45899999999999999999999999999999999999999877 565554433222 22211 1111111
Q ss_pred cccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHH-HhHHHHHHHHHhCCCCCCCCccccCCCCccccchh
Q 037299 686 AENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKF-IHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNT 764 (1111)
Q Consensus 686 ~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L-~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~ 764 (1111)
.+ . ....+...++.++.++++|+..++.|+++.....++. .+..+.|+.+++.+.+ +++++|.+|+++++|+
T Consensus 72 --~~-~-~~~~~~~~~~~~~~~~~~g~~~~~~~~~e~~~~~~~~l~~~~~~l~~il~~~~~---~l~vvD~~G~~i~~N~ 144 (560)
T COG3829 72 --LK-V-KRIVVVGKTPVDEQGRVVGVLEVFLDISEALELIEENLRQLRQRLEAILDSIDD---GLLVVDEDGIIIYYNK 144 (560)
T ss_pred --cc-c-eeEEEcCCceeecCCceeeeehhhhhhHHHHHHHHHHHHHHHHHHHHHHhhccC---ceEEEcCCCcEEEEcH
Confidence 11 2 3344455566688999999999999999987776665 7777889999999988 8999999999999999
Q ss_pred hhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCC
Q 037299 765 AMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEG 844 (1111)
Q Consensus 765 a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G 844 (1111)
++.+++|++.++++|+++.+.+ ... .+ .....++..+.+.... .....|... ..+..| ...+|
T Consensus 145 ~~~~~~gl~~e~~~gk~~~~v~-~~~-----~~------s~~l~vl~~~kp~~~~--~~~~~~~~~--i~~~~p-v~~~g 207 (560)
T COG3829 145 AYAKLLGLSPEEVLGKHLLDVV-SAG-----ED------STLLEVLRTGKPIRDV--VQTYNGNKI--IVNVAP-VYADG 207 (560)
T ss_pred HHHHHhCCCHHHHcCCcHHHHH-hcc-----CC------ceehhhhhcCCcceee--eeeecCCce--eEeecc-EecCC
Confidence 9999999999999999763222 000 00 1111222333332221 222222222 333344 44677
Q ss_pred CEEEEEeeeecccHHHHHHHHHH
Q 037299 845 QIVGAFCFLQIASPELQQALTVQ 867 (1111)
Q Consensus 845 ~v~g~v~~~~DITer~~~e~el~ 867 (1111)
.+.|++.+++|+++-.....+..
T Consensus 208 ~l~G~v~~~~~~~~l~~l~~~~~ 230 (560)
T COG3829 208 QLIGVVGISKDVSELERLTRELE 230 (560)
T ss_pred cEEEEEEeecchHHHHHHHHHHH
Confidence 99999999999998555544443
No 89
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=98.83 E-value=1.4e-07 Score=113.00 Aligned_cols=183 Identities=17% Similarity=0.223 Sum_probs=113.6
Q ss_pred HHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHh-hc-cccccccCCcceeeEeecH-HHHHHH
Q 037299 881 LAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIK-DV-DLESIEDGSLEFEKAEFLL-GSVINA 957 (1111)
Q Consensus 881 La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~-dL-dlsri~~g~~~l~~~~~~L-~~vi~~ 957 (1111)
....-|-+.|-|++|...+..-. .. .+.+....+.++++ ++ ...++ .+... ..+++.
T Consensus 263 sqi~pHfL~NtL~~I~~~~~~~~-------~~----~~~~~v~~l~~llR~~l~~~~~~---------~~l~~E~~~~~k 322 (456)
T COG2972 263 SQINPHFLYNTLETIRMLAEEDD-------PE----EAAKVVKALSKLLRYSLSNLDNI---------VTLEIELLLIEK 322 (456)
T ss_pred hhcchHHHHhHHHHHHHHHHhcC-------HH----HHHHHHHHHHHHHHHHhhCCCCe---------eeHHHHHHHHHH
Confidence 34457999999999987666531 11 12222334444444 22 12211 11111 122333
Q ss_pred HHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcC---CCCCceEEEEEEEccccCCCCceeEE
Q 037299 958 VVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYS---PSAEGWVEIHVRPTLKQSSEGQTIVH 1034 (1111)
Q Consensus 958 v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t---~~~~g~I~I~v~~~~~~~~~~~~~~~ 1034 (1111)
.+..-.... +..+++..++++...+ ..| +..+++.|+.||++|+ ..++|+|.|.+..... .
T Consensus 323 yl~iq~~r~-~~~le~~~~i~~~~~~---l~~---p~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~~~~---------~ 386 (456)
T COG2972 323 YLEIQKLRI-GDRLEVPLPIDEELEP---LID---PKLVLQPLVENAIEHGIEPKRPGGSIAISAKKQDD---------V 386 (456)
T ss_pred HHHHHHhcc-CcceEEEeccCccccc---ccC---chHHHhHHHHHHHHHhcccCCCCCEEEEEEEEcCC---------E
Confidence 333322222 2234555555554321 234 4567888999999996 2236788888877644 8
Q ss_pred EEEEEeeCCCCCChhhhhhccCCCCCCCC-ccchHHHHHHHHHHcCCE--EEEEecCCceEEEEEEEeeCCC
Q 037299 1035 NEFRMVCPGEGLPPELVQDMFHSSRWMTQ-EGLGLSMCRKILKLMNGE--VQYIRESERCYFLIIFELPMPR 1103 (1111)
Q Consensus 1035 v~i~V~DnG~GIp~e~~~~iFepf~~~~G-~GLGL~i~r~iVe~~gG~--I~v~s~~ggstF~~~L~LP~~~ 1103 (1111)
+.++|+|||+||+++....+.+. .++ .|+||.-++++++.+-|. +.++|.++++| .+.+.+|...
T Consensus 387 i~i~i~Dng~g~~~~~~~~~~~~---~~~r~giGL~Nv~~rl~~~~g~~~~~i~s~~~~gt-~v~~~~~~~~ 454 (456)
T COG2972 387 IQISISDNGPGIDEEKLEGLSTK---GENRSGIGLSNVKERLKLYFGEPGLSIDSQPGKGT-FVQIIIPKRE 454 (456)
T ss_pred EEEEEeeCCCCCChhHHHHHHhh---ccCcccccHHHHHHHHHHeeCCcceeEeecCCCcE-EEEEEeehhh
Confidence 99999999999999877776643 233 499999999999999887 68899998776 5667777643
No 90
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=98.80 E-value=4.1e-08 Score=92.94 Aligned_cols=106 Identities=20% Similarity=0.285 Sum_probs=81.5
Q ss_pred HHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEe
Q 037299 605 MVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTF 684 (1111)
Q Consensus 605 l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~ 684 (1111)
+..++++++.++.++|.+++|.++|+++.++|++.+.+ +|+++. ++.++...+.+...+..+..++.. ..+....
T Consensus 1 L~~il~s~~~~i~~vD~~~~I~~~n~~a~~~f~~~~~~-iGr~l~-~~~~~~~~~~l~~~i~~~~~~~~~-~~~~~~~-- 75 (106)
T PF13596_consen 1 LNNILDSMPIGIIFVDRNLRIRYFNPAAARLFNLSPSD-IGRPLF-DIHPPLSYPNLKKIIEQVRSGKEE-EFEIVIP-- 75 (106)
T ss_dssp HHHHHHHSSSEEEEEETTSBEEEE-SCGC-SS---GGG-TTSBCC-CSS-HHHHHHHHHHHHHHHTTSBS-EEEEEEE--
T ss_pred ChHHHhcCCCCEEEEcCCCeEEEeChhHhhhcCCChHH-CCCCHH-HcCCccchHHHHHHHHHHHcCCCc-eEEEEec--
Confidence 46799999999999999999999999999999987655 699999 888888888889999888887763 1222222
Q ss_pred ccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEech
Q 037299 685 GAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVT 720 (1111)
Q Consensus 685 ~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DIT 720 (1111)
.+.+|+.++..|++|.+|+..|++.++.|||
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 3357888899999999999999999999998
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=98.77 E-value=2.2e-08 Score=86.47 Aligned_cols=65 Identities=31% Similarity=0.517 Sum_probs=59.3
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHhc-CCCCHHH-HHHHHHHHHHHHHHHHHHhhc-cccccccC
Q 037299 876 ARLKELAYICQEIKNPLSGVSFTNSLLEA-TDLTEDQ-KQLLETSAACEKQMLKIIKDV-DLESIEDG 940 (1111)
Q Consensus 876 ~r~~~La~isHEIrnPLt~I~~~~~LL~~-~~l~e~~-~~~l~~i~~~~~~l~~lI~dL-dlsri~~g 940 (1111)
.|.+|++.++|||||||++|.++++++.. ...+++. +++++.+..+++++..+++++ +++++++|
T Consensus 1 s~~~~~~~isHelr~PL~~i~~~~~~l~~~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~sr~~~G 68 (68)
T PF00512_consen 1 SKGEFLASISHELRNPLTAIRGYLELLERDSDLDPEQLREYLDRIRSAADRLNELINDLLDFSRIESG 68 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSCC-HHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred CHHHHHHHHhHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 36789999999999999999999999998 7888887 999999999999999999997 99998776
No 92
>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=1.1e-07 Score=96.94 Aligned_cols=101 Identities=14% Similarity=0.152 Sum_probs=78.4
Q ss_pred HHHHHHHHHHHHHHHhhcCCC--CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCC------CC
Q 037299 990 QARIQQVLADFLLNMVRYSPS--AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR------WM 1061 (1111)
Q Consensus 990 ~~~L~qVl~nLl~NAik~t~~--~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~------~~ 1061 (1111)
...+..++.+++.||++|+.. +++.|.|++....+ .+.+.|+|+|.||+++.+...|.|+. ..
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 346888999999999999753 24688888876555 78999999999999998888776642 23
Q ss_pred CCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEEEeeCCCC
Q 037299 1062 TQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIFELPMPRR 1104 (1111)
Q Consensus 1062 ~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP~~~~ 1104 (1111)
.+.|+||+|++++++ ++.|.+.. |++++++..++..+-
T Consensus 111 ~~~G~GL~Li~~L~D----~v~~~~~~-G~~l~l~k~~~~~~~ 148 (159)
T TIGR01924 111 REGGLGLFLIETLMD----EVEVYEDS-GVTVAMTKYLNREQV 148 (159)
T ss_pred CCCccCHHHHHHhcc----EEEEEeCC-CEEEEEEEEEccccc
Confidence 467999999999988 68888744 466777776665443
No 93
>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=98.71 E-value=8e-08 Score=87.81 Aligned_cols=86 Identities=21% Similarity=0.276 Sum_probs=71.7
Q ss_pred EEeecHHHHHHcCCChhhhcCCc----ccccccchhhHHHHHHHHHH-HHcCCCccceEEEEEEeccccCCcEEEEEEEe
Q 037299 625 VNGWNAKVAELTGLSVEEAMGKS----LVHDLVYKEYEEIVDNLLHH-ALKGEEDKNVEIKLRTFGAENRKKAVFVVVNA 699 (1111)
Q Consensus 625 I~~~N~a~~~l~G~~~eeliG~~----~~~~l~~~~~~~~~~~~l~~-~l~~~~~~~~e~~l~~~~~~~dG~~~~v~v~~ 699 (1111)
|++||+.+++++||+++++ +.. +. .++||++++.+...+.. +...+.....++++. +++|+.+|+.+++
T Consensus 1 ~i~~s~~~~~i~G~~~~~~-~~~~~~~~~-~~ihpdD~~~~~~~~~~~~~~~~~~~~~e~R~~----~~~G~~~wi~~~~ 74 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEI-GKPDFEEWL-ERIHPDDRERVRQAIQQAALQNGEPFEIEYRIR----RKDGEYRWIEVRG 74 (91)
T ss_dssp -EEE-THHHHHHTS-HHHH-TCBEHHHHH-HHB-TTTHHHHHHHHHHHHHHTT-EEEEEEEEE----GTTSTEEEEEEEE
T ss_pred CEEEeHHHHHHhCCCHHHh-ccCCHHHHH-hhcCHHHHHHHHHHHHHHhhccCcceEEEEEEE----CCCCCEEEEEEEE
Confidence 6899999999999999999 665 55 89999999999999999 777777777777776 7899999999999
Q ss_pred EeeccCCCCEEEEEEEE
Q 037299 700 CSSKDYTNNIVGVCFVG 716 (1111)
Q Consensus 700 ~pi~d~~G~v~gvv~v~ 716 (1111)
.+++|.+|++.+++|++
T Consensus 75 ~~~~d~~g~~~~~~Gv~ 91 (91)
T PF08447_consen 75 RPIFDENGKPIRIIGVI 91 (91)
T ss_dssp EEEETTTS-EEEEEEEE
T ss_pred EEEECCCCCEEEEEEEC
Confidence 99999999999999874
No 94
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.68 E-value=4.4e-07 Score=112.89 Aligned_cols=133 Identities=18% Similarity=0.266 Sum_probs=104.2
Q ss_pred HHHHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHc-CC
Q 037299 594 GVDELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALK-GE 672 (1111)
Q Consensus 594 ~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~-~~ 672 (1111)
....++..+..++.++++++++++++|.+|+++++|+++++++|+++++++|+++. +++++... ....+...+. +.
T Consensus 253 ~~~~l~~~~~~~~~i~~~~~~~i~~~d~~g~i~~~N~~~~~l~g~~~~~~~g~~~~-~~~~~~~~--~~~~~~~~~~~~~ 329 (607)
T PRK11360 253 LAQALRETRSLNELILESIADGVIAIDRQGKITTMNPAAEVITGLQRHELVGKPYS-ELFPPNTP--FASPLLDTLEHGT 329 (607)
T ss_pred HHHHHHHHHHHHHHHHHhccCeEEEEcCCCCEEEECHHHHHHhCCChHHhcCCcHH-HHcCCchh--HHHHHHHHHhcCC
Confidence 34567777788899999999999999999999999999999999999999999987 66664322 2223333333 33
Q ss_pred CccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHH
Q 037299 673 EDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQG 734 (1111)
Q Consensus 673 ~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~ 734 (1111)
.....++.+. .++|... +.++..|++|.+|++.|++++++|||++|++++++++.++
T Consensus 330 ~~~~~~~~~~----~~~~~~~-~~~~~~~i~~~~g~~~~~i~~~~Dite~~~~e~~l~~~~~ 386 (607)
T PRK11360 330 EHVDLEISFP----GRDRTIE-LSVSTSLLHNTHGEMIGALVIFSDLTERKRLQRRVARQER 386 (607)
T ss_pred CccceEEEEE----cCCCcEE-EEEEEeeEEcCCCCEEEEEEEEeechHHHHHHHHHHHHHH
Confidence 3333344443 4566665 8999999999999999999999999999999999887653
No 95
>PF14501 HATPase_c_5: GHKL domain
Probab=98.65 E-value=3.3e-07 Score=85.77 Aligned_cols=97 Identities=22% Similarity=0.313 Sum_probs=75.1
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC--CceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCCCCCCccc
Q 037299 989 DQARIQQVLADFLLNMVRYSPSA--EGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSRWMTQEGL 1066 (1111)
Q Consensus 989 D~~~L~qVl~nLl~NAik~t~~~--~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~~G~GL 1066 (1111)
|...|-.+|.||+.||+++.... ...|.|.+....+ .+.|.|...-.. + .+.++....+..+.|+
T Consensus 2 ~~~dl~~il~nlldNAiea~~~~~~~~~I~i~~~~~~~---------~~~i~i~N~~~~---~-~~~~~~~~~~~~~~G~ 68 (100)
T PF14501_consen 2 DDLDLCRILGNLLDNAIEACKKYEDKRFISISIREENG---------FLVIIIENSCEK---E-IEKLESSSSKKKGHGI 68 (100)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhcCCCcEEEEEEEecCC---------EEEEEEEECCCC---c-cccccccccCCCCCCc
Confidence 45678899999999999985431 4678888877766 889999987544 2 2445533345678999
Q ss_pred hHHHHHHHHHHcCCEEEEEecCCceEEEEEEEee
Q 037299 1067 GLSMCRKILKLMNGEVQYIRESERCYFLIIFELP 1100 (1111)
Q Consensus 1067 GL~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP 1100 (1111)
||..++++++.++|++.++.+. ..|++++.||
T Consensus 69 GL~~v~~i~~~y~g~~~~~~~~--~~f~~~i~ip 100 (100)
T PF14501_consen 69 GLKNVKKILEKYNGSLSIESED--GIFTVKIVIP 100 (100)
T ss_pred CHHHHHHHHHHCCCEEEEEEEC--CEEEEEEEEC
Confidence 9999999999999999998764 4678888887
No 96
>PRK13558 bacterio-opsin activator; Provisional
Probab=98.65 E-value=3.1e-07 Score=116.16 Aligned_cols=122 Identities=16% Similarity=0.224 Sum_probs=99.6
Q ss_pred HHHHHhCCCCCCCCccccC---CCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCC
Q 037299 736 YKAIVHSPNPLIPPIFASD---ENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGG 812 (1111)
Q Consensus 736 l~~i~~~~~~l~~~I~v~D---~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~ 812 (1111)
++.+++..+. ++++.| .+|++++||+++++++||++++++|+.... +.+++........+...+..
T Consensus 150 ~~~~~~~~~~---gi~~~d~~~~dg~i~~~N~~~~~l~G~~~eel~g~~~~~--------l~~~~~~~~~~~~~~~~~~~ 218 (665)
T PRK13558 150 KERALDEAPV---GITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCRF--------LQGEDTNEERVAELREAIDE 218 (665)
T ss_pred HHHHHhcCCc---cEEEEcCCCCCCcEEEEcHHHHHHhCcCHHHHcCCCHHH--------hcCCCccHHHHHHHHHHHhc
Confidence 4567777766 789887 478999999999999999999999987522 22233333444555566667
Q ss_pred CCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHH
Q 037299 813 QDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQR 868 (1111)
Q Consensus 813 ~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~ 868 (1111)
+.....++++.+++|..+|+.++..|+.+.+|.+.+++++++|||++|+.+.++++
T Consensus 219 ~~~~~~e~~~~~~dG~~~~~~~~~~pi~d~~G~~~~~vgi~~DITerk~~E~~L~~ 274 (665)
T PRK13558 219 ERPTSVELRNYRKDGSTFWNQVDIAPIRDEDGTVTHYVGFQTDVTERKEAELALQR 274 (665)
T ss_pred CCCeEEEEEEECCCCCEEEEEEEEEEEECCCCCEEEEEEEEEeCcHHHHHHHHHHH
Confidence 77788999999999999999999999999999999999999999999998877664
No 97
>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=98.62 E-value=8e-08 Score=87.82 Aligned_cols=90 Identities=14% Similarity=0.251 Sum_probs=74.6
Q ss_pred cccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHh-hhCCCCcceeeeeeecCCCCEEEEEEEEe
Q 037299 759 CSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHN-AFGGQDTEKFPFPLFDRNGKYVQALLTAN 837 (1111)
Q Consensus 759 ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~-~~~~~~~~~~e~~~~~~dG~~~~v~~~~~ 837 (1111)
+++||+.+.+++||+++++ +.... ..+....||++...+...+.. ....+.....++++++++|+++|+..++.
T Consensus 1 ~i~~s~~~~~i~G~~~~~~-~~~~~----~~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~~e~R~~~~~G~~~wi~~~~~ 75 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEI-GKPDF----EEWLERIHPDDRERVRQAIQQAALQNGEPFEIEYRIRRKDGEYRWIEVRGR 75 (91)
T ss_dssp -EEE-THHHHHHTS-HHHH-TCBEH----HHHHHHB-TTTHHHHHHHHHHHHHHTT-EEEEEEEEEGTTSTEEEEEEEEE
T ss_pred CEEEeHHHHHHhCCCHHHh-ccCCH----HHHHhhcCHHHHHHHHHHHHHHhhccCcceEEEEEEECCCCCEEEEEEEEE
Confidence 5789999999999999998 54421 235678899999999999999 78888899999999999999999999999
Q ss_pred eeecCCCCEEEEEeee
Q 037299 838 KRVNMEGQIVGAFCFL 853 (1111)
Q Consensus 838 pi~d~~G~v~g~v~~~ 853 (1111)
+++|.+|++..++|+.
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 9999999999998864
No 98
>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=98.60 E-value=2.7e-07 Score=84.82 Aligned_cols=118 Identities=16% Similarity=0.207 Sum_probs=92.4
Q ss_pred HHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCC
Q 037299 734 GDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQ 813 (1111)
Q Consensus 734 ~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~ 813 (1111)
+.++.+++.++. +++++|.+|+++++|+++.+++|++..+++|+.... +.++.....+...+.....+.
T Consensus 3 ~~~~~~~~~~~~---~~~~~d~~~~i~~~n~~~~~~~g~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~ 71 (124)
T TIGR00229 3 ERYRAIFESSPD---AIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLE--------LIPEEDREEVRERIERLLEGE 71 (124)
T ss_pred hHHHHHHhhCCc---eEEEEcCCCcEEEEchHHHHHhCCChHHhcCcchhh--------hcChhhhHHHHHHHHHHHcCC
Confidence 456778888876 799999999999999999999999999999887533 223444445555555555533
Q ss_pred -CcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHH
Q 037299 814 -DTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQA 863 (1111)
Q Consensus 814 -~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e 863 (1111)
.....++.+...+|..+|+.....++. .+|...++++++.|+|++++.+
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~dit~~~~~~ 121 (124)
T TIGR00229 72 REPVSEERRVRRKDGSEIWVEVSVSPIR-TNGGELGVVGIVRDITERKQAE 121 (124)
T ss_pred CCCcceEeeeEcCCCCEEEEEEEEeehh-hCCCeeEEEEEeeehhHHHHHH
Confidence 334556666789999999999999998 8899999999999999877665
No 99
>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=98.59 E-value=9.2e-08 Score=115.84 Aligned_cols=126 Identities=18% Similarity=0.137 Sum_probs=99.7
Q ss_pred HHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCC
Q 037299 733 QGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGG 812 (1111)
Q Consensus 733 e~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~ 812 (1111)
.+.|+.++++++. +++++|.+|+++++|+++++++||++++++|+...... ++.........+.+.+..
T Consensus 3 ~~~~~~i~~~~~~---~i~~~d~~g~~~~~N~~~~~~~G~~~~~~~g~~~~~~~--------~~~~~~~~~~~~~~~~~~ 71 (494)
T TIGR02938 3 PEAYRQTVDQAPL---AISITDLKANILYANDAFTRITGYTKEEIIGKNESVLS--------NHTTPPEVYQALWGSLAE 71 (494)
T ss_pred hHHHHHHHHhCCc---eEEEECCCCcEEEEchhheeecCCCHHHHhCCCchhhc--------CCCCCHHHHHHHHHHHHh
Confidence 3568899999876 89999999999999999999999999999998642111 111122233334444455
Q ss_pred CCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHH
Q 037299 813 QDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQ 869 (1111)
Q Consensus 813 ~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~ 869 (1111)
+..+..++...+++|+.+|+.....|+.+.+|.+.+++++++|||++++.+.++++.
T Consensus 72 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~g~~~~~~~~~~DIt~~k~~e~~l~~~ 128 (494)
T TIGR02938 72 QKPWAGKLLNRRKDGELYLAELTVAPVLNEAGETTHFLGMHRDITELHRLEQVVANQ 128 (494)
T ss_pred CCcccceeeccCCCccchhhheeeEEEECCCCCEEEEEEehhhhhHHHHHHHHHHHH
Confidence 566677777888999999999999999999999999999999999999888766543
No 100
>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=98.55 E-value=1.1e-06 Score=76.80 Aligned_cols=103 Identities=28% Similarity=0.424 Sum_probs=85.0
Q ss_pred cCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEeccccCCc
Q 037299 612 ATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAENRKK 691 (1111)
Q Consensus 612 ~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~ 691 (1111)
++++++++|.+|.++++|+++++++|++..+++|+.+. .++++.+...+...+.....++.....++.+. ..+|.
T Consensus 1 ~~~~i~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~ 75 (103)
T cd00130 1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLL-DLIHPEDREELRERLENLLSGGEPVTLEVRLR----RKDGS 75 (103)
T ss_pred CCceEEEECCCCcEEEECHHHHHHhCCCHHHHcCccHH-HhcCCccchHHHHHHHHHHhcCcCeEEEEEEE----ccCCC
Confidence 46789999999999999999999999999999999988 77887777667777777666544433344443 45789
Q ss_pred EEEEEEEeEeeccCCCCEEEEEEEEEec
Q 037299 692 AVFVVVNACSSKDYTNNIVGVCFVGQDV 719 (1111)
Q Consensus 692 ~~~v~v~~~pi~d~~G~v~gvv~v~~DI 719 (1111)
.+|+.+...++.+.+|...+++++.+||
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~~~di 103 (103)
T cd00130 76 VIWVLVSLTPIRDEGGEVIGLLGVVRDI 103 (103)
T ss_pred EEEEEEEEEEEecCCCCEEEEEEEEecC
Confidence 9999999999999999999999999886
No 101
>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=8.3e-07 Score=101.49 Aligned_cols=114 Identities=13% Similarity=0.158 Sum_probs=86.4
Q ss_pred HHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceE
Q 037299 599 SSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVE 678 (1111)
Q Consensus 599 ~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e 678 (1111)
+...++|+.+++++++||+++|.+|++++||+++++++|+++++.+|+++. ++.++++ + ...+.++.. ...
T Consensus 2 ~~~~~~l~~~~~~~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~-~~~~~~~---~----~~~l~~~~~-~~~ 72 (333)
T TIGR02966 2 SALLSRFRAAAQALPDAVVVLDEEGQIEWCNPAAERLLGLRWPDDLGQRIT-NLIRHPE---F----VEYLAAGRF-SEP 72 (333)
T ss_pred hhHHHHHHHHHHhCcCcEEEECCCCcEEEEcHHHHHHhCCChHHHcCCcHH-HHccCHH---H----HHHHHhccc-CCC
Confidence 455678999999999999999999999999999999999999999999988 5554432 1 222222211 112
Q ss_pred EEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHH
Q 037299 679 IKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFI 730 (1111)
Q Consensus 679 ~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~ 730 (1111)
+.+. .+.|..+|+.+...|+.+.+ ++++++|||++++.++...
T Consensus 73 ~~~~----~~~~~~~~~~~~~~p~~~~~-----~~~~~~dit~~~~~~~~~~ 115 (333)
T TIGR02966 73 LELP----SPINSERVLEIRIAPYGEEQ-----KLLVARDVTRLRRLEQMRR 115 (333)
T ss_pred eEee----cCCCCceEEEEEEEEcCCCc-----eEEEEeCchHHHHHHHHHH
Confidence 2322 35788899999999987653 7788999999998876543
No 102
>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=98.47 E-value=3.6e-07 Score=92.05 Aligned_cols=133 Identities=18% Similarity=0.216 Sum_probs=93.6
Q ss_pred CHHHHHHHHHHHHHHhhCCCeEEEEeecCCCCcEEEEEecCCCCCCccCCCCCCCCchHHHHHHHHhCCeeEeeccCCCc
Q 037299 234 DIKLLCDTVVESVRQLTGYDRVMVYRFHEDEHGEVVAESKRPDLEPYFGLHYPATDIPQASRFLFKQNRVRMIVDCHATP 313 (1111)
Q Consensus 234 ~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~G~VvaE~~~~~~~~~lg~~~pa~dip~~ar~ly~~n~~r~i~d~~~~~ 313 (1111)
|++++++.+++++++++|+||+++|.+++++..-...-.....-.+..+..++.. -+ ...+....+..-.|+|+...|
T Consensus 1 Dl~~~l~~~~~~l~~~l~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~i~d~~~~~ 78 (154)
T PF01590_consen 1 DLDELLQRILRELAELLGADRASIFLLDPDGNRLYSVAGVGLPDPPPGGRRLSMD-ES-ICGQVLQSREPIVISDVAADP 78 (154)
T ss_dssp SHHHHHHHHHHHHHHHHTESEEEEEEEETTTTEEEEEEEEEGGGSEHHHEEEETT-SS-HHHHHHHHTSCEEESSSGGST
T ss_pred CHHHHHHHHHHHHHHHHCCCEEEEEEEecCCCeEEEEEeeccccccccccccccc-cc-HHHHHHhCCCeEeeccccccc
Confidence 6899999999999999999999999999998776444333222222223222221 11 255566667777788876555
Q ss_pred ceeecCCCCCCcccccCccccCCChhHHHHHHhcCcceEEEEEEEEcCCCcccc--CCCCCccch
Q 037299 314 LCVIQDEGLMQPLCLVGSTLRAPHGCHAQYMANMGSIASLALAVIINGNDEEAV--GGRSTTRLW 376 (1111)
Q Consensus 314 ~~~~~~~~~~~~ldls~~~lRsvsp~h~~yl~nmgv~asl~~~i~~~~~~~~~~--~~~~~~~LW 376 (1111)
-. .+.......+|..++++.+|+..+|+++.|++||..+|+.||.. .....++-|
T Consensus 79 ~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~vPi~~~g~~~G~l~l~~~~~~~~~ 135 (154)
T PF01590_consen 79 RF--------APQIAAQSALRALSSAERPFLAEYGVRSYLCVPIISGGRLIGVLSLYRTRPGRPF 135 (154)
T ss_dssp TS--------SCHHHHHHTTBTTTHHHHHHHHTTTESEEEEEEEEETTEEEEEEEEEEESSSSS-
T ss_pred cc--------cccccccccccccccccccccccccCceeeEeeeecccCcEEEEEEEECCCCCCc
Confidence 32 23334455678999999999999999999999999998888865 233445777
No 103
>PF12860 PAS_7: PAS fold
Probab=98.44 E-value=7.9e-07 Score=85.43 Aligned_cols=104 Identities=24% Similarity=0.310 Sum_probs=72.0
Q ss_pred HHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhh-cCCccccccc---------chhh-HHHHHHHHHHHHcCCCccce
Q 037299 609 IETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEA-MGKSLVHDLV---------YKEY-EEIVDNLLHHALKGEEDKNV 677 (1111)
Q Consensus 609 ie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eel-iG~~~~~~l~---------~~~~-~~~~~~~l~~~l~~~~~~~~ 677 (1111)
+|+++.||+++|.+|++++||+++.+++|++.+.+ .|.++. +++ .+.+ ...+...+..... ....
T Consensus 1 Ld~l~~Gv~v~D~~~rl~~~N~~~~~l~~~~~~~~~~G~~~~-~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~-~~~~-- 76 (115)
T PF12860_consen 1 LDSLPQGVAVFDSDGRLVFWNQRFRELFGLPPEMLRPGASFR-DLLRRLAERGEFPPGDPEAWVRQRLARLRR-RQPR-- 76 (115)
T ss_pred CCCcCceEEEEcCCCeEEeEcHHHHHHhCCCHHHhcCCCCHH-HHHHHHHHcCCCCCCCHHHHHHHHHHHHhc-CCCc--
Confidence 47899999999999999999999999999999988 688865 333 2222 2333333333332 2222
Q ss_pred EEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHH
Q 037299 678 EIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMD 727 (1111)
Q Consensus 678 e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~ 727 (1111)
.+++. ..+| +|+.+...|..+ | |++.++.|||++|++|+
T Consensus 77 ~~~~~----~~dg--r~l~~~~~~~~~--G---g~v~~~~DVT~~~~~E~ 115 (115)
T PF12860_consen 77 SFELR----LPDG--RWLEVRAQPLPD--G---GFVLTFTDVTERRRAEE 115 (115)
T ss_pred eeEEE----CCCC--EEEEEEeEECCC--C---CEEEEEEeCCHHHHhcC
Confidence 22222 2344 667777777754 3 78999999999999874
No 104
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=98.41 E-value=2.1e-06 Score=99.35 Aligned_cols=118 Identities=12% Similarity=0.132 Sum_probs=88.1
Q ss_pred HHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCc-cceEEEE
Q 037299 603 REMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEED-KNVEIKL 681 (1111)
Q Consensus 603 ~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~-~~~e~~l 681 (1111)
..+..+++++++|++++|.+|+|+++|+++++++||+.++++|+++. ++++..... ...+...+..+.. ...++.+
T Consensus 7 ~~~~~il~~~~~gi~~~d~~~~i~~~N~a~~~~~g~~~~~~~g~~~~-~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 83 (348)
T PRK11073 7 PDAGQILNSLINSILLLDDDLAIHYANPAAQQLLAQSSRKLFGTPLP-ELLSYFSLN--IELMRESLQAGQGFTDNEVTL 83 (348)
T ss_pred chHHHHHhcCcCeEEEECCCCeEeeEcHHHHHHhCCCHHHHcCCCHH-HHcCcchhh--HHHHHHHHHcCCcccccceEE
Confidence 35688999999999999999999999999999999999999999988 666543221 1223333433322 2222333
Q ss_pred EEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHH
Q 037299 682 RTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQ 733 (1111)
Q Consensus 682 ~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se 733 (1111)
..+|+.+|+.++..|+.+ .+++..++|||++++.++++.+..
T Consensus 84 -----~~~g~~~~~~~~~~~~~~-----~~~~~~~~dit~~~~~~~~~~~~~ 125 (348)
T PRK11073 84 -----VIDGRSHILSLTAQRLPE-----GMILLEMAPMDNQRRLSQEQLQHA 125 (348)
T ss_pred -----EECCceEEEEEEEEEccC-----ceeEEEEechhHHHHHHHHHHHHH
Confidence 358999999999999972 356778999999999888775543
No 105
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=98.40 E-value=9.8e-06 Score=101.62 Aligned_cols=220 Identities=14% Similarity=0.163 Sum_probs=126.9
Q ss_pred HHHHHHhcCCcEEEEcCCccEEeecHHHHHH-----cCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEE
Q 037299 605 MVRLIETATAPIFAVDVHGCVNGWNAKVAEL-----TGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEI 679 (1111)
Q Consensus 605 l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l-----~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~ 679 (1111)
+..++...+..+++.|.+|.|+.++....-+ .|.. .|..|.+..+... .+..++..+.+.. +
T Consensus 64 l~~~l~~~~~~~~l~D~~G~vL~~~g~~~~~~~~~~~~~~----~G~~w~E~~~GTn-------aig~al~~~~pv~--v 130 (638)
T PRK11388 64 AWEYMADRECALLILDETGCILSRNGDPQTLQQLSALGFN----DGTYCAEGIIGTN-------ALSLAAISGQPVK--T 130 (638)
T ss_pred HHHHhcCCCcEEEEEcCCceEEEEeCCHHHHHHHHHcCCc----cCCccchhccCcC-------HHHHHHhcCCceE--E
Confidence 4556677788999999999999876433211 2221 1333221111111 2333443333211 0
Q ss_pred EEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEech------------------hHHHHHHHHH---hHHHHHHH
Q 037299 680 KLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVT------------------DQKLVMDKFI---HIQGDYKA 738 (1111)
Q Consensus 680 ~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DIT------------------erK~ae~~L~---~se~~l~~ 738 (1111)
.-. .+-.-....+...+.|++|.+|+++|++.+..+.. .+........ .....+..
T Consensus 131 ~g~---EH~~~~~~~~~c~aaPI~d~~G~liGvl~l~~~~~~~~~~~l~lv~~~a~~Ie~~l~~~~~~~~~~~~~~~~~~ 207 (638)
T PRK11388 131 MGD---QHFKQALHNWAFCATPVFDSKGRLTGTIALACPVEQTSAADLPLTLSIAREVGNLLLTDSLLAESNRHLNQLNA 207 (638)
T ss_pred ecH---HHHHHhccCceEEeeEEEcCCCCEEEEEEEEecccccChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 000 01112233457789999999999999998776433 2222222222 22233345
Q ss_pred HHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCc-ce
Q 037299 739 IVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDT-EK 817 (1111)
Q Consensus 739 i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~-~~ 817 (1111)
+++..++ ||+++|.+|+|+++|+++++++|++.++++|+.+.+. ++. +. .+..++..+.. ..
T Consensus 208 il~~~~~---gVl~vD~~G~I~~~N~aa~~llg~s~~~l~G~~i~~l-~~~------~~-------~l~~vl~~~~~~~~ 270 (638)
T PRK11388 208 LLESMDD---GVIAWDEQGNLQFLNAQAARLLRLDATASQGRAITEL-LTL------PA-------VLQQAIKQAHPLKH 270 (638)
T ss_pred HHhccCC---cEEEECCCCeEehhhHHHHHHhCcCHHHHCCCcHHHH-hcc------ch-------HHHHHHhcCCceee
Confidence 7777655 9999999999999999999999999999999976322 210 11 11222223322 22
Q ss_pred eeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHH
Q 037299 818 FPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPEL 860 (1111)
Q Consensus 818 ~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~ 860 (1111)
.+..+ ..+|..+++.++..|+.+..|. +++.++++++..+
T Consensus 271 ~~~~l-~~~g~~~~~~v~~~Pi~~~~g~--~~v~~l~~~~~~~ 310 (638)
T PRK11388 271 VEVTF-ESQGQFIDAVITLKPIIEGQGT--SFILLLHPVEQMR 310 (638)
T ss_pred EEEEE-ecCCceEEEEEEEEeecccCce--EEEEEehhhHHHH
Confidence 33333 3457777889999998755453 3555667777643
No 106
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=98.37 E-value=1.5e-06 Score=101.53 Aligned_cols=230 Identities=14% Similarity=0.191 Sum_probs=154.7
Q ss_pred HHHHH-HHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCC-------
Q 037299 602 AREMV-RLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEE------- 673 (1111)
Q Consensus 602 ~~~l~-~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~------- 673 (1111)
++.+. .++++..-.|++++.||.++|+.......+|++.-|+.|.++. ||+||.|.+.+.+.+........
T Consensus 117 e~~l~~~iLqsLDGFVm~l~~dG~~lYiSEtVS~yLGLSQvELTG~SvF-DfiHP~DheE~~eqL~l~~~~p~~~es~~~ 195 (768)
T KOG3558|consen 117 EQHLGDHILQSLDGFVMALTQDGDFLYISETVSIYLGLSQVELTGSSVF-DFIHPCDHEEIAEQLGLRLTTPEVKESTDT 195 (768)
T ss_pred hhhhhhhHHhhccceEEEEccCCCEEEEechhHhhhCccceeeecchhh-hccCccCHHHHHHHhccccCCCcccccccC
Confidence 33444 4566666678899999999999999999999999999999999 99999999988887654443111
Q ss_pred --ccceEEEEEEeccccCCcEEEEEEEeEe---------eccCCCC----------EEEEEEEEEechhHHHHHHHHHhH
Q 037299 674 --DKNVEIKLRTFGAENRKKAVFVVVNACS---------SKDYTNN----------IVGVCFVGQDVTDQKLVMDKFIHI 732 (1111)
Q Consensus 674 --~~~~e~~l~~~~~~~dG~~~~v~v~~~p---------i~d~~G~----------v~gvv~v~~DITerK~ae~~L~~s 732 (1111)
.+.+-++++.. .++.|....+.....- +++..+. ..|.+.++.=|---+-.|--
T Consensus 196 ~teRsFflRMKsT-LT~RGRtlnlKSa~yKvlh~tgh~rv~~~~sh~s~~~g~~~Pl~~lV~~a~alp~ps~~Eip---- 270 (768)
T KOG3558|consen 196 STERSFFLRMKST-LTKRGRTLNLKSAGYKVLHCTGHLRVYNNPSHNSPLCGYKEPLLGLVALAEALPPPSYTEIP---- 270 (768)
T ss_pred ccceeEEEEeeee-eccCCceeeeeccceeEEEEeeeeeeccCCCCCCcccCccccchheeeeeccCCCCcccccc----
Confidence 12333444433 2344533332211111 1111111 11222221111000000000
Q ss_pred HHHHHHHHhCCCCCCCCccc--cCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhh
Q 037299 733 QGDYKAIVHSPNPLIPPIFA--SDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAF 810 (1111)
Q Consensus 733 e~~l~~i~~~~~~l~~~I~v--~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~ 810 (1111)
+-...|+ ...|-+|+||.+.+.+++||.+++++|+. ++.+.|..|...+.+.....+
T Consensus 271 -------------L~~~~FvtRhs~DmkityCedRisdlm~y~PeeLvGrS--------~Ye~~Ha~Ds~~v~KSh~dL~ 329 (768)
T KOG3558|consen 271 -------------LDCHMFVTRHSLDMKITYCEDRISDLMDYEPEELVGRS--------CYEFVHALDSDRVRKSHHDLL 329 (768)
T ss_pred -------------cCCceeEEeeecceeEEEEchhHHHHhcCCHHHhhchh--------HHHhhhHhhhhHHHHHHHHHH
Confidence 0001333 34678999999999999999999999996 467888999999999999999
Q ss_pred CCCCcceeeeeeecCCCCEEEEEEEEeeeecCCC-CEEEEEeeeecccH
Q 037299 811 GGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEG-QIVGAFCFLQIASP 858 (1111)
Q Consensus 811 ~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G-~v~g~v~~~~DITe 858 (1111)
..+.....-+++..++|.|+|+...++.+.+..+ .-..++|+-.-++.
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 9999999999999999999999999999987754 33445565555543
No 107
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=98.36 E-value=3.4e-06 Score=82.34 Aligned_cols=91 Identities=18% Similarity=0.255 Sum_probs=68.7
Q ss_pred HHHHHHHHHHHHHHHhhcCCCC--CceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCC-CCCCCCccc
Q 037299 990 QARIQQVLADFLLNMVRYSPSA--EGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHS-SRWMTQEGL 1066 (1111)
Q Consensus 990 ~~~L~qVl~nLl~NAik~t~~~--~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFep-f~~~~G~GL 1066 (1111)
...+..++.++++||++|+... ++.|.|.+....+ .+.|.|+|+|.|+++.....-... .......|+
T Consensus 29 ~~~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~~~---------~l~i~v~D~G~~~d~~~~~~~~~~~~~~~~~~G~ 99 (125)
T PF13581_consen 29 RDDLELAVSEALTNAVEHGYPGDPDGPVDVRLEVDPD---------RLRISVRDNGPGFDPEQLPQPDPWEPDSLREGGR 99 (125)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEcCC---------EEEEEEEECCCCCChhhccCcccccCCCCCCCCc
Confidence 4578999999999999997752 2578888777666 899999999999999865544321 134567799
Q ss_pred hHHHHHHHHHHcCCEEEEEecCCceEEE
Q 037299 1067 GLSMCRKILKLMNGEVQYIRESERCYFL 1094 (1111)
Q Consensus 1067 GL~i~r~iVe~~gG~I~v~s~~ggstF~ 1094 (1111)
||+|++++++.. .| +..+|.+.+
T Consensus 100 Gl~li~~l~D~~----~~-~~~~gn~v~ 122 (125)
T PF13581_consen 100 GLFLIRSLMDEV----DY-REDGGNTVT 122 (125)
T ss_pred CHHHHHHHHcEE----EE-ECCCeEEEE
Confidence 999999999875 56 555555433
No 108
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=98.27 E-value=8.7e-06 Score=97.35 Aligned_cols=120 Identities=14% Similarity=0.166 Sum_probs=84.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHc
Q 037299 591 ELQGVDELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALK 670 (1111)
Q Consensus 591 l~~~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~ 670 (1111)
.++.+++|++.+++|+.++++++++|+++|.+|+|+++|+++++++||+.++.+|+++. +++.+.+.. ..+..
T Consensus 86 ~~~~~~~l~~~~~~~~~~~~~~~~~i~~~d~~g~i~~~N~~a~~l~g~~~~~~~g~~~~-~~~~~~~~~---~~~~~--- 158 (430)
T PRK11006 86 NRKRRRELGNLIKRFRSGAESLPDAVVLTTEEGNIFWCNGLAQQLLGFRWPEDNGQNIL-NLLRYPEFT---QYLKT--- 158 (430)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCeEEEEcCCCceeHHHHHHHHHhCCCChHhCCCcHH-HHhcCHHHH---HHHHh---
Confidence 45566778888999999999999999999999999999999999999999999999987 554433211 11111
Q ss_pred CCCccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHH
Q 037299 671 GEEDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFI 730 (1111)
Q Consensus 671 ~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~ 730 (1111)
..... ...+. ..++. ++.+...|..+ + +.+.+.+|||++++.+++.+
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 12222 22333 45556666543 2 36678999999998886644
No 109
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.22 E-value=1.5e-05 Score=92.76 Aligned_cols=169 Identities=22% Similarity=0.334 Sum_probs=116.4
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccce
Q 037299 598 LSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNV 677 (1111)
Q Consensus 598 L~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~ 677 (1111)
|....+.|..+++.+.++++++|.+|.++++|+++..++|++.++++|+++. +++.... ......++..+.+..
T Consensus 112 l~~~~~~l~~il~~~~~~l~vvD~~G~~i~~N~~~~~~~gl~~e~~~gk~~~-~v~~~~~----~s~~l~vl~~~kp~~- 185 (560)
T COG3829 112 LRQLRQRLEAILDSIDDGLLVVDEDGIIIYYNKAYAKLLGLSPEEVLGKHLL-DVVSAGE----DSTLLEVLRTGKPIR- 185 (560)
T ss_pred HHHHHHHHHHHHhhccCceEEEcCCCcEEEEcHHHHHHhCCCHHHHcCCcHH-HHHhccC----CceehhhhhcCCcce-
Confidence 5666788999999999999999999999999999999999999999999887 5541000 112333444343321
Q ss_pred EEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHH--------HHHhCC------
Q 037299 678 EIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYK--------AIVHSP------ 743 (1111)
Q Consensus 678 e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~--------~i~~~~------ 743 (1111)
-...+ ..|... ..+..|++ .+|.+.|++++.+|+++.+....++.+++...+ .|+-.+
T Consensus 186 -~~~~~----~~~~~~--i~~~~pv~-~~g~l~G~v~~~~~~~~l~~l~~~~~~~~~~~~~~a~y~f~~Iig~S~~m~~~ 257 (560)
T COG3829 186 -DVVQT----YNGNKI--IVNVAPVY-ADGQLIGVVGISKDVSELERLTRELEESEGLLRLKAKYTFDDIIGESPAMLRV 257 (560)
T ss_pred -eeeee----ecCCce--eEeeccEe-cCCcEEEEEEeecchHHHHHHHHHHHHHhhhhccccccchhhhccCCHHHHHH
Confidence 11111 122222 45555665 466999999999999999999999887776655 222222
Q ss_pred -------CCCCCCccccCC-------------------CCccccchhhh-------HHHhCCCccccccc
Q 037299 744 -------NPLIPPIFASDE-------------------NTCCSEWNTAM-------EKLTGWSRGDIIGK 780 (1111)
Q Consensus 744 -------~~l~~~I~v~D~-------------------~g~ii~~N~a~-------~~l~G~~~eeliGk 780 (1111)
......|.+..+ +|-++.+|.|+ .++|||.+.-+.|-
T Consensus 258 ~~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~LlESELFGye~GAFTGA 327 (560)
T COG3829 258 LELAKRIAKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPETLLESELFGYEKGAFTGA 327 (560)
T ss_pred HHHHHhhcCCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccCCHHHHHHHHhCcCCcccccc
Confidence 111224555544 45688888887 78999998777664
No 110
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=98.21 E-value=9.6e-05 Score=74.98 Aligned_cols=228 Identities=21% Similarity=0.249 Sum_probs=146.9
Q ss_pred EEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEeccccCCcEEEE
Q 037299 616 IFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAENRKKAVFV 695 (1111)
Q Consensus 616 I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~~~v 695 (1111)
++..+..+.+.+.|......+++......+ .. ......................... ..........+...++
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~ 74 (232)
T COG2202 2 ILVLDRDGRIIYANEAAEELLGYSAEELLG--LL-LALHPEDRDRLRELLRRLLAGEELL----SEELRLVRKDGEERWV 74 (232)
T ss_pred eEEEcccccEEEecccchhhcCCChHHhhh--hh-hccCccchhhhHHHHHHHhccCCcc----hhhHHhhhcCCcEEEE
Confidence 456677888999999999999988776655 11 1111111111111111111111111 1111112234555555
Q ss_pred EEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCcc
Q 037299 696 VVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRG 775 (1111)
Q Consensus 696 ~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~e 775 (1111)
...........+........ .|++..+..+..+...+.+++.+++..+. +++..|.+|.+.++|+++.+++|++..
T Consensus 75 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~d~~~~~~~~n~~~~~~~g~~~~ 150 (232)
T COG2202 75 ELSAAPLRDGEGRVLGLLGL-RDITERKRAEEALRESEERLRALLEASPD---GIWVLDEDGRILYANPAAEELLGYSPE 150 (232)
T ss_pred EecceEEEcCCCCEEEEEee-eecchHHHHHHHHHHHHHHHHHHHhhCCc---eEEEEeCCCCEEEeCHHHHHHhCCChH
Confidence 54444444455555566666 89999999999999999999999999987 799999999999999999999999987
Q ss_pred ccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCE-EEEEEEEeeeecCCCCEEEEEeeee
Q 037299 776 DIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKY-VQALLTANKRVNMEGQIVGAFCFLQ 854 (1111)
Q Consensus 776 eliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~-~~v~~~~~pi~d~~G~v~g~v~~~~ 854 (1111)
+..++........ ...... ..................++....++|.. .+......+... +|.+.++.....
T Consensus 151 ~~~~~~~~~~~~~-----~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 223 (232)
T COG2202 151 EELGRGLSDLIHP-----EDEERR-ELELARALAEGRGGPLEIEYRVRRKDGERVRWILSRISPVRD-DGEIVGVVGIAR 223 (232)
T ss_pred HhcCCChhheEec-----CCCchh-hHHHHHHhhccCCCCcceEEEEEecCCCEEEEEEeeeeEecC-CCceEEEEEEEe
Confidence 7776654322211 111110 11112222233344578888999999996 777777777655 789999999999
Q ss_pred cccHHHH
Q 037299 855 IASPELQ 861 (1111)
Q Consensus 855 DITer~~ 861 (1111)
|++++++
T Consensus 224 d~~~~~~ 230 (232)
T COG2202 224 DITERKQ 230 (232)
T ss_pred chHHHhh
Confidence 9998764
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=98.18 E-value=9.9e-06 Score=70.47 Aligned_cols=102 Identities=20% Similarity=0.277 Sum_probs=82.9
Q ss_pred CCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCC
Q 037299 747 IPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRN 826 (1111)
Q Consensus 747 ~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~d 826 (1111)
+.+++++|.++.++++|+++.+++|++..+++|+..... .++++...+...+............++.+...+
T Consensus 2 ~~~i~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 73 (103)
T cd00130 2 PDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDL--------IHPEDREELRERLENLLSGGEPVTLEVRLRRKD 73 (103)
T ss_pred CceEEEECCCCcEEEECHHHHHHhCCCHHHHcCccHHHh--------cCCccchHHHHHHHHHHhcCcCeEEEEEEEccC
Confidence 347999999999999999999999999999999876422 234444455556666666566667888888899
Q ss_pred CCEEEEEEEEeeeecCCCCEEEEEeeeecc
Q 037299 827 GKYVQALLTANKRVNMEGQIVGAFCFLQIA 856 (1111)
Q Consensus 827 G~~~~v~~~~~pi~d~~G~v~g~v~~~~DI 856 (1111)
|..+|+.+...++.+.+|...++++++.||
T Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~di 103 (103)
T cd00130 74 GSVIWVLVSLTPIRDEGGEVIGLLGVVRDI 103 (103)
T ss_pred CCEEEEEEEEEEEecCCCCEEEEEEEEecC
Confidence 999999999999999999999999988875
No 112
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=98.17 E-value=0.0001 Score=81.39 Aligned_cols=191 Identities=12% Similarity=0.143 Sum_probs=124.7
Q ss_pred HHHHHHhcCC---CCHHHHHHHHHHHHHHHHHHHHHhh-c-cccccccC---CcceeeEeecHHHHHHHHHHHHHHHhhc
Q 037299 897 FTNSLLEATD---LTEDQKQLLETSAACEKQMLKIIKD-V-DLESIEDG---SLEFEKAEFLLGSVINAVVSQVMMLLRE 968 (1111)
Q Consensus 897 ~~~~LL~~~~---l~e~~~~~l~~i~~~~~~l~~lI~d-L-dlsri~~g---~~~l~~~~~~L~~vi~~v~~~~~~~~~~ 968 (1111)
|..+.-+... .+.....+|+..-.+--.+.-|++. + -+.+-... .+..--..+++.++|.++.+..+.....
T Consensus 156 Gl~E~~~~~~dp~~~~~iqyFLdr~y~sRIsiRMLv~qh~~l~~~~kp~~~~~iG~I~~~c~v~~vi~~a~e~ar~lCd~ 235 (414)
T KOG0787|consen 156 GLIEYREKDGDPVTEKNIQYFLDRFYMSRISIRMLVNQHLLLFASGKPDHPRHIGIIDPRCSVKKVIKDASENARFLCDQ 235 (414)
T ss_pred HHHHHHHhcCCcchHHHHHHHHHHHHHHHHHHHHHHhhhhheecCCCCCCcceeeeeCCCCCHHHHHHHHHHHHHHHHHH
Confidence 5555554333 1344566777765544455667777 3 33311000 1122235678999998888776654332
Q ss_pred ---cCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCC---CC----ceEEEEEEEccccCCCCceeEEEEEE
Q 037299 969 ---RNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPS---AE----GWVEIHVRPTLKQSSEGQTIVHNEFR 1038 (1111)
Q Consensus 969 ---~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~---~~----g~I~I~v~~~~~~~~~~~~~~~v~i~ 1038 (1111)
..-++.++....+.. .| .-+..|.-++.+|+.||.+++-. .. ..|.|.+...++ .+.|.
T Consensus 236 yy~~sPel~i~~~~a~~~-~v-yvPshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gde---------Dl~ik 304 (414)
T KOG0787|consen 236 YYLNSPELIIEGHNALSF-TV-YVPSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDE---------DLLIK 304 (414)
T ss_pred hccCCCeeEecCcccccC-cc-ccchHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCc---------ceEEE
Confidence 223444443333321 11 34788999999999999987421 02 348888877665 67899
Q ss_pred EeeCCCCCChhhhhhccCCC--------------CCCCCccchHHHHHHHHHHcCCEEEEEecCC-ceEEEEEEE
Q 037299 1039 MVCPGEGLPPELVQDMFHSS--------------RWMTQEGLGLSMCRKILKLMNGEVQYIRESE-RCYFLIIFE 1098 (1111)
Q Consensus 1039 V~DnG~GIp~e~~~~iFepf--------------~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~g-gstF~~~L~ 1098 (1111)
|+|-|.|||.+..+++|.=. ..-.|-|.||.|||.-++-.||.+.+.|-.| |+-..+.|.
T Consensus 305 ISDrGGGV~~~~~drlf~Y~ySTa~~~~~d~~~~~plaGfG~GLPisrlYa~yf~Gdl~L~SleG~GTD~yI~Lk 379 (414)
T KOG0787|consen 305 ISDRGGGVPHRDIDRLFSYMYSTAPAPSSDNNRTAPLAGFGFGLPISRLYARYFGGDLKLQSLEGIGTDVYIYLK 379 (414)
T ss_pred EecCCCCcChhHHHHHHhhhcccCCCCCCCCCCcCcccccccCCcHHHHHHHHhCCCeeEEeeeccccceEEEec
Confidence 99999999999999999631 1223889999999999999999999999988 554444443
No 113
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.16 E-value=2.6e-05 Score=94.79 Aligned_cols=112 Identities=16% Similarity=0.168 Sum_probs=81.6
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccce
Q 037299 598 LSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNV 677 (1111)
Q Consensus 598 L~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~ 677 (1111)
+++.+.++..+++++++||+++|.+|+|+++|++++++||++.++++|+++. ++++.... .+.++.+.....
T Consensus 75 ~e~e~~~L~aIL~sm~eGVi~vD~~G~I~~iN~aA~~Llg~~~eel~Gk~i~-eli~~~~l-------~~~le~~~~~~~ 146 (520)
T PRK10820 75 SEREHRALSALLEALPEPVLSIDMKGKVELANPASCQLFGQSEEKLRNHTAA-QLINGFNF-------LRWLESEPQDSH 146 (520)
T ss_pred HHHHHHHHHHHHHhCCCcEEEECCCCeeeHhHHHHHHHHCcCHHHHCCCcHH-HHcCcchH-------HHHHHcCCCccc
Confidence 4555677899999999999999999999999999999999999999999998 66665332 223333332111
Q ss_pred EEEEEEeccccCCcEEEEEEEeEeec--cCCCCE--EEEEEEEEechhHHH
Q 037299 678 EIKLRTFGAENRKKAVFVVVNACSSK--DYTNNI--VGVCFVGQDVTDQKL 724 (1111)
Q Consensus 678 e~~l~~~~~~~dG~~~~v~v~~~pi~--d~~G~v--~gvv~v~~DITerK~ 724 (1111)
...+. .+|..+ .++..|+. |.+|.. .|++.+++|+++..+
T Consensus 147 ~~~v~-----~~g~~~--~v~~~PI~~~d~~g~~~~~GaVivlrd~~~l~~ 190 (520)
T PRK10820 147 NEHVV-----INGQDF--LMEITPVYLQDENDQHVLVGAVVMLRSTARMGR 190 (520)
T ss_pred eEEEE-----ECCEEE--EEEEEeeeecCCCCceeEEEEEEEeccHHHHHH
Confidence 22222 245444 46667776 666664 899999999998643
No 114
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=98.15 E-value=2.4e-05 Score=96.33 Aligned_cols=127 Identities=14% Similarity=0.198 Sum_probs=92.0
Q ss_pred HHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCC---hhhhcCCcccccccchhhHHHHHHHHHHHHcCC
Q 037299 596 DELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLS---VEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGE 672 (1111)
Q Consensus 596 ~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~---~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~ 672 (1111)
.|+....++++.+++++++||+++|.+|+|++||+++++++|++ ..+.+|+.+. .+.++. .+..++..+
T Consensus 214 ~ei~~l~~~~~~il~~~~~gIi~~D~~g~I~~~N~~a~~llg~~~~~~~~~~~~~~~-~~~~~~-------~~~~~~~~~ 285 (542)
T PRK11086 214 YEISTLFEQRQAMLQSIKEGVIAVDDRGEVTLINDEAKRLFNYKKGLEDDPLGTDVE-SWMPVS-------RLKEVLRTG 285 (542)
T ss_pred HHHHHHHHHHHHHHHHhcCcEEEECCCCeEEEEhHHHHHHhCCCcCCcccccCCcHH-HhCCch-------hHHHHHhcC
Confidence 56677778889999999999999999999999999999999865 3466677665 444322 233344444
Q ss_pred CccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHH
Q 037299 673 EDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAI 739 (1111)
Q Consensus 673 ~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i 739 (1111)
..... .... .+| .++.++..|+.+ +|.+.|++.+++|+|+.++.++++.......+.+
T Consensus 286 ~~~~~-~~~~-----~~g--~~~~~~~~pi~~-~g~~~g~v~~~rDite~~~l~~~l~~~~~~~~~l 343 (542)
T PRK11086 286 TPRRD-EEIN-----ING--RLLLTNTVPVRV-NGEIIGAIATFRDKTEVRQLAQRLDGMVNYADAL 343 (542)
T ss_pred CCccc-eEEE-----ECC--EEEEEEEEEEeE-CCEEEEEEEEEEEchHHHHHHHHHHHHHHHHHHH
Confidence 33211 1111 123 356677789998 8999999999999999999998887766555443
No 115
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=98.11 E-value=8.8e-06 Score=76.91 Aligned_cols=105 Identities=20% Similarity=0.202 Sum_probs=73.4
Q ss_pred HHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcc
Q 037299 737 KAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTE 816 (1111)
Q Consensus 737 ~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~ 816 (1111)
+.++++++. ++.++|.++++.++|+++.++++..+ ..+|+++. .+..+.....+...+..+..++...
T Consensus 2 ~~il~s~~~---~i~~vD~~~~I~~~n~~a~~~f~~~~-~~iGr~l~--------~~~~~~~~~~l~~~i~~~~~~~~~~ 69 (106)
T PF13596_consen 2 NNILDSMPI---GIIFVDRNLRIRYFNPAAARLFNLSP-SDIGRPLF--------DIHPPLSYPNLKKIIEQVRSGKEEE 69 (106)
T ss_dssp HHHHHHSSS---EEEEEETTSBEEEE-SCGC-SS---G-GGTTSBCC--------CSS-HHHHHHHHHHHHHHHTTSBSE
T ss_pred hHHHhcCCC---CEEEEcCCCeEEEeChhHhhhcCCCh-HHCCCCHH--------HcCCccchHHHHHHHHHHHcCCCce
Confidence 566777766 89999999999999999999999775 45799873 3334667777777888888777532
Q ss_pred eeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeeccc
Q 037299 817 KFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIAS 857 (1111)
Q Consensus 817 ~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DIT 857 (1111)
.+..+. .+ -.++.+...|+++.+|+..|++.++.|||
T Consensus 70 -~~~~~~-~~--~~~~~~~~~P~~~~~g~~~G~v~~~~DIT 106 (106)
T PF13596_consen 70 -FEIVIP-NG--GRWYLVRYRPYRDEDGEYAGAVITFQDIT 106 (106)
T ss_dssp -EEEEEE-ET--TEEEEEEEEEEE-TTS-EEEEEEEEEE-G
T ss_pred -EEEEec-CC--CEEEEEEEEEEECCCCCEEEEEEEEEecC
Confidence 232222 33 35677899999999999999999999997
No 116
>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=97.98 E-value=7.6e-05 Score=71.10 Aligned_cols=101 Identities=16% Similarity=0.163 Sum_probs=81.0
Q ss_pred EEEEcCCccEEeecHH-HHHHcCCChhhhcCCcccccccchhhHHH-HHHHHHHHHcCCCccceEEEEEEeccccCCcEE
Q 037299 616 IFAVDVHGCVNGWNAK-VAELTGLSVEEAMGKSLVHDLVYKEYEEI-VDNLLHHALKGEEDKNVEIKLRTFGAENRKKAV 693 (1111)
Q Consensus 616 I~~~D~dG~I~~~N~a-~~~l~G~~~eeliG~~~~~~l~~~~~~~~-~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~~ 693 (1111)
+.-.+.||+|+++-.+ ...++||.++|++|+++. +++||+|... +......++..|.....-+++. .++|+.+
T Consensus 5 ~trhs~dgki~~~d~~~v~~~lgy~~~eLvG~s~y-~~~H~~D~~~~~~~~~~~~~~~g~~~~~~yR~~----~k~g~~v 79 (111)
T PF14598_consen 5 TTRHSLDGKITYVDSRAVSSLLGYLPEELVGRSIY-DFVHPDDLQRVLKQHHREVLQKGQSVSPYYRFR----TKNGGYV 79 (111)
T ss_dssp EEEEETTSBEEEEETTHHHHHHSS-HHHHTTSBGG-GGBSCCTHHHHHHHHHHHHHHHSSEEEEEEEEE-----TTSSEE
T ss_pred EEEECCCcEEEEEcCccChhhcCCCcHHHcCCchH-HhCCHhhhhhHHHHHHHHHhhCCCcCcceEEEE----ecCCcEE
Confidence 4456889999999999 699999999999999999 9999999996 8888888888777644455655 7899999
Q ss_pred EEEEEeEeeccC-CCCEEEEEEEEEechh
Q 037299 694 FVVVNACSSKDY-TNNIVGVCFVGQDVTD 721 (1111)
Q Consensus 694 ~v~v~~~pi~d~-~G~v~gvv~v~~DITe 721 (1111)
|+...+.++.++ .+++..++++-+=|++
T Consensus 80 wvqt~~~~~~n~~~~~~~~Iv~~n~vlse 108 (111)
T PF14598_consen 80 WVQTKATLFYNPWTSKPEFIVCTNTVLSE 108 (111)
T ss_dssp EEEEEEEEEEETTTTCEEEEEEEEEEESC
T ss_pred EEEEEEEEEECCCCCCccEEEEEEEEecc
Confidence 999999999864 4566667766555544
No 117
>PF12860 PAS_7: PAS fold
Probab=97.93 E-value=1.4e-05 Score=76.73 Aligned_cols=108 Identities=12% Similarity=0.155 Sum_probs=69.2
Q ss_pred CCCCccccCCCCccccchhhhHHHhCCCcccc-cccccccccccccc--ccCChhhHHHHHHHHHhhhCCCCcceeeeee
Q 037299 746 LIPPIFASDENTCCSEWNTAMEKLTGWSRGDI-IGKMLVGEVFGSCC--RLKGPDALTKFMIALHNAFGGQDTEKFPFPL 822 (1111)
Q Consensus 746 l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eel-iGk~l~~~v~~~~~--~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~ 822 (1111)
++.||+++|.+|++++||++|.+++|++.+.+ .|.++ ..++..+. ....+.+................... +.+
T Consensus 4 l~~Gv~v~D~~~rl~~~N~~~~~l~~~~~~~~~~G~~~-~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ 80 (115)
T PF12860_consen 4 LPQGVAVFDSDGRLVFWNQRFRELFGLPPEMLRPGASF-RDLLRRLAERGEFPPGDPEAWVRQRLARLRRRQPRS--FEL 80 (115)
T ss_pred cCceEEEEcCCCeEEeEcHHHHHHhCCCHHHhcCCCCH-HHHHHHHHHcCCCCCCCHHHHHHHHHHHHhcCCCce--eEE
Confidence 45599999999999999999999999999998 67765 33332221 11112333333333333333333333 345
Q ss_pred ecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHH
Q 037299 823 FDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQA 863 (1111)
Q Consensus 823 ~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e 863 (1111)
..++|+++.+..+..| +| |++.++.|||+++++|
T Consensus 81 ~~~dgr~l~~~~~~~~----~G---g~v~~~~DVT~~~~~E 114 (115)
T PF12860_consen 81 RLPDGRWLEVRAQPLP----DG---GFVLTFTDVTERRRAE 114 (115)
T ss_pred ECCCCEEEEEEeEECC----CC---CEEEEEEeCCHHHHhc
Confidence 5688876665555443 33 6789999999988776
No 118
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=97.91 E-value=4.6e-05 Score=85.88 Aligned_cols=102 Identities=16% Similarity=0.252 Sum_probs=76.7
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCC--ceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCC---------
Q 037299 990 QARIQQVLADFLLNMVRYSPSAE--GWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSS--------- 1058 (1111)
Q Consensus 990 ~~~L~qVl~nLl~NAik~t~~~~--g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf--------- 1058 (1111)
...|.|++.+|++|+++++...+ .+|.|.+...+. .+..+.|.|||+|||++.++++|..+
T Consensus 34 ~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~~~--------d~y~v~veDNGpGIP~e~IPkvFGk~LygSKfh~~ 105 (538)
T COG1389 34 IRSLTTTVHELVTNSLDACEEAGILPDIKVEIERIGK--------DHYKVIVEDNGPGIPEEQIPKVFGKMLYGSKFHRN 105 (538)
T ss_pred hhHHHHHHHHHHhcchhhHHhcCCCCceEEEEEecCC--------ceEEEEEecCCCCCChhHhHHHHHHHhccchhhhh
Confidence 45789999999999999987633 367887776643 28999999999999999999999873
Q ss_pred -CCCCCccchHHHHHHHHHHcCCE-EEEEecCC--ceEEEEEEEe
Q 037299 1059 -RWMTQEGLGLSMCRKILKLMNGE-VQYIRESE--RCYFLIIFEL 1099 (1111)
Q Consensus 1059 -~~~~G~GLGL~i~r~iVe~~gG~-I~v~s~~g--gstF~~~L~L 1099 (1111)
++.+.-|||.+.|--.....-|+ +.|.|..+ +....+.|-+
T Consensus 106 ~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~i 150 (538)
T COG1389 106 IQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKI 150 (538)
T ss_pred hhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEe
Confidence 13334599999888777877666 78877655 3333444433
No 119
>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=97.90 E-value=9.8e-05 Score=71.88 Aligned_cols=117 Identities=27% Similarity=0.456 Sum_probs=86.3
Q ss_pred CHHHHHHHHHHHHHHhhCCCeEEEEeecCCCCcEEEEEecCCCCCCccCCCCCCCCchHHHHHHHHhCCeeEeeccCCCc
Q 037299 234 DIKLLCDTVVESVRQLTGYDRVMVYRFHEDEHGEVVAESKRPDLEPYFGLHYPATDIPQASRFLFKQNRVRMIVDCHATP 313 (1111)
Q Consensus 234 ~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~G~VvaE~~~~~~~~~lg~~~pa~dip~~ar~ly~~n~~r~i~d~~~~~ 313 (1111)
|++++++.+++.+.+++++||+.||.++++..+........+...+..+..+|..+ ...+.++..+....+.|....+
T Consensus 1 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~ 78 (149)
T smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVDEDDRGELVLVAADGLTLPLLGLRYPLGE--GLAGRVAETGRPLNIPDVEADP 78 (149)
T ss_pred CHHHHHHHHHHHHHHHhCCceEEEEEEecCCCCcEEEEEecCCCcccceEEecCCC--ChHHHHHHcCCeEEeechhhCC
Confidence 46889999999999999999999999999888888877776655556777888776 4567777778887888775443
Q ss_pred ceeecCCCCCCcccccCccccCCChhHHHHHHhc-CcceEEEEEEEEcCCCccccC--CCCCccch
Q 037299 314 LCVIQDEGLMQPLCLVGSTLRAPHGCHAQYMANM-GSIASLALAVIINGNDEEAVG--GRSTTRLW 376 (1111)
Q Consensus 314 ~~~~~~~~~~~~ldls~~~lRsvsp~h~~yl~nm-gv~asl~~~i~~~~~~~~~~~--~~~~~~LW 376 (1111)
.+ . ..+...+ |+.+.+++||..+|+.||... .....+-|
T Consensus 79 ~~-----------------------~-~~~~~~~~~~~s~~~~Pl~~~~~~~G~l~~~~~~~~~~~ 120 (149)
T smart00065 79 VF-----------------------A-LDLLGRYQGVRSFLAVPLVADGELVGVLALHNKDSPRPF 120 (149)
T ss_pred cc-----------------------c-cccccceeceeeEEEeeeeecCEEEEEEEEEecCCCCCC
Confidence 11 1 1122233 389999999999988888652 22245567
No 120
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=97.89 E-value=0.00045 Score=80.88 Aligned_cols=129 Identities=22% Similarity=0.287 Sum_probs=97.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHH
Q 037299 589 DLELQGVDELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHA 668 (1111)
Q Consensus 589 ~~l~~~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~ 668 (1111)
+.++++.+++++..+.++.+++..+.|++.+|.+|+|..+|+++++++|.+.++++|+++. -+.|+- ...+..+
T Consensus 356 ~~l~~ak~~~e~rr~f~E~VLsgvtaGVi~~d~~g~i~t~N~~ae~~l~~~~~~~~G~~ls--a~ap~~----~~vf~~~ 429 (712)
T COG5000 356 EALERAKDALEQRRRFLEAVLSGLTAGVIGFDNRGCITTVNPSAEQILGKPFDQLLGQSLS--AIAPEL----EEVFAEA 429 (712)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCceeEEEEcCCCeeEeecchHHHHhcCChhHhhcchhh--hhhhHH----HHHHHHh
Confidence 4466778889999999999999999999999999999999999999999999999999976 233322 2223222
Q ss_pred Hc-CCCccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHH
Q 037299 669 LK-GEEDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFI 730 (1111)
Q Consensus 669 l~-~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~ 730 (1111)
-. ++..+..++.+. +.|+.+.+.+..+-...+ +-.|++.++-|||+...+++.-.
T Consensus 430 ~a~~~~~~~~ev~~~-----r~g~~rtl~Vq~t~~~~d--~~~gyVvt~DDITdLV~AQRs~A 485 (712)
T COG5000 430 GAAARTDKRVEVKLA-----REGEERTLNVQATREPED--NGNGYVVTFDDITDLVIAQRSAA 485 (712)
T ss_pred hhhcCCCccceeecc-----cCCCceeeeeeeeecccc--cCCceEEEecchHHHHHHHHHHH
Confidence 22 334455566654 457777777777655443 33489999999999999987653
No 121
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=97.86 E-value=0.00019 Score=71.63 Aligned_cols=96 Identities=23% Similarity=0.348 Sum_probs=69.1
Q ss_pred EecHHHHHHHHHHHHHHHhhcCCC---CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCC-CCC
Q 037299 987 YGDQARIQQVLADFLLNMVRYSPS---AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR-WMT 1062 (1111)
Q Consensus 987 ~~D~~~L~qVl~nLl~NAik~t~~---~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~-~~~ 1062 (1111)
+.+..+++-++.++++||++|+-. +.|.|.|.+...++ .++++|.|.|+|+++ .+..++|.+ ...
T Consensus 35 ~~~~~~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~~---------~~~i~i~D~G~~~~~--~~~~~~~~~~~~~ 103 (146)
T COG2172 35 YVDIADLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDDG---------KLEIRIWDQGPGIED--LEESLGPGDTTAE 103 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEEcCC---------eEEEEEEeCCCCCCC--HHHhcCCCCCCCc
Confidence 346789999999999999999532 24889999888777 899999999987654 334444432 223
Q ss_pred ---CccchHHHHHHHHHHcCCEEEEEecCCc--eEEEEEE
Q 037299 1063 ---QEGLGLSMCRKILKLMNGEVQYIRESER--CYFLIIF 1097 (1111)
Q Consensus 1063 ---G~GLGL~i~r~iVe~~gG~I~v~s~~gg--stF~~~L 1097 (1111)
..|+||.++++++ .++.+++..++ +.|+++.
T Consensus 104 ~~~~~G~Gl~l~~~~~----D~~~~~~~~~~~~~~~~~~~ 139 (146)
T COG2172 104 GLQEGGLGLFLAKRLM----DEFSYERSEDGRNRLTKITL 139 (146)
T ss_pred ccccccccHHHHhhhh----eeEEEEeccCCceEEEEEEe
Confidence 3399999997655 46889866665 3445444
No 122
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=97.72 E-value=0.00066 Score=68.70 Aligned_cols=125 Identities=25% Similarity=0.357 Sum_probs=86.8
Q ss_pred HHHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHH-HHHHHHHHHc-CC
Q 037299 595 VDELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEI-VDNLLHHALK-GE 672 (1111)
Q Consensus 595 ~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~-~~~~l~~~l~-~~ 672 (1111)
..++.....+++.+++..+++++.+|.+|.++++|+++++++|++..+..+.... .+........ .......... ..
T Consensus 104 ~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 182 (232)
T COG2202 104 EEALRESEERLRALLEASPDGIWVLDEDGRILYANPAAEELLGYSPEEELGRGLS-DLIHPEDEERRELELARALAEGRG 182 (232)
T ss_pred HHHHHHHHHHHHHHHhhCCceEEEEeCCCCEEEeCHHHHHHhCCChHHhcCCChh-heEecCCCchhhHHHHHHhhccCC
Confidence 3445555566999999999999999999999999999999999998887777765 3333222111 1122222222 22
Q ss_pred CccceEEEEEEeccccCCcE-EEEEEEeEeeccCCCCEEEEEEEEEechhHHHH
Q 037299 673 EDKNVEIKLRTFGAENRKKA-VFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLV 725 (1111)
Q Consensus 673 ~~~~~e~~l~~~~~~~dG~~-~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~a 725 (1111)
.....++... .++|.. .+......+... +|.+.++.....|+|++++.
T Consensus 183 ~~~~~~~~~~----~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~d~~~~~~~ 231 (232)
T COG2202 183 GPLEIEYRVR----RKDGERVRWILSRISPVRD-DGEIVGVVGIARDITERKQA 231 (232)
T ss_pred CCcceEEEEE----ecCCCEEEEEEeeeeEecC-CCceEEEEEEEechHHHhhc
Confidence 2233344443 567885 777777777655 78999999999999998865
No 123
>smart00388 HisKA His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases.
Probab=97.66 E-value=0.00012 Score=61.54 Aligned_cols=62 Identities=35% Similarity=0.580 Sum_probs=52.5
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc-cccccc
Q 037299 877 RLKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV-DLESIE 938 (1111)
Q Consensus 877 r~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL-dlsri~ 938 (1111)
+.++++.++||+||||++|.++++.+.....+++...+++.+..+++++..+++++ ++++.+
T Consensus 2 ~~~~~~~i~Hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~ 64 (66)
T smart00388 2 KREFLANLSHELRTPLTAIRGYLELLEDTELSEEQREYLETILRSAERLLRLINDLLDLSRIE 64 (66)
T ss_pred HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34678889999999999999999888775566666889999999999999999997 777653
No 124
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.62 E-value=0.00056 Score=79.94 Aligned_cols=128 Identities=20% Similarity=0.364 Sum_probs=96.2
Q ss_pred HHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChh--hhcCCcccccccchhhHHHHHHHHHHHHcCCC
Q 037299 596 DELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVE--EAMGKSLVHDLVYKEYEEIVDNLLHHALKGEE 673 (1111)
Q Consensus 596 ~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~e--eliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~ 673 (1111)
.|+...-++..++++++..||+.+|..|.|..+|.++++|+|+... +++|+++. ++++|+.. +...++.+.
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 EEIATLLEERQAMLQSIKEGVIAVDKKGVITLINQAAQKLLGLRQPSGDPIGRSIV-EVLPPDSD------LPEVLETGK 280 (537)
T ss_pred HHHHHHHHHHHHHHHHhhceEEEECCCCeEeehhHHHHHHhcccCcCcccccccce-EeeccccC------cHHHHhcCC
Confidence 5677777888999999999999999999999999999999998765 79999998 77775221 122233222
Q ss_pred -ccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHH
Q 037299 674 -DKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIV 740 (1111)
Q Consensus 674 -~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~ 740 (1111)
.+..++++ +-.++.++-.|++ .+|+++|.+.++||-|+-++..++|....+...++-
T Consensus 281 ~~~~~e~~~---------ng~~~i~nr~pI~-~~~~~~GaI~tFRdktei~~L~eqLt~vr~ya~aLR 338 (537)
T COG3290 281 PQHDEEIRI---------NGRLLVANRVPIR-SGGQIVGAIITFRDKTEIKKLTEQLTGVRQYAEALR 338 (537)
T ss_pred cccchhhhc---------CCeEEEEEeccEE-ECCEEeEEEEEEecHHHHHHHHHHHHHHHHHHHHHH
Confidence 22222222 1246777888886 578999999999999999999999887765554443
No 125
>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=97.61 E-value=0.00019 Score=68.37 Aligned_cols=100 Identities=14% Similarity=0.151 Sum_probs=81.9
Q ss_pred cccCCCCccccchhh-hHHHhCCCccccccccccccccccccccCChhhHHH-HHHHHHhhhCCCCcceeeeeeecCCCC
Q 037299 751 FASDENTCCSEWNTA-MEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTK-FMIALHNAFGGQDTEKFPFPLFDRNGK 828 (1111)
Q Consensus 751 ~v~D~~g~ii~~N~a-~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~-~~~~l~~~~~~~~~~~~e~~~~~~dG~ 828 (1111)
...+.+|+|+++-+. ...++||.++|++|+.. +.+.||+|... +......++..+.....-++++.++|.
T Consensus 6 trhs~dgki~~~d~~~v~~~lgy~~~eLvG~s~--------y~~~H~~D~~~~~~~~~~~~~~~g~~~~~~yR~~~k~g~ 77 (111)
T PF14598_consen 6 TRHSLDGKITYVDSRAVSSLLGYLPEELVGRSI--------YDFVHPDDLQRVLKQHHREVLQKGQSVSPYYRFRTKNGG 77 (111)
T ss_dssp EEEETTSBEEEEETTHHHHHHSS-HHHHTTSBG--------GGGBSCCTHHHHHHHHHHHHHHHSSEEEEEEEEE-TTSS
T ss_pred EEECCCcEEEEEcCccChhhcCCCcHHHcCCch--------HHhCCHhhhhhHHHHHHHHHhhCCCcCcceEEEEecCCc
Confidence 345789999999999 69999999999999975 67778999997 778888888877777778999999999
Q ss_pred EEEEEEEEeeeecCC-CCEEEEEeeeecccH
Q 037299 829 YVQALLTANKRVNME-GQIVGAFCFLQIASP 858 (1111)
Q Consensus 829 ~~~v~~~~~pi~d~~-G~v~g~v~~~~DITe 858 (1111)
++|+...+....+.. +++..++|+-.-+++
T Consensus 78 ~vwvqt~~~~~~n~~~~~~~~Iv~~n~vlse 108 (111)
T PF14598_consen 78 YVWVQTKATLFYNPWTSKPEFIVCTNTVLSE 108 (111)
T ss_dssp EEEEEEEEEEEEETTTTCEEEEEEEEEEESC
T ss_pred EEEEEEEEEEEECCCCCCccEEEEEEEEecc
Confidence 999999999999755 566777777666654
No 126
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=97.56 E-value=0.00083 Score=82.97 Aligned_cols=126 Identities=17% Similarity=0.281 Sum_probs=88.8
Q ss_pred HHHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCCh--hhhcCCcccccccchhhHHHHHHHHHHHHcCC
Q 037299 595 VDELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSV--EEAMGKSLVHDLVYKEYEEIVDNLLHHALKGE 672 (1111)
Q Consensus 595 ~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~--eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~ 672 (1111)
..++....++++.+++++++|++++|.+|+|+++|+++++++|++. ++++|+++. +++++... +..... .
T Consensus 214 ~~~~~~~~~~~~~il~~~~egii~~D~~g~I~~~N~~a~~ll~~~~~~~~~~g~~~~-~~~~~~~~------~~~~~~-~ 285 (545)
T PRK15053 214 PKQIARVVRQQEALFSSVYEGLIAVDPHGYITAINRNARKMLGLSSPGRQWLGKPIA-EVVRPADF------FTEQID-E 285 (545)
T ss_pred HHHHHHHHHHHHHHHHHhCceEEEECCCCeEEeecHHHHHHhCCCCcchhhcCCcHH-HhCCCchh------hhhhcC-C
Confidence 3445556677889999999999999999999999999999999865 468999887 55544321 111111 1
Q ss_pred CccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHH
Q 037299 673 EDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKA 738 (1111)
Q Consensus 673 ~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~ 738 (1111)
........ .+| ..+.++..|+.+ +|++.|++.+++|+|+.++.+.++...+...+.
T Consensus 286 ~~~~~~~~-------~~~--~~~~~~~~~i~~-~~~~~G~v~~~~d~te~~~l~~~l~~~~~~~e~ 341 (545)
T PRK15053 286 KRQDVVAN-------FNG--LSVIANREAIRS-GDDLLGAIISFRSKDEISTLNAQLTQIKQYVES 341 (545)
T ss_pred cccceEEE-------ECC--EEEEEEeeeEEE-CCeEEEEEEEEEchHHHHHHHHHHHHHHHHHHH
Confidence 11111111 123 345577788765 567789999999999999999888777655443
No 127
>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=97.54 E-value=0.00045 Score=78.62 Aligned_cols=80 Identities=10% Similarity=0.132 Sum_probs=58.6
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCCCCC--------
Q 037299 991 ARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSRWMT-------- 1062 (1111)
Q Consensus 991 ~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~~-------- 1062 (1111)
..+.+++.||+.||+++.. ..|.|.+... . ...|.|.|||.||+++.++++|++|+..+
T Consensus 21 ~~~~~~l~eLi~Na~dA~a---~~I~i~~~~~-~---------~~~i~V~DnG~Gi~~~~l~~~~~~~~tsk~~~~~~~~ 87 (312)
T TIGR00585 21 ERPASVVKELVENSLDAGA---TRIDVEIEEG-G---------LKLIEVSDNGSGIDKEDLPLACERHATSKIQSFEDLE 87 (312)
T ss_pred hhHHHHHHHHHHHHHHCCC---CEEEEEEEeC-C---------EEEEEEEecCCCCCHHHHHHHhhCCCcCCCCChhHhh
Confidence 4578999999999999764 5677776431 1 44699999999999999999999974322
Q ss_pred ------CccchHHHHHHHHHHcCCEEEEEecC
Q 037299 1063 ------QEGLGLSMCRKILKLMNGEVQYIRES 1088 (1111)
Q Consensus 1063 ------G~GLGL~i~r~iVe~~gG~I~v~s~~ 1088 (1111)
-.|.||+-...+ +.+.+.|..
T Consensus 88 ~~~~~G~rG~al~si~~~-----s~~~i~S~~ 114 (312)
T TIGR00585 88 RIETLGFRGEALASISSV-----SRLTITTKT 114 (312)
T ss_pred cccccCccchHHHHHHhh-----CcEEEEEee
Confidence 237777666333 367777653
No 128
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=97.46 E-value=0.00015 Score=61.43 Aligned_cols=43 Identities=23% Similarity=0.298 Sum_probs=36.3
Q ss_pred HHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCccc
Q 037299 603 REMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLV 649 (1111)
Q Consensus 603 ~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~ 649 (1111)
++|+.+++++|+||+++| +++|+++|+++++++||+ ..|+.+.
T Consensus 1 e~~~~l~~~~~~~i~i~d-~~~i~~~N~~~~~l~g~~---~~~~~~~ 43 (64)
T PF13188_consen 1 ERYRSLFDNSPDGILIID-GGRIIYVNPAFEELFGYS---LEGEDIG 43 (64)
T ss_dssp HHHHHHHCCSSSEEEEEE-TSBEEEE-HHHHHHHCS----HTCCCHH
T ss_pred CHHHHHHHcCccceEEEE-CCChHHhhHHHHHHhCCC---CCCCCHH
Confidence 478999999999999999 889999999999999998 5566553
No 129
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=97.25 E-value=0.001 Score=72.82 Aligned_cols=66 Identities=15% Similarity=0.170 Sum_probs=53.2
Q ss_pred EechhHHH-HHHHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCcccccccccccc
Q 037299 717 QDVTDQKL-VMDKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGE 785 (1111)
Q Consensus 717 ~DITerK~-ae~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~ 785 (1111)
.|.|++.+ +++-+...+.++..++..+.+ |++..|..|+++.+|..+.+++|.+.++++|+++.+.
T Consensus 93 n~Lt~~~~~aq~n~e~Er~kL~SvlayMtD---GViATdRrG~iI~iN~~A~k~L~~~~E~~~~~~i~el 159 (459)
T COG5002 93 NDLTKRVQEAQANTEQERRKLDSVLAYMTD---GVIATDRRGKIILINKPALKMLGVSKEDALGRSILEL 159 (459)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHcC---ceEeecCCCcEEEeccHHHHHhCcCHHHHhcccHHHH
Confidence 35565544 444455556678889888877 8999999999999999999999999999999987543
No 130
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=97.21 E-value=0.0011 Score=80.80 Aligned_cols=110 Identities=14% Similarity=0.057 Sum_probs=74.6
Q ss_pred HhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhh
Q 037299 730 IHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNA 809 (1111)
Q Consensus 730 ~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~ 809 (1111)
.+.+..++++++++++ ||+++|.+|+|+++|+++++++|++.++++|+++.+.+. ..... . .
T Consensus 76 e~e~~~L~aIL~sm~e---GVi~vD~~G~I~~iN~aA~~Llg~~~eel~Gk~i~eli~--------~~~l~---~----~ 137 (520)
T PRK10820 76 EREHRALSALLEALPE---PVLSIDMKGKVELANPASCQLFGQSEEKLRNHTAAQLIN--------GFNFL---R----W 137 (520)
T ss_pred HHHHHHHHHHHHhCCC---cEEEECCCCeeeHhHHHHHHHHCcCHHHHCCCcHHHHcC--------cchHH---H----H
Confidence 4445668899999987 999999999999999999999999999999998743321 11211 1 2
Q ss_pred hCCCCcceeeeeeecCCCCEEEEEEEEeeee--cCCCCE--EEEEeeeecccHHH
Q 037299 810 FGGQDTEKFPFPLFDRNGKYVQALLTANKRV--NMEGQI--VGAFCFLQIASPEL 860 (1111)
Q Consensus 810 ~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~--d~~G~v--~g~v~~~~DITer~ 860 (1111)
+......... .....+|+.++ +...|+. +.+|.. .|++.+++|+++-.
T Consensus 138 le~~~~~~~~-~~v~~~g~~~~--v~~~PI~~~d~~g~~~~~GaVivlrd~~~l~ 189 (520)
T PRK10820 138 LESEPQDSHN-EHVVINGQDFL--MEITPVYLQDENDQHVLVGAVVMLRSTARMG 189 (520)
T ss_pred HHcCCCccce-EEEEECCEEEE--EEEEeeeecCCCCceeEEEEEEEeccHHHHH
Confidence 2222221111 12234566554 5556665 666664 89999999998743
No 131
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.20 E-value=0.014 Score=79.25 Aligned_cols=140 Identities=9% Similarity=-0.019 Sum_probs=80.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHc
Q 037299 591 ELQGVDELSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALK 670 (1111)
Q Consensus 591 l~~~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~ 670 (1111)
.+..+.+++..++.++.+++++++||+++|.+|+|+++|+++++++|+......+.+.. ...+...+.+.........
T Consensus 564 r~~~~~~l~~~~~~~~~i~~~~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~ 641 (1197)
T PRK09959 564 RKVIQGDLENQISFRKALSDSLPNPTYVVNWQGNVISHNSAFEHYFTADYYKNAMLPLE--NSDSPFKDVFSNAHEVTAE 641 (1197)
T ss_pred HHHHHHHHHHHHHHHHHHHhhCCCcEEEEcCCCcEEEehHHHHHHhCcccccccccccc--cccCchhhhHhHHHHHHHH
Confidence 34556678888889999999999999999999999999999999999875443333221 1111111111111111111
Q ss_pred CC-CccceEEEEEEeccccCCcEEEEE-EEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHH
Q 037299 671 GE-EDKNVEIKLRTFGAENRKKAVFVV-VNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDY 736 (1111)
Q Consensus 671 ~~-~~~~~e~~l~~~~~~~dG~~~~v~-v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l 736 (1111)
.. .......... ..+|...++. ....+.....+...+++..++|||++++.+++++..+.+.
T Consensus 642 ~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dite~~~~~~~l~~~~~~~ 705 (1197)
T PRK09959 642 TKENRTIYTQVFE----IDNGIEKRCINHWHTLCNLPASDHAVYICGWQDITETRDLIHALEVERNKA 705 (1197)
T ss_pred HhhccccceeeEe----eecCccceeeeeeeeeeccCCCCceEEEEEEEehhHHHHHHHHHHHHHHHH
Confidence 11 1111111111 1223222221 1122222334455678888999999999988887655443
No 132
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=97.17 E-value=0.014 Score=73.57 Aligned_cols=114 Identities=18% Similarity=0.255 Sum_probs=79.1
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCc-cc
Q 037299 598 LSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEED-KN 676 (1111)
Q Consensus 598 L~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~-~~ 676 (1111)
+......+..+++++++||+++|.+|+|+++|+++++++|++.++++|+++. +++.... .+..++..+.. ..
T Consensus 198 ~~~~~~~~~~il~~~~~gVl~vD~~G~I~~~N~aa~~llg~s~~~l~G~~i~-~l~~~~~------~l~~vl~~~~~~~~ 270 (638)
T PRK11388 198 SNRHLNQLNALLESMDDGVIAWDEQGNLQFLNAQAARLLRLDATASQGRAIT-ELLTLPA------VLQQAIKQAHPLKH 270 (638)
T ss_pred HHHHHHHHHHHHhccCCcEEEECCCCeEehhhHHHHHHhCcCHHHHCCCcHH-HHhccch------HHHHHHhcCCceee
Confidence 3444455677999999999999999999999999999999999999999987 5553211 12233333332 11
Q ss_pred eEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHH
Q 037299 677 VEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLV 725 (1111)
Q Consensus 677 ~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~a 725 (1111)
.+..+ ..+|..+++.++..|+.+..| .+++.+.+|++..++.
T Consensus 271 ~~~~l-----~~~g~~~~~~v~~~Pi~~~~g--~~~v~~l~~~~~~~~~ 312 (638)
T PRK11388 271 VEVTF-----ESQGQFIDAVITLKPIIEGQG--TSFILLLHPVEQMRQL 312 (638)
T ss_pred EEEEE-----ecCCceEEEEEEEEeecccCc--eEEEEEehhhHHHHHH
Confidence 22222 234667788999999975444 3466667898876543
No 133
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=97.12 E-value=0.00087 Score=73.75 Aligned_cols=213 Identities=17% Similarity=0.164 Sum_probs=131.9
Q ss_pred HHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHc---CCCccceEEE---
Q 037299 607 RLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALK---GEEDKNVEIK--- 680 (1111)
Q Consensus 607 ~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~---~~~~~~~e~~--- 680 (1111)
.+++...-.||+++++|.|+|+...+.-.+|++.-|+.|..+. +++|+.|.+.+...+..+-. -+-.+.+-++
T Consensus 83 hlLqtLDGF~fvva~dGkimYISETaSvhLGLSQVElTGNsi~-eYIH~~D~demna~L~~h~H~qeyeIErsfflrmkC 161 (598)
T KOG3559|consen 83 HLLQTLDGFIFVVAPDGKIMYISETASVHLGLSQVELTGNSIY-EYIHPQDHDEMNAVLTAHQHLQEYEIERSFFLRMKC 161 (598)
T ss_pred hHHHhhcceEEEEeCCCCEEEEecceeeeecceeeEeecchhh-hhhcccchHHHHHHHhhhhhhhhhhhhhhhhhhhhh
Confidence 4667777789999999999999999999999999999999999 99999998877766543321 0001111111
Q ss_pred ---EEEeccccCCcE-EE----EEEEeEeec-cCCC---CEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCC
Q 037299 681 ---LRTFGAENRKKA-VF----VVVNACSSK-DYTN---NIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIP 748 (1111)
Q Consensus 681 ---l~~~~~~~dG~~-~~----v~v~~~pi~-d~~G---~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~ 748 (1111)
.+..+.+..|.. +. +.+.-.++. +..| +.+|++.++.-.-.-.-.+-+| ..+.
T Consensus 162 vlakrnaglt~sg~kvihcSgylKir~y~~~m~p~dscyqn~glvAvG~slP~saiteikl------------~sNm--- 226 (598)
T KOG3559|consen 162 VLAKRNAGLTCSGYKVIHCSGYLKIRQYELDMSPNDSCYQNVGLVAVGHSLPPSAITEIKL------------HSNM--- 226 (598)
T ss_pred hheeccccccccCcceEeecCcceEEEEeeccCCccchhheeeeEEecCCCCcccceEEEe------------ccce---
Confidence 111112222211 11 122222332 1111 3456666543321111111111 0111
Q ss_pred CccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCC
Q 037299 749 PIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGK 828 (1111)
Q Consensus 749 ~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~ 828 (1111)
-+|....|-++++......+++||++.+++++.+... +|..|...+...-...+..+....--+++..+.|.
T Consensus 227 FmfraslDlkliF~D~rv~qltgYepqdliektLY~~--------ih~~D~~~lr~~H~~ll~kGqvtTkYYR~l~k~gg 298 (598)
T KOG3559|consen 227 FMFRASLDLKLIFLDSRVHQLTGYEPQDLIEKTLYHH--------IHGCDSFHLRCAHHLLLVKGQVTTKYYRFLLKQGG 298 (598)
T ss_pred EEEEeecceEEEeehhhHHHhhCCCchhhhhHHHHHH--------hhhhhHHHHHHHHHHHHhccccccHHHHHHHcCCc
Confidence 3666778899999999999999999999999987443 34445554444444445445554455688899999
Q ss_pred EEEEEEEEeeeecCC
Q 037299 829 YVQALLTANKRVNME 843 (1111)
Q Consensus 829 ~~~v~~~~~pi~d~~ 843 (1111)
++|+.-...-+.+..
T Consensus 299 wvwvqsyat~vHnSr 313 (598)
T KOG3559|consen 299 WVWVQSYATFVHNSR 313 (598)
T ss_pred eEEEEEeeEEEeccc
Confidence 999988777666554
No 134
>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=97.10 E-value=0.0018 Score=53.81 Aligned_cols=59 Identities=29% Similarity=0.441 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHhhc-ccc
Q 037299 877 RLKELAYICQEIKNPLSGVSFTNSLLEATD-LTEDQKQLLETSAACEKQMLKIIKDV-DLE 935 (1111)
Q Consensus 877 r~~~La~isHEIrnPLt~I~~~~~LL~~~~-l~e~~~~~l~~i~~~~~~l~~lI~dL-dls 935 (1111)
+.++.+.++||+||||+++.++++.+.... ..++...++..+..+..++..+++++ +++
T Consensus 4 ~~~~~~~~~hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 64 (65)
T cd00082 4 KGEFLANVSHELRTPLTAIRGALELLEEELLDDEEQREYLERIREEAERLLRLINDLLDLS 64 (65)
T ss_pred HHHHHHHHhHHhcchHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456788899999999999998888887543 36777888999999999999999986 543
No 135
>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=97.01 E-value=0.00032 Score=69.66 Aligned_cols=91 Identities=18% Similarity=0.303 Sum_probs=58.6
Q ss_pred HHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCC----------CCCC
Q 037299 994 QQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSR----------WMTQ 1063 (1111)
Q Consensus 994 ~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~----------~~~G 1063 (1111)
.++|.+|+.||+++.. ..|.|.+..... + ...|.|.|||.||+.+.+...|.... ..+.
T Consensus 4 ~~al~ElI~Ns~DA~a---~~I~I~i~~~~~--~------~~~i~I~DnG~Gm~~~~l~~~~~~g~s~k~~~~~~~~~G~ 72 (137)
T PF13589_consen 4 EDALRELIDNSIDAGA---TNIKISIDEDKK--G------ERYIVIEDNGEGMSREDLESFFRIGRSSKKSEKDRQSIGR 72 (137)
T ss_dssp THHHHHHHHHHHHHHH---HHEEEEEEEETT--T------TTEEEEEESSS---HHHHHHHTTCHHTHHHHHHHGGGGGG
T ss_pred HHHHHHHHHHHHHccC---CEEEEEEEcCCC--C------CcEEEEEECCcCCCHHHHHHhccccCCCCCchhhhhcCCC
Confidence 4789999999999765 357777765431 0 23688889999999999999776531 1123
Q ss_pred ccch--HHHHHHHHHHcCCEEEEEecCCceEEEEEEEee
Q 037299 1064 EGLG--LSMCRKILKLMNGEVQYIRESERCYFLIIFELP 1100 (1111)
Q Consensus 1064 ~GLG--L~i~r~iVe~~gG~I~v~s~~ggstF~~~L~LP 1100 (1111)
-|+| +++. .++..+.+.|...+..+.+++.++
T Consensus 73 ~G~G~k~A~~-----~~~~~~~v~S~~~~~~~~~~~~~~ 106 (137)
T PF13589_consen 73 FGIGLKLAIF-----SLGDRVEVISKTNGESFTYTIDYD 106 (137)
T ss_dssp GTSGCGGGGG-----GTEEEEEEEEESTTSSSEEEEEEE
T ss_pred cceEHHHHHH-----HhcCEEEEEEEECCCCcEEEEEEe
Confidence 4777 4444 578899998876542223444444
No 136
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=96.95 E-value=0.0028 Score=73.09 Aligned_cols=99 Identities=20% Similarity=0.261 Sum_probs=76.3
Q ss_pred CccEEeecHHHHHHcCCChhhhcCCcccccccchhh--HHHHHHHHHHHHcCCCccceEEEEEEeccccCCcEEEEEEEe
Q 037299 622 HGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEY--EEIVDNLLHHALKGEEDKNVEIKLRTFGAENRKKAVFVVVNA 699 (1111)
Q Consensus 622 dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~--~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~~~v~v~~ 699 (1111)
|.-|+|+|+.||.+.||.+.|++-++....|.+.+. .+.+ +.++..++..+...+|+-+- .|+..++|+.+..
T Consensus 39 D~PiVY~NdgFcKlsGY~RAevMQKs~tc~FMyGEltdk~ti-~k~~~t~eN~~~~qfEilly----KKN~TPvW~~vqi 113 (971)
T KOG0501|consen 39 DWPIVYCNDGFCKLSGYHRAEVMQKSCTCSFMYGELTDKGTI-EKVRQTLENYETNQFEILLY----KKNRTPVWLLVQI 113 (971)
T ss_pred ccceEEecCcchhccCccHHHHhcccceeeeeeccccchhhH-HHHHHHHHhhhhcceeeEee----ecCCCceEEEEEe
Confidence 788999999999999999999999987655555432 2222 22344444444444455444 6788999999999
Q ss_pred EeeccCCCCEEEEEEEEEechhHHHH
Q 037299 700 CSSKDYTNNIVGVCFVGQDVTDQKLV 725 (1111)
Q Consensus 700 ~pi~d~~G~v~gvv~v~~DITerK~a 725 (1111)
.||+++.+.++-+.+.+.|||..|+-
T Consensus 114 APIrNe~d~VVLfLctFkDIT~~KQP 139 (971)
T KOG0501|consen 114 APIRNEKDKVVLFLCTFKDITALKQP 139 (971)
T ss_pred ecccCCCceEEEEEeecccchhhcCC
Confidence 99999999999999999999998874
No 137
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=96.83 E-value=0.0011 Score=76.18 Aligned_cols=99 Identities=17% Similarity=0.213 Sum_probs=79.4
Q ss_pred CCccccchhhhHHHhCCCccccccccccccccccccccCC-hhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCEEEEEE
Q 037299 756 NTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKG-PDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKYVQALL 834 (1111)
Q Consensus 756 ~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~-~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~v~~ 834 (1111)
|.-|+|+|..|+++.||.+.|+..|+-. |.+.+ .-....-.+.+++.++..+...+|+-+..++...+|+.+
T Consensus 39 D~PiVY~NdgFcKlsGY~RAevMQKs~t-------c~FMyGEltdk~ti~k~~~t~eN~~~~qfEillyKKN~TPvW~~v 111 (971)
T KOG0501|consen 39 DWPIVYCNDGFCKLSGYHRAEVMQKSCT-------CSFMYGELTDKGTIEKVRQTLENYETNQFEILLYKKNRTPVWLLV 111 (971)
T ss_pred ccceEEecCcchhccCccHHHHhcccce-------eeeeeccccchhhHHHHHHHHHhhhhcceeeEeeecCCCceEEEE
Confidence 4568999999999999999999998752 22221 222223344566677777888999999999999999999
Q ss_pred EEeeeecCCCCEEEEEeeeecccHHHH
Q 037299 835 TANKRVNMEGQIVGAFCFLQIASPELQ 861 (1111)
Q Consensus 835 ~~~pi~d~~G~v~g~v~~~~DITer~~ 861 (1111)
...|++++...++-++|.+.|||.-+|
T Consensus 112 qiAPIrNe~d~VVLfLctFkDIT~~KQ 138 (971)
T KOG0501|consen 112 QIAPIRNEKDKVVLFLCTFKDITALKQ 138 (971)
T ss_pred EeecccCCCceEEEEEeecccchhhcC
Confidence 999999999999999999999997443
No 138
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=96.82 E-value=0.0058 Score=70.10 Aligned_cols=238 Identities=12% Similarity=0.114 Sum_probs=150.9
Q ss_pred HHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcC------CCcc----
Q 037299 606 VRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKG------EEDK---- 675 (1111)
Q Consensus 606 ~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~------~~~~---- 675 (1111)
+.++++..-.++++..+|.|.|+....+..+|+-..+++-++++ +++|.+|++.+++.+.-++.- +...
T Consensus 114 e~lLqsLnGF~lVvt~eg~ifyAS~tIedYLGFhQSDV~HQsVY-dlIHseDR~dfqrQLhwa~~ppq~~~s~q~~~e~~ 192 (712)
T KOG3560|consen 114 ELLLQSLNGFALVVTAEGEIFYASATIEDYLGFHQSDVMHQSVY-DLIHSEDRQDFQRQLHWAMDPPQVVFSQQPPLETG 192 (712)
T ss_pred HHHHHhcCCeEEEEecCceEEEehhhHHhhhcccccchhhhhHH-HHhhhhhHHHHHHHHhhccCCchhhccCCCccccc
Confidence 56888999999999999999999999999999999999999999 999999999998877554421 1110
Q ss_pred -ceEEEEEEec--cccCC---cEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHH-------hHHHHHHHHHhC
Q 037299 676 -NVEIKLRTFG--AENRK---KAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFI-------HIQGDYKAIVHS 742 (1111)
Q Consensus 676 -~~e~~l~~~~--~~~dG---~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~-------~se~~l~~i~~~ 742 (1111)
....+...++ .-.+. -.+-+.++..++.|... |+.. .|+-.+-+.-.-.. ...-++..+.=+
T Consensus 193 ~~~~~~~~~~~d~~ppens~yleRcficR~RCLLDnTs---GFLa--mdfqGklk~LhGqkkk~~~g~~lpP~LaLf~ia 267 (712)
T KOG3560|consen 193 DDAILRAQEWGDGTPPENSAYLERCFICRFRCLLDNTS---GFLA--MDFQGKLKFLHGQKKKAPSGAMLPPRLALFCIA 267 (712)
T ss_pred cccceeeeccCccCCcccchHHhhhheeeEEEeecCCc---ceee--eecccceeeecCCcccCCCCccCCCceeEEEEe
Confidence 0000111000 00111 12334555555655443 2222 34433221100000 000000000000
Q ss_pred CCCCCCC---------cccc--CCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhC
Q 037299 743 PNPLIPP---------IFAS--DENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFG 811 (1111)
Q Consensus 743 ~~~l~~~---------I~v~--D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~ 811 (1111)
.+-+|+. |+-. -.|+..+.+......++||...|+.|.. .+.++|-+|...+.+...+.+.
T Consensus 268 tP~~pPS~lEi~~k~~i~rtKhklDfa~vs~Dak~k~~lgy~eaEL~~m~--------gY~lvH~~D~~y~Aeah~e~ik 339 (712)
T KOG3560|consen 268 TPFLPPSALEIKMKSAILRTKHKLDFALVSMDAKVKATLGYCEAELHGMP--------GYNLVHVEDKVYMAEAHSEGIK 339 (712)
T ss_pred cCCCCchhhhhhhhhhhhhcccccccceeccchhhhhhhccchhhccCCC--------ccceeehhhhhhhhHHHHHHhh
Confidence 0111110 1111 1355566677778889999999999855 3677889999888889999999
Q ss_pred CCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccH
Q 037299 812 GQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASP 858 (1111)
Q Consensus 812 ~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITe 858 (1111)
.++..-.-++...++|++.|+-.++.-++ .+|+.-.+++.-+-.++
T Consensus 340 tgeSGmlvyR~qtk~grw~wvqssarlly-kngkPD~vi~thr~l~D 385 (712)
T KOG3560|consen 340 TGESGMLVYREQTKAGRWAWVQSSARLLY-KNGKPDLVIDTHRGLGD 385 (712)
T ss_pred cCCcceEEEEEeecCCcEEEeeccceeee-ecCCCCEEEecCCCccc
Confidence 99999999999999999999998876665 56666666666665555
No 139
>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=96.80 E-value=0.0042 Score=49.06 Aligned_cols=64 Identities=33% Similarity=0.449 Sum_probs=53.9
Q ss_pred HHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHH
Q 037299 604 EMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHA 668 (1111)
Q Consensus 604 ~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~ 668 (1111)
+++.+++.++++++.+|.++.+.++|+.+.+++|++..++.|+.+. .++++.+...+...+..+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 65 (67)
T smart00091 2 RLRAILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLL-ELIHPEDREEVQEALQRL 65 (67)
T ss_pred hHHHHHhhCCceEEEEcCCCeEEEECHHHHHHhCCCHHHHcCCcHH-HhcCcccHHHHHHHHHHH
Confidence 4577899999999999999999999999999999999999998877 777777766666555443
No 140
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms]
Probab=96.53 E-value=0.0044 Score=62.33 Aligned_cols=123 Identities=18% Similarity=0.255 Sum_probs=76.8
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHHHHHhhCCCeEEEEeecCCCC--cEEEEEecCCCCCCccCCCCCCCCchHH-HHHH
Q 037299 221 VRAISQLQSLPGGDIKLLCDTVVESVRQLTGYDRVMVYRFHEDEH--GEVVAESKRPDLEPYFGLHYPATDIPQA-SRFL 297 (1111)
Q Consensus 221 ~~~i~~l~~~~~~~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~--G~VvaE~~~~~~~~~lg~~~pa~dip~~-ar~l 297 (1111)
......+.. +.+++++++.+++.+.+.+|+||..||++++++. +.++++.......+...-.+.....|.- ....
T Consensus 7 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (175)
T COG2203 7 NELAAKIAQ--DLDLEEILQAALELLAELLGADRGLIYLLDEDGLLDGALVAEAAEAGLEQLIDELFGLVILPACLIGIA 84 (175)
T ss_pred HHHHHHHHH--HCCHHHHHHHHHHHHHHHhhccHHhhheeccccccchHHHHHHhcchhhhhHHHHhcccCcchhhhhhh
Confidence 344555555 5699999999999999999999999999999995 7666665544301111111110000000 1111
Q ss_pred HHhCCeeEeeccCCCcceeecCCCCCCcccccCccccCCChhHHHHHHhcCcceEEEEEEEEcCCCcccc
Q 037299 298 FKQNRVRMIVDCHATPLCVIQDEGLMQPLCLVGSTLRAPHGCHAQYMANMGSIASLALAVIINGNDEEAV 367 (1111)
Q Consensus 298 y~~n~~r~i~d~~~~~~~~~~~~~~~~~ldls~~~lRsvsp~h~~yl~nmgv~asl~~~i~~~~~~~~~~ 367 (1111)
.......++.|+...|.. ..+|..++... ++|.+++||+.+|++||..
T Consensus 85 ~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~~~~-i~~~l~vPl~~~~~~~G~l 132 (175)
T COG2203 85 LREGRPVVVEDILQDPRF---------------------RDNPLVLLEPP-IRSYLGVPLIAQGELLGLL 132 (175)
T ss_pred hcCCceEEeeccccCccc---------------------ccCHHHHHHHH-HHHheeeeeeECCEeeEEe
Confidence 223333444554433322 12677767665 8999999999998888865
No 141
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=96.48 E-value=0.007 Score=67.74 Aligned_cols=115 Identities=18% Similarity=0.167 Sum_probs=91.0
Q ss_pred HHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEE
Q 037299 603 REMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLR 682 (1111)
Q Consensus 603 ~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~ 682 (1111)
+++.+++.+.|.-|-.+|.++++.+.|+. .++|-+++.. +|++.. ..-+|.....+...+.....|.....--| +
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-IGRRVQ-LCHPPKSVHIVEKILKDFKSGEKDFAEFW-I- 364 (409)
T ss_pred HHHHHHHhhCCCceEEecccceEEecCCc-ceecccChHh-hCCccc-CCCCCchHHHHHHHHHHhhcCCcchHHHh-c-
Confidence 46789999999999999999999999998 8888888765 599987 66667777778887777777765432222 1
Q ss_pred EeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHH
Q 037299 683 TFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDK 728 (1111)
Q Consensus 683 ~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~ 728 (1111)
+-....+-++..+++|++|...|+.-+.+|||..|..+-+
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 1223456677888999999999999999999999887654
No 142
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=96.43 E-value=0.012 Score=73.15 Aligned_cols=80 Identities=13% Similarity=0.149 Sum_probs=57.2
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCCCC---------
Q 037299 991 ARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSRWM--------- 1061 (1111)
Q Consensus 991 ~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~--------- 1061 (1111)
.++..|+.+|+.||+++. + ..|.|.+... + ...|+|.|||.|||++.+..+|.++.+.
T Consensus 21 ~~~~svvkElveNsiDAg-a--t~I~v~i~~~-g---------~~~i~V~DnG~Gi~~~~~~~~~~~~~tsKi~~~~dl~ 87 (617)
T PRK00095 21 ERPASVVKELVENALDAG-A--TRIDIEIEEG-G---------LKLIRVRDNGCGISKEDLALALARHATSKIASLDDLE 87 (617)
T ss_pred cCHHHHHHHHHHHHHhCC-C--CEEEEEEEeC-C---------eEEEEEEEcCCCCCHHHHHHHhhccCCCCCCChhHhh
Confidence 356789999999999965 3 6788887432 2 5679999999999999999999874211
Q ss_pred ----CC-ccchHHHHHHHHHHcCCEEEEEecC
Q 037299 1062 ----TQ-EGLGLSMCRKILKLMNGEVQYIRES 1088 (1111)
Q Consensus 1062 ----~G-~GLGL~i~r~iVe~~gG~I~v~s~~ 1088 (1111)
-| .|.||+-+-.+ +.+.+.|..
T Consensus 88 ~~~t~GfrGeAL~sI~~v-----s~l~i~s~~ 114 (617)
T PRK00095 88 AIRTLGFRGEALPSIASV-----SRLTLTSRT 114 (617)
T ss_pred ccccCCcchhHHHhhhhc-----eEEEEEEec
Confidence 12 36677665433 356666654
No 143
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=96.40 E-value=0.0023 Score=54.17 Aligned_cols=36 Identities=25% Similarity=0.338 Sum_probs=31.7
Q ss_pred HHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCC
Q 037299 734 GDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWS 773 (1111)
Q Consensus 734 ~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~ 773 (1111)
++|+.++++++. ||+++| +++|+++|+++++++||+
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 478999999987 899999 889999999999999998
No 144
>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=96.29 E-value=0.071 Score=52.97 Aligned_cols=110 Identities=13% Similarity=0.024 Sum_probs=86.4
Q ss_pred HHHHHHHHhcCCcEEEEcC--CccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccce-EE
Q 037299 603 REMVRLIETATAPIFAVDV--HGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNV-EI 679 (1111)
Q Consensus 603 ~~l~~lie~~~~~I~~~D~--dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~-e~ 679 (1111)
..++.+++ +|.+|+..|. |=.++|.|.++.++|+++-+++++.+.. .-..+..++.-...+.++.+.|-...+ .+
T Consensus 32 ~~~~~L~~-ap~ailsh~~~~dP~f~yaN~aaL~l~e~~w~el~~lPsr-~sae~~~r~er~~lL~~v~~qG~~~~y~Gi 109 (148)
T PF08670_consen 32 ELAKALWH-APFAILSHGTKADPIFIYANQAALDLFETTWDELVGLPSR-LSAEEPERKERQSLLAQVMQQGYIDNYSGI 109 (148)
T ss_pred HHHHHHHc-CCCEEEEcCCCCCCEEEehhHHHHHHhcCCHHHHhcCcHh-hccChhhHHHHHHHHHHHHHhCCccCCCeE
Confidence 44556666 9999999875 6789999999999999999999999987 556777788888888888877654433 34
Q ss_pred EEEEeccccCCcEEEEE-EEeEeeccCCCCEEEEEEEEEec
Q 037299 680 KLRTFGAENRKKAVFVV-VNACSSKDYTNNIVGVCFVGQDV 719 (1111)
Q Consensus 680 ~l~~~~~~~dG~~~~v~-v~~~pi~d~~G~v~gvv~v~~DI 719 (1111)
++ .+.|..+++. ..+--+.|++|+..|...++.+-
T Consensus 110 Ri-----ss~Grrf~ie~a~vW~l~D~~g~~~GqAa~F~~W 145 (148)
T PF08670_consen 110 RI-----SSTGRRFRIERATVWNLIDEDGNYCGQAAMFSNW 145 (148)
T ss_pred EE-----cCCCCeEEEeceEEEEEEcCCCCEEEEEEEEeee
Confidence 44 3678877774 56667889999999999888764
No 145
>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=96.27 E-value=0.062 Score=66.13 Aligned_cols=120 Identities=10% Similarity=0.104 Sum_probs=79.7
Q ss_pred HHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhCCCeEEEEeecCCCCcEEEEEecCCCCCCccCCCCCCCCchHHHHHHHH
Q 037299 220 AVRAISQLQSLPGGDIKLLCDTVVESVRQLTGYDRVMVYRFHEDEHGEVVAESKRPDLEPYFGLHYPATDIPQASRFLFK 299 (1111)
Q Consensus 220 ~~~~i~~l~~~~~~~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~G~VvaE~~~~~~~~~lg~~~pa~dip~~ar~ly~ 299 (1111)
+.++...+.. +.+++++++.+++.+.+++|+||..||-+++++.-.++ .+....-+..-..+||... --....+.
T Consensus 7 L~~is~~l~~--~~dl~~lL~~il~~l~~~l~a~~~~I~L~d~~~~~l~~-aa~g~~~~~~~~~~~~~~~--gi~g~v~~ 81 (534)
T TIGR01817 7 LYEISKILSA--PTRLEKTLANVLNVLSNDLGMRHGLITLSDSEGEPLLV-AAIGWSEEGFAPIRYRVGE--GAIGQIVA 81 (534)
T ss_pred HHHHHHHHhc--cCCHHHHHHHHHHHHHHhcCCCEEEEEEECCCCCEEEE-EEeCCChhhcccccccCCc--cHHHHHHh
Confidence 3444455555 56999999999999999999999999999888654333 3332221111123444321 23456777
Q ss_pred hCCeeEeeccCCCcceeecCCCCCCcccccCccccCCChhHHHHHHhcCcceEEEEEEEEcCCCcccc
Q 037299 300 QNRVRMIVDCHATPLCVIQDEGLMQPLCLVGSTLRAPHGCHAQYMANMGSIASLALAVIINGNDEEAV 367 (1111)
Q Consensus 300 ~n~~r~i~d~~~~~~~~~~~~~~~~~ldls~~~lRsvsp~h~~yl~nmgv~asl~~~i~~~~~~~~~~ 367 (1111)
.+..-+|.|+...|... .++ -+...|+++-|++||+.+|+..|..
T Consensus 82 ~~~pvii~Dv~~d~~~~---------------------~~~--~~~~~~~~S~l~VPL~~~g~viGvL 126 (534)
T TIGR01817 82 TGNSLVVPDVAAEPLFL---------------------DRL--SLYDPGPVPFIGVPIKADSETIGVL 126 (534)
T ss_pred cCCeEEecccccCchhh---------------------hcc--ccccCCcceEEEEEEcCCCEEEEEE
Confidence 88888899986554321 000 0234678999999999998888865
No 146
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=95.91 E-value=0.013 Score=72.67 Aligned_cols=93 Identities=12% Similarity=0.238 Sum_probs=61.1
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC-CceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhh--------ccCCC-
Q 037299 989 DQARIQQVLADFLLNMVRYSPSA-EGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQD--------MFHSS- 1058 (1111)
Q Consensus 989 D~~~L~qVl~nLl~NAik~t~~~-~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~--------iFepf- 1058 (1111)
+...|..++.+++.||++..... ...|.|.+...+ .|+|.|||+|||.+..+. +|...
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 35688999999999999975441 246777765421 489999999999998887 77551
Q ss_pred ---------C-CCCC-ccchHHHHHHHHHHcCCEEEEEecCCceEEEEEE
Q 037299 1059 ---------R-WMTQ-EGLGLSMCRKILKLMNGEVQYIRESERCYFLIIF 1097 (1111)
Q Consensus 1059 ---------~-~~~G-~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L 1097 (1111)
+ .+.| .|.|++.+-.+-+ .+.+++..+|-.+..++
T Consensus 102 agsKf~~~~yk~SgGl~GvGls~vNalS~----~l~V~s~r~g~~~~~~f 147 (631)
T PRK05559 102 AGGKFSNKAYKFSGGLHGVGVSVVNALSS----RLEVEVKRDGKVYRQRF 147 (631)
T ss_pred ccCccCCccccccCcccccchhhhhhhee----eEEEEEEeCCeEEEEEE
Confidence 1 1223 4999998855533 34554444433233333
No 147
>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=95.91 E-value=0.03 Score=53.28 Aligned_cols=63 Identities=13% Similarity=0.187 Sum_probs=51.9
Q ss_pred HHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHc
Q 037299 608 LIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALK 670 (1111)
Q Consensus 608 lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~ 670 (1111)
-+|..|-|++-+|.+|+|+..|.+-.++.|++++.++|+++..++.+--....+...+.+..+
T Consensus 21 elD~lpFGvI~lD~~G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAPC~~~~~f~gRF~~g~~ 83 (124)
T TIGR02373 21 QFDALPFGAIQLDGSGVILRYNAAEGRITGRDPERVIGRNFFKEVAPCTDIPEFSGRFMEGVA 83 (124)
T ss_pred HhhcCCcceEEECCCCEEEEEecchhhhcCCChhhhhchhhhhhcccccCCHHHHHHHHhhhh
Confidence 378999999999999999999999999999999999999998566655555555555555443
No 148
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A.
Probab=95.86 E-value=0.054 Score=52.22 Aligned_cols=98 Identities=18% Similarity=0.240 Sum_probs=60.7
Q ss_pred CHHHHHHHHHHHHHHhhCCCeEEEEeecCCCCcEEEEEecCCCCCCccCCCCCCCCchHHHHHHHHhCCeeEeeccCCCc
Q 037299 234 DIKLLCDTVVESVRQLTGYDRVMVYRFHEDEHGEVVAESKRPDLEPYFGLHYPATDIPQASRFLFKQNRVRMIVDCHATP 313 (1111)
Q Consensus 234 ~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~G~VvaE~~~~~~~~~lg~~~pa~dip~~ar~ly~~n~~r~i~d~~~~~ 313 (1111)
|++++++.+++.+++++|+|++.||.++++..--.++... . ..+-+.-.+| .+-| .....+.++.....+|....+
T Consensus 1 dl~~l~~~i~~~l~~~~~~~~~~l~~~d~~~~~~~~~~~~-~-~~~~~~~~l~-~~~~-~~~~~~~~~~~~~~~~~~~~~ 76 (129)
T PF13492_consen 1 DLDELLERILELLRELLGADRAALFLLDEDGNRLRVVAGW-G-GDPRLSESLP-EDDP-LIGRALETGEPVSVPDIDERD 76 (129)
T ss_dssp -HHHHHHHHHHHHHHHST-SEEEEEEEETTCECEEEEEEE-S-S-GCGHHCEE-TTSH-HHHHHHHHTS-EEESTCCC-T
T ss_pred CHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCEEEEEEEe-C-CCccccccCC-CCcc-HHHHHHhhCCeEEeccccccc
Confidence 5899999999999999999999999999875433333333 1 1222222555 3333 334666777665555532211
Q ss_pred ceeecCCCCCCcccccCccccCCChhHHHHHHhcCcceEEEEEEEEcCCCcccc
Q 037299 314 LCVIQDEGLMQPLCLVGSTLRAPHGCHAQYMANMGSIASLALAVIINGNDEEAV 367 (1111)
Q Consensus 314 ~~~~~~~~~~~~ldls~~~lRsvsp~h~~yl~nmgv~asl~~~i~~~~~~~~~~ 367 (1111)
. .+.++.|++||..+++.+|..
T Consensus 77 ~--------------------------------~~~~s~~~vPl~~~~~~~Gvl 98 (129)
T PF13492_consen 77 F--------------------------------LGIRSLLVVPLRSRDRVIGVL 98 (129)
T ss_dssp T--------------------------------TTTCEEEEEEEEETTEEEEEE
T ss_pred C--------------------------------CCCCEEEEEEEeECCEEEEEE
Confidence 0 455888999999986666543
No 149
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=95.75 E-value=0.011 Score=66.00 Aligned_cols=116 Identities=14% Similarity=0.138 Sum_probs=89.6
Q ss_pred HHHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHH
Q 037299 726 MDKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIA 805 (1111)
Q Consensus 726 e~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~ 805 (1111)
.-+++.-...|..+ +.... +|-+.|.+..+.|+|++|++++|+-+.|++|++..+.- +....+..+...
T Consensus 150 afkiRAcnalFaaL-D~c~e---AiEI~~ddhViQYVNpAfE~mmG~hkgEliGke~adlp-------kkdknradlldt 218 (775)
T KOG1229|consen 150 AFKIRACNALFAAL-DECDE---AIEICDDDHVIQYVNPAFENMMGCHKGELIGKEEADLP-------KKDKNRADLLDT 218 (775)
T ss_pred HHHHhhhHHHHHHH-hhhhh---hheeccchhHHHHhcHHHHhhhcchhhhhcCCchhhcc-------ccccchhhhhhh
Confidence 33444444444333 33333 78999999999999999999999999999999864322 113455667788
Q ss_pred HHhhhCCCCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEee
Q 037299 806 LHNAFGGQDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCF 852 (1111)
Q Consensus 806 l~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~ 852 (1111)
++..+..+..+..+...+++.|......+...|+.+..|++..++..
T Consensus 219 intcikkgke~qG~~~aRRksgdS~dqh~~itP~~gqggkirhfvsl 265 (775)
T KOG1229|consen 219 INTCIKKGKEAQGEEEARRKSGDSCDQHFIITPFAGQGGKIRHFVSL 265 (775)
T ss_pred hhHhhhcCccccchHHHhhccCCcccceEEEeeecCCCCceeeehhh
Confidence 88999999999999999999999999999999999999998776643
No 150
>PF10090 DUF2328: Uncharacterized protein conserved in bacteria (DUF2328); InterPro: IPR018762 Members of this family of hypothetical bacterial proteins have no known function.
Probab=95.63 E-value=0.75 Score=47.84 Aligned_cols=172 Identities=10% Similarity=0.120 Sum_probs=106.5
Q ss_pred HHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhccccccccCCcceeeEeecHHHHHHHHHHHHHHHhhccCcE
Q 037299 893 SGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDVDLESIEDGSLEFEKAEFLLGSVINAVVSQVMMLLRERNLQ 972 (1111)
Q Consensus 893 t~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dLdlsri~~g~~~l~~~~~~L~~vi~~v~~~~~~~~~~~~i~ 972 (1111)
.+|.+.++||.+....+... .++-|.+++..+..-+ .|.|+.-|.... -..++..++-. .++..+....++
T Consensus 2 GAI~NGLELL~~~~~~~~~~-~~~LI~~Sa~~A~aRl---~F~RlAFGaag~-~~~i~~~e~~~----~~~~~~~~~r~~ 72 (182)
T PF10090_consen 2 GAINNGLELLDDEGDPEMRP-AMELIRESARNASARL---RFFRLAFGAAGS-GQQIDLGEARS----VLRGYFAGGRIT 72 (182)
T ss_pred cchhhhHHHHcCCCCccchH-HHHHHHHHHHHHHHHH---HHHHHHcCCCCC-CCCCCHHHHHH----HHHHHHhCCceE
Confidence 35777889998765533322 6666666555554444 466665555433 45666665432 223333445677
Q ss_pred EEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCC--CCChhh
Q 037299 973 LIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGE--GLPPEL 1050 (1111)
Q Consensus 973 l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~--GIp~e~ 1050 (1111)
+....+.+.. +....+++.|++.-+..+.|- +|.|+|.+....+ ...++|+=+|. -+|++.
T Consensus 73 l~W~~~~~~~-------~k~~vklllnl~l~a~~alpr-GG~i~V~~~~~~~---------~~~~~v~a~G~~~~~~~~~ 135 (182)
T PF10090_consen 73 LDWQVERDLL-------PKPEVKLLLNLLLCAEDALPR-GGEITVSIEGSEG---------DGGWRVRAEGPRARLDPDL 135 (182)
T ss_pred EEccCccccC-------CHHHHHHHHHHHHHHHhhcCC-CCEEEEEEeccCC---------CceEEEEEeccccCCCHHH
Confidence 7777666521 223448889999999999998 8999998655444 22344445554 555555
Q ss_pred hhhccCCC--CCCCCccchHHHHHHHHHHcCCEEEEEecCCc
Q 037299 1051 VQDMFHSS--RWMTQEGLGLSMCRKILKLMNGEVQYIRESER 1090 (1111)
Q Consensus 1051 ~~~iFepf--~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~gg 1090 (1111)
..-+-..- ........--+....+++..|++|.++...+.
T Consensus 136 ~~~L~g~~~~~~l~~~~VQ~~~~~~la~~~G~~l~~~~~~~~ 177 (182)
T PF10090_consen 136 WAALAGEDPEEDLDPRNVQFYLLPLLAREAGRRLSVEATEDA 177 (182)
T ss_pred HHHhcCCCCCCCCCHHhHHHHHHHHHHHHcCCeEEEEecCCE
Confidence 54444321 22334467778888999999999999875554
No 151
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=95.57 E-value=0.027 Score=67.11 Aligned_cols=99 Identities=13% Similarity=0.092 Sum_probs=79.8
Q ss_pred EcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEeccccCCcEEEEEEE
Q 037299 619 VDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAENRKKAVFVVVN 698 (1111)
Q Consensus 619 ~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~~~v~v~ 698 (1111)
...|.+|+||.+++.+++||.+++++|++++ .|+|..|.+.+..-....+..|....-.+++. .++|+.+|+...
T Consensus 280 hs~DmkityCedRisdlm~y~PeeLvGrS~Y-e~~Ha~Ds~~v~KSh~dL~~KGQv~TgyYR~l----ak~GGyvWlQTq 354 (768)
T KOG3558|consen 280 HSLDMKITYCEDRISDLMDYEPEELVGRSCY-EFVHALDSDRVRKSHHDLLTKGQVVTGYYRLL----AKNGGYVWLQTQ 354 (768)
T ss_pred eecceeEEEEchhHHHHhcCCHHHhhchhHH-HhhhHhhhhHHHHHHHHHHhcCccchhHHHHH----HhcCCeEEEEee
Confidence 4679999999999999999999999999999 99999999999999999998887655555554 689999999999
Q ss_pred eEeeccCC-CCEEEEEEEEEechhH
Q 037299 699 ACSSKDYT-NNIVGVCFVGQDVTDQ 722 (1111)
Q Consensus 699 ~~pi~d~~-G~v~gvv~v~~DITer 722 (1111)
++.+.+.. ++.-.+++|--=|+.+
T Consensus 355 ATVi~~tkn~q~q~IicVnYVlS~~ 379 (768)
T KOG3558|consen 355 ATVIYNTKNPQEQNIICVNYVLSNI 379 (768)
T ss_pred eEEEecCCCCCcceEEEEEeeeccc
Confidence 98887543 3334455554444443
No 152
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=95.46 E-value=0.53 Score=57.57 Aligned_cols=120 Identities=13% Similarity=0.130 Sum_probs=76.7
Q ss_pred HHHHHhhcCCCCCHHHHHHHHHHHHHHhhCCCeEEEEeecCCCCcEEEEEecCCCCCCccCCCCCCCCchHHHHHHHHhC
Q 037299 222 RAISQLQSLPGGDIKLLCDTVVESVRQLTGYDRVMVYRFHEDEHGEVVAESKRPDLEPYFGLHYPATDIPQASRFLFKQN 301 (1111)
Q Consensus 222 ~~i~~l~~~~~~~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~G~VvaE~~~~~~~~~lg~~~pa~dip~~ar~ly~~n 301 (1111)
++...|.+ +.+++++++.+++.+++.+++|.+-|+-++++ ++...+..+.-....+..|+..+=|--...+ ..+
T Consensus 8 eis~~L~~--s~d~~e~L~~vl~~l~~~l~~~~~~l~l~~~~---~l~~~as~gl~~~~~~~~~~~geGP~l~av~-~~g 81 (509)
T PRK05022 8 PIALDLSR--GLPHQDRFQRLLTTLRQVLPCDASALLRLDGD---QLVPLAIDGLSPDVLGRRFALEEHPRLEAIL-RAG 81 (509)
T ss_pred HHHHHHhc--CCCHHHHHHHHHHHHHHHcCCCEEEEEecCCC---cEEEEEEcCCChHhhCCccCCCcchHHHHHH-hcC
Confidence 34445555 77999999999999999999999999998753 4333344443344566788777655433332 324
Q ss_pred CeeEeeccCCCcceeecCCCCCCcccccCccccCCChhHHHHHHhcCcceEEEEEEEEcCCCcccc
Q 037299 302 RVRMIVDCHATPLCVIQDEGLMQPLCLVGSTLRAPHGCHAQYMANMGSIASLALAVIINGNDEEAV 367 (1111)
Q Consensus 302 ~~r~i~d~~~~~~~~~~~~~~~~~ldls~~~lRsvsp~h~~yl~nmgv~asl~~~i~~~~~~~~~~ 367 (1111)
.+-.|+|...-|.++ + . ..+ ....++|+++.|++||..+|+..|.+
T Consensus 82 ~~v~v~~~~~~p~~~-~-----~-------~~~-------~~~~~~gi~S~l~vPL~~~~~~~GvL 127 (509)
T PRK05022 82 DPVRFPADSELPDPY-D-----G-------LIP-------GVQESLPVHDCMGLPLFVDGRLIGAL 127 (509)
T ss_pred CeEEEecCCCCCccc-c-----c-------ccc-------cccccCCcceEEEEEEEECCEEEEEE
Confidence 444555443222221 0 0 000 01345799999999999999888854
No 153
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=95.40 E-value=0.14 Score=59.65 Aligned_cols=109 Identities=13% Similarity=0.047 Sum_probs=73.8
Q ss_pred CCHHHHHHHHHHHHHHhhCCCeEEEEeecCCCCcEEEEEecCCCCCCccCCCCCCCCchHHHHH-HHHhCC-eeEe-ecc
Q 037299 233 GDIKLLCDTVVESVRQLTGYDRVMVYRFHEDEHGEVVAESKRPDLEPYFGLHYPATDIPQASRF-LFKQNR-VRMI-VDC 309 (1111)
Q Consensus 233 ~~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~G~VvaE~~~~~~~~~lg~~~pa~dip~~ar~-ly~~n~-~r~i-~d~ 309 (1111)
.+++.++..+++++..+.|||+++++++|.+. .+..+...-..+++|.+-+....|.+.-+ .+..+. ++++ .|+
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 55555555556777775555556665533 444444 4441 222
Q ss_pred CCCcceeecCCCCCCcccccCccccCCChhHHHHHHhcCcceEEEEEEEEcCCCccc
Q 037299 310 HATPLCVIQDEGLMQPLCLVGSTLRAPHGCHAQYMANMGSIASLALAVIINGNDEEA 366 (1111)
Q Consensus 310 ~~~~~~~~~~~~~~~~ldls~~~lRsvsp~h~~yl~nmgv~asl~~~i~~~~~~~~~ 366 (1111)
..|++..+- +. -.+||++.|.|.+||..+++.||.
T Consensus 124 ------~~~~~~~~l-~~---------------~~~~~~~~a~i~~PL~~~~~~~G~ 158 (550)
T COG3604 124 ------LFPDPYDGL-LP---------------DTEGNKKHACIGVPLKSGDKLIGA 158 (550)
T ss_pred ------ccCCccccc-cc---------------CccCCcceeEEeeeeeeCCeeeee
Confidence 112211110 00 146778899999999999888863
No 154
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=95.37 E-value=0.023 Score=70.23 Aligned_cols=76 Identities=16% Similarity=0.326 Sum_probs=51.7
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC-CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhh--------hhhcc-CC-
Q 037299 989 DQARIQQVLADFLLNMVRYSPS-AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPEL--------VQDMF-HS- 1057 (1111)
Q Consensus 989 D~~~L~qVl~nLl~NAik~t~~-~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~--------~~~iF-ep- 1057 (1111)
.......++.+|+.||++-.-+ ....|.|.+... . .|+|.|||.|||.+. ++-+| ..
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 4445578999999999992212 136788887543 2 488999999999988 66677 22
Q ss_pred ----C-----CCCCC-ccchHHHHHHHHH
Q 037299 1058 ----S-----RWMTQ-EGLGLSMCRKILK 1076 (1111)
Q Consensus 1058 ----f-----~~~~G-~GLGL~i~r~iVe 1076 (1111)
| ..+.| .|.||+.+-.+-+
T Consensus 95 agsK~~~~~~~~SgG~~GvGls~vnalS~ 123 (625)
T TIGR01055 95 AGGKFSNKNYHFSGGLHGVGISVVNALSK 123 (625)
T ss_pred ccCCCCCCcceecCCCcchhHHHHHHhcC
Confidence 1 11223 4999999866655
No 155
>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=95.25 E-value=0.047 Score=68.33 Aligned_cols=75 Identities=9% Similarity=0.231 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHHhhcCCCC-CceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhh--------ccCC---
Q 037299 990 QARIQQVLADFLLNMVRYSPSA-EGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQD--------MFHS--- 1057 (1111)
Q Consensus 990 ~~~L~qVl~nLl~NAik~t~~~-~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~--------iFep--- 1057 (1111)
..-|.+++.+|+.||++-..++ ...|.|.+... . .|+|.|||.|||.+.... +|.-
T Consensus 28 ~~gl~~vv~Elv~NaiDe~~ag~a~~I~V~i~~~-g-----------~I~V~DnG~GIp~~~h~~~ki~~~e~i~~~l~a 95 (654)
T TIGR01059 28 ETGLHHLVYEVVDNSIDEAMAGYCDTINVTINDD-G-----------SVTVEDNGRGIPVDIHPEEGISAVEVVLTVLHA 95 (654)
T ss_pred cchHHhhhHHhhhccccccccCCCCEEEEEEeCC-C-----------cEEEEEeCCCcCccccCcCCCCchHHheeeecc
Confidence 4678999999999999943331 36788877532 1 289999999999874332 3332
Q ss_pred ---C----C-CCCC-ccchHHHHHHHHH
Q 037299 1058 ---S----R-WMTQ-EGLGLSMCRKILK 1076 (1111)
Q Consensus 1058 ---f----~-~~~G-~GLGL~i~r~iVe 1076 (1111)
| + .+.| .|.||+.+-.+-+
T Consensus 96 g~kf~~~~~k~s~G~~G~gl~~inalS~ 123 (654)
T TIGR01059 96 GGKFDKDSYKVSGGLHGVGVSVVNALSE 123 (654)
T ss_pred cCccCCCcceecCCccchhHHHHHHhcC
Confidence 1 1 2223 4999988855543
No 156
>COG5385 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=95.16 E-value=1.9 Score=42.78 Aligned_cols=190 Identities=15% Similarity=0.219 Sum_probs=110.4
Q ss_pred HHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhccccccccCCcceeeEeecHHHHHHHHHH
Q 037299 881 LAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDVDLESIEDGSLEFEKAEFLLGSVINAVVS 960 (1111)
Q Consensus 881 La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dLdlsri~~g~~~l~~~~~~L~~vi~~v~~ 960 (1111)
.+.+.|+|-.|..+|..-++||++..-+++..+++...... .+. .|.|.|+.-|...-.-..+|-++.=.....
T Consensus 19 csRvCHDiISPvgAInnGLeLLdeg~addDAm~LIrsSArn---as~---rLqFaR~AFGAsgSag~~iDtgeaek~A~~ 92 (214)
T COG5385 19 CSRVCHDIISPVGAINNGLELLDEGGADDDAMDLIRSSARN---ASV---RLQFARLAFGASGSAGASIDTGEAEKAAQD 92 (214)
T ss_pred HHHHHhhccCcHHHhhchhhhhccCCccHHHHHHHHHHhhh---HHH---HHHHHHHHhcccccccccccchhHHHHHHH
Confidence 45689999999999999999999887777776666554332 222 235666655543333344554444222222
Q ss_pred HHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEe
Q 037299 961 QVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMV 1040 (1111)
Q Consensus 961 ~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~ 1040 (1111)
- +..-.-++....+..+ +.-+ +. ..+.||+.-|--+-|. +|.+.++++.... .-+|+|.
T Consensus 93 ~----~a~ekpe~~W~g~r~~----~~Kn--~v-kllLNl~lia~~aiPr-GG~~~vtle~~e~---------d~rfsi~ 151 (214)
T COG5385 93 F----FANEKPELTWNGPRAI----LPKN--RV-KLLLNLFLIAYGAIPR-GGSLVVTLENPET---------DARFSII 151 (214)
T ss_pred H----HhccCCcccccCChhh----cCcc--hH-HHHHHHHHHHcccCCC-CCeeEEEeecCCc---------CceEEEE
Confidence 2 2222256666655532 2222 33 3457888877777787 8888888754332 1234444
Q ss_pred eCCC--CCChhhhhhccCC-C-CCCCCccchHHHHHHHHHHcCCEEEEEecCCceEEEEEE
Q 037299 1041 CPGE--GLPPELVQDMFHS-S-RWMTQEGLGLSMCRKILKLMNGEVQYIRESERCYFLIIF 1097 (1111)
Q Consensus 1041 DnG~--GIp~e~~~~iFep-f-~~~~G~GLGL~i~r~iVe~~gG~I~v~s~~ggstF~~~L 1097 (1111)
-.|+ -+||+.++-.-.. . ....+...-=|-.--+++.-|++|.|....+.-.|+-.+
T Consensus 152 akG~m~Rvppk~lel~~G~~~eE~vdahsVQpyYt~lLa~eAgm~I~v~~~~e~iv~~A~v 212 (214)
T COG5385 152 AKGRMMRVPPKFLELHSGEPPEEAVDAHSVQPYYTLLLAEEAGMTISVHATAERIVFTAWV 212 (214)
T ss_pred ecCccccCCHHHHhhhcCCCccccCCCccccHHHHHHHHHHcCCeEEEEeccceEEEEEec
Confidence 4454 3466544432211 0 111223344455556789999999999877776665433
No 157
>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=95.15 E-value=0.087 Score=52.11 Aligned_cols=105 Identities=13% Similarity=0.186 Sum_probs=60.4
Q ss_pred CHHHHHHHHHHHHHHhhCCCeEEEEeecCCCCcEEEEEecCCCCCCccCCCCC--CC--CchHHHH-----HHHHhCCee
Q 037299 234 DIKLLCDTVVESVRQLTGYDRVMVYRFHEDEHGEVVAESKRPDLEPYFGLHYP--AT--DIPQASR-----FLFKQNRVR 304 (1111)
Q Consensus 234 ~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~G~VvaE~~~~~~~~~lg~~~p--a~--dip~~ar-----~ly~~n~~r 304 (1111)
|++++++.+++.+.+++++|...||-+++++ +-......... ...++..++ .. .-|...+ .++..+...
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 7899999999999999999999999998777 32222222222 333333321 11 1121111 014555555
Q ss_pred EeeccCCCcceeecCCCCCCcccccCccccCCChhHHHHHHhcCcceEEEEEEEEcCCCcc
Q 037299 305 MIVDCHATPLCVIQDEGLMQPLCLVGSTLRAPHGCHAQYMANMGSIASLALAVIINGNDEE 365 (1111)
Q Consensus 305 ~i~d~~~~~~~~~~~~~~~~~ldls~~~lRsvsp~h~~yl~nmgv~asl~~~i~~~~~~~~ 365 (1111)
++. .++.. . +. .......|+++-+++||+.+|+.||
T Consensus 81 ~~~-~~~~~-~----------------------~~-~~~~~~~~~~s~l~vPl~~~~~~~G 116 (148)
T PF13185_consen 81 IIN-DDDSS-F----------------------PP-WELARHPGIRSILCVPLRSGGEVIG 116 (148)
T ss_dssp EES-CCCGG-G----------------------ST-THHHCCTT-SEEEEEEEEETTEEEE
T ss_pred EEe-Ccccc-c----------------------cc-hhhhccccCCEEEEEEEeECCEEEE
Confidence 555 00000 0 11 3568999999999999999854444
No 158
>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=94.98 E-value=0.041 Score=52.33 Aligned_cols=46 Identities=22% Similarity=0.229 Sum_probs=41.8
Q ss_pred CCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccc
Q 037299 743 PNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFG 788 (1111)
Q Consensus 743 ~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~ 788 (1111)
++.+|-|++-+|.+|+|+.+|.+-.++.|++++.++|++++.++-+
T Consensus 22 lD~lpFGvI~lD~~G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAP 67 (124)
T TIGR02373 22 FDALPFGAIQLDGSGVILRYNAAEGRITGRDPERVIGRNFFKEVAP 67 (124)
T ss_pred hhcCCcceEEECCCCEEEEEecchhhhcCCChhhhhchhhhhhccc
Confidence 4556679999999999999999999999999999999999888765
No 159
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=94.88 E-value=0.065 Score=66.63 Aligned_cols=76 Identities=11% Similarity=0.236 Sum_probs=50.9
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC-CceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhh--------ccCC--
Q 037299 989 DQARIQQVLADFLLNMVRYSPSA-EGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQD--------MFHS-- 1057 (1111)
Q Consensus 989 D~~~L~qVl~nLl~NAik~t~~~-~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~--------iFep-- 1057 (1111)
+..-|.+++.+|+.||++-..++ ...|.|.+...+ .|+|.|||.|||.+.... +|..
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 35678999999999999843331 257888775421 489999999999975442 4432
Q ss_pred ----C----C-CCCC-ccchHHHHHHHHH
Q 037299 1058 ----S----R-WMTQ-EGLGLSMCRKILK 1076 (1111)
Q Consensus 1058 ----f----~-~~~G-~GLGL~i~r~iVe 1076 (1111)
| + .+.| .|.||+.+-.+-+
T Consensus 102 ag~kfd~~~yk~s~G~~G~Gls~vnalS~ 130 (638)
T PRK05644 102 AGGKFGGGGYKVSGGLHGVGVSVVNALST 130 (638)
T ss_pred ccCccCCCcccccCCccccchhhhhheec
Confidence 1 1 1223 4999988855544
No 160
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=94.82 E-value=1.3 Score=58.38 Aligned_cols=119 Identities=9% Similarity=0.046 Sum_probs=73.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCcEEEEc-CCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHc
Q 037299 592 LQGVDELSSVAREMVRLIETATAPIFAVD-VHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALK 670 (1111)
Q Consensus 592 ~~~~~eL~~~~~~l~~lie~~~~~I~~~D-~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~ 670 (1111)
.+...+|++.++.++.+++++|+++++++ .+|+++++|+.+..++|+...+ +...... ...
T Consensus 323 ~~~~~~L~e~e~~~r~iv~~~p~gi~i~~~~~g~~~~~N~~a~~~~~l~~~~--------------~~~~~~~----~~~ 384 (924)
T PRK10841 323 ESNALRLEEHEQFNRKIVASAPVGICILRTSDGTNILSNELAHNYLNMLTHE--------------DRQRLTQ----IIC 384 (924)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCccEEEEEcCCCcEEEehHHHHHHhccCChh--------------HHHHHHH----HHh
Confidence 34455788888999999999999999997 6999999999999998864322 1111111 111
Q ss_pred CCCccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHH
Q 037299 671 GEEDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKA 738 (1111)
Q Consensus 671 ~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~ 738 (1111)
...... .... ..++....+.+...... +. ...+++++|||+++++++++++..+..+.
T Consensus 385 ~~~~~~--~~~~----~~~~~~~~i~~~~~~~~---~~-~~~i~~~~Dit~r~~~e~~L~~~~~~~e~ 442 (924)
T PRK10841 385 GQQVNF--VDVL----TSNNTNLQISFVHSRYR---NE-NVAICVLVDVSARVKMEESLQEMAQAAEQ 442 (924)
T ss_pred ccccce--eeEE----cCCCcEEEEEEEeeeec---Cc-eEEEEEEEEhhHHHHHHHHHHHHHHHHHH
Confidence 111110 1111 12333333333322222 22 24677889999999999998877665543
No 161
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=94.78 E-value=0.097 Score=58.24 Aligned_cols=55 Identities=22% Similarity=0.322 Sum_probs=49.0
Q ss_pred HHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhh
Q 037299 602 AREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEY 657 (1111)
Q Consensus 602 ~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~ 657 (1111)
.-++.++++++|++++.+|..|.+..+|++++++||.+.+++.|++.. .++...+
T Consensus 79 hl~L~aLL~al~~pVlsvd~kg~v~~aNpAa~~l~~~~~~~~~g~~~~-~l~~~~n 133 (511)
T COG3283 79 HLALSALLEALPEPVLSVDMKGKVDMANPAACQLFGRKEDRLRGHTAA-QLINGFN 133 (511)
T ss_pred hHHHHHHHHhCCCceEEecccCceeecCHHHHHHhCCChhhhcCccHH-HhcCcCC
Confidence 346789999999999999999999999999999999999999999987 6665543
No 162
>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=94.73 E-value=0.23 Score=43.75 Aligned_cols=73 Identities=12% Similarity=0.113 Sum_probs=60.7
Q ss_pred HHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhccccccccCCcceeeEeecHHHHHHHHHHHHH
Q 037299 884 ICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDVDLESIEDGSLEFEKAEFLLGSVINAVVSQVM 963 (1111)
Q Consensus 884 isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dLdlsri~~g~~~l~~~~~~L~~vi~~v~~~~~ 963 (1111)
+.|.+||.|+.|.+++.+-.....+++.+..+..+......|+.+-+.|-- .-....+++.+.+++++..+.
T Consensus 2 ~~HRVkNnLq~i~sll~lq~~~~~~~e~~~~L~~~~~RI~aia~vh~~L~~--------~~~~~~v~l~~yl~~L~~~l~ 73 (76)
T PF07568_consen 2 LHHRVKNNLQIISSLLRLQARRSEDPEAREALEDAQNRIQAIALVHEQLYQ--------SEDLSEVDLREYLEELCEDLR 73 (76)
T ss_pred hHHhHHhHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHhc--------CCCCCeecHHHHHHHHHHHHH
Confidence 789999999999999999988888889899999988888888888887711 113467999999999998775
Q ss_pred H
Q 037299 964 M 964 (1111)
Q Consensus 964 ~ 964 (1111)
.
T Consensus 74 ~ 74 (76)
T PF07568_consen 74 Q 74 (76)
T ss_pred H
Confidence 4
No 163
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=94.39 E-value=0.41 Score=52.49 Aligned_cols=112 Identities=15% Similarity=0.132 Sum_probs=79.5
Q ss_pred HHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCC-ccceEEEEEEe
Q 037299 606 VRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEE-DKNVEIKLRTF 684 (1111)
Q Consensus 606 ~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~-~~~~e~~l~~~ 684 (1111)
..++++.+.+++++|.+|.|.|+|++++.+||.+...+.|.++. .+++.... ....+.+....+. ...+++.+.
T Consensus 10 ~~~Ln~~~~pVl~vd~~~~i~yaN~aAe~~~~~Sa~~L~~~~l~-~l~~~gs~--ll~ll~q~~~~~~~~~~~~v~l~-- 84 (363)
T COG3852 10 GAILNNLINPVLLVDDELAIHYANPAAEQLLAVSARRLAGTRLS-ELLPFGSL--LLSLLDQVLERGQPVTEYEVTLV-- 84 (363)
T ss_pred HhHHhccCCceEEEcCCCcEEecCHHHHHHHHHHHHHHhcCChH-HHcCCCcH--HHHHHHHHHHhcCCcccceeeee--
Confidence 36899999999999999999999999999999999999999988 66654332 2234444444333 233333333
Q ss_pred ccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHH
Q 037299 685 GAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDK 728 (1111)
Q Consensus 685 ~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~ 728 (1111)
..|....+.....|+-...|. ++..++-+....+..++
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 578899999999999765554 44555555555554444
No 164
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=94.18 E-value=1.7 Score=55.33 Aligned_cols=123 Identities=7% Similarity=-0.001 Sum_probs=73.8
Q ss_pred CCCHHHHHHHHHHHHHHhhCCCeEEEEeecCCCCcEEEEEec--CCCCCCccCCCCCCCCchHHHHHHHHhCCeeEeecc
Q 037299 232 GGDIKLLCDTVVESVRQLTGYDRVMVYRFHEDEHGEVVAESK--RPDLEPYFGLHYPATDIPQASRFLFKQNRVRMIVDC 309 (1111)
Q Consensus 232 ~~~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~G~VvaE~~--~~~~~~~lg~~~pa~dip~~ar~ly~~n~~r~i~d~ 309 (1111)
+.+++++++.+++++++++++|++.|+-++++...-++.-+. ..+-....+.+.|... --+..-+..+...++.|.
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 569999999999999999999999999998876443332221 1122223333333221 234566777777777766
Q ss_pred CCCcceeecCCCCCCcccccCccccCCChhHHHHHHhcCcceEEEEEEEEcCCCcccc-CCCCCccch
Q 037299 310 HATPLCVIQDEGLMQPLCLVGSTLRAPHGCHAQYMANMGSIASLALAVIINGNDEEAV-GGRSTTRLW 376 (1111)
Q Consensus 310 ~~~~~~~~~~~~~~~~ldls~~~lRsvsp~h~~yl~nmgv~asl~~~i~~~~~~~~~~-~~~~~~~LW 376 (1111)
...+....+ ....+ +..-++++.|++|++.+|+.-|.. -.+.+..-|
T Consensus 275 ~~d~~~~~~-------------------~~~~~-~~~~~~~s~l~vPL~~~~~v~GvL~l~~~~~~~F 322 (686)
T PRK15429 275 ERDDLAPYE-------------------RMLFD-TWGNQIQTLCLLPLMSGDTMLGVLKLAQCEEKVF 322 (686)
T ss_pred cCcccchhh-------------------hhhhh-cccccceEEEEEeEEECCEEEEEEEEeeCCCCcC
Confidence 543321000 00111 123357889999999987766754 123334556
No 165
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=93.89 E-value=0.04 Score=61.75 Aligned_cols=104 Identities=12% Similarity=0.048 Sum_probs=77.9
Q ss_pred HHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccch-hhHHHHHHHHHHHHcCCCccceEEEEEEe
Q 037299 606 VRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYK-EYEEIVDNLLHHALKGEEDKNVEIKLRTF 684 (1111)
Q Consensus 606 ~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~-~~~~~~~~~l~~~l~~~~~~~~e~~l~~~ 684 (1111)
-..++....+|-+.|.+..|.|+|++|++++|+-..|++|+... ++-.. ..+..+...+..+++.|.. ++-...
T Consensus 160 FaaLD~c~eAiEI~~ddhViQYVNpAfE~mmG~hkgEliGke~a-dlpkkdknradlldtintcikkgke----~qG~~~ 234 (775)
T KOG1229|consen 160 FAALDECDEAIEICDDDHVIQYVNPAFENMMGCHKGELIGKEEA-DLPKKDKNRADLLDTINTCIKKGKE----AQGEEE 234 (775)
T ss_pred HHHHhhhhhhheeccchhHHHHhcHHHHhhhcchhhhhcCCchh-hccccccchhhhhhhhhHhhhcCcc----ccchHH
Confidence 35677788899999999999999999999999999999999987 44332 2344455556666665543 222333
Q ss_pred ccccCCcEEEEEEEeEeeccCCCCEEEEEE
Q 037299 685 GAENRKKAVFVVVNACSSKDYTNNIVGVCF 714 (1111)
Q Consensus 685 ~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~ 714 (1111)
.+++.|......+...|+.+..|++..++.
T Consensus 235 aRRksgdS~dqh~~itP~~gqggkirhfvs 264 (775)
T KOG1229|consen 235 ARRKSGDSCDQHFIITPFAGQGGKIRHFVS 264 (775)
T ss_pred HhhccCCcccceEEEeeecCCCCceeeehh
Confidence 346788888888888999998898877654
No 166
>PRK05218 heat shock protein 90; Provisional
Probab=93.69 E-value=0.19 Score=62.31 Aligned_cols=56 Identities=14% Similarity=0.208 Sum_probs=37.5
Q ss_pred EEecHHHHHHHHHHHHHHHhhcC---------------CCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhh
Q 037299 986 VYGDQARIQQVLADFLLNMVRYS---------------PSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPEL 1050 (1111)
Q Consensus 986 v~~D~~~L~qVl~nLl~NAik~t---------------~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~ 1050 (1111)
+|+|+. -.|.+|+.||.++. +...+.|.|.+...+ -.|+|+|||+||+.++
T Consensus 23 LYs~~~---v~lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~I~I~~d~~~-----------~~i~I~DnG~GMt~ee 88 (613)
T PRK05218 23 LYSNKE---IFLRELISNASDAIDKLRFEALTDPALYEGDGDLKIRISFDKEA-----------RTLTISDNGIGMTREE 88 (613)
T ss_pred hcCCch---HHHHHHHhCHHHHHHHHHHHhccCccccCCCCCcEEEEEEcCCC-----------CeEEEEECCCCCCHHH
Confidence 455543 36899999999882 111345555443221 1489999999999999
Q ss_pred hhhcc
Q 037299 1051 VQDMF 1055 (1111)
Q Consensus 1051 ~~~iF 1055 (1111)
+..-|
T Consensus 89 l~~~l 93 (613)
T PRK05218 89 VIENL 93 (613)
T ss_pred HHHHH
Confidence 88755
No 167
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=93.53 E-value=0.071 Score=65.92 Aligned_cols=48 Identities=10% Similarity=0.241 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHhhcCCCC-CceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhh
Q 037299 993 IQQVLADFLLNMVRYSPSA-EGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQ 1052 (1111)
Q Consensus 993 L~qVl~nLl~NAik~t~~~-~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~ 1052 (1111)
|.+++.+|+.||++..-.. ...|.|.+...+ .|+|.|||.|||.+..+
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 3467789999999985331 357777765321 58999999999986644
No 168
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=93.44 E-value=0.13 Score=64.62 Aligned_cols=49 Identities=8% Similarity=0.217 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHhhcCCCC-CceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhh
Q 037299 991 ARIQQVLADFLLNMVRYSPSA-EGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELV 1051 (1111)
Q Consensus 991 ~~L~qVl~nLl~NAik~t~~~-~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~ 1051 (1111)
.-|..++.+++.||++-.-++ ...|.|++...+ .|+|+|||.|||.+..
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 468899999999999833331 267888775421 4899999999999844
No 169
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=93.25 E-value=0.082 Score=65.66 Aligned_cols=54 Identities=17% Similarity=0.160 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCC
Q 037299 992 RIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSS 1058 (1111)
Q Consensus 992 ~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf 1058 (1111)
+-.-|+.+|+.||+++.. .+|.|.+...+ .-.|+|+|||.||++++++-.+.+.
T Consensus 23 rPaSVVKELVENSlDAGA---t~I~I~ve~gG----------~~~I~V~DNG~Gi~~~Dl~la~~rH 76 (638)
T COG0323 23 RPASVVKELVENSLDAGA---TRIDIEVEGGG----------LKLIRVRDNGSGIDKEDLPLALLRH 76 (638)
T ss_pred cHHHHHHHHHhcccccCC---CEEEEEEccCC----------ccEEEEEECCCCCCHHHHHHHHhhh
Confidence 345689999999999877 47777765432 2358999999999999999999874
No 170
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=93.08 E-value=2.3 Score=55.45 Aligned_cols=45 Identities=11% Similarity=-0.045 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHHHhcCCcEEEEc-CCccEEeecHHHHHHcCC
Q 037299 594 GVDELSSVAREMVRLIETATAPIFAVD-VHGCVNGWNAKVAELTGL 638 (1111)
Q Consensus 594 ~~~eL~~~~~~l~~lie~~~~~I~~~D-~dG~I~~~N~a~~~l~G~ 638 (1111)
..++++..+..++.+++++|+|++++| .+|+|+++|+++++++|.
T Consensus 334 l~~~L~~~~~l~~~Ii~~lp~Gilv~D~~~~~Ii~~N~aA~~ll~~ 379 (894)
T PRK10618 334 MSHELRILRALNEEIVSNLPLGLLVYDFESNRTVISNKIADHLLPH 379 (894)
T ss_pred HHHHHHHHHHHHHHHHHhCCceEEEEECCCCeEEEEhHHHHHHhCc
Confidence 345788888999999999999999999 689999999999999985
No 171
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=92.52 E-value=0.6 Score=57.21 Aligned_cols=210 Identities=13% Similarity=0.122 Sum_probs=118.5
Q ss_pred cEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCc-------cceEEEEEEeccc
Q 037299 615 PIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEED-------KNVEIKLRTFGAE 687 (1111)
Q Consensus 615 ~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~-------~~~e~~l~~~~~~ 687 (1111)
.+++-+.+|+|+|+...+..++|+.++-+.|.++. +++++.|...+...+....--... ...++
T Consensus 194 ~~~vS~~dG~iLyis~q~a~ilg~krDv~s~a~Fv-dflapqD~~vF~sfta~~~lp~ws~~s~~ds~~~~c-------- 264 (1114)
T KOG3753|consen 194 VVAVSFLDGRILYISEQAALILGCKRDVLSSAKFV-DFLAPQDVGVFYSFTARYKLPLWSMGSSADSFTQEC-------- 264 (1114)
T ss_pred EEEEeccCCcEEEeechhhhhccCchhhhccchhh-hhcchhhhhhhhhccccccCccccccccccchhhhh--------
Confidence 45556789999999999999999999999999999 999999988777655432210000 00000
Q ss_pred cCCcEEEEEEEeEeecc--CCCCEEEEEEEEEechhHHHHHHHHH--hHHHHHHHHHhCCCCCCC--CccccC--CCCcc
Q 037299 688 NRKKAVFVVVNACSSKD--YTNNIVGVCFVGQDVTDQKLVMDKFI--HIQGDYKAIVHSPNPLIP--PIFASD--ENTCC 759 (1111)
Q Consensus 688 ~dG~~~~v~v~~~pi~d--~~G~v~gvv~v~~DITerK~ae~~L~--~se~~l~~i~~~~~~l~~--~I~v~D--~~g~i 759 (1111)
..-..+...+++..-+. ..-...+++-.+..+-++..++.+.. ..-.+...=.+.. .++. -||.+- ..+-+
T Consensus 265 ~~~ks~fcRisgr~~~~~~~~y~PFRl~pyl~ev~~~~~~~s~~ccLllaerihSgYeAP-rIps~KriFtT~HTptClf 343 (1114)
T KOG3753|consen 265 AEEKSFFCRISGRKDRENEIRYHPFRLTPYLVEVRDQQGAESQPCCLLLAERIHSGYEAP-RIPSNKRIFTTTHTPTCLF 343 (1114)
T ss_pred hhhcceeeeeecccCCcCccccCcccccceeEEeccccccCcCcceeehhhhhhcccccC-cCCcccceeEeccCCccee
Confidence 00001111111111100 00111122222233322222222210 0001111111111 1111 244433 45667
Q ss_pred ccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCC-Cc--ceeeeeeecCCCCEEEEEEEE
Q 037299 760 SEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQ-DT--EKFPFPLFDRNGKYVQALLTA 836 (1111)
Q Consensus 760 i~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~-~~--~~~e~~~~~~dG~~~~v~~~~ 836 (1111)
..+..++..++||-+.++||+.+. .+.|++|+..+.+....++... .. ..-.++|...+|.|+.+....
T Consensus 344 ~hVDeaAVp~LGyLPqDLIG~sil--------~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~aqNG~yv~ldTeW 415 (1114)
T KOG3753|consen 344 QHVDEAAVPLLGYLPQDLIGTSIL--------AFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFCAQNGSYVRLDTEW 415 (1114)
T ss_pred eecchhhhhhhccCchhhhccchh--------hhhcCCchHHHHHHHHHHHHhCCCCcccccceeeeecCCcEEEEechh
Confidence 888999999999999999999874 4556788776666655555433 22 356779999999999888766
Q ss_pred eeeecC
Q 037299 837 NKRVNM 842 (1111)
Q Consensus 837 ~pi~d~ 842 (1111)
+...+.
T Consensus 416 SsFVNP 421 (1114)
T KOG3753|consen 416 SSFVNP 421 (1114)
T ss_pred hhccCh
Confidence 655544
No 172
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=92.12 E-value=0.26 Score=55.57 Aligned_cols=114 Identities=15% Similarity=0.165 Sum_probs=78.5
Q ss_pred HHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCC
Q 037299 733 QGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGG 812 (1111)
Q Consensus 733 e~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~ 812 (1111)
.+.+.+++.++|. -|-.+|.++++.+.|+. .++|-+++. ++|+.+. .| .+|.....+...+. .+..
T Consensus 289 ~~e~naif~~lP~---Ditfvdk~diV~ffs~~-~rif~rt~s-viGr~v~-----~c---hpPksv~iv~ki~~-~fks 354 (409)
T COG2461 289 LEELNAIFKHLPV---DITFVDKNDIVRFFSGG-ERIFPRTPS-VIGRRVQ-----LC---HPPKSVHIVEKILK-DFKS 354 (409)
T ss_pred HHHHHHHHhhCCC---ceEEecccceEEecCCc-ceecccChH-hhCCccc-----CC---CCCchHHHHHHHHH-Hhhc
Confidence 4568889988873 47889999999999998 888887764 5677651 11 22444444444444 4444
Q ss_pred CCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHH
Q 037299 813 QDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQA 863 (1111)
Q Consensus 813 ~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e 863 (1111)
+.....+++ .+..+ ..+.++..++.|++|+..|++-+.+|||+-+..+
T Consensus 355 G~kd~~efw-~~~~~--~~i~i~Y~av~de~ge~~g~le~~qdi~~i~~l~ 402 (409)
T COG2461 355 GEKDFAEFW-INMGD--KFIHIRYFAVKDEEGEYLGTLEVVQDITRIKELE 402 (409)
T ss_pred CCcchHHHh-ccCCC--ceEEEEEEEEEcCCCceeeeehhhhhhHHHHhcc
Confidence 555555666 33333 3456677888999999999999999999855443
No 173
>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=91.92 E-value=1.3 Score=44.13 Aligned_cols=111 Identities=12% Similarity=0.045 Sum_probs=80.9
Q ss_pred HHHHHHHHhCCCCCCCCccccC--CCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhh
Q 037299 733 QGDYKAIVHSPNPLIPPIFASD--ENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAF 810 (1111)
Q Consensus 733 e~~l~~i~~~~~~l~~~I~v~D--~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~ 810 (1111)
+..++.+++ .+. +|+..| .+-.++|.|.++.++|+++-+++.+.+.. ....+..+......+.++.
T Consensus 31 ~~~~~~L~~-ap~---ailsh~~~~dP~f~yaN~aaL~l~e~~w~el~~lPsr--------~sae~~~r~er~~lL~~v~ 98 (148)
T PF08670_consen 31 EELAKALWH-APF---AILSHGTKADPIFIYANQAALDLFETTWDELVGLPSR--------LSAEEPERKERQSLLAQVM 98 (148)
T ss_pred HHHHHHHHc-CCC---EEEEcCCCCCCEEEehhHHHHHHhcCCHHHHhcCcHh--------hccChhhHHHHHHHHHHHH
Confidence 355666776 333 577765 45589999999999999999999998741 1223556666677777777
Q ss_pred CCCCcceeeeeeecCCCCEEEEE-EEEeeeecCCCCEEEEEeeeec
Q 037299 811 GGQDTEKFPFPLFDRNGKYVQAL-LTANKRVNMEGQIVGAFCFLQI 855 (1111)
Q Consensus 811 ~~~~~~~~e~~~~~~dG~~~~v~-~~~~pi~d~~G~v~g~v~~~~D 855 (1111)
..+-.....-.-..+.|+..+++ ..+=.+.|++|...|....+.+
T Consensus 99 ~qG~~~~y~GiRiss~Grrf~ie~a~vW~l~D~~g~~~GqAa~F~~ 144 (148)
T PF08670_consen 99 QQGYIDNYSGIRISSTGRRFRIERATVWNLIDEDGNYCGQAAMFSN 144 (148)
T ss_pred HhCCccCCCeEEEcCCCCeEEEeceEEEEEEcCCCCEEEEEEEEee
Confidence 77766655556677888877765 4666788999999988777655
No 174
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=91.61 E-value=1.4 Score=53.38 Aligned_cols=185 Identities=15% Similarity=0.133 Sum_probs=96.6
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHh---cCCcEEEEcCCccEEeecHHHHHHcCCChhh-hcCCcccccccchhhHHHH
Q 037299 586 QLVDLELQGVDELSSVAREMVRLIET---ATAPIFAVDVHGCVNGWNAKVAELTGLSVEE-AMGKSLVHDLVYKEYEEIV 661 (1111)
Q Consensus 586 ~l~~~l~~~~~eL~~~~~~l~~lie~---~~~~I~~~D~dG~I~~~N~a~~~l~G~~~ee-liG~~~~~~l~~~~~~~~~ 661 (1111)
++.+...+...=|......|..++.. .+..+++.|.+|.++..+-........+.-- ..|..|.+... -
T Consensus 57 el~~~rE~~~~LL~iA~~~L~~L~~~v~~~~~~vLLtD~~GViL~~~G~~~~~~~~rk~gl~~Ga~WSE~~~-------G 129 (606)
T COG3284 57 ELREARERAEALLTIAQPELDRLFQAVAGSGCCVLLTDADGVILERRGDPRDDEDFRKAGLWLGAVWSEPRE-------G 129 (606)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHhcCCCeEEEEEcCceeEEEeecChhhhhhhhhhccccccccccccc-------c
Confidence 33333334444455555566666555 5568899999999997654322222211111 11222221111 1
Q ss_pred HHHHHHHHcCCCccceEEEEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEE---EechhHHHH------HHHHHhH
Q 037299 662 DNLLHHALKGEEDKNVEIKLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVG---QDVTDQKLV------MDKFIHI 732 (1111)
Q Consensus 662 ~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~---~DITerK~a------e~~L~~s 732 (1111)
.+.+-.++..++.. .+.-. .+-......+.+++.||+|++|++.|+.-+. .|+++.-.- ...-+..
T Consensus 130 TNgIGTcLve~~aV--tI~~~---qHF~~~~~~lsCsAaPI~D~qG~L~gVLDISs~r~~~~~~s~~~~~~iV~~~ar~I 204 (606)
T COG3284 130 TNGIGTCLVEGEAV--TIHGD---QHFIQAHHGLSCSAAPIFDEQGELVGVLDISSCRSDLSEASQPLTLAIVTDAARRI 204 (606)
T ss_pred ccchhhhhccCcce--EEehh---hhHhhcccCceeeeeccccCCCcEEEEEEeccCCcchhhhhhHHHHHHHHHHHHHH
Confidence 11233344333321 11111 1112334557889999999999999987665 344433221 0111111
Q ss_pred HHH---------HHHHHhCC----CCCCCCccccCCCCccccchhhhHHHhCCC-ccccccccc
Q 037299 733 QGD---------YKAIVHSP----NPLIPPIFASDENTCCSEWNTAMEKLTGWS-RGDIIGKML 782 (1111)
Q Consensus 733 e~~---------l~~i~~~~----~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~-~eeliGk~l 782 (1111)
|.. ....+-.. +..+.+.+++|.+|+++..|+++..+++.+ ...++|.+.
T Consensus 205 E~~~~~~~~~~~~~lr~~~~p~~~d~~~~~~lavd~~grvl~at~aA~~~La~~~~~~l~g~p~ 268 (606)
T COG3284 205 EAELFLAAFEGHWLLRIALAPDYLDSQSEALLAVDQDGRVLGATRAARQLLALTDRQRLIGQPV 268 (606)
T ss_pred HHHHHHHhcCcchHHHHhcCccccCcccceeeeecCcchhhhccHHHHHhhccchhhHhhcCCc
Confidence 111 11111111 223457899999999999999999999988 445555554
No 175
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=90.84 E-value=0.7 Score=59.31 Aligned_cols=215 Identities=16% Similarity=0.187 Sum_probs=154.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH-HHhcCCCCHHHHHHHHHHHHHHHHHHHHHhh-ccccccccCCcceee
Q 037299 869 QQEKKCFARLKELAYICQEIKNPLSGVSFTNS-LLEATDLTEDQKQLLETSAACEKQMLKIIKD-VDLESIEDGSLEFEK 946 (1111)
Q Consensus 869 ~~e~~~~~r~~~La~isHEIrnPLt~I~~~~~-LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~d-Ldlsri~~g~~~l~~ 946 (1111)
++......+..++....|..+.|.+.+.+... ++....+.++..-.+....+....+..++.. .+.++...|......
T Consensus 378 e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~~~~~~~~~gt~~~~~ 457 (786)
T KOG0519|consen 378 EAHMAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPDSGLEIQTVMRSSNVFTSLIQADPDITRLYGGTGLGES 457 (786)
T ss_pred hhhhccchhhhHHHHhccccccccccccccchhhHhheEeccCCceeEehhhhhhhHHHHHhccccccccccCCCcccch
Confidence 33333444555566667999999999987666 4555556666666677777766678888887 488988888877888
Q ss_pred EeecHHHHHHHHHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhh--cCCCCCc--eEEEEEEEc
Q 037299 947 AEFLLGSVINAVVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVR--YSPSAEG--WVEIHVRPT 1022 (1111)
Q Consensus 947 ~~~~L~~vi~~v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik--~t~~~~g--~I~I~v~~~ 1022 (1111)
..+.|..++.............+...+...+..+.+. .+.+|..++.|++.++..++.+ ++.. +. .+.+.....
T Consensus 458 i~~~l~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~-~~~~~~~~~~~~~ 535 (786)
T KOG0519|consen 458 IVFSLVELMSGEISDISCISLGKTFSFTLDLLTNLPK-SVVGDEKRLFQIILDFNGMLALLIDTKL-GREQIFQVLAELL 535 (786)
T ss_pred hhccHHHHHHHHhhhhhhhccCceeeEEEEeccCCCc-cchhhhhhhhhhhhhhcchhhhhhcccc-CcceeEEEEeccc
Confidence 8999999999999998888878888888888887775 6778888899999999999998 6665 22 222222211
Q ss_pred cccCCCC------------cee-EEEEEEEeeCCCCCChhhhhhccCCC---C-----CCCCccchHHHHHHHHHHcCCE
Q 037299 1023 LKQSSEG------------QTI-VHNEFRMVCPGEGLPPELVQDMFHSS---R-----WMTQEGLGLSMCRKILKLMNGE 1081 (1111)
Q Consensus 1023 ~~~~~~~------------~~~-~~v~i~V~DnG~GIp~e~~~~iFepf---~-----~~~G~GLGL~i~r~iVe~~gG~ 1081 (1111)
+....-. ... ..+.+.+.+++.|........+|.-+ + ...+.+++++.|.+..+.+.|.
T Consensus 536 ~~~vd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 615 (786)
T KOG0519|consen 536 GISVDVSLSLSLAFWFLDLSLSDLEVCKQIEDNEEGSNNGDISSSNPLHKSLRDLTSKLSSGSGLSLALCPENSQLMEGN 615 (786)
T ss_pred CccccccccchhhhhhcccccccchheEEeeeccccccCCCcchhhhhhhccccchhhcccccccccccchhhHHhhhcc
Confidence 1100000 001 25778888999988887777665543 1 1245789999999999999999
Q ss_pred EEEE
Q 037299 1082 VQYI 1085 (1111)
Q Consensus 1082 I~v~ 1085 (1111)
.++.
T Consensus 616 ~~~~ 619 (786)
T KOG0519|consen 616 IGLV 619 (786)
T ss_pred cccc
Confidence 9886
No 176
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=90.61 E-value=0.49 Score=59.10 Aligned_cols=51 Identities=14% Similarity=0.180 Sum_probs=34.8
Q ss_pred HHHHHHHHHhhcCC---------C----CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhcc
Q 037299 996 VLADFLLNMVRYSP---------S----AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMF 1055 (1111)
Q Consensus 996 Vl~nLl~NAik~t~---------~----~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iF 1055 (1111)
.|.+||+||.++.. + .++.+.|++....+ ...+.|.|||+||+.+++.+-+
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 36899999988721 0 12456666655433 3468999999999998866544
No 177
>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=90.45 E-value=0.32 Score=37.69 Aligned_cols=44 Identities=36% Similarity=0.414 Sum_probs=36.9
Q ss_pred HHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccc
Q 037299 736 YKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKML 782 (1111)
Q Consensus 736 l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l 782 (1111)
++.+++..+. +++..|.++.+..+|+.+.+++|++..++.++..
T Consensus 3 ~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 (67)
T smart00091 3 LRAILESLPD---GIFVLDLDGRILYANPAAEELLGYSPEELIGKSL 46 (67)
T ss_pred HHHHHhhCCc---eEEEEcCCCeEEEECHHHHHHhCCCHHHHcCCcH
Confidence 4566666665 7999999999999999999999999888877643
No 178
>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=90.16 E-value=0.45 Score=59.15 Aligned_cols=51 Identities=12% Similarity=0.216 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHhhcCCC-CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhh
Q 037299 990 QARIQQVLADFLLNMVRYSPS-AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQ 1052 (1111)
Q Consensus 990 ~~~L~qVl~nLl~NAik~t~~-~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~ 1052 (1111)
..-|.+++.++|.||++-.-. ....|.|++... . .|+|.|||.|||.+..+
T Consensus 32 ~~GL~hlv~EIvdNavDE~~ag~~~~I~V~i~~d-g-----------sitV~DnGrGIPv~~h~ 83 (637)
T TIGR01058 32 SKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKD-N-----------SITVQDDGRGIPTGIHQ 83 (637)
T ss_pred cchhheehhhhhcchhhhhhcCCCcEEEEEEcCC-C-----------eEEEEECCCcccCcccC
Confidence 467889999999999984322 135677776532 1 48999999999986443
No 179
>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=89.85 E-value=0.97 Score=31.17 Aligned_cols=40 Identities=18% Similarity=0.399 Sum_probs=34.9
Q ss_pred eeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccH
Q 037299 819 PFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASP 858 (1111)
Q Consensus 819 e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITe 858 (1111)
++.+...+|...|+.....++.+.+|.+.+++++..|+|+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~ 42 (43)
T smart00086 3 EYRLRRKDGSYIWVLVSASPIRDEDGEVEGILGVVRDITE 42 (43)
T ss_pred EEEEEecCCCEEEEEEEeEEEECCCCCEEEEEEEEEeccC
Confidence 4556778999999999999999988999999999999985
No 180
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=89.35 E-value=0.56 Score=56.77 Aligned_cols=71 Identities=14% Similarity=0.167 Sum_probs=44.4
Q ss_pred HHHHHHHHHhhc---------CCC----CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCC-----
Q 037299 996 VLADFLLNMVRY---------SPS----AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHS----- 1057 (1111)
Q Consensus 996 Vl~nLl~NAik~---------t~~----~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFep----- 1057 (1111)
-|.+||+||.++ +.+ ..+.+.|++....+ .=.++|+|||+||..+++..--.-
T Consensus 31 FLRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~Dk~---------~kTLtI~DNGIGMT~~Ev~~~LgTIAkSg 101 (623)
T COG0326 31 FLRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISFDKD---------NKTLTISDNGIGMTKDEVIENLGTIAKSG 101 (623)
T ss_pred HHHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEEccc---------CCEEEEEeCCCCCCHHHHHHHHHHhhhcc
Confidence 468899999865 111 12246666655544 336889999999999876542221
Q ss_pred ---C-----CC------CCCccchHHHHHHHH
Q 037299 1058 ---S-----RW------MTQEGLGLSMCRKIL 1075 (1111)
Q Consensus 1058 ---f-----~~------~~G~GLGL~i~r~iV 1075 (1111)
| .. .+.-|+|+|-|--.+
T Consensus 102 T~~F~~~l~~~~~~~~lIGQFGVGFYSaFmVA 133 (623)
T COG0326 102 TKEFLESLSEDQKDSDLIGQFGVGFYSAFMVA 133 (623)
T ss_pred HHHHHHHhccccccccccccccchhhheeeee
Confidence 1 11 123499999886654
No 181
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=89.29 E-value=4.3 Score=51.86 Aligned_cols=116 Identities=9% Similarity=0.006 Sum_probs=73.3
Q ss_pred HHHHhhcCCCCCHHHHHHHHHHHHHHhhCCCeEEEEeecCCCCcEEEEEecCCCCCCccCCCCCCCCchHHHHHHHHhCC
Q 037299 223 AISQLQSLPGGDIKLLCDTVVESVRQLTGYDRVMVYRFHEDEHGEVVAESKRPDLEPYFGLHYPATDIPQASRFLFKQNR 302 (1111)
Q Consensus 223 ~i~~l~~~~~~~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~G~VvaE~~~~~~~~~lg~~~pa~dip~~ar~ly~~n~ 302 (1111)
....+.+ +.+++++++.+++.+++++|+|+..||-+++|+..-+++-+...+-+..-..+||-.. --....+..+.
T Consensus 8 Is~~L~s--~~dL~e~L~~Iv~~~~~~l~~d~~sI~L~D~~~~~L~~~as~Gl~~~~~~~~~l~~ge--Gi~G~Va~tg~ 83 (748)
T PRK11061 8 IVEKVAS--APRLNEALDILVTETCLAMDTEVCSVYLADHDRRCYYLMATRGLKKPRGRTVTLAFDE--GIVGLVGRLAE 83 (748)
T ss_pred HHHHHhc--cCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCEEEEEEeeCCChHhccceeccCCc--chHHHHhccCc
Confidence 3344444 5699999999999999999999999999999876555554433222222233454321 12344555666
Q ss_pred eeEeeccCCCcceeecCCCCCCcccccCccccCCChhHHHHHHhcCcceEEEEEEEEcCCCcc
Q 037299 303 VRMIVDCHATPLCVIQDEGLMQPLCLVGSTLRAPHGCHAQYMANMGSIASLALAVIINGNDEE 365 (1111)
Q Consensus 303 ~r~i~d~~~~~~~~~~~~~~~~~ldls~~~lRsvsp~h~~yl~nmgv~asl~~~i~~~~~~~~ 365 (1111)
.-.|+|+...|--. +...+..+++++-|++||+.+|+.-|
T Consensus 84 pV~V~Dv~~dprf~-----------------------~~~~~~~~~~~S~L~VPL~~~geVIG 123 (748)
T PRK11061 84 PINLADAQKHPSFK-----------------------YIPSVKEERFRAFLGVPIIYRRQLLG 123 (748)
T ss_pred eEEECCcccCcccc-----------------------cCccccCccceEEEEEEEeeCCEEEE
Confidence 66678886544220 00011246889999999998754444
No 182
>PRK14083 HSP90 family protein; Provisional
Probab=88.48 E-value=0.41 Score=58.97 Aligned_cols=76 Identities=22% Similarity=0.378 Sum_probs=48.9
Q ss_pred EEecHHHHHHHHHHHHHHHhhcCCC-------CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCC-
Q 037299 986 VYGDQARIQQVLADFLLNMVRYSPS-------AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHS- 1057 (1111)
Q Consensus 986 v~~D~~~L~qVl~nLl~NAik~t~~-------~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFep- 1057 (1111)
+|.|+ .-.+.||+.||.++... ..+.|.|.+. ..+ .-.|+|.|||+||+.+.+.+.|..
T Consensus 20 LYs~~---~iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~-d~~---------~~~l~I~DnGiGmt~eel~~~l~~i 86 (601)
T PRK14083 20 LYSSP---RVYVRELLQNAVDAITARRALDPTAPGRIRIELT-DAG---------GGTLIVEDNGIGLTEEEVHEFLATI 86 (601)
T ss_pred hcCCc---HHHHHHHHHhHHHHHHhhhccCCCCCceEEEEEc-cCC---------CcEEEEEeCCCCCCHHHHHHHHhhh
Confidence 45554 25779999999988432 1246666653 222 336889999999999998876522
Q ss_pred -------CC-------CCCCccchHHHHHHH
Q 037299 1058 -------SR-------WMTQEGLGLSMCRKI 1074 (1111)
Q Consensus 1058 -------f~-------~~~G~GLGL~i~r~i 1074 (1111)
+. ..+.-|+|.+-|-.+
T Consensus 87 g~S~k~~~~~~~~~~~~IG~FGIGf~S~F~v 117 (601)
T PRK14083 87 GRSSKRDENLGFARNDFLGQFGIGLLSCFLV 117 (601)
T ss_pred ccchhhhhhhcccccccccccccceEEEEEe
Confidence 10 113458888877554
No 183
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=88.16 E-value=0.94 Score=60.31 Aligned_cols=92 Identities=12% Similarity=0.274 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHhhcCC-----CCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhh--h------ccCC-
Q 037299 992 RIQQVLADFLLNMVRYSP-----SAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQ--D------MFHS- 1057 (1111)
Q Consensus 992 ~L~qVl~nLl~NAik~t~-----~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~--~------iFep- 1057 (1111)
-|..+|.++|.||++-.. .....|.|++....+ .|+|.|||.|||-+..+ . +|..
T Consensus 57 GL~ki~dEIldNAvDe~~r~~~~g~~~~I~V~i~~d~g-----------~IsV~dnGrGIPv~~h~~~~~~~pElIft~L 125 (1388)
T PTZ00108 57 GLYKIFDEILVNAADNKARDKGGHRMTYIKVTIDEENG-----------EISVYNDGEGIPVQIHKEHKIYVPEMIFGHL 125 (1388)
T ss_pred hhhhhHHHHhhhhhhhhcccCCCCCccEEEEEEeccCC-----------eEEEEecCCcccCCCCCCCCCccceEEEEEe
Confidence 577888889999988533 113567777654322 48999999999987653 2 3322
Q ss_pred -----C----CC-CCC-ccchHHHHHHHHHHcCCEEEEEecCC--ceEEEEEEE
Q 037299 1058 -----S----RW-MTQ-EGLGLSMCRKILKLMNGEVQYIRESE--RCYFLIIFE 1098 (1111)
Q Consensus 1058 -----f----~~-~~G-~GLGL~i~r~iVe~~gG~I~v~s~~g--gstF~~~L~ 1098 (1111)
| ++ ++| .|.|..+|-- +-=.+.++...+ |-.|..++.
T Consensus 126 ~aGgkfdd~~yKvSGGlhGVGasvvNa----lS~~f~Vev~r~~~gk~y~q~f~ 175 (1388)
T PTZ00108 126 LTSSNYDDTEKRVTGGRNGFGAKLTNI----FSTKFTVECVDSKSGKKFKMTWT 175 (1388)
T ss_pred eccccCCCCceeeecccccCCcccccc----ccceEEEEEEECCCCCEEEEEec
Confidence 2 11 223 3999988844 444444444333 444454443
No 184
>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=87.94 E-value=1.3 Score=30.49 Aligned_cols=35 Identities=23% Similarity=0.380 Sum_probs=31.2
Q ss_pred ccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechh
Q 037299 687 ENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTD 721 (1111)
Q Consensus 687 ~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITe 721 (1111)
..+|..+|+.....++.+.+|.+.+++++.+|||+
T Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~ 42 (43)
T smart00086 8 RKDGSYIWVLVSASPIRDEDGEVEGILGVVRDITE 42 (43)
T ss_pred ecCCCEEEEEEEeEEEECCCCCEEEEEEEEEeccC
Confidence 45788899999999999988999999999999986
No 185
>PLN03237 DNA topoisomerase 2; Provisional
Probab=86.36 E-value=1 Score=59.84 Aligned_cols=75 Identities=13% Similarity=0.251 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHhhcC-C-CCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhh--------ccCC----
Q 037299 992 RIQQVLADFLLNMVRYS-P-SAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQD--------MFHS---- 1057 (1111)
Q Consensus 992 ~L~qVl~nLl~NAik~t-~-~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~--------iFep---- 1057 (1111)
-|..+|.++|.||++-. . .....|.|++....+ .|+|.|||.|||-+..+. ||..
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 46788888888888864 2 113567777764433 589999999999875542 3322
Q ss_pred --C----CC-CCC-ccchHHHHHHHHHH
Q 037299 1058 --S----RW-MTQ-EGLGLSMCRKILKL 1077 (1111)
Q Consensus 1058 --f----~~-~~G-~GLGL~i~r~iVe~ 1077 (1111)
| ++ ++| .|.|.++|--+-+.
T Consensus 146 gkFdd~~yKvSGGlhGVGasvvNaLS~~ 173 (1465)
T PLN03237 146 SNYDDNEKKTTGGRNGYGAKLTNIFSTE 173 (1465)
T ss_pred ccCCCCcceeeccccccCccccccccCe
Confidence 2 11 223 39999988555443
No 186
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=85.74 E-value=1.8 Score=48.63 Aligned_cols=89 Identities=13% Similarity=0.044 Sum_probs=69.0
Q ss_pred CCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEeccccCCcE
Q 037299 613 TAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAENRKKA 692 (1111)
Q Consensus 613 ~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~ 692 (1111)
...+|....|..++|...++.+++||++.+++|+.+. ..++..|...++.+....+..|....--+++ ..+.|++
T Consensus 225 NmFmfraslDlkliF~D~rv~qltgYepqdliektLY-~~ih~~D~~~lr~~H~~ll~kGqvtTkYYR~----l~k~ggw 299 (598)
T KOG3559|consen 225 NMFMFRASLDLKLIFLDSRVHQLTGYEPQDLIEKTLY-HHIHGCDSFHLRCAHHLLLVKGQVTTKYYRF----LLKQGGW 299 (598)
T ss_pred ceEEEEeecceEEEeehhhHHHhhCCCchhhhhHHHH-HHhhhhhHHHHHHHHHHHHhccccccHHHHH----HHcCCce
Confidence 3456666789999999999999999999999999998 8888888888888777777666543333333 3568999
Q ss_pred EEEEEEeEeeccCC
Q 037299 693 VFVVVNACSSKDYT 706 (1111)
Q Consensus 693 ~~v~v~~~pi~d~~ 706 (1111)
+|+.-.+..+.+..
T Consensus 300 vwvqsyat~vHnSr 313 (598)
T KOG3559|consen 300 VWVQSYATFVHNSR 313 (598)
T ss_pred EEEEEeeEEEeccc
Confidence 99988777665543
No 187
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=85.30 E-value=0.33 Score=61.18 Aligned_cols=50 Identities=16% Similarity=0.236 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHhhcCCC-CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhh
Q 037299 991 ARIQQVLADFLLNMVRYSPS-AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQ 1052 (1111)
Q Consensus 991 ~~L~qVl~nLl~NAik~t~~-~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~ 1052 (1111)
.-|.+++.++|.||++-.-. ....|.|++... . .|+|.|||.|||-+..+
T Consensus 128 ~GLhhLv~EIlDNSVDE~laG~~~~I~V~i~~D-g-----------sItV~DnGRGIPvd~h~ 178 (903)
T PTZ00109 128 KGLHQLLFEILDNSVDEYLAGECNKITVVLHKD-G-----------SVEISDNGRGIPCDVSE 178 (903)
T ss_pred CcceEEEEEEeeccchhhccCCCcEEEEEEcCC-C-----------eEEEEeCCccccccccc
Confidence 34667788888898874332 135677776432 1 38899999999987654
No 188
>COG5381 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=84.68 E-value=2.1 Score=41.58 Aligned_cols=82 Identities=11% Similarity=0.116 Sum_probs=51.7
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhcc------CCC------
Q 037299 991 ARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMF------HSS------ 1058 (1111)
Q Consensus 991 ~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iF------epf------ 1058 (1111)
..+.-+..+|+.||+||... |.|+|+...... .+.+.|++--.+=.....+++. +|.
T Consensus 62 hsvgYl~NELiENAVKfra~--geIvieasl~s~---------~f~~kvsN~vd~~t~~~f~~ll~~it~gDP~dLlieR 130 (184)
T COG5381 62 HSVGYLANELIENAVKFRAT--GEIVIEASLYSH---------KFIFKVSNIVDLPTTIDFENLLKVITEGDPLDLLIER 130 (184)
T ss_pred hhHHHHHHHHHHhhhcccCC--CcEEEEEEeccc---------eEEEEecccCCCccHHHHHHHHHHHhcCChHHHHHHH
Confidence 34556789999999999986 899999877655 6777776654443333322211 121
Q ss_pred -------CCCCCccchHHHHHHHHHHcCCEE-EEEe
Q 037299 1059 -------RWMTQEGLGLSMCRKILKLMNGEV-QYIR 1086 (1111)
Q Consensus 1059 -------~~~~G~GLGL~i~r~iVe~~gG~I-~v~s 1086 (1111)
....|.||||.- ++...|.++ |+-.
T Consensus 131 iEanA~~~d~~gSglGLLT---lmsDYgA~faWiF~ 163 (184)
T COG5381 131 IEANALESDCEGSGLGLLT---LMSDYGAQFAWIFV 163 (184)
T ss_pred HHhhccCCCCcccccccee---hhhhhcceeEEEEe
Confidence 144578888853 345677776 4443
No 189
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=84.47 E-value=0.79 Score=56.62 Aligned_cols=47 Identities=13% Similarity=0.327 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHhhcCCC----CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhh
Q 037299 992 RIQQVLADFLLNMVRYSPS----AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELV 1051 (1111)
Q Consensus 992 ~L~qVl~nLl~NAik~t~~----~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~ 1051 (1111)
-|..++.++|.||++-.-. ....|.|.+. +. .|+|.|||.|||-+..
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 4556777888888874211 1246777765 22 4899999999999765
No 190
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=84.24 E-value=2.8 Score=49.00 Aligned_cols=95 Identities=16% Similarity=0.043 Sum_probs=78.1
Q ss_pred CCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEeccccCCcEEEEEEEeE
Q 037299 621 VHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAENRKKAVFVVVNAC 700 (1111)
Q Consensus 621 ~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~ 700 (1111)
.|+..+.+.++...++||...|+.|.+-+ +++|-+|.-.+.+...+.+++++..-+.++.. +++|.+.||..++.
T Consensus 291 lDfa~vs~Dak~k~~lgy~eaEL~~m~gY-~lvH~~D~~y~Aeah~e~iktgeSGmlvyR~q----tk~grw~wvqssar 365 (712)
T KOG3560|consen 291 LDFALVSMDAKVKATLGYCEAELHGMPGY-NLVHVEDKVYMAEAHSEGIKTGESGMLVYREQ----TKAGRWAWVQSSAR 365 (712)
T ss_pred cccceeccchhhhhhhccchhhccCCCcc-ceeehhhhhhhhHHHHHHhhcCCcceEEEEEe----ecCCcEEEeeccce
Confidence 36777788889999999999999999888 99999999888888888888888766666655 68999999998887
Q ss_pred eeccCCCCEEEEEEEEEechh
Q 037299 701 SSKDYTNNIVGVCFVGQDVTD 721 (1111)
Q Consensus 701 pi~d~~G~v~gvv~v~~DITe 721 (1111)
.++ .+|++..++..-+-.++
T Consensus 366 lly-kngkPD~vi~thr~l~D 385 (712)
T KOG3560|consen 366 LLY-KNGKPDLVIDTHRGLGD 385 (712)
T ss_pred eee-ecCCCCEEEecCCCccc
Confidence 765 56777777777666666
No 191
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=82.94 E-value=0.44 Score=57.29 Aligned_cols=51 Identities=8% Similarity=0.208 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHhhcCCC-CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhh
Q 037299 991 ARIQQVLADFLLNMVRYSPS-AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQD 1053 (1111)
Q Consensus 991 ~~L~qVl~nLl~NAik~t~~-~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~ 1053 (1111)
..|..++.+.+.||++=+-. ....|.|++.... .|+|.|||.|||-+..++
T Consensus 35 ~GLhHlv~EVvDNsiDEalaG~~~~I~V~l~~d~------------sisV~DnGRGIPvdiH~~ 86 (635)
T COG0187 35 RGLHHLVWEVVDNSIDEALAGYADRIDVTLHEDG------------SISVEDNGRGIPVDIHPK 86 (635)
T ss_pred CcceeeEeEeeechHhHHhhCcCcEEEEEEcCCC------------eEEEEECCCCCccccCCC
Confidence 45667777777788764222 1357887775322 388999999999998554
No 192
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=82.88 E-value=0.67 Score=57.89 Aligned_cols=97 Identities=10% Similarity=0.136 Sum_probs=69.0
Q ss_pred cCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCC-cceeeeeeecCCCCEEE
Q 037299 753 SDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQD-TEKFPFPLFDRNGKYVQ 831 (1111)
Q Consensus 753 ~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~-~~~~e~~~~~~dG~~~~ 831 (1111)
...+|.++++-.....+.||...++.|+.. ....|+++.......+........ ....-++++.++|.+.+
T Consensus 378 ~~~~g~~~~~dqr~~~i~~~~~~~~~g~ss--------~~s~h~~d~~~~~~s~~~~~~~s~~~~~~~yr~~~~n~~~~~ 449 (803)
T KOG3561|consen 378 SSSDGSFTFVDQRASAILGYQPQELLGRSS--------YESSHPADSSPLSESLKQVQALSEQRSTLLYRFRSKNGSSIP 449 (803)
T ss_pred cCcCCceeccccccccccccCchhhcCccc--------ccccCccccchhhchHHHHHHhcccccccccccccCCCCccc
Confidence 346788888888889999999999999864 445566666666666655444332 44666788889999999
Q ss_pred EEEEEeeeecCC-CCEEEEEeeeeccc
Q 037299 832 ALLTANKRVNME-GQIVGAFCFLQIAS 857 (1111)
Q Consensus 832 v~~~~~pi~d~~-G~v~g~v~~~~DIT 857 (1111)
....+....+.. .++.+++|....+.
T Consensus 450 ~~~~~~~~~n~~s~~~~~~~~~ns~~~ 476 (803)
T KOG3561|consen 450 NKSSAYLFSNPGSDEVEYIVCTNSNVP 476 (803)
T ss_pred cccccccccCCCccccceeeecccccc
Confidence 888877776554 45666667666655
No 193
>PTZ00130 heat shock protein 90; Provisional
Probab=82.87 E-value=1.1 Score=56.41 Aligned_cols=48 Identities=19% Similarity=0.255 Sum_probs=30.1
Q ss_pred HHHHHHHHhhcCC-------------CCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhh
Q 037299 997 LADFLLNMVRYSP-------------SAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQD 1053 (1111)
Q Consensus 997 l~nLl~NAik~t~-------------~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~ 1053 (1111)
|.+||+||.++.. ..+..+.|.+....+ .-.|+|+|||+||..+++..
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 4788888887632 001244455444322 12578889999999988654
No 194
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=81.65 E-value=2.7 Score=47.23 Aligned_cols=45 Identities=18% Similarity=0.216 Sum_probs=40.5
Q ss_pred HHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCCccccccccc
Q 037299 735 DYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWSRGDIIGKML 782 (1111)
Q Consensus 735 ~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l 782 (1111)
.+.++++++++ +++.+|..|.+..+|+|++++||.+.+++.|.+.
T Consensus 81 ~L~aLL~al~~---pVlsvd~kg~v~~aNpAa~~l~~~~~~~~~g~~~ 125 (511)
T COG3283 81 ALSALLEALPE---PVLSVDMKGKVDMANPAACQLFGRKEDRLRGHTA 125 (511)
T ss_pred HHHHHHHhCCC---ceEEecccCceeecCHHHHHHhCCChhhhcCccH
Confidence 46677777766 9999999999999999999999999999999876
No 195
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=80.01 E-value=10 Score=37.39 Aligned_cols=86 Identities=10% Similarity=-0.018 Sum_probs=69.4
Q ss_pred ccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEeccccCCcEEEEEEEeEee
Q 037299 623 GCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAENRKKAVFVVVNACSS 702 (1111)
Q Consensus 623 G~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~~~v~v~~~pi 702 (1111)
-++..+-.+.++++|.. +.|+++. +++.++....+...++.+.....+........ ..+|....++.-..|+
T Consensus 51 ~r~RLaGt~i~~~~G~d---~tG~~~~-el~~~~~~~~~~~~~~~v~~~~~p~~~~~~~~----~~~g~~~~~e~l~LPL 122 (137)
T PF07310_consen 51 FRYRLAGTRIVELFGRD---LTGRRLS-ELFPPEDRERVRRAYRAVVERPAPVRARGRAE----DADGRYLEYERLLLPL 122 (137)
T ss_pred eEEEEecHHHHHHhCCC---CCCCCHH-HhcChHhHHHHHHHHHHHHcCCceEEEEEEEe----cCCCCeeEEEEEEccc
Confidence 44557889999999974 5599988 88999999999999999998776644444433 5678889999999999
Q ss_pred ccCCCCEEEEEEEE
Q 037299 703 KDYTNNIVGVCFVG 716 (1111)
Q Consensus 703 ~d~~G~v~gvv~v~ 716 (1111)
.+.+|.+..++|+.
T Consensus 123 ~~~~~~v~rilG~~ 136 (137)
T PF07310_consen 123 RSDGGTVDRILGAL 136 (137)
T ss_pred CCCCCCccEEEEec
Confidence 99999998888764
No 196
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=78.66 E-value=16 Score=43.96 Aligned_cols=102 Identities=14% Similarity=0.221 Sum_probs=62.2
Q ss_pred HHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEE
Q 037299 600 SVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEI 679 (1111)
Q Consensus 600 ~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~ 679 (1111)
+.+.-++.++.++|.||+++|.++.+.|+||-+..+|+-. .+|+. ..+...+.+.......+...+
T Consensus 72 ~~~~~~~~al~nmPiGii~~~e~~~veW~Npf~~~if~~~---~~~~~---------~~~~~~~il~~~~~~~~~~~~-- 137 (655)
T COG3887 72 QAEKSLEEALTNMPIGIILFNETNKVEWVNPFASKIFNKN---EIGES---------LSELIPEILKQLARNDEKQYI-- 137 (655)
T ss_pred HHHHHHHHHHHhCCceEEEEcCCCceEEecHHHHHhcChh---hhhhh---------HHHHhHHHHHHHhcCCcceEE--
Confidence 3445577899999999999999999999999999998632 22222 223334444444433332221
Q ss_pred EEEEeccccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhH
Q 037299 680 KLRTFGAENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHI 732 (1111)
Q Consensus 680 ~l~~~~~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~s 732 (1111)
.+. +..+. + ..+.+. -+..+-|+|++.+.++++..+
T Consensus 138 ~i~--------e~~y~-~----~~~~~~----~liYf~DvT~~~~~~~~~~~~ 173 (655)
T COG3887 138 KIN--------EKKYD-V----YFDSDK----RLIYFFDVTEEEAIEEEYENS 173 (655)
T ss_pred EEc--------ceEEE-E----EEecCC----CEEEEEeccHHHHHHHHHhcc
Confidence 211 11111 1 123333 345678999999998886544
No 197
>PLN03128 DNA topoisomerase 2; Provisional
Probab=77.04 E-value=3.2 Score=54.83 Aligned_cols=50 Identities=12% Similarity=0.314 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHhhcC-C-CCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhh
Q 037299 992 RIQQVLADFLLNMVRYS-P-SAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQ 1052 (1111)
Q Consensus 992 ~L~qVl~nLl~NAik~t-~-~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~ 1052 (1111)
-|..+|.++|.||++-. . .....|.|++....+ .|+|.|||.|||-+..+
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 57789999999999854 2 223567777765333 58999999999987543
No 198
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=75.66 E-value=2.4e+02 Score=36.02 Aligned_cols=37 Identities=14% Similarity=0.267 Sum_probs=32.9
Q ss_pred CCCHHHHHHHHHHHHHHhhCCCeEEEEeecCCCCcEEE
Q 037299 232 GGDIKLLCDTVVESVRQLTGYDRVMVYRFHEDEHGEVV 269 (1111)
Q Consensus 232 ~~~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~G~Vv 269 (1111)
..|++++++.+-..++++.-+|||-|.-+|+.. +.|.
T Consensus 21 ~~~~~~l~~~l~~~~~~~~~ad~~~i~l~d~~~-~~~~ 57 (686)
T PRK15429 21 QPDLASLCEALSQLVKRSALADNAAIVLWQAQT-QRAS 57 (686)
T ss_pred CCCHHHHHHHHHHHHHhhcccceEEEEEEcCCC-Ceee
Confidence 459999999999999999999999999999866 5554
No 199
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=74.80 E-value=74 Score=41.25 Aligned_cols=45 Identities=9% Similarity=0.035 Sum_probs=38.1
Q ss_pred HHHHHHHHHhcCCcEEEEc-CCccEEeecHHHHHHcCCChhhhcCCccc
Q 037299 602 AREMVRLIETATAPIFAVD-VHGCVNGWNAKVAELTGLSVEEAMGKSLV 649 (1111)
Q Consensus 602 ~~~l~~lie~~~~~I~~~D-~dG~I~~~N~a~~~l~G~~~eeliG~~~~ 649 (1111)
.+--..++..+|.|++++| .+|.|.|.|+.+.+++| .+ ++|+++.
T Consensus 101 ~~~~~~~l~~~p~gi~~~~~~~~~i~W~N~~~~~~~~--~~-~~g~~i~ 146 (838)
T PRK14538 101 SQIGEEVLNELPIGIVLIDISSKEIQWLNPYANFILK--NP-EINTPLA 146 (838)
T ss_pred hHHHHHHHHhCCceEEEEeCCCCEEEEECHHHHHHhC--cc-ccCCcHH
Confidence 3445678999999999999 69999999999999988 22 7899887
No 200
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=74.68 E-value=15 Score=30.88 Aligned_cols=48 Identities=15% Similarity=0.087 Sum_probs=35.8
Q ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 037299 878 LKELAYICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKII 929 (1111)
Q Consensus 878 ~~~La~isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI 929 (1111)
...+....||+.|-|+.|.|++++=+ .++..+|+..+....+....++
T Consensus 13 ~~~lR~~RHD~~NhLqvI~gllqlg~----~~~a~eYi~~~~~~~~~~s~l~ 60 (62)
T PF14689_consen 13 IDSLRAQRHDFLNHLQVIYGLLQLGK----YEEAKEYIKELSKDLQQESELL 60 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTT-----HHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHCCC----HHHHHHHHHHHHHHHHHHHHHH
Confidence 34466779999999999999988743 4567788888777776666554
No 201
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=73.25 E-value=4.7 Score=48.77 Aligned_cols=54 Identities=13% Similarity=0.250 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCC
Q 037299 991 ARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSS 1058 (1111)
Q Consensus 991 ~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf 1058 (1111)
..|.|++.+|+.|++++... .|.|.+.. . .+.+.|.|+|.|+..+.+..+-+++
T Consensus 20 ~sla~~VeElv~NSiDA~At---~V~v~V~~--~---------t~sv~ViDdG~G~~rdDl~~lg~ry 73 (1142)
T KOG1977|consen 20 SSLAQCVEELVLNSIDAEAT---CVAVRVNM--E---------TFSVQVIDDGFGMGRDDLEKLGNRY 73 (1142)
T ss_pred HHHHHHHHHHHhhccccCce---EEEEEecC--c---------eeEEEEEecCCCccHHHHHHHHhhh
Confidence 45889999999999988663 45554432 3 6789999999999999999988774
No 202
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=69.48 E-value=4.3 Score=49.42 Aligned_cols=52 Identities=10% Similarity=0.186 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCC
Q 037299 993 IQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHS 1057 (1111)
Q Consensus 993 L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFep 1057 (1111)
+.-++.+|+.|++++.. .+|.|.+...+ .=.|.|+|||.||++...+-|-..
T Consensus 21 l~sAVKELvENSiDAGA---T~I~I~~kdyG----------~d~IEV~DNG~GI~~~n~~~l~lk 72 (672)
T KOG1978|consen 21 LVSAVKELVENSIDAGA---TAIDIKVKDYG----------SDSIEVSDNGSGISATDFEGLALK 72 (672)
T ss_pred HHHHHHHHHhcCcccCC---ceeeEecCCCC----------cceEEEecCCCCCCccchhhhhhh
Confidence 44788999999999876 47888764332 124888899999999887766544
No 203
>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=64.21 E-value=26 Score=33.68 Aligned_cols=43 Identities=7% Similarity=0.110 Sum_probs=35.7
Q ss_pred cccCCcEEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHH
Q 037299 686 AENRKKAVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFI 730 (1111)
Q Consensus 686 ~~~dG~~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~ 730 (1111)
..++| ..+..+...++|++|+++|+.++-.|+|....+.+.|.
T Consensus 75 ~~~~G--k~lrSsT~~Ird~~g~~iG~LCIN~D~s~~~~~~~~L~ 117 (118)
T PF08348_consen 75 KTKDG--KILRSSTFFIRDENGKLIGALCINFDISALEQAQNFLD 117 (118)
T ss_pred cCCCC--CEEEEEEEEEECCCCCEEEEEEEEeccHHHHHHHHHHc
Confidence 35677 55677788899999999999999999999988876653
No 204
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=64.18 E-value=5 Score=50.48 Aligned_cols=97 Identities=10% Similarity=0.061 Sum_probs=70.9
Q ss_pred cCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEeccccCCcEEEEEEEe
Q 037299 620 DVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAENRKKAVFVVVNA 699 (1111)
Q Consensus 620 D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~~~v~v~~ 699 (1111)
..+|.++++-.++..+.||...++.|++.+ .+.|+++.......+.......+. ..........++|...|....+
T Consensus 379 ~~~g~~~~~dqr~~~i~~~~~~~~~g~ss~-~s~h~~d~~~~~~s~~~~~~~s~~---~~~~~yr~~~~n~~~~~~~~~~ 454 (803)
T KOG3561|consen 379 SSDGSFTFVDQRASAILGYQPQELLGRSSY-ESSHPADSSPLSESLKQVQALSEQ---RSTLLYRFRSKNGSSIPNKSSA 454 (803)
T ss_pred CcCCceeccccccccccccCchhhcCcccc-cccCccccchhhchHHHHHHhccc---ccccccccccCCCCcccccccc
Confidence 568888888899999999999999999998 999999988888877766654444 1222333456789998888777
Q ss_pred EeeccC-CCCEEEEEEEEEech
Q 037299 700 CSSKDY-TNNIVGVCFVGQDVT 720 (1111)
Q Consensus 700 ~pi~d~-~G~v~gvv~v~~DIT 720 (1111)
....+. ...+.+++++-.-+.
T Consensus 455 ~~~~n~~s~~~~~~~~~ns~~~ 476 (803)
T KOG3561|consen 455 YLFSNPGSDEVEYIVCTNSNVP 476 (803)
T ss_pred ccccCCCccccceeeecccccc
Confidence 666543 345556666555554
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=63.04 E-value=30 Score=34.09 Aligned_cols=86 Identities=15% Similarity=0.071 Sum_probs=70.4
Q ss_pred CccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCCEEEEEEEE
Q 037299 757 TCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGKYVQALLTA 836 (1111)
Q Consensus 757 g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~ 836 (1111)
-++..+-...++++|.+ +.|+++.+ +..++....+...+..+.....+..........+|....++.-.
T Consensus 51 ~r~RLaGt~i~~~~G~d---~tG~~~~e--------l~~~~~~~~~~~~~~~v~~~~~p~~~~~~~~~~~g~~~~~e~l~ 119 (137)
T PF07310_consen 51 FRYRLAGTRIVELFGRD---LTGRRLSE--------LFPPEDRERVRRAYRAVVERPAPVRARGRAEDADGRYLEYERLL 119 (137)
T ss_pred eEEEEecHHHHHHhCCC---CCCCCHHH--------hcChHhHHHHHHHHHHHHcCCceEEEEEEEecCCCCeeEEEEEE
Confidence 35667788888888874 55776533 33377788888999999999999888889999999999999999
Q ss_pred eeeecCCCCEEEEEeee
Q 037299 837 NKRVNMEGQIVGAFCFL 853 (1111)
Q Consensus 837 ~pi~d~~G~v~g~v~~~ 853 (1111)
-|+.+.+|.+..++|.+
T Consensus 120 LPL~~~~~~v~rilG~~ 136 (137)
T PF07310_consen 120 LPLRSDGGTVDRILGAL 136 (137)
T ss_pred cccCCCCCCccEEEEec
Confidence 99999999988887764
No 206
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=62.45 E-value=8.2 Score=46.03 Aligned_cols=75 Identities=12% Similarity=0.105 Sum_probs=51.4
Q ss_pred HHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccCCCCCCC------------
Q 037299 995 QVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFHSSRWMT------------ 1062 (1111)
Q Consensus 995 qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFepf~~~~------------ 1062 (1111)
-++-+|+.|++++... .|.|.+..++ --.+.|+|||-||-.++++-+-++|.+.+
T Consensus 30 NAlKEliENSLDA~ST---~I~V~vk~GG----------LKLlQisDnG~GI~reDl~ilCeRftTSKL~kFEDL~~lsT 96 (694)
T KOG1979|consen 30 NALKELIENSLDANST---SIDVLVKDGG----------LKLLQISDNGSGIRREDLPILCERFTTSKLTKFEDLFSLST 96 (694)
T ss_pred HHHHHHHhccccCCCc---eEEEEEecCC----------eEEEEEecCCCccchhhhHHHHHHhhhhhcchhHHHHhhhh
Confidence 5778999999988764 5666653321 23477889999999999999888873222
Q ss_pred --CccchHHHHHHHHHHcCCEEEEEec
Q 037299 1063 --QEGLGLSMCRKILKLMNGEVQYIRE 1087 (1111)
Q Consensus 1063 --G~GLGL~i~r~iVe~~gG~I~v~s~ 1087 (1111)
=.|=-|+-+ .|=.+|.|.+.
T Consensus 97 yGFRGEALASi-----ShVA~VtV~TK 118 (694)
T KOG1979|consen 97 YGFRGEALASI-----SHVAHVTVTTK 118 (694)
T ss_pred cCccHHHHhhh-----hheeEEEEEEe
Confidence 125555555 46677777664
No 207
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=61.39 E-value=1.2e+02 Score=39.34 Aligned_cols=230 Identities=12% Similarity=0.078 Sum_probs=114.5
Q ss_pred hHHHHHHHHHhHHH-------HHHHHHhCCCCCCCCccccC-CCCccccchhhhHHHhCCCccccccccccccccccccc
Q 037299 721 DQKLVMDKFIHIQG-------DYKAIVHSPNPLIPPIFASD-ENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCR 792 (1111)
Q Consensus 721 erK~ae~~L~~se~-------~l~~i~~~~~~l~~~I~v~D-~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~ 792 (1111)
+.|+.+.+|..... .-+.++.. +|.|+.++| .+|++.++|+.|.+++| .+ ++|+++.. +.
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~p~gi~~~~~~~~~i~W~N~~~~~~~~--~~-~~g~~i~~-~~----- 149 (838)
T PRK14538 82 QIKRLQNKLSLWSKLSFHVSQIGEEVLNE---LPIGIVLIDISSKEIQWLNPYANFILK--NP-EINTPLAQ-IN----- 149 (838)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHh---CCceEEEEeCCCCEEEEECHHHHHHhC--cc-ccCCcHHH-hc-----
Confidence 45677777644322 22333444 455999999 79999999999999987 22 88887632 11
Q ss_pred cCChhhHHHHHHHHHhhhCC-CCcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHHHHHHHHHHH
Q 037299 793 LKGPDALTKFMIALHNAFGG-QDTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQALTVQRQQE 871 (1111)
Q Consensus 793 l~~~~~~~~~~~~l~~~~~~-~~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~e~el~~~~e 871 (1111)
+ .+...... .......+.+ +++...+..... ..+ ..+.|+|+..+...+...
T Consensus 150 ---~--------~~~~~~~~~~~~~~~~~~~---~~~~y~~~~~~~---------~~~-ly~~D~T~~~~~~~~~~~--- 202 (838)
T PRK14538 150 ---E--------SMAQLLLTSDKIPKTIITL---KNQKFECFYKKD---------LNV-FYLFNATEKEQIKHLFLQ--- 202 (838)
T ss_pred ---h--------HhhhcccccccccceEEEE---CCEEEEEEEecc---------ceE-EEEEeccHHHHHHHHHHh---
Confidence 1 01111110 0000112222 444443333331 223 344999986444322111
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHH---HHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhc--cccccccCCcceee
Q 037299 872 KKCFARLKELAYICQEIKNPLSGV---SFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDV--DLESIEDGSLEFEK 946 (1111)
Q Consensus 872 ~~~~~r~~~La~isHEIrnPLt~I---~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dL--dlsri~~g~~~l~~ 946 (1111)
..|.-++ ..+-+.+..... .+...+...+.+ .+.+..... -+.+++.+++-+-.
T Consensus 203 -----------------~~~v~g~i~iDNyde~~~~~~~-~~~s~l~~~i~~---~l~~~~~~~~~~~r~~~~dry~~~~ 261 (838)
T PRK14538 203 -----------------KTLALAMITFDNLEESLIRYDL-SEQSQIQGEYLS---ALSDFIEPYEGYLKQLIDDRFLLLI 261 (838)
T ss_pred -----------------cCcEEEEEEeeCHHHHhcccch-HHHHHHHHHHHH---HHHHHHHhCCEEEEEecCCcEEEEE
Confidence 1222221 234444433221 122222222322 355555553 35677778877777
Q ss_pred EeecHHHHHHH---HHHHHHHHhhccCcEEEeecCCcccceEEEecHHHHHHHHHHHHHHHhhcCCCC-CceEEEE
Q 037299 947 AEFLLGSVINA---VVSQVMMLLRERNLQLIRDIPEEIKTLAVYGDQARIQQVLADFLLNMVRYSPSA-EGWVEIH 1018 (1111)
Q Consensus 947 ~~~~L~~vi~~---v~~~~~~~~~~~~i~l~~~~~~~~~~~~v~~D~~~L~qVl~nLl~NAik~t~~~-~g~I~I~ 1018 (1111)
..-.|..+.++ ++..++......++.+++.+.-. ++.. -+.+. .++..+|++-+-.. |.++.|.
T Consensus 262 ~~~~l~~~~~~kF~iLd~ir~~~~~~~~~vTLSiGig------~g~~-~~~e~-~~~A~~aldlAlgRGGDQvvvk 329 (838)
T PRK14538 262 NRQNLDKMIENKFSILDTIRNISHKYQLKVTLSMGIA------CWNL-SYDKL-ATYSQNAIELAQKRGGDQAVVN 329 (838)
T ss_pred EHHHHHHHHHhCCcHHHHHHHhhcCCCCceEEEEEEe------CCCC-CHHHH-HHHHHHHHHHHhccCCCEEEEE
Confidence 77777777776 66666666555556665554422 2221 12222 45566666654432 3466665
No 208
>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=60.92 E-value=10 Score=35.98 Aligned_cols=48 Identities=27% Similarity=0.381 Sum_probs=38.4
Q ss_pred cEEEEcC-CccEEeecHHHHHHcCCC---hhhhcCCcccccccchhhHHHHHH
Q 037299 615 PIFAVDV-HGCVNGWNAKVAELTGLS---VEEAMGKSLVHDLVYKEYEEIVDN 663 (1111)
Q Consensus 615 ~I~~~D~-dG~I~~~N~a~~~l~G~~---~eeliG~~~~~~l~~~~~~~~~~~ 663 (1111)
.++++|. +++|+.++..+.+++|.+ .++++|+++. +++.+.....+..
T Consensus 17 ~LLa~d~~~~~I~~~S~N~~~~lg~~~~~~~~llG~~l~-~ll~~~~~~~l~~ 68 (110)
T PF08446_consen 17 ALLALDPDDLRIVQASENIAELLGIPPELPEELLGRPLS-ELLGAESAERLRE 68 (110)
T ss_dssp EEEEEETTTTBEEEEETTHHHHHSS----HHHHTTCBHH-HHSCCCCHHHHHH
T ss_pred EEEEEECCCCEEEEEcCCHHHHhCCccccchhhcccCHH-HHhCHHHHHHHHH
Confidence 3567776 699999999999999999 9999999998 7777766554433
No 209
>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=56.38 E-value=9.5 Score=33.63 Aligned_cols=57 Identities=16% Similarity=0.070 Sum_probs=37.7
Q ss_pred EEEEEEEeEeeccCCCCEEEEEEEEEechhHHHHHHHHHhHHHHHHHHHhCCCCCCC-CccccCCCCccccc
Q 037299 692 AVFVVVNACSSKDYTNNIVGVCFVGQDVTDQKLVMDKFIHIQGDYKAIVHSPNPLIP-PIFASDENTCCSEW 762 (1111)
Q Consensus 692 ~~~v~v~~~pi~d~~G~v~gvv~v~~DITerK~ae~~L~~se~~l~~i~~~~~~l~~-~I~v~D~~g~ii~~ 762 (1111)
..++..-+.|+++.+|++.|++++-.++..... +++....... -+|++|.+|.++.-
T Consensus 11 ~~~vi~~s~pi~~~~g~~~Gvv~~di~l~~l~~--------------~i~~~~~~~~g~~~ivd~~G~ii~h 68 (81)
T PF02743_consen 11 GQPVITISVPIYDDDGKIIGVVGIDISLDQLSE--------------IISNIKFGNNGYAFIVDKNGTIIAH 68 (81)
T ss_dssp TEEEEEEEEEEEETTTEEEEEEEEEEEHHHHHH--------------HHTTSBBTTTBEEEEEETTSBBCE-
T ss_pred CcEEEEEEEEEECCCCCEEEEEEEEeccceeee--------------EEEeeEECCCEEEEEEECCCCEEEe
Confidence 356777889999999999999998666544322 2222222111 27788999888754
No 210
>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=56.06 E-value=48 Score=31.93 Aligned_cols=47 Identities=17% Similarity=0.174 Sum_probs=36.4
Q ss_pred CcceeeeeeecCCCCEEEEEEEEeeeecCCCCEEEEEeeeecccHHHHH
Q 037299 814 DTEKFPFPLFDRNGKYVQALLTANKRVNMEGQIVGAFCFLQIASPELQQ 862 (1111)
Q Consensus 814 ~~~~~e~~~~~~dG~~~~v~~~~~pi~d~~G~v~g~v~~~~DITer~~~ 862 (1111)
......+.-..++|+ .+..+...++|++|+++|++|+-.|+|.-.+.
T Consensus 66 ~~~~~nY~~~~~~Gk--~lrSsT~~Ird~~g~~iG~LCIN~D~s~~~~~ 112 (118)
T PF08348_consen 66 EDYIINYKTKTKDGK--ILRSSTFFIRDENGKLIGALCINFDISALEQA 112 (118)
T ss_pred CCccccccccCCCCC--EEEEEEEEEECCCCCEEEEEEEEeccHHHHHH
Confidence 344555666778884 55677788999999999999999999975433
No 211
>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=53.98 E-value=52 Score=29.46 Aligned_cols=70 Identities=10% Similarity=0.048 Sum_probs=40.7
Q ss_pred HHHHhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhhccccccccCCcceeeEeecHHHHHHHHHHHHH
Q 037299 884 ICQEIKNPLSGVSFTNSLLEATDLTEDQKQLLETSAACEKQMLKIIKDVDLESIEDGSLEFEKAEFLLGSVINAVVSQVM 963 (1111)
Q Consensus 884 isHEIrnPLt~I~~~~~LL~~~~l~e~~~~~l~~i~~~~~~l~~lI~dLdlsri~~g~~~l~~~~~~L~~vi~~v~~~~~ 963 (1111)
+.|.+||-|+.|.+.+..-.+...+. .++.+.+......|.+..+-| .......++|.++++..+..+.
T Consensus 2 L~HRvKN~lavv~ai~~~t~r~~~s~--~~~~~~~~~Rl~ALa~a~~ll---------~~~~~~~~~L~~lv~~~l~p~~ 70 (83)
T PF07536_consen 2 LNHRVKNLLAVVQAIARQTARSAASV--EEFAEAFSGRLQALARAHDLL---------SRSDWEGVSLRDLVEAELAPYG 70 (83)
T ss_pred chhHHHHHHHHHHHHHHHHcccCCCH--HHHHHHHHHHHHHHHHHHHHH---------hcCCCCCccHHHHHHHHHHhcc
Confidence 68999999999998888775533222 222233322222222222212 1123467889999998887654
Q ss_pred H
Q 037299 964 M 964 (1111)
Q Consensus 964 ~ 964 (1111)
.
T Consensus 71 ~ 71 (83)
T PF07536_consen 71 S 71 (83)
T ss_pred C
Confidence 3
No 212
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=52.64 E-value=16 Score=45.76 Aligned_cols=56 Identities=11% Similarity=0.313 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHhh-cCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhh--hccCC
Q 037299 991 ARIQQVLADFLLNMVR-YSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQ--DMFHS 1057 (1111)
Q Consensus 991 ~~L~qVl~nLl~NAik-~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~--~iFep 1057 (1111)
--|.+|+-+.+.||.+ -..+.-..|.+.+..... +++|.+||.|||-+..+ +++-|
T Consensus 52 pGl~ki~dEilvNaadk~rd~~m~~i~v~i~~e~~-----------~isv~nnGkGIPv~~H~~ek~yvp 110 (842)
T KOG0355|consen 52 PGLYKIFDEILVNAADKQRDPKMNTIKVTIDKEKN-----------EISVYNNGKGIPVTIHKVEKVYVP 110 (842)
T ss_pred CcHHHHHHHHhhcccccccCCCcceeEEEEccCCC-----------EEEEEeCCCcceeeecccccccch
Confidence 3578999999999999 223322456666655444 79999999999987653 44444
No 213
>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=52.36 E-value=2e+02 Score=36.66 Aligned_cols=51 Identities=14% Similarity=0.091 Sum_probs=38.5
Q ss_pred HHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhCCCeEEEEeecCCCCcEEEEEe
Q 037299 219 LAVRAISQLQSLPGGDIKLLCDTVVESVRQLTGYDRVMVYRFHEDEHGEVVAES 272 (1111)
Q Consensus 219 ~~~~~i~~l~~~~~~~~~~l~~~~~~~vr~~~g~DRVmiY~F~~d~~G~VvaE~ 272 (1111)
...+...+|.+ +.+.+++++.+++.+.+++++++..+|--++ ..+......
T Consensus 306 ~~l~~~~~L~~--~~~~~~l~~~~~~~l~~~l~~~~g~l~l~~~-~~~~~~~~~ 356 (679)
T TIGR02916 306 EWLRFTQTLSE--ARSSDDLGERVIRALAQLVESPGGVLWLKSG-NDGLYRPAA 356 (679)
T ss_pred HHHHHHHHHhC--CCCCccHHHHHHHHHHHHhCCCCceEEEEcC-CCCEEeeeh
Confidence 33466677777 5589999999999999999999999995554 345444443
No 214
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=46.25 E-value=34 Score=42.88 Aligned_cols=87 Identities=14% Similarity=0.144 Sum_probs=65.7
Q ss_pred EEEEc--CCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCcc---ceEEEEEEeccccCC
Q 037299 616 IFAVD--VHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDK---NVEIKLRTFGAENRK 690 (1111)
Q Consensus 616 I~~~D--~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~---~~e~~l~~~~~~~dG 690 (1111)
||.+- +.+.+..+..++..++||-+.++||+++. .++|++|+..+.+....+++.+... ...+++. ..+|
T Consensus 332 iFtT~HTptClf~hVDeaAVp~LGyLPqDLIG~sil-~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~----aqNG 406 (1114)
T KOG3753|consen 332 IFTTTHTPTCLFQHVDEAAVPLLGYLPQDLIGTSIL-AFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFC----AQNG 406 (1114)
T ss_pred eeEeccCCcceeeecchhhhhhhccCchhhhccchh-hhhcCCchHHHHHHHHHHHHhCCCCcccccceeee----ecCC
Confidence 45443 46778889999999999999999999999 9999999999999888888744322 2234444 4588
Q ss_pred cEEEEEEEeEeeccCCC
Q 037299 691 KAVFVVVNACSSKDYTN 707 (1111)
Q Consensus 691 ~~~~v~v~~~pi~d~~G 707 (1111)
.++.+......+.+.--
T Consensus 407 ~yv~ldTeWSsFVNPWS 423 (1114)
T KOG3753|consen 407 SYVRLDTEWSSFVNPWS 423 (1114)
T ss_pred cEEEEechhhhccChhh
Confidence 88888777666655443
No 215
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=44.22 E-value=4.3e+02 Score=32.56 Aligned_cols=38 Identities=11% Similarity=-0.035 Sum_probs=30.0
Q ss_pred HHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCC
Q 037299 732 IQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGW 772 (1111)
Q Consensus 732 se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~ 772 (1111)
.+.-++.++.++|- ||.++|.++++.++||-+..+|+-
T Consensus 73 ~~~~~~~al~nmPi---Gii~~~e~~~veW~Npf~~~if~~ 110 (655)
T COG3887 73 AEKSLEEALTNMPI---GIILFNETNKVEWVNPFASKIFNK 110 (655)
T ss_pred HHHHHHHHHHhCCc---eEEEEcCCCceEEecHHHHHhcCh
Confidence 34445566666654 999999999999999999999864
No 216
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=42.55 E-value=27 Score=33.34 Aligned_cols=76 Identities=20% Similarity=0.224 Sum_probs=44.0
Q ss_pred CCcEEEEcCCccEEeecHHHHHHcCCChhhhcCCcccccccchhhHHHHHHHHHHHHcCCCccceEEEEEEeccccCCcE
Q 037299 613 TAPIFAVDVHGCVNGWNAKVAELTGLSVEEAMGKSLVHDLVYKEYEEIVDNLLHHALKGEEDKNVEIKLRTFGAENRKKA 692 (1111)
Q Consensus 613 ~~~I~~~D~dG~I~~~N~a~~~l~G~~~eeliG~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~e~~l~~~~~~~dG~~ 692 (1111)
.+-|++.|.+|.+++-+ ..+.+|+++. + . + ...+++|+.. .... .|..
T Consensus 39 ~~~i~v~D~~g~~l~~s----------~~~~iG~~~~-~---~-~-------~~~aL~G~~~-----~~~~-----~~~~ 86 (116)
T PF14827_consen 39 IDYIVVTDRDGIVLAHS----------DPERIGDRYS-D---E-D-------VRKALQGKSY-----TSVS-----QGTG 86 (116)
T ss_dssp -SEEEEECTTSBECE-S----------SCCCTTSB-S-S---C-C-------HCHHCCT--E-----EEEE-----ECTT
T ss_pred CeEEEEEcCCCCEEEcC----------ChHHcCCccc-C---C-C-------hhhhhcCCce-----EEee-----ecCC
Confidence 34688899999998763 3355677665 1 1 1 2344544321 1111 2333
Q ss_pred EEEEEEeEeeccCCCCEEEEEEEEEech
Q 037299 693 VFVVVNACSSKDYTNNIVGVCFVGQDVT 720 (1111)
Q Consensus 693 ~~v~v~~~pi~d~~G~v~gvv~v~~DIT 720 (1111)
-+......|++|.+|+++|++.+...+.
T Consensus 87 ~~~~~~~~PV~d~~g~viG~V~VG~~~~ 114 (116)
T PF14827_consen 87 GPSLRAFAPVYDSDGKVIGVVSVGVSLD 114 (116)
T ss_dssp CEEEEEEEEEE-TTS-EEEEEEEEEEHH
T ss_pred ceEEEEEEeeECCCCcEEEEEEEEEEcC
Confidence 5566778899999999999999887653
No 217
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=42.33 E-value=80 Score=38.81 Aligned_cols=99 Identities=9% Similarity=0.030 Sum_probs=60.0
Q ss_pred HHHHhHHHHHHHHHhCCCCCCCCccccCCCCccccchhhhHHHhCCC----------ccccccccccccccccccccCCh
Q 037299 727 DKFIHIQGDYKAIVHSPNPLIPPIFASDENTCCSEWNTAMEKLTGWS----------RGDIIGKMLVGEVFGSCCRLKGP 796 (1111)
Q Consensus 727 ~~L~~se~~l~~i~~~~~~l~~~I~v~D~~g~ii~~N~a~~~l~G~~----------~eeliGk~l~~~v~~~~~~l~~~ 796 (1111)
.-|+..+..+..+++.+......+++.|.+|.++..+-.-....... .|..+|.+-.+.
T Consensus 67 ~LL~iA~~~L~~L~~~v~~~~~~vLLtD~~GViL~~~G~~~~~~~~rk~gl~~Ga~WSE~~~GTNgIGT----------- 135 (606)
T COG3284 67 ALLTIAQPELDRLFQAVAGSGCCVLLTDADGVILERRGDPRDDEDFRKAGLWLGAVWSEPREGTNGIGT----------- 135 (606)
T ss_pred HHHHHhHHHHHHHHHHhcCCCeEEEEEcCceeEEEeecChhhhhhhhhhccccccccccccccccchhh-----------
Confidence 33566677788888888888889999999999998765422221111 233333332111
Q ss_pred hhHHHHHHHHHhhhCCCCcceeeeeeecCC----CCEEEEEEEEeeeecCCCCEEEEEeee
Q 037299 797 DALTKFMIALHNAFGGQDTEKFPFPLFDRN----GKYVQALLTANKRVNMEGQIVGAFCFL 853 (1111)
Q Consensus 797 ~~~~~~~~~l~~~~~~~~~~~~e~~~~~~d----G~~~~v~~~~~pi~d~~G~v~g~v~~~ 853 (1111)
++..+++. ....+ -....+.+++.|++|.+|+++|++-+.
T Consensus 136 ------------cLve~~aV-----tI~~~qHF~~~~~~lsCsAaPI~D~qG~L~gVLDIS 179 (606)
T COG3284 136 ------------CLVEGEAV-----TIHGDQHFIQAHHGLSCSAAPIFDEQGELVGVLDIS 179 (606)
T ss_pred ------------hhccCcce-----EEehhhhHhhcccCceeeeeccccCCCcEEEEEEec
Confidence 11111110 01111 123567789999999999999988776
No 218
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=37.87 E-value=44 Score=35.60 Aligned_cols=38 Identities=11% Similarity=0.024 Sum_probs=34.4
Q ss_pred HHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcCCCh
Q 037299 603 REMVRLIETATAPIFAVDVHGCVNGWNAKVAELTGLSV 640 (1111)
Q Consensus 603 ~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G~~~ 640 (1111)
+.+..+++..+.|+++.+.+|.+++.|..|.++|.-..
T Consensus 19 ~~~~~~i~~~~~P~CiR~~~g~fi~~N~~F~~~f~~~~ 56 (217)
T PRK13719 19 ESLTAFIDDYSYPACIRNESGKFIFYNTLFLKEFLGQL 56 (217)
T ss_pred HHHHHHHHcCCCCeEEECCCCCeeecchHHHHHHHhcC
Confidence 46788999999999999999999999999999997543
No 219
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=36.49 E-value=19 Score=44.75 Aligned_cols=27 Identities=37% Similarity=0.603 Sum_probs=22.2
Q ss_pred HhhCCCeEEEEeecCCCCcEEEEEecCCCCCCccCCCCCCCCchHHHHH
Q 037299 248 QLTGYDRVMVYRFHEDEHGEVVAESKRPDLEPYFGLHYPATDIPQASRF 296 (1111)
Q Consensus 248 ~~~g~DRVmiY~F~~d~~G~VvaE~~~~~~~~~lg~~~pa~dip~~ar~ 296 (1111)
.|||+|||+|| ||||| |.+|--+.-|+
T Consensus 614 NLTgAnRVIIf--DPdWN--------------------PStD~QAreRa 640 (923)
T KOG0387|consen 614 NLTGANRVIIF--DPDWN--------------------PSTDNQARERA 640 (923)
T ss_pred ccccCceEEEE--CCCCC--------------------CccchHHHHHH
Confidence 58999999997 99998 77887666555
No 220
>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=35.58 E-value=42 Score=29.26 Aligned_cols=25 Identities=32% Similarity=0.591 Sum_probs=19.7
Q ss_pred EEEECCeEEEecCCCCHHHHHHHHH
Q 037299 433 ALYYQGKYYPLGVTPTETQIKDIVE 457 (1111)
Q Consensus 433 a~~~~~~~~~~g~~p~~~~i~~l~~ 457 (1111)
+++.+|++...|..|+.++++.+++
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 5688999999999999998887763
No 221
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=31.09 E-value=54 Score=38.47 Aligned_cols=17 Identities=18% Similarity=0.221 Sum_probs=13.8
Q ss_pred EEEEeeCCCCCChhhhh
Q 037299 1036 EFRMVCPGEGLPPELVQ 1052 (1111)
Q Consensus 1036 ~i~V~DnG~GIp~e~~~ 1052 (1111)
.+.|+|+|+||..+.+-
T Consensus 143 lLhi~DtGiGMT~edLi 159 (785)
T KOG0020|consen 143 LLHITDTGIGMTREDLI 159 (785)
T ss_pred eeeEecccCCccHHHHH
Confidence 57788999999987653
No 222
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=27.99 E-value=18 Score=41.06 Aligned_cols=22 Identities=41% Similarity=0.622 Sum_probs=17.5
Q ss_pred hhHHHHHHhcCcceE---EEEEEEEc
Q 037299 338 GCHAQYMANMGSIAS---LALAVIIN 360 (1111)
Q Consensus 338 p~h~~yl~nmgv~as---l~~~i~~~ 360 (1111)
|-|.||.+||-..|| ++| |++|
T Consensus 94 PGHeQYTRNMaTGASTadlAI-lLVD 118 (431)
T COG2895 94 PGHEQYTRNMATGASTADLAI-LLVD 118 (431)
T ss_pred CcHHHHhhhhhcccccccEEE-EEEe
Confidence 999999999998887 445 4455
No 223
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=27.41 E-value=92 Score=29.60 Aligned_cols=72 Identities=15% Similarity=0.183 Sum_probs=40.5
Q ss_pred CccccCCCCccccchhhhHHHhCCCccccccccccccccccccccCChhhHHHHHHHHHhhhCCCCcceeeeeeecCCCC
Q 037299 749 PIFASDENTCCSEWNTAMEKLTGWSRGDIIGKMLVGEVFGSCCRLKGPDALTKFMIALHNAFGGQDTEKFPFPLFDRNGK 828 (1111)
Q Consensus 749 ~I~v~D~~g~ii~~N~a~~~l~G~~~eeliGk~l~~~v~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~e~~~~~~dG~ 828 (1111)
-|++.|.+|+++.-+. .+.+|+++.+.- ...++.|+.... . ..|.
T Consensus 41 ~i~v~D~~g~~l~~s~----------~~~iG~~~~~~~-------------------~~~aL~G~~~~~-~-----~~~~ 85 (116)
T PF14827_consen 41 YIVVTDRDGIVLAHSD----------PERIGDRYSDED-------------------VRKALQGKSYTS-V-----SQGT 85 (116)
T ss_dssp EEEEECTTSBECE-SS----------CCCTTSB-SSCC-------------------HCHHCCT--EEE-E-----EECT
T ss_pred EEEEEcCCCCEEEcCC----------hHHcCCcccCCC-------------------hhhhhcCCceEE-e-----eecC
Confidence 5889999998776542 334666542110 223454432211 1 2233
Q ss_pred EEEEEEEEeeeecCCCCEEEEEeeeec
Q 037299 829 YVQALLTANKRVNMEGQIVGAFCFLQI 855 (1111)
Q Consensus 829 ~~~v~~~~~pi~d~~G~v~g~v~~~~D 855 (1111)
..+......|++|.+|+++|++.+-..
T Consensus 86 ~~~~~~~~~PV~d~~g~viG~V~VG~~ 112 (116)
T PF14827_consen 86 GGPSLRAFAPVYDSDGKVIGVVSVGVS 112 (116)
T ss_dssp TCEEEEEEEEEE-TTS-EEEEEEEEEE
T ss_pred CceEEEEEEeeECCCCcEEEEEEEEEE
Confidence 355667788999999999999987543
No 224
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=25.83 E-value=5e+02 Score=31.31 Aligned_cols=91 Identities=16% Similarity=0.198 Sum_probs=54.9
Q ss_pred HHHHHHHHHHhhc---CCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhhhccC--CCCCC--------
Q 037299 995 QVLADFLLNMVRY---SPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQDMFH--SSRWM-------- 1061 (1111)
Q Consensus 995 qVl~nLl~NAik~---t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~~iFe--pf~~~-------- 1061 (1111)
.++.+++.||+-| +.. ++.|.|.+-. + +|.|+.+|.=.+.=..+.++. ++.+.
T Consensus 273 ~alREai~NAv~HRDYs~~-~~~v~I~iyd--D-----------RieI~NPGgl~~gi~~~~l~~~~s~~RNp~LA~~l~ 338 (467)
T COG2865 273 EALREAIINAVIHRDYSIR-GRNVHIEIYD--D-----------RIEITNPGGLPPGITPEDLLKGRSKSRNPVLAKVLR 338 (467)
T ss_pred HHHHHHHHHHHHhhccccC-CCceEEEEEC--C-----------eEEEECCCCCCCCCChhHcccCCCcccCHHHHHHHH
Confidence 6889999999976 444 3477777642 3 466668784222222333333 22111
Q ss_pred -----CCccchHHHHHHHHHHcCCEE-EEEecCCceEEEEEEEeeC
Q 037299 1062 -----TQEGLGLSMCRKILKLMNGEV-QYIRESERCYFLIIFELPM 1101 (1111)
Q Consensus 1062 -----~G~GLGL~i~r~iVe~~gG~I-~v~s~~ggstF~~~L~LP~ 1101 (1111)
..-|-|+--++.+++.||..- .+. .+.+.|+|++..+.
T Consensus 339 ~~~liE~~GSGi~rm~~~~~~~gl~~p~f~--~~~~~~~~~~~~~~ 382 (467)
T COG2865 339 DMGLIEERGSGIRRMFDLMEENGLPKPEFE--EDNDYVTVILHGKG 382 (467)
T ss_pred HhhhHHHhCccHHHHHHHHHHcCCCCceee--ccCCeEEEEEeccc
Confidence 134888999999999888753 443 34455667666554
No 225
>COG0813 DeoD Purine-nucleoside phosphorylase [Nucleotide transport and metabolism]
Probab=25.00 E-value=69 Score=34.04 Aligned_cols=53 Identities=23% Similarity=0.313 Sum_probs=40.3
Q ss_pred eEEEecHHHHHHHHHHHHHHHhhcCCCCCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCCh
Q 037299 984 LAVYGDQARIQQVLADFLLNMVRYSPSAEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPP 1048 (1111)
Q Consensus 984 ~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~ 1048 (1111)
+.+.|||.|-.-+-.+++.|+++++.. .+-.-.+-+..++ .++|.-.|.|||.
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 467799999999999999999999876 4444444334333 5777788999986
No 226
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=23.86 E-value=50 Score=31.71 Aligned_cols=27 Identities=22% Similarity=0.439 Sum_probs=21.2
Q ss_pred CCccceEEEEeCCCceEEeeccchhhh
Q 037299 96 IQPFGCTIAVDEATFRVIAYSENAGEM 122 (1111)
Q Consensus 96 iQp~G~ll~~~~~~~~i~~~S~N~~~~ 122 (1111)
|||||+.+.++..+-=.+|+||=+..|
T Consensus 16 I~~yGAFV~l~~g~tGLVHISEIa~~f 42 (129)
T COG1098 16 ITPYGAFVELEGGKTGLVHISEIADGF 42 (129)
T ss_pred eEecceEEEecCCCcceEEehHhhhhh
Confidence 899999999998555588999744443
No 227
>PF07730 HisKA_3: Histidine kinase; InterPro: IPR011712 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 represetns the dimerisation and phosphoacceptor domain of a sub-family of histidine kinases. It shares sequence similarity with IPR003661 from INTERPRO and IPR011102 from INTERPRO.; GO: 0000155 two-component sensor activity, 0046983 protein dimerization activity, 0000160 two-component signal transduction system (phosphorelay), 0016021 integral to membrane; PDB: 3GIE_B 3GIG_A 3EHJ_B 3EHH_B 3GIF_B 3EHF_B 3EHG_A.
Probab=23.41 E-value=4.3e+02 Score=21.91 Aligned_cols=44 Identities=14% Similarity=0.139 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHH
Q 037299 877 RLKELAYICQEIKNPLSGVSFTNSLLEATD--LTEDQKQLLETSAA 920 (1111)
Q Consensus 877 r~~~La~isHEIrnPLt~I~~~~~LL~~~~--l~e~~~~~l~~i~~ 920 (1111)
|.+....++..+-+.|++|...++.+.... .+++....+..+.+
T Consensus 2 R~rIAreLHD~v~q~L~~i~~~l~~~~~~~~~~~~~~~~~l~~i~~ 47 (68)
T PF07730_consen 2 RRRIARELHDGVGQSLTAIKMQLEALRRRLADDPEEAREELEEIRE 47 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHH
Confidence 445567788999999999998888877532 22344444444433
No 228
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=23.34 E-value=86 Score=38.17 Aligned_cols=49 Identities=16% Similarity=0.149 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhhc---------CCC--CCceEEEEEEEccccCCCCceeEEEEEEEeeCCCCCChhhhh
Q 037299 995 QVLADFLLNMVRY---------SPS--AEGWVEIHVRPTLKQSSEGQTIVHNEFRMVCPGEGLPPELVQ 1052 (1111)
Q Consensus 995 qVl~nLl~NAik~---------t~~--~~g~I~I~v~~~~~~~~~~~~~~~v~i~V~DnG~GIp~e~~~ 1052 (1111)
.-+.+|++||-++ +.+ .+....|.+.+..+ .-.++|.|+|+||..+++-
T Consensus 60 vFlRELISNaSDAldKiRy~~lt~~~~~~~~l~I~i~~nk~---------~~tlti~DtGIGMTk~dLv 119 (656)
T KOG0019|consen 60 VFLRELISNASDALEKLRYLELKGDEKALPELEIRIITNKD---------KRTITIQDTGIGMTKEDLV 119 (656)
T ss_pred HHHHhhhccccchHHHHHHHhhcCccccccceeEEeccCCC---------cceEEEEecCCCcCHHHHH
Confidence 3456777777543 111 12456666655544 4468889999999988754
No 229
>PF10114 PocR: Sensory domain found in PocR; InterPro: IPR018771 This entry is thought to act as a sensory domain in histidine kinases catalysing the reaction: ATP + protein L-histidine = ADP + protein N- phospho-L-histidine.
Probab=21.44 E-value=5.2e+02 Score=26.16 Aligned_cols=40 Identities=13% Similarity=0.069 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEcCCccEEeecHHHHHHcC
Q 037299 598 LSSVAREMVRLIETATAPIFAVDVHGCVNGWNAKVAELTG 637 (1111)
Q Consensus 598 L~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~a~~~l~G 637 (1111)
++..++-+..+.+.+..++.++|.+|..+.....+..+..
T Consensus 7 ~~~lq~i~~~fs~~tgl~~~i~d~~G~~l~~~~~~~~fC~ 46 (173)
T PF10114_consen 7 LEELQEIQDSFSKATGLSIVIVDPDGNPLTQPSNFCPFCK 46 (173)
T ss_pred HHHHHHHHHHHHHHHCCcEEEEeCCCCEEeeCCCchhhhh
Confidence 3455566778889999999999999999944444444443
No 230
>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=20.37 E-value=68 Score=21.47 Aligned_cols=16 Identities=31% Similarity=0.331 Sum_probs=13.2
Q ss_pred hccCCCCCCccceEEE
Q 037299 89 KIQRGGHIQPFGCTIA 104 (1111)
Q Consensus 89 ~i~~~g~iQp~G~ll~ 104 (1111)
..|-||.||+-|+.|.
T Consensus 6 e~QgP~~~qsrgyFlf 21 (25)
T PF02070_consen 6 EFQGPGGIQSRGYFLF 21 (25)
T ss_pred hccCCcccccccEEEe
Confidence 4678999999999763
Done!